Citrus Sinensis ID: 021224

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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-------240-------250-------260-------270-------280-------290-------300-------310------
Protein Sequence
MSINIVVAMAGLEVHHSSHQQFEPMSTSCKADEIFSTPSYSHLADREFLVTEESTNHNGSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG
Secondary Structure (PSIPRED)
ccccEEcccccHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccHHHHcccEEEcccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccccEEEccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHccccHHHHccEEEEEEccccccccccccccccccccccccEEccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHcccHHHccccccccccccccccccHHHHHHHccccccccccccccHHHccccccccccHHccccEEEEEcccccEEEccccccccHccccccccccccccHHHHHHHHHHHcccccccHcccccHHHHHHHHHHcEccccccccccEccccccEEEcccccccEEccccccEEEEEEccccccEHccccccccccHHHHccccccEEEcccccHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHcccccHHHcccEEEEEEccccccccEEEEEEEEEccccccccccEccc
Coil and Loop (DISEMBL)
MSINIVVAMAGLevhhsshqqfepmstsckadeifstpsyshladreflvteestnhngsteLLRKGFMEYGCQHYrrrcrirapccneifdcrhchneamnninvdqklrhdiprheVNQVICSLcgteqkqvcvncgvcmgeyfcescklfdddtskkqyhcdgcgicriggcdnffhcnkcrccysmllknshpcvegamhhdcpvccEYLFetrqdvivlpcghtIHKNCLKEMRehhqyacpicsksvcdMSKVWEKYDREiaatpmpeaylNKKVWILcndcgktsnVQFHVLAqkcpncksyntrltrg
Flexible Loop (DISEMBL)
MSINIVVAMAGLEVHHSSHQQFEPMSTSCKADEIFSTPSYSHLADREFLVTeestnhngstellrkgFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVlaqkcpncksyntrltrg
Low Complexity Region (SEG)
MSINIVVAMAGLEVHHSSHQQFEPMSTSCKADEIFSTPSYSHLADREFLVTEESTNHNGSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHcdgcgicriggcdNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG
Disordered region (IsUnstruct)
****IVVAMAGL*****************************HLADREFLV**********TELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY*******
Disordered Region (DISOPRED)
****I****************************************************************EYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLT**
Disordered Region (DISEMBL)
MSINIVVAMAGLEVHH***********SCKADEIFSTPSYSHLADREFLVTEESTNHNGSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKS********
Disordered Region (DISPRO)
*SINIVVAMAGLEVHHSS*********************************************LRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTR****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSINIVVAMAGLEVHHSSHQQFEPMSTSCKADEIFSTPSYSHLADREFLVTEESTNHNGSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG
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	316	2.2.26 [Sep-21-2011]
Q96PM5	261	RING finger and CHY zinc	yes	no	0.743	0.900	0.449	3e-55
Q9CR50	261	RING finger and CHY zinc	yes	no	0.737	0.892	0.445	3e-54
O14099	425	Uncharacterized RING fing	yes	no	0.791	0.588	0.382	2e-46
Q9Y225	148	RING finger protein 24 OS	no	no	0.234	0.5	0.328	0.0006
Q8BGI1	148	RING finger protein 24 OS	no	no	0.234	0.5	0.328	0.0006

>sp|Q96PM5|ZN363_HUMAN RING finger and CHY zinc finger domain-containing protein 1 OS=Homo sapiens GN=RCHY1 PE=1 SV=1

 Score =  215 bits (548), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 112/249 (44%), Positives = 147/249 (59%), Gaps = 14/249 (5%)

Query: 70  EYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGT 129
           + GC+HY R C ++APCC++++ CR CH         D    H + R +V +V C  C  
Sbjct: 17  QRGCEHYDRGCLLKAPCCDKLYTCRLCH---------DNNEDHQLDRFKVKEVQCINCEK 67

Query: 130 EQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCC 187
            Q  +Q C  C    GEY+C+ C LFD D  KKQYHC+ CGICRIG  ++FFHC KC  C
Sbjct: 68  IQHAQQTCEECSTLFGEYYCDICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLC 125

Query: 188 YSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACP 247
            +M L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP
Sbjct: 126 LAMNLQGRHKCIENVSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCP 184

Query: 248 ICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCK 307
           +C  S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+
Sbjct: 185 LCMHSALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICE 244

Query: 308 SYNTRLTRG 316
           SYNT    G
Sbjct: 245 SYNTAQAGG 253

Mediates E3-dependent ubiquitination and proteasomal degradation of target proteins, including p53/TP53, HDAC1 and CDKN1B. Preferentially acts on tetrameric p53/TP53. Contributes to the regulation of CDKN1B and p53/TP53 levels, and thereby contributes to the regulation of the cell cycle progression. Increases AR transcription factor activity.
Homo sapiens (taxid: 9606)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9CR50|ZN363_MOUSE RING finger and CHY zinc finger domain-containing protein 1 OS=Mus musculus GN=Rchy1 PE=1 SV=1

 Score =  212 bits (540), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 110/247 (44%), Positives = 144/247 (58%), Gaps = 14/247 (5%)

Query: 72  GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
           GC+HY R C ++APCC++++ CR CH         D    H + R +V +V C  C   Q
Sbjct: 19  GCEHYDRACLLKAPCCDKLYTCRLCH---------DTNEDHQLDRFKVKEVQCINCEKLQ 69

Query: 132 --KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYS 189
             +Q C +C    GEY+C  C LFD D  K+QYHC+ CGICRIG  ++FFHC KC  C +
Sbjct: 70  HAQQTCEDCSTLFGEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLT 127

Query: 190 MLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
             L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C
Sbjct: 128 TNLRGKHKCIENVSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLC 186

Query: 250 SKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY 309
             S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C SY
Sbjct: 187 MHSALDMTRYWRQLDTEVAQTPMPSEYQNVTVDILCNDCNGRSTVQFHILGMKCKLCDSY 246

Query: 310 NTRLTRG 316
           NT    G
Sbjct: 247 NTAQAGG 253

Mediates E3-dependent ubiquitination and proteasomal degradation of target proteins, including p53/TP53, HDAC1 and CDKN1B. Preferentially acts on tetrameric p53/TP53. Increases AR transcription factor activity (By similarity). Contributes to the regulation of CDKN1B and p53/TP53 levels, and thereby contributes to the regulation of the cell cycle progression.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O14099|YERG_SCHPO Uncharacterized RING finger protein C2F3.16 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC2F3.16 PE=4 SV=1

 Score =  186 bits (473), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 103/269 (38%), Positives = 149/269 (55%), Gaps = 19/269 (7%)

Query: 52  EESTNHNGSTELLRKGFME-----YGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINV 106
           +ES  +  S+  L K + +      GC HY R C+++   C+E + CRHCHN+A +    
Sbjct: 116 KESDENQLSSSDLEKTYYDKEQEILGCSHYMRNCKVQCFDCHEWYTCRHCHNDACD---- 171

Query: 107 DQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHC 164
                H + R  V  ++C +C   Q   Q C  C  CMG Y+C  CKL+DDD +K  YHC
Sbjct: 172 -----HVLERPAVENMLCMICSKVQPAAQYCKYCKNCMGRYYCNKCKLWDDDPNKSSYHC 226

Query: 165 DGCGICRIGGC--DNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVI 222
           D CGICRIG    D++FHC  C  C  + + N+H C+E +   +CP+C EY+F +R+ VI
Sbjct: 227 DDCGICRIGRGLGDDYFHCKTCGLCLPISVFNTHRCIERSTDCNCPICGEYMFNSRERVI 286

Query: 223 VLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVW 282
            L C H +H+ C +E    + Y CP C K++ +++ ++   D EI   PMP  Y      
Sbjct: 287 FLSCSHPLHQRCHEEYIRTN-YRCPTCYKTIINVNSLFRILDMEIERQPMPYPYNTWIST 345

Query: 283 ILCNDCGKTSNVQFHVLAQKCPNCKSYNT 311
           I CNDC    + ++H L  KC +C SYNT
Sbjct: 346 IRCNDCNSRCDTKYHFLGHKCNSCHSYNT 374

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

>sp|Q9Y225|RNF24_HUMAN RING finger protein 24 OS=Homo sapiens GN=RNF24 PE=1 SV=1

 Score = 45.1 bits (105), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKV 259
           E  +H  C VC E  F+ R ++ + PC H  H+ CL +  E  +  CP+C+  V  ++++
Sbjct: 71  ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLIKWLEVRK-VCPLCNMPVLQLAQL 128

Query: 260 WEKYDREIAATPMPEA 275
             K DR     P+P A
Sbjct: 129 HSKQDRGPPQGPLPGA 144

May play a role in TRPCs intracellular trafficking.

Homo sapiens (taxid: 9606)

>sp|Q8BGI1|RNF24_MOUSE RING finger protein 24 OS=Mus musculus GN=Rnf24 PE=2 SV=1

 Score = 45.1 bits (105), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKV 259
           E  +H  C VC E  F+ R ++ + PC H  H+ CL +  E  +  CP+C+  V  ++++
Sbjct: 71  ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLVKWLEVRK-VCPLCNMPVLQLAQL 128

Query: 260 WEKYDREIAATPMPEA 275
             K DR     P+P A
Sbjct: 129 HSKQDRGPPQEPLPGA 144

May play a role in TRPCs intracellular trafficking.

Mus musculus (taxid: 10090)

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	316
224092372	300	predicted protein [Populus trichocarpa]	0.857	0.903	0.806	1e-128
225430120	315	PREDICTED: RING finger and CHY zinc fing	0.974	0.977	0.720	1e-126
356563813	308	PREDICTED: RING finger and CHY zinc fing	0.968	0.993	0.717	1e-125
356552549	308	PREDICTED: RING finger and CHY zinc fing	0.968	0.993	0.727	1e-125
296081945	294	unnamed protein product [Vitis vinifera]	0.863	0.928	0.790	1e-124
356515508	309	PREDICTED: RING finger and CHY zinc fing	0.958	0.980	0.700	1e-122
356552551	323	PREDICTED: RING finger and CHY zinc fing	0.968	0.947	0.693	1e-122
449437104	307	PREDICTED: RING finger and CHY zinc fing	0.933	0.960	0.707	1e-122
255635979	309	unknown [Glycine max]	0.958	0.980	0.697	1e-121
297808579	308	zinc finger family protein [Arabidopsis	0.860	0.883	0.755	1e-119

>gi|224092372|ref|XP_002309580.1| predicted protein [Populus trichocarpa] gi|118485648|gb|ABK94674.1| unknown [Populus trichocarpa] gi|222855556|gb|EEE93103.1| predicted protein [Populus trichocarpa]

 Score =  462 bits (1189), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 221/274 (80%), Positives = 245/274 (89%), Gaps = 3/274 (1%)

Query: 45  DREFLVTEESTNHNGSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNI 104
           + +F+ +EES N   + ++L KG MEYGC HYRRRCRIRAPCCNE+FDCRHCHNEA NNI
Sbjct: 28  NEDFIFSEESMNVE-TPQILDKGLMEYGCLHYRRRCRIRAPCCNEVFDCRHCHNEAKNNI 86

Query: 105 NVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQY 162
           NVDQK RHD+PRHEV QVICSLCGTEQ  +QVC+NCGVCMG+YFCE+CKLFDDDTSKKQY
Sbjct: 87  NVDQKHRHDMPRHEVKQVICSLCGTEQEVQQVCINCGVCMGKYFCETCKLFDDDTSKKQY 146

Query: 163 HCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVI 222
           HCDGCGICRIGG +NFFHC KC CCYS LLKNSHPCVEGAMHHDCPVC E+LFE+R DV 
Sbjct: 147 HCDGCGICRIGGPENFFHCYKCGCCYSNLLKNSHPCVEGAMHHDCPVCFEFLFESRYDVT 206

Query: 223 VLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVW 282
           VLPCGHTIH++CLKEMR+H+QYACP+CSKSVCDMSKVWEK+D EIAATPMPE YLNK VW
Sbjct: 207 VLPCGHTIHESCLKEMRDHYQYACPLCSKSVCDMSKVWEKFDMEIAATPMPEPYLNKMVW 266

Query: 283 ILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 316
           ILCNDCGK+S VQFHV+AQKC NCKSYNTR TR 
Sbjct: 267 ILCNDCGKSSEVQFHVVAQKCMNCKSYNTRQTRS 300

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430120|ref|XP_002284652.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1 [Vitis vinifera] gi|147785653|emb|CAN68688.1| hypothetical protein VITISV_029477 [Vitis vinifera]

 Score =  457 bits (1175), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 227/315 (72%), Positives = 254/315 (80%), Gaps = 7/315 (2%)

Query: 9   MAGLEVHHSSHQQFEPMSTS---CKADEIFSTPSYSHLADREFLVTEESTNHNGSTE--L 63
           M  +  +HS  Q FE  +        +E     S +  ++ E +  +E T+H   TE  L
Sbjct: 1   MTEMMANHSDSQHFELKNLKEMIFNVNERDVVKSCAQHSNGECMEIKEPTDHVEITEKEL 60

Query: 64  LRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVI 123
           L KG+M+YGC HYRRRCRIRAPCCNEIFDCRHCHNEA N+I VD+  RHDIPRH+V QVI
Sbjct: 61  LEKGYMQYGCPHYRRRCRIRAPCCNEIFDCRHCHNEAKNSIKVDKAQRHDIPRHQVQQVI 120

Query: 124 CSLCGTEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHC 181
           CSLC TEQ  +QVC+NCGVCMG+YFCE+CKLFDDDTSKKQYHC+GCGICRIGG +NFFHC
Sbjct: 121 CSLCNTEQEVRQVCINCGVCMGKYFCETCKLFDDDTSKKQYHCNGCGICRIGGRENFFHC 180

Query: 182 NKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH 241
            KCRCCYS+LLKNSHPCVEGAMHHDCPVC EYLFE+  DV V+PCGHTIH+NCLKEMREH
Sbjct: 181 YKCRCCYSVLLKNSHPCVEGAMHHDCPVCFEYLFESTDDVTVMPCGHTIHQNCLKEMREH 240

Query: 242 HQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQ 301
            QYACP+CSKSVCDMSKVWEK+D EIAA PMPE Y NK VWILCNDCGKTS V FHVLAQ
Sbjct: 241 LQYACPLCSKSVCDMSKVWEKFDMEIAAIPMPEPYQNKMVWILCNDCGKTSKVHFHVLAQ 300

Query: 302 KCPNCKSYNTRLTRG 316
           KC NCKSYNTR TRG
Sbjct: 301 KCLNCKSYNTRQTRG 315

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356563813|ref|XP_003550153.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like [Glycine max]

 Score =  455 bits (1171), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 221/308 (71%), Positives = 247/308 (80%), Gaps = 2/308 (0%)

Query: 9   MAGLEVHHSSHQQFEPMSTSCKADEIFSTPSYSHLADREFLVTEESTNHNGSTELLRKGF 68
           M  + V HS   QFE    S    E    P  S++       + +ST+H    +L  +G+
Sbjct: 1   MGEVAVMHSEPLQFECNDISVNMTEKEVYPPESNVERLPGEESSQSTDHKNINDLQERGY 60

Query: 69  MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCG 128
           MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEA N+IN+DQK RHDIPRH+V QVICSLCG
Sbjct: 61  MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAKNDINIDQKHRHDIPRHQVKQVICSLCG 120

Query: 129 TEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRC 186
           TEQ  +Q C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GG +NFFHC KC C
Sbjct: 121 TEQEVQQNCINCGVCMGKYFCGTCKLFDDDISKQQYHCSGCGICRTGGSENFFHCYKCGC 180

Query: 187 CYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYAC 246
           CYS LLKNSHPCVEGAMHHDCPVC EYLFE+R DV V+PCGHTIHK+CL EMREH QY+C
Sbjct: 181 CYSTLLKNSHPCVEGAMHHDCPVCFEYLFESRNDVTVMPCGHTIHKSCLNEMREHFQYSC 240

Query: 247 PICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNC 306
           P+C KSVCDMSKVWEK+D EIAATPMPE Y NK VWILCNDCGKTS+VQFH +AQKCPNC
Sbjct: 241 PLCLKSVCDMSKVWEKFDIEIAATPMPEQYQNKMVWILCNDCGKTSHVQFHFVAQKCPNC 300

Query: 307 KSYNTRLT 314
           KSYNTR T
Sbjct: 301 KSYNTRQT 308

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552549|ref|XP_003544629.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like isoform 1 [Glycine max]

 Score =  454 bits (1168), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 224/308 (72%), Positives = 246/308 (79%), Gaps = 2/308 (0%)

Query: 9   MAGLEVHHSSHQQFEPMSTSCKADEIFSTPSYSHLADREFLVTEESTNHNGSTELLRKGF 68
           M  + V HS   QFE    +    E    P  S++       + +ST+H     L  KGF
Sbjct: 1   MGEVAVMHSEPLQFECNDITVNMTEKEVYPPESNVDHLPGEESSQSTDHKNINYLQEKGF 60

Query: 69  MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCG 128
           MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEA N+IN+D KLRHDIPRHEV QVICSLCG
Sbjct: 61  MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAKNDINIDLKLRHDIPRHEVKQVICSLCG 120

Query: 129 TEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRC 186
           TEQ  +Q C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GG +NFFHC KC C
Sbjct: 121 TEQEVQQNCINCGVCMGKYFCGTCKLFDDDISKQQYHCCGCGICRTGGSENFFHCYKCGC 180

Query: 187 CYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYAC 246
           CYS LLKNSHPCVEGAMHHDCPVC EYLFE+R DV V+PCGHTIHK+CL EMREH QYAC
Sbjct: 181 CYSTLLKNSHPCVEGAMHHDCPVCFEYLFESRNDVTVMPCGHTIHKSCLNEMREHFQYAC 240

Query: 247 PICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNC 306
           P+CSKSVCDMSKVWEK+D EIAAT MPE Y NK VWILCNDCGKTS+VQFH +AQKCPNC
Sbjct: 241 PLCSKSVCDMSKVWEKFDLEIAATRMPEQYQNKMVWILCNDCGKTSHVQFHFVAQKCPNC 300

Query: 307 KSYNTRLT 314
           KSYNTR T
Sbjct: 301 KSYNTRQT 308

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081945|emb|CBI20950.3| unnamed protein product [Vitis vinifera]

 Score =  452 bits (1162), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 219/277 (79%), Positives = 241/277 (87%), Gaps = 4/277 (1%)

Query: 44  ADREFLVTEESTNHNGSTE--LLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAM 101
           ++ E +  +E T+H   TE  LL KG+M+YGC HYRRRCRIRAPCCNEIFDCRHCHNEA 
Sbjct: 18  SNGECMEIKEPTDHVEITEKELLEKGYMQYGCPHYRRRCRIRAPCCNEIFDCRHCHNEAK 77

Query: 102 NNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSK 159
           N+I VD+  RHDIPRH+V QVICSLC TEQ  +QVC+NCGVCMG+YFCE+CKLFDDDTSK
Sbjct: 78  NSIKVDKAQRHDIPRHQVQQVICSLCNTEQEVRQVCINCGVCMGKYFCETCKLFDDDTSK 137

Query: 160 KQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQ 219
           KQYHC+GCGICRIGG +NFFHC KCRCCYS+LLKNSHPCVEGAMHHDCPVC EYLFE+  
Sbjct: 138 KQYHCNGCGICRIGGRENFFHCYKCRCCYSVLLKNSHPCVEGAMHHDCPVCFEYLFESTD 197

Query: 220 DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNK 279
           DV V+PCGHTIH+NCLKEMREH QYACP+CSKSVCDMSKVWEK+D EIAA PMPE Y NK
Sbjct: 198 DVTVMPCGHTIHQNCLKEMREHLQYACPLCSKSVCDMSKVWEKFDMEIAAIPMPEPYQNK 257

Query: 280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 316
            VWILCNDCGKTS V FHVLAQKC NCKSYNTR TRG
Sbjct: 258 MVWILCNDCGKTSKVHFHVLAQKCLNCKSYNTRQTRG 294

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515508|ref|XP_003526442.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like [Glycine max]

 Score =  445 bits (1144), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 220/314 (70%), Positives = 251/314 (79%), Gaps = 11/314 (3%)

Query: 9   MAGLEVHHSSHQQFEPMSTSCK-ADEIFSTPSYSHLADREFLVTEEST---NHNGSTELL 64
           M  + V HS     EP+   C     I     Y+ L++ E ++ EES+   N     +L 
Sbjct: 1   MGEVAVMHS-----EPLQFDCNDMKHITEKDVYNLLSNEEHILGEESSQSSNDKKINDLR 55

Query: 65  RKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVIC 124
            +G+M+YGCQHYRRRCRIRAPCC+EIFDCRHCHNEA NNIN+DQK RHDIPRH+V QVIC
Sbjct: 56  ERGYMKYGCQHYRRRCRIRAPCCDEIFDCRHCHNEAKNNINIDQKHRHDIPRHQVKQVIC 115

Query: 125 SLCGTEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCN 182
           SLC TEQ  +Q C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GGC+NFFHC+
Sbjct: 116 SLCETEQEVQQNCINCGVCMGKYFCGTCKLFDDDVSKQQYHCSGCGICRTGGCENFFHCH 175

Query: 183 KCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH 242
           KC CCYS  LKNSHPCVEGAMHHDCP+C EYLFE+  DV VL CGHTIHK+CLKEMREH 
Sbjct: 176 KCGCCYSTQLKNSHPCVEGAMHHDCPICFEYLFESVNDVTVLLCGHTIHKSCLKEMREHF 235

Query: 243 QYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQK 302
           QYACP+C KSVCDMSKVWEK+D EIAATPMPE Y NK VWILCNDCGK+S+VQFH++AQK
Sbjct: 236 QYACPLCLKSVCDMSKVWEKFDLEIAATPMPEPYQNKMVWILCNDCGKSSHVQFHLVAQK 295

Query: 303 CPNCKSYNTRLTRG 316
           C NCKSYNTR TRG
Sbjct: 296 CLNCKSYNTRETRG 309

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552551|ref|XP_003544630.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like isoform 2 [Glycine max]

 Score =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 224/323 (69%), Positives = 246/323 (76%), Gaps = 17/323 (5%)

Query: 9   MAGLEVHHSSHQQFEPMSTSCKADEIFSTPSYSHLADREFLVTEESTNHNGSTELLRKGF 68
           M  + V HS   QFE    +    E    P  S++       + +ST+H     L  KGF
Sbjct: 1   MGEVAVMHSEPLQFECNDITVNMTEKEVYPPESNVDHLPGEESSQSTDHKNINYLQEKGF 60

Query: 69  MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEV--------- 119
           MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEA N+IN+D KLRHDIPRHEV         
Sbjct: 61  MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAKNDINIDLKLRHDIPRHEVKQVCLFILT 120

Query: 120 ------NQVICSLCGTEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICR 171
                  QVICSLCGTEQ  +Q C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR
Sbjct: 121 FPIGISTQVICSLCGTEQEVQQNCINCGVCMGKYFCGTCKLFDDDISKQQYHCCGCGICR 180

Query: 172 IGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIH 231
            GG +NFFHC KC CCYS LLKNSHPCVEGAMHHDCPVC EYLFE+R DV V+PCGHTIH
Sbjct: 181 TGGSENFFHCYKCGCCYSTLLKNSHPCVEGAMHHDCPVCFEYLFESRNDVTVMPCGHTIH 240

Query: 232 KNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKT 291
           K+CL EMREH QYACP+CSKSVCDMSKVWEK+D EIAAT MPE Y NK VWILCNDCGKT
Sbjct: 241 KSCLNEMREHFQYACPLCSKSVCDMSKVWEKFDLEIAATRMPEQYQNKMVWILCNDCGKT 300

Query: 292 SNVQFHVLAQKCPNCKSYNTRLT 314
           S+VQFH +AQKCPNCKSYNTR T
Sbjct: 301 SHVQFHFVAQKCPNCKSYNTRQT 323

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437104|ref|XP_004136332.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like [Cucumis sativus] gi|449505475|ref|XP_004162482.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like [Cucumis sativus]

 Score =  442 bits (1137), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 218/308 (70%), Positives = 253/308 (82%), Gaps = 13/308 (4%)

Query: 17  SSHQQFEPMST------SCKADEIFSTPSYSHLADREFLVTEESTNHNGSTELLRKGFME 70
           +++ + +P+ T      +C+  EI +   Y+   D   L  E+S   N   ++L + +M+
Sbjct: 5   ATYSKPQPIGTEENQHMTCRGKEIRTV--YTEQFDSPALPFEKS---NDPQKVLEREYMQ 59

Query: 71  YGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTE 130
           +GC HYRRRCRIRAPCCNEIFDCRHCHNE  N+I VDQK RH+IPRHEVNQVICSLCGTE
Sbjct: 60  HGCAHYRRRCRIRAPCCNEIFDCRHCHNEIKNSICVDQKERHEIPRHEVNQVICSLCGTE 119

Query: 131 Q--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCY 188
           Q  +Q C+NCGVC G+YFCESCKLFDDDTSKKQYHC+GCGICRIGG +NFFHC+KC CCY
Sbjct: 120 QEVRQDCINCGVCFGKYFCESCKLFDDDTSKKQYHCNGCGICRIGGRENFFHCHKCGCCY 179

Query: 189 SMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPI 248
           S+LLKNSHPCVEGAMHHDCPVC EYLF++  DV V+PCGHTIH+NCLKEMR+H QYACP+
Sbjct: 180 SILLKNSHPCVEGAMHHDCPVCFEYLFDSTNDVTVMPCGHTIHQNCLKEMRDHFQYACPL 239

Query: 249 CSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKS 308
           CSKSVCDMSKVWEK D EIAATP+PE Y NK VWILCNDCGKTS VQ+HV+AQKC NCKS
Sbjct: 240 CSKSVCDMSKVWEKIDMEIAATPIPEPYQNKMVWILCNDCGKTSKVQYHVVAQKCLNCKS 299

Query: 309 YNTRLTRG 316
           YNTR TRG
Sbjct: 300 YNTRQTRG 307

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255635979|gb|ACU18335.1| unknown [Glycine max]

 Score =  442 bits (1136), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 219/314 (69%), Positives = 250/314 (79%), Gaps = 11/314 (3%)

Query: 9   MAGLEVHHSSHQQFEPMSTSCK-ADEIFSTPSYSHLADREFLVTEEST---NHNGSTELL 64
           M  + V HS     EP+   C     I     Y+ L++ E ++ EES+   N     +L 
Sbjct: 1   MGEVAVMHS-----EPLQFDCNDMKHITEKDVYNLLSNEEHILGEESSQSSNDKKINDLR 55

Query: 65  RKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVIC 124
            +G+M+YGCQHYRRRCRIRAPCC+EIFDCRHCHNEA NNIN+DQK RHDIPRH+V QVIC
Sbjct: 56  ERGYMKYGCQHYRRRCRIRAPCCDEIFDCRHCHNEAKNNINIDQKHRHDIPRHQVKQVIC 115

Query: 125 SLCGTEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCN 182
           SLC TEQ  +Q C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GGC+NFFHC+
Sbjct: 116 SLCETEQEVQQNCINCGVCMGKYFCGTCKLFDDDVSKQQYHCSGCGICRTGGCENFFHCH 175

Query: 183 KCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH 242
           KC CCYS  LKNSHPCVE AMHHDCP+C EYLFE+  DV VL CGHTIHK+CLKEMREH 
Sbjct: 176 KCGCCYSTQLKNSHPCVERAMHHDCPICFEYLFESVNDVTVLLCGHTIHKSCLKEMREHF 235

Query: 243 QYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQK 302
           QYACP+C KSVCDMSKVWEK+D EIAATPMPE Y NK VWILCNDCGK+S+VQFH++AQK
Sbjct: 236 QYACPLCLKSVCDMSKVWEKFDLEIAATPMPEPYQNKMVWILCNDCGKSSHVQFHLVAQK 295

Query: 303 CPNCKSYNTRLTRG 316
           C NCKSYNTR TRG
Sbjct: 296 CLNCKSYNTRETRG 309

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297808579|ref|XP_002872173.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297318010|gb|EFH48432.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  434 bits (1115), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 207/274 (75%), Positives = 234/274 (85%), Gaps = 2/274 (0%)

Query: 45  DREFLVTEESTNHNGSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNI 104
           D E    E  T  +   ++L +G ME+GC HYRRRC IRAPCCNEIF C HCHNEA NNI
Sbjct: 35  DSESSTLERVTAESLINKVLGRGLMEHGCPHYRRRCCIRAPCCNEIFGCHHCHNEAKNNI 94

Query: 105 NVDQKLRHDIPRHEVNQVICSLCGTEQK--QVCVNCGVCMGEYFCESCKLFDDDTSKKQY 162
           NVDQK RHDIPRH+V QVIC LCGTEQ+  Q+C++CGVCMG+YFC+ CKLFDDDTSKKQY
Sbjct: 95  NVDQKQRHDIPRHQVEQVICLLCGTEQEVGQICIHCGVCMGKYFCKVCKLFDDDTSKKQY 154

Query: 163 HCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVI 222
           HCDGCGICRIGG +NFFHC KC CCYS+LLKNSHPCVEGAMHHDCP+C E+LFE+R DV 
Sbjct: 155 HCDGCGICRIGGRENFFHCYKCGCCYSILLKNSHPCVEGAMHHDCPICFEFLFESRNDVT 214

Query: 223 VLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVW 282
           VLPCGHTIH+ CL+EMR+H+QYACP+CSKSVCDMSKVWEK+D EIAATPMPE Y N+ V 
Sbjct: 215 VLPCGHTIHQKCLEEMRDHYQYACPLCSKSVCDMSKVWEKFDMEIAATPMPEPYQNRMVQ 274

Query: 283 ILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 316
           ILCNDCGK S V++HV+AQKCPNCKSYNTR TRG
Sbjct: 275 ILCNDCGKKSEVKYHVVAQKCPNCKSYNTRQTRG 308

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	316
TAIR|locus:2172656	291	AT5G22920 [Arabidopsis thalian	0.835	0.907	0.595	1.5e-97
TAIR|locus:2179474	328	AT5G25560 [Arabidopsis thalian	0.841	0.810	0.632	2.5e-97
TAIR|locus:2180074	267	MIEL1 "MYB30-Interacting E3 Li	0.781	0.925	0.555	1e-82
TAIR|locus:2099212	287	AT3G62970 [Arabidopsis thalian	0.772	0.850	0.520	3.1e-74
UNIPROTKB|Q96PM5	261	RCHY1 "RING finger and CHY zin	0.737	0.892	0.425	3.7e-55
UNIPROTKB|J9NZR5	259	RCHY1 "Uncharacterized protein	0.721	0.880	0.429	4.8e-55
UNIPROTKB|A4IFE2	261	RCHY1 "RCHY1 protein" [Bos tau	0.721	0.873	0.429	6.1e-55
RGD|1359180	261	Rchy1 "ring finger and CHY zin	0.737	0.892	0.421	9.9e-55
MGI|MGI:1915348	261	Rchy1 "ring finger and CHY zin	0.737	0.892	0.417	3.4e-54
ZFIN|ZDB-GENE-040801-73	264	rchy1 "ring finger and CHY zin	0.724	0.867	0.421	4.3e-54

TAIR|locus:2172656 AT5G22920 [Arabidopsis thaliana (taxid:3702)]

 Score = 969 (346.2 bits), Expect = 1.5e-97, P = 1.5e-97
 Identities = 159/267 (59%), Positives = 201/267 (75%)

Query:    53 ESTNHNGSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRH 112
             E+  +     L+  G   YGC HYRRRC+IRAPCC+EIFDCRHCHNEA ++++++Q  RH
Sbjct:     7 ENEQNQEFANLMEIGSGHYGCSHYRRRCKIRAPCCDEIFDCRHCHNEAKDSLHIEQHHRH 66

Query:   113 DIPRHEVNQVICSLCGTEQ--KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXX 170
             ++PRHEV++VICSLC TEQ  +Q C NCGVCMG+YFC  CK FDDD SKKQYH       
Sbjct:    67 ELPRHEVSKVICSLCETEQDVQQNCSNCGVCMGKYFCSKCKFFDDDLSKKQYHCDECGIC 126

Query:   171 XXXXXXNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTI 230
                   NFFHC +CRCCYS ++++ H CVEGAMHH+CPVC EYLF++ +D+ VL CGHT+
Sbjct:   127 RTGGEENFFHCKRCRCCYSKIMEDKHQCVEGAMHHNCPVCFEYLFDSTRDITVLRCGHTM 186

Query:   231 HKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGK 290
             H  C K+M  H++Y CP+CSKS+CDMS +W+K D E+AA PMP+ Y NK VWILCNDCG 
Sbjct:   187 HLECTKDMGLHNRYTCPVCSKSICDMSNLWKKLDEEVAAYPMPKMYENKMVWILCNDCGS 246

Query:   291 TSNVQFHVLAQKCPNCKSYNTRLT-RG 316
              +NV+FH++A KC +C SYNTR T RG
Sbjct:   247 NTNVRFHLIAHKCSSCGSYNTRQTQRG 273

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2179474 AT5G25560 [Arabidopsis thaliana (taxid:3702)]

 Score = 967 (345.5 bits), Expect = 2.5e-97, P = 2.5e-97
 Identities = 177/280 (63%), Positives = 207/280 (73%)

Query:     9 MAGLEVHHSSHQQFEPMSTSCKADEIFSTPSYSHLADREFLVTEESTNHNGSTE-----L 63
             M  +  +H + QQ + MS   K +   S  S+ H  + E   +E ST    + E     +
Sbjct:     1 MGDVYFNHFA-QQLQ-MSDQEKGE--MSRHSHPHSINEE---SESSTLERVAAESLTNKV 53

Query:    64 LRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVI 123
             L +G MEYGC HYRRRC IRAPCCNEIF C HCH EA NNINVDQK RHDIPRH+V QVI
Sbjct:    54 LDRGLMEYGCPHYRRRCCIRAPCCNEIFGCHHCHYEAKNNINVDQKQRHDIPRHQVEQVI 113

Query:   124 CSLCGTEQK--QVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHC 181
             C LCGTEQ+  Q+C++CGVCMG+YFC+ CKL+DDDTSKKQYH             NFFHC
Sbjct:   114 CLLCGTEQEVGQICIHCGVCMGKYFCKVCKLYDDDTSKKQYHCDGCGICRIGGRENFFHC 173

Query:   182 NKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH 241
              KC CCYS+LLKN HPCVEGAMHHDCP+C E+LFE+R DV VLPCGHTIH+ CL+EMR+H
Sbjct:   174 YKCGCCYSILLKNGHPCVEGAMHHDCPICFEFLFESRNDVTVLPCGHTIHQKCLEEMRDH 233

Query:   242 HQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKV 281
             +QYACP+CSKSVCDMSKVWEK+D EIAATPMPE Y N+ V
Sbjct:   234 YQYACPLCSKSVCDMSKVWEKFDMEIAATPMPEPYQNRMV 273

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2180074 MIEL1 "MYB30-Interacting E3 Ligase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 829 (296.9 bits), Expect = 1.0e-82, P = 1.0e-82
 Identities = 140/252 (55%), Positives = 178/252 (70%)

Query:    64 LRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNI-NVDQKLRHDIPRHEVNQV 122
             L  G M +GC+HY+RRC+IRAPCCNE+FDCRHCHNE+ + + N+    RHD+ R +V QV
Sbjct:     9 LHFGKMGFGCKHYKRRCQIRAPCCNEVFDCRHCHNESTSTLRNIYD--RHDLVRQDVKQV 66

Query:   123 ICSLCGTEQK--QVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFH 180
             ICS+C TEQ   QVC NCGV MGEYFC  C  +DDDT K+Q+H             NFFH
Sbjct:    67 ICSVCDTEQPAAQVCSNCGVNMGEYFCSICIFYDDDTEKQQFHCDDCGICRVGGRENFFH 126

Query:   181 CNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE 240
             C KC  CY++ L+N+H CVE +M H CP+C EYLF++ +D  V+ CGHT+H  C  EM +
Sbjct:   127 CKKCGSCYAVGLRNNHRCVENSMRHHCPICYEYLFDSLKDTNVMKCGHTMHVECYNEMIK 186

Query:   241 HHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLA 300
               ++ CPICS+SV DMSK W++ D EI AT MP  Y +KKVWILCNDC  T+ V FH++ 
Sbjct:   187 RDKFCCPICSRSVIDMSKTWQRLDEEIEATAMPSDYRDKKVWILCNDCNDTTEVHFHIIG 246

Query:   301 QKCPNCKSYNTR 312
             QKC +C+SYNTR
Sbjct:   247 QKCGHCRSYNTR 258

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2099212 AT3G62970 [Arabidopsis thaliana (taxid:3702)]

 Score = 749 (268.7 bits), Expect = 3.1e-74, P = 3.1e-74
 Identities = 129/248 (52%), Positives = 166/248 (66%)

Query:    67 GFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSL 126
             G  ++GC+HY+RRC+IRAPCCN IF CRHCHN++ N++  D K RHD+ R  V QV+CS+
Sbjct:    29 GKFQFGCEHYKRRCKIRAPCCNLIFSCRHCHNDSANSLP-DPKERHDLVRQNVKQVVCSI 87

Query:   127 CGTEQK--QVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKC 184
             C TEQ+  +VC NCGV MGEYFC+ CK FDDD SK+Q+H              FFHC  C
Sbjct:    88 CQTEQEVAKVCSNCGVNMGEYFCDICKFFDDDISKEQFHCDDCGICRVGGRDKFFHCQNC 147

Query:   185 RCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQY 244
               CY M L++ H C+E +  + CPVC EYLF++ +   V+ CGHT+H +C ++M   +QY
Sbjct:   148 GACYGMGLRDKHSCIENSTKNSCPVCYEYLFDSVKAAHVMKCGHTMHMDCFEQMINENQY 207

Query:   245 ACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCP 304
              CPIC+KS+ DMS  W   D EI+AT MP  Y   +V ILCNDC K S   FH+L  KC 
Sbjct:   208 RCPICAKSMVDMSPSWHLLDFEISATEMPVEY-KFEVSILCNDCNKGSKAMFHILGHKCS 266

Query:   305 NCKSYNTR 312
             +C SYNTR
Sbjct:   267 DCGSYNTR 274

GO:0005634 "nucleus" evidence=ISM

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

GO:0009616 "virus induced gene silencing" evidence=RCA

GO:0010050 "vegetative phase change" evidence=RCA

UNIPROTKB|Q96PM5 RCHY1 "RING finger and CHY zinc finger domain-containing protein 1" [Homo sapiens (taxid:9606)]

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 105/247 (42%), Positives = 138/247 (55%)

Query:    72 GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
             GC+HY R C ++APCC++++ CR CH+      N D    H + R +V +V C  C   Q
Sbjct:    19 GCEHYDRGCLLKAPCCDKLYTCRLCHDN-----NED----HQLDRFKVKEVQCINCEKIQ 69

Query:   132 --KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYS 189
               +Q C  C    GEY+C+ C LFD D  KKQYH             +FFHC KC  C +
Sbjct:    70 HAQQTCEECSTLFGEYYCDICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLA 127

Query:   190 MLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
             M L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C
Sbjct:   128 MNLQGRHKCIENVSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLC 186

Query:   250 SKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY 309
               S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+SY
Sbjct:   187 MHSALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESY 246

Query:   310 NTRLTRG 316
             NT    G
Sbjct:   247 NTAQAGG 253

GO:0005102 "receptor binding" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0008270 "zinc ion binding" evidence=IDA

GO:0002039 "p53 binding" evidence=IPI

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0051865 "protein autoubiquitination" evidence=IDA

GO:0000151 "ubiquitin ligase complex" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

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

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0031398 "positive regulation of protein ubiquitination" evidence=IDA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|J9NZR5 RCHY1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 568 (205.0 bits), Expect = 4.8e-55, P = 4.8e-55
 Identities = 104/242 (42%), Positives = 137/242 (56%)

Query:    72 GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
             GC+HY R C ++APCC++++ CR CH+      N D    H + R +V +V C  C   Q
Sbjct:    19 GCEHYDRGCLLKAPCCDKLYTCRLCHDN-----NED----HQLDRFKVKEVQCINCEKIQ 69

Query:   132 --KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYS 189
               +Q C  C    GEY+C  C LFD D  KKQYH             +FFHC KC  C +
Sbjct:    70 HAQQSCEECSTLFGEYYCSICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLA 127

Query:   190 MLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
             M L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C
Sbjct:   128 MNLQGKHKCIENVSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLC 186

Query:   250 SKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY 309
               S  DM++ W + D E+A TPMP  Y N  V ILCNDC + S VQFH+L  KC  C+SY
Sbjct:   187 MHSALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNRRSTVQFHILGMKCNICESY 246

Query:   310 NT 311
             NT
Sbjct:   247 NT 248

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|A4IFE2 RCHY1 "RCHY1 protein" [Bos taurus (taxid:9913)]

 Score = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 104/242 (42%), Positives = 137/242 (56%)

Query:    72 GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
             GC+HY R C ++APCC++++ CR CH+      N D    H + R +V +V C  C   Q
Sbjct:    19 GCEHYDRGCLLKAPCCDKLYTCRLCHDN-----NED----HQLDRFKVKEVQCINCEKIQ 69

Query:   132 --KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYS 189
               +Q C  C    GEY+C  C LFD D  KKQYH             +FFHC KC  C +
Sbjct:    70 HAQQTCEECSTLFGEYYCSVCHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLA 127

Query:   190 MLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
             M L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C ++M +   Y CP+C
Sbjct:   128 MNLQGKHKCIENVSRQNCPICLEDIHTSRIAAQVLPCGHLLHRTCYEDMLKEG-YRCPLC 186

Query:   250 SKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY 309
              +S  DMS+ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+SY
Sbjct:   187 MRSALDMSRSWRQRDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCNICESY 246

Query:   310 NT 311
             NT
Sbjct:   247 NT 248

GO:0051865 "protein autoubiquitination" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0031398 "positive regulation of protein ubiquitination" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0002039 "p53 binding" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

RGD|1359180 Rchy1 "ring finger and CHY zinc finger domain containing 1, E3 ubiquitin protein ligase" [Rattus norvegicus (taxid:10116)]

 Score = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 104/247 (42%), Positives = 135/247 (54%)

Query:    72 GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
             GC+HY R C ++APCC++++ CR CH         D    H + R +V +V C  C   Q
Sbjct:    19 GCEHYDRACLLKAPCCDKLYTCRLCH---------DTHEDHQLDRFKVKEVQCINCEKLQ 69

Query:   132 --KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYS 189
               +Q C +C    GEY+C  C LFD D  KKQYH             +FFHC KC  C +
Sbjct:    70 HAQQTCEDCSTLFGEYYCSICHLFDKD--KKQYHCESCGICRIGPKEDFFHCLKCNLCLA 127

Query:   190 MLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
             M L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C
Sbjct:   128 MTLRGKHKCIENVSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLC 186

Query:   250 SKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY 309
               S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C SY
Sbjct:   187 MHSALDMTRYWRQLDIEVAQTPMPSEYQNVTVDILCNDCNGRSTVQFHILGMKCKLCDSY 246

Query:   310 NTRLTRG 316
             NT    G
Sbjct:   247 NTAQAGG 253

GO:0000151 "ubiquitin ligase complex" evidence=IEA;ISO

GO:0002039 "p53 binding" evidence=IEA;ISO

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

GO:0005102 "receptor binding" evidence=IPI

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0008150 "biological_process" evidence=ND

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

GO:0016567 "protein ubiquitination" evidence=ISO

GO:0031398 "positive regulation of protein ubiquitination" evidence=IEA;ISO

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA;ISO

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA;ISO

GO:0042803 "protein homodimerization activity" evidence=IEA;ISO

GO:0051865 "protein autoubiquitination" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

MGI|MGI:1915348 Rchy1 "ring finger and CHY zinc finger domain containing 1" [Mus musculus (taxid:10090)]

 Score = 560 (202.2 bits), Expect = 3.4e-54, P = 3.4e-54
 Identities = 103/247 (41%), Positives = 136/247 (55%)

Query:    72 GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
             GC+HY R C ++APCC++++ CR CH+      N D    H + R +V +V C  C   Q
Sbjct:    19 GCEHYDRACLLKAPCCDKLYTCRLCHDT-----NED----HQLDRFKVKEVQCINCEKLQ 69

Query:   132 --KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYS 189
               +Q C +C    GEY+C  C LFD D  K+QYH             +FFHC KC  C +
Sbjct:    70 HAQQTCEDCSTLFGEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLT 127

Query:   190 MLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
               L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C
Sbjct:   128 TNLRGKHKCIENVSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLC 186

Query:   250 SKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY 309
               S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C SY
Sbjct:   187 MHSALDMTRYWRQLDTEVAQTPMPSEYQNVTVDILCNDCNGRSTVQFHILGMKCKLCDSY 246

Query:   310 NTRLTRG 316
             NT    G
Sbjct:   247 NTAQAGG 253

GO:0000151 "ubiquitin ligase complex" evidence=ISO

GO:0002039 "p53 binding" evidence=ISO

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

GO:0005102 "receptor binding" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0008270 "zinc ion binding" evidence=ISO

GO:0016567 "protein ubiquitination" evidence=ISO

GO:0016874 "ligase activity" evidence=IEA

GO:0031398 "positive regulation of protein ubiquitination" evidence=ISO

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0042803 "protein homodimerization activity" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051865 "protein autoubiquitination" evidence=ISO

ZFIN|ZDB-GENE-040801-73 rchy1 "ring finger and CHY zinc finger domain containing 1" [Danio rerio (taxid:7955)]

 Score = 559 (201.8 bits), Expect = 4.3e-54, P = 4.3e-54
 Identities = 102/242 (42%), Positives = 133/242 (54%)

Query:    72 GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGT-- 129
             GC+HY R C ++APCC + + CR CH         D +  H + R +V +V C++C T  
Sbjct:     7 GCEHYVRSCLLKAPCCGKFYVCRLCH---------DAEETHQMDRFKVQEVKCAVCNTIQ 57

Query:   130 EQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYS 189
             E +Q+C  C V  GEY+C+ C LFD D  KKQYH              +FHC KC  C  
Sbjct:    58 EAQQICKECEVKFGEYYCDICHLFDKD--KKQYHCQPCGICRIGPREKYFHCTKCNLCLG 115

Query:   190 MLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
               LK+ H CVE     +CPVC E +   R    VLPCGH +H  C  +M +   Y CP+C
Sbjct:   116 TELKDKHKCVENVSRQNCPVCMEDIHTFRVGAHVLPCGHLLHGTCFDDMLKTGAYRCPLC 175

Query:   250 SKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY 309
               S  +M + W++ D EI+ TPMP  Y +  V I+CNDC   S V FHVL  KC +C SY
Sbjct:   176 MHSAFNMKEYWKQMDEEISQTPMPTEYQDSTVKIICNDCQARSTVSFHVLGMKCSSCGSY 235

Query:   310 NT 311
             NT
Sbjct:   236 NT 237

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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: grail3.0013032202 SubName- Full=Putative uncharacterized protein; (301 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	316
pfam05495	74	pfam05495, zf-CHY, CHY zinc finger	3e-17
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	9e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-04
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-04
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	3e-04
smart00184	40	smart00184, RING, Ring finger	5e-04
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	0.002

>gnl|CDD|218608 pfam05495, zf-CHY, CHY zinc finger

 Score = 74.7 bits (184), Expect = 3e-17
 Identities = 36/83 (43%), Positives = 46/83 (55%), Gaps = 10/83 (12%)

Query: 73  CQHYRRR-CRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
           C+HY R  C IRAPCCN+ + CR CH+E  +         H + R  V  V+C +C TEQ
Sbjct: 1   CKHYHRNLCAIRAPCCNKYYPCRLCHDELED---------HPLDRWNVKAVLCGVCRTEQ 51

Query: 132 KQVCVNCGVCMGEYFCESCKLFD 154
                NCGV   +Y+C  CKLF 
Sbjct: 52  TVQEYNCGVEFADYYCPICKLFF 74

This family of domains are likely to bind to zinc ions. They contain many conserved cysteine and histidine residues. We have named this domain after the N-terminal motif CXHY. This domain can be found in isolation in some proteins, but is also often associated with pfam00097. One of the proteins in this family is a mitochondrial intermembrane space protein called Hot13. This protein is involved in the assembly of small TIM complexes. Length = 74

>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 = 39.0 bits (91), Expect = 9e-05
 Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 3/48 (6%)

Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253
           +CP+C E     R+ V++LPCGH   ++C+ +  +  +  CP+C   +
Sbjct: 1   ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 43.4 bits (102), Expect = 1e-04
 Identities = 23/62 (37%), Positives = 29/62 (46%), Gaps = 5/62 (8%)

Query: 198 CVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC-DM 256
           C++   H D       L  T +    LPCGH +H +CLK   E  Q  CPIC + V  D 
Sbjct: 293 CMDEMFHPDHEPLPRGLDMTPKR---LPCGHILHLHCLKNWLERQQ-TCPICRRPVIFDQ 348

Query: 257 SK 258
           S 
Sbjct: 349 SS 350

Length = 491

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

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKS 252
            +CP+C +  FE  ++V+VLPCGH  HK CL +        CP+C   
Sbjct: 1   DECPICLDE-FEPGEEVVVLPCGHVFHKECLDKWLRSS-NTCPLCRAP 46

Length = 46

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

 Score = 41.9 bits (98), Expect = 3e-04
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 1/48 (2%)

Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253
           +C +C    F     + VLPC H  H  C+ +    +   CP+C  ++
Sbjct: 325 ECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 36.7 bits (85), Expect = 5e-04
 Identities = 17/43 (39%), Positives = 26/43 (60%), Gaps = 3/43 (6%)

Query: 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
           CP+C E   +   D ++LPCGHT  ++C+++  E     CPIC
Sbjct: 1   CPICLEEYLK---DPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation motif

 Score = 35.4 bits (82), Expect = 0.002
 Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 1/43 (2%)

Query: 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEM-REHHQYACPI 248
           CP+  E + +     ++LPCGH   +  L+++ +   ++ CP 
Sbjct: 13  CPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKCPY 55

This zinc-finger is the dimerisation motif for LisH proteins, and is also a typical RING-type of plant ubiquitin ligases. Length = 55

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	316
KOG1940	276	consensus Zn-finger protein [General function pred	100.0
PF14599	61	zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.	99.92
PF05495	71	zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc	99.86
COG4357	105	Zinc finger domain containing protein (CHY type) [	99.5
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.27
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.14
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.95
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.88
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.87
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.84
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.78
PHA02929	238	N1R/p28-like protein; Provisional	98.72
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.7
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.69
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.66
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.6
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.6
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.59
PF14634	44	zf-RING_5: zinc-RING finger domain	98.54
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.51
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.48
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.44
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.3
PHA02926	242	zinc finger-like protein; Provisional	98.29
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.26
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.03
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.0
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.99
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	97.87
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	97.81
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	97.81
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.76
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.74
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.69
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.57
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.54
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.38
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.37
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.2
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.08
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.06
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.93
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	96.73
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	96.57
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	96.49
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.47
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.4
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.27
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.19
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.15
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	96.12
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.07
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.86
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	95.72
COG5219	1525	Uncharacterized conserved protein, contains RING Z	95.48
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	94.88
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	94.74
KOG0825	1134	consensus PHD Zn-finger protein [General function	94.74
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.52
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.51
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	94.37
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	94.23
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.95
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	93.68
PRK14890	59	putative Zn-ribbon RNA-binding protein; Provisiona	93.35
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	93.11
KOG0297	391	consensus TNF receptor-associated factor [Signal t	93.05
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.04
KOG4445	368	consensus Uncharacterized conserved protein, conta	92.53
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	92.49
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	92.22
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	91.88
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	91.87
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	91.84
COG5152	259	Uncharacterized conserved protein, contains RING a	91.77
KOG3002	299	consensus Zn finger protein [General function pred	91.73
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	91.71
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	91.53
TIGR00100	115	hypA hydrogenase nickel insertion protein HypA. In	91.0
PF04641	260	Rtf2: Rtf2 RING-finger	90.53
PF12773	50	DZR: Double zinc ribbon	90.11
PRK00564	117	hypA hydrogenase nickel incorporation protein; Pro	89.82
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	89.55
PRK03824	135	hypA hydrogenase nickel incorporation protein; Pro	89.38
KOG1002	791	consensus Nucleotide excision repair protein RAD16	88.77
KOG2660	331	consensus Locus-specific chromosome binding protei	88.67
PRK12380	113	hydrogenase nickel incorporation protein HybF; Pro	88.61
PRK03681	114	hypA hydrogenase nickel incorporation protein; Val	88.56
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	88.23
KOG3039	303	consensus Uncharacterized conserved protein [Funct	87.9
COG5236	493	Uncharacterized conserved protein, contains RING Z	87.88
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	87.77
PHA02862	156	5L protein; Provisional	87.16
COG2888	61	Predicted Zn-ribbon RNA-binding protein with a fun	86.12
PF01155	113	HypA: Hydrogenase expression/synthesis hypA family	86.0
PRK04023	1121	DNA polymerase II large subunit; Validated	85.99
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	85.84
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	85.59
PHA02825	162	LAP/PHD finger-like protein; Provisional	85.2
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	84.95
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	84.39
PF13248	26	zf-ribbon_3: zinc-ribbon domain	84.36
PRK00762	124	hypA hydrogenase nickel incorporation protein; Pro	83.91
PF09538	108	FYDLN_acid: Protein of unknown function (FYDLN_aci	83.69
COG5222	427	Uncharacterized conserved protein, contains RING Z	82.82
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	82.79
COG0375	115	HybF Zn finger protein HypA/HybF (possibly regulat	82.49
KOG4739	233	consensus Uncharacterized protein involved in syna	81.21
PRK14714	1337	DNA polymerase II large subunit; Provisional	80.47
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	80.3

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

Probab=100.00  E-value=3.4e-65  Score=479.65  Aligned_cols=245  Identities=52%  Similarity=1.059  Sum_probs=237.6

Q ss_pred             CCchhhccCCCccCCcccccCcceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCC
Q 021224           59 GSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCV  136 (316)
Q Consensus        59 ~~~~~~~~~~~~~gC~HY~r~c~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~  136 (316)
                      .+.+++|++.+++||+||+|++.+++|+|++||+||+||+++.         +|.++|+.|.+++|+.|+++|  +++|.
T Consensus        21 ~~~~~~d~~~~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s~---------~h~~~r~~v~~~~C~~C~~~q~~~~~c~   91 (276)
T KOG1940|consen   21 IHSDAEDEIAFPYGCPHYRRNCKSRAPCCDREITCRHCHNESE---------DHDLDRKTVYELLCMKCRKIQPVGQICS   91 (276)
T ss_pred             cccccccccccccCCchhhhccccccccccceeeeEEecChhh---------hcccchhhhhhhhhhhHHhhhhhhhccc
Confidence            3457889999999999999999999999999999999999964         899999999999999999999  89999


Q ss_pred             CCCCccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccceeccccccccccCCCCCCCCccccccccc
Q 021224          137 NCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFE  216 (316)
Q Consensus       137 ~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~E~~~~~~CPIClE~lf~  216 (316)
                      +|+..+|+|||.+|+||||+++ +||||+.|||||+|++++||||++|+.|++..+.+.|+|+|++++.+||||.|++|+
T Consensus        92 ~c~~~~g~~~c~~C~l~dd~~~-~~~hC~~C~icr~g~~~~~fhc~~c~~c~~~~~~~~H~c~e~~~~~ncPic~e~l~~  170 (276)
T KOG1940|consen   92 NCHVELGEYYCLICKLFDDDPS-KQYHCDLCGICREGLGLDFFHCKKCKACLSAYLSNWHKCVERSSEFNCPICKEYLFL  170 (276)
T ss_pred             cchhhhhhhcCccccccccccc-ceeccccccccccccccchhHHhhhHhHHhhhcccccchhhhcccCCCchhHHHhcc
Confidence            9999999999999999999998 999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEEcCCCCCCccccc
Q 021224          217 TRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQF  296 (316)
Q Consensus       217 s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~IlCnDC~~~s~~~f  296 (316)
                      +...+..|+|||++|..|++++...+ |+||+|.+ +.||+.+|+++|.+|+++|||++|++++++|+||||+..++++|
T Consensus       171 s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y~~~~~~i~cndC~~~~~~k~  248 (276)
T KOG1940|consen  171 SFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK-PGDMSHYFRKLDKELAGSPMPEEYKNKTQDILCNDCGSGTNVKY  248 (276)
T ss_pred             ccccCCccCcccchHHHHHHHHhccC-CCCCcccc-hHHHHHHHHHHHHHHhcCCCCchhhchhheeeccCCCCCCccce
Confidence            99999999999999999999998865 99999999 99999999999999999999999999999999999999999999


Q ss_pred             eeeeecCCCCCCccccccC
Q 021224          297 HVLAQKCPNCKSYNTRLTR  315 (316)
Q Consensus       297 H~lg~kC~~C~SyNT~~~~  315 (316)
                      |||++||+.|+|||||+++
T Consensus       249 ~~l~~kc~~c~~~~~r~~~  267 (276)
T KOG1940|consen  249 HILYHKCGKCGSYNTRMIS  267 (276)
T ss_pred             ehhhhhCCCcccceeeecc
Confidence            9999999999999999985

>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A

Probab=99.92  E-value=6e-27  Score=176.07  Aligned_cols=61  Identities=66%  Similarity=1.160  Sum_probs=22.6

Q ss_pred             ccchhHHHHHhHHHHHcCCCChhhhcCcceEEcCCCCCCccccceeeeecCCCCCCccccc
Q 021224          253 VCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRL  313 (316)
Q Consensus       253 ~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~  313 (316)
                      +.||+.+|+.||++|+++|||++|++++++|+||||+++|+|+||||||||++|+||||||
T Consensus         1 v~dM~~~w~~LD~~i~~~pmP~~Y~~~~v~IlCNDC~~~s~v~fH~lg~KC~~C~SYNT~q   61 (61)
T PF14599_consen    1 VVDMSAYWRMLDAEIAATPMPEEYRNKKVWILCNDCNAKSEVPFHFLGHKCSHCGSYNTRQ   61 (61)
T ss_dssp             ---------------------------EEEEEESSS--EEEEE--TT----TTTS---EEE
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHhCCEEEEECCCCCCccceeeeHhhhcCCCCCCcccCC
Confidence            4689999999999999999999999999999999999999999999999999999999997

>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.86  E-value=2.2e-22  Score=155.20  Aligned_cols=68  Identities=47%  Similarity=1.148  Sum_probs=50.4

Q ss_pred             CcccccC-cceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCCCCCCccceeecCc
Q 021224           73 CQHYRRR-CRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVCMGEYFCES  149 (316)
Q Consensus        73 C~HY~r~-c~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~~Cg~~f~~YfC~~  149 (316)
                      |+||+|+ |+|+||||++|||||+||||+.         +|+++|+.+++|+||.|+++|  ++.  +|+   ++|+|++
T Consensus         1 C~HY~~~~~~~~~~cC~~~y~C~~CHde~~---------~H~~~~~~~~~v~Cg~C~~~~~~~~~--~c~---~~~~C~~   66 (71)
T PF05495_consen    1 CKHYHRSLCAIRFPCCGKYYPCRFCHDELE---------DHPFDRWPVKRVICGKCRTEQPIDEY--SCG---ADYFCPI   66 (71)
T ss_dssp             -SS---S-EEEEETTTTEEESSHHHHHHCS---------SS---TTT--EEEETTT--EEES-SB--TT-----SEEETT
T ss_pred             CCCCCCCcEEEECCcccCeecHHHHHHHhc---------cCccccccccCeECCCCCCccChhhh--hcC---CCccCcC
Confidence            8999999 9999999999999999999964         899999999999999999999  444  777   9999999


Q ss_pred             ccccc
Q 021224          150 CKLFD  154 (316)
Q Consensus       150 C~l~d  154 (316)
                      |++||
T Consensus        67 C~~~~   71 (71)
T PF05495_consen   67 CGLYF   71 (71)
T ss_dssp             TTEEE
T ss_pred             cCCCC
Confidence            99986

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. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.

>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]

Probab=99.50  E-value=6.8e-15  Score=119.42  Aligned_cols=71  Identities=23%  Similarity=0.594  Sum_probs=63.2

Q ss_pred             ccCCcccccC---cceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc-------cCCCCCCC
Q 021224           70 EYGCQHYRRR---CRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ-------KQVCVNCG  139 (316)
Q Consensus        70 ~~gC~HY~r~---c~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q-------~~~C~~Cg  139 (316)
                      +.||.||++.   ++|||.+|++||+|++||||++.|+    ++.|+++....+.||||.|.++.       ...||+|.
T Consensus        12 etRC~Hyht~~Diialkc~~C~kyYaCy~CHdel~~Hp----f~p~~~~~~~~~~iiCGvC~~~LT~~EY~~~~~Cp~C~   87 (105)
T COG4357          12 ETRCLHYHTPLDIIALKCKCCQKYYACYHCHDELEDHP----FEPWGLQEFNPKAIICGVCRKLLTRAEYGMCGSCPYCQ   87 (105)
T ss_pred             cceeeEecCccceEeeeechhhhhhhHHHHHhHHhcCC----CccCChhhcCCccEEhhhhhhhhhHHHHhhcCCCCCcC
Confidence            4589999996   7899999999999999999999886    57888888889999999999873       57899999


Q ss_pred             Cccce
Q 021224          140 VCMGE  144 (316)
Q Consensus       140 ~~f~~  144 (316)
                      .+||.
T Consensus        88 spFNp   92 (105)
T COG4357          88 SPFNP   92 (105)
T ss_pred             CCCCc
Confidence            99973

>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=99.27  E-value=1.6e-12  Score=90.48  Aligned_cols=44  Identities=39%  Similarity=1.061  Sum_probs=36.8

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCC
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS  250 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCr  250 (316)
                      ++||||++.+. ..+.++.|+|||.||.+||.+|++. +.+||+||
T Consensus         1 d~C~IC~~~~~-~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFE-DGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHH-TTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred             CCCcCCChhhc-CCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence            46999999754 4667889999999999999999986 58999997

...

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

Probab=99.14  E-value=3.5e-11  Score=96.21  Aligned_cols=51  Identities=20%  Similarity=0.471  Sum_probs=41.1

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC--CCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~--~~~CPiCrks~~  254 (316)
                      +++..||.|..+  ...-+++...|+|.||.+||.+|++..  +.+||+||.++.
T Consensus        30 ~fdg~Cp~Ck~P--gd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   30 PFDGCCPDCKFP--GDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             ccccCCCCccCC--CCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            556789999964  334567788999999999999999853  467999998875

>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=98.95  E-value=6.3e-10  Score=86.13  Aligned_cols=47  Identities=28%  Similarity=0.786  Sum_probs=36.1

Q ss_pred             CCCCCcccccccccC---------CceeEEcCCCCccchhHHHHHHhcCCCCCCCCC
Q 021224          203 MHHDCPVCCEYLFET---------RQDVIVLPCGHTIHKNCLKEMREHHQYACPICS  250 (316)
Q Consensus       203 ~~~~CPIClE~lf~s---------~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCr  250 (316)
                      .+++|+||++.|.+.         ..+++.++|||.||..||.+||+. +.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence            356799999987332         245567799999999999999985 46999998

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 ....

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

Probab=98.88  E-value=9.1e-10  Score=107.67  Aligned_cols=50  Identities=28%  Similarity=0.824  Sum_probs=44.9

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..|+||||+ |..++.++.|||+|.||..|++.||...+..||+|+.++.+
T Consensus       230 ~~CaIClEd-Y~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLED-YEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecc-cccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            599999996 88899999999999999999999998665669999998864

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

Probab=98.87  E-value=1.9e-09  Score=72.34  Aligned_cols=45  Identities=33%  Similarity=1.041  Sum_probs=36.9

Q ss_pred             CCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccc
Q 021224          206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV  253 (316)
Q Consensus       206 ~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~  253 (316)
                      .|+||++.+   ..++.+++|||.||..|+..|++..+.+||+|++.+
T Consensus         1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999964   235666779999999999999986567899999764

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

Probab=98.84  E-value=2.2e-09  Score=73.13  Aligned_cols=39  Identities=41%  Similarity=1.110  Sum_probs=32.6

Q ss_pred             CcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCC
Q 021224          207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC  249 (316)
Q Consensus       207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiC  249 (316)
                      ||||++.+.+   ++++++|||+|+.+|+.+|++. +.+||+|
T Consensus         1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccC---cCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            8999996433   6689999999999999999987 6899998

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

Probab=98.78  E-value=4.8e-09  Score=73.28  Aligned_cols=39  Identities=38%  Similarity=1.199  Sum_probs=28.9

Q ss_pred             CcccccccccCCceeEEcCCCCccchhHHHHHHhcC---CCCCCCC
Q 021224          207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH---QYACPIC  249 (316)
Q Consensus       207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~---~~~CPiC  249 (316)
                      ||||++. |+   +++.|+|||+|+..||..|++..   .+.||+|
T Consensus         1 CpiC~~~-~~---~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDL-FK---DPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB--S---SEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchh-hC---CccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999994 55   58899999999999999988652   2579998

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.72  E-value=1e-08  Score=96.01  Aligned_cols=54  Identities=19%  Similarity=0.609  Sum_probs=41.8

Q ss_pred             CCCCCCCcccccccccCCc----eeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          201 GAMHHDCPVCCEYLFETRQ----DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s~~----~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+.+..||||+|.+.+...    -.++++|||.||..||.+|++. +.+||+||.++..
T Consensus       171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~~  228 (238)
T PHA02929        171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFIS  228 (238)
T ss_pred             CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEeeE
Confidence            3456899999997654321    1345689999999999999985 5799999998763

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

Probab=98.70  E-value=1.1e-08  Score=72.98  Aligned_cols=47  Identities=34%  Similarity=0.982  Sum_probs=38.0

Q ss_pred             CCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..|+||++.    ...++++||||. |+..|+..|++ ...+||+||+++..
T Consensus         2 ~~~C~iC~~~----~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFEN----PRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSS----BSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-SE
T ss_pred             cCCCccCCcc----CCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhcC
Confidence            3579999984    235889999999 99999999998 46899999998753

...

>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=98.69  E-value=1.4e-08  Score=69.18  Aligned_cols=40  Identities=43%  Similarity=1.116  Sum_probs=33.3

Q ss_pred             CcccccccccCCceeEEcCCCCccchhHHHHHHh-cCCCCCCCC
Q 021224          207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE-HHQYACPIC  249 (316)
Q Consensus       207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~-~~~~~CPiC  249 (316)
                      ||||++.+..   +..+++|||.|+..|+.+|++ ...+.||+|
T Consensus         1 C~iC~~~~~~---~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFED---PVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSS---EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccC---CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            7999995332   446899999999999999988 556889998

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 ....

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

Probab=98.66  E-value=9.2e-09  Score=101.09  Aligned_cols=56  Identities=38%  Similarity=0.820  Sum_probs=47.1

Q ss_pred             CCCCCCCcccccccccCC---------ceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccc-cchh
Q 021224          201 GAMHHDCPVCCEYLFETR---------QDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV-CDMS  257 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s~---------~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~-~d~~  257 (316)
                      .+.+..|.||+|.|+.++         ..+..|||||.+|.+|++.|+++ +-+||+||.++ .|+.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~ifd~~  349 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPVIFDQS  349 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCccccccC
Confidence            567889999999988765         34578999999999999999986 58999999994 4543

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

Probab=98.60  E-value=7.2e-09  Score=81.47  Aligned_cols=51  Identities=22%  Similarity=0.446  Sum_probs=39.7

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc--CCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~--~~~~CPiCrks~~  254 (316)
                      +++..||-|.-  ....-|.++.-|.|.||..||.+|+..  ++-.||+||.++.
T Consensus        29 ~Fdg~Cp~Ck~--PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   29 PFDGCCPDCKL--PGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccCCcCCCCcC--CCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            56788999984  444456666689999999999999864  3456999998764

>smart00184 RING Ring finger

Probab=98.60  E-value=3.5e-08  Score=63.85  Aligned_cols=39  Identities=44%  Similarity=1.130  Sum_probs=33.2

Q ss_pred             CcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCC
Q 021224          207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC  249 (316)
Q Consensus       207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiC  249 (316)
                      |+||++.    ...++.++|||.||..|+..|++....+||+|
T Consensus         1 C~iC~~~----~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEE----LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccC----CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            7999985    34688899999999999999997555789987

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)

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

Probab=98.59  E-value=2.7e-08  Score=70.14  Aligned_cols=40  Identities=38%  Similarity=1.053  Sum_probs=24.6

Q ss_pred             CcccccccccCCceeEEcCCCCccchhHHHHHHhcC---CCCCC
Q 021224          207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH---QYACP  247 (316)
Q Consensus       207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~---~~~CP  247 (316)
                      ||||+| +.+...++++|+|||+|+++|+++|++.+   .++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 55556778999999999999999998743   46687

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.54  E-value=6.6e-08  Score=67.64  Aligned_cols=44  Identities=32%  Similarity=0.839  Sum_probs=37.0

Q ss_pred             CCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCc
Q 021224          206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK  251 (316)
Q Consensus       206 ~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrk  251 (316)
                      .|+||++.+ .....+.+++|||+|+..|+..+. .....||+||+
T Consensus         1 ~C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKY-SEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccc-cCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            489999964 555678899999999999999998 34578999985

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

Probab=98.51  E-value=6.2e-08  Score=93.25  Aligned_cols=55  Identities=27%  Similarity=0.671  Sum_probs=46.0

Q ss_pred             cCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          199 VEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       199 ~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      +|....-+|+|||++ |...+.+++|||.|.||..|+.+|+...+.+||+||.++.
T Consensus       318 ~ea~~GveCaICms~-fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         318 VEADKGVECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             HhcCCCceEEEEhhh-hcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            344455789999997 5667789999999999999999999755678999998764

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.48  E-value=1.3e-07  Score=85.97  Aligned_cols=55  Identities=25%  Similarity=0.636  Sum_probs=42.2

Q ss_pred             cccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc---------------CCCCCCCCCccccc
Q 021224          197 PCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH---------------HQYACPICSKSVCD  255 (316)
Q Consensus       197 ~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~---------------~~~~CPiCrks~~d  255 (316)
                      +=++...+..||||++. +.   ++++++|||.||..||.+|+..               ...+||+||..+..
T Consensus        11 ~~~~~~~~~~CpICld~-~~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         11 TLVDSGGDFDCNICLDQ-VR---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             eeccCCCccCCccCCCc-CC---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            33444557899999995 33   4677899999999999999842               13579999998864

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

Probab=98.44  E-value=1.4e-07  Score=74.82  Aligned_cols=50  Identities=20%  Similarity=0.436  Sum_probs=37.9

Q ss_pred             CCCCcccccccccC-CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFET-RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s-~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .+.||-|...+... .-+++...|.|.||.+||..||.. +..||++|+++.
T Consensus        31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~   81 (88)
T COG5194          31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWV   81 (88)
T ss_pred             cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeE
Confidence            35677787533222 234566789999999999999985 588999999876

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

Probab=98.30  E-value=3e-07  Score=92.17  Aligned_cols=81  Identities=27%  Similarity=0.646  Sum_probs=65.6

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEE
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWIL  284 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~Il  284 (316)
                      -.||||||.|..+...++...|.|+||-.|+..|..   .+||+||....+ +               +.      ..-+
T Consensus       176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q~p-~---------------~v------e~~~  230 (493)
T KOG0804|consen  176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQSP-S---------------VV------ESSL  230 (493)
T ss_pred             CCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhhhcCc-c---------------hh------hhhh
Confidence            469999999999998999999999999999999953   689999954331 1               11      2346


Q ss_pred             cCCCCCCccccceeeeecCC--CCCCccccc
Q 021224          285 CNDCGKTSNVQFHVLAQKCP--NCKSYNTRL  313 (316)
Q Consensus       285 CnDC~~~s~~~fH~lg~kC~--~C~SyNT~~  313 (316)
                      |..|+...++   |+-+.|+  +||-|+-..
T Consensus       231 c~~c~~~~~L---wicliCg~vgcgrY~egh  258 (493)
T KOG0804|consen  231 CLACGCTEDL---WICLICGNVGCGRYKEGH  258 (493)
T ss_pred             hhhhcccccE---EEEEEccceecccccchh
Confidence            9999988888   8999998  599998653

>PHA02926 zinc finger-like protein; Provisional

Probab=98.29  E-value=4.9e-07  Score=83.98  Aligned_cols=56  Identities=20%  Similarity=0.536  Sum_probs=42.1

Q ss_pred             CCCCCCCCcccccccccC-----CceeEEcCCCCccchhHHHHHHhcC-----CCCCCCCCccccc
Q 021224          200 EGAMHHDCPVCCEYLFET-----RQDVIVLPCGHTIHKNCLKEMREHH-----QYACPICSKSVCD  255 (316)
Q Consensus       200 E~~~~~~CPIClE~lf~s-----~~~~v~LpCGH~fH~~Ci~~wl~~~-----~~~CPiCrks~~d  255 (316)
                      +.+.+..|+||||.+++.     +...++.+|+|.||..||..|.+..     ..+||+||..+..
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            456678999999976542     1224566999999999999998642     2459999987763

>smart00504 Ubox Modified RING finger domain

Probab=98.26  E-value=1e-06  Score=64.68  Aligned_cols=45  Identities=20%  Similarity=0.473  Sum_probs=38.2

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..||||++. ++   ++++++|||+|.++||.+|++. +.+||+|++++.
T Consensus         2 ~~Cpi~~~~-~~---~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEV-MK---DPVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCc-CC---CCEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCC
Confidence            469999995 44   3578899999999999999985 678999998884

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

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

Probab=98.03  E-value=1.6e-06  Score=89.28  Aligned_cols=54  Identities=31%  Similarity=0.644  Sum_probs=43.6

Q ss_pred             CCCCCCCCcccccccccCC-ceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          200 EGAMHHDCPVCCEYLFETR-QDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       200 E~~~~~~CPIClE~lf~s~-~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ....+..|+||+|.|.... ..+..|||||.||..|+..|++. ..+||+||..+.
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~  341 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLY  341 (543)
T ss_pred             hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhh
Confidence            3456889999999887632 12578999999999999999986 589999998443

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

Probab=98.00  E-value=3.7e-06  Score=75.69  Aligned_cols=48  Identities=25%  Similarity=0.754  Sum_probs=38.6

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      -..|||||+.. . .+-++...|||.|+.+||+..++. ...||+|+|-+.
T Consensus       131 ~~~CPiCl~~~-s-ek~~vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt  178 (187)
T KOG0320|consen  131 TYKCPICLDSV-S-EKVPVSTKCGHVFCSQCIKDALKN-TNKCPTCRKKIT  178 (187)
T ss_pred             ccCCCceecch-h-hccccccccchhHHHHHHHHHHHh-CCCCCCcccccc
Confidence            37899999963 2 333466899999999999999985 578999998654

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

Probab=97.99  E-value=1.1e-05  Score=71.56  Aligned_cols=44  Identities=39%  Similarity=1.051  Sum_probs=37.2

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK  251 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrk  251 (316)
                      .+..||||+++ |..  + ++|||||+|+..|+..++. ....||.||.
T Consensus        12 ~~~~C~iC~~~-~~~--p-~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen   12 EELTCPICLEY-FRE--P-VLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             ccccChhhHHH-hhc--C-ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            46789999996 442  2 8999999999999999887 5688999994

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

Probab=97.87  E-value=6.1e-06  Score=79.01  Aligned_cols=47  Identities=28%  Similarity=0.718  Sum_probs=39.2

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ...|.+|||.    +..+...||||.|+-.||.+|... ..-||+||..+..
T Consensus       239 ~~kC~LCLe~----~~~pSaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~p  285 (293)
T KOG0317|consen  239 TRKCSLCLEN----RSNPSATPCGHIFCWSCILEWCSE-KAECPLCREKFQP  285 (293)
T ss_pred             CCceEEEecC----CCCCCcCcCcchHHHHHHHHHHcc-ccCCCcccccCCC
Confidence            4679999984    446778999999999999999975 4669999987754

>TIGR00599 rad18 DNA repair protein rad18

Probab=97.81  E-value=1.2e-05  Score=80.37  Aligned_cols=46  Identities=24%  Similarity=0.699  Sum_probs=38.8

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ...|+||++. +.   .+++++|||.||..||..|+.. ...||+|+..+.
T Consensus        26 ~l~C~IC~d~-~~---~PvitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~   71 (397)
T TIGR00599        26 SLRCHICKDF-FD---VPVLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQ   71 (397)
T ss_pred             ccCCCcCchh-hh---CccCCCCCCchhHHHHHHHHhC-CCCCCCCCCccc
Confidence            5789999995 44   3567899999999999999975 468999998876

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

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

Probab=97.81  E-value=1.4e-05  Score=74.56  Aligned_cols=50  Identities=28%  Similarity=0.662  Sum_probs=38.6

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC--CCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~--~~~CPiCrks~~d  255 (316)
                      ...-+|-||||-   . +++++..|||.|+--||-+||...  ...||+|+..+..
T Consensus        45 ~~~FdCNICLd~---a-kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   45 GGFFDCNICLDL---A-KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CCceeeeeeccc---c-CCCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            456899999983   2 355666699999999999999753  2348999977763

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.76  E-value=2.4e-05  Score=75.96  Aligned_cols=52  Identities=23%  Similarity=0.568  Sum_probs=39.2

Q ss_pred             CCCCcccccccccCCcee-EEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDV-IVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~-v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||+...+.+..-. .+-+|||.||.+|+..++..+...||+|++++..
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk   55 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK   55 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence            457999998655554322 2227999999999999766566789999987763

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

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

Probab=97.74  E-value=2.5e-05  Score=56.30  Aligned_cols=43  Identities=28%  Similarity=0.724  Sum_probs=33.4

Q ss_pred             CCcccccccccCCceeEEcCCC-----CccchhHHHHHHhcC-CCCCCCCC
Q 021224          206 DCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICS  250 (316)
Q Consensus       206 ~CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~~-~~~CPiCr  250 (316)
                      .|-||++  +.+...+.+.||.     |.+|..|+.+|+... +.+||+|+
T Consensus         1 ~CrIC~~--~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD--EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC--CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            3889997  3344566788994     999999999999653 45799995

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

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

Probab=97.69  E-value=7.6e-05  Score=57.50  Aligned_cols=48  Identities=25%  Similarity=0.551  Sum_probs=36.8

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..|||+++ ++.   +++++|+||+|-+.+|.+|+.....+||+++.++..
T Consensus         4 ~f~CpIt~~-lM~---dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    4 EFLCPITGE-LMR---DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGB-TTTSS-B-S---SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             ccCCcCcCc-Hhh---CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            457999998 454   578899999999999999998757899999988864

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 ....

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

Probab=97.57  E-value=1.7e-05  Score=61.02  Aligned_cols=51  Identities=27%  Similarity=0.656  Sum_probs=23.4

Q ss_pred             CCCCcccccccccCC-ceeEEc---CCCCccchhHHHHHHhc---CC-------CCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETR-QDVIVL---PCGHTIHKNCLKEMREH---HQ-------YACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~-~~~v~L---pCGH~fH~~Ci~~wl~~---~~-------~~CPiCrks~~  254 (316)
                      +.+|+||++++.+.. .+.++-   .|+..||..||.+|+..   .+       -+||.|++++.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            467999998765232 333332   69999999999999863   11       24999998875

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

Probab=97.54  E-value=2.1e-05  Score=65.37  Aligned_cols=33  Identities=24%  Similarity=0.509  Sum_probs=28.8

Q ss_pred             eEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          221 VIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       221 ~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ++..-|.|+||..||..||+. +..||++.+.+.
T Consensus        76 VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~eW~  108 (114)
T KOG2930|consen   76 VAWGVCNHAFHFHCISRWLKT-RNVCPLDNKEWV  108 (114)
T ss_pred             EEeeecchHHHHHHHHHHHhh-cCcCCCcCccee
Confidence            456689999999999999985 589999999875

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

Probab=97.39  E-value=6e-05  Score=76.87  Aligned_cols=51  Identities=25%  Similarity=0.706  Sum_probs=38.9

Q ss_pred             CCCCcccccccccC-------------CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFET-------------RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s-------------~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..+|+|||.++..-             ++..++.||.|.||++|+++|+......||+||.++.
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            46899999765211             1235667999999999999999754457999998775

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

Probab=97.38  E-value=0.00011  Score=72.07  Aligned_cols=46  Identities=30%  Similarity=0.823  Sum_probs=39.2

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..|-||.|| |.   -+++.||||+|+.-||..+|.. +..||.|+.++..
T Consensus        24 LRC~IC~ey-f~---ip~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   24 LRCGICFEY-FN---IPMITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTE   69 (442)
T ss_pred             HHHhHHHHH-hc---CceeccccchHHHHHHHHHhcc-CCCCCceecccch
Confidence            469999996 54   4678899999999999999974 6899999988863

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

Probab=97.37  E-value=0.0001  Score=75.29  Aligned_cols=50  Identities=24%  Similarity=0.604  Sum_probs=36.9

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC----CCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH----QYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~----~~~CPiCrks~~d  255 (316)
                      +++..|||||++ ..   -++.+.|||.||..||.+|+...    -..||+|+..+..
T Consensus       184 ~t~~~CPICL~~-~~---~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  184 STDMQCPICLEP-PS---VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CcCCcCCcccCC-CC---cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            347899999986 22   23445599999999999976542    2459999977763

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

Probab=97.20  E-value=0.00015  Score=72.19  Aligned_cols=46  Identities=28%  Similarity=0.680  Sum_probs=37.4

Q ss_pred             CCCCcccccccccCCceeEEcC-CCCccchhHHHHHHhcC--CCCCCCCC
Q 021224          204 HHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREHH--QYACPICS  250 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~Lp-CGH~fH~~Ci~~wl~~~--~~~CPiCr  250 (316)
                      ...|.|| ++++....++..+. |||+||..|+.+|+...  +..||+|+
T Consensus         4 ~A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    4 MAECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             cceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            3579999 55787777777665 99999999999999763  24799999

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

Probab=97.08  E-value=0.00027  Score=67.26  Aligned_cols=47  Identities=28%  Similarity=0.582  Sum_probs=37.3

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHH-HHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKE-MREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~-wl~~~~~~CPiCrks~~  254 (316)
                      +..|+||+|.    ...+...+|||.|+..||.. |.....-.||+||.-..
T Consensus       215 d~kC~lC~e~----~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         215 DYKCFLCLEE----PEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             ccceeeeecc----cCCcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence            5679999984    33577889999999999999 87654334999996554

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

Probab=97.06  E-value=0.00027  Score=54.11  Aligned_cols=56  Identities=21%  Similarity=0.548  Sum_probs=26.8

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchh-HHHHHhHHH
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMS-KVWEKYDRE  266 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~-~~~~~lD~~  266 (316)
                      ..|++|.+.|..   ++.+..|.|.|+..|+.+-+.   +.||+|+.+....+ ...+.||..
T Consensus         8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~~NrqLd~~   64 (65)
T PF14835_consen    8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQINRQLDSM   64 (65)
T ss_dssp             TS-SSS-S--SS----B---SSS--B-TTTGGGGTT---TB-SSS--B-S-SS----HHHHHH
T ss_pred             cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHHhhhhhhcc
Confidence            469999986433   667789999999999998764   45999999885322 123445544

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

Probab=96.93  E-value=0.00021  Score=53.36  Aligned_cols=51  Identities=25%  Similarity=0.679  Sum_probs=39.1

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccchh
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDMS  257 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d~~  257 (316)
                      ..++|.||+|.    .-+.++.-|||. ++.+|-...++...-.||+||.++.+.-
T Consensus         6 ~~dECTICye~----pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvI   57 (62)
T KOG4172|consen    6 WSDECTICYEH----PVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVI   57 (62)
T ss_pred             cccceeeeccC----cchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHH
Confidence            34789999984    224456689998 8999988866655678999999887643

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

Probab=96.73  E-value=0.00086  Score=64.92  Aligned_cols=45  Identities=27%  Similarity=0.620  Sum_probs=37.6

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..|-||.+++.    -+...+|||+|+.-||..+|. .+..||+||.+..
T Consensus        26 lrC~IC~~~i~----ip~~TtCgHtFCslCIR~hL~-~qp~CP~Cr~~~~   70 (391)
T COG5432          26 LRCRICDCRIS----IPCETTCGHTFCSLCIRRHLG-TQPFCPVCREDPC   70 (391)
T ss_pred             HHhhhhhheee----cceecccccchhHHHHHHHhc-CCCCCccccccHH
Confidence            57999999632    356779999999999999997 4689999997765

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

Probab=96.57  E-value=0.0015  Score=64.45  Aligned_cols=49  Identities=31%  Similarity=0.811  Sum_probs=39.5

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ....+|.|||..    .++.++|||-|. ++..|.+...- ....|||||.++..
T Consensus       288 ~~gkeCVIClse----~rdt~vLPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSE----SRDTVVLPCRHLCLCSGCAKSLRY-QTNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecC----CcceEEecchhhehhHhHHHHHHH-hhcCCCccccchHh
Confidence            335789999974    357899999998 99999999752 34689999988864

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

Probab=96.49  E-value=0.00078  Score=64.55  Aligned_cols=52  Identities=23%  Similarity=0.562  Sum_probs=40.4

Q ss_pred             CCCCCcccccccccCC------ceeEEcCCCCccchhHHHHHH-hcCCCCCCCCCcccc
Q 021224          203 MHHDCPVCCEYLFETR------QDVIVLPCGHTIHKNCLKEMR-EHHQYACPICSKSVC  254 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~------~~~v~LpCGH~fH~~Ci~~wl-~~~~~~CPiCrks~~  254 (316)
                      .++.|+||...++.+.      +..-.|.|+|.||.-||.-|- -.+..+||.|++.+.
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            3578999988766554      245678999999999999994 335578999997664

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

Probab=96.47  E-value=0.00081  Score=71.45  Aligned_cols=47  Identities=28%  Similarity=0.721  Sum_probs=40.8

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..||+|-.    ..++.++..|||.||..|++..+...+.+||.|..+|+.
T Consensus       644 LkCs~Cn~----R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  644 LKCSVCNT----RWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             eeCCCccC----chhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            57999995    455778889999999999999887777899999999984

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

Probab=96.40  E-value=0.0024  Score=46.31  Aligned_cols=47  Identities=34%  Similarity=0.699  Sum_probs=25.1

Q ss_pred             CcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccc
Q 021224          207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV  253 (316)
Q Consensus       207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~  253 (316)
                      ||+|.|.+..+......=+||+-+++.|+..-+...+.+||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            79999988555444333467999999999998875568999999864

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

Probab=96.27  E-value=0.00099  Score=65.77  Aligned_cols=80  Identities=21%  Similarity=0.480  Sum_probs=51.0

Q ss_pred             CCCCCCcccccccccCC---ceeEE-cCCCCccchhHHHHHHhcCC------CCCCCCCccccch--hHHHHHhHHHHHc
Q 021224          202 AMHHDCPVCCEYLFETR---QDVIV-LPCGHTIHKNCLKEMREHHQ------YACPICSKSVCDM--SKVWEKYDREIAA  269 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~---~~~v~-LpCGH~fH~~Ci~~wl~~~~------~~CPiCrks~~d~--~~~~~~lD~~ia~  269 (316)
                      ..+..|-||+|.+.+..   ..-.+ ++|.|.|+..||..|.+..+      ..||+||......  +..|-.-.+  +.
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~Wv~t~~--~k  236 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFWVETKE--EK  236 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccceeeeecc--cc
Confidence            55778999999765532   11223 46999999999999984433      5699999776532  223422212  55


Q ss_pred             CCCChhhhcCcceE
Q 021224          270 TPMPEAYLNKKVWI  283 (316)
Q Consensus       270 ~pmP~ey~~~~~~I  283 (316)
                      ++++++|...+...
T Consensus       237 ~~li~e~~~~~s~~  250 (344)
T KOG1039|consen  237 QKLIEEYEAEMSAK  250 (344)
T ss_pred             cccHHHHHHHhhcc
Confidence            56667766654433

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

Probab=96.19  E-value=0.0043  Score=46.19  Aligned_cols=44  Identities=27%  Similarity=0.619  Sum_probs=29.4

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-CCCCCCC
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPI  248 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPi  248 (316)
                      .....|||-+.. +.  +|++...|||+|-++.|.+|++. ....||+
T Consensus         9 ~~~~~CPiT~~~-~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQP-FE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB--S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCCh-hh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            345789999985 43  37888899999999999999943 3467998

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

Probab=96.15  E-value=0.00097  Score=66.72  Aligned_cols=57  Identities=35%  Similarity=0.737  Sum_probs=47.8

Q ss_pred             cccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-CCCCCCCCCcc
Q 021224          195 SHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKS  252 (316)
Q Consensus       195 ~H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPiCrks  252 (316)
                      .|.|++ +++..|-.|.|.+-...+....|||.|.||..|+.++|.. ...+||-||+-
T Consensus       357 a~~~~~-e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  357 AHECVE-ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             HHHHHH-HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            478886 6789999999987777777889999999999999998754 34679999943

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

Probab=96.12  E-value=0.0012  Score=65.09  Aligned_cols=48  Identities=23%  Similarity=0.568  Sum_probs=39.4

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      +..|||||+-|..   ...+.-|+|.|+.+||..-+..++..||.||+.+.
T Consensus        43 ~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~   90 (381)
T KOG0311|consen   43 QVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV   90 (381)
T ss_pred             hhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence            4579999994433   34567899999999999988778889999998876

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

Probab=96.07  E-value=0.0018  Score=64.94  Aligned_cols=54  Identities=30%  Similarity=0.765  Sum_probs=44.0

Q ss_pred             cccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC-CCCCCCCCcccc
Q 021224          197 PCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-QYACPICSKSVC  254 (316)
Q Consensus       197 ~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~-~~~CPiCrks~~  254 (316)
                      .|.-+++=..|-||.|    +.+++.+=||||.++..|+..|-.+. ..+||+||-.+.
T Consensus       362 YceMgsTFeLCKICae----ndKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  362 YCEMGSTFELCKICAE----NDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHccchHHHHHHhhc----cCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            4666777889999998    45678889999999999999997443 578999995553

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

Probab=95.86  E-value=0.0067  Score=58.30  Aligned_cols=54  Identities=28%  Similarity=0.704  Sum_probs=42.3

Q ss_pred             CCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHh-cCCCCCCCCCccccchh
Q 021224          201 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE-HHQYACPICSKSVCDMS  257 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~-~~~~~CPiCrks~~d~~  257 (316)
                      ......||+|.++   +..|-+..+|||.++--|+..-.. ...++||.|+.+...+.
T Consensus       236 ~t~~~~C~~Cg~~---PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq  290 (298)
T KOG2879|consen  236 GTSDTECPVCGEP---PTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ  290 (298)
T ss_pred             ccCCceeeccCCC---CCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence            3557789999985   456778889999999999998432 23589999998877553

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

Probab=95.72  E-value=0.0057  Score=59.42  Aligned_cols=49  Identities=18%  Similarity=0.444  Sum_probs=39.2

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .+..+|+||+...    .-++.|+|+|.|+..||+--.+....+||+||.++.
T Consensus         5 ~~~~eC~IC~nt~----n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid   53 (324)
T KOG0824|consen    5 TKKKECLICYNTG----NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID   53 (324)
T ss_pred             ccCCcceeeeccC----CcCccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence            4567899999742    234899999999999999854445577999999886

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

Probab=95.48  E-value=0.0069  Score=66.28  Aligned_cols=53  Identities=21%  Similarity=0.570  Sum_probs=37.5

Q ss_pred             CCCCCCcccccccc--cCCcee-EEcCCCCccchhHHHHHHhc-CCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLF--ETRQDV-IVLPCGHTIHKNCLKEMREH-HQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf--~s~~~~-v~LpCGH~fH~~Ci~~wl~~-~~~~CPiCrks~~  254 (316)
                      +...+||||..-|.  +..-|. .-..|.|-||..|+-+|+.+ .+.+||+||.++.
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            44789999986443  221122 22358899999999999865 4578999997664

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

Probab=94.88  E-value=0.019  Score=41.01  Aligned_cols=41  Identities=29%  Similarity=0.759  Sum_probs=26.7

Q ss_pred             CcccccccccCCceeEEcCCC-----CccchhHHHHHHhc-CCCCCCCC
Q 021224          207 CPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREH-HQYACPIC  249 (316)
Q Consensus       207 CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~-~~~~CPiC  249 (316)
                      |-||++...+  .+..+.||+     -..|.+|+.+|+.. .+.+|++|
T Consensus         1 CrIC~~~~~~--~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEE--DEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SS--SS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCC--CCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            5689885333  235677884     57899999999864 45679987

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

Probab=94.74  E-value=0.035  Score=56.06  Aligned_cols=49  Identities=24%  Similarity=0.761  Sum_probs=37.3

Q ss_pred             CCCcccccccccCC-ceeEEcCCCCccchhHHHHHHhc-CCCCCCCCCccc
Q 021224          205 HDCPVCCEYLFETR-QDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKSV  253 (316)
Q Consensus       205 ~~CPIClE~lf~s~-~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPiCrks~  253 (316)
                      ..|||||+..-.++ ...+.|.|||.|=.+|++.||-. ....||.|....
T Consensus         5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            57999998765544 34567899999999999999942 124599998443

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

Probab=94.74  E-value=0.01  Score=63.89  Aligned_cols=50  Identities=14%  Similarity=0.376  Sum_probs=39.0

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||+|+.. +..+....-.+|+|.||.+||..|-.. ..+||+||+.|..
T Consensus       123 ~~~CP~Ci~s-~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  123 ENQCPNCLKS-CNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhHHHHH-HHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhhe
Confidence            5679999974 443333445689999999999999764 4789999988863

>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=94.52  E-value=0.019  Score=45.80  Aligned_cols=33  Identities=36%  Similarity=0.850  Sum_probs=27.4

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHH
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLK  236 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~  236 (316)
                      .....|++|...|..  ...++.||||.+|..|++
T Consensus        76 ~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence            446779999998776  367888999999999975

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 [].

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.51  E-value=0.015  Score=43.36  Aligned_cols=33  Identities=39%  Similarity=0.785  Sum_probs=26.6

Q ss_pred             eeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          220 DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       220 ~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .-+++||||.+...|+.-+-.   .-||+|.+++..
T Consensus        19 ~~~~~pCgH~I~~~~f~~~rY---ngCPfC~~~~~~   51 (55)
T PF14447_consen   19 KGTVLPCGHLICDNCFPGERY---NGCPFCGTPFEF   51 (55)
T ss_pred             ccccccccceeeccccChhhc---cCCCCCCCcccC
Confidence            457899999999999887632   349999998864

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

Probab=94.37  E-value=0.037  Score=63.07  Aligned_cols=74  Identities=27%  Similarity=0.578  Sum_probs=53.5

Q ss_pred             cCCCCeeeccCcccceeccccccccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc----C-----C
Q 021224          173 GGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----H-----Q  243 (316)
Q Consensus       173 G~~~~ffHC~~C~~C~s~~l~~~H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~----~-----~  243 (316)
                      ||..|-.||.-|-.|-.-..       ..-.++.|.||+-+ -.+.-|.+.|.|||.||.+|....|..    .     -
T Consensus      3462 GGvkNEE~CLPCl~Cdks~t-------kQD~DDmCmICFTE-~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~F 3533 (3738)
T KOG1428|consen 3462 GGVKNEEHCLPCLHCDKSAT-------KQDADDMCMICFTE-ALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGF 3533 (3738)
T ss_pred             cCccchhhcccccccChhhh-------hcccCceEEEEehh-hhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEee
Confidence            56678888888887754322       12346889999864 445567889999999999999876543    1     1


Q ss_pred             CCCCCCCcccc
Q 021224          244 YACPICSKSVC  254 (316)
Q Consensus       244 ~~CPiCrks~~  254 (316)
                      ..||+|...+.
T Consensus      3534 isCPiC~n~In 3544 (3738)
T KOG1428|consen 3534 ISCPICKNKIN 3544 (3738)
T ss_pred             eecccccchhh
Confidence            35999997765

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

Probab=94.23  E-value=0.036  Score=53.68  Aligned_cols=49  Identities=20%  Similarity=0.522  Sum_probs=39.2

Q ss_pred             CCcccccccccCCceeEE-cCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          206 DCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       206 ~CPIClE~lf~s~~~~v~-LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .||+|.-+.+.+..-... =+|||.++.+|+...+..+.+.||.|.+.+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            599999777766432222 2999999999999998888899999998775

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

Probab=93.95  E-value=0.054  Score=51.36  Aligned_cols=49  Identities=31%  Similarity=0.756  Sum_probs=38.6

Q ss_pred             CCCcccccccccCC---ceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          205 HDCPVCCEYLFETR---QDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       205 ~~CPIClE~lf~s~---~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..|-||-++ |.+.   .-+.+|.|||+|+..|+...+......||.||.+..
T Consensus         4 ~~c~~c~~~-~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~   55 (296)
T KOG4185|consen    4 PECEICNED-YSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTE   55 (296)
T ss_pred             CceeecCcc-ccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCccc
Confidence            458888876 4443   345788999999999999998876667999999853

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

Probab=93.68  E-value=0.064  Score=54.13  Aligned_cols=49  Identities=27%  Similarity=0.756  Sum_probs=39.3

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..+..|-||+.- +-   +++++||||+|+..|+..-+. ...-||+||-.+..
T Consensus        82 ~sef~c~vc~~~-l~---~pv~tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRA-LY---PPVVTPCGHSFCLECLDRSLD-QETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhh-cC---CCccccccccccHHHHHHHhc-cCCCCccccccccc
Confidence            557899999984 33   466779999999999999765 34679999988874

>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional

Probab=93.35  E-value=0.056  Score=40.86  Aligned_cols=43  Identities=37%  Similarity=0.930  Sum_probs=29.8

Q ss_pred             ceeecCCcCccc-------cCCCCCCCCc-cceeecCccccccCCCCCCeeecCCCCc
Q 021224          120 NQVICSLCGTEQ-------KQVCVNCGVC-MGEYFCESCKLFDDDTSKKQYHCDGCGI  169 (316)
Q Consensus       120 ~~v~C~~C~~~Q-------~~~C~~Cg~~-f~~YfC~~C~l~ddd~~k~~yHC~~Cgi  169 (316)
                      ....|..|+.+-       .-.|||||.. ..|  |.+|+-+.     ..|.|++||+
T Consensus         6 ~~~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~R--C~~CRk~~-----~~Y~CP~CGF   56 (59)
T PRK14890          6 EPPKCTSCGIEIAPREKAVKFLCPNCGEVIIYR--CEKCRKQS-----NPYTCPKCGF   56 (59)
T ss_pred             cCccccCCCCcccCCCccCEeeCCCCCCeeEee--chhHHhcC-----CceECCCCCC
Confidence            355788887652       3568899886 543  88886553     4688888885

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

Probab=93.11  E-value=0.058  Score=53.51  Aligned_cols=48  Identities=25%  Similarity=0.611  Sum_probs=35.8

Q ss_pred             cCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          199 VEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       199 ~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .|.+.+.+|.||++.    ....+.+||||.-+  |..-...  ...||+||..+.
T Consensus       300 ~~~~~p~lcVVcl~e----~~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~  347 (355)
T KOG1571|consen  300 RELPQPDLCVVCLDE----PKSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIR  347 (355)
T ss_pred             cccCCCCceEEecCC----ccceeeecCCcEEE--chHHHhh--CCCCchhHHHHH
Confidence            345778999999984    34588999999966  6655533  356999998765

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

Probab=93.05  E-value=0.057  Score=54.10  Aligned_cols=48  Identities=29%  Similarity=0.718  Sum_probs=38.8

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||+|..-+-   +++....|||.|+..|+.+|+.. +..||.|+..+..
T Consensus        21 ~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~   68 (391)
T KOG0297|consen   21 NLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQ   68 (391)
T ss_pred             cccCcccccccc---CCCCCCCCCCcccccccchhhcc-CcCCcccccccch
Confidence            578999997533   24444789999999999999986 6899999987764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.04  E-value=0.032  Score=55.31  Aligned_cols=57  Identities=26%  Similarity=0.604  Sum_probs=44.6

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHH
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVW  260 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~  260 (316)
                      ++.||.|+|+|.-+.+....-|||-.+++-|+....+.-+-+||-||+...+.+..|
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~   70 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRY   70 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeE
Confidence            455999999988776666667899999999988876544678999999887654443

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

Probab=92.53  E-value=0.041  Score=53.75  Aligned_cols=52  Identities=23%  Similarity=0.554  Sum_probs=40.0

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc----------------------CCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----------------------HQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~----------------------~~~~CPiCrks~~d  255 (316)
                      -.+.|.|||= -|.+.....+.+|-|+||..||..||..                      ..-.||+||..+.+
T Consensus       114 p~gqCvICLy-gfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  114 PNGQCVICLY-GFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCceEEEEE-eecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            3578999995 4666667888999999999999887651                      01349999977763

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

Probab=92.49  E-value=0.077  Score=48.54  Aligned_cols=32  Identities=28%  Similarity=0.760  Sum_probs=25.5

Q ss_pred             EcCCCCccchhHHHHHHhc-----CC-----CCCCCCCcccc
Q 021224          223 VLPCGHTIHKNCLKEMREH-----HQ-----YACPICSKSVC  254 (316)
Q Consensus       223 ~LpCGH~fH~~Ci~~wl~~-----~~-----~~CPiCrks~~  254 (316)
                      -..||-.||+-|+.+||..     .+     -.||.|++++.
T Consensus       187 N~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia  228 (234)
T KOG3268|consen  187 NIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA  228 (234)
T ss_pred             ccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence            3579999999999999863     11     24999999885

>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=92.22  E-value=0.07  Score=46.43  Aligned_cols=35  Identities=20%  Similarity=0.514  Sum_probs=30.1

Q ss_pred             CCCCcccccccccCCceeEEcCCC------CccchhHHHHHH
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCG------HTIHKNCLKEMR  239 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCG------H~fH~~Ci~~wl  239 (316)
                      ...|.||++.+.. .+.++.+++|      |.||.+|++.|-
T Consensus        26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            4689999998766 5689999997      779999999993

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.

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

Probab=91.88  E-value=0.12  Score=51.83  Aligned_cols=47  Identities=30%  Similarity=0.672  Sum_probs=39.8

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCC--CCCCCCCcc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQ--YACPICSKS  252 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~--~~CPiCrks  252 (316)
                      ..|||=.| .-+...|++.|.|||.+-++-+..+.+.+.  ++||.|-..
T Consensus       335 F~CPVlKe-qtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  335 FICPVLKE-QTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             eecccchh-hccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            46999888 455667999999999999999999988766  889999753

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

Probab=91.87  E-value=0.029  Score=54.56  Aligned_cols=54  Identities=28%  Similarity=0.693  Sum_probs=36.9

Q ss_pred             cccccccCCCC---CCCCcccccccccCCceeEEcCCCCcc-chhHHHHHHhcCCCCCCCCCccccc
Q 021224          193 KNSHPCVEGAM---HHDCPVCCEYLFETRQDVIVLPCGHTI-HKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       193 ~~~H~C~E~~~---~~~CPIClE~lf~s~~~~v~LpCGH~f-H~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +++|.+-....   +..|.||++    .+.+-+.|+|||.. +.+|-..+     ..|||||+-+..
T Consensus       286 k~~~g~~~~~s~~~~~LC~ICmD----aP~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~r  343 (350)
T KOG4275|consen  286 KGNDGEQHSRSLATRRLCAICMD----APRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIVR  343 (350)
T ss_pred             hcccccccccchhHHHHHHHHhc----CCcceEEeecCcEEeehhhcccc-----ccCchHHHHHHH
Confidence            34444443333   789999997    45678999999973 55554444     269999976554

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

Probab=91.84  E-value=0.19  Score=50.89  Aligned_cols=53  Identities=26%  Similarity=0.429  Sum_probs=38.8

Q ss_pred             ccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-------CCCCCCCCC
Q 021224          196 HPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-------HQYACPICS  250 (316)
Q Consensus       196 H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-------~~~~CPiCr  250 (316)
                      +.+.-+ +-..|-||++. +......+.|||+|.|++.|+..|+..       ...+||-+.
T Consensus       177 ~~~F~~-slf~C~ICf~e-~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  177 LEKFVN-SLFDCCICFEE-QMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             HHHHHh-hcccceeeehh-hcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            444433 34789999984 555567889999999999999998642       235698665

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

Probab=91.77  E-value=0.095  Score=48.68  Aligned_cols=59  Identities=20%  Similarity=0.453  Sum_probs=43.4

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHH
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREI  267 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~i  267 (316)
                      +..|.||.++ +.   .+++..|||.|+..|+-.-.+ ....|-+|.+...-...+.+.+++.+
T Consensus       196 PF~C~iCKkd-y~---spvvt~CGH~FC~~Cai~~y~-kg~~C~~Cgk~t~G~f~V~~d~~kmL  254 (259)
T COG5152         196 PFLCGICKKD-YE---SPVVTECGHSFCSLCAIRKYQ-KGDECGVCGKATYGRFWVVSDLQKML  254 (259)
T ss_pred             ceeehhchhh-cc---chhhhhcchhHHHHHHHHHhc-cCCcceecchhhccceeHHhhHHHHH
Confidence            4589999986 55   356788999999999888554 34789999988765443445555554

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

Probab=91.73  E-value=0.21  Score=48.69  Aligned_cols=60  Identities=25%  Similarity=0.605  Sum_probs=43.8

Q ss_pred             CCCCcccccccccCCceeEEcCC--CCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCCh
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPC--GHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPE  274 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpC--GH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~  274 (316)
                      -.+||||.++|..   +  ++.|  ||..+..|-.+.    ...||.||.++++...  +.++..+++...|=
T Consensus        48 lleCPvC~~~l~~---P--i~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~~R~--~amEkV~e~~~vpC  109 (299)
T KOG3002|consen   48 LLDCPVCFNPLSP---P--IFQCDNGHLACSSCRTKV----SNKCPTCRLPIGNIRC--RAMEKVAEAVLVPC  109 (299)
T ss_pred             hccCchhhccCcc---c--ceecCCCcEehhhhhhhh----cccCCccccccccHHH--HHHHHHHHhceecc
Confidence            4689999997543   3  4556  899999998865    3679999999996532  45666677666553

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

Probab=91.71  E-value=0.12  Score=50.34  Aligned_cols=62  Identities=21%  Similarity=0.443  Sum_probs=44.7

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHH
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIA  268 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia  268 (316)
                      .....|-||.++ |.   .+|+..|||+|+..|...-++. ...|++|.+.+-.....-..|...+.
T Consensus       239 ~~Pf~c~icr~~-f~---~pVvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~g~~~~akeL~~~L~  300 (313)
T KOG1813|consen  239 LLPFKCFICRKY-FY---RPVVTKCGHYFCEVCALKPYQK-GEKCYVCSQQTHGSFNVAKELLVSLK  300 (313)
T ss_pred             cCCccccccccc-cc---cchhhcCCceeehhhhcccccc-CCcceecccccccccchHHHHHHHHH
Confidence            446679999996 43   4678889999999999987763 47899999988643322334444444

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

Probab=91.53  E-value=0.26  Score=46.62  Aligned_cols=51  Identities=31%  Similarity=0.677  Sum_probs=40.2

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-------CCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-------HQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-------~~~~CPiCrks~~d  255 (316)
                      ...+|..|.-.|- ++ +.+-|.|=|.||-.|+++|...       ..|+||-|..++..
T Consensus        49 Y~pNC~LC~t~La-~g-dt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   49 YNPNCRLCNTPLA-SG-DTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCceeCCccc-cC-cceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            4678999987643 33 5677889999999999999653       24899999988863

>TIGR00100 hypA hydrogenase nickel insertion protein HypA

Probab=91.00  E-value=0.16  Score=42.62  Aligned_cols=35  Identities=23%  Similarity=0.601  Sum_probs=28.6

Q ss_pred             cceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224          280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~  316 (316)
                      .+...|++|+.......+  ...||.|||+++++++|
T Consensus        68 p~~~~C~~Cg~~~~~~~~--~~~CP~Cgs~~~~i~~G  102 (115)
T TIGR00100        68 PVECECEDCSEEVSPEID--LYRCPKCHGIMLQVRAG  102 (115)
T ss_pred             CcEEEcccCCCEEecCCc--CccCcCCcCCCcEEecC
Confidence            577999999987766533  35799999999999876

In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=90.53  E-value=0.26  Score=46.62  Aligned_cols=51  Identities=27%  Similarity=0.680  Sum_probs=39.6

Q ss_pred             CCCCCCCcccccccccCCceeEEc-CCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          201 GAMHHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s~~~~v~L-pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ......|||-...| ......+.| ||||.|-..++.+.-  ....||+|.+++.
T Consensus       110 ~~~~~~CPvt~~~~-~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  110 SEGRFICPVTGKEF-NGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFT  161 (260)
T ss_pred             CCceeECCCCCccc-CCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccc
Confidence            35567899999865 444455555 999999999999983  2467999999876

>PF12773 DZR: Double zinc ribbon

Probab=90.11  E-value=0.28  Score=34.62  Aligned_cols=20  Identities=35%  Similarity=0.984  Sum_probs=14.4

Q ss_pred             cCCcCccc---cCCCCCCCCccc
Q 021224          124 CSLCGTEQ---KQVCVNCGVCMG  143 (316)
Q Consensus       124 C~~C~~~Q---~~~C~~Cg~~f~  143 (316)
                      |..|+++.   +..|++||..+.
T Consensus         1 Cp~Cg~~~~~~~~fC~~CG~~l~   23 (50)
T PF12773_consen    1 CPHCGTPNPDDAKFCPHCGTPLP   23 (50)
T ss_pred             CCCcCCcCCccccCChhhcCChh
Confidence            55676663   677888888876

>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional

Probab=89.82  E-value=0.23  Score=41.81  Aligned_cols=36  Identities=31%  Similarity=0.624  Sum_probs=28.8

Q ss_pred             CcceEEcCCCCCCcccc-ceeeeecCCCCCCccccccCC
Q 021224          279 KKVWILCNDCGKTSNVQ-FHVLAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       279 ~~~~IlCnDC~~~s~~~-fH~lg~kC~~C~SyNT~~~~~  316 (316)
                      ..+.+.|++|+...... +++  .+||.|||++..+++|
T Consensus        68 vp~~~~C~~Cg~~~~~~~~~~--~~CP~Cgs~~~~i~~G  104 (117)
T PRK00564         68 EKVELECKDCSHVFKPNALDY--GVCEKCHSKNVIITQG  104 (117)
T ss_pred             cCCEEEhhhCCCccccCCccC--CcCcCCCCCceEEecC
Confidence            35788999999887665 333  4799999999998876

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

Probab=89.55  E-value=0.37  Score=43.18  Aligned_cols=33  Identities=33%  Similarity=0.893  Sum_probs=23.9

Q ss_pred             CCCCcccccccccCCceeEEcCCC-C------------ccchhHHHHHHh
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCG-H------------TIHKNCLKEMRE  240 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCG-H------------~fH~~Ci~~wl~  240 (316)
                      +..||||||.    +-..|+|-|. |            .-|..||+++-+
T Consensus         2 d~~CpICme~----PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEH----PHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccC----CCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            4579999994    2356777773 3            268999999854

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

>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional

Probab=89.38  E-value=0.27  Score=42.39  Aligned_cols=37  Identities=27%  Similarity=0.734  Sum_probs=27.7

Q ss_pred             cceEEcCCCCCCcccc-------------cee------eeecCCCCCCccccccCC
Q 021224          280 KVWILCNDCGKTSNVQ-------------FHV------LAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       280 ~~~IlCnDC~~~s~~~-------------fH~------lg~kC~~C~SyNT~~~~~  316 (316)
                      .....|.+|+......             +|+      ...+||.|||++.++++|
T Consensus        68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G  123 (135)
T PRK03824         68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIVKG  123 (135)
T ss_pred             ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEecC
Confidence            4678999999766443             222      336899999999998876

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

Probab=88.77  E-value=0.17  Score=52.79  Aligned_cols=53  Identities=26%  Similarity=0.597  Sum_probs=42.7

Q ss_pred             ccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc----CCCCCCCCCcccc
Q 021224          198 CVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----HQYACPICSKSVC  254 (316)
Q Consensus       198 C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~----~~~~CPiCrks~~  254 (316)
                      =.|+..+..|-+|-++    .++++.-.|.|.|++-|+.+|+..    .+.+||+|...+.
T Consensus       530 ~~enk~~~~C~lc~d~----aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  530 PDENKGEVECGLCHDP----AEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             CccccCceeecccCCh----hhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            3467778899999985    246778899999999999998753    4578999998775

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

Probab=88.67  E-value=0.12  Score=50.88  Aligned_cols=49  Identities=29%  Similarity=0.667  Sum_probs=39.6

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .....|++|..+|-+   +..+.-|=|+|++.||.++|.. ...||.|.-.+.
T Consensus        13 n~~itC~LC~GYliD---ATTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih   61 (331)
T KOG2660|consen   13 NPHITCRLCGGYLID---ATTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIH   61 (331)
T ss_pred             ccceehhhccceeec---chhHHHHHHHHHHHHHHHHHHH-hccCCccceecc
Confidence            445689999998766   3346679999999999999985 688999996654

>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional

Probab=88.61  E-value=0.31  Score=40.83  Aligned_cols=35  Identities=26%  Similarity=0.685  Sum_probs=27.8

Q ss_pred             cceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224          280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~  316 (316)
                      .....|++|+........  ...||.|||++..+++|
T Consensus        68 p~~~~C~~Cg~~~~~~~~--~~~CP~Cgs~~~~i~~G  102 (113)
T PRK12380         68 PAQAWCWDCSQVVEIHQH--DAQCPHCHGERLRVDTG  102 (113)
T ss_pred             CcEEEcccCCCEEecCCc--CccCcCCCCCCcEEccC
Confidence            567899999987766532  23599999999998876

>PRK03681 hypA hydrogenase nickel incorporation protein; Validated

Probab=88.56  E-value=0.32  Score=40.78  Aligned_cols=36  Identities=17%  Similarity=0.480  Sum_probs=28.1

Q ss_pred             cceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224          280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~  316 (316)
                      .+...|++|+......-+. ...||.|||++++.++|
T Consensus        68 p~~~~C~~Cg~~~~~~~~~-~~~CP~Cgs~~~~i~~G  103 (114)
T PRK03681         68 EAECWCETCQQYVTLLTQR-VRRCPQCHGDMLRIVAD  103 (114)
T ss_pred             CcEEEcccCCCeeecCCcc-CCcCcCcCCCCcEEccC
Confidence            5678999999877664332 14699999999999877

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

Probab=88.23  E-value=0.11  Score=40.45  Aligned_cols=65  Identities=26%  Similarity=0.543  Sum_probs=38.5

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEE
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWIL  284 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~Il  284 (316)
                      ..||.|..+|-..       . ||+.+..|-..+...  ..||-|..++..+.+                   =..++.+
T Consensus         2 ~~CP~C~~~L~~~-------~-~~~~C~~C~~~~~~~--a~CPdC~~~Le~LkA-------------------CGAvdYF   52 (70)
T PF07191_consen    2 NTCPKCQQELEWQ-------G-GHYHCEACQKDYKKE--AFCPDCGQPLEVLKA-------------------CGAVDYF   52 (70)
T ss_dssp             -B-SSS-SBEEEE-------T-TEEEETTT--EEEEE--EE-TTT-SB-EEEEE-------------------TTEEEEE
T ss_pred             CcCCCCCCccEEe-------C-CEEECccccccceec--ccCCCcccHHHHHHH-------------------hccccee
Confidence            5799999864331       1 899999999987653  679999998875421                   2347899


Q ss_pred             cCCCCC---Ccccccee
Q 021224          285 CNDCGK---TSNVQFHV  298 (316)
Q Consensus       285 CnDC~~---~s~~~fH~  298 (316)
                      |+.|.+   ++-|.|.+
T Consensus        53 C~~c~gLiSKkrV~f~~   69 (70)
T PF07191_consen   53 CNHCHGLISKKRVRFEF   69 (70)
T ss_dssp             -TTTT-EE-TTTSEEEE
T ss_pred             eccCCceeecceEEEEe
Confidence            999985   55666653

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

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.90  E-value=0.53  Score=45.09  Aligned_cols=53  Identities=26%  Similarity=0.524  Sum_probs=43.2

Q ss_pred             CCCCCCcccccccccCCceeEEc-CCCCccchhHHHHHHhcCCCCCCCCCccccch
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVCDM  256 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~L-pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~  256 (316)
                      +....||||.+.| ++..+.++| ||||.+..+|.++++.. ...+|++.+++.+.
T Consensus       219 s~ryiCpvtrd~L-tNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  219 SKRYICPVTRDTL-TNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDR  272 (303)
T ss_pred             ccceecccchhhh-cCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCccc
Confidence            3467899999965 455566666 99999999999999874 58899999999864

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

Probab=87.88  E-value=0.51  Score=47.24  Aligned_cols=66  Identities=23%  Similarity=0.450  Sum_probs=45.1

Q ss_pred             ccceeccccccccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-CCCCCCCCCcccc
Q 021224          185 RCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKSVC  254 (316)
Q Consensus       185 ~~C~s~~l~~~H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPiCrks~~  254 (316)
                      +.|....+-++-+=..+..+..|.||.+.    ..-+.++||||.++-.|......- ....||+||..+.
T Consensus        42 nlsaEPnlttsSaddtDEen~~C~ICA~~----~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          42 NLSAEPNLTTSSADDTDEENMNCQICAGS----TTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             ccccCCccccccccccccccceeEEecCC----ceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            45555555444333334557889999984    335678999999999998775321 2356999996654

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

Probab=87.77  E-value=0.38  Score=52.53  Aligned_cols=43  Identities=28%  Similarity=0.701  Sum_probs=32.9

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..|..|--.|..   |.|...|||.||++|+.    .+...||-|+-...
T Consensus       841 skCs~C~~~Ldl---P~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  841 SKCSACEGTLDL---PFVHFLCGHSYHQHCLE----DKEDKCPKCLPELR  883 (933)
T ss_pred             eeecccCCcccc---ceeeeecccHHHHHhhc----cCcccCCccchhhh
Confidence            468888754433   77888899999999999    23478999997443

>PHA02862 5L protein; Provisional

Probab=87.16  E-value=0.45  Score=42.15  Aligned_cols=46  Identities=17%  Similarity=0.466  Sum_probs=33.4

Q ss_pred             CCCCcccccccccCCceeEEcCCC-----CccchhHHHHHHhcC-CCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~~-~~~CPiCrks~~  254 (316)
                      ...|=||.+.-   .++  .-||.     -..|++|+++|+... ...||+|+.++.
T Consensus         2 ~diCWIC~~~~---~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          2 SDICWICNDVC---DER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CCEEEEecCcC---CCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            46788999741   122  35774     569999999999753 356999998775

>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]

Probab=86.12  E-value=0.46  Score=36.12  Aligned_cols=43  Identities=37%  Similarity=0.957  Sum_probs=30.6

Q ss_pred             eeecCCcCccc-------cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224          121 QVICSLCGTEQ-------KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI  169 (316)
Q Consensus       121 ~v~C~~C~~~Q-------~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi  169 (316)
                      ...|..|+.+-       .-.|||||..+ =|-|.+|+.+.     .+|.|++||+
T Consensus         9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe~~-I~Rc~~CRk~g-----~~Y~Cp~CGF   58 (61)
T COG2888           9 PPVCTSCGREIAPGETAVKFPCPNCGEVE-IYRCAKCRKLG-----NPYRCPKCGF   58 (61)
T ss_pred             CceeccCCCEeccCCceeEeeCCCCCcee-eehhhhHHHcC-----CceECCCcCc
Confidence            45788888663       45799999443 35688887663     4688888885

>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation

Probab=86.00  E-value=0.24  Score=41.33  Aligned_cols=35  Identities=26%  Similarity=0.552  Sum_probs=25.2

Q ss_pred             cceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224          280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~  316 (316)
                      .+...|.+|+..+.+..+.  ..||.|+|++.++++|
T Consensus        68 p~~~~C~~Cg~~~~~~~~~--~~CP~Cgs~~~~i~~G  102 (113)
T PF01155_consen   68 PARARCRDCGHEFEPDEFD--FSCPRCGSPDVEIISG  102 (113)
T ss_dssp             --EEEETTTS-EEECHHCC--HH-SSSSSS-EEEEES
T ss_pred             CCcEECCCCCCEEecCCCC--CCCcCCcCCCcEEccC
Confidence            5678999999998777654  5799999999988876

The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.

>PRK04023 DNA polymerase II large subunit; Validated

Probab=85.99  E-value=0.63  Score=51.93  Aligned_cols=48  Identities=27%  Similarity=0.530  Sum_probs=24.5

Q ss_pred             cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccce
Q 021224          132 KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCY  188 (316)
Q Consensus       132 ~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~  188 (316)
                      ...|+.||......+|+.|.-.    ...+|.|+.||.-..+     ..|.+||.=.
T Consensus       626 ~RfCpsCG~~t~~frCP~CG~~----Te~i~fCP~CG~~~~~-----y~CPKCG~El  673 (1121)
T PRK04023        626 RRKCPSCGKETFYRRCPFCGTH----TEPVYRCPRCGIEVEE-----DECEKCGREP  673 (1121)
T ss_pred             CccCCCCCCcCCcccCCCCCCC----CCcceeCccccCcCCC-----CcCCCCCCCC
Confidence            3455555555555555555222    3456666666443221     3466666543

>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=85.84  E-value=0.36  Score=35.19  Aligned_cols=32  Identities=34%  Similarity=0.760  Sum_probs=22.7

Q ss_pred             EcCCC-CccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          223 VLPCG-HTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       223 ~LpCG-H~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+.|. |.++..|+..++.. +..||+|.+++..
T Consensus        15 Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPt   47 (50)
T PF03854_consen   15 LIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPT   47 (50)
T ss_dssp             EEE-SS-EEEHHHHHHT-SS-SSEETTTTEE---
T ss_pred             eeeecchhHHHHHHHHHhcc-ccCCCcccCcCcc
Confidence            66785 99999999999985 5889999998764

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.

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

Probab=85.59  E-value=0.35  Score=37.77  Aligned_cols=33  Identities=27%  Similarity=0.846  Sum_probs=20.9

Q ss_pred             ceeecCCcCccc--cCCCCCCCCcc--------ceeecCcccc
Q 021224          120 NQVICSLCGTEQ--KQVCVNCGVCM--------GEYFCESCKL  152 (316)
Q Consensus       120 ~~v~C~~C~~~Q--~~~C~~Cg~~f--------~~YfC~~C~l  152 (316)
                      ....|..|+..-  ...||.||.++        +.|||..|+=
T Consensus        16 ~~~~C~~C~~~~~~~a~CPdC~~~Le~LkACGAvdYFC~~c~g   58 (70)
T PF07191_consen   16 GHYHCEACQKDYKKEAFCPDCGQPLEVLKACGAVDYFCNHCHG   58 (70)
T ss_dssp             TEEEETTT--EEEEEEE-TTT-SB-EEEEETTEEEEE-TTTT-
T ss_pred             CEEECccccccceecccCCCcccHHHHHHHhcccceeeccCCc
Confidence            478888888774  77899888887        5899998863

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

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=85.20  E-value=0.84  Score=40.93  Aligned_cols=47  Identities=28%  Similarity=0.617  Sum_probs=33.4

Q ss_pred             CCCCCcccccccccCCceeEEcCCC--C---ccchhHHHHHHhcC-CCCCCCCCcccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCG--H---TIHKNCLKEMREHH-QYACPICSKSVC  254 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCG--H---~fH~~Ci~~wl~~~-~~~CPiCrks~~  254 (316)
                      ++..|=||.+..   +  ...-||.  .   ..|++|++.|+..+ ..+||+|+..+.
T Consensus         7 ~~~~CRIC~~~~---~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          7 MDKCCWICKDEY---D--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCeeEecCCCC---C--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            467899998751   1  1234764  3   57999999999753 467999997664

>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=84.95  E-value=0.57  Score=32.87  Aligned_cols=42  Identities=29%  Similarity=0.698  Sum_probs=19.8

Q ss_pred             CcccccccccCCceeEEcCCCCccchhHHHHHHhcCC-CCCCCC
Q 021224          207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQ-YACPIC  249 (316)
Q Consensus       207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~-~~CPiC  249 (316)
                      |.+|.+ +.+-+..-....|+=.+|..|+..|+...+ .+||.|
T Consensus         1 C~~C~~-iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKE-IVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-S-B-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             Ccccch-hHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            556776 333221111124777899999999987533 369987

; PDB: 3NW0_A 2CT0_A.

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

Probab=84.39  E-value=0.39  Score=51.24  Aligned_cols=43  Identities=28%  Similarity=0.716  Sum_probs=35.6

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK  251 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrk  251 (316)
                      ..|+||+..++.++..++.|-|||++++.|++...   +-+|| |..
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly---n~scp-~~~   54 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY---NASCP-TKR   54 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh---hccCC-CCc
Confidence            46999987778888889999999999999999874   35688 553

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=84.36  E-value=0.45  Score=29.84  Aligned_cols=22  Identities=36%  Similarity=1.007  Sum_probs=16.6

Q ss_pred             eeecCCcCccc---cCCCCCCCCcc
Q 021224          121 QVICSLCGTEQ---KQVCVNCGVCM  142 (316)
Q Consensus       121 ~v~C~~C~~~Q---~~~C~~Cg~~f  142 (316)
                      ++.|..|+++-   +..|++||+.+
T Consensus         2 ~~~Cp~Cg~~~~~~~~fC~~CG~~L   26 (26)
T PF13248_consen    2 EMFCPNCGAEIDPDAKFCPNCGAKL   26 (26)
T ss_pred             cCCCcccCCcCCcccccChhhCCCC
Confidence            46788888863   77899998764

>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional

Probab=83.91  E-value=0.73  Score=39.19  Aligned_cols=36  Identities=31%  Similarity=0.608  Sum_probs=26.4

Q ss_pred             cceEEcCCCCCCcccc-c---ee-eeecCCCCCCccccccCC
Q 021224          280 KVWILCNDCGKTSNVQ-F---HV-LAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       280 ~~~IlCnDC~~~s~~~-f---H~-lg~kC~~C~SyNT~~~~~  316 (316)
                      .+...| +|+..+... +   |+ ....||.|||++.++++|
T Consensus        68 p~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G  108 (124)
T PRK00762         68 PVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHILGG  108 (124)
T ss_pred             CeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEecC
Confidence            577899 999875432 1   11 235799999999998876

>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues

Probab=83.69  E-value=0.68  Score=38.81  Aligned_cols=26  Identities=35%  Similarity=0.893  Sum_probs=19.7

Q ss_pred             cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224          132 KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI  169 (316)
Q Consensus       132 ~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi  169 (316)
                      ..+|++||+.|          |  |.+|.+-.|+.||.
T Consensus         9 KR~Cp~CG~kF----------Y--DLnk~PivCP~CG~   34 (108)
T PF09538_consen    9 KRTCPSCGAKF----------Y--DLNKDPIVCPKCGT   34 (108)
T ss_pred             cccCCCCcchh----------c--cCCCCCccCCCCCC
Confidence            46799999966          6  45688888888874

The function of members of this family is unknown.

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

Probab=82.82  E-value=0.78  Score=45.15  Aligned_cols=44  Identities=30%  Similarity=0.763  Sum_probs=34.4

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK  251 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrk  251 (316)
                      ..||.|.- |..  .+...--|||.|+.+||..-|....+.||.|.+
T Consensus       275 LkCplc~~-Llr--np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHC-LLR--NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhh-hhh--CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            67999987 333  355565689999999999865545799999986

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

Probab=82.79  E-value=0.82  Score=49.70  Aligned_cols=48  Identities=21%  Similarity=0.468  Sum_probs=33.1

Q ss_pred             ccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCC
Q 021224          198 CVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPI  248 (316)
Q Consensus       198 C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPi  248 (316)
                      |+-......|.||--.+.  +...+-+.|||.+|..|+.+|+..+ -.||.
T Consensus      1022 ~~~~~~~~~C~~C~l~V~--gss~~Cg~C~Hv~H~sc~~eWf~~g-d~Cps 1069 (1081)
T KOG0309|consen 1022 AICKGFTFQCAICHLAVR--GSSNFCGTCGHVGHTSCMMEWFRTG-DVCPS 1069 (1081)
T ss_pred             cccccceeeeeeEeeEee--ccchhhccccccccHHHHHHHHhcC-CcCCC
Confidence            333344456899874332  3345667899999999999999854 57773

>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]

Probab=82.49  E-value=1  Score=38.32  Aligned_cols=36  Identities=31%  Similarity=0.632  Sum_probs=29.6

Q ss_pred             CcceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224          279 KKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       279 ~~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~  316 (316)
                      ..+.+.|-+|+......-|.+.  ||.|+|-|.++++|
T Consensus        67 ~p~~~~C~~C~~~~~~e~~~~~--CP~C~s~~~~i~~G  102 (115)
T COG0375          67 EPAECWCLDCGQEVELEELDYR--CPKCGSINLRIIGG  102 (115)
T ss_pred             eccEEEeccCCCeecchhheeE--CCCCCCCceEEecC
Confidence            3578999999887766666554  99999999999876

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

Probab=81.21  E-value=0.62  Score=44.04  Aligned_cols=37  Identities=30%  Similarity=0.737  Sum_probs=27.6

Q ss_pred             ccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          215 FETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       215 f~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      +.+..+--++.|+|.|+..|...-..   ..||+|++++.
T Consensus        12 ~~~~~~f~LTaC~HvfC~~C~k~~~~---~~C~lCkk~ir   48 (233)
T KOG4739|consen   12 FPSQDPFFLTACRHVFCEPCLKASSP---DVCPLCKKSIR   48 (233)
T ss_pred             cCCCCceeeeechhhhhhhhcccCCc---cccccccceee
Confidence            33444555778999999999887432   38999999864

>PRK14714 DNA polymerase II large subunit; Provisional

Probab=80.47  E-value=1.6  Score=49.89  Aligned_cols=31  Identities=35%  Similarity=0.889  Sum_probs=16.1

Q ss_pred             eecCCcCccc-cCCCCCCCCcc-ceeecCcccc
Q 021224          122 VICSLCGTEQ-KQVCVNCGVCM-GEYFCESCKL  152 (316)
Q Consensus       122 v~C~~C~~~Q-~~~C~~Cg~~f-~~YfC~~C~l  152 (316)
                      ..|..|+++. ...|+.||... ..|+|+.|..
T Consensus       668 rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGa  700 (1337)
T PRK14714        668 RRCPSCGTETYENRCPDCGTHTEPVYVCPDCGA  700 (1337)
T ss_pred             EECCCCCCccccccCcccCCcCCCceeCccCCC
Confidence            4566666554 44566665554 2344555543

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

Probab=80.30  E-value=1.1  Score=44.90  Aligned_cols=51  Identities=22%  Similarity=0.544  Sum_probs=40.9

Q ss_pred             CCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       200 E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..+.+..||||.-.    ....+.-||||.-+..||.+.+.. ...|=.|+.++.+
T Consensus       418 p~sEd~lCpICyA~----pi~Avf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~~  468 (489)
T KOG4692|consen  418 PDSEDNLCPICYAG----PINAVFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVID  468 (489)
T ss_pred             CCcccccCcceecc----cchhhccCCCCchHHHHHHHHHhc-CCeeeEecceeee
Confidence            34667899999852    234677899999999999998874 5789999988876

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	316
2k2c_A	137	Solution Nmr Structure Of N-Terminal Domain Of Huma		1e-16
2dkt_A	143	Solution Structure Of The Chy Zinc Finger Domain Of		1e-16
2k2d_A	79	Solution Nmr Structure Of C-Terminal Domain Of Huma		3e-14
2ecm_A	55	Solution Structure Of The Ring Domain Of The Ring F		1e-04
2jrj_A	52	Solution Structure Of The Human Pirh2 Ring-H2 Domai		2e-04

>pdb|2K2C|A Chain A, Solution Nmr Structure Of N-Terminal Domain Of Human Pirh2. Northeast Structural Genomics Consortium (Nesg) Target Ht2a Length = 137

Iteration: 1
 Score = 84.0 bits (206), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 50/130 (38%), Positives = 67/130 (51%), Gaps = 13/130 (10%)
Query: 72  GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
           GC+HY R C ++APCC++++ CR CH         D    H + R +V +V C  C   Q
Sbjct: 19  GCEHYDRGCLLKAPCCDKLYTCRLCH---------DNNEDHQLDRFKVKEVQCINCEKIQ 69
Query: 132 --KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYS 189
             +Q C  C    GEY+C+ C LFD D  KKQYH             +FFHC KC  C +
Sbjct: 70  HAQQTCEECSTLFGEYYCDICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLA 127
Query: 190 MLLKNSHPCV 199
           M L+  H C+
Sbjct: 128 MNLQGRHKCI 137

>pdb|2DKT|A Chain A, Solution Structure Of The Chy Zinc Finger Domain Of The Ring Finger And Chy Zinc Finger Domain-Containing Protein 1 From Mus Musculus Length = 143

Iteration: 1
 Score = 84.0 bits (206), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 49/133 (36%), Positives = 67/133 (50%), Gaps = 13/133 (9%)
Query: 72  GCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 131
           GC+HY R C ++APCC++++ CR CH         D    H + R +V +V C  C   Q
Sbjct: 18  GCEHYDRACLLKAPCCDKLYTCRLCH---------DTNEDHQLDRFKVKEVQCINCEKLQ 68
Query: 132 --KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYS 189
             +Q C +C    GEY+C  C LFD D  K+QYH             +FFHC KC  C +
Sbjct: 69  HAQQTCEDCSTLFGEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLT 126
Query: 190 MLLKNSHPCVEGA 202
             L+  H C+E  
Sbjct: 127 TNLRGKHKCIESG 139

>pdb|2K2D|A Chain A, Solution Nmr Structure Of C-Terminal Domain Of Human Pirh2. Northeast Structural Genomics Consortium (Nesg) Target Ht2c Length = 79

Iteration: 1
 Score = 75.9 bits (185), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 34/65 (52%), Positives = 40/65 (61%)
Query: 252 SVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNT 311
           S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+SYNT
Sbjct: 7   SALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESYNT 66
Query: 312 RLTRG 316
               G
Sbjct: 67  AQAGG 71

>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger And Chy Zinc Finger Domain-Containing Protein 1 From Mus Musculus Length = 55

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 250
            CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+CS
Sbjct: 7   GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCS 50

>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain. Northeast Structural Genomics Consortium Target Ht2b Length = 52

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKS 252
           E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C  S
Sbjct: 1   ENVSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCMHS 52

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	316
2dkt_A	143	Ring finger and CHY zinc finger domain- containing	1e-38
2k2d_A	79	Ring finger and CHY zinc finger domain- containing	5e-29
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-14
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	4e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-04
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-04
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	8e-04

>2dkt_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.89.1.1 g.93.1.1 PDB: 2k2c_A Length = 143

 Score =  132 bits (334), Expect = 1e-38
 Identities = 56/138 (40%), Positives = 77/138 (55%), Gaps = 13/138 (9%)

Query: 69  MEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCG 128
              GC+HY R C ++APCC++++ CR CH+   +         H + R +V +V C  C 
Sbjct: 15  GPRGCEHYDRACLLKAPCCDKLYTCRLCHDTNED---------HQLDRFKVKEVQCINCE 65

Query: 129 TEQK--QVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRC 186
             Q   Q C +C    GEY+C  C LFD D  K+QYHC+ CGICRIG  ++FFHC KC  
Sbjct: 66  KLQHAQQTCEDCSTLFGEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNL 123

Query: 187 CYSMLLKNSHPCVEGAMH 204
           C +  L+  H C+E    
Sbjct: 124 CLTTNLRGKHKCIESGPS 141

>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens} Length = 79

 Score =  105 bits (264), Expect = 5e-29
 Identities = 34/69 (49%), Positives = 40/69 (57%)

Query: 248 ICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCK 307
               S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+
Sbjct: 3   HMMHSALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICE 62

Query: 308 SYNTRLTRG 316
           SYNT    G
Sbjct: 63  SYNTAQAGG 71

>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 = 66.1 bits (162), Expect = 1e-14
 Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 201 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253
            +    CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+CS   
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPS 53

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 48.2 bits (114), Expect = 2e-06
 Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 4/67 (5%)

Query: 193 KNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKS 252
           +    C  G+    C +C     E  +DV + PCGH +  +CL   +E     CP C   
Sbjct: 321 QYELYCEMGSTFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 376

Query: 253 VCDMSKV 259
           +     +
Sbjct: 377 IKGTEPI 383

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

 Score = 41.6 bits (98), Expect = 2e-05
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)

Query: 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYA--CPICSKSV 253
           CP+C E   E +    +L CGHTI + CL+++         CP CSK  
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT 66

>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 = 42.6 bits (100), Expect = 2e-05
 Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 4/44 (9%)

Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
            C +C E L E     + LPC HT+ K C +   E     CP C
Sbjct: 17  QCGICMEILVEP----VTLPCNHTLCKPCFQSTVEKASLCCPFC 56

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

 Score = 40.5 bits (94), Expect = 4e-05
 Identities = 16/61 (26%), Positives = 26/61 (42%)

Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDR 265
           +CP+C E L     +     CG+ I + C   +R      CP C K   +   V++   +
Sbjct: 13  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPLSQ 72

Query: 266 E 266
           E
Sbjct: 73  E 73

>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 = 41.1 bits (96), Expect = 5e-05
 Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253
            C  C E +F      I   C H + K+CL        ++CP C   +
Sbjct: 54  QCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

>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 = 11/43 (25%), Positives = 21/43 (48%), Gaps = 4/43 (9%)

Query: 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249
           C  C E +++     +   C H + K+CL+   +   ++CP C
Sbjct: 81  CVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPAC 119

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

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 4/59 (6%)

Query: 200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKE-MREHHQYACPICSKSVCDMS 257
           E  +H  C VC E  F+ R ++ + PC H  H+ CL + +       CP+C+  V  ++
Sbjct: 11  ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLIKWLEVRKV--CPLCNMPVLQLA 66

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.6 bits (94), Expect = 7e-04
 Identities = 47/305 (15%), Positives = 78/305 (25%), Gaps = 98/305 (32%)

Query: 15  HHSSHQQFE--PMSTSCK------ADEIFSTPSYSHLAD--REFLVTEE-------STNH 57
           HH  H  FE        K       D          + D  +  L  EE           
Sbjct: 2   HHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV 61

Query: 58  NGS----TELLRKG------FME------YG--CQHYRRRCRIRAPCCNEIFDCRHCHNE 99
           +G+      LL K       F+E      Y       +   R  +       + R   + 
Sbjct: 62  SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR---DR 118

Query: 100 AMNNINVDQKLRHDIPRHE----VNQVICSL-------------CGTEQKQVCVNCGVCM 142
             N+  V  K  +++ R +    + Q +  L              G   K          
Sbjct: 119 LYNDNQVFAK--YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG---KTWVAL----- 168

Query: 143 GEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSH---PCV 199
                + C       S K        I  +    N  +CN       ML K  +   P  
Sbjct: 169 -----DVCL------SYKVQCKMDFKIFWL----NLKNCNSPETVLEMLQKLLYQIDPNW 213

Query: 200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKV 259
                H   +  +    + Q  +        ++NCL  +              V + +K 
Sbjct: 214 TSRSDHSSNI--KLRIHSIQAELRRLLKSKPYENCLLVLLN------------VQN-AKA 258

Query: 260 WEKYD 264
           W  ++
Sbjct: 259 WNAFN 263

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

 Score = 36.9 bits (86), Expect = 8e-04
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKE-MREHHQYACPICSKSV 253
            CP+CC   +        LPC H  HK C+   +++     CP+C    
Sbjct: 42  CCPICCS-EYVKGDVATELPCHHYFHKPCVSIWLQKSG--TCPVCRCMF 87

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	316
2dkt_A	143	Ring finger and CHY zinc finger domain- containing	100.0
2k2d_A	79	Ring finger and CHY zinc finger domain- containing	99.92
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.34
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.29
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.24
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.23
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.21
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.19
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.18
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.17
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.16
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.11
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.1
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.08
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.04
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.03
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.02
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.02
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.02
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.0
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.99
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.96
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.96
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.95
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.95
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.94
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.93
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.92
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.89
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.88
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.88
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.86
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.85
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.84
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.83
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.83
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.82
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.82
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.82
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.82
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.78
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.76
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.76
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.74
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.65
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.61
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.6
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.58
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.57
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.56
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.56
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.54
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.53
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.52
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.49
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.48
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.42
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.37
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.34
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.32
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.3
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.29
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.19
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.1
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	97.96
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.85
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	97.79
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.64
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.62
3nw0_A	238	Non-structural maintenance of chromosomes element	95.87
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	91.84
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	88.71
3a43_A	139	HYPD, hydrogenase nickel incorporation protein HYP	87.75
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	87.33
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	86.86
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	84.44
2kdx_A	119	HYPA, hydrogenase/urease nickel incorporation prot	82.87
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	81.16

>2dkt_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.89.1.1 g.93.1.1 PDB: 2k2c_A

Probab=100.00  E-value=3.6e-53  Score=363.94  Aligned_cols=133  Identities=41%  Similarity=1.031  Sum_probs=126.2

Q ss_pred             hhhccCCCccCCcccccCcceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCCCCC
Q 021224           62 ELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCG  139 (316)
Q Consensus        62 ~~~~~~~~~~gC~HY~r~c~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~~Cg  139 (316)
                      ..+|++.+++||+||+|+|+|+||||++|||||+||||+         ++|+++|+.+++|+||.|+++|  ++.|++||
T Consensus         8 ~~~~~~~~~~gC~HY~r~~~lr~pCC~k~y~Cr~CHde~---------~dH~l~r~~~~~vlCg~C~~~q~~~~~C~~Cg   78 (143)
T 2dkt_A            8 GVRNLAQGPRGCEHYDRACLLKAPCCDKLYTCRLCHDTN---------EDHQLDRFKVKEVQCINCEKLQHAQQTCEDCS   78 (143)
T ss_dssp             CCCCCCCCSSSCSSCCCSEEEEETTTTEEESSHHHHHHT---------SSSCCCSSSCCCEEESSSCCEECSCSBCSSSC
T ss_pred             cccccccCcCCCcccCCCeeEECCCCCCccchhhhhccc---------cccccchhccceeeecccCccccccCcCCCCC
Confidence            455788889999999999999999999999999999996         3799999999999999999999  88999999


Q ss_pred             CccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccceeccccccccccCCCCCC
Q 021224          140 VCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHH  205 (316)
Q Consensus       140 ~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~E~~~~~  205 (316)
                      +.||+|||+||||||  ++|+||||++|||||+|++++||||++||+||+++|+++|+|+|+++++
T Consensus        79 ~~f~~Y~C~~C~l~d--~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~e~~~~s  142 (143)
T 2dkt_A           79 TLFGEYYCSICHLFD--KDKRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCIESGPSS  142 (143)
T ss_dssp             CBSCSEECSSSCCEE--CSSSEEEETTTTEEEESCGGGEEEETTTTEEEEGGGSSSSCCSCCCSCC
T ss_pred             ccceeeEeceeeccc--CCCceecCCCCCceeccCCcCcEECCcCCeeeccccCcCcccCccCccC
Confidence            999999999999997  4699999999999999999999999999999999999999999998864

>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens}

Probab=99.92  E-value=4.7e-27  Score=183.85  Aligned_cols=71  Identities=48%  Similarity=0.832  Sum_probs=38.1

Q ss_pred             CCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224          246 CPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       246 CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~  316 (316)
                      ||+|+|++.||+.+|++||++|+++|||++|++++++|+||||+++|.++||||||||+.|+||||++++|
T Consensus         1 ~~~c~ks~~dm~~~~~~lD~~ia~~pmP~~y~~~~v~I~CnDC~~~s~v~~h~lg~kC~~C~SyNTr~~~G   71 (79)
T 2k2d_A            1 GSHMMHSALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESYNTAQAGG   71 (79)
T ss_dssp             --------------------------------CCEEEEEESSSCCEEEEECCTTCCCCTTTSCCCEEESCC
T ss_pred             CCcccccHHHHHHHHHHHHHHHHhCCCCHHHhCCEeEEECCCCCCCccCCceeecccCcCCCCcCeEecCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999976

>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=99.34  E-value=6.9e-13  Score=93.42  Aligned_cols=52  Identities=38%  Similarity=0.911  Sum_probs=44.9

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      +.+..||||++.+.++...+++++|||.||..|+.+|+... .+||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT-CCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC-CcCCCCCCcCC
Confidence            45688999999876666678899999999999999999864 89999998764

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

Probab=99.29  E-value=1.9e-12  Score=99.67  Aligned_cols=52  Identities=19%  Similarity=0.436  Sum_probs=39.4

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ++..||||++++......+++++|||.||.+||.+|+.. +.+||+||+++..
T Consensus        25 ~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   76 (81)
T 2ecl_A           25 VMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ-NNRCPLCQQDWVV   76 (81)
T ss_dssp             TTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT-CCBCTTTCCBCCE
T ss_pred             hhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh-CCCCCCcCCCcch
Confidence            356688888864443333344469999999999999985 4799999998763

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

Probab=99.24  E-value=4.6e-12  Score=89.31  Aligned_cols=49  Identities=33%  Similarity=0.790  Sum_probs=41.0

Q ss_pred             CCCCcccccccccCCceeEEcC-CCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~Lp-CGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      +..|+||++.+ ...+.++.++ |||.||..|+.+|++. +.+||+||+++.
T Consensus         5 ~~~C~IC~~~~-~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~   54 (55)
T 1iym_A            5 GVECAVCLAEL-EDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             SCCCTTTCCCC-CTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCcCccCCccc-cCCCceEECCCCCCcccHHHHHHHHHc-CCcCcCCCCEeE
Confidence            56899999964 4455677887 9999999999999975 589999998764

>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=99.23  E-value=7.9e-12  Score=92.15  Aligned_cols=53  Identities=28%  Similarity=0.659  Sum_probs=44.3

Q ss_pred             CCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          201 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ...+..|+||++. +.....++.+||||.||..||.+|+.. +.+||+||+.+..
T Consensus        11 ~~~~~~C~IC~~~-~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           11 EDTEEKCTICLSI-LEEGEDVRRLPCMHLFHQVCVDQWLIT-NKKCPICRVDIEA   63 (69)
T ss_dssp             TTCCCSBTTTTBC-CCSSSCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCSBSCS
T ss_pred             CCCCCCCeeCCcc-ccCCCcEEEeCCCCHHHHHHHHHHHHc-CCCCcCcCccccC
Confidence            3456789999996 455567889999999999999999985 4789999998764

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

Probab=99.21  E-value=1e-11  Score=92.72  Aligned_cols=55  Identities=35%  Similarity=0.800  Sum_probs=45.8

Q ss_pred             CCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccch
Q 021224          200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDM  256 (316)
Q Consensus       200 E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~  256 (316)
                      +...+..|+||++. +.....+++|||||.||..||.+|+.. +.+||+||+++..+
T Consensus        11 ~~~~~~~C~IC~~~-~~~~~~~~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           11 ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLIKWLEV-RKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCSCBCSSSCCB-CCSSSCEEEETTTEEEEHHHHHHHHHH-CSBCTTTCCBCSSC
T ss_pred             cCCCCCCCcCCCcc-cCCCCcEEEcCCCCEecHHHHHHHHHc-CCcCCCcCcccccc
Confidence            44557899999996 555567788899999999999999986 46999999998764

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

Probab=99.19  E-value=8.1e-12  Score=93.82  Aligned_cols=52  Identities=35%  Similarity=0.715  Sum_probs=44.0

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .....|+||++. +.....++.|||||.||..||.+|+.. +.+||+||+++..
T Consensus        21 ~~~~~C~IC~~~-~~~~~~~~~l~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCD-FESRQLLRVLPCNHEFHAKCVDKWLKA-NRTCPICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEE-CCBTCEEEEETTTEEEETTHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCCeECCcc-cCCCCeEEEECCCCHhHHHHHHHHHHc-CCcCcCcCCcCCC
Confidence            346789999996 555567889999999999999999985 5799999998864

>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=99.18  E-value=1.3e-11  Score=99.31  Aligned_cols=55  Identities=27%  Similarity=0.474  Sum_probs=42.1

Q ss_pred             CCCCCCcccccccccCC--------------ceeEEcCCCCccchhHHHHHHhc----CCCCCCCCCccccch
Q 021224          202 AMHHDCPVCCEYLFETR--------------QDVIVLPCGHTIHKNCLKEMREH----HQYACPICSKSVCDM  256 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~--------------~~~v~LpCGH~fH~~Ci~~wl~~----~~~~CPiCrks~~d~  256 (316)
                      ..+..||||++++....              ..+++++|||.||..||.+|+..    .+.+||+||+.+...
T Consensus        23 ~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            34578999999764321              23457899999999999999952    357899999988753

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

Probab=99.17  E-value=1.7e-11  Score=96.02  Aligned_cols=52  Identities=27%  Similarity=0.662  Sum_probs=43.5

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..+..|+||++. +.....++.|||||.||..||.+|+.. +.+||+||+++..
T Consensus        38 ~~~~~C~IC~~~-~~~~~~~~~l~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSE-YVKGDVATELPCHHYFHKPCVSIWLQK-SGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEE-CCTTCEEEEETTTEEEEHHHHHHHHTT-TCBCTTTCCBSSC
T ss_pred             CCCCCCcccChh-hcCCCcEEecCCCChHHHHHHHHHHHc-CCcCcCcCccCCC
Confidence            346789999996 455567888999999999999999985 5799999998753

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

Probab=99.16  E-value=2e-11  Score=92.02  Aligned_cols=52  Identities=35%  Similarity=0.802  Sum_probs=43.7

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..+..|+||++. +.....+++|+|||.||..||.+|+.. +.+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~-~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   64 (78)
T 2ect_A           13 GSGLECPVCKED-YALGESVRQLPCNHLFHDSCIVPWLEQ-HDSCPVCRKSLTG   64 (78)
T ss_dssp             SSSCCCTTTTSC-CCTTSCEEECTTSCEEETTTTHHHHTT-TCSCTTTCCCCCC
T ss_pred             CCCCCCeeCCcc-ccCCCCEEEeCCCCeecHHHHHHHHHc-CCcCcCcCCccCC
Confidence            346789999996 555567788999999999999999975 5899999998875

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

Probab=99.14  E-value=3.3e-11  Score=88.12  Aligned_cols=52  Identities=23%  Similarity=0.560  Sum_probs=41.9

Q ss_pred             CCCCccccc-ccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCE-YLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE-~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++ .+.......++++|||+||..|+.+|+.....+||+||+++..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            567999999 5544434446789999999999999976556789999998864

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

Probab=99.13  E-value=2.7e-11  Score=89.19  Aligned_cols=53  Identities=25%  Similarity=0.664  Sum_probs=42.9

Q ss_pred             CCCCCCcccccccccC---CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s---~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..+..||||++.+.+.   ...++.++|||.||..|+.+|++. +.+||+||+++..
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   63 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc-CCCCCCCCCccCh
Confidence            4467899999975442   244588999999999999999985 4799999998864

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

Probab=99.12  E-value=3.2e-11  Score=87.99  Aligned_cols=52  Identities=25%  Similarity=0.674  Sum_probs=42.1

Q ss_pred             CCCCCCcccccccccC---CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s---~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .....||||++.+.+.   ...+++++|||.||..||.+|+.. +.+||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~   67 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKIN   67 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH-CSSCTTTCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc-CCCCCCCCCccC
Confidence            3467899999975432   234588999999999999999985 579999999875

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

Probab=99.11  E-value=4.2e-11  Score=86.15  Aligned_cols=51  Identities=25%  Similarity=0.706  Sum_probs=41.8

Q ss_pred             CCCCccccccccc---CCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFE---TRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~---s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++.+.+   +.+.++.++|||.||..|+.+|++. +.+||+||+++..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   56 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   56 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH-CSBCTTTCCBCTT
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc-CCCCCCCCccCCc
Confidence            5689999997543   1244588999999999999999985 5799999998864

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

Probab=99.10  E-value=6.8e-11  Score=90.32  Aligned_cols=53  Identities=34%  Similarity=0.706  Sum_probs=43.1

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC--CCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~--~~~CPiCrks~~d  255 (316)
                      ....||||++.+.++...+++++|||.||..|+.+|+...  ..+||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             CCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            3578999999755444447889999999999999999753  4789999998764

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

Probab=99.08  E-value=1.5e-10  Score=87.14  Aligned_cols=49  Identities=16%  Similarity=0.478  Sum_probs=41.3

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..+..||||++. +.   ++++++|||+||+.||.+|+..+..+||+||+++.
T Consensus         6 ~~~~~C~IC~~~-~~---~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~   54 (78)
T 1t1h_A            6 PEYFRCPISLEL-MK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL   54 (78)
T ss_dssp             SSSSSCTTTSCC-CS---SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS
T ss_pred             cccCCCCCcccc-cc---CCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCC
Confidence            346789999995 44   46778999999999999999865689999999885

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

Probab=99.08  E-value=6.7e-11  Score=86.73  Aligned_cols=49  Identities=27%  Similarity=0.655  Sum_probs=41.1

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+..||||++.+ .  .+++.+||||.||..|+.+|+.. +.+||+||+++..
T Consensus         4 ~~~~C~IC~~~~-~--~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDP-S--NYSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCC-C--SCEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccc-c--CCcEecCCCCeeHHHHHHHHHhC-cCcCcCCChhhHh
Confidence            357899999963 3  25689999999999999999975 4799999998874

>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=99.04  E-value=1.6e-10  Score=94.10  Aligned_cols=34  Identities=21%  Similarity=0.457  Sum_probs=30.1

Q ss_pred             eeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          220 DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       220 ~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .++.++|||.||..||.+||.. +.+||+||+++.
T Consensus        67 ~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~~~  100 (106)
T 3dpl_R           67 TVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  100 (106)
T ss_dssp             CEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCC
T ss_pred             eEeecccCcEECHHHHHHHHHc-CCcCcCCCCcce
Confidence            4677899999999999999985 689999999864

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

Probab=99.03  E-value=1.2e-10  Score=86.57  Aligned_cols=49  Identities=20%  Similarity=0.529  Sum_probs=40.7

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..+..||||++.+ .   .++.++|||.||..||.+|+.. ..+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~-~---~~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTC-V---HPVSLPCKHVFCYLCVKGASWL-GKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBC-S---SEEEETTTEEEEHHHHHHCTTC-SSBCSSSCCBCCH
T ss_pred             CCCCCCccCCccc-C---CCEEccCCCHHHHHHHHHHHHC-CCcCcCcCchhCH
Confidence            3467899999953 3   3578899999999999999975 5899999998874

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

Probab=99.02  E-value=1.6e-10  Score=87.94  Aligned_cols=48  Identities=23%  Similarity=0.544  Sum_probs=40.2

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .....||||++. +.   .+++++|||+||..|+.+|+.. ..+||+||+++.
T Consensus        13 ~~~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQA-FQ---NPVVTKCRHYFCESCALEHFRA-TPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSB-CC---SEEECTTSCEEEHHHHHHHHHH-CSBCSSSCCBCC
T ss_pred             CCCCCCcCCCch-hc---CeeEccCCCHhHHHHHHHHHHC-CCcCCCcCcccc
Confidence            345689999996 43   3567999999999999999975 589999999986

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

Probab=99.02  E-value=2.2e-10  Score=84.86  Aligned_cols=50  Identities=26%  Similarity=0.775  Sum_probs=40.6

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc--CCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~--~~~~CPiCrks~~d  255 (316)
                      ..+..||||++. +.   ++++++|||.||..|+..|+..  ...+||+||+.+..
T Consensus        18 ~~~~~C~IC~~~-~~---~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           18 QEEVICPICLDI-LQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCBCTTTCSB-CS---SEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             ccCCEeccCCcc-cC---CeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            346789999995 43   4677899999999999999962  45789999998763

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

Probab=99.02  E-value=2.9e-11  Score=93.29  Aligned_cols=58  Identities=29%  Similarity=0.646  Sum_probs=43.9

Q ss_pred             CCCCCCcccccccccCCceeEEcC--CCCccchhHHHHHHhcCCCCCCCCCccccchhHHHH
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLP--CGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE  261 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~Lp--CGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~  261 (316)
                      ..+..||||+|++..  .+++++|  |||.|++.|+..++....+.||+||+++......|+
T Consensus         9 ~~~~~CpICle~~~~--~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~~   68 (78)
T 1e4u_A            9 EDPVECPLCMEPLEI--DDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYK   68 (78)
T ss_dssp             CCCCBCTTTCCBCCT--TTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCCC
T ss_pred             ccCCcCCccCccCcc--ccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchhhc
Confidence            346789999996432  2344555  999999999999876566899999999987554443

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

Probab=99.00  E-value=1.7e-10  Score=84.46  Aligned_cols=49  Identities=18%  Similarity=0.477  Sum_probs=40.0

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+..||||++. +.   +++.++|||.||..|+.+|+.....+||+||+++..
T Consensus        14 ~~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           14 DKYKCEKCHLV-LC---SPKQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             CCEECTTTCCE-ES---SCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             cCCCCCCCChH-hc---CeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            35789999995 43   345589999999999999996556789999998864

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

Probab=98.99  E-value=2.1e-10  Score=85.47  Aligned_cols=49  Identities=27%  Similarity=0.535  Sum_probs=39.5

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+..||||++.+.+   ++++++|||.||..||.+|++. +.+||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   62 (72)
T 2djb_A           14 PYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYY-SNRCPKCNIVVHQ   62 (72)
T ss_dssp             GGGSCTTTSSCCSS---CEECSSSCCEECHHHHHHHHHH-CSSCTTTCCCCCS
T ss_pred             CCCCCCCCChHHHC---cCEECCCCCHHHHHHHHHHHHc-CCcCCCcCcccCc
Confidence            35789999995432   3444599999999999999975 5899999998864

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

Probab=98.96  E-value=1.7e-10  Score=86.70  Aligned_cols=50  Identities=22%  Similarity=0.646  Sum_probs=40.1

Q ss_pred             CCCCCcccccccccCCceeEEcC-CCCccchhHHHHHHhcC-CCCCCCCCccccch
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREHH-QYACPICSKSVCDM  256 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~Lp-CGH~fH~~Ci~~wl~~~-~~~CPiCrks~~d~  256 (316)
                      .+..||||++. +.   ++++++ |||+||..||..|+... ..+||+||+.+...
T Consensus        14 ~~~~C~IC~~~-~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           14 DELLCLICKDI-MT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             GGGSCSSSCCC-CT---TCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCCcCCChH-Hh---CCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            35789999995 44   356799 99999999999999753 36899999986643

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

Probab=98.96  E-value=5e-11  Score=88.04  Aligned_cols=49  Identities=24%  Similarity=0.766  Sum_probs=40.7

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccch
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDM  256 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~  256 (316)
                      .....||||++. +.   + +++||||.||..|+.+|+. ...+||+||+.+...
T Consensus        13 ~~~~~C~IC~~~-~~---~-~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           13 TDEEECCICMDG-RA---D-LILPCAHSFCQKCIDKWSD-RHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCCSSSCCS-CC---S-EEETTTEEECHHHHHHSSC-CCSSCHHHHHCTTCC
T ss_pred             CCCCCCeeCCcC-cc---C-cccCCCCcccHHHHHHHHH-CcCcCCCcCCcccCC
Confidence            346789999995 33   2 7899999999999999998 468999999888754

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

Probab=98.95  E-value=3.5e-10  Score=94.68  Aligned_cols=46  Identities=33%  Similarity=0.889  Sum_probs=39.3

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..||||++. +.   +++++||||+||..||..|+.. +.+||+||+++..
T Consensus        54 ~~C~iC~~~-~~---~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           54 LQCIICSEY-FI---EAVTLNCAHSFCSYCINEWMKR-KIECPICRKDIKS   99 (138)
T ss_dssp             SBCTTTCSB-CS---SEEEETTSCEEEHHHHHHHTTT-CSBCTTTCCBCCC
T ss_pred             CCCcccCcc-cC---CceECCCCCCccHHHHHHHHHc-CCcCCCCCCcCCC
Confidence            469999995 43   4678999999999999999975 5889999999864

>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=98.95  E-value=3.7e-10  Score=89.79  Aligned_cols=48  Identities=19%  Similarity=0.477  Sum_probs=39.7

Q ss_pred             CCCCcccccccccCCceeEE-cCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~-LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++. +.   +++. ++|||.||..||.+|+.....+||+||+++..
T Consensus        22 ~~~C~IC~~~-~~---~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           22 VFRCFICMEK-LR---DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HTBCTTTCSB-CS---SEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCccCCcc-cc---CccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            4679999995 44   3455 99999999999999998654789999999863

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

Probab=98.94  E-value=4.2e-10  Score=91.24  Aligned_cols=53  Identities=25%  Similarity=0.664  Sum_probs=42.6

Q ss_pred             CCCCCCcccccccccC---CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s---~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +.+..||||++.+.+.   ++.++.++|||+||..||.+|++. +.+||+||+.+..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   60 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT-CSBCTTTCCBCTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh-CCCCCCCCCcCcc
Confidence            3467899999975432   244589999999999999999985 5799999998864

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

Probab=98.93  E-value=5.3e-10  Score=91.55  Aligned_cols=48  Identities=25%  Similarity=0.598  Sum_probs=40.5

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++. +.   +++++||||+||..||..|+.....+||+||+++..
T Consensus        52 ~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQEL-VF---RPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSB-CS---SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChH-Hc---CcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4579999995 44   467789999999999999998656799999998864

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

Probab=98.92  E-value=7.9e-10  Score=80.06  Aligned_cols=44  Identities=25%  Similarity=0.850  Sum_probs=35.9

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc--CCCCCCCC
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPIC  249 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~--~~~~CPiC  249 (316)
                      ..+..||||++. +.   ++++++|||.||..||.+|+..  ...+||+|
T Consensus        18 ~~~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDI-LQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSB-CS---SCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCch-hC---CeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            346789999995 44   3677899999999999999974  45789998

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

Probab=98.89  E-value=9.3e-10  Score=85.22  Aligned_cols=48  Identities=23%  Similarity=0.690  Sum_probs=39.4

Q ss_pred             CCCCCcccccccccCCceeEEcC-CCCccchhHHHHHHhc-CCCCCCCCCcccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREH-HQYACPICSKSVC  254 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~Lp-CGH~fH~~Ci~~wl~~-~~~~CPiCrks~~  254 (316)
                      .+..||||++. +.   +++++| |||+|+..||..|+.. ....||+||+++.
T Consensus        12 ~~~~C~IC~~~-~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           12 DELLCLICKDI-MT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             TTTEETTTTEE-CS---SCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCCCCCCChh-hc---CceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            35789999995 44   467889 9999999999999864 3478999999973

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

Probab=98.88  E-value=3e-10  Score=85.19  Aligned_cols=49  Identities=27%  Similarity=0.756  Sum_probs=40.1

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC------CCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH------QYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~------~~~CPiCrks~~d  255 (316)
                      .+..||||++. +.   ++++++|||+||..|+..|+...      ..+||+||..+..
T Consensus        11 ~~~~C~IC~~~-~~---~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           11 EEVTCPICLEL-LT---EPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCEETTTTEE-CS---SCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             cCCCCcCCCcc-cC---CeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            35789999995 44   35678999999999999998752      5789999998864

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

Probab=98.88  E-value=1.4e-09  Score=81.92  Aligned_cols=49  Identities=22%  Similarity=0.619  Sum_probs=40.1

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC-----CCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-----QYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~-----~~~CPiCrks~~d  255 (316)
                      .+..||||++. +.   .+++++|||.||..|+..|+...     ...||+||+.+..
T Consensus        18 ~~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           18 EEVTCPICLEL-LK---EPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             TTTSCTTTCSC-CS---SCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             cCCCCcCCChh-hC---cceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            35789999995 43   35689999999999999998752     5789999998763

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

Probab=98.86  E-value=1.3e-09  Score=77.04  Aligned_cols=43  Identities=35%  Similarity=1.061  Sum_probs=34.8

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc--CCCCCCCC
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPIC  249 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~--~~~~CPiC  249 (316)
                      ....||||++.+ .   ++++++|||.||..||.+|+..  ...+||+|
T Consensus        14 ~~~~C~IC~~~~-~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYL-K---EPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBC-S---SCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCccc-C---ccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            357899999963 3   2467899999999999999653  45789998

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

Probab=98.85  E-value=1.6e-09  Score=85.33  Aligned_cols=48  Identities=27%  Similarity=0.751  Sum_probs=38.6

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++. +..  ++++++|||+||..|+..|+.. +.+||+||..+..
T Consensus        22 ~~~C~IC~~~-~~~--p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEY-FNI--AMIIPQCSHNYCSLCIRKFLSY-KTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSB-CSS--EEECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCG
T ss_pred             CCCcccCChh-hCC--cCEECCCCCHhhHHHHHHHHHC-CCCCCCCCCcCCh
Confidence            4679999995 432  3344499999999999999984 5899999998873

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

Probab=98.84  E-value=1.6e-09  Score=81.55  Aligned_cols=49  Identities=29%  Similarity=0.745  Sum_probs=40.1

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-----CCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-----HQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-----~~~~CPiCrks~~d  255 (316)
                      ....||||++. +.   +++.++|||.||..|+..|+..     ....||+||..+..
T Consensus        18 ~~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           18 EEVTCPICLEL-LT---QPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCTTTCSC-CS---SCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             CCCCCCCCCcc-cC---CceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            46789999995 43   3567899999999999999875     25789999998863

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

Probab=98.83  E-value=2e-09  Score=86.05  Aligned_cols=48  Identities=31%  Similarity=0.714  Sum_probs=39.1

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++. +.  +++.+++|||+||..|+..|+.. +.+||+||+.+..
T Consensus        15 ~~~C~IC~~~-~~--~p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           15 HLMCVLCGGY-FI--DATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHK   62 (108)
T ss_dssp             GTBCTTTSSB-CS--SEEEETTTCCEEEHHHHHHHHTS-CSBCTTTCCBSCS
T ss_pred             cCCCccCChH-Hh--CcCEeCCCCChhhHHHHHHHHHh-CCcCcCCCccccc
Confidence            5689999995 43  24444599999999999999985 5899999998863

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

Probab=98.83  E-value=1.9e-09  Score=83.66  Aligned_cols=53  Identities=19%  Similarity=0.511  Sum_probs=41.4

Q ss_pred             CCCCCCCcccccccccCCceeEEcCCC-----CccchhHHHHHHhcC-CCCCCCCCccccc
Q 021224          201 GAMHHDCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICSKSVCD  255 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~~-~~~CPiCrks~~d  255 (316)
                      ...+..|+||++. ++... .+++||+     |.||..||++||... ..+||+||..+..
T Consensus        12 ~~~~~~C~IC~~~-~~~~~-~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           12 PSSQDICRICHCE-GDDES-PLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             CTTSCCCSSSCCC-CCSSS-CEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCCeEcCcc-ccCCC-eeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            3456789999986 44343 4579996     999999999999763 3689999998863

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

Probab=98.82  E-value=2.1e-09  Score=92.03  Aligned_cols=48  Identities=21%  Similarity=0.613  Sum_probs=39.4

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      +..||||++. +..  ++.+++|||+||..||..|+......||+||..+.
T Consensus        54 ~~~C~IC~~~-~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  101 (165)
T 2ckl_B           54 ELMCPICLDM-LKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLV  101 (165)
T ss_dssp             HHBCTTTSSB-CSS--EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCCCcccChH-hhC--cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCC
Confidence            3489999995 442  45556999999999999999865688999999885

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

Probab=98.82  E-value=1e-09  Score=93.81  Aligned_cols=48  Identities=23%  Similarity=0.607  Sum_probs=40.5

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++. +.   +++++||||+||..||..|+.....+||+||..+..
T Consensus        78 ~~~C~IC~~~-~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  125 (150)
T 1z6u_A           78 SFMCVCCQEL-VY---QPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ  125 (150)
T ss_dssp             HTBCTTTSSB-CS---SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCEeecCChh-hc---CCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCC
Confidence            4679999995 44   466799999999999999998665789999998874

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

Probab=98.82  E-value=7.8e-10  Score=89.31  Aligned_cols=48  Identities=31%  Similarity=0.840  Sum_probs=40.4

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++. +.   .+++|+|||+||..||..|+.....+||+||+.+..
T Consensus        15 ~~~C~iC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEI-LV---EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSB-CS---SCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCccCCcc-cC---ceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            4679999995 43   367789999999999999997656899999998863

>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=98.82  E-value=4.9e-10  Score=93.09  Aligned_cols=50  Identities=18%  Similarity=0.493  Sum_probs=0.5

Q ss_pred             CCCCcccccccccC--------------CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFET--------------RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s--------------~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ++.|+||++.+.+.              ...++.++|||.||..||.+||.. +.+||+||+++.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~-~~~CP~Cr~~~~  111 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  111 (117)
T ss_dssp             C----------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc-CCcCCCCCCeee
Confidence            56899998865321              123445699999999999999985 588999999864

>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=98.78  E-value=3.6e-09  Score=85.47  Aligned_cols=48  Identities=19%  Similarity=0.475  Sum_probs=40.4

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++. +.   +++.++|||+||..||.+|+.....+||+||+++..
T Consensus        23 ~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           23 SISCQICEHI-LA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HTBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcH-hc---CcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            4679999995 43   356789999999999999998656789999999874

>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=98.76  E-value=3.2e-09  Score=86.41  Aligned_cols=48  Identities=23%  Similarity=0.674  Sum_probs=40.4

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++. +.   .++.++|||+||..||.+|+.....+||+||+++..
T Consensus        18 ~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           18 KYECPICLMA-LR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             GGBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCcCChh-hc---CeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            5689999985 43   357789999999999999998655699999999875

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

Probab=98.76  E-value=4.7e-09  Score=84.95  Aligned_cols=53  Identities=25%  Similarity=0.664  Sum_probs=42.6

Q ss_pred             CCCCCCcccccccccC---CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s---~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .....||||++.+...   ...++.++|||.||..|+.+|++. +.+||+||+++..
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~  125 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH  125 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH-CSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc-CCCCCCCCCcCCh
Confidence            4467899999965331   234578999999999999999985 4799999998874

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

Probab=98.74  E-value=3.7e-09  Score=84.18  Aligned_cols=47  Identities=23%  Similarity=0.754  Sum_probs=38.2

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC--CCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~--~~~CPiCrks~~  254 (316)
                      ...||||++. +.   .++.++|||.||..|+..|+...  ..+||+||.++.
T Consensus        21 ~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (112)
T 1jm7_A           21 ILECPICLEL-IK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (112)
T ss_dssp             HTSCSSSCCC-CS---SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             CCCCcccChh-hc---CeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCC
Confidence            4579999995 43   35568999999999999999743  258999998876

>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=98.65  E-value=2.6e-08  Score=89.92  Aligned_cols=52  Identities=13%  Similarity=0.153  Sum_probs=42.9

Q ss_pred             CCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       200 E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +......||||++ ++.   +++++||||+|++.||..|+.....+||+||.++..
T Consensus       204 ~~~~~~~c~i~~~-~~~---dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          204 DIPDYLCGKISFE-LMR---EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CCCSTTBCTTTCS-BCS---SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCCcccCCcCcCC-Hhc---CCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            3355788999999 455   578899999999999999998655669999998863

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

Probab=98.61  E-value=2.1e-08  Score=77.90  Aligned_cols=48  Identities=15%  Similarity=0.231  Sum_probs=41.2

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+..||||++ ++.   ++++++|||+|.+.||..|+.. +.+||+||.++..
T Consensus        13 ~~~~CpI~~~-~m~---dPV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~   60 (85)
T 2kr4_A           13 DEFRDPLMDT-LMT---DPVRLPSGTVMDRSIILRHLLN-SPTDPFNRQMLTE   60 (85)
T ss_dssp             TTTBCTTTCS-BCS---SEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCG
T ss_pred             hheECcccCc-hhc---CCeECCCCCEECHHHHHHHHhc-CCCCCCCcCCCCh
Confidence            4678999999 454   5788999999999999999985 5899999998863

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

Probab=98.60  E-value=1.9e-08  Score=74.15  Aligned_cols=50  Identities=18%  Similarity=0.485  Sum_probs=39.7

Q ss_pred             CCCCCCCcccccccccCCceeEEc--CCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224          201 GAMHHDCPVCCEYLFETRQDVIVL--PCGHT-IHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s~~~~v~L--pCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ...+..|+||++..    .+++++  ||||. |+..|+..|+.. +..||+||+++..
T Consensus         5 ~~~~~~C~IC~~~~----~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~   57 (64)
T 2vje_A            5 LNAIEPCVICQGRP----KNGCIVHGKTGHLMACFTCAKKLKKR-NKPCPVCRQPIQM   57 (64)
T ss_dssp             CGGGSCCTTTSSSC----SCEEEEETTEEEEEECHHHHHHHHHT-TCCCTTTCCCCCE
T ss_pred             CCCcCCCCcCCCCC----CCEEEECCCCCChhhHHHHHHHHHHc-CCcCCCcCcchhc
Confidence            34567899999852    245555  99999 899999999874 5789999998864

>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=98.58  E-value=3.1e-08  Score=79.50  Aligned_cols=48  Identities=15%  Similarity=0.231  Sum_probs=41.2

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..+..||||++ ++.   +++++||||+|.+.||..|+.. +.+||+||.++.
T Consensus        27 p~~~~CpI~~~-~m~---dPV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~   74 (100)
T 2kre_A           27 PDEFRDPLMDT-LMT---DPVRLPSGTIMDRSIILRHLLN-SPTDPFNRQTLT   74 (100)
T ss_dssp             STTTBCTTTCS-BCS---SEEEETTTEEEEHHHHHHHTTS-CSBCSSSCCBCC
T ss_pred             cHhhCCcCccC-ccc---CCeECCCCCEEchHHHHHHHHc-CCCCCCCCCCCC
Confidence            34678999999 455   5788999999999999999984 689999999886

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

Probab=98.57  E-value=9.7e-09  Score=73.55  Aligned_cols=45  Identities=29%  Similarity=0.566  Sum_probs=36.7

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      .....||||++. +.   .+++|||||+||..|+..|    ..+||+||+.+.
T Consensus         4 ~~~~~C~IC~~~-~~---~p~~l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~   48 (56)
T 1bor_A            4 FQFLRCQQCQAE-AK---CPKLLPCLHTLCSGCLEAS----GMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSS-CB---CCSCSTTSCCSBTTTCSSS----SSSCSSCCSSSS
T ss_pred             ccCCCceEeCCc-cC---CeEEcCCCCcccHHHHccC----CCCCCcCCcEee
Confidence            346789999985 44   3578999999999999884    468999999875

>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=98.56  E-value=1.2e-08  Score=82.81  Aligned_cols=44  Identities=23%  Similarity=0.663  Sum_probs=37.2

Q ss_pred             CCCCcccccccccCCceeEEc-CCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~L-pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      +..||||++. +.   .++++ +|||+||..||..|+.   ..||+||+++.
T Consensus        22 ~~~C~IC~~~-~~---~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~   66 (117)
T 1jm7_B           22 LLRCSRCTNI-LR---EPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAW   66 (117)
T ss_dssp             TTSCSSSCSC-CS---SCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCS
T ss_pred             CCCCCCCChH-hh---CccEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCc
Confidence            5789999995 44   35566 9999999999999986   78999998885

>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=98.56  E-value=9.8e-09  Score=86.96  Aligned_cols=47  Identities=19%  Similarity=0.448  Sum_probs=39.1

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV  253 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~  253 (316)
                      .+..||||++. +.   +++.++|||.||..||.+|+.....+||+||+++
T Consensus        30 ~~~~C~IC~~~-~~---~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           30 AKYLCSACRNV-LR---RPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GGGBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             cCcCCCCCChh-hc---CcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            35789999995 43   3467899999999999999986656899999865

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

Probab=98.54  E-value=5.1e-08  Score=77.92  Aligned_cols=48  Identities=17%  Similarity=0.206  Sum_probs=41.2

Q ss_pred             CCCCCcccccccccCCceeEEcCCC-CccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCG-HTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCG-H~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+..||||++ ++.   ++|+++|| |+|.+.||..|+.. +.+||+||.++..
T Consensus        21 ~~~~CpI~~~-~m~---dPV~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMST-LMC---DPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCS-BCS---SEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCT
T ss_pred             HhcCCcCccc-ccc---CCeECCCCCeEECHHHHHHHHHh-CCCCCCCCCCCCh
Confidence            4678999999 455   57889999 99999999999985 6899999998863

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

Probab=98.53  E-value=2.2e-08  Score=75.48  Aligned_cols=43  Identities=26%  Similarity=0.738  Sum_probs=36.5

Q ss_pred             CCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..|+||++. +.   +++.+||||. |+..|+..|     .+||+||+.+..
T Consensus        24 ~~~C~iC~~~-~~---~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDR-NI---AIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSS-BC---CEEEETTCCBCCCHHHHTTC-----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCC-CC---CEEEcCCCChhHHHHhhhcC-----ccCCCcCcCccC
Confidence            4679999985 32   5788999999 999999998     579999998875

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

Probab=98.52  E-value=3.3e-08  Score=72.69  Aligned_cols=49  Identities=22%  Similarity=0.570  Sum_probs=38.6

Q ss_pred             CCCCCCcccccccccCCceeEEc--CCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVL--PCGHT-IHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~L--pCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .....|+||++..    .+.+++  ||||. |+..|+..|... +.+||+||+++..
T Consensus         5 ~~~~~C~IC~~~~----~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~   56 (63)
T 2vje_B            5 NLLKPCSLCEKRP----RDGNIIHGRTGHLVTCFHCARRLKKA-GASCPICKKEIQL   56 (63)
T ss_dssp             GGGSBCTTTSSSB----SCEEEEETTEEEEEECHHHHHHHHHT-TCBCTTTCCBCCE
T ss_pred             CcCCCCcccCCcC----CCeEEEecCCCCHhHHHHHHHHHHHh-CCcCCCcCchhhc
Confidence            3467899999852    234444  99998 999999999864 4789999998864

>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=98.49  E-value=4.8e-08  Score=83.79  Aligned_cols=49  Identities=22%  Similarity=0.651  Sum_probs=40.5

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+..||||++. +.   +++.++|||+|+..|+.+|+.....+||+||.++..
T Consensus        17 ~~~~C~IC~~~-~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           17 SKYECPICLMA-LR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             GGGBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCChh-hc---CcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            35689999995 43   356789999999999999997655699999998875

>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=98.48  E-value=1.5e-07  Score=74.08  Aligned_cols=46  Identities=28%  Similarity=0.608  Sum_probs=37.3

Q ss_pred             CCCCCcccccccccCCceeEEcC-CCCccchhHHHHHHhcC-----CCCCCC--CCcc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREHH-----QYACPI--CSKS  252 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~Lp-CGH~fH~~Ci~~wl~~~-----~~~CPi--Crks  252 (316)
                      .+..||||++ +|.   ++++++ |||+|.+.||.+|+...     ..+||+  |++.
T Consensus         6 ~~~~CPI~~~-~~~---dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKE-EMK---KPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCS-BCS---SEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCc-hhc---CCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            4578999999 455   467775 99999999999999742     368999  9866

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

Probab=98.42  E-value=1.2e-07  Score=72.78  Aligned_cols=49  Identities=18%  Similarity=0.453  Sum_probs=38.3

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC-CCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-QYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~-~~~CPiCrks~~d  255 (316)
                      ...|+||.+. +...  ..-..|+|.||..||.+||+.. +.+||+||.++..
T Consensus        15 i~~C~IC~~~-i~~g--~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           15 VKICNICHSL-LIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SCBCSSSCCB-CSSS--EECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCcCcchhhH-cccC--CccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            4689999995 4432  3344899999999999999753 2689999998864

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

Probab=98.37  E-value=2.1e-07  Score=91.23  Aligned_cols=50  Identities=30%  Similarity=0.729  Sum_probs=41.4

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .....|+||++.+    ..++.+||||.||..|+..|+.....+||+||.++..
T Consensus       330 ~~~~~C~ICle~~----~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          330 STFQLCKICAEND----KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             TSSSBCTTTSSSB----CCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCCCccCcCC----CCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            3346899999853    2578899999999999999997446789999998864

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

Probab=98.34  E-value=5e-07  Score=80.03  Aligned_cols=50  Identities=14%  Similarity=0.162  Sum_probs=41.1

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..+..||||++ ++.   +++++||||+|.+.||..|+.....+||+|+.++..
T Consensus       104 p~~f~CPI~~e-lm~---DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFE-LMR---EPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCS-BCS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccc-cCC---CCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            34678999999 454   578889999999999999997543479999998863

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

Probab=98.32  E-value=2.1e-07  Score=70.04  Aligned_cols=43  Identities=26%  Similarity=0.738  Sum_probs=35.0

Q ss_pred             CCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..|+||++. +.   +++++||||. |+..|+..+     ..||+||+.+..
T Consensus        25 ~~~C~IC~~~-~~---~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDR-NI---AIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSS-CC---CBCCSSSCCCCBCHHHHHHC-----SBCTTTCCBCCC
T ss_pred             CCCCCcCCCC-CC---CEEEecCCCHHHHHHHhhCC-----CCCccCCceecC
Confidence            3579999985 33   4678999999 999999643     679999998865

>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=98.30  E-value=6.9e-07  Score=69.74  Aligned_cols=49  Identities=24%  Similarity=0.517  Sum_probs=36.6

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc----C---CCCCCC--CCcc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----H---QYACPI--CSKS  252 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~----~---~~~CPi--Crks  252 (316)
                      ....||||+++ +....-+.+.+|||.|+..|+..|+..    +   ..+||.  |+..
T Consensus         4 ~~~~C~IC~~~-~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGE-YPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCC-CBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcc-cccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            35689999996 443333334589999999999998753    1   357999  9998

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

Probab=98.29  E-value=4.6e-07  Score=67.68  Aligned_cols=46  Identities=33%  Similarity=0.732  Sum_probs=37.5

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccch
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDM  256 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d~  256 (316)
                      .....|+||++.    ...+++|||||. |+..|+..     ...||+||..+...
T Consensus        13 ~~~~~C~IC~~~----~~~~v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           13 ENSKDCVVCQNG----TVNWVLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCSSCCSSSSSS----CCCCEETTTTBCCSCTTHHHH-----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCCcCcC----CCCEEEECCCChhhhHHHHhc-----CCCCCCCCcchhce
Confidence            446789999984    236889999999 99999984     25799999988753

>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=98.19  E-value=4.9e-07  Score=69.32  Aligned_cols=44  Identities=34%  Similarity=0.836  Sum_probs=36.4

Q ss_pred             CCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccch
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDM  256 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d~  256 (316)
                      +..|+||++. +   .+++++||||. |+..|+..|.     .||+||..+...
T Consensus        18 ~~~C~IC~~~-~---~~~v~~pCgH~~~C~~C~~~~~-----~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEE-E---INSTFCPCGHTVCCESCAAQLQ-----SCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSS-B---CCEEEETTCBCCBCHHHHTTCS-----BCTTTCCBCCEE
T ss_pred             CCEeEEeCcc-c---CcEEEECCCCHHHHHHHHHhcC-----cCCCCCchhhCe
Confidence            4579999985 2   35789999999 9999999872     799999988753

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

Probab=98.10  E-value=1.5e-06  Score=63.87  Aligned_cols=51  Identities=27%  Similarity=0.526  Sum_probs=38.7

Q ss_pred             CCCCCCCCcccccccccCCceeEEcCCC--C---ccchhHHHHHHhc-CCCCCCCCCcccc
Q 021224          200 EGAMHHDCPVCCEYLFETRQDVIVLPCG--H---TIHKNCLKEMREH-HQYACPICSKSVC  254 (316)
Q Consensus       200 E~~~~~~CPIClE~lf~s~~~~v~LpCG--H---~fH~~Ci~~wl~~-~~~~CPiCrks~~  254 (316)
                      |......|.||++..   ..+ .++||.  +   .||..|+.+|+.. .+.+||+|+..+.
T Consensus         2 e~~~~~~CrIC~~~~---~~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            2 EDEDVPVCWICNEEL---GNE-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TTCSCCEETTTTEEC---SCC-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCEeEEeecCC---CCc-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            445677899999852   223 468965  4   8999999999974 4578999998764

>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=97.96  E-value=3.1e-06  Score=79.22  Aligned_cols=50  Identities=24%  Similarity=0.664  Sum_probs=39.8

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-CCCCCCC--CCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPI--CSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPi--Crks~~  254 (316)
                      ..+..||||+++ |.  +|++.+.|||+|.+.||..|+.. +..+||+  |++.+.
T Consensus       179 ~~el~CPIcl~~-f~--DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          179 KIELTCPITCKP-YE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             BCCSBCTTTSSB-CS--SEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             ceeeECcCccCc-cc--CCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            446789999996 43  25555699999999999999864 3467999  998775

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

Probab=97.85  E-value=3.2e-06  Score=82.17  Aligned_cols=53  Identities=21%  Similarity=0.439  Sum_probs=39.0

Q ss_pred             CCCCCCcccccccccCCcee----EEcCCCCccchhHHHHHHhcCC----------CCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDV----IVLPCGHTIHKNCLKEMREHHQ----------YACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~----v~LpCGH~fH~~Ci~~wl~~~~----------~~CPiCrks~~  254 (316)
                      ....+|+||++.+.+++.-+    ..++|||.||..|+.+|+.+..          ..||.||+++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            45678999999755423211    1358999999999999996411          36999999876

>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=97.79  E-value=5.3e-06  Score=79.98  Aligned_cols=43  Identities=30%  Similarity=0.834  Sum_probs=36.6

Q ss_pred             CCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..|+||++. +.   .++.|||||. ||..|+..|     ..||+||..+..
T Consensus       295 ~~~C~IC~~~-~~---~~v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDK-EV---SVVFIPCGHLVVCQECAPSL-----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSS-BC---CEEEETTCCEEECTTTGGGC-----SBCTTTCCBCCE
T ss_pred             CCCCCccCCc-CC---ceEEcCCCChhHhHHHHhcC-----CcCCCCCCCccC
Confidence            4689999995 33   5788899999 999999988     579999998864

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

Probab=97.64  E-value=3.4e-05  Score=62.58  Aligned_cols=49  Identities=22%  Similarity=0.417  Sum_probs=40.2

Q ss_pred             CCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchh
Q 021224          206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMS  257 (316)
Q Consensus       206 ~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~  257 (316)
                      -|++|.-++..   ..+++||+|.|+.+|+..|.+.+..+||+|+.++.+.+
T Consensus         3 fC~~C~~Pi~i---ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe   51 (101)
T 3vk6_A            3 FCDKCGLPIKV---YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE   51 (101)
T ss_dssp             BCTTTCSBCSE---EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred             ecCccCCCeEE---EeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence            48888865433   56789999999999999998766789999999988643

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

Probab=97.62  E-value=2.8e-05  Score=57.02  Aligned_cols=48  Identities=13%  Similarity=0.153  Sum_probs=37.9

Q ss_pred             CCCCCcccccccccCCceeEEc-CCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~L-pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +...|||+++. ++   +++++ ++||+|-+.+|.+|+.. +.+||+.+.++..
T Consensus         2 ~~~~CpIs~~~-m~---dPV~~~~sG~~yer~~I~~~l~~-~~~cP~t~~~L~~   50 (61)
T 2bay_A            2 SHMLCAISGKV-PR---RPVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSI   50 (61)
T ss_dssp             --CCCTTTCSC-CS---SEEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCG
T ss_pred             CeEEecCCCCC-CC---CCEEeCCCCcEEcHHHHHHHHHh-CCCCcCCcCCCCh
Confidence            35679999994 44   35666 99999999999999975 4679999988863

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

Probab=95.87  E-value=0.0054  Score=56.08  Aligned_cols=49  Identities=20%  Similarity=0.510  Sum_probs=36.3

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC-CCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-QYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~-~~~CPiCrks~~d  255 (316)
                      -..|.||.+-+..   ...=..|+|.||..|+..|++.. +.+||.|+..|..
T Consensus       180 i~~C~iC~~iv~~---g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQ---GQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSS---CEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhC---CcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            4579999984432   22333499999999999998653 4689999998763

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

Probab=91.84  E-value=0.063  Score=41.63  Aligned_cols=33  Identities=21%  Similarity=0.423  Sum_probs=24.8

Q ss_pred             CCCCcccccccccCCceeEE-cCCCCccchhHHHHH
Q 021224          204 HHDCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEM  238 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~-LpCGH~fH~~Ci~~w  238 (316)
                      +..|+||++..+.  .++.. +.|||+|+..|+..+
T Consensus         3 e~~C~~C~~~~~~--~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQ--DAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCC--BCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCC--CceEECCcCChHHhHHHCHHH
Confidence            5679999974333  23333 999999999999983

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=88.71  E-value=0.57  Score=39.83  Aligned_cols=49  Identities=24%  Similarity=0.508  Sum_probs=34.4

Q ss_pred             cCCCCCCCCcccccccccCCceeEE-cCCCCccchhHHHHHHh----------cCCCCCCCCCcc
Q 021224          199 VEGAMHHDCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMRE----------HHQYACPICSKS  252 (316)
Q Consensus       199 ~E~~~~~~CPIClE~lf~s~~~~v~-LpCGH~fH~~Ci~~wl~----------~~~~~CPiCrks  252 (316)
                      .+...+..|.||.+-    ++ +.. =.|--+||..|+..-+.          .+.-.||+|+..
T Consensus        58 d~Dg~~d~C~vC~~G----G~-LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~  117 (142)
T 2lbm_A           58 DSDGMDEQCRWCAEG----GN-LICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             CTTSCBCSCSSSCCC----SS-EEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             cCCCCCCeecccCCC----Cc-EEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            356778999999972    22 222 26889999999996542          245679999954

>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*

Probab=87.75  E-value=0.19  Score=42.23  Aligned_cols=37  Identities=22%  Similarity=0.621  Sum_probs=29.8

Q ss_pred             cceEEcCCCCCCccc-------------cceee------eecCCCCCCccccccCC
Q 021224          280 KVWILCNDCGKTSNV-------------QFHVL------AQKCPNCKSYNTRLTRG  316 (316)
Q Consensus       280 ~~~IlCnDC~~~s~~-------------~fH~l------g~kC~~C~SyNT~~~~~  316 (316)
                      .+...|.+|+.....             .+|++      ..+||.|||++..+++|
T Consensus        68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~h~~p~~~~~~~~CP~Cgs~~~~i~~G  123 (139)
T 3a43_A           68 EAVFKCRNCNYEWKLKEVKDKFDERIKEDIHFIPEVVHAFLACPKCGSHDFEVVKG  123 (139)
T ss_dssp             CCEEEETTTCCEEEGGGCTTCCSCCCGGGCCCCGGGCGGGCSCSSSSCCCEEEEES
T ss_pred             CCcEECCCCCCEEecccccccccccccccccccccccccCCcCccccCCccEEecC
Confidence            467899999987532             56776      68999999999988765

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

Probab=87.33  E-value=0.18  Score=39.24  Aligned_cols=16  Identities=31%  Similarity=0.843  Sum_probs=9.9

Q ss_pred             CCCCCCccceeecCcccc
Q 021224          135 CVNCGVCMGEYFCESCKL  152 (316)
Q Consensus       135 C~~Cg~~f~~YfC~~C~l  152 (316)
                      |..||+.  .|||..|+=
T Consensus        44 lkACGA~--~yFC~~C~~   59 (81)
T 2jrp_A           44 LKACGAV--DYFCQNGHG   59 (81)
T ss_dssp             EEETTEE--EECCTTTTC
T ss_pred             HHhcCCc--CeeeccCCC
Confidence            4445544  788888853

>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=84.44  E-value=0.36  Score=38.44  Aligned_cols=81  Identities=22%  Similarity=0.580  Sum_probs=42.5

Q ss_pred             CCCcceecCC-CCeeeccCcccce-----ecccc----ccccccCCCCCCCCcccccccccCCceeEE-cCCCCccchhH
Q 021224          166 GCGICRIGGC-DNFFHCNKCRCCY-----SMLLK----NSHPCVEGAMHHDCPVCCEYLFETRQDVIV-LPCGHTIHKNC  234 (316)
Q Consensus       166 ~CgiCR~G~~-~~ffHC~~C~~C~-----s~~l~----~~H~C~E~~~~~~CPIClE~lf~s~~~~v~-LpCGH~fH~~C  234 (316)
                      .|.||..+|. ++...|+.|+.-|     .+.+.    ..=.|.+=   ..|.||...  .....++. -.|.-.||..|
T Consensus         9 ~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C---~~C~~C~~~--~~~~~ll~Cd~C~~~yH~~C   83 (111)
T 2ysm_A            9 NCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPEC---KVCQNCKQS--GEDSKMLVCDTCDKGYHTFC   83 (111)
T ss_dssp             CBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTT---CCCTTTCCC--SCCTTEEECSSSCCEEEGGG
T ss_pred             CCcCCCCCCCCcCCeECCCCCCCcChHHhCCccccccccCccCCcC---CcccccCcc--CCCCCeeECCCCCcHHhHHh
Confidence            4556655553 4566777776544     22221    11122210   146777753  11111211 26889999999


Q ss_pred             HHHHHhc---CCCCCCCCCc
Q 021224          235 LKEMREH---HQYACPICSK  251 (316)
Q Consensus       235 i~~wl~~---~~~~CPiCrk  251 (316)
                      +..-+..   ....||.|+.
T Consensus        84 l~ppl~~~P~g~W~C~~C~~  103 (111)
T 2ysm_A           84 LQPVMKSVPTNGWKCKNCRI  103 (111)
T ss_dssp             SSSCCSSCCSSCCCCHHHHC
T ss_pred             cCCccccCCCCCcCCcCCcC
Confidence            9864432   3467888764

>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}

Probab=82.87  E-value=0.49  Score=38.32  Aligned_cols=35  Identities=31%  Similarity=0.568  Sum_probs=28.3

Q ss_pred             cceEEcCCCCCCccccceeeee-cCCCCCCccccccCC
Q 021224          280 KVWILCNDCGKTSNVQFHVLAQ-KCPNCKSYNTRLTRG  316 (316)
Q Consensus       280 ~~~IlCnDC~~~s~~~fH~lg~-kC~~C~SyNT~~~~~  316 (316)
                      .+...|.+|+......-.  .. +||.|+|.++++++|
T Consensus        71 p~~~~C~~CG~~~e~~~~--~~~~CP~Cgs~~~~i~~G  106 (119)
T 2kdx_A           71 KVELECKDCSHVFKPNAL--DYGVCEKCHSKNVIITQG  106 (119)
T ss_dssp             CCEEECSSSSCEECSCCS--TTCCCSSSSSCCCEEEES
T ss_pred             cceEEcCCCCCEEeCCCC--CCCcCccccCCCcEEecC
Confidence            467899999988766432  45 899999999998876

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=81.16  E-value=0.39  Score=38.56  Aligned_cols=75  Identities=17%  Similarity=0.433  Sum_probs=42.6

Q ss_pred             cCCCCeeeccCcccceecc-c-----------cccccccCCCCCCCCcccccccccCCceeEE-cCCCCccchhHHHHHH
Q 021224          173 GGCDNFFHCNKCRCCYSML-L-----------KNSHPCVEGAMHHDCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMR  239 (316)
Q Consensus       173 G~~~~ffHC~~C~~C~s~~-l-----------~~~H~C~E~~~~~~CPIClE~lf~s~~~~v~-LpCGH~fH~~Ci~~wl  239 (316)
                      |.+++...|..|+.-|-.+ |           ...=.|.+=   ..|.||.+.-.+ ....+. -.|...||..|+..-|
T Consensus        21 g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C---~~C~vC~~~~~~-~~~ll~Cd~C~~~yH~~Cl~p~l   96 (112)
T 3v43_A           21 KKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIEC---KTCSSCRDQGKN-ADNMLFCDSCDRGFHMECCDPPL   96 (112)
T ss_dssp             SCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTT---CCBTTTCCCCCT-TCCCEECTTTCCEECGGGCSSCC
T ss_pred             CCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccC---CccccccCcCCC-ccceEEcCCCCCeeecccCCCCC
Confidence            3456788888887655322 1           122234331   157888752111 112222 2688999999998754


Q ss_pred             hc---CCCCCCCCCc
Q 021224          240 EH---HQYACPICSK  251 (316)
Q Consensus       240 ~~---~~~~CPiCrk  251 (316)
                      ..   +...||.|+.
T Consensus        97 ~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           97 TRMPKGMWICQICRP  111 (112)
T ss_dssp             SSCCSSCCCCTTTSC
T ss_pred             CCCCCCCeECCCCCC
Confidence            32   3467999985

---

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	316
d2dkta2	56	g.93.1.1 (A:82-137) RING finger and CHY zinc finge	2e-20
d2dkta1	74	g.89.1.1 (A:8-81) RING finger and CHY zinc finger	1e-09
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	9e-05
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	7e-04
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	0.001
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	0.004
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	0.004

>d2dkta2 g.93.1.1 (A:82-137) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 56

class: Small proteins
fold: Zinc hairpin stack
superfamily: Zinc hairpin stack
family: Zinc hairpin stack
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 80.5 bits (199), Expect = 2e-20
 Identities = 32/58 (55%), Positives = 40/58 (68%), Gaps = 2/58 (3%)

Query: 143 GEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVE 200
           GEY+C  C LFD D  K+QYHC+ CGICRIG  ++FFHC KC  C +  L+  H C+E
Sbjct: 1   GEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCIE 56

>d2dkta1 g.89.1.1 (A:8-81) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 74

class: Small proteins
fold: CHY zinc finger-like
superfamily: CHY zinc finger-like
family: CHY zinc finger
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.0 bits (124), Expect = 1e-09
 Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 11/72 (15%)

Query: 71  YGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTE 130
            GC+HY R C ++APCC++++ CR CH+             H + R +V +V C  C   
Sbjct: 10  RGCEHYDRACLLKAPCCDKLYTCRLCHDTNE---------DHQLDRFKVKEVQCINCEKL 60

Query: 131 QK--QVCVNCGV 140
           Q   Q C +C  
Sbjct: 61  QHAQQTCEDCST 72

>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 = 38.1 bits (88), Expect = 9e-05
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 4/47 (8%)

Query: 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253
           C +C     E  +DV + PCGH +  +CL   +E     CP C   +
Sbjct: 26  CKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>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 = 34.7 bits (79), Expect = 7e-04
 Identities = 14/48 (29%), Positives = 20/48 (41%)

Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253
           +CP+C E L     +     CG+ I + C   +R      CP C K  
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>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 = 34.5 bits (79), Expect = 0.001
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 4/47 (8%)

Query: 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253
           CP+C E         + LPC H     C+      +   CP+C   V
Sbjct: 8   CPICLEDP---SNYSMALPCLHAFCYVCITRWIRQNP-TCPLCKVPV 50

>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 = 32.9 bits (75), Expect = 0.004
 Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 8/47 (17%)

Query: 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253
           C  C        +   +LPC HT+   CL    E     CPIC    
Sbjct: 9   CQQCQAEA----KCPKLLPCLHTLCSGCL----EASGMQCPICQAPW 47

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.3 bits (78), Expect = 0.004
 Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 6/50 (12%)

Query: 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQ--YACPICSKSV 253
           +CP+C E +    ++ +   C H   K C+ ++    +    CP+C   +
Sbjct: 23  ECPICLELI----KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	316
d2dkta2	56	RING finger and CHY zinc finger domain-containing	99.95
d2dkta1	74	RING finger and CHY zinc finger domain-containing	99.67
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.36
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.28
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.27
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.24
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.18
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.17
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.12
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.99
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.92
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.9
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.82
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.77
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.74
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.69
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.65
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.27
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.21
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	87.35
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	80.36
d2dkta2	56	RING finger and CHY zinc finger domain-containing	80.11

>d2dkta2 g.93.1.1 (A:82-137) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Zinc hairpin stack
superfamily: Zinc hairpin stack
family: Zinc hairpin stack
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.95  E-value=2.6e-29  Score=182.16  Aligned_cols=56  Identities=57%  Similarity=1.394  Sum_probs=54.1

Q ss_pred             ceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccceeccccccccccC
Q 021224          143 GEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVE  200 (316)
Q Consensus       143 ~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~E  200 (316)
                      |+|||+||||||||  |+||||++|||||||++++||||++||+||+++|+++|+|+|
T Consensus         1 G~YfC~iC~l~ddd--k~~yHC~~CgiCRvG~~~~ffHC~~C~~C~~~~l~~~H~CiE   56 (56)
T d2dkta2           1 GEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCIE   56 (56)
T ss_dssp             CSEECSSSCCEECS--SSEEEETTTTEEEESCGGGEEEETTTTEEEEGGGSSSSCCSC
T ss_pred             CceECCcCCcccCC--CCcccCCCCCceeecCCccccccCccccccCcccCCCccccC
Confidence            68999999999885  999999999999999999999999999999999999999997

>d2dkta1 g.89.1.1 (A:8-81) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: CHY zinc finger-like
superfamily: CHY zinc finger-like
family: CHY zinc finger
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=2.2e-17  Score=125.30  Aligned_cols=71  Identities=34%  Similarity=0.869  Sum_probs=65.7

Q ss_pred             hhccCCCccCCcccccCcceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCCCCCC
Q 021224           63 LLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGV  140 (316)
Q Consensus        63 ~~~~~~~~~gC~HY~r~c~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~~Cg~  140 (316)
                      ++|...+.+||+||+|+|+|+|++||++|+|+.||+++.         .|.++|++++.++|..|+++|  ...|++||.
T Consensus         2 ~~~~~~~~~gC~HY~r~~~l~C~~Cg~~~~C~~C~~~lt---------~H~~~~k~~~~l~CH~Cg~~~~~~~~C~~Cgs   72 (74)
T d2dkta1           2 VRNLAQGPRGCEHYDRACLLKAPCCDKLYTCRLCHDTNE---------DHQLDRFKVKEVQCINCEKLQHAQQTCEDCST   72 (74)
T ss_dssp             CCCCCCCSSSCSSCCCSEEEEETTTTEEESSHHHHHHTS---------SSCCCSSSCCCEEESSSCCEECSCSBCSSSCC
T ss_pred             ccCCCCCCCCCcccCcceEEEcCcCcCeeeCCCCCCccc---------ccccccccCCEEEeccCCCcccCCCcCCCCCC
Confidence            357788899999999999999999999999999999875         688999999999999999998  788999999


Q ss_pred             cc
Q 021224          141 CM  142 (316)
Q Consensus       141 ~f  142 (316)
                      .|
T Consensus        73 ~F   74 (74)
T d2dkta1          73 LF   74 (74)
T ss_dssp             BS
T ss_pred             CC
Confidence            87

>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=99.36  E-value=7.2e-14  Score=98.47  Aligned_cols=50  Identities=28%  Similarity=0.634  Sum_probs=41.0

Q ss_pred             CCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       206 ~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +||||++++......+.+++|||.||..|+.+|++..+.+||+||+++.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            69999997654444455679999999999999998666789999998863

>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=99.28  E-value=9.5e-13  Score=93.86  Aligned_cols=49  Identities=29%  Similarity=0.719  Sum_probs=40.2

Q ss_pred             CCCCcccccccccCCceeEEc-CCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~L-pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      +..||||+++ +..++.++.+ +|||.||..|+.+|++. +.+||+||+++.
T Consensus         5 ~~~C~ICl~~-~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~   54 (55)
T d1iyma_           5 GVECAVCLAE-LEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             SCCCTTTCCC-CCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCeEECcc-ccCCCEEEEeCCCCCcccHHHHHHHHHh-CCcCCCCCCEeE
Confidence            3569999997 4445566666 59999999999999985 689999999874

>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=99.27  E-value=1.2e-12  Score=95.91  Aligned_cols=52  Identities=23%  Similarity=0.607  Sum_probs=42.0

Q ss_pred             CCCCcccccccccCCc-eeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          204 HHDCPVCCEYLFETRQ-DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~-~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..||||++.++.+.. .+++++|||.||..||.+|++..+.+||+||+.+..
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            5789999997655433 345679999999999999997666789999998753

>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=99.24  E-value=1.8e-12  Score=95.46  Aligned_cols=50  Identities=26%  Similarity=0.628  Sum_probs=41.5

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      +..+.||||++.+.+   +++.+||||.||..||.+|++. +.+||+||.++.+
T Consensus         3 ~~~d~C~IC~~~~~~---~~~~~~C~H~Fc~~Ci~~w~~~-~~~CP~CR~~i~~   52 (68)
T d1chca_           3 TVAERCPICLEDPSN---YSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCS---CEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCC
T ss_pred             CCCCCCccCCcCccC---CcEEeCCCCcCcHHHHHHHHHh-CCcCCCCCcchHh
Confidence            345679999997432   5678999999999999999985 5789999998764

>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=99.18  E-value=6.6e-12  Score=100.08  Aligned_cols=56  Identities=27%  Similarity=0.437  Sum_probs=43.0

Q ss_pred             CCCCCCCcccccccccC--------------CceeEEcCCCCccchhHHHHHHhcC----CCCCCCCCccccch
Q 021224          201 GAMHHDCPVCCEYLFET--------------RQDVIVLPCGHTIHKNCLKEMREHH----QYACPICSKSVCDM  256 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s--------------~~~~v~LpCGH~fH~~Ci~~wl~~~----~~~CPiCrks~~d~  256 (316)
                      ...+..|+||++.|...              ...+.+++|||.||..||.+||...    +.+||+||..+...
T Consensus        22 ~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          22 VAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            34467899999987432              2335678999999999999999753    35799999888653

>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=99.17  E-value=7.7e-12  Score=94.86  Aligned_cols=49  Identities=31%  Similarity=0.731  Sum_probs=40.9

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ....||||++. +.   +++++||||.||..||..|+.....+||+||+.+..
T Consensus        22 ~~~~C~IC~~~-~~---~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          22 TFQLCKICAEN-DK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             CTTBCTTTSSS-BC---CEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCCCccCCCc-CC---CeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            34579999985 33   478899999999999999997555789999999874

>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=99.12  E-value=2.2e-11  Score=93.72  Aligned_cols=52  Identities=17%  Similarity=0.463  Sum_probs=39.5

Q ss_pred             CCCCCccccccccc--------------CCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          203 MHHDCPVCCEYLFE--------------TRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       203 ~~~~CPIClE~lf~--------------s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .+++|+||++.+..              ....++.++|||.||..||.+||+. +.+||+||+++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH-CCcCCCCCCcccc
Confidence            35568888765422              1224678899999999999999985 5789999998863

>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=98.99  E-value=1.2e-10  Score=90.09  Aligned_cols=47  Identities=19%  Similarity=0.487  Sum_probs=39.9

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..||||++. +.   ++++++|||+|++.||.+|++..+.+||+||.++..
T Consensus        24 l~C~IC~~~-~~---~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          24 ISCQICEHI-LA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             TBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCCccCCcc-hh---cceecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            479999995 43   467899999999999999997666789999998764

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=1.9e-10  Score=90.30  Aligned_cols=46  Identities=24%  Similarity=0.786  Sum_probs=37.9

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC--CCCCCCCCcccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVC  254 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~--~~~CPiCrks~~  254 (316)
                      ..||||++. +.   +++.++|||+||..||..|+...  ...||+||+++.
T Consensus        22 l~CpIC~~~-~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          22 LECPICLEL-IK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             TSCSSSCCC-CS---SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             cCCCccCch-hC---CeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC
Confidence            579999985 54   35678999999999999999653  257999998885

>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=98.90  E-value=8.4e-10  Score=82.94  Aligned_cols=49  Identities=14%  Similarity=0.169  Sum_probs=41.6

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..+..||||++ ++.   ++++++|||+|++.||.+|+...+.+||+||.++.
T Consensus         5 P~~l~CpIc~~-l~~---dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~   53 (80)
T d2c2la2           5 PDYLCGKISFE-LMR---EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT   53 (80)
T ss_dssp             CSTTBCTTTCS-BCS---SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             CccccCcCcCc-hhh---hhcccCCcCeecHHHHHHHHhcCCccCCCcccccc
Confidence            34678999998 555   46789999999999999999766678999998886

>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=98.82  E-value=1.6e-09  Score=80.98  Aligned_cols=50  Identities=16%  Similarity=0.472  Sum_probs=41.7

Q ss_pred             CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      ..+..||||++. +.   ++++++|||+|++.||.+|+......||+|+.++..
T Consensus         6 P~~l~CpIc~~~-m~---dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           6 PEYFRCPISLEL-MK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCC-CS---SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CccCCCcCcCch-hh---CceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            456789999994 54   466889999999999999997666789999988763

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.77  E-value=1.2e-09  Score=77.32  Aligned_cols=46  Identities=13%  Similarity=0.158  Sum_probs=37.2

Q ss_pred             CCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224          206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  255 (316)
Q Consensus       206 ~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d  255 (316)
                      .||||++. +.  ++++...|||+|+++||.+|++. +.+||+||+++..
T Consensus         2 ~C~Ic~~~-~~--~Pv~~~~cGh~fc~~cI~~~l~~-~~~CP~c~~~l~~   47 (56)
T d2baya1           2 LCAISGKV-PR--RPVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSI   47 (56)
T ss_dssp             CCTTTCSC-CS--SEEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCG
T ss_pred             CCccCCch-HH--hcCccCCCCCcccHHHHHHHHhh-ccCCCccCCcCCH
Confidence            59999994 44  24445579999999999999985 4789999998764

>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=98.74  E-value=6e-10  Score=79.48  Aligned_cols=42  Identities=31%  Similarity=0.634  Sum_probs=35.1

Q ss_pred             CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ..||||++. +.   ++++|||||+||..|++.|    +.+||+||.++.
T Consensus         7 l~C~IC~~~-~~---~p~~lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~   48 (56)
T d1bora_           7 LRCQQCQAE-AK---CPKLLPCLHTLCSGCLEAS----GMQCPICQAPWP   48 (56)
T ss_dssp             SSCSSSCSS-CB---CCSCSTTSCCSBTTTCSSS----SSSCSSCCSSSS
T ss_pred             CCCcccCcc-cC---CCEEecCCCHHhHHHHHcC----CCcCcCCCCccc
Confidence            589999985 43   4678999999999999765    468999999886

>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=98.69  E-value=3.1e-09  Score=82.37  Aligned_cols=45  Identities=22%  Similarity=0.594  Sum_probs=35.9

Q ss_pred             CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      ...||||++. |.  +++...+|||+||..||.+|+.   .+||+||.++.
T Consensus        22 ~l~C~IC~~~-~~--~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~   66 (97)
T d1jm7b_          22 LLRCSRCTNI-LR--EPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAW   66 (97)
T ss_dssp             TTSCSSSCSC-CS--SCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCS
T ss_pred             cCCCccCCch-hh--cCceeCCCCCchhHHHHHHHHh---ccccccCCcCc
Confidence            4579999995 44  2444568999999999999985   46999998765

>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=98.65  E-value=4.6e-09  Score=74.90  Aligned_cols=51  Identities=25%  Similarity=0.436  Sum_probs=37.9

Q ss_pred             CCCCCCCCcccccccccCCceeEEcCC-----CCccchhHHHHHHhc-CCCCCCCCCcccc
Q 021224          200 EGAMHHDCPVCCEYLFETRQDVIVLPC-----GHTIHKNCLKEMREH-HQYACPICSKSVC  254 (316)
Q Consensus       200 E~~~~~~CPIClE~lf~s~~~~v~LpC-----GH~fH~~Ci~~wl~~-~~~~CPiCrks~~  254 (316)
                      |+.....|+||++.+ +.   ..+.||     +|.||..||.+|+.. .+.+||+||+++.
T Consensus         2 eded~~~C~IC~~~~-~~---~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           2 EDEDVPVCWICNEEL-GN---ERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TTCSCCEETTTTEEC-SC---CCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCCCccCCccC-CC---ceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            445667899999863 32   233444     599999999999864 4578999998864

>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=98.27  E-value=2.9e-07  Score=70.14  Aligned_cols=47  Identities=21%  Similarity=0.414  Sum_probs=35.5

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-------CCCCCCCCC
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-------HQYACPICS  250 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-------~~~~CPiCr  250 (316)
                      ....||||++++ ...+.+..++|||.||..|+.+|+..       ...+||.|+
T Consensus         4 ~~~~C~IC~~~~-~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEY-PVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCC-BGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcc-cCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            457899999964 33444666799999999999999853       124699865

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.21  E-value=1.1e-06  Score=68.26  Aligned_cols=49  Identities=16%  Similarity=0.229  Sum_probs=40.7

Q ss_pred             CCCCCCCcccccccccCCceeEEcCCC-CccchhHHHHHHhcCCCCCCCCCcccc
Q 021224          201 GAMHHDCPVCCEYLFETRQDVIVLPCG-HTIHKNCLKEMREHHQYACPICSKSVC  254 (316)
Q Consensus       201 ~~~~~~CPIClE~lf~s~~~~v~LpCG-H~fH~~Ci~~wl~~~~~~CPiCrks~~  254 (316)
                      -..+..||||++ ++.   ++|++||| |+|.+.||..||.. +.+||+|+.++.
T Consensus        19 ~P~~f~CPI~~~-lm~---dPV~~~~~~~ty~r~~I~~~l~~-~~~~P~~~~~l~   68 (98)
T d1wgma_          19 ACDEFLDPIMST-LMC---DPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLT   68 (98)
T ss_dssp             CCTTTBCTTTCS-BCS---SEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCC
T ss_pred             CcHHhCCcCchh-HHH---HHHhcccccchhhHHHHHHHHHh-cCCccccccccc
Confidence            345789999999 555   57888876 58999999999975 578999999886

>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=87.35  E-value=0.036  Score=40.38  Aligned_cols=67  Identities=22%  Similarity=0.451  Sum_probs=47.7

Q ss_pred             CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcce
Q 021224          203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVW  282 (316)
Q Consensus       203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~  282 (316)
                      |+..||.|...|-...        ||+.+..|-..+...  -.||-|+.++..+.+                   =..++
T Consensus         1 m~~~CP~C~~eL~~~~--------~~~~C~~C~~~~~~~--a~CPdC~~~Le~LkA-------------------CGAvd   51 (71)
T d2jnea1           1 MELHCPQCQHVLDQDN--------GHARCRSCGEFIEMK--ALCPDCHQPLQVLKA-------------------CGAVD   51 (71)
T ss_dssp             CCCBCSSSCSBEEEET--------TEEEETTTCCEEEEE--EECTTTCSBCEEEEE-------------------TTEEE
T ss_pred             CCCcCCCccCcccccC--------CCEehhhhhhhheeE--EeCCccccHHHHHHh-------------------ccchh
Confidence            4678999997543211        778888887776542  579999998876432                   23589


Q ss_pred             EEcCCCCC---Ccccccee
Q 021224          283 ILCNDCGK---TSNVQFHV  298 (316)
Q Consensus       283 IlCnDC~~---~s~~~fH~  298 (316)
                      .+|+.|.+   ++.|.|++
T Consensus        52 YFC~~cn~LiSKkrv~f~~   70 (71)
T d2jnea1          52 YFCQHGHGLISKKRVEFVL   70 (71)
T ss_dssp             EEETTTTEEECTTTSEEEE
T ss_pred             hhhccCCceeEeeeEEEEe
Confidence            99999994   67777764

>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=80.36  E-value=0.15  Score=35.21  Aligned_cols=51  Identities=29%  Similarity=0.559  Sum_probs=33.1

Q ss_pred             CCCCCCcccccccccCCceeE-EcCCCCccchhHHHHH---Hh-cCCCCCCCCCccc
Q 021224          202 AMHHDCPVCCEYLFETRQDVI-VLPCGHTIHKNCLKEM---RE-HHQYACPICSKSV  253 (316)
Q Consensus       202 ~~~~~CPIClE~lf~s~~~~v-~LpCGH~fH~~Ci~~w---l~-~~~~~CPiCrks~  253 (316)
                      +....|+||.+. .+.....+ =-.|+..||..|+..-   .. ...|.||.|+..-
T Consensus         4 ~~~~~C~~C~~~-~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~   59 (64)
T d1we9a_           4 GSSGQCGACGES-YAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS   59 (64)
T ss_dssp             SSCCCCSSSCCC-CCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTT
T ss_pred             CCCCcCcCcCCC-CCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcC
Confidence            456789999874 33222222 2378999999999642   11 1458899998643

>d2dkta2 g.93.1.1 (A:82-137) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Zinc hairpin stack
superfamily: Zinc hairpin stack
family: Zinc hairpin stack
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.11  E-value=0.3  Score=33.84  Aligned_cols=29  Identities=31%  Similarity=0.833  Sum_probs=19.8

Q ss_pred             eecCccccccCCCCCCeeecCCCCcceec
Q 021224          145 YFCESCKLFDDDTSKKQYHCDGCGICRIG  173 (316)
Q Consensus       145 YfC~~C~l~ddd~~k~~yHC~~CgiCR~G  173 (316)
                      |-|+.|.+=--...++-|||+.||+|---
T Consensus        18 yHC~~CgiCRvG~~~~ffHC~~C~~C~~~   46 (56)
T d2dkta2          18 YHCESCGICRIGPKEDFFHCLKCNLCLTT   46 (56)
T ss_dssp             EEETTTTEEEESCGGGEEEETTTTEEEEG
T ss_pred             ccCCCCCceeecCCccccccCccccccCc
Confidence            55555544433346789999999999754