Citrus Sinensis ID: 047964

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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-------17
Protein Sequence
MAATLSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSGVHRLF
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHcccEEEccccccccccccccccEEEccccccccEEEEcccccccccccHHHHHHccccccccccccccccHHHHHHHHcccccccccccccccccEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHccccHHHHHHcccEEEEEccccccccccccccEEEEcccccccEEEEEcccccccHHcccHHHHHccccccccccccccccccccccccccccccccccccccccEEccccccccccccc
Coil and Loop (DISEMBL)
MAATLSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFieeknptisykksmlmkkspseskdcavclsdfedgemvrklnckhtfhrDCLDKWLQEYLatcplcrtkvlpDEIVAKYQHQQnlqnldyyggdDEMAFLISLLhgsgvhrlf
Flexible Loop (DISEMBL)
maatlskfFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIrsrlitrtqylnfieeknptisykksmlmkkspseskDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLhgsgvhrlf
Low Complexity Region (SEG)
MAATLSKffsqictifiifftllfveililtRSFTRTVRKIRSRLITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSGVHRLF
Disordered region (IsUnstruct)
****LSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKN********************CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSG*****
Disordered Region (DISOPRED)
*AATLSKFFSQICTIFIIFFTLLFVEILILTRSFTR************************TISY************SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL******************************************
Disordered Region (DISEMBL)
MAATLSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTISYKKS************CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSGVHRLF
Disordered Region (DISPRO)
*AATLSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD****************************************
Transmembrane Helix (TMHMM)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAATLSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSGVHRLF
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	168	2.2.26 [Sep-21-2011]
Q9ZT50	155	E3 ubiquitin-protein liga	yes	no	0.345	0.374	0.517	9e-14
Q9ZU51	147	Probable E3 ubiquitin-pro	no	no	0.583	0.666	0.349	5e-13
Q9LSW9	375	RING-H2 finger protein AT	no	no	0.375	0.168	0.478	2e-11
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.386	0.198	0.457	4e-11
Q94BY6	226	RING-H2 finger protein AT	no	no	0.351	0.261	0.484	6e-11
Q9SJJ7	237	RING-H2 finger protein AT	no	no	0.327	0.232	0.508	6e-11
P87139	372	Uncharacterized RING fing	yes	no	0.577	0.260	0.372	7e-11
Q67YI6	411	RING-H2 finger protein AT	no	no	0.357	0.145	0.483	7e-11
Q91XF4	347	E3 ubiquitin-protein liga	yes	no	0.595	0.288	0.345	9e-11
P0C034	251	RING-H2 finger protein AT	no	no	0.357	0.239	0.476	1e-10

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

 Score = 76.3 bits (186), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 30/58 (51%), Positives = 42/58 (72%)

Query: 78  KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQ 135
            DC VCLS  ++GE VRKL C+H FH+ CL+ WL ++  TCPLCR+ ++ D+ V+K Q
Sbjct: 84  SDCVVCLSKLKEGEEVRKLECRHVFHKKCLEGWLHQFNFTCPLCRSALVSDDCVSKTQ 141

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

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

 Score = 73.9 bits (180), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 37/106 (34%), Positives = 60/106 (56%), Gaps = 8/106 (7%)

Query: 27  ILILTRSFTRTVRKI-----RSRLITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCA 81
           +L L  +F R VR +      + ++  T  L+ + ++   ++  +    + S + + DC 
Sbjct: 19  LLALLATFFRHVRSLLLFPSSAPVVVVTSNLSVLADQ---LNLNRLFSYRYSDNAASDCI 75

Query: 82  VCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127
           VCLS  + GE VRKL+C+H FH+ CL+ WLQ     CPLCR+ +LP
Sbjct: 76  VCLSKLKTGEEVRKLDCRHVFHKQCLEGWLQHLNFNCPLCRSPLLP 121

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9LSW9|ATL16_ARATH RING-H2 finger protein ATL16 OS=Arabidopsis thaliana GN=ATL16 PE=2 SV=1

 Score = 68.6 bits (166), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 34/71 (47%), Positives = 45/71 (63%), Gaps = 8/71 (11%)

Query: 77  SKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKV------LPDE 129
           S++C+VCLS+F+D E +R + NC H FH DC+D WLQ   A CPLCRT+V       PD 
Sbjct: 135 SQECSVCLSEFQDEEKLRIIPNCSHLFHIDCIDVWLQNN-ANCPLCRTRVSCDTSFPPDR 193

Query: 130 IVAKYQHQQNL 140
           + A     +NL
Sbjct: 194 VSAPSTSPENL 204

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LPN7|RNG1L_ARATH E3 ubiquitin-protein ligase RING1-like OS=Arabidopsis thaliana GN=At3g19950 PE=2 SV=1

 Score = 67.4 bits (163), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 44/70 (62%), Gaps = 5/70 (7%)

Query: 60  PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCP 119
           PT+   K ML     SE   CAVC+ +FEDG  V+++ CKH FH+DCL  WL E   +CP
Sbjct: 200 PTVKVTKDMLK----SEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWL-ELHNSCP 254

Query: 120 LCRTKVLPDE 129
           +CR ++  D+
Sbjct: 255 VCRFELPTDD 264

E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Promotes polyubiquitination of target proteins.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 67.0 bits (162), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 31/64 (48%), Positives = 40/64 (62%), Gaps = 5/64 (7%)

Query: 60  PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATC 118
           P +SY   M +   P   ++C +CLSDF  GE +R L  C H FH  C+DKWLQ++L TC
Sbjct: 119 PVVSYSPEMNL---PGLGEECVICLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHL-TC 174

Query: 119 PLCR 122
           P CR
Sbjct: 175 PKCR 178

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJJ7|ATL57_ARATH RING-H2 finger protein ATL57 OS=Arabidopsis thaliana GN=ATL57 PE=2 SV=1

 Score = 67.0 bits (162), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 29/57 (50%), Positives = 40/57 (70%), Gaps = 2/57 (3%)

Query: 71  KKSPSESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126
           K +   ++DC +CLSDFE+GE V+ + +C H FH DC+D WL  Y+ TCPLCR+  L
Sbjct: 131 KAAKQRNEDCVICLSDFEEGETVKVIPHCGHVFHVDCVDTWLSSYV-TCPLCRSNQL 186

Arabidopsis thaliana (taxid: 3702)

>sp|P87139|YDM9_SCHPO Uncharacterized RING finger protein C57A7.09 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC57A7.09 PE=1 SV=1

 Score = 66.6 bits (161), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/102 (37%), Positives = 56/102 (54%), Gaps = 5/102 (4%)

Query: 31  TRSFTRT-VRKIRSRLITRTQYLNFIEE-KNPTISYKKSMLMKKSPSESK---DCAVCLS 85
           T+S TR  +  + SR I+R  + +  EE +N T + +   LM +S   +    +C +CL 
Sbjct: 267 TKSKTRRFIEDLPSRTISREGFYSEEEEIENSTQNGELVPLMDESTRRATFGVECVICLE 326

Query: 86  DFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127
            F  G+ V  L CKH FHR C+ KW+ +Y   CP C T+V P
Sbjct: 327 SFTKGDKVVALPCKHEFHRPCIAKWIVDYRHACPTCNTEVPP 368

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

>sp|Q67YI6|ATL65_ARATH RING-H2 finger protein ATL65 OS=Arabidopsis thaliana GN=ATL65 PE=2 SV=2

 Score = 66.6 bits (161), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 30/62 (48%), Positives = 42/62 (67%), Gaps = 2/62 (3%)

Query: 66  KSMLMKKSPSESKDCAVCLSDFEDGEMVRKLN-CKHTFHRDCLDKWLQEYLATCPLCRTK 124
           K  + K S +  +DCAVCL +FE+G+ VR L  C H FH +C+D+WL+ +   CPLCRT 
Sbjct: 142 KPAVGKTSAANCRDCAVCLLEFEEGDYVRTLPLCFHAFHLECIDEWLRSH-PNCPLCRTA 200

Query: 125 VL 126
           +L
Sbjct: 201 IL 202

Arabidopsis thaliana (taxid: 3702)

>sp|Q91XF4|RN167_MOUSE E3 ubiquitin-protein ligase RNF167 OS=Mus musculus GN=Rnf167 PE=2 SV=1

 Score = 66.2 bits (160), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 39/113 (34%), Positives = 58/113 (51%), Gaps = 13/113 (11%)

Query: 16  FIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEK---NPTISYKKSMLMKK 72
           ++I FT + V +L+L       VR I+ R   R Q     +E+    PT  Y+K      
Sbjct: 173 YLIPFTGI-VGLLVLAMGTVLIVRCIQHR--KRLQRNRLTKEQLKQIPTHDYQKG----- 224

Query: 73  SPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
              E   CA+CL ++EDG+ +R L C H +H  C+D WL +   TCP+C+  V
Sbjct: 225 --DEYDVCAICLDEYEDGDKLRVLPCAHAYHSRCVDPWLTQTRKTCPICKQPV 275

May act as an E3 ubiquitin-protein ligase, or as part of the E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, such as UBE2E1, and then transfers it to substrates, such as SLC22A18. May play a role in growth regulation involved in G1/S transition.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 65.9 bits (159), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 31/65 (47%), Positives = 40/65 (61%), Gaps = 5/65 (7%)

Query: 60  PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATC 118
           P +SY   M +   P   ++C +CLSDF  GE +R L  C H FH  C+DKWLQ++L TC
Sbjct: 118 PVVSYSPEMNL---PGLDEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQHL-TC 173

Query: 119 PLCRT 123
           P CR 
Sbjct: 174 PKCRN 178

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	168
224093804	163	predicted protein [Populus trichocarpa]	0.958	0.987	0.580	3e-48
449496543	208	PREDICTED: RING finger protein 150-like	0.928	0.75	0.506	2e-39
224081206	149	predicted protein [Populus trichocarpa]	0.875	0.986	0.559	2e-38
357463473	157	RING finger family protein [Medicago tru	0.898	0.961	0.447	2e-35
224072190	110	predicted protein [Populus trichocarpa]	0.648	0.990	0.643	2e-35
224081208	164	predicted protein [Populus trichocarpa]	0.946	0.969	0.494	9e-35
224093810	164	predicted protein [Populus trichocarpa]	0.702	0.719	0.544	1e-31
357519591	228	RING finger family protein [Medicago tru	0.857	0.631	0.484	3e-30
224093806	164	predicted protein [Populus trichocarpa]	0.696	0.713	0.504	8e-28
388495580	164	unknown [Lotus japonicus]	0.601	0.615	0.558	2e-26

>gi|224093804|ref|XP_002309999.1| predicted protein [Populus trichocarpa] gi|222852902|gb|EEE90449.1| predicted protein [Populus trichocarpa]

 Score =  196 bits (497), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 97/167 (58%), Positives = 124/167 (74%), Gaps = 6/167 (3%)

Query: 3   ATLSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTI 62
           A+LS+FFS + T+ I+F +LL VEI+IL +S   +  K    +I+ TQYL  +EEKNPTI
Sbjct: 2   ASLSEFFSHLYTMSIVFLSLLLVEIVILFQSVIGSTLKSNKPIISTTQYLKHMEEKNPTI 61

Query: 63  SYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122
           SY + +  ++   +S +CAVCLS F +GE VRKLNCKHTFH+DCLDKWLQ+ LATCPLCR
Sbjct: 62  SYSEKLTRQQ---DSMECAVCLSKFSEGESVRKLNCKHTFHKDCLDKWLQQSLATCPLCR 118

Query: 123 TKVLPDEIVAKYQHQQNLQNLDYYGGDDEMA-FLISLLHGSGVHRLF 168
            KVLPDEIVAKY   QN   + Y G D+EMA FL+S LHG+G+ R+F
Sbjct: 119 AKVLPDEIVAKYDRMQN--QIGYDGSDEEMAPFLLSALHGNGLQRIF 163

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449496543|ref|XP_004160161.1| PREDICTED: RING finger protein 150-like [Cucumis sativus]

 Score =  166 bits (421), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 82/162 (50%), Positives = 108/162 (66%), Gaps = 6/162 (3%)

Query: 3   ATLSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTI 62
             LS+FFS + T+  +FFTLL +E +IL R+          R+IT  Q+   IE+KNPTI
Sbjct: 2   GALSEFFSHLHTMTAVFFTLLLLEFVILIRTIFGLRPNSDKRVITTAQFFKLIEDKNPTI 61

Query: 63  SYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122
            +      K +PS +  CAVCLS+FE+GE VRKL C HTFH+DCLD WL+   ATCPLCR
Sbjct: 62  RFSN----KVTPSIADQCAVCLSEFEEGEKVRKLQCNHTFHKDCLDNWLKLCFATCPLCR 117

Query: 123 TKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSGV 164
           +KVLPD+IVA Y   ++   ++Y G D+E+ FL+S LHG GV
Sbjct: 118 SKVLPDDIVAGYHRLRD--RVEYDGSDEELIFLLSALHGPGV 157

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224081206|ref|XP_002306334.1| predicted protein [Populus trichocarpa] gi|222855783|gb|EEE93330.1| predicted protein [Populus trichocarpa]

 Score =  164 bits (414), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 85/152 (55%), Positives = 113/152 (74%), Gaps = 5/152 (3%)

Query: 17  IIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTISYKKSMLMKKSPSE 76
           I+F +LL +EI+IL RS   +  K    +I+ TQYL  IEEKNPTISY K ++ ++   +
Sbjct: 3   IVFLSLLLLEIVILIRSVIGSTLKSDKPIISTTQYLRHIEEKNPTISYSKQLMRQQ---D 59

Query: 77  SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQH 136
           S +CAVCLS+F +GE VRKL CKHTFH+DCLD+WLQ+ LATCPLCR KVLPDEI+AKY  
Sbjct: 60  SIECAVCLSEFSEGESVRKLKCKHTFHKDCLDEWLQQCLATCPLCRAKVLPDEILAKYDR 119

Query: 137 QQNLQNLDYYGGDDEMAFLISLLHGSGVHRLF 168
            Q+   ++Y G D+EM F++S LHG+ + R+F
Sbjct: 120 MQS--QIEYDGSDEEMIFMLSALHGNSLQRIF 149

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357463473|ref|XP_003602018.1| RING finger family protein [Medicago truncatula] gi|355491066|gb|AES72269.1| RING finger family protein [Medicago truncatula]

 Score =  154 bits (388), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 73/163 (44%), Positives = 102/163 (62%), Gaps = 12/163 (7%)

Query: 1   MAATLSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNP 60
           M   +S  F ++C    I    + VE++I     T   + I +R     QY+ FIEEKNP
Sbjct: 1   MTVDISNVFQKLCNKIAILLIFVLVELIIFIWKLTSDTQSITTR-----QYIKFIEEKNP 55

Query: 61  TISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPL 120
           TI Y K +      +   DC+VCLS+FE+GE VR+L CKHTFH+DCLDKWLQ+Y ATCPL
Sbjct: 56  TIRYNKKL------NSHGDCSVCLSEFEEGEKVRRLKCKHTFHKDCLDKWLQDYFATCPL 109

Query: 121 CRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSG 163
           CR +VLPD +V K++ Q+N Q+ +  G D+ + +++ LL G  
Sbjct: 110 CREQVLPDNVVLKHRQQRNQQS-NIEGNDENLPYVLFLLRGGN 151

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224072190|ref|XP_002335928.1| predicted protein [Populus trichocarpa] gi|222836416|gb|EEE74823.1| predicted protein [Populus trichocarpa]

 Score =  153 bits (387), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 74/115 (64%), Positives = 90/115 (78%), Gaps = 6/115 (5%)

Query: 55  IEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY 114
           +EEKNPTISY + +  ++   +S +CAVCLS F +GE VRKLNCKHTFH+DCLDKWLQ+ 
Sbjct: 1   MEEKNPTISYSEKLTRQQ---DSMECAVCLSKFSEGESVRKLNCKHTFHKDCLDKWLQQS 57

Query: 115 LATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMA-FLISLLHGSGVHRLF 168
           LATCPLCR KVLPDEIVAKY   QN   + Y G D+EMA FL+S LHG+G+ R+F
Sbjct: 58  LATCPLCRAKVLPDEIVAKYDRMQN--QIGYDGSDEEMAPFLLSALHGNGLQRIF 110

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224081208|ref|XP_002306335.1| predicted protein [Populus trichocarpa] gi|222855784|gb|EEE93331.1| predicted protein [Populus trichocarpa]

 Score =  151 bits (381), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 84/170 (49%), Positives = 110/170 (64%), Gaps = 11/170 (6%)

Query: 3   ATLSKFFSQICTIFIIFFTLLFVEILILTRSF---TRTVRKIRSRLITRTQYLNFIEEKN 59
           A L K FS + T  +  F L+ ++ L L RS    ++     +  LI  TQYL+ IE+ N
Sbjct: 2   AALLKVFSHLYTAIMSSFNLILLKTLFLIRSLLPGSKLTNPDKLFLIISTQYLSLIEKTN 61

Query: 60  PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCP 119
           P I Y +    K S  +S++CAVCLS F  GE VRKL C HTFH++CLDKWLQ+YLATCP
Sbjct: 62  PAIHYSE----KFSRQQSRECAVCLSGFMKGERVRKLRCNHTFHKECLDKWLQQYLATCP 117

Query: 120 LCRTKVLPDEIVAKYQHQQNLQNLDYYGGD-DEMAFLISLLHGSGVHRLF 168
           LCRT+VLPDEIV  Y HQ  LQ++   GG  D+  FL+S L+G+ + +LF
Sbjct: 118 LCRTRVLPDEIVVNY-HQ--LQDIIRNGGSYDDTMFLLSALYGNSLKKLF 164

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224093810|ref|XP_002310001.1| predicted protein [Populus trichocarpa] gi|222852904|gb|EEE90451.1| predicted protein [Populus trichocarpa]

 Score =  140 bits (354), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 68/125 (54%), Positives = 94/125 (75%), Gaps = 7/125 (5%)

Query: 44  RLITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFH 103
           R+IT TQY N +EEKNPTI Y +++       ES++CAVCLS+F +GE +RKL CKHTFH
Sbjct: 47  RIIT-TQYFNLVEEKNPTICYSENL----RHHESRECAVCLSEFLEGESLRKLKCKHTFH 101

Query: 104 RDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSG 163
           +DCLDKWL+EYLATCPLCRT+VLP+ +VA Y+  ++  +++  G  D+  F++S L+G  
Sbjct: 102 KDCLDKWLEEYLATCPLCRTRVLPEGLVANYRLLKD--HIENGGSYDDATFMLSALYGDF 159

Query: 164 VHRLF 168
           + RLF
Sbjct: 160 LRRLF 164

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357519591|ref|XP_003630084.1| RING finger family protein [Medicago truncatula] gi|355524106|gb|AET04560.1| RING finger family protein [Medicago truncatula]

 Score =  136 bits (342), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 77/159 (48%), Positives = 100/159 (62%), Gaps = 15/159 (9%)

Query: 5   LSKFFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTISY 64
           LS+   Q+    I+ FT + +E LIL   + ++ +      IT TQYLNFIEEKNPT   
Sbjct: 4   LSELLYQLYVKTIVLFTYMLIE-LILVICYLKSTKNP----ITTTQYLNFIEEKNPTTR- 57

Query: 65  KKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWL--QEYLATCPLCR 122
                +KK  +E  DC VCLS+FE+G++VR LNC+HTFH+DCLDKW   ++Y ATCPLCR
Sbjct: 58  -----LKKLAAEHIDCRVCLSEFEEGDIVRSLNCEHTFHKDCLDKWFLQEQYCATCPLCR 112

Query: 123 TKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHG 161
            KVL D++V+KY   QN    D    DDE   L+S L G
Sbjct: 113 NKVLSDDVVSKYCLLQNQVEFDVI--DDEFMTLLSSLRG 149

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224093806|ref|XP_002310000.1| predicted protein [Populus trichocarpa] gi|222852903|gb|EEE90450.1| predicted protein [Populus trichocarpa]

 Score =  128 bits (322), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 62/123 (50%), Positives = 83/123 (67%), Gaps = 6/123 (4%)

Query: 46  ITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRD 105
           I  TQYLN IE+ NPT+ Y + +   +S    ++CAVCLS+F +GE VR L C HTFH +
Sbjct: 48  IISTQYLNIIEKTNPTLHYCEKITRPRS----RECAVCLSEFTEGERVRTLKCHHTFHNE 103

Query: 106 CLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGSGVH 165
           CLDKWL + +ATCPLCRT VLPDEIV  Y   ++  N+   G  D+  FL+S L+GS + 
Sbjct: 104 CLDKWLHQSMATCPLCRTVVLPDEIVVNYHQLRD--NILNGGSYDDTIFLLSALYGSSMK 161

Query: 166 RLF 168
           ++F
Sbjct: 162 KIF 164

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388495580|gb|AFK35856.1| unknown [Lotus japonicus]

 Score =  123 bits (309), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 62/111 (55%), Positives = 80/111 (72%), Gaps = 10/111 (9%)

Query: 44  RLITRTQYLNFIEEKNPTISYKK-----SMLMKKSPSESKDCAVCLSDFEDGEMVRKLNC 98
           R IT  QYL FIEE NPTI Y K     S L    P ++ +C VCLS+FE+GE VR+L C
Sbjct: 38  RSITTKQYLEFIEENNPTIRYAKRRSSWSELEHVVPDDT-ECRVCLSEFEEGEKVRRLKC 96

Query: 99  KHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQ----HQQNLQNLDY 145
           KHTFH+DCLDKWLQE  ATCPLCR +VLP ++V+K++    H++N+++L Y
Sbjct: 97  KHTFHKDCLDKWLQECWATCPLCRKQVLPCDVVSKHRHFLSHEENVEHLPY 147

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	168
TAIR|locus:2195498	166	AT1G63840 [Arabidopsis thalian	0.369	0.373	0.5	6.9e-15
TAIR|locus:2037683	155	RHA2A "RING-H2 finger A2A" [Ar	0.339	0.367	0.526	1.1e-14
TAIR|locus:2082757	170	BRH1 "brassinosteroid-responsi	0.482	0.476	0.404	4.9e-14
TAIR|locus:2102311	167	AT3G43430 [Arabidopsis thalian	0.482	0.485	0.419	2.1e-13
TAIR|locus:2177931	176	AT5G41400 [Arabidopsis thalian	0.375	0.357	0.476	2.1e-13
TAIR|locus:2038766	147	RHA2B "RING-H2 finger protein	0.327	0.374	0.527	2.7e-13
TAIR|locus:2059793	162	XERICO [Arabidopsis thaliana (	0.5	0.518	0.363	2.7e-13
TAIR|locus:2057861	237	AT2G27940 [Arabidopsis thalian	0.327	0.232	0.508	5.6e-13
TAIR|locus:2028411	226	AT1G49200 [Arabidopsis thalian	0.351	0.261	0.484	1.5e-12
TAIR|locus:2028406	225	AT1G49210 [Arabidopsis thalian	0.351	0.262	0.484	1.9e-12

TAIR|locus:2195498 AT1G63840 [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 6.9e-15, P = 6.9e-15
 Identities = 32/64 (50%), Positives = 46/64 (71%)

Query:    76 ESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEY-LATCPLCRTKVLPDEIVAK 133
             ES+ CAVCL DFE+ + +R+L NC+H FHR CLD+W+  Y   TCPLCRT+ +PD +  +
Sbjct:    85 ESECCAVCLYDFENDDEIRRLTNCRHIFHRGCLDRWMMGYNQMTCPLCRTQFIPDHLQLE 144

Query:   134 YQHQ 137
             +  +
Sbjct:   145 FNQR 148

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

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

GO:0007165 "signal transduction" evidence=RCA

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

GO:0009611 "response to wounding" evidence=RCA

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

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

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

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

GO:0042538 "hyperosmotic salinity response" evidence=RCA

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

 Score = 187 (70.9 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 30/57 (52%), Positives = 42/57 (73%)

Query:    79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQ 135
             DC VCLS  ++GE VRKL C+H FH+ CL+ WL ++  TCPLCR+ ++ D+ V+K Q
Sbjct:    85 DCVVCLSKLKEGEEVRKLECRHVFHKKCLEGWLHQFNFTCPLCRSALVSDDCVSKTQ 141

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0016567 "protein ubiquitination" evidence=IDA

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

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

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

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

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 34/84 (40%), Positives = 50/84 (59%)

Query:    55 IEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQE 113
             I E  P I +++  L        ++CAVCL +FE  + +R L NC+H FHR CLD+W+  
Sbjct:    71 IREILPVIKFEE--LTNSGEDLPENCAVCLYEFEGEQEIRWLRNCRHIFHRSCLDRWMDH 128

Query:   114 YLATCPLCRTKVLPDEIVAKYQHQ 137
                TCPLCRT  +PDE+  ++  +
Sbjct:   129 DQKTCPLCRTPFVPDEMQEEFNQR 152

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0010200 "response to chitin" evidence=IEP

GO:0030003 "cellular cation homeostasis" evidence=RCA

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

TAIR|locus:2102311 AT3G43430 [Arabidopsis thaliana (taxid:3702)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 39/93 (41%), Positives = 53/93 (56%)

Query:    70 MKKSPSESKD-CAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQ--------EYLATCP 119
             +++SP+   D CAVCL D ED + +R+L NC H FHRDC+D+WL         +   TCP
Sbjct:    72 VERSPAAINDMCAVCLGDLEDEDEIRELRNCTHVFHRDCIDRWLDYECCGGDDDNHRTCP 131

Query:   120 LCRTKVLPD--EIVAKYQHQQNLQNLDYYGGDD 150
             LCRT +LP   +     Q    ++ L Y  GDD
Sbjct:   132 LCRTPLLPSFTDYSTVTQTSWAVERLLYLFGDD 164

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

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

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 31/65 (47%), Positives = 43/65 (66%)

Query:    75 SESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEY-LATCPLCRTKVLPDEIVA 132
             S S  CAVCL +FE+ + +R+L NC+H FHR CLD+W+  Y   TCPLCRT  + DE+  
Sbjct:   100 SGSDCCAVCLHEFENDDEIRRLTNCQHIFHRSCLDRWMMGYNQMTCPLCRTPFISDELQV 159

Query:   133 KYQHQ 137
              +  +
Sbjct:   160 AFNQR 164

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

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

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

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

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

 Score = 174 (66.3 bits), Expect = 2.7e-13, P = 2.7e-13
 Identities = 29/55 (52%), Positives = 38/55 (69%)

Query:    73 SPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127
             S + + DC VCLS  + GE VRKL+C+H FH+ CL+ WLQ     CPLCR+ +LP
Sbjct:    67 SDNAASDCIVCLSKLKTGEEVRKLDCRHVFHKQCLEGWLQHLNFNCPLCRSPLLP 121

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

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

GO:0080167 "response to karrikin" evidence=IEP

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

 Score = 174 (66.3 bits), Expect = 2.7e-13, P = 2.7e-13
 Identities = 32/88 (36%), Positives = 48/88 (54%)

Query:    44 RLITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFH 103
             R+     YL     + PT+ ++     KK      +C+VCLS F+    + KL C H FH
Sbjct:    69 RVCQPESYLEEFRNRTPTLRFESLCRCKKQADN--ECSVCLSKFQGDSEINKLKCGHLFH 126

Query:   104 RDCLDKWLQEYLATCPLCRTK--VLPDE 129
             + CL+KW+  +  TCPLCRT   V+P++
Sbjct:   127 KTCLEKWIDYWNITCPLCRTPLVVVPED 154

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

GO:0005515 "protein binding" evidence=IPI

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

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

GO:0010200 "response to chitin" evidence=IEP

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

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

TAIR|locus:2057861 AT2G27940 [Arabidopsis thaliana (taxid:3702)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 29/57 (50%), Positives = 40/57 (70%)

Query:    71 KKSPSESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126
             K +   ++DC +CLSDFE+GE V+ + +C H FH DC+D WL  Y+ TCPLCR+  L
Sbjct:   131 KAAKQRNEDCVICLSDFEEGETVKVIPHCGHVFHVDCVDTWLSSYV-TCPLCRSNQL 186

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

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

 Score = 167 (63.8 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 31/64 (48%), Positives = 40/64 (62%)

Query:    60 PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATC 118
             P +SY   M +   P   ++C +CLSDF  GE +R L  C H FH  C+DKWLQ++L TC
Sbjct:   119 PVVSYSPEMNL---PGLGEECVICLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHL-TC 174

Query:   119 PLCR 122
             P CR
Sbjct:   175 PKCR 178

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

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

 Score = 166 (63.5 bits), Expect = 1.9e-12, P = 1.9e-12
 Identities = 31/64 (48%), Positives = 40/64 (62%)

Query:    60 PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATC 118
             P +SY + M +   P   ++C +CLSDF  GE +R L  C H FH  C+DKWLQ +L TC
Sbjct:   118 PVVSYSREMNL---PGIGEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQHHL-TC 173

Query:   119 PLCR 122
             P CR
Sbjct:   174 PKCR 177

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

---

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

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	168
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	8e-16
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	7e-13
smart00184	40	smart00184, RING, Ring finger	4e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	9e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-06
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	6e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	7e-04
smart00249	47	smart00249, PHD, PHD zinc finger	0.002
pfam00628	51	pfam00628, PHD, PHD-finger	0.003
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	0.003

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

 Score = 73.1 bits (179), Expect = 8e-16
 Identities = 34/125 (27%), Positives = 57/125 (45%), Gaps = 10/125 (8%)

Query: 12  ICTIFIIFFTLLFVEILILT-RSFTRTVRKI---RSRLITRTQYLNFIEEKNPTISYKKS 67
               F + F  +  + L     + ++  R       ++     + +   E  PT + K S
Sbjct: 250 GSRGFRVVFPRIPSQELRFLFLTQSKGSRFNIILEIQINFDVGFYS-SSEAIPTTTTKGS 308

Query: 68  M--LMKKSPSESK---DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122
           +  L  +   E+    +CA+C+S+F   + +R L C H FH  C+DKWL  Y   CP+CR
Sbjct: 309 LKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCR 368

Query: 123 TKVLP 127
           T + P
Sbjct: 369 TAIPP 373

Length = 374

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

 Score = 65.1 bits (159), Expect = 4e-15
 Identities = 25/46 (54%), Positives = 31/46 (67%), Gaps = 1/46 (2%)

Query: 79  DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTK 124
           +C +CL +FE GE V  L C H FH++CLDKWL+    TCPLCR  
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLR-SSNTCPLCRAP 46

Length = 46

>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

 Score = 59.4 bits (144), Expect = 7e-13
 Identities = 22/47 (46%), Positives = 29/47 (61%), Gaps = 2/47 (4%)

Query: 79  DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
           +C +CL +F +   V  L C H F R C+DKWL+    TCPLCRT +
Sbjct: 1   ECPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 49.4 bits (118), Expect = 4e-09
 Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLC 121
           C +CL ++   +    L C HTF R C+ KWL+    TCP+C
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 46.7 bits (111), Expect = 9e-08
 Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 11/54 (20%)

Query: 79  DCAVCLSDFED--------GE--MVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122
            CA+C + F+         G+   V    C H FH  C+ +WL+    TCPLCR
Sbjct: 21  VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKT-RNTCPLCR 73

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

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

 Score = 42.5 bits (100), Expect = 2e-06
 Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 3/48 (6%)

Query: 76  ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT 123
           E  +C +CL    D   V    C H F R+C+ ++L++  + CP+CRT
Sbjct: 1   EELECPICLDLLRD--PVVLTPCGHVFCRECILRYLKK-KSKCPICRT 45

Length = 45

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

 Score = 41.3 bits (97), Expect = 5e-06
 Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 2/42 (4%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLC 121
           C +CL + +D   V  L C H F   C+  WL+    TCPLC
Sbjct: 1   CPICLEEPKDP--VTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 44.4 bits (105), Expect = 6e-06
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 8/70 (11%)

Query: 60  PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKL-----NCKHTFHRDCLDKWLQEY 114
           P++  +   L  +S  + K+CA+C+    D E+         NC H F  +C+D W +E 
Sbjct: 159 PSVLSEYEKLYNRS--KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK 216

Query: 115 LATCPLCRTK 124
             TCP+CRT 
Sbjct: 217 -NTCPVCRTP 225

Length = 238

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

 Score = 38.8 bits (90), Expect = 7e-04
 Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)

Query: 94  RKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE 129
           ++L C H  H  CL  WL E   TCP+CR  V+ D+
Sbjct: 314 KRLPCGHILHLHCLKNWL-ERQQTCPICRRPVIFDQ 348

Length = 491

>gnl|CDD|214584 smart00249, PHD, PHD zinc finger

 Score = 34.5 bits (79), Expect = 0.002
 Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 4/46 (8%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCL----DKWLQEYLATCPLC 121
           C+VC    + GE+++   C   +H+ CL     +   +    CP C
Sbjct: 2   CSVCGKPDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the RING finger and the FYVE finger. It is not yet known if PHD fingers have a common molecular function. Several reports suggest that it can function as a protein-protein interacton domain and it was recently demonstrated that the PHD finger of p300 can cooperate with the adjacent BROMO domain in nucleosome binding in vitro. Other reports suggesting that the PHD finger is a ubiquitin ligase have been refuted as these domains were RING fingers misidentified as PHD fingers. Length = 47

>gnl|CDD|201356 pfam00628, PHD, PHD-finger

 Score = 34.0 bits (78), Expect = 0.003
 Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 5/50 (10%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-----TCPLCRTK 124
           CAVC    +DGE++    C   FH  CL   L+          CP C+ K
Sbjct: 2   CAVCGKVDDDGELLLCDGCDRWFHLACLGPPLEPEEIPEGEWYCPECKPK 51

PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar manner to that of the RING and FYVE domains. Several PHD fingers have been identified as binding modules of methylated histone H3. Length = 51

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

 Score = 37.0 bits (85), Expect = 0.003
 Identities = 25/67 (37%), Positives = 36/67 (53%), Gaps = 7/67 (10%)

Query: 64   YKKSMLMKKSPSESKDCAVCLS--DFEDGEMVRKL--NCKHTFHRDCLDKWLQEY-LATC 118
            +KK++  K S  E  +CA+C S  D  D  +  K    CK+ FH  CL KW      + C
Sbjct: 1458 WKKNIDEKFSGHE--ECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNC 1515

Query: 119  PLCRTKV 125
            PLCR+++
Sbjct: 1516 PLCRSEI 1522

Length = 1525

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	168
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.64
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.49
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.35
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.32
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.26
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.21
PHA02929	238	N1R/p28-like protein; Provisional	99.2
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.2
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.01
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.01
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.0
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.0
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.97
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.94
PHA02926	242	zinc finger-like protein; Provisional	98.94
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.9
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.89
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.88
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.86
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.85
PF14634	44	zf-RING_5: zinc-RING finger domain	98.83
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.82
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.71
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.7
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.68
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.6
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.53
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.47
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.47
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.44
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.39
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.36
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.31
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.28
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.23
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.2
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.17
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.17
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.15
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.13
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.12
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.06
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.98
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.88
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.8
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.69
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.68
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.68
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.67
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.47
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.4
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.34
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.27
KOG2660	331	consensus Locus-specific chromosome binding protei	97.2
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.09
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.05
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.01
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.95
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.95
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.93
COG5152	259	Uncharacterized conserved protein, contains RING a	96.88
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.85
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.75
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.75
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.72
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.72
PHA02862	156	5L protein; Provisional	96.65
KOG4445	368	consensus Uncharacterized conserved protein, conta	96.64
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.53
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.51
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.39
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.35
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.34
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	96.31
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.17
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.17
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.03
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.02
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.98
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.81
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.63
KOG4739	233	consensus Uncharacterized protein involved in syna	95.54
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.38
KOG3002	299	consensus Zn finger protein [General function pred	95.33
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	95.25
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.22
PF04641	260	Rtf2: Rtf2 RING-finger	95.18
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	94.98
PHA03096	284	p28-like protein; Provisional	94.9
KOG1940	276	consensus Zn-finger protein [General function pred	94.61
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	94.47
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	94.33
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.16
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	94.09
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	93.85
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.65
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	93.64
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.46
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	93.44
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	93.26
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	92.67
KOG3053	293	consensus Uncharacterized conserved protein [Funct	92.48
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	91.06
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	90.73
KOG3899	381	consensus Uncharacterized conserved protein [Funct	90.13
KOG0298	1394	consensus DEAD box-containing helicase-like transc	89.84
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	88.56
KOG4367	699	consensus Predicted Zn-finger protein [Function un	87.78
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	86.23
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	83.7
KOG1609	323	consensus Protein involved in mRNA turnover and st	82.34
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	80.96
KOG2807	378	consensus RNA polymerase II transcription initiati	80.45
KOG3005	276	consensus GIY-YIG type nuclease [General function	80.19

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

Probab=99.64  E-value=9.3e-16  Score=122.41  Aligned_cols=77  Identities=31%  Similarity=0.780  Sum_probs=59.1

Q ss_pred             hHHHhHHHHHHhCCCcccchhhhccCCCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           47 TRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        47 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ..+...+...++.+...+.+.....   . ...|+||+|+|..++.++.+||+|.||..|+++|+.+....||+|++++.
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~---~-~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDED---A-TDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccC---C-CceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            4444555555666666665443221   1 25999999999999999999999999999999999987556999999885


Q ss_pred             C
Q 047964          127 P  127 (168)
Q Consensus       127 ~  127 (168)
                      +
T Consensus       279 ~  279 (348)
T KOG4628|consen  279 T  279 (348)
T ss_pred             C
Confidence            3

>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=99.49  E-value=1.4e-14  Score=83.31  Aligned_cols=44  Identities=52%  Similarity=1.331  Sum_probs=38.7

Q ss_pred             cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCC
Q 047964           78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR  122 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr  122 (168)
                      ++|+||++.+..+..+..++|||.||.+|+..|++.+ .+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-NSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-SB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-CcCCccC
Confidence            4799999999888888888999999999999999985 7999997

...

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

Probab=99.35  E-value=1.1e-12  Score=101.45  Aligned_cols=58  Identities=31%  Similarity=0.808  Sum_probs=48.3

Q ss_pred             hccCCCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           69 LMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        69 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      .....++....|.+|++....|..   +||||.||..||..|.... ..||+||..+.++++
T Consensus       231 ~~~~i~~a~~kC~LCLe~~~~pSa---TpCGHiFCWsCI~~w~~ek-~eCPlCR~~~~pskv  288 (293)
T KOG0317|consen  231 SLSSIPEATRKCSLCLENRSNPSA---TPCGHIFCWSCILEWCSEK-AECPLCREKFQPSKV  288 (293)
T ss_pred             CCccCCCCCCceEEEecCCCCCCc---CcCcchHHHHHHHHHHccc-cCCCcccccCCCcce
Confidence            333444567899999999888877   8999999999999999864 679999999977664

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

Probab=99.32  E-value=6.2e-12  Score=100.24  Aligned_cols=51  Identities=31%  Similarity=0.935  Sum_probs=41.0

Q ss_pred             CCcccccccccccc-cCC---------cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           74 PSESKDCAVCLSDF-EDG---------EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        74 ~~~~~~C~IC~~~~-~~~---------~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      ..+|..|.||++++ ..+         .....+||||.+|..|++.|+++ +++||.||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcc
Confidence            35678999999994 333         12234899999999999999996 48999999995

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

Probab=99.26  E-value=3.5e-12  Score=99.24  Aligned_cols=52  Identities=44%  Similarity=1.097  Sum_probs=47.0

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .+-+|+|||+.+...+.++.+||+|.||..|+..|+...+..||+||++++|
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            3468999999999999999999999999999999999766789999999865

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

Probab=99.21  E-value=1.2e-11  Score=78.65  Aligned_cols=45  Identities=40%  Similarity=0.950  Sum_probs=34.9

Q ss_pred             ccccccccccccCC----------cceEeeCCCCcchHHHHHHHHHhCCCCCCCCC
Q 047964           77 SKDCAVCLSDFEDG----------EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR  122 (168)
Q Consensus        77 ~~~C~IC~~~~~~~----------~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr  122 (168)
                      ++.|+||++.+..+          ..+...+|||.||..||.+|++.+ ..||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN-NTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS-SB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC-CcCCCCC
Confidence            45699999999432          234445899999999999999875 6899997

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.20  E-value=2.4e-11  Score=93.25  Aligned_cols=51  Identities=41%  Similarity=0.935  Sum_probs=40.5

Q ss_pred             CcccccccccccccCCcc-----eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEM-----VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~-----~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ..+.+|+||++.+..+..     ...++|+|.||..|+..|+..+ .+||+||.++.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~-~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK-NTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC-CCCCCCCCEee
Confidence            346799999998765431     2235899999999999999864 78999999874

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.20  E-value=1e-11  Score=91.78  Aligned_cols=57  Identities=30%  Similarity=0.728  Sum_probs=45.2

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh---------------CCCCCCCCCCcCCCchHHhhH
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE---------------YLATCPLCRTKVLPDEIVAKY  134 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---------------~~~~CP~Cr~~~~~~~~~~~~  134 (168)
                      .++.+|+||++.+.++..   ++|||.||..|+..|+..               ++..||.||..+...++.+.+
T Consensus        16 ~~~~~CpICld~~~dPVv---T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiy   87 (193)
T PLN03208         16 GGDFDCNICLDQVRDPVV---TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIY   87 (193)
T ss_pred             CCccCCccCCCcCCCcEE---cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEee
Confidence            456799999999877754   799999999999999852               124799999999766655543

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

Probab=99.01  E-value=1.5e-10  Score=65.65  Aligned_cols=39  Identities=41%  Similarity=0.991  Sum_probs=30.8

Q ss_pred             cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCC---CCCCC
Q 047964           80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA---TCPLC  121 (168)
Q Consensus        80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~---~CP~C  121 (168)
                      |+||++.+.+|..   ++|||.||..|+..|++....   .||.|
T Consensus         1 CpiC~~~~~~Pv~---l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVS---LPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccc---cCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999877   899999999999999975433   59987

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

Probab=99.01  E-value=1.8e-10  Score=67.86  Aligned_cols=46  Identities=30%  Similarity=0.863  Sum_probs=36.7

Q ss_pred             ccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      +..|.||++....   ...+||||. ||..|+..|+.. ...||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence            5689999998544   444799999 999999999985 478999999874

...

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

Probab=99.00  E-value=7.5e-10  Score=94.93  Aligned_cols=54  Identities=33%  Similarity=0.845  Sum_probs=43.7

Q ss_pred             CcccccccccccccCCcc--eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCch
Q 047964           75 SESKDCAVCLSDFEDGEM--VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE  129 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~--~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~  129 (168)
                      ..+..|+||++.+..+..  ...++|+|.||..|+..|+++ +++||+||..+....
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~~~~  344 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLYDYV  344 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhhccc
Confidence            457899999999988533  334899999999999999997 589999999554333

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

Probab=99.00  E-value=1.6e-10  Score=87.09  Aligned_cols=57  Identities=33%  Similarity=0.674  Sum_probs=45.9

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC--CCCCCCCCCcCCCchHHhh
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY--LATCPLCRTKVLPDEIVAK  133 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~--~~~CP~Cr~~~~~~~~~~~  133 (168)
                      .....+|.||++.-++|..   +.|||.||+.|+..|+..+  .+.||+|+..+..+++.+.
T Consensus        44 ~~~~FdCNICLd~akdPVv---TlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPl  102 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVV---TLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPL  102 (230)
T ss_pred             CCCceeeeeeccccCCCEE---eecccceehHHHHHHHhhcCCCeeCCccccccccceEEee
Confidence            3456799999999777765   8999999999999999854  2359999999876665554

>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=98.97  E-value=8.7e-10  Score=62.60  Aligned_cols=45  Identities=47%  Similarity=1.120  Sum_probs=35.7

Q ss_pred             ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      .|+||++.+..+.  ...+|+|.||..|+..|++.....||.||..+
T Consensus         1 ~C~iC~~~~~~~~--~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPV--VLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCce--EecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999884333  23469999999999999987446799998753

>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=98.94  E-value=3.5e-10  Score=63.13  Aligned_cols=39  Identities=33%  Similarity=1.036  Sum_probs=31.8

Q ss_pred             cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCC
Q 047964           80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLC  121 (168)
Q Consensus        80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~C  121 (168)
                      |+||++.+.++.  ..++|||.||..|+..|++. ...||.|
T Consensus         1 C~iC~~~~~~~~--~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPV--VVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEE--EECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccCcC--EECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            899999988753  34799999999999999998 5889987

>PHA02926 zinc finger-like protein; Provisional

Probab=98.94  E-value=7.4e-10  Score=83.14  Aligned_cols=52  Identities=27%  Similarity=0.693  Sum_probs=38.3

Q ss_pred             CcccccccccccccCCc------ceEeeCCCCcchHHHHHHHHHhC-----CCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGE------MVRKLNCKHTFHRDCLDKWLQEY-----LATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~------~~~~~~C~H~f~~~Ci~~w~~~~-----~~~CP~Cr~~~~  126 (168)
                      +.+.+|+||++....+.      .-...+|+|.||..||..|...+     ..+||+||..+.
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            45689999999763321      11124899999999999999753     235999999873

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

Probab=98.90  E-value=1.1e-09  Score=79.42  Aligned_cols=51  Identities=27%  Similarity=0.709  Sum_probs=41.2

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      +...|+|||+.+.....+ .+.|||+||..||+..++.. ..||+|++.+...
T Consensus       130 ~~~~CPiCl~~~sek~~v-sTkCGHvFC~~Cik~alk~~-~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVPV-STKCGHVFCSQCIKDALKNT-NKCPTCRKKITHK  180 (187)
T ss_pred             cccCCCceecchhhcccc-ccccchhHHHHHHHHHHHhC-CCCCCcccccchh
Confidence            456899999998765542 37999999999999999864 7899999876443

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

Probab=98.89  E-value=1.5e-09  Score=89.53  Aligned_cols=53  Identities=32%  Similarity=0.884  Sum_probs=40.9

Q ss_pred             CcccccccccccccCC--------------cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDG--------------EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~--------------~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      ....+|+|||.++.--              .....+||.|.||..|+.+|+...+-.||.||+++++
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            3456899999876411              1123469999999999999999665689999999864

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

Probab=98.88  E-value=1.6e-09  Score=69.92  Aligned_cols=50  Identities=30%  Similarity=0.749  Sum_probs=37.6

Q ss_pred             ccccccccccccCC--------c--ceEeeCCCCcchHHHHHHHHHhC--CCCCCCCCCcCC
Q 047964           77 SKDCAVCLSDFEDG--------E--MVRKLNCKHTFHRDCLDKWLQEY--LATCPLCRTKVL  126 (168)
Q Consensus        77 ~~~C~IC~~~~~~~--------~--~~~~~~C~H~f~~~Ci~~w~~~~--~~~CP~Cr~~~~  126 (168)
                      ++.|.||...|...        +  .+..-.|+|.||..||..|+...  +..||+||+++.
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            77899998887621        1  11222799999999999999853  457999999874

>smart00504 Ubox Modified RING finger domain

Probab=98.86  E-value=3.4e-09  Score=65.13  Aligned_cols=55  Identities=20%  Similarity=0.438  Sum_probs=45.0

Q ss_pred             cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHh
Q 047964           78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQH  136 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~  136 (168)
                      ..|+||.+.+.+|..   ++|||+|+..|+..|+.+ ...||.|+.++..+.+..+...
T Consensus         2 ~~Cpi~~~~~~~Pv~---~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~~~~~l   56 (63)
T smart00504        2 FLCPISLEVMKDPVI---LPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLIPNLAL   56 (63)
T ss_pred             cCCcCCCCcCCCCEE---CCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhceeCHHH
Confidence            469999999988744   799999999999999987 4789999999866665554433

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.85  E-value=2.7e-09  Score=87.46  Aligned_cols=64  Identities=23%  Similarity=0.560  Sum_probs=50.0

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhh
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQ  141 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~  141 (168)
                      .+....|+||.+.+..+..   ++|||.||..|+..|+... ..||.||..+....+..+......++
T Consensus        23 Le~~l~C~IC~d~~~~Pvi---tpCgH~FCs~CI~~~l~~~-~~CP~Cr~~~~~~~Lr~N~~L~~iVe   86 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVPVL---TSCSHTFCSLCIRRCLSNQ-PKCPLCRAEDQESKLRSNWLVSEIVE   86 (397)
T ss_pred             cccccCCCcCchhhhCccC---CCCCCchhHHHHHHHHhCC-CCCCCCCCccccccCccchHHHHHHH
Confidence            3456799999999988764   7999999999999999864 67999999887655655544444443

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.83  E-value=4e-09  Score=60.41  Aligned_cols=44  Identities=30%  Similarity=0.813  Sum_probs=36.1

Q ss_pred             ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964           79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT  123 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~  123 (168)
                      .|++|++.+........++|||.||..|+..+. .....||.||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            489999999555566778999999999999987 33367999985

>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=98.82  E-value=2e-09  Score=60.59  Aligned_cols=40  Identities=53%  Similarity=1.169  Sum_probs=33.6

Q ss_pred             cccccccccCCcceEeeCCCCcchHHHHHHHHH-hCCCCCCCC
Q 047964           80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ-EYLATCPLC  121 (168)
Q Consensus        80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~~CP~C  121 (168)
                      |+||++.+..+.  ..++|||.||..|+..|++ .....||.|
T Consensus         1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999987776  3479999999999999999 444579987

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 ....

>smart00184 RING Ring finger

Probab=98.71  E-value=1.5e-08  Score=55.44  Aligned_cols=39  Identities=44%  Similarity=1.081  Sum_probs=31.1

Q ss_pred             cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCC
Q 047964           80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLC  121 (168)
Q Consensus        80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~C  121 (168)
                      |+||++...   ....++|+|.||..|+..|+......||.|
T Consensus         1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789988833   334479999999999999998554679987

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)

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

Probab=98.70  E-value=9.8e-09  Score=78.82  Aligned_cols=53  Identities=34%  Similarity=0.738  Sum_probs=43.4

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHH-HHHhCCCCCCCCCCcCCCchH
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDK-WLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~-w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      ..+..|+||++....+..   ++|||+||..|+.. |-.+...-||+||+-..++++
T Consensus       213 ~~d~kC~lC~e~~~~ps~---t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPEVPSC---TPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccCCccc---ccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            357789999999777766   89999999999999 766543349999998877654

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

Probab=98.68  E-value=1.2e-08  Score=80.93  Aligned_cols=66  Identities=23%  Similarity=0.557  Sum_probs=54.8

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhhhh
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDY  145 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~  145 (168)
                      +...|.||.+.|..|..   +||+|.||..||+..+.. +..||.|+.++....+..+.-..+.++.++.
T Consensus        22 ~lLRC~IC~eyf~ip~i---tpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~~   87 (442)
T KOG0287|consen   22 DLLRCGICFEYFNIPMI---TPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESDLRNNRILDEIVKSLNF   87 (442)
T ss_pred             HHHHHhHHHHHhcCcee---ccccchHHHHHHHHHhcc-CCCCCceecccchhhhhhhhHHHHHHHHHHH
Confidence            34689999999998865   799999999999999986 4889999999987778777766666665553

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

Probab=98.60  E-value=1.9e-08  Score=83.51  Aligned_cols=51  Identities=24%  Similarity=0.632  Sum_probs=40.6

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC----CCCCCCCCCcCCCchH
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY----LATCPLCRTKVLPDEI  130 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~~CP~Cr~~~~~~~~  130 (168)
                      +..||||+++...+..   +.|||+||..||..++...    ...||+||..+...++
T Consensus       186 ~~~CPICL~~~~~p~~---t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl  240 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVR---TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL  240 (513)
T ss_pred             CCcCCcccCCCCcccc---cccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence            6789999998666554   7899999999999888654    1269999998876443

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

Probab=98.53  E-value=5.6e-08  Score=61.70  Aligned_cols=65  Identities=17%  Similarity=0.370  Sum_probs=48.5

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhhh
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLD  144 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      ...|+|+.+.+.+|..   +++||.|...||..|+..+...||.|+.++....+.++.......++..
T Consensus         4 ~f~CpIt~~lM~dPVi---~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~   68 (73)
T PF04564_consen    4 EFLCPITGELMRDPVI---LPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWC   68 (73)
T ss_dssp             GGB-TTTSSB-SSEEE---ETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHH
T ss_pred             ccCCcCcCcHhhCcee---CCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHH
Confidence            5689999999999876   7999999999999999985578999999998877777766665554443

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 ....

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

Probab=98.47  E-value=4.1e-07  Score=70.20  Aligned_cols=57  Identities=32%  Similarity=0.625  Sum_probs=44.3

Q ss_pred             CcccccccccccccCCc-------ceEeeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCCCchHH
Q 047964           75 SESKDCAVCLSDFEDGE-------MVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVLPDEIV  131 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~-------~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~~~~~~  131 (168)
                      -++..|++|-..+....       ...++.|+|.||..||+-|..-+ ++.||.|+..+..+...
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf  286 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF  286 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence            35779999998876555       55668999999999999999744 45799998877544433

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.47  E-value=1.5e-07  Score=74.62  Aligned_cols=53  Identities=21%  Similarity=0.561  Sum_probs=39.5

Q ss_pred             cccccccccc-ccCCcc-eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCch
Q 047964           77 SKDCAVCLSD-FEDGEM-VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE  129 (168)
Q Consensus        77 ~~~C~IC~~~-~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~  129 (168)
                      +..||+|... +..+.. +...+|||.||..|+...+..+...||.|+.++...+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            4689999985 333432 2223799999999999987766568999998886555

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).

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

Probab=98.44  E-value=9.3e-08  Score=74.47  Aligned_cols=52  Identities=23%  Similarity=0.508  Sum_probs=42.8

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHh
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVA  132 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~  132 (168)
                      -..|.||-+.+..+..   ++|||.||..||...+.. +..||.||.+.....+..
T Consensus        25 ~lrC~IC~~~i~ip~~---TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~esrlr~   76 (391)
T COG5432          25 MLRCRICDCRISIPCE---TTCGHTFCSLCIRRHLGT-QPFCPVCREDPCESRLRG   76 (391)
T ss_pred             HHHhhhhhheeeccee---cccccchhHHHHHHHhcC-CCCCccccccHHhhhccc
Confidence            4689999999888766   899999999999999986 488999998775443333

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

Probab=98.39  E-value=2.9e-07  Score=52.26  Aligned_cols=34  Identities=35%  Similarity=0.758  Sum_probs=21.1

Q ss_pred             cccccccccCCcc-eEeeCCCCcchHHHHHHHHHhC
Q 047964           80 CAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEY  114 (168)
Q Consensus        80 C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~  114 (168)
                      |+||.+ +..+.. ...++|||+||.+|+..+..++
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence            899999 655333 3447999999999999999854

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

Probab=98.36  E-value=4.5e-07  Score=57.31  Aligned_cols=28  Identities=39%  Similarity=0.993  Sum_probs=25.6

Q ss_pred             CCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           97 NCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        97 ~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      .|+|.||..||.+|+.. +..||++|+++
T Consensus        53 ~CnHaFH~HCI~rWL~T-k~~CPld~q~w   80 (88)
T COG5194          53 VCNHAFHDHCIYRWLDT-KGVCPLDRQTW   80 (88)
T ss_pred             ecchHHHHHHHHHHHhh-CCCCCCCCcee
Confidence            69999999999999987 47899999987

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

Probab=98.31  E-value=4.9e-07  Score=70.79  Aligned_cols=52  Identities=23%  Similarity=0.422  Sum_probs=42.9

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHH
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV  131 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~  131 (168)
                      ..+|+||+....-|..   ++|+|.||+.|++-.....+..|++||.++...-..
T Consensus         7 ~~eC~IC~nt~n~Pv~---l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~   58 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVN---LYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF   58 (324)
T ss_pred             CCcceeeeccCCcCcc---ccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence            5689999988666644   899999999999988887777899999999654443

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

Probab=98.28  E-value=1.8e-07  Score=58.59  Aligned_cols=50  Identities=30%  Similarity=0.771  Sum_probs=35.2

Q ss_pred             cccccccccccccCC--------cc-eEee-CCCCcchHHHHHHHHHhC--CCCCCCCCCcC
Q 047964           76 ESKDCAVCLSDFEDG--------EM-VRKL-NCKHTFHRDCLDKWLQEY--LATCPLCRTKV  125 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~--------~~-~~~~-~C~H~f~~~Ci~~w~~~~--~~~CP~Cr~~~  125 (168)
                      .++.|-||.-+|...        +. .... .|.|.||..||.+|+...  +..||+||+.+
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~   80 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW   80 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence            345788888777421        11 1112 699999999999999743  34699999976

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

Probab=98.23  E-value=5e-07  Score=79.90  Aligned_cols=54  Identities=35%  Similarity=0.834  Sum_probs=39.4

Q ss_pred             CCCcccccccccccccC--Ccce--EeeCCCCcchHHHHHHHHHhCC-CCCCCCCCcCC
Q 047964           73 SPSESKDCAVCLSDFED--GEMV--RKLNCKHTFHRDCLDKWLQEYL-ATCPLCRTKVL  126 (168)
Q Consensus        73 ~~~~~~~C~IC~~~~~~--~~~~--~~~~C~H~f~~~Ci~~w~~~~~-~~CP~Cr~~~~  126 (168)
                      ..++.++|+||+..+..  ...+  +...|+|.||..|+..|+..+. .+||+||+.+.
T Consensus      1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34678899999987651  1111  1136999999999999998543 46999998763

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

Probab=98.20  E-value=4e-07  Score=53.40  Aligned_cols=46  Identities=24%  Similarity=0.662  Sum_probs=35.9

Q ss_pred             ccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcC
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      +++|.||++...+...   ..|||. .|+.|-.+.++..+..||+||+++
T Consensus         7 ~dECTICye~pvdsVl---YtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    7 SDECTICYEHPVDSVL---YTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             ccceeeeccCcchHHH---HHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            4799999997544432   489997 899998777765557899999987

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

Probab=98.17  E-value=1.5e-06  Score=69.65  Aligned_cols=47  Identities=28%  Similarity=0.729  Sum_probs=37.3

Q ss_pred             CcccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      +...+|.||+.+..   ....+||.|. .|..|.+...-+ ...||+||+++
T Consensus       288 ~~gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi  335 (349)
T KOG4265|consen  288 ESGKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPI  335 (349)
T ss_pred             cCCCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHh-hcCCCccccch
Confidence            44679999998844   3445899997 899999887644 36899999988

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

Probab=98.17  E-value=9.3e-07  Score=72.55  Aligned_cols=50  Identities=36%  Similarity=0.903  Sum_probs=40.4

Q ss_pred             CcccccccccccccCCc-ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGE-MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~-~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .+.+.||+|+|.+.... .+..+.|.|.||..|+..|..   .+||+||-...+
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q~p  223 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQSP  223 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhhhcCc
Confidence            35679999999998765 344568999999999999953   679999976654

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

Probab=98.15  E-value=3.2e-06  Score=49.41  Aligned_cols=43  Identities=28%  Similarity=0.774  Sum_probs=31.2

Q ss_pred             ccccccccccCCcceEeeCCC-----CcchHHHHHHHHHhC-CCCCCCCC
Q 047964           79 DCAVCLSDFEDGEMVRKLNCK-----HTFHRDCLDKWLQEY-LATCPLCR  122 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~~~-~~~CP~Cr  122 (168)
                      .|.||++.. .+......||.     |.+|..|+..|+..+ ..+||+|.
T Consensus         1 ~CrIC~~~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEG-DEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCC-CCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            489999833 33343456874     789999999999754 34799994

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

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

Probab=98.13  E-value=3.8e-07  Score=57.41  Aligned_cols=49  Identities=31%  Similarity=0.779  Sum_probs=22.9

Q ss_pred             cccccccccccc-CCcceEe----eCCCCcchHHHHHHHHHhC--CC--------CCCCCCCcC
Q 047964           77 SKDCAVCLSDFE-DGEMVRK----LNCKHTFHRDCLDKWLQEY--LA--------TCPLCRTKV  125 (168)
Q Consensus        77 ~~~C~IC~~~~~-~~~~~~~----~~C~H~f~~~Ci~~w~~~~--~~--------~CP~Cr~~~  125 (168)
                      +.+|.||+.... .+.....    ..|+..||..|+.+|+...  .+        .||.|++++
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i   65 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI   65 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence            468999999765 3222222    2689999999999999731  11        499999887

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

Probab=98.12  E-value=1.1e-06  Score=68.83  Aligned_cols=45  Identities=36%  Similarity=0.824  Sum_probs=38.6

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT  123 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~  123 (168)
                      .+...|+||++.+..+   ..++|+|.||..|+..++. ....||.||.
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHhhcC---ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            4567999999999999   3379999999999999987 4467999994

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

Probab=98.06  E-value=1.5e-06  Score=75.51  Aligned_cols=53  Identities=23%  Similarity=0.615  Sum_probs=43.3

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHH
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV  131 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~  131 (168)
                      +-..|+.|-....+..   ++.|+|.||..|+.+.+..+++.||.|-+.|.++++.
T Consensus       642 ~~LkCs~Cn~R~Kd~v---I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~  694 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDAV---ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH  694 (698)
T ss_pred             hceeCCCccCchhhHH---HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence            3457999997655443   3799999999999999998888999999999877654

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

Probab=97.98  E-value=1.4e-06  Score=53.11  Aligned_cols=56  Identities=21%  Similarity=0.589  Sum_probs=27.3

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhH
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQ  137 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~  137 (168)
                      ...|++|.+.+..|..+  ..|.|.||..|+..-+.   ..||+|+.+.-.++++-+.+..
T Consensus         7 lLrCs~C~~~l~~pv~l--~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~~NrqLd   62 (65)
T PF14835_consen    7 LLRCSICFDILKEPVCL--GGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQINRQLD   62 (65)
T ss_dssp             TTS-SSS-S--SS-B-----SSS--B-TTTGGGGTT---TB-SSS--B-S-SS----HHHH
T ss_pred             hcCCcHHHHHhcCCcee--ccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHHhhhhhh
Confidence            45799999999888652  58999999999977432   3599999998766666655443

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

Probab=97.88  E-value=6.4e-06  Score=66.64  Aligned_cols=46  Identities=26%  Similarity=0.888  Sum_probs=34.1

Q ss_pred             ccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCC--CCCCCC
Q 047964           77 SKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLA--TCPLCR  122 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~--~CP~Cr  122 (168)
                      ...|.||.+-+.....+..+ .|||+||..|+..|++....  .||.|+
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            35799995544444444444 59999999999999985433  699998

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

Probab=97.80  E-value=1.1e-05  Score=65.33  Aligned_cols=51  Identities=31%  Similarity=0.834  Sum_probs=38.5

Q ss_pred             CcccccccccccccCCc-----ceEeeCCCCcchHHHHHHHHHhCC------CCCCCCCCcC
Q 047964           75 SESKDCAVCLSDFEDGE-----MVRKLNCKHTFHRDCLDKWLQEYL------ATCPLCRTKV  125 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~-----~~~~~~C~H~f~~~Ci~~w~~~~~------~~CP~Cr~~~  125 (168)
                      ..+..|.||++......     .-...+|.|.||..|+..|-...+      +.||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            45789999999876544     111147999999999999985333      5799999865

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

Probab=97.69  E-value=1.1e-05  Score=65.62  Aligned_cols=50  Identities=28%  Similarity=0.661  Sum_probs=38.6

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~~  127 (168)
                      .....|.||-+.   ...+.+-||||..|..|+..|-... .+.||.||..+..
T Consensus       367 sTFeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  367 STFELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             chHHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            345679999886   4444446999999999999998543 4579999988853

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

Probab=97.68  E-value=5.4e-05  Score=61.79  Aligned_cols=59  Identities=32%  Similarity=0.799  Sum_probs=44.1

Q ss_pred             cccccccccccccCCcceE--eeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCCCchHHhhH
Q 047964           76 ESKDCAVCLSDFEDGEMVR--KLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVLPDEIVAKY  134 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~--~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~~~~~~~~~  134 (168)
                      ....|+||++.+..+...+  .+.|||.|..+|++.|+.+. +..||.|........+.+.+
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~   64 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEY   64 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHH
Confidence            3578999999987765444  35899999999999999532 23699998776555555543

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

Probab=97.68  E-value=6.6e-06  Score=65.85  Aligned_cols=49  Identities=33%  Similarity=0.611  Sum_probs=40.6

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      .+..|+||++-++....  ...|.|.||..||...+......||.||+.+.
T Consensus        42 ~~v~c~icl~llk~tmt--tkeClhrfc~~ci~~a~r~gn~ecptcRk~l~   90 (381)
T KOG0311|consen   42 IQVICPICLSLLKKTMT--TKECLHRFCFDCIWKALRSGNNECPTCRKKLV   90 (381)
T ss_pred             hhhccHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence            45689999998877654  13799999999999988877678999998774

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

Probab=97.67  E-value=3.7e-05  Score=51.06  Aligned_cols=28  Identities=36%  Similarity=0.961  Sum_probs=25.4

Q ss_pred             CCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           97 NCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        97 ~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      .|+|.||..||.+|++++ ..||+|.++.
T Consensus        80 ~CNHaFH~hCisrWlktr-~vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTR-NVCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhc-CcCCCcCcce
Confidence            699999999999999986 7899998765

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

Probab=97.47  E-value=0.00029  Score=54.79  Aligned_cols=50  Identities=24%  Similarity=0.447  Sum_probs=38.6

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~  126 (168)
                      ..+.+|++|-+....|..+  .+|+|+||+.|+..-..-. ...||.|-.+..
T Consensus       237 t~~~~C~~Cg~~PtiP~~~--~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVI--GKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCCeee--ccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            4578999999987766652  4799999999998876522 247999987764

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

Probab=97.40  E-value=0.00012  Score=60.44  Aligned_cols=49  Identities=31%  Similarity=0.748  Sum_probs=41.5

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      ..+..|.||+..+..+..   +||||.||..|+.+-+.. ...||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~pv~---tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVV---TPCGHSFCLECLDRSLDQ-ETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCcc---ccccccccHHHHHHHhcc-CCCCccccccccc
Confidence            356799999999888877   799999999999997664 3679999999864

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

Probab=97.34  E-value=0.00012  Score=60.71  Aligned_cols=55  Identities=29%  Similarity=0.633  Sum_probs=45.7

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVA  132 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~  132 (168)
                      ..+..|++|+..+.+|...  +.|||.||..|+..|+.. +..||.|+..+...+...
T Consensus        19 ~~~l~C~~C~~vl~~p~~~--~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQT--TTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEELP   73 (391)
T ss_pred             cccccCccccccccCCCCC--CCCCCcccccccchhhcc-CcCCcccccccchhhccC
Confidence            5568999999998888762  489999999999999987 588999999886555444

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

Probab=97.27  E-value=7e-05  Score=65.57  Aligned_cols=48  Identities=25%  Similarity=0.549  Sum_probs=36.3

Q ss_pred             cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ..|++|+..+.+.......+|+|.||..|+..|-... ..||+||..+.
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a-qTCPiDR~EF~  171 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA-QTCPVDRGEFG  171 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc-ccCchhhhhhh
Confidence            3566666655544444345899999999999998864 78999998874

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

Probab=97.20  E-value=9e-05  Score=58.96  Aligned_cols=50  Identities=28%  Similarity=0.660  Sum_probs=42.1

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      ....|.+|-..+.++..+  +.|-|.||..||...+... ..||.|...+...
T Consensus        14 ~~itC~LC~GYliDATTI--~eCLHTFCkSCivk~l~~~-~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTI--TECLHTFCKSCIVKYLEES-KYCPTCDIVIHKT   63 (331)
T ss_pred             cceehhhccceeecchhH--HHHHHHHHHHHHHHHHHHh-ccCCccceeccCc
Confidence            456899999999888763  5899999999999999974 7899999877433

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

Probab=97.09  E-value=0.00039  Score=40.12  Aligned_cols=46  Identities=22%  Similarity=0.569  Sum_probs=22.5

Q ss_pred             cccccccccCCcc-eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           80 CAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        80 C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      |++|.+++..... ...-+|+..+|..|...-++.....||-||.+.
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            7899998844432 111267899999999888764446899999874

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

Probab=97.05  E-value=0.00058  Score=63.64  Aligned_cols=53  Identities=25%  Similarity=0.699  Sum_probs=40.6

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCC---------CCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYL---------ATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~---------~~CP~Cr~~~~~  127 (168)
                      ..++.|.||..+--.......+.|+|.||..|.+..++++=         -+||+|..++..
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            45789999997655444445589999999999998887531         179999998853

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

Probab=97.01  E-value=0.00026  Score=57.69  Aligned_cols=46  Identities=33%  Similarity=0.770  Sum_probs=35.9

Q ss_pred             cccccccccccc-CCcceEeeCCCCcchHHHHHHHHHhC-CCCCCCCC
Q 047964           77 SKDCAVCLSDFE-DGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCR  122 (168)
Q Consensus        77 ~~~C~IC~~~~~-~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr  122 (168)
                      +..|-.|=+.+. .+..+.-+||.|+||..|+.+.+.++ .++||.||
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Cr  412 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCR  412 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHH
Confidence            457999988764 33445557999999999999999754 34799999

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

Probab=96.95  E-value=0.0062  Score=48.69  Aligned_cols=54  Identities=20%  Similarity=0.505  Sum_probs=41.2

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      +.+...|++|+...++|..+  .--|-+||+.|+..++.++ ..||+--.+..-+++
T Consensus       297 ~~~~~~CpvClk~r~Nptvl--~vSGyVfCY~Ci~~Yv~~~-~~CPVT~~p~~v~~l  350 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVL--EVSGYVFCYPCIFSYVVNY-GHCPVTGYPASVDHL  350 (357)
T ss_pred             CCccccChhHHhccCCCceE--EecceEEeHHHHHHHHHhc-CCCCccCCcchHHHH
Confidence            34567999999998888763  3568999999999999865 789987666544333

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

Probab=96.95  E-value=0.00034  Score=57.25  Aligned_cols=39  Identities=23%  Similarity=0.640  Sum_probs=33.0

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE  113 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~  113 (168)
                      .....|.||++...-......+||+|+||..|+..++..
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~  220 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTI  220 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHH
Confidence            346789999998776677778899999999999999863

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.93  E-value=0.0013  Score=47.36  Aligned_cols=48  Identities=21%  Similarity=0.639  Sum_probs=34.4

Q ss_pred             CcccccccccccccCCcceEeeCCCC-----cchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKH-----TFHRDCLDKWLQEY-LATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H-----~f~~~Ci~~w~~~~-~~~CP~Cr~~~~  126 (168)
                      ..+..|-||.+.-....    .||..     ..|..|+..|+..+ ...|+.|..+..
T Consensus         6 ~~~~~CRIC~~~~~~~~----~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          6 LMDKCCWICKDEYDVVT----NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCCeeEecCCCCCCcc----CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            45679999998843221    36543     35999999999854 347999998773

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

Probab=96.88  E-value=0.00041  Score=51.65  Aligned_cols=44  Identities=25%  Similarity=0.572  Sum_probs=37.2

Q ss_pred             cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      ..|.||-.+|..|..   +.|||.||..|...-++.. ..|-.|-...
T Consensus       197 F~C~iCKkdy~spvv---t~CGH~FC~~Cai~~y~kg-~~C~~Cgk~t  240 (259)
T COG5152         197 FLCGICKKDYESPVV---TECGHSFCSLCAIRKYQKG-DECGVCGKAT  240 (259)
T ss_pred             eeehhchhhccchhh---hhcchhHHHHHHHHHhccC-Ccceecchhh
Confidence            479999999999887   8999999999988777654 6799997654

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

Probab=96.85  E-value=0.0013  Score=49.92  Aligned_cols=51  Identities=29%  Similarity=0.788  Sum_probs=42.2

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCC-------CCCCCCCCcCCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYL-------ATCPLCRTKVLP  127 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-------~~CP~Cr~~~~~  127 (168)
                      ....|..|-..+..++.++ +-|-|.||.+|+.+|-.+-.       ..||.|..++.+
T Consensus        49 Y~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            3568999999999998876 78999999999999986421       279999998854

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.75  E-value=0.00087  Score=53.76  Aligned_cols=53  Identities=21%  Similarity=0.434  Sum_probs=36.8

Q ss_pred             cccccccccccccCCcceEe-eCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           76 ESKDCAVCLSDFEDGEMVRK-LNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~-~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      +++.|+.|++++...+.-.. -+||-..|..|...--+.-..+||-||+....+
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            34569999999876654222 378988888887665443334799999866543

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

Probab=96.75  E-value=0.00099  Score=56.35  Aligned_cols=50  Identities=26%  Similarity=0.687  Sum_probs=39.5

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC----CCCCCCCCCcCC
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY----LATCPLCRTKVL  126 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~~CP~Cr~~~~  126 (168)
                      ..+..+|.+|.++-++...   ..|.|.||..|+.++....    .-+||.|...+.
T Consensus       533 nk~~~~C~lc~d~aed~i~---s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDYIE---SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             ccCceeecccCChhhhhHh---hhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            3456799999998777665   7999999999998887532    237999988774

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

Probab=96.72  E-value=0.0026  Score=51.36  Aligned_cols=49  Identities=24%  Similarity=0.533  Sum_probs=39.6

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .++..|+||...   |......||+|.-|+.||.+-+.+. +.|=.|+..+.+
T Consensus       420 sEd~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~-k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNC-KRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecc---cchhhccCCCCchHHHHHHHHHhcC-CeeeEecceeee
Confidence            567899999876   4443347999999999999999876 789999887754

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

Probab=96.72  E-value=0.00057  Score=41.10  Aligned_cols=43  Identities=30%  Similarity=0.654  Sum_probs=28.2

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPL  120 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~  120 (168)
                      ....|||....+.+|..  ...|+|.|-...|..|+.++ ...||.
T Consensus        10 ~~~~CPiT~~~~~~PV~--s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVK--SKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEE--ESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcC--cCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            35689999999988754  35899999999999999432 236997

>PHA02862 5L protein; Provisional

Probab=96.65  E-value=0.0019  Score=45.72  Aligned_cols=46  Identities=26%  Similarity=0.606  Sum_probs=33.4

Q ss_pred             ccccccccccccCCcceEeeCCC-----CcchHHHHHHHHHhCC-CCCCCCCCcCC
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCK-----HTFHRDCLDKWLQEYL-ATCPLCRTKVL  126 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~~~~-~~CP~Cr~~~~  126 (168)
                      ++.|-||.+.-.+..    -||.     ...|..|+.+|+..++ ..||.|+.+..
T Consensus         2 ~diCWIC~~~~~e~~----~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          2 SDICWICNDVCDERN----NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CCEEEEecCcCCCCc----ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            467999998744332    4653     2479999999997443 36999998874

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

Probab=96.64  E-value=0.00087  Score=52.90  Aligned_cols=51  Identities=31%  Similarity=0.783  Sum_probs=40.6

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHh-----------------C-----CCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE-----------------Y-----LATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-----------------~-----~~~CP~Cr~~~~  126 (168)
                      ....|.||+--|..+.....++|.|.||..|+-+++..                 +     +..||+||-.+.
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            35689999999998887777899999999999877631                 0     115999998774

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

Probab=96.53  E-value=0.00084  Score=52.83  Aligned_cols=45  Identities=24%  Similarity=0.453  Sum_probs=38.2

Q ss_pred             cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ..|-||..+|..|..   +.|+|.||..|...-++.. ..|++|-++..
T Consensus       242 f~c~icr~~f~~pVv---t~c~h~fc~~ca~~~~qk~-~~c~vC~~~t~  286 (313)
T KOG1813|consen  242 FKCFICRKYFYRPVV---TKCGHYFCEVCALKPYQKG-EKCYVCSQQTH  286 (313)
T ss_pred             ccccccccccccchh---hcCCceeehhhhccccccC-Ccceecccccc
Confidence            469999999999987   8999999999987766653 67999988763

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

Probab=96.51  E-value=0.0021  Score=51.88  Aligned_cols=44  Identities=27%  Similarity=0.674  Sum_probs=31.2

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      ...+.|.||.++..+...   +||||.-|  |..-..  +...||+||+.+
T Consensus       303 ~~p~lcVVcl~e~~~~~f---vpcGh~cc--ct~cs~--~l~~CPvCR~rI  346 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKSAVF---VPCGHVCC--CTLCSK--HLPQCPVCRQRI  346 (355)
T ss_pred             CCCCceEEecCCccceee---ecCCcEEE--chHHHh--hCCCCchhHHHH
Confidence            346789999998665443   89999855  544332  335699999876

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

Probab=96.39  E-value=0.0016  Score=52.40  Aligned_cols=49  Identities=24%  Similarity=0.569  Sum_probs=35.8

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHH-hCCCCCCCCCCcC
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ-EYLATCPLCRTKV  125 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~~CP~Cr~~~  125 (168)
                      .++...|.||-+.+.....   +||+|..|--|..+.-. -.++.||.||...
T Consensus        58 DEen~~C~ICA~~~TYs~~---~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          58 DEENMNCQICAGSTTYSAR---YPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccceeEEecCCceEEEe---ccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            3556789999987655443   79999999889654332 2346899999876

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=96.35  E-value=0.0027  Score=42.63  Aligned_cols=33  Identities=27%  Similarity=0.680  Sum_probs=26.3

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHH
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLD  108 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~  108 (168)
                      .++..|++|...+..+.. ...||||.+|..|+.
T Consensus        76 ~~~~~C~vC~k~l~~~~f-~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVF-VVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceE-EEeCCCeEEeccccc
Confidence            346789999999887543 346999999999974

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 [].

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

Probab=96.34  E-value=0.0031  Score=49.89  Aligned_cols=43  Identities=26%  Similarity=0.592  Sum_probs=36.7

Q ss_pred             cccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964           78 KDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRT  123 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~  123 (168)
                      ..|+.|..-+.++..   + .|+|.||..||...+......||.|.+
T Consensus       275 LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCccc
Confidence            689999988777765   5 689999999999988876678999976

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

Probab=96.31  E-value=0.005  Score=49.01  Aligned_cols=49  Identities=31%  Similarity=0.776  Sum_probs=39.2

Q ss_pred             ccccccccccccCCc---ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           77 SKDCAVCLSDFEDGE---MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~---~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      ...|-||-++|...+   ..+.+.|||.+|..|+...+......||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            357999999987653   3444689999999999988876655799999983

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.17  E-value=0.0049  Score=47.45  Aligned_cols=55  Identities=15%  Similarity=0.321  Sum_probs=45.2

Q ss_pred             ccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHh
Q 047964           77 SKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVA  132 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~  132 (168)
                      ...|++|.+.+.+......+ +|||+++.+|.+..+... ..||+|-.++...++-.
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D-~v~pv~d~plkdrdiI~  276 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD-MVDPVTDKPLKDRDIIG  276 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc-ccccCCCCcCcccceEe
Confidence            45799999999988876666 999999999999987654 78999999887666543

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

Probab=96.17  E-value=0.00099  Score=52.37  Aligned_cols=41  Identities=27%  Similarity=0.699  Sum_probs=31.9

Q ss_pred             ccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcC
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      +..|+||++.   |.....++|||. -|.+|-...     ..||+||+-+
T Consensus       300 ~~LC~ICmDa---P~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDA---PRDCVFLECGHMVTCTKCGKRM-----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcC---CcceEEeecCcEEeehhhcccc-----ccCchHHHHH
Confidence            6689999987   444455899996 699997653     4799999865

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

Probab=96.03  E-value=0.012  Score=52.45  Aligned_cols=44  Identities=23%  Similarity=0.705  Sum_probs=35.0

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      +...|..|-..+.-|...  -.|||.||..|+.    .+...||.|+...
T Consensus       839 q~skCs~C~~~LdlP~Vh--F~CgHsyHqhC~e----~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLPFVH--FLCGHSYHQHCLE----DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccceee--eecccHHHHHhhc----cCcccCCccchhh
Confidence            357899999988887652  4899999999997    2346799998744

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

Probab=96.02  E-value=0.0022  Score=46.26  Aligned_cols=30  Identities=30%  Similarity=0.928  Sum_probs=26.2

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchH
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHR  104 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~  104 (168)
                      .+..+|.||+|++..++.+..+||-.+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            345699999999999999999999988885

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

Probab=95.98  E-value=0.0045  Score=35.65  Aligned_cols=41  Identities=37%  Similarity=0.941  Sum_probs=25.4

Q ss_pred             cccccccccCCcceEeeCC--CC---cchHHHHHHHHHhC-CCCCCCC
Q 047964           80 CAVCLSDFEDGEMVRKLNC--KH---TFHRDCLDKWLQEY-LATCPLC  121 (168)
Q Consensus        80 C~IC~~~~~~~~~~~~~~C--~H---~f~~~Ci~~w~~~~-~~~CP~C  121 (168)
                      |-||++.-.....+ ..||  +-   ..|..|+..|+... ...|+.|
T Consensus         1 CrIC~~~~~~~~~l-i~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPL-ISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-E-E-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCce-ecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            67898876555422 2465  33   57999999999843 3468877

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

Probab=95.81  E-value=0.004  Score=55.35  Aligned_cols=50  Identities=26%  Similarity=0.713  Sum_probs=37.1

Q ss_pred             CcccccccccccccCCcce-EeeCCCCcchHHHHHHHHHhCC------CCCCCCCCc
Q 047964           75 SESKDCAVCLSDFEDGEMV-RKLNCKHTFHRDCLDKWLQEYL------ATCPLCRTK  124 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~w~~~~~------~~CP~Cr~~  124 (168)
                      .+..+|.||.+.+.....+ .-..|-|+||..||..|-.+..      ..||.|+..
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            4567999999988755432 1136889999999999996432      279999854

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.63  E-value=0.0052  Score=36.36  Aligned_cols=46  Identities=26%  Similarity=0.507  Sum_probs=31.7

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      ...|..|...-..+.   .++|+|..|..|..-+   +-+.||.|-+++...
T Consensus         7 ~~~~~~~~~~~~~~~---~~pCgH~I~~~~f~~~---rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    7 EQPCVFCGFVGTKGT---VLPCGHLICDNCFPGE---RYNGCPFCGTPFEFD   52 (55)
T ss_pred             ceeEEEccccccccc---cccccceeeccccChh---hccCCCCCCCcccCC
Confidence            345666665533333   3799999999997654   335799999988654

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

Probab=95.54  E-value=0.0058  Score=46.90  Aligned_cols=44  Identities=25%  Similarity=0.602  Sum_probs=31.5

Q ss_pred             ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      -|--|..--. ++...++.|+|+||..|...-   ....||+|++++.
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~---~~~~C~lCkk~ir   48 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS---SPDVCPLCKKSIR   48 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccC---Cccccccccceee
Confidence            3666655433 566667899999999998653   2237999999873

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

Probab=95.38  E-value=0.0099  Score=33.56  Aligned_cols=42  Identities=26%  Similarity=0.767  Sum_probs=22.8

Q ss_pred             cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCC-CCCCC
Q 047964           80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-TCPLC  121 (168)
Q Consensus        80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~-~CP~C  121 (168)
                      |.+|.+....+..-....|+-.+|..|+..++..... .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            5677777666654322358889999999999975433 59987

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.33  E-value=0.013  Score=46.97  Aligned_cols=43  Identities=28%  Similarity=0.634  Sum_probs=35.0

Q ss_pred             cccccccccccccCCcceEeeCC--CCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNC--KHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C--~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      +-.+||||.+.+..|+.    .|  ||..|..|-...    ...||.||-++.
T Consensus        47 ~lleCPvC~~~l~~Pi~----QC~nGHlaCssC~~~~----~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPPIF----QCDNGHLACSSCRTKV----SNKCPTCRLPIG   91 (299)
T ss_pred             hhccCchhhccCcccce----ecCCCcEehhhhhhhh----cccCCccccccc
Confidence            45689999999998874    67  799999997542    357999999986

>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=95.25  E-value=0.0082  Score=42.16  Aligned_cols=36  Identities=19%  Similarity=0.624  Sum_probs=27.6

Q ss_pred             ccccccccccccCCcceEeeCCC------CcchHHHHHHHHH
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCK------HTFHRDCLDKWLQ  112 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~------H~f~~~Ci~~w~~  112 (168)
                      ..+|.||++.+.....+..++||      |.||..|+..|-.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            56899999999884444445663      6799999999943

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.

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

Probab=95.22  E-value=0.02  Score=42.13  Aligned_cols=31  Identities=32%  Similarity=0.962  Sum_probs=24.6

Q ss_pred             eCCCCcchHHHHHHHHHh----CCC------CCCCCCCcCC
Q 047964           96 LNCKHTFHRDCLDKWLQE----YLA------TCPLCRTKVL  126 (168)
Q Consensus        96 ~~C~H~f~~~Ci~~w~~~----~~~------~CP~Cr~~~~  126 (168)
                      ..||.-||.-|+..|+..    +++      .||.|..++.
T Consensus       188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia  228 (234)
T KOG3268|consen  188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA  228 (234)
T ss_pred             cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence            479999999999999963    212      6999988873

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.18  E-value=0.025  Score=44.44  Aligned_cols=52  Identities=19%  Similarity=0.372  Sum_probs=39.2

Q ss_pred             CcccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           75 SESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      .....|||....+........+ +|||+|...++...-  ....||.|-.++...
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccC
Confidence            4456899999998654443334 999999999999873  235799999988644

>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=94.98  E-value=0.026  Score=44.45  Aligned_cols=48  Identities=23%  Similarity=0.611  Sum_probs=36.3

Q ss_pred             cccccccc-ccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           79 DCAVCLSD-FEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        79 ~C~IC~~~-~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      .||+|... |.+|...... +|+|..|..|....+..+...||-|-..+-
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            58888764 4444433323 899999999999999887778999976653

>PHA03096 p28-like protein; Provisional

Probab=94.90  E-value=0.019  Score=45.67  Aligned_cols=46  Identities=30%  Similarity=0.575  Sum_probs=31.2

Q ss_pred             cccccccccccCCcc----eEe-eCCCCcchHHHHHHHHHhCC--CCCCCCCC
Q 047964           78 KDCAVCLSDFEDGEM----VRK-LNCKHTFHRDCLDKWLQEYL--ATCPLCRT  123 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~----~~~-~~C~H~f~~~Ci~~w~~~~~--~~CP~Cr~  123 (168)
                      ..|.||++.......    -.. ..|.|.||..|+..|.....  ..||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            689999997543211    111 37999999999999997442  24555554

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

Probab=94.61  E-value=0.027  Score=44.39  Aligned_cols=45  Identities=27%  Similarity=0.615  Sum_probs=35.8

Q ss_pred             cccccccccccCCcc-eEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964           78 KDCAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEYLATCPLCRT  123 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~  123 (168)
                      ..||||.+.+..... +..++|||..|..|.......+ ..||+|.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence            349999997755443 2236999999999999988776 89999988

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

Probab=94.47  E-value=0.019  Score=44.20  Aligned_cols=47  Identities=30%  Similarity=0.716  Sum_probs=35.5

Q ss_pred             ccccccccccc-ccCCcceEee-C-CCCcchHHHHHHHHHhCCCCCC--CCC
Q 047964           76 ESKDCAVCLSD-FEDGEMVRKL-N-CKHTFHRDCLDKWLQEYLATCP--LCR  122 (168)
Q Consensus        76 ~~~~C~IC~~~-~~~~~~~~~~-~-C~H~f~~~Ci~~w~~~~~~~CP--~Cr  122 (168)
                      .+..||+|..+ +-+|.....+ | |-|.+|..|..+-+..+...||  -|-
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~   60 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG   60 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence            35689999975 3444433323 5 9999999999999998877899  664

>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=94.33  E-value=0.054  Score=39.09  Aligned_cols=55  Identities=27%  Similarity=0.672  Sum_probs=35.2

Q ss_pred             ccccccccccccCCcceEe---------eCCCCc-chHHHHHHHHHhC------------------------------CC
Q 047964           77 SKDCAVCLSDFEDGEMVRK---------LNCKHT-FHRDCLDKWLQEY------------------------------LA  116 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~---------~~C~H~-f~~~Ci~~w~~~~------------------------------~~  116 (168)
                      +-.|+|||+...+...+.-         .-|+.. -|..|+++.-+..                              +-
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L   81 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL   81 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence            5689999998655543221         125544 4788998765321                              11


Q ss_pred             CCCCCCCcCCCchHH
Q 047964          117 TCPLCRTKVLPDEIV  131 (168)
Q Consensus       117 ~CP~Cr~~~~~~~~~  131 (168)
                      .||+||..+..+...
T Consensus        82 ~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   82 ACPLCRGEVKGWTVV   96 (162)
T ss_pred             cCccccCceeceEEc
Confidence            599999999766544

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.

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

Probab=94.16  E-value=0.016  Score=51.32  Aligned_cols=51  Identities=27%  Similarity=0.628  Sum_probs=38.2

Q ss_pred             cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCC-CCCCCCCcCCCchHHh
Q 047964           78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-TCPLCRTKVLPDEIVA  132 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~-~CP~Cr~~~~~~~~~~  132 (168)
                      ..|.+|.+    ......++|+|.||..|+...+..... .||.||..+....+..
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s  506 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS  506 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence            78999999    223334799999999999988875433 5999998875555444

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

Probab=94.09  E-value=0.021  Score=45.44  Aligned_cols=42  Identities=31%  Similarity=0.588  Sum_probs=26.8

Q ss_pred             ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      .|.-|=-.+.  +.=+.++|+|+||.+|...-   ..+.||.|-..+
T Consensus        92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~~---~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIPCKHVFCLECARSD---SDKICPLCDDRV  133 (389)
T ss_pred             eecccCCcce--eeecccccchhhhhhhhhcC---ccccCcCcccHH
Confidence            4666643322  22234699999999998642   236899996543

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

Probab=93.85  E-value=0.49  Score=33.24  Aligned_cols=54  Identities=15%  Similarity=0.485  Sum_probs=38.4

Q ss_pred             cccccccccccccCCcceEee-CCCCcchHHHHHHHHHh--CCCCCCCCCCcCCCch
Q 047964           76 ESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQE--YLATCPLCRTKVLPDE  129 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~--~~~~CP~Cr~~~~~~~  129 (168)
                      .-.+|-||.|...+...+..- -||-..|.-|.-..|+-  -...||.|++++.+..
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            357999999987665542211 48999999997776652  2347999999985543

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

Probab=93.65  E-value=0.097  Score=47.12  Aligned_cols=37  Identities=27%  Similarity=0.554  Sum_probs=28.3

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHH
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ  112 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~  112 (168)
                      +.++.|.+|...+..... .+-||||.||..|+..-..
T Consensus       815 ep~d~C~~C~~~ll~~pF-~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIKPF-YVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             cCccchHHhcchhhcCcc-eeeeccchHHHHHHHHHHH
Confidence            457899999988765433 2359999999999987653

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

Probab=93.64  E-value=0.069  Score=47.73  Aligned_cols=54  Identities=20%  Similarity=0.575  Sum_probs=38.0

Q ss_pred             CCCCcccccccccccccCCcceEeeCCCC-----cchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964           72 KSPSESKDCAVCLSDFEDGEMVRKLNCKH-----TFHRDCLDKWLQEY-LATCPLCRTKVL  126 (168)
Q Consensus        72 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H-----~f~~~Ci~~w~~~~-~~~CP~Cr~~~~  126 (168)
                      .+.+++..|.||..+-..+..+. -||+.     ..|.+|+.+|+.-+ +..|-.|..++.
T Consensus         7 ~mN~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~   66 (1175)
T COG5183           7 PMNEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK   66 (1175)
T ss_pred             CCCccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence            34466789999998755555422 36643     27999999999843 336999997764

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

Probab=93.46  E-value=0.057  Score=44.26  Aligned_cols=31  Identities=29%  Similarity=0.809  Sum_probs=24.0

Q ss_pred             CCCcchHHHHHHHHHhCCC------------CCCCCCCcCCCc
Q 047964           98 CKHTFHRDCLDKWLQEYLA------------TCPLCRTKVLPD  128 (168)
Q Consensus        98 C~H~f~~~Ci~~w~~~~~~------------~CP~Cr~~~~~~  128 (168)
                      |....|.+|+-+|+..++.            .||+||+.+.-.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil  353 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL  353 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence            5666799999999975432            699999988643

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

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

Probab=93.44  E-value=0.036  Score=42.12  Aligned_cols=38  Identities=32%  Similarity=0.721  Sum_probs=29.1

Q ss_pred             cccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcC
Q 047964           80 CAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        80 C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      |..|.+.   +..+..+||.|. +|..|-..     ...||+|+...
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~  199 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES-----LRICPICRSPK  199 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc-----CccCCCCcChh
Confidence            8888775   566667899987 78888643     35699998865

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

Probab=93.26  E-value=0.09  Score=43.22  Aligned_cols=50  Identities=22%  Similarity=0.376  Sum_probs=40.0

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCC--CCCCCCCCcC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYL--ATCPLCRTKV  125 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~--~~CP~Cr~~~  125 (168)
                      ....|||=.+.-.+...+..+.|||+...+.+....+++.  ..||.|-..-
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~  384 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ  384 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence            3457999888776666667789999999999999888775  4699996554

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

Probab=92.67  E-value=0.042  Score=31.47  Aligned_cols=44  Identities=23%  Similarity=0.660  Sum_probs=23.5

Q ss_pred             cccccccccccCCcceEeeCCC-CcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           78 KDCAVCLSDFEDGEMVRKLNCK-HTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~~C~-H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      ..|.-|+-.  ....   +.|. |..|..|+...+..+ ..||+|..+++.
T Consensus         3 ~nCKsCWf~--~k~L---i~C~dHYLCl~CLt~ml~~s-~~C~iC~~~LPt   47 (50)
T PF03854_consen    3 YNCKSCWFA--NKGL---IKCSDHYLCLNCLTLMLSRS-DRCPICGKPLPT   47 (50)
T ss_dssp             ----SS-S----SSE---EE-SS-EEEHHHHHHT-SSS-SEETTTTEE---
T ss_pred             ccChhhhhc--CCCe---eeecchhHHHHHHHHHhccc-cCCCcccCcCcc
Confidence            346667643  2222   5784 888999999888764 789999888743

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.

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.48  E-value=0.093  Score=40.79  Aligned_cols=52  Identities=27%  Similarity=0.713  Sum_probs=34.3

Q ss_pred             CCcccccccccccccCCcce-EeeCC-----CCcchHHHHHHHHHhCCC-------CCCCCCCcC
Q 047964           74 PSESKDCAVCLSDFEDGEMV-RKLNC-----KHTFHRDCLDKWLQEYLA-------TCPLCRTKV  125 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~-~~~~C-----~H~f~~~Ci~~w~~~~~~-------~CP~Cr~~~  125 (168)
                      .+.+..|-||...=.+...- -.-||     .|..|..|+..|..+.+.       +||.|++..
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            34567899998753322210 01265     366899999999964322       699999876

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

Probab=91.06  E-value=0.16  Score=45.25  Aligned_cols=24  Identities=29%  Similarity=0.783  Sum_probs=20.7

Q ss_pred             eCCCCcchHHHHHHHHHhCCCCCCC
Q 047964           96 LNCKHTFHRDCLDKWLQEYLATCPL  120 (168)
Q Consensus        96 ~~C~H~f~~~Ci~~w~~~~~~~CP~  120 (168)
                      ..|+|+.|..|...|+..+ ..||.
T Consensus      1046 g~C~Hv~H~sc~~eWf~~g-d~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTG-DVCPS 1069 (1081)
T ss_pred             ccccccccHHHHHHHHhcC-CcCCC
Confidence            4799999999999999976 67874

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

Probab=90.73  E-value=0.019  Score=46.97  Aligned_cols=52  Identities=21%  Similarity=0.600  Sum_probs=41.4

Q ss_pred             ccccccccccccCC-cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCch
Q 047964           77 SKDCAVCLSDFEDG-EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE  129 (168)
Q Consensus        77 ~~~C~IC~~~~~~~-~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~  129 (168)
                      ...|+||.+.+... ..+..+-|||.+|..|+..|+.. ...||.|++.+....
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~~~  248 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPKNG  248 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhhhh
Confidence            45899999988755 33334689999999999999987 377999999885443

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.13  E-value=0.19  Score=39.85  Aligned_cols=31  Identities=26%  Similarity=0.623  Sum_probs=24.0

Q ss_pred             CCCCcchHHHHHHHHHhCCC------------CCCCCCCcCCC
Q 047964           97 NCKHTFHRDCLDKWLQEYLA------------TCPLCRTKVLP  127 (168)
Q Consensus        97 ~C~H~f~~~Ci~~w~~~~~~------------~CP~Cr~~~~~  127 (168)
                      -|....|..|+-+|+..++.            .||+||+.+.-
T Consensus       324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            36777899999999964422            79999998753

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

Probab=89.84  E-value=0.16  Score=47.53  Aligned_cols=48  Identities=25%  Similarity=0.622  Sum_probs=37.9

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV  125 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~  125 (168)
                      .+...|.||.+.+..-..+  ..|||.+|..|...|+..+ ..||.|....
T Consensus      1151 ~~~~~c~ic~dil~~~~~I--~~cgh~~c~~c~~~~l~~~-s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGI--AGCGHEPCCRCDELWLYAS-SRCPICKSIK 1198 (1394)
T ss_pred             hcccchHHHHHHHHhcCCe--eeechhHhhhHHHHHHHHh-ccCcchhhhh
Confidence            3556899999987733332  6899999999999999864 7899998543

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

Probab=88.56  E-value=0.16  Score=44.79  Aligned_cols=53  Identities=25%  Similarity=0.695  Sum_probs=39.9

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHh--CCCCCCCCCCcCCCchHHh
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE--YLATCPLCRTKVLPDEIVA  132 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~~CP~Cr~~~~~~~~~~  132 (168)
                      ..+|+||...+..+..   +.|.|.|+..|+..-+..  ....||+|+..+.......
T Consensus        21 ~lEc~ic~~~~~~p~~---~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E   75 (684)
T KOG4362|consen   21 ILECPICLEHVKEPSL---LKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE   75 (684)
T ss_pred             hccCCceeEEeeccch---hhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc
Confidence            5789999999888854   799999999998755542  2346999998775444433

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

Probab=87.78  E-value=0.35  Score=40.51  Aligned_cols=36  Identities=28%  Similarity=0.603  Sum_probs=30.1

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE  113 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~  113 (168)
                      +++..|+||-.-|.+|+.   ++|+|..|..|...-+.+
T Consensus         2 eeelkc~vc~~f~~epii---l~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPII---LPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCceE---eecccHHHHHHHHhhccc
Confidence            456789999999888876   899999999998876543

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

Probab=86.23  E-value=2.4  Score=35.26  Aligned_cols=38  Identities=24%  Similarity=0.775  Sum_probs=27.2

Q ss_pred             cccccccccccccCC-cceEeeCCCCcchHHHHHHHHHh
Q 047964           76 ESKDCAVCLSDFEDG-EMVRKLNCKHTFHRDCLDKWLQE  113 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~-~~~~~~~C~H~f~~~Ci~~w~~~  113 (168)
                      ....|.||......+ .......|+|.||..|....++.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            356899999443333 33223589999999999988874

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

Probab=83.70  E-value=0.61  Score=40.93  Aligned_cols=40  Identities=30%  Similarity=0.602  Sum_probs=29.0

Q ss_pred             ccccccccccccCCc-ceEeeCCCCcchHHHHHHHHHhCCCCCC
Q 047964           77 SKDCAVCLSDFEDGE-MVRKLNCKHTFHRDCLDKWLQEYLATCP  119 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~-~~~~~~C~H~f~~~Ci~~w~~~~~~~CP  119 (168)
                      ...|.||+..+.... ..+.+.|||..|..|......   .+||
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn---~scp   51 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN---ASCP   51 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh---ccCC
Confidence            457999987765433 233368999999999987643   5788

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

Probab=82.34  E-value=0.75  Score=36.60  Aligned_cols=52  Identities=27%  Similarity=0.641  Sum_probs=34.4

Q ss_pred             CcccccccccccccCCcc-eEeeCCC-----CcchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEM-VRKLNCK-----HTFHRDCLDKWLQEY-LATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~-~~~~~C~-----H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~  126 (168)
                      .++..|.||.+....... ....||.     ...|..|+..|+..+ ...|..|.....
T Consensus        76 ~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~  134 (323)
T KOG1609|consen   76 SSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI  134 (323)
T ss_pred             CCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence            345789999997554321 1224652     236999999999732 346999988663

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

Probab=80.96  E-value=1.5  Score=25.33  Aligned_cols=44  Identities=27%  Similarity=0.532  Sum_probs=18.6

Q ss_pred             cccccccccccCCcceEeeCCCCcchHHHHHHHHH----hCCCCCCCCCCc
Q 047964           78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ----EYLATCPLCRTK  124 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~----~~~~~CP~Cr~~  124 (168)
                      ..|++....+..|.  +...|.|.-|.+ +..|+.    .+...||.|.++
T Consensus         3 L~CPls~~~i~~P~--Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPV--RGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEE--EETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCc--cCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            36888877766554  346899973321 334443    333479999763

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

>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]

Probab=80.45  E-value=2.6  Score=34.11  Aligned_cols=65  Identities=23%  Similarity=0.394  Sum_probs=41.6

Q ss_pred             HHhCCCcccchhhhccCCCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964           56 EEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT  123 (168)
Q Consensus        56 ~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~  123 (168)
                      .-..|..++.+....+.  .....|-.|.+........+--.|.+.||.+|-.- .......||.|..
T Consensus       311 hhL~PL~~F~Eip~~~~--~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~-iHesLh~CpgCeh  375 (378)
T KOG2807|consen  311 HHLFPLKPFVEIPETEY--NGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVF-IHESLHNCPGCEH  375 (378)
T ss_pred             HhhcCCcchhhcccccc--CCCcceeeeccccCCCCcEEchhccceeeccchHH-HHhhhhcCCCcCC
Confidence            34445555555544432  23445999987777666655568999999999543 3333457999964

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

Probab=80.19  E-value=1.7  Score=34.20  Aligned_cols=48  Identities=25%  Similarity=0.568  Sum_probs=33.1

Q ss_pred             cccccccccccCCcceEe----eCCCCcchHHHHHHHHHh-C-------CCCCCCCCCcC
Q 047964           78 KDCAVCLSDFEDGEMVRK----LNCKHTFHRDCLDKWLQE-Y-------LATCPLCRTKV  125 (168)
Q Consensus        78 ~~C~IC~~~~~~~~~~~~----~~C~H~f~~~Ci~~w~~~-~-------~~~CP~Cr~~~  125 (168)
                      .+|.+|...+.+....+.    ..|+...|..|+-..+.. .       ...||.|++-+
T Consensus       183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~  242 (276)
T KOG3005|consen  183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL  242 (276)
T ss_pred             hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence            589999999854443332    258888999999884432 1       12699999854

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	168
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-09
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-08
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-07
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		3e-07
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		5e-07
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		2e-06

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 26/49 (53%), Positives = 34/49 (69%), Gaps = 2/49 (4%)
Query: 79  DCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126
           +CAVCL++ EDGE  R L  C H FH +C+D WL  + +TCPLCR  V+
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTVV 54

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/53 (47%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 75  SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127
           SE   C VC+ DFE  +++R L C H FH  C+DKWL+    TCP+CR    P
Sbjct: 21  SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN-RTCPICRADSGP 72

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 25/53 (47%), Positives = 33/53 (62%), Gaps = 4/53 (7%)
Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV---LPDE 129
           C +CLS  E+GE VR+L C H FH+ C+D+WL      CP+CR  +   LP E
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITN-KKCPICRVDIEAQLPSE 68

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

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/47 (53%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126
           CAVCL DF+  + +    CKH FHR CL KWL E    CPLC   VL
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWL-EVRKVCPLCNMPVL 63

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 20/44 (45%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 79  DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122
           +C VC  D+  GE VR+L C H FH  C+  WL+++  +CP+CR
Sbjct: 17  ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH-DSCPVCR 59

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 19/48 (39%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127
           C +C S++  G++  +L C H FH+ C+  WLQ+   TCP+CR    P
Sbjct: 43  CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS-GTCPVCRCMFPP 89

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	168
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	8e-27
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-24
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	6e-24
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-23
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-23
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-22
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-16
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	6e-15
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	7e-14
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	4e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-12
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-12
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	5e-12
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-11
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	5e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	4e-09
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	9e-09
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-08
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	4e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-08
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	7e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	7e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	7e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	1e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-06
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	2e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	5e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	6e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	7e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	9e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-05
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-05
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	2e-04
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	2e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	6e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	6e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	7e-04

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

 Score = 95.5 bits (238), Expect = 8e-27
 Identities = 26/69 (37%), Positives = 35/69 (50%), Gaps = 5/69 (7%)

Query: 60  PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCP 119
           P+  +          SE   C VC+ DFE  +++R L C H FH  C+DKWL+    TCP
Sbjct: 10  PSYRFNP----NNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN-RTCP 64

Query: 120 LCRTKVLPD 128
           +CR    P 
Sbjct: 65  ICRADSGPS 73

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

 Score = 90.1 bits (224), Expect = 1e-24
 Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 4/68 (5%)

Query: 60  PTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCP 119
           P I   +      +  +   C +C S++  G++  +L C H FH+ C+  WLQ+   TCP
Sbjct: 26  PEILVTEDH---GAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS-GTCP 81

Query: 120 LCRTKVLP 127
           +CR    P
Sbjct: 82  VCRCMFPP 89

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

 Score = 87.8 bits (218), Expect = 6e-24
 Identities = 22/56 (39%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 73  SPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128
                + C +CLS  E+GE VR+L C H FH+ C+D+WL      CP+CR  +   
Sbjct: 10  EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITN-KKCPICRVDIEAQ 64

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

 Score = 87.5 bits (217), Expect = 1e-23
 Identities = 25/57 (43%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 71  KKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127
            K  +  + CAVCL DF+  + +    CKH FHR CL KWL+     CPLC   VL 
Sbjct: 9   VKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVR-KVCPLCNMPVLQ 64

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

 Score = 86.1 bits (214), Expect = 2e-23
 Identities = 26/52 (50%), Positives = 35/52 (67%), Gaps = 2/52 (3%)

Query: 76  ESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126
           +  +CAVCL++ EDGE  R L  C H FH +C+D WL  + +TCPLCR  V+
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTVV 54

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

 Score = 84.8 bits (210), Expect = 1e-22
 Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 1/51 (1%)

Query: 79  DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE 129
           +C VC  D+  GE VR+L C H FH  C+  WL+++  +CP+CR  +    
Sbjct: 17  ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH-DSCPVCRKSLTGQN 66

>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 = 71.5 bits (176), Expect = 1e-17
 Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 2/53 (3%)

Query: 74  PSESKDCAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
            S S  C +CL D     +    L C H  HR C ++ L+E    CPLC    
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPS 53

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

 Score = 69.0 bits (169), Expect = 2e-16
 Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 5/58 (8%)

Query: 71  KKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128
            K  ++ ++C +C+    D      L C H+F + C+DKW   +   CP+CR ++   
Sbjct: 9   VKQLTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRH-RNCPICRLQMTGA 61

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

 Score = 64.7 bits (158), Expect = 6e-15
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 3/52 (5%)

Query: 74  PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
            + ++ C +CL D  +      L C H F   C+ +W+++   TCPLC+  V
Sbjct: 2   ATVAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQN-PTCPLCKVPV 50

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

 Score = 62.2 bits (151), Expect = 7e-14
 Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 73  SPSESKDCAVCLSDFED----GEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
            PS +  C +C+  + +    G ++    C H F   CL   L+    TCP CR K+
Sbjct: 11  RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKI 66

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

 Score = 60.3 bits (146), Expect = 4e-13
 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 2/52 (3%)

Query: 80  CAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI 130
           C  C ++ +  + V     C H+FH  C+  W+++    CPLC+   +   I
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN-NRCPLCQQDWVVQRI 79

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 59.1 bits (143), Expect = 1e-12
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 5/62 (8%)

Query: 73  SPSESKDCAVCLSDFED----GEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128
            PS +  C +C+  + +    G ++    C H F   CL   L+    TCP CR K+   
Sbjct: 6   RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHK 64

Query: 129 EI 130
             
Sbjct: 65  RY 66

>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 = 62.5 bits (151), Expect = 3e-12
 Identities = 17/87 (19%), Positives = 33/87 (37%), Gaps = 3/87 (3%)

Query: 49  TQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLD 108
           T       + +  ++ ++  L  +  S  + C +C  + +D   V+   C H     CL 
Sbjct: 304 TGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCKICAENDKD---VKIEPCGHLMCTSCLT 360

Query: 109 KWLQEYLATCPLCRTKVLPDEIVAKYQ 135
            W +     CP CR ++   E +    
Sbjct: 361 SWQESEGQGCPFCRCEIKGTEPIVVDP 387

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 58.0 bits (140), Expect = 5e-12
 Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 2/57 (3%)

Query: 75  SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
           +E   C +C+    D  +    +C       C+ +WL E  A CP CR  +   E+V
Sbjct: 20  AEVFRCFICMEKLRDARLC--PHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELV 74

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

 Score = 55.7 bits (134), Expect = 2e-11
 Identities = 17/58 (29%), Positives = 20/58 (34%), Gaps = 4/58 (6%)

Query: 74  PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-TCPLCRTKVLPDEI 130
           P   K C +C S    G       C    H  C+ K+ Q      CP C     P EI
Sbjct: 12  PDAVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY-WPHEI 66

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

 Score = 54.4 bits (131), Expect = 5e-11
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 5/55 (9%)

Query: 80  CAVCLSDFED----GEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI 130
           C +C+  + +    G ++    C H F   CL   L+    TCP CR K+     
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRY 59

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

 Score = 51.4 bits (123), Expect = 1e-09
 Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 4/57 (7%)

Query: 79  DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQ 135
           +CA+CL           L CKH F   C+          C LCR ++  D + +   
Sbjct: 17  ECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLG-KRCALCRQEIPEDFLDSGPS 69

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

 Score = 52.2 bits (124), Expect = 1e-09
 Identities = 18/85 (21%), Positives = 25/85 (29%), Gaps = 20/85 (23%)

Query: 58  KNPTISYKKSMLMKKSPSESKDCAVCLSDF---------------EDGEMVRKLNCKHTF 102
             P    +K     K   E +DC +C+                      + R   C H F
Sbjct: 7   GEPEQVIRKYTEELKVAPE-EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAF 65

Query: 103 HRDCLDKWLQ----EYLATCPLCRT 123
           H  CL         +    CP C+T
Sbjct: 66  HLLCLLAMYCNGNKDGSLQCPSCKT 90

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

 Score = 54.5 bits (130), Expect = 2e-09
 Identities = 15/65 (23%), Positives = 22/65 (33%), Gaps = 15/65 (23%)

Query: 76  ESKDCAVCLSDFEDGEMVRK-----LNCKHTFHRDCLDKWLQE----------YLATCPL 120
           E   C +C +   DG  V         C    H  CL++W +               CP 
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366

Query: 121 CRTKV 125
           C+ K+
Sbjct: 367 CKAKL 371

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 51.4 bits (123), Expect = 2e-09
 Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQN 139
           C +C   F D   +  + C H+F + C+ ++L E    CP+C  +V     +   +  + 
Sbjct: 18  CVLCGGYFIDATTI--IECLHSFCKTCIVRYL-ETSKYCPICDVQVHKTRPLLNIRSDKT 74

Query: 140 LQNLDY 145
           LQ++ Y
Sbjct: 75  LQDIVY 80

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

 Score = 49.8 bits (119), Expect = 4e-09
 Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 3/54 (5%)

Query: 72  KSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
              +    C++C     D   +    C HTF + C+ +    Y   CP C   V
Sbjct: 10  SELTPYILCSICKGYLIDATTI--TECLHTFCKSCIVRHF-YYSNRCPKCNIVV 60

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

 Score = 48.9 bits (116), Expect = 9e-09
 Identities = 21/78 (26%), Positives = 30/78 (38%), Gaps = 4/78 (5%)

Query: 70  MKKSPSESKD---CAVCLSDFE-DGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
           M +SP   +D   C +C+   E D        C +   R C  +   +    CP CR   
Sbjct: 1   MSRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 60

Query: 126 LPDEIVAKYQHQQNLQNL 143
             D  V K   Q+ LQ +
Sbjct: 61  PEDPAVYKPLSQEELQRI 78

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

 Score = 48.2 bits (115), Expect = 2e-08
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 80  CAVCLSDFEDGEMVRK-LNCKHTFHRDCLDKWLQEYLAT--CPLCRTKV 125
           C +C+  F + ++  K L+C HT  R CL+K L   +    CP C    
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT 66

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

 Score = 49.3 bits (117), Expect = 3e-08
 Identities = 19/99 (19%), Positives = 43/99 (43%), Gaps = 7/99 (7%)

Query: 30  LTRSFTRTVRKIRSRLITRTQYLNFIEEKNPTISYKKSMLMKKSPSESKD---CAVCLSD 86
           L     R+ +   + +  + + L   +E+   +  +K  ++       ++   C +C   
Sbjct: 14  LMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEY 73

Query: 87  FEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
           F +      LNC H+F   C+++W++     CP+CR  +
Sbjct: 74  FIEAVT---LNCAHSFCSYCINEWMKRK-IECPICRKDI 108

>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 = 48.4 bits (115), Expect = 4e-08
 Identities = 14/71 (19%), Positives = 24/71 (33%), Gaps = 4/71 (5%)

Query: 57  EKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA 116
           +  P       + + K       C  C              C+H   +DCLD+  +  + 
Sbjct: 33  KDRPASGSPFQLFLSKVEETF-QCICCQELVFRPIT---TVCQHNVCKDCLDRSFRAQVF 88

Query: 117 TCPLCRTKVLP 127
           +CP CR  +  
Sbjct: 89  SCPACRYDLGR 99

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

 Score = 47.1 bits (112), Expect = 6e-08
 Identities = 9/46 (19%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
           C +C   F++  +     C+H F   C  +  +     C +C    
Sbjct: 18  CFICRQAFQNPVV---TKCRHYFCESCALEHFRAT-PRCYICDQPT 59

>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 = 47.7 bits (113), Expect = 1e-07
 Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 3/49 (6%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128
           C  C              C H   +DCL +  +  + +CP CR  +  +
Sbjct: 81  CVCCQELVYQPVT---TECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN 126

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

 Score = 45.5 bits (108), Expect = 1e-07
 Identities = 11/59 (18%), Positives = 21/59 (35%), Gaps = 3/59 (5%)

Query: 72  KSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI 130
           K+  +   C  C          ++  C H F   C+   L      C  C+  ++ D++
Sbjct: 10  KTVEDKYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIVKDKV 65

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 46.7 bits (110), Expect = 1e-07
 Identities = 15/66 (22%), Positives = 22/66 (33%), Gaps = 6/66 (9%)

Query: 72  KSPSESKDCAVCLSDF-EDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI 130
                  +C    +    +   V    C H FH  C+ +WL+     CPL   +      
Sbjct: 46  HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNREW----E 100

Query: 131 VAKYQH 136
             KY H
Sbjct: 101 FQKYGH 106

>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 = 46.8 bits (111), Expect = 1e-07
 Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 6/62 (9%)

Query: 67  SMLMKKSPSESKD---CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT 123
           SM + K    S     C +C+    +      L C HT  + C    +++    CP CR 
Sbjct: 2   SMALPKDAIPSLSECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRR 58

Query: 124 KV 125
           +V
Sbjct: 59  RV 60

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

 Score = 46.1 bits (109), Expect = 2e-07
 Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 3/71 (4%)

Query: 72  KSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
               +S  C +C     D     + +CKH F R C+ + L+   + CP CR    P ++ 
Sbjct: 18  AHFVKSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE 74

Query: 132 AKYQHQQNLQN 142
           +  +   N+ N
Sbjct: 75  SPVKSFLNILN 85

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

 Score = 43.9 bits (104), Expect = 4e-07
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 8/54 (14%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV-LPDEIVA 132
           C  C ++ +     + L C HT    CL+    +    CP+C+    L  +  A
Sbjct: 9   CQQCQAEAKC---PKLLPCLHTLCSGCLEASGMQ----CPICQAPWPLGADTPA 55

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

 Score = 44.8 bits (105), Expect = 7e-07
 Identities = 12/52 (23%), Positives = 18/52 (34%), Gaps = 2/52 (3%)

Query: 72  KSPSESKDCAVCLSDF-EDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122
                  +C    +    +   V    C H FH  C+ +WL+     CPL  
Sbjct: 57  HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDN 107

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

 Score = 44.8 bits (106), Expect = 7e-07
 Identities = 11/60 (18%), Positives = 25/60 (41%), Gaps = 3/60 (5%)

Query: 72  KSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
                  +C +CL    +     +  C H F + C+ K +++    CP+    +L +++ 
Sbjct: 13  PPLESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 69

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

 Score = 44.8 bits (105), Expect = 1e-06
 Identities = 16/73 (21%), Positives = 25/73 (34%), Gaps = 5/73 (6%)

Query: 74  PSESKDCAVCLSDFEDGEMVRK----LNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE 129
            S +  C +C+  + +     +      C H F   CL   L+    TCP CR K+    
Sbjct: 4   GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKR 62

Query: 130 IVAKYQHQQNLQN 142
               Y     +  
Sbjct: 63  YHPIYIGSGTVSC 75

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

 Score = 37.1 bits (85), Expect = 7e-04
 Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 5/65 (7%)

Query: 65  KKSMLMKKSPSESKDCAVCLSDFED----GEMVRKLNCKHTFHRDCLDKWLQEYLATCPL 120
            K        S +  C +C+  + +    G ++    C H F   CL   L+    TCP 
Sbjct: 60  HKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPT 118

Query: 121 CRTKV 125
           CR K+
Sbjct: 119 CRKKI 123

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 80

 Score = 43.4 bits (102), Expect = 1e-06
 Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 5/57 (8%)

Query: 73  SPSESKDCAVCLSDFEDGE-MVRKLNCK---HTFHRDCLDKWLQE-YLATCPLCRTK 124
           +PS    C +C  + +D   ++   +C    H  H+ CL +W++      C LC+ +
Sbjct: 11  TPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYE 67

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

 Score = 45.5 bits (107), Expect = 2e-06
 Identities = 17/65 (26%), Positives = 22/65 (33%), Gaps = 4/65 (6%)

Query: 67  SMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-TCPLCRTKV 125
             + +  P   K C +C S    G       C    H  C+ K+ Q      CP C    
Sbjct: 170 QYIRETYPDAVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY- 226

Query: 126 LPDEI 130
            P EI
Sbjct: 227 WPHEI 231

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 94

 Score = 42.9 bits (101), Expect = 2e-06
 Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 19/80 (23%)

Query: 75  SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-------TCPLCR----- 122
           S S  C +CL ++   +M     C+  F   CL ++++  +        +CP        
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQG 62

Query: 123 -------TKVLPDEIVAKYQ 135
                    ++  EI+ +Y+
Sbjct: 63  HLQENEIECMVAAEIMQRYK 82

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 43.4 bits (102), Expect = 5e-06
 Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 2/61 (3%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQN 139
           C +CL   ++    +   C H F  DC+   L+     CP CR K++    +    +   
Sbjct: 57  CPICLDMLKNTMTTK--ECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDA 114

Query: 140 L 140
           L
Sbjct: 115 L 115

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

 Score = 41.3 bits (97), Expect = 6e-06
 Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVLPDE 129
           C +C     D  ++    C +++  +C+   L E    TCP C    +  +
Sbjct: 18  CLICKDIMTDAVVIPC--CGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 66

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

 Score = 41.7 bits (98), Expect = 7e-06
 Identities = 17/69 (24%), Positives = 25/69 (36%), Gaps = 12/69 (17%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP---------DEI 130
           C +C   F    ++    C H +   C+ K+L  Y   CP C   V           DE+
Sbjct: 25  CGICFEYFNIAMII--PQCSHNYCSLCIRKFL-SYKTQCPTCCVTVTEPDLKNNRILDEL 81

Query: 131 VAKYQHQQN 139
           V      +N
Sbjct: 82  VKSLNFARN 90

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 42.8 bits (100), Expect = 9e-06
 Identities = 12/72 (16%), Positives = 30/72 (41%), Gaps = 3/72 (4%)

Query: 72  KSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
                  +C +CL    +     +  C H F + C+ K +++    CP+    +L +++ 
Sbjct: 13  PPLESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 69

Query: 132 AKYQHQQNLQNL 143
                ++ + +L
Sbjct: 70  PDNFAKREILSL 81

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

 Score = 41.8 bits (98), Expect = 1e-05
 Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 5/51 (9%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI 130
           C+ C +   +   V    C+H F  +C+   +      CP+C T     ++
Sbjct: 25  CSRCTNILREP--VCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQDL 70

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 73

 Score = 39.3 bits (92), Expect = 3e-05
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 5/53 (9%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWL--QEYLATCPLCRTKVLPDEI 130
           C +CL   +       ++C H F   C+ +          CPLC+T V  + I
Sbjct: 23  CPICLDILQKPVT---IDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72

>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 Length = 61

 Score = 36.9 bits (86), Expect = 2e-04
 Identities = 9/52 (17%), Positives = 21/52 (40%), Gaps = 3/52 (5%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
           CA+          V     +  F +  L++++++     P+    +  +EIV
Sbjct: 6   CAISGKVPRRP--VLSPKSRTIFEKSLLEQYVKDT-GNDPITNEPLSIEEIV 54

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

 Score = 38.6 bits (89), Expect = 2e-04
 Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 3/50 (6%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE 129
           C+ C +         +  C H +   CL   L      C  C  + + +E
Sbjct: 34  CSACRNVLRR---PFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEE 80

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

 Score = 37.1 bits (86), Expect = 3e-04
 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 3/49 (6%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDK-WLQEYLATCPLCRTKVLP 127
           C +C     D   V    C +++  +C+    L+    TCP C    + 
Sbjct: 16  CLICKDIMTDA--VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 62

>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 Length = 112

 Score = 36.6 bits (85), Expect = 6e-04
 Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 5/53 (9%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWL--QEYLATCPLCRTKVLPDEI 130
           C +CL   ++        C H F + C+ K L  ++  + CPLC+  +    +
Sbjct: 24  CPICLELIKEPVS---TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus} Length = 85

 Score = 36.2 bits (84), Expect = 6e-04
 Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 8/56 (14%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWL-----QEYLATCPLCRTKVLPDEI 130
           C +CL   ++       +C H+F R C+          +    CP+CR       +
Sbjct: 22  CPICLELLKEPVS---ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL 74

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 35.7 bits (83), Expect = 7e-04
 Identities = 12/57 (21%), Positives = 23/57 (40%), Gaps = 9/57 (15%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA------TCPLCRTKVLPDEI 130
           C +CL    +      L+C H+  R C+    +E +       +CP+C      + +
Sbjct: 15  CPICLELLTEPLS---LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHL 68

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	168
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.51
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.5
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.49
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.49
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.47
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.47
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.42
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.4
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.39
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.39
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.38
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.37
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.36
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.35
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.35
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.34
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.33
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.33
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.32
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.32
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.31
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.31
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.31
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.31
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.3
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.3
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.29
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.29
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.29
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.28
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.27
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.25
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.25
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.24
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.22
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.22
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.2
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.2
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.2
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.18
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.17
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.16
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.15
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.14
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.14
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.11
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.11
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.04
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.04
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.02
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.02
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.02
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.0
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.97
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.96
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.95
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.94
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.93
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.87
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.75
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.73
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.73
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.67
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.62
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.59
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.58
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.43
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.4
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.33
3nw0_A	238	Non-structural maintenance of chromosomes element	97.7
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.45
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.32
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.21
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	93.24
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	90.87
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	86.32
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	83.85
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	83.72
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	82.87
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	81.77
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	81.49
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	80.49
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	80.31

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

Probab=99.51  E-value=6.4e-15  Score=93.21  Aligned_cols=52  Identities=48%  Similarity=1.105  Sum_probs=46.3

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .++..|+||++.+..+..+..++|+|.||..|+..|+..+ ..||+||+.+.+
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~-~~CP~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN-RTCPICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHC-SSCTTTCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcC-CcCcCcCCcCCC
Confidence            4567899999999988877778999999999999999875 789999998865

>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=99.50  E-value=2.5e-14  Score=88.89  Aligned_cols=52  Identities=42%  Similarity=1.027  Sum_probs=45.2

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .++..|+||++.+..+..+..++|||.||..|+..|+..+ ..||+||..+..
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~~   63 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITN-KKCPICRVDIEA   63 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHC-SBCTTTCSBSCS
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcC-CCCcCcCccccC
Confidence            4567899999999877777778999999999999999875 689999998854

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

Probab=99.49  E-value=1.7e-14  Score=94.68  Aligned_cols=52  Identities=37%  Similarity=0.980  Sum_probs=45.6

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .++..|+||++.+..+..+..++|+|.||..|+..|+..+ ..||+||..+.+
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS-GTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTT-CBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcC-CcCcCcCccCCC
Confidence            4567899999999888877778999999999999999864 789999998854

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

Probab=99.49  E-value=3.1e-14  Score=89.72  Aligned_cols=52  Identities=46%  Similarity=0.944  Sum_probs=45.8

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .++..|+||++.+..+..+..++|+|.||..|+..|+..+ ..||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~-~~CP~Cr~~~~~   64 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVR-KVCPLCNMPVLQ   64 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHC-SBCTTTCCBCSS
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcC-CcCCCcCccccc
Confidence            4567999999999988887778999999999999999875 689999998853

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

Probab=99.47  E-value=1.1e-14  Score=92.62  Aligned_cols=56  Identities=36%  Similarity=0.898  Sum_probs=47.9

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      ..++..|+||++.+..+..+..++|+|.||..|+..|+..+ ..||+||..+....+
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH-DSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTT-CSCTTTCCCCCCSCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcC-CcCcCcCCccCCccc
Confidence            34567999999999988877778999999999999999865 789999999866544

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

Probab=99.47  E-value=2e-14  Score=85.39  Aligned_cols=51  Identities=51%  Similarity=1.132  Sum_probs=43.8

Q ss_pred             CcccccccccccccCCcceEeeC-CCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLN-CKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      +++..|+||++.+..+..+..++ |||.||..|+..|++.+ ..||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC-CSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcC-CcCcCCCCEeE
Confidence            45678999999998877766676 99999999999999864 78999999863

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

Probab=99.42  E-value=4.3e-14  Score=88.17  Aligned_cols=55  Identities=27%  Similarity=0.710  Sum_probs=45.1

Q ss_pred             CcccccccccccccCC----cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           75 SESKDCAVCLSDFEDG----EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~----~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      +++..|+||++.+..+    .....++|||.||..|+..|+..+ ..||+||..+...++
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRY   66 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC-SBCTTTCCBCCCCSC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC-CCCCCCCCccChhhe
Confidence            4567999999998764    333457999999999999999875 789999999876544

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

Probab=99.40  E-value=1.1e-13  Score=87.93  Aligned_cols=66  Identities=21%  Similarity=0.436  Sum_probs=51.3

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNL  143 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~  143 (168)
                      .+...|+||++.+.+|..   ++|||.||..|+..|+..+...||.||..+....+..+......++..
T Consensus         6 ~~~~~C~IC~~~~~~Pv~---~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l~~~i~~~   71 (78)
T 1t1h_A            6 PEYFRCPISLELMKDPVI---VSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALW   71 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEE---ETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHH
T ss_pred             cccCCCCCccccccCCEE---cCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHHHHHHHHH
Confidence            456799999999988754   799999999999999986557899999998766555554444444433

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

Probab=99.39  E-value=3e-13  Score=83.34  Aligned_cols=52  Identities=19%  Similarity=0.537  Sum_probs=44.2

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCch
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE  129 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~  129 (168)
                      .+...|+||++.+..+..   ++|||.||..|+..|+......||.||..+..++
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPKQ---TECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCEECTTTCCEESSCCC---CSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CcCCCCCCCChHhcCeeE---CCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            456789999999988876   7999999999999999654568999999986543

>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=99.39  E-value=3.2e-13  Score=80.05  Aligned_cols=51  Identities=35%  Similarity=0.766  Sum_probs=42.2

Q ss_pred             CcccccccccccccCC-cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDG-EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~-~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      .++..|+||++.+..+ ..+..++|+|.||..|+..|+..+ ..||+||+.+.
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            3467899999998653 334557999999999999999976 88999999874

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

Probab=99.38  E-value=2.8e-13  Score=83.88  Aligned_cols=53  Identities=30%  Similarity=0.783  Sum_probs=43.2

Q ss_pred             CCcccccccccccccCC----cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           74 PSESKDCAVCLSDFEDG----EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~----~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      ..+...|+||++.+..+    ..+..++|||.||..|+..|+..+ ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHC-SSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcC-CCCCCCCCccCc
Confidence            35577999999998764    223457999999999999999874 789999998753

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

Probab=99.37  E-value=2.4e-13  Score=87.27  Aligned_cols=52  Identities=31%  Similarity=0.826  Sum_probs=40.2

Q ss_pred             cccccccccccccC-----------CcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           76 ESKDCAVCLSDFED-----------GEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        76 ~~~~C~IC~~~~~~-----------~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      +++.|+||++.+..           +..+..+ +|+|.||..||..|+..+ .+||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN-NRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC-CBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC-CCCCCcCCCcchh
Confidence            45678888888754           2333334 699999999999999875 7899999988543

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

Probab=99.36  E-value=2.6e-13  Score=82.74  Aligned_cols=54  Identities=26%  Similarity=0.696  Sum_probs=43.8

Q ss_pred             cccccccccccccCC----cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           76 ESKDCAVCLSDFEDG----EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~----~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      ++..|+||++.+..+    ..+..++|||.||..|+..|+..+ ..||.||..+...++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~~   59 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRY   59 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHC-SBCTTTCCBCTTTCE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcC-CCCCCCCccCCccce
Confidence            356899999998764    333457999999999999999874 789999999865443

>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=99.35  E-value=7.6e-13  Score=90.01  Aligned_cols=52  Identities=27%  Similarity=0.555  Sum_probs=41.0

Q ss_pred             cccccccccccccCCc---------------ceEeeCCCCcchHHHHHHHHHh----CCCCCCCCCCcCCC
Q 047964           76 ESKDCAVCLSDFEDGE---------------MVRKLNCKHTFHRDCLDKWLQE----YLATCPLCRTKVLP  127 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~---------------~~~~~~C~H~f~~~Ci~~w~~~----~~~~CP~Cr~~~~~  127 (168)
                      .+..|+||++.+..+.               .+..++|+|.||..||..|+..    ....||+||+.+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            3568999999987653               2335799999999999999963    23579999998854

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

Probab=99.35  E-value=6.7e-13  Score=83.16  Aligned_cols=54  Identities=22%  Similarity=0.476  Sum_probs=44.1

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      ..+...|+||++.+.++..  .++|||.||..|+..|+... ..||+||..+...++
T Consensus        12 ~~~~~~C~IC~~~~~~p~~--~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           12 LTPYILCSICKGYLIDATT--ITECLHTFCKSCIVRHFYYS-NRCPKCNIVVHQTQP   65 (72)
T ss_dssp             CCGGGSCTTTSSCCSSCEE--CSSSCCEECHHHHHHHHHHC-SSCTTTCCCCCSSCS
T ss_pred             cCCCCCCCCCChHHHCcCE--ECCCCCHHHHHHHHHHHHcC-CcCCCcCcccCcccc
Confidence            3456799999999887654  24999999999999999864 789999999865443

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}

Probab=99.34  E-value=2.7e-13  Score=90.38  Aligned_cols=59  Identities=27%  Similarity=0.615  Sum_probs=46.7

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHh
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQH  136 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~  136 (168)
                      ++..|+||++.+..+..  .++|||.||..|+..|+......||.||.++....+..+...
T Consensus        21 ~~~~C~IC~~~~~~p~~--~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~   79 (100)
T 3lrq_A           21 EVFRCFICMEKLRDARL--CPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWA   79 (100)
T ss_dssp             HHTBCTTTCSBCSSEEE--CTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTH
T ss_pred             CCCCCccCCccccCccc--cCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHH
Confidence            46789999999876532  279999999999999999754689999999976665544333

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

Probab=99.33  E-value=7.3e-13  Score=84.81  Aligned_cols=48  Identities=19%  Similarity=0.522  Sum_probs=41.2

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      .+...|+||++.+..+..   ++|||.||..|+..|+... ..||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNPVV---TKCRHYFCESCALEHFRAT-PRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSEEE---CTTSCEEEHHHHHHHHHHC-SBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCeeE---ccCCCHhHHHHHHHHHHCC-CcCCCcCcccc
Confidence            446789999999877643   7999999999999999864 78999999985

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

Probab=99.33  E-value=2.8e-13  Score=84.71  Aligned_cols=51  Identities=29%  Similarity=0.519  Sum_probs=42.6

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCch
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE  129 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~  129 (168)
                      .++..|+||++.+..+..   ++|||.||..|+..|+..+ ..||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~---~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~~   63 (71)
T 2d8t_A           13 LTVPECAICLQTCVHPVS---LPCKHVFCYLCVKGASWLG-KRCALCRQEIPEDF   63 (71)
T ss_dssp             SSCCBCSSSSSBCSSEEE---ETTTEEEEHHHHHHCTTCS-SBCSSSCCBCCHHH
T ss_pred             CCCCCCccCCcccCCCEE---ccCCCHHHHHHHHHHHHCC-CcCcCcCchhCHhh
Confidence            456789999999877643   7999999999999999865 78999999985443

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

Probab=99.32  E-value=2e-12  Score=83.75  Aligned_cols=55  Identities=29%  Similarity=0.703  Sum_probs=44.5

Q ss_pred             CCcccccccccccccCCcc-eEeeCCCCcchHHHHHHHHHhC--CCCCCCCCCcCCCc
Q 047964           74 PSESKDCAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEY--LATCPLCRTKVLPD  128 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~--~~~CP~Cr~~~~~~  128 (168)
                      ..+...|+||++.+..... ...++|||.||..|+..|+..+  ...||.||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            3456799999999987543 4457999999999999999864  35799999988654

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

Probab=99.32  E-value=7e-13  Score=91.62  Aligned_cols=49  Identities=27%  Similarity=0.574  Sum_probs=42.3

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      ++..|+||++.+..+..   ++|||.||..|+..|+..+...||.||..+..
T Consensus        51 ~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRPIT---TVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSEEE---CTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCcEE---eeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            45689999999887755   79999999999999998654589999999865

>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=99.31  E-value=1.3e-12  Score=87.98  Aligned_cols=50  Identities=30%  Similarity=0.639  Sum_probs=41.5

Q ss_pred             cccccccccccccCCc---------------ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGE---------------MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~---------------~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      +++.|+||++.+..+.               .+..++|+|.||..||..|+..+ .+||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC-SBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcC-CcCcCCCCcce
Confidence            4678999999987551               24557999999999999999874 78999999863

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

Probab=99.31  E-value=1.8e-13  Score=87.06  Aligned_cols=56  Identities=25%  Similarity=0.569  Sum_probs=45.9

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC------CCCCCCCCCcCCCchHHh
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY------LATCPLCRTKVLPDEIVA  132 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~------~~~CP~Cr~~~~~~~~~~  132 (168)
                      ..++..|+||++.+..+..   ++|||.||..|+..|+...      ...||.||..+....+..
T Consensus         9 ~~~~~~C~IC~~~~~~p~~---l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~   70 (79)
T 2egp_A            9 VQEEVTCPICLELLTEPLS---LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQA   70 (79)
T ss_dssp             CCCCCEETTTTEECSSCCC---CSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGT
T ss_pred             cccCCCCcCCCcccCCeeE---CCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCc
Confidence            3456799999999988765   7999999999999999752      457999999987655443

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

Probab=99.31  E-value=3.3e-13  Score=89.65  Aligned_cols=64  Identities=19%  Similarity=0.494  Sum_probs=48.8

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhh
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQN  142 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~  142 (168)
                      +...|+||++.+..+..  .++|||.||..|+..|+..+ ..||.||..+....+..+.......+.
T Consensus        21 ~~~~C~IC~~~~~~p~~--~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~~l~~n~~l~~~i~~   84 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMI--IPQCSHNYCSLCIRKFLSYK-TQCPTCCVTVTEPDLKNNRILDELVKS   84 (99)
T ss_dssp             HHTBCTTTCSBCSSEEE--CTTTCCEEEHHHHHHHHTTC-CBCTTTCCBCCGGGCEECHHHHHHHHH
T ss_pred             CCCCcccCChhhCCcCE--ECCCCCHhhHHHHHHHHHCC-CCCCCCCCcCChhhCCcCHHHHHHHHH
Confidence            45789999999887644  13899999999999999864 789999999876555555444444333

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

Probab=99.31  E-value=1.2e-12  Score=85.63  Aligned_cols=63  Identities=24%  Similarity=0.551  Sum_probs=47.7

Q ss_pred             CcccccccccccccCCcceEeeC-CCCcchHHHHHHHHHhC-CCCCCCCCCcC-CCchHHhhHHhHhhh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLN-CKHTFHRDCLDKWLQEY-LATCPLCRTKV-LPDEIVAKYQHQQNL  140 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~-~~~~~~~~~~~~~~~  140 (168)
                      .++..|+||++.+..|..   ++ |||.||..|+..|+... ...||.||..+ ....+..+......+
T Consensus        11 ~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i   76 (92)
T 3ztg_A           11 PDELLCLICKDIMTDAVV---IPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAV   76 (92)
T ss_dssp             CTTTEETTTTEECSSCEE---CTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHH
T ss_pred             CcCCCCCCCChhhcCceE---CCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHH
Confidence            456799999999988765   78 99999999999999753 25899999997 344444444444333

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

Probab=99.30  E-value=8.7e-13  Score=82.64  Aligned_cols=53  Identities=26%  Similarity=0.623  Sum_probs=42.8

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh--CCCCCCCCCCcCCCch
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE--YLATCPLCRTKVLPDE  129 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~~CP~Cr~~~~~~~  129 (168)
                      ..++..|+||++.+..+..   ++|||.||..|+..|+..  ....||+||..+..++
T Consensus        17 ~~~~~~C~IC~~~~~~~~~---~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           17 LQEEVICPICLDILQKPVT---IDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCBCTTTCSBCSSEEE---CTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CccCCEeccCCcccCCeEE---cCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            3456799999999886554   699999999999999973  3357999999986543

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

Probab=99.30  E-value=1.4e-12  Score=82.09  Aligned_cols=51  Identities=22%  Similarity=0.550  Sum_probs=42.3

Q ss_pred             CCcccccccccccccCCcceEeeC-CCCcchHHHHHHHHHhCC-CCCCCCCCcCCC
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLN-CKHTFHRDCLDKWLQEYL-ATCPLCRTKVLP  127 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~w~~~~~-~~CP~Cr~~~~~  127 (168)
                      ..++..|+||++.+..+..   ++ |||.||..|+..|+.... ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           12 IPDELLCLICKDIMTDAVV---IPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             SCGGGSCSSSCCCCTTCEE---CSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             CCCCCCCcCCChHHhCCeE---cCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            3456799999999988765   78 999999999999998642 479999998643

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

Probab=99.29  E-value=1.4e-12  Score=80.61  Aligned_cols=49  Identities=33%  Similarity=0.854  Sum_probs=41.4

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      +.+..|+||++.+..+.  ..++|||.||..|+..|+..+ ..||.||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~--~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNYS--MALPCLHAFCYVCITRWIRQN-PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSCE--EETTTTEEESTTHHHHHHHHS-CSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCCc--EecCCCCeeHHHHHHHHHhCc-CcCcCCChhhH
Confidence            34678999999987653  347999999999999999875 78999999885

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

Probab=99.29  E-value=2.1e-12  Score=79.26  Aligned_cols=54  Identities=20%  Similarity=0.523  Sum_probs=43.5

Q ss_pred             ccccccccc-cccCCcce-EeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           77 SKDCAVCLS-DFEDGEMV-RKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        77 ~~~C~IC~~-~~~~~~~~-~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      +..|+||++ .+..+... ..++|||.||..|+..|+.++...||.||..+..+++
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            568999999 77777542 2369999999999999987665689999999866544

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

Probab=99.29  E-value=5.9e-13  Score=93.72  Aligned_cols=48  Identities=29%  Similarity=0.888  Sum_probs=41.2

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      +..|+||++.+..+..   ++|||.||..|+..|+..+ ..||.||.++...
T Consensus        53 ~~~C~iC~~~~~~~~~---~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           53 ELQCIICSEYFIEAVT---LNCAHSFCSYCINEWMKRK-IECPICRKDIKSK  100 (138)
T ss_dssp             HSBCTTTCSBCSSEEE---ETTSCEEEHHHHHHHTTTC-SBCTTTCCBCCCE
T ss_pred             cCCCcccCcccCCceE---CCCCCCccHHHHHHHHHcC-CcCCCCCCcCCCC
Confidence            4579999999887644   7999999999999999864 7899999998654

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

Probab=99.28  E-value=1e-12  Score=84.46  Aligned_cols=53  Identities=25%  Similarity=0.641  Sum_probs=44.1

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-----CCCCCCCCCcCCCchH
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-----LATCPLCRTKVLPDEI  130 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-----~~~CP~Cr~~~~~~~~  130 (168)
                      .++..|+||++.+..+..   ++|||.||..|+..|+...     ...||.||..+....+
T Consensus        17 ~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecw_A           17 KEEVTCPICLELLKEPVS---ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL   74 (85)
T ss_dssp             CTTTSCTTTCSCCSSCEE---CTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCC
T ss_pred             ccCCCCcCCChhhCccee---CCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhC
Confidence            456799999999887764   7999999999999999873     4579999999865443

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

Probab=99.27  E-value=7.3e-13  Score=89.39  Aligned_cols=51  Identities=25%  Similarity=0.680  Sum_probs=42.5

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      .++..|+||++.+..+..  .++|||.||..|+..|+..+ ..||.||..+...
T Consensus        13 ~~~~~C~IC~~~~~~p~~--~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDATT--IIECLHSFCKTCIVRYLETS-KYCPICDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSSBCSSEEE--ETTTCCEEEHHHHHHHHTSC-SBCTTTCCBSCSS
T ss_pred             CCcCCCccCChHHhCcCE--eCCCCChhhHHHHHHHHHhC-CcCcCCCcccccc
Confidence            346789999999887644  23999999999999999865 7899999998754

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

Probab=99.25  E-value=1.3e-12  Score=83.99  Aligned_cols=54  Identities=30%  Similarity=0.693  Sum_probs=44.6

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh-----CCCCCCCCCCcCCCchH
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE-----YLATCPLCRTKVLPDEI  130 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-----~~~~CP~Cr~~~~~~~~  130 (168)
                      ..+...|+||++.+..+..   ++|||.||..|+..|+..     ....||.||..+...++
T Consensus        16 ~~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQPLS---LDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENI   74 (85)
T ss_dssp             CCCCCCCTTTCSCCSSCBC---CSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSC
T ss_pred             ccCCCCCCCCCcccCCcee---CCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhc
Confidence            3456799999999988765   799999999999999986     24689999999876443

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

Probab=99.25  E-value=3.1e-12  Score=87.63  Aligned_cols=65  Identities=17%  Similarity=0.480  Sum_probs=50.2

Q ss_pred             CCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhh
Q 047964           73 SPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNL  140 (168)
Q Consensus        73 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~  140 (168)
                      ...+...|+||++.+..+..   ++|||.||..|+..|+......||.||..+....+..+.......
T Consensus        14 ~~~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~i   78 (118)
T 3hct_A           14 PLESKYECPICLMALREAVQ---TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREI   78 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHH
T ss_pred             CCCCCCCCCcCChhhcCeEE---CCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccCHHHHHHH
Confidence            34556799999999887744   799999999999999987645899999999766554444433333

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

Probab=99.24  E-value=8.1e-12  Score=76.05  Aligned_cols=45  Identities=27%  Similarity=0.674  Sum_probs=37.9

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh--CCCCCCCC
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE--YLATCPLC  121 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~~CP~C  121 (168)
                      ..++..|+||++.+.++..   ++|||.||..|+..|++.  ....||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKPVT---IDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSCEE---CTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCeEE---eCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3456799999999987755   799999999999999985  34579998

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

Probab=99.22  E-value=7.8e-13  Score=82.28  Aligned_cols=48  Identities=31%  Similarity=0.940  Sum_probs=40.8

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .+...|+||++.+..    ..++|+|.||..|+..|+.. ...||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   60 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDR-HRNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCC-CSSCHHHHHCTTC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHC-cCcCCCcCCcccC
Confidence            456799999999876    34899999999999999985 4789999998854

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

Probab=99.22  E-value=4e-12  Score=90.72  Aligned_cols=59  Identities=22%  Similarity=0.467  Sum_probs=46.5

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc-hHHhhHHhH
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD-EIVAKYQHQ  137 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~-~~~~~~~~~  137 (168)
                      +...|+||++.+..+..   ++|||.||..|+..|+......||.||..+... .+..+....
T Consensus        77 ~~~~C~IC~~~~~~pv~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~  136 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVT---TECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQ  136 (150)
T ss_dssp             HHTBCTTTSSBCSSEEE---CTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHH
T ss_pred             cCCEeecCChhhcCCEE---cCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHH
Confidence            45689999999887755   799999999999999987545899999998765 344443333

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

Probab=99.20  E-value=1.2e-11  Score=73.80  Aligned_cols=45  Identities=27%  Similarity=0.874  Sum_probs=37.5

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh--CCCCCCCC
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE--YLATCPLC  121 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~~CP~C  121 (168)
                      ..+...|+||++.+..+..   ++|||.||..|+..|+..  ....||+|
T Consensus        12 ~~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEPVI---IECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSCCC---CSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCccEe---CCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3456799999999988765   799999999999999754  34679998

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

Probab=99.20  E-value=1.4e-12  Score=88.20  Aligned_cols=54  Identities=24%  Similarity=0.637  Sum_probs=44.1

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCC--CCCCCCCCcCCCchHHhh
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYL--ATCPLCRTKVLPDEIVAK  133 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~--~~CP~Cr~~~~~~~~~~~  133 (168)
                      ...|+||++.+..+..   ++|||.||..|+..|+....  ..||.||..+....+..+
T Consensus        21 ~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~   76 (112)
T 1jm7_A           21 ILECPICLELIKEPVS---TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQES   76 (112)
T ss_dssp             HTSCSSSCCCCSSCCB---CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCC
T ss_pred             CCCCcccChhhcCeEE---CCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCcc
Confidence            5689999999988765   79999999999999998542  379999999876554433

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

Probab=99.20  E-value=1.1e-11  Score=79.36  Aligned_cols=53  Identities=25%  Similarity=0.672  Sum_probs=42.9

Q ss_pred             CcccccccccccccCCcceEeeCCC-----CcchHHHHHHHHHhCC-CCCCCCCCcCCCc
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCK-----HTFHRDCLDKWLQEYL-ATCPLCRTKVLPD  128 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~~~~-~~CP~Cr~~~~~~  128 (168)
                      .++..|.||++++..+..+ .+||+     |.||..|+..|+..+. ..||+||..+..+
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            4567899999998766654 47996     9999999999998653 4799999998543

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

Probab=99.18  E-value=5.8e-12  Score=91.08  Aligned_cols=50  Identities=28%  Similarity=0.636  Sum_probs=41.8

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      +...|+||++.+..+..  .++|||.||..|+..|+..+...||.||..+..
T Consensus        53 ~~~~C~IC~~~~~~p~~--~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKNTMT--TKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSSEEE--ETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhCcCE--eCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            45689999999887543  249999999999999998755789999999853

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

Probab=99.17  E-value=2.5e-12  Score=87.86  Aligned_cols=50  Identities=30%  Similarity=0.639  Sum_probs=1.1

Q ss_pred             cccccccccccccCCc---------------ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGE---------------MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~---------------~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      +++.|+||++.+..+.               .+..++|+|.||..||..|+..+ ..||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~-~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNREWE  111 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC-CcCCCCCCeee
Confidence            4678999999987532               22234899999999999999874 78999999863

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

Probab=99.16  E-value=2.1e-11  Score=77.63  Aligned_cols=56  Identities=20%  Similarity=0.485  Sum_probs=41.7

Q ss_pred             CcccccccccccccCCcc-eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           75 SESKDCAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      +++..|+||++.+..+.. ...++|||.||..|+..++......||.||+.+....+
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             ccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            456789999998854322 11124999999999999986555689999999865443

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

Probab=99.15  E-value=1.2e-12  Score=89.30  Aligned_cols=49  Identities=24%  Similarity=0.669  Sum_probs=42.2

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      .++..|+||++.+..+..   ++|||.||..|+..|+..+...||.||..+.
T Consensus        13 ~~~~~C~iC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILVEPVT---LPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCSSCEE---CTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccCceeE---cCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            346789999999987765   7999999999999999765568999999874

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

Probab=99.14  E-value=2.6e-11  Score=78.43  Aligned_cols=62  Identities=11%  Similarity=0.079  Sum_probs=50.5

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNL  140 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~  140 (168)
                      .+...|+||++.+.+|..   ++|||.|+..||..|+..+ ..||.||.++....+.++.......
T Consensus        12 p~~~~CpI~~~~m~dPV~---~~cGhtf~r~~I~~~l~~~-~~cP~~~~~l~~~~l~pn~~L~~~i   73 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDPVR---LPSGTVMDRSIILRHLLNS-PTDPFNRQMLTESMLEPVPELKEQI   73 (85)
T ss_dssp             CTTTBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHHHHC-SBCTTTCCBCCGGGCEECHHHHHHH
T ss_pred             chheECcccCchhcCCeE---CCCCCEECHHHHHHHHhcC-CCCCCCcCCCChHhcchHHHHHHHH
Confidence            346789999999998876   7999999999999999864 7899999999776666655544443

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

Probab=99.14  E-value=1.9e-11  Score=84.71  Aligned_cols=55  Identities=27%  Similarity=0.710  Sum_probs=44.7

Q ss_pred             CcccccccccccccCC----cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           75 SESKDCAVCLSDFEDG----EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~----~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      .++..|+||++.+..+    .....++|||.||..|+..|++.+ ..||.||..+....+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRY   63 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTC-SBCTTTCCBCTTTCE
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhC-CCCCCCCCcCccccc
Confidence            3467899999998765    333458999999999999999865 689999999865544

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

Probab=99.11  E-value=2.4e-11  Score=82.82  Aligned_cols=52  Identities=31%  Similarity=0.665  Sum_probs=43.8

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      ++..|+||++.+..+..   ++|||.||..|+..|+......||.||.++....+
T Consensus        22 ~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   73 (116)
T 1rmd_A           22 KSISCQICEHILADPVE---TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (116)
T ss_dssp             HHTBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCCCcHhcCcEE---cCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhc
Confidence            35689999999887654   79999999999999998754789999999876543

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.11  E-value=3.5e-11  Score=80.14  Aligned_cols=66  Identities=12%  Similarity=0.072  Sum_probs=53.4

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhhh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLD  144 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      .+...|+||++.+.+|..   ++|||.||..||..|+.. ...||.||.++....+.++.......+...
T Consensus        27 p~~~~CpI~~~~m~dPV~---~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~   92 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDPVR---LPSGTIMDRSIILRHLLN-SPTDPFNRQTLTESMLEPVPELKEQIQAWM   92 (100)
T ss_dssp             STTTBCTTTCSBCSSEEE---ETTTEEEEHHHHHHHTTS-CSBCSSSCCBCCTTSSEECHHHHHHHHHHH
T ss_pred             cHhhCCcCccCcccCCeE---CCCCCEEchHHHHHHHHc-CCCCCCCCCCCChhhceECHHHHHHHHHHH
Confidence            346789999999998876   799999999999999985 478999999998777766665555554443

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

Probab=99.09  E-value=5.7e-11  Score=78.81  Aligned_cols=65  Identities=17%  Similarity=0.167  Sum_probs=52.6

Q ss_pred             CcccccccccccccCCcceEeeCCC-CcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCK-HTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNL  143 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~-H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~  143 (168)
                      .+...|+||++.+.+|..   ++|| |.||..||..|+..+ ..||.||.++....+.++.......+..
T Consensus        20 p~~~~CpI~~~~m~dPV~---~~cG~htf~r~cI~~~l~~~-~~cP~~~~~l~~~~L~pn~~Lk~~I~~~   85 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDPVV---LPSSRVTVDRSTIARHLLSD-QTDPFNRSPLTMDQIRPNTELKEKIQRW   85 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHTTTS-CBCTTTCSBCCTTTSEECHHHHHHHHHH
T ss_pred             cHhcCCcCccccccCCeE---CCCCCeEECHHHHHHHHHhC-CCCCCCCCCCChhhceEcHHHHHHHHHH
Confidence            346789999999998876   7999 999999999999864 7899999999877766665555554444

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

Probab=99.05  E-value=2.7e-11  Score=83.95  Aligned_cols=55  Identities=27%  Similarity=0.710  Sum_probs=44.8

Q ss_pred             CcccccccccccccCC----cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           75 SESKDCAVCLSDFEDG----EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~----~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      ++...|+||++.+..+    .....++|||.||..|+.+|+... .+||+||.++..+++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~~  128 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRY  128 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC-SBCTTTCCBCCGGGE
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcC-CCCCCCCCcCChhcc
Confidence            4567899999998754    223457999999999999999875 789999999976554

>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=99.04  E-value=1e-10  Score=84.88  Aligned_cols=61  Identities=18%  Similarity=0.475  Sum_probs=48.7

Q ss_pred             CCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHh
Q 047964           73 SPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQH  136 (168)
Q Consensus        73 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~  136 (168)
                      ...+...|+||++.+..|..   ++|||.||..|+..|+......||.||..+....+..+...
T Consensus        14 ~~~~~~~C~IC~~~~~~pv~---~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~   74 (170)
T 3hcs_A           14 PLESKYECPICLMALREAVQ---TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFA   74 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHH
T ss_pred             CCCCCCCCCCCChhhcCcEE---CCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhhHHH
Confidence            34567899999999988754   79999999999999998754589999999976655444333

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.04  E-value=1.7e-10  Score=75.95  Aligned_cols=69  Identities=16%  Similarity=0.409  Sum_probs=52.6

Q ss_pred             CcccccccccccccCCcceEeeC-CCCcchHHHHHHHHHhC-----CCCCCC--CCCc-CCCchHHhhHHhHhhhhhhhh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLN-CKHTFHRDCLDKWLQEY-----LATCPL--CRTK-VLPDEIVAKYQHQQNLQNLDY  145 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~w~~~~-----~~~CP~--Cr~~-~~~~~~~~~~~~~~~~~~~~~  145 (168)
                      .+...|+||++.+.+|..   ++ |||.||..||..|+..+     ...||.  |+.. +...++.++......++....
T Consensus         5 ~~~~~CPI~~~~~~dPV~---~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~~~   81 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVK---NKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHNK   81 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEE---ESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHHHT
T ss_pred             CcEeECcCcCchhcCCEE---cCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHHHH
Confidence            346789999999998765   75 99999999999999864     247999  9877 766666666666655555443


Q ss_pred             c
Q 047964          146 Y  146 (168)
Q Consensus       146 ~  146 (168)
                      .
T Consensus        82 ~   82 (94)
T 2yu4_A           82 K   82 (94)
T ss_dssp             T
T ss_pred             H
Confidence            3

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

Probab=99.02  E-value=2e-10  Score=72.09  Aligned_cols=50  Identities=26%  Similarity=0.545  Sum_probs=40.9

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~  126 (168)
                      +....|+||.+.+..+...  ..|+|.||..|+..|++.+ ...||+||+++.
T Consensus        13 ~~i~~C~IC~~~i~~g~~C--~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSC--ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEEC--SSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCcc--CCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            4567999999999866542  3899999999999999754 257999999874

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

Probab=99.02  E-value=3.1e-11  Score=82.50  Aligned_cols=52  Identities=21%  Similarity=0.604  Sum_probs=43.1

Q ss_pred             cccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhh
Q 047964           76 ESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAK  133 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~  133 (168)
                      +...|+||++.+..+..   + +|||.||..|+..|+.   ..||.||..+....+..+
T Consensus        21 ~~~~C~IC~~~~~~pv~---~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~~~~~~n   73 (117)
T 1jm7_B           21 KLLRCSRCTNILREPVC---LGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQDLKIN   73 (117)
T ss_dssp             HTTSCSSSCSCCSSCBC---CCSSSCCBCTTTGGGGTT---TBCSSSCCBCSCSSCCCC
T ss_pred             hCCCCCCCChHhhCccE---eCCCCCHHHHHHHHHHhc---CCCcCCCCcCcccccccc
Confidence            46789999999988866   6 9999999999999986   579999999865444443

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.02  E-value=1.3e-10  Score=90.00  Aligned_cols=66  Identities=9%  Similarity=0.162  Sum_probs=53.3

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhhh
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLD  144 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      +...|+||++.+.+|..   ++|||+||..||..|+..+...||.||.++....+.++......++...
T Consensus       207 ~~~~c~i~~~~~~dPv~---~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i~~~~  272 (281)
T 2c2l_A          207 DYLCGKISFELMREPCI---TPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFI  272 (281)
T ss_dssp             STTBCTTTCSBCSSEEE---CSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHH
T ss_pred             cccCCcCcCCHhcCCeE---CCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHHHHHH
Confidence            45689999999998876   8999999999999999875456999999998777776666555554443

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

Probab=99.00  E-value=1.8e-10  Score=93.17  Aligned_cols=48  Identities=25%  Similarity=0.625  Sum_probs=40.5

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      ...|+||++.+..+.   .++|||.||..|+..|+......||+||.++..
T Consensus       332 ~~~C~ICle~~~~pv---~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDKDVK---IEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBCCEE---EETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCccCcCCCCeE---EeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            468999999876653   389999999999999998545789999998854

>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=98.97  E-value=2e-10  Score=70.28  Aligned_cols=49  Identities=20%  Similarity=0.476  Sum_probs=38.5

Q ss_pred             cccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ++..|+||++...+... ..+||||. +|..|+..|...+ ..||+||+++.
T Consensus         7 ~~~~C~IC~~~~~~~~~-~~~pCgH~~~C~~C~~~~~~~~-~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCI-VHGKTGHLMACFTCAKKLKKRN-KPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSCEEE-EETTEEEEEECHHHHHHHHHTT-CCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCCEEE-ECCCCCChhhHHHHHHHHHHcC-CcCCCcCcchh
Confidence            46789999998655432 11399999 8999999999764 78999999874

>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=98.96  E-value=5.2e-11  Score=84.08  Aligned_cols=49  Identities=18%  Similarity=0.389  Sum_probs=41.9

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ++...|+||++.+..+..   ++|||.||..|+..|+..+...||.||.++.
T Consensus        29 ~~~~~C~IC~~~~~~pv~---~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           29 EAKYLCSACRNVLRRPFQ---AQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             CGGGBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             CcCcCCCCCChhhcCcEE---CCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            556799999999988754   7999999999999999866458999999763

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

Probab=98.95  E-value=1.5e-10  Score=68.95  Aligned_cols=45  Identities=24%  Similarity=0.566  Sum_probs=38.0

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      .+...|+||++.+..+..   ++|||.||..|+..|    ...||+||+.+.
T Consensus         4 ~~~~~C~IC~~~~~~p~~---l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~   48 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKL---LPCLHTLCSGCLEAS----GMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSC---STTSCCSBTTTCSSS----SSSCSSCCSSSS
T ss_pred             ccCCCceEeCCccCCeEE---cCCCCcccHHHHccC----CCCCCcCCcEee
Confidence            446789999999998765   899999999999773    367999999874

>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=98.94  E-value=2.4e-10  Score=69.65  Aligned_cols=50  Identities=22%  Similarity=0.493  Sum_probs=39.0

Q ss_pred             CcccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      +....|+||++...++.. ..+||||. +|..|+..|...+ ..||+||+++.
T Consensus         5 ~~~~~C~IC~~~~~~~~~-~~~pCgH~~~C~~C~~~~~~~~-~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNI-IHGRTGHLVTCFHCARRLKKAG-ASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEE-EETTEEEEEECHHHHHHHHHTT-CBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCeEE-EecCCCCHhHHHHHHHHHHHhC-CcCCCcCchhh
Confidence            346789999997655432 12399998 9999999998764 78999999874

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

Probab=98.93  E-value=7.6e-10  Score=80.85  Aligned_cols=66  Identities=11%  Similarity=0.186  Sum_probs=53.1

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNL  143 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~  143 (168)
                      .+...||||.+.+.+|..   ++|||+|+..||..|+..+...||.|+.++....+.++.......+..
T Consensus       104 p~~f~CPI~~elm~DPV~---~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~Ie~~  169 (179)
T 2f42_A          104 PDYLCGKISFELMREPCI---TPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEVIDAF  169 (179)
T ss_dssp             CGGGBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHHHHHH
T ss_pred             cHhhcccCccccCCCCeE---CCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHHHHHH
Confidence            456789999999998876   799999999999999987434799999999877777766655554443

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

Probab=98.87  E-value=3.4e-10  Score=71.16  Aligned_cols=43  Identities=26%  Similarity=0.628  Sum_probs=36.3

Q ss_pred             cccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ++..|+||++.+.++..   ++|||. ||..|+..|     ..||+||..+.
T Consensus        23 ~~~~C~iC~~~~~~~~~---~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~   66 (74)
T 4ic3_A           23 EEKLCKICMDRNIAIVF---VPCGHLVTCKQCAEAV-----DKCPMCYTVIT   66 (74)
T ss_dssp             HHTBCTTTSSSBCCEEE---ETTCCBCCCHHHHTTC-----SBCTTTCCBCS
T ss_pred             cCCCCCCCCCCCCCEEE---cCCCChhHHHHhhhcC-----ccCCCcCcCcc
Confidence            45689999998766543   799999 999999887     57999999874

>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=98.75  E-value=4.2e-09  Score=69.02  Aligned_cols=56  Identities=25%  Similarity=0.634  Sum_probs=43.5

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-------CCCCCC--CCCc--CCCchHH
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-------LATCPL--CRTK--VLPDEIV  131 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-------~~~CP~--Cr~~--~~~~~~~  131 (168)
                      +...|+||++.+..+..+...+|||.||..|+..++...       ...||.  |+..  +.++.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~i~   70 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIE   70 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHH
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHHHH
Confidence            456899999998877765545899999999999998631       126999  9998  6655444

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

Probab=98.73  E-value=3.7e-09  Score=66.47  Aligned_cols=44  Identities=25%  Similarity=0.618  Sum_probs=35.9

Q ss_pred             cccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      ++..|+||++.+.++..   ++|||. ||..|+..     ...||+||..+..
T Consensus        24 ~~~~C~IC~~~~~~~~~---~pCgH~~~C~~C~~~-----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIAIVF---VPCGHLVTCKQCAEA-----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCCBCC---SSSCCCCBCHHHHHH-----CSBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCCEEE---ecCCCHHHHHHHhhC-----CCCCccCCceecC
Confidence            35689999999776654   799999 99999953     3689999998854

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

Probab=98.73  E-value=5.2e-09  Score=83.04  Aligned_cols=52  Identities=29%  Similarity=0.777  Sum_probs=39.0

Q ss_pred             CcccccccccccccCCcce-E----eeCCCCcchHHHHHHHHHhCC----------CCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMV-R----KLNCKHTFHRDCLDKWLQEYL----------ATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~-~----~~~C~H~f~~~Ci~~w~~~~~----------~~CP~Cr~~~~  126 (168)
                      ++..+|+||++.+.....+ .    -.+|+|.||..|+.+|+....          ..||.||+++.
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            4567999999988762221 1    137999999999999997421          25999999874

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

Probab=98.67  E-value=9.2e-09  Score=63.52  Aligned_cols=45  Identities=36%  Similarity=0.763  Sum_probs=35.7

Q ss_pred             CcccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      .+...|+||++...+.   ..+||||. ||..|+..     ...||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNW---VLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCCCC---EETTTTBCCSCTTHHHH-----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCCCE---EEECCCChhhhHHHHhc-----CCCCCCCCcchhc
Confidence            4567899999985543   34799999 99999973     3689999998854

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.62  E-value=8.3e-09  Score=79.18  Aligned_cols=61  Identities=25%  Similarity=0.508  Sum_probs=47.3

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCC--CCCcCCCchHHhhHHhHh
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPL--CRTKVLPDEIVAKYQHQQ  138 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~--Cr~~~~~~~~~~~~~~~~  138 (168)
                      ....||||++.+..|..  .+.|||.||..||..|+..+ ...||.  |+..+...++.++.....
T Consensus       180 ~el~CPIcl~~f~DPVt--s~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~  243 (267)
T 3htk_C          180 IELTCPITCKPYEAPLI--SRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMEL  243 (267)
T ss_dssp             CCSBCTTTSSBCSSEEE--ESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHH
T ss_pred             eeeECcCccCcccCCee--eCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHH
Confidence            34579999999988865  24899999999999999753 246999  999887666665544433

>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=98.59  E-value=7.7e-09  Score=65.75  Aligned_cols=44  Identities=30%  Similarity=0.661  Sum_probs=35.3

Q ss_pred             cccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      ++..|+||++...++.   .+||||. ||..|+..|     ..||+||..+..
T Consensus        17 ~~~~C~IC~~~~~~~v---~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   61 (79)
T 2yho_A           17 EAMLCMVCCEEEINST---FCPCGHTVCCESCAAQL-----QSCPVCRSRVEH   61 (79)
T ss_dssp             HHTBCTTTSSSBCCEE---EETTCBCCBCHHHHTTC-----SBCTTTCCBCCE
T ss_pred             CCCEeEEeCcccCcEE---EECCCCHHHHHHHHHhc-----CcCCCCCchhhC
Confidence            3568999999865543   4799999 999999865     489999998853

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

Probab=98.58  E-value=7.3e-08  Score=57.97  Aligned_cols=49  Identities=22%  Similarity=0.567  Sum_probs=36.9

Q ss_pred             CcccccccccccccCCcceEeeCCC--C---cchHHHHHHHHHh-CCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCK--H---TFHRDCLDKWLQE-YLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~--H---~f~~~Ci~~w~~~-~~~~CP~Cr~~~~  126 (168)
                      ++...|.||++....+  + .+||.  +   .||..|+..|+.. +...||+|+..+.
T Consensus         4 ~~~~~CrIC~~~~~~~--l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELGNE--R-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCC--C-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCCCc--e-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4567899999874433  2 36764  4   8999999999974 3467999999874

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=98.43  E-value=2.2e-07  Score=60.78  Aligned_cols=46  Identities=28%  Similarity=0.452  Sum_probs=36.9

Q ss_pred             ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      .|++|--++.  ...+.+||+|.||++|+..|.++..+.||.|+.++.
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            4777766543  344567999999999999999876678999999884

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.40  E-value=3.3e-08  Score=79.21  Aligned_cols=43  Identities=26%  Similarity=0.712  Sum_probs=36.4

Q ss_pred             cccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ++..|+||++.+..+..   +||||. ||..|+..|     ..||+||.++.
T Consensus       294 ~~~~C~IC~~~~~~~v~---lpCgH~~fC~~C~~~~-----~~CP~CR~~i~  337 (345)
T 3t6p_A          294 EERTCKVCMDKEVSVVF---IPCGHLVVCQECAPSL-----RKCPICRGIIK  337 (345)
T ss_dssp             TTCBCTTTSSSBCCEEE---ETTCCEEECTTTGGGC-----SBCTTTCCBCC
T ss_pred             CCCCCCccCCcCCceEE---cCCCChhHhHHHHhcC-----CcCCCCCCCcc
Confidence            45689999999776544   799999 999999877     57999999874

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.33  E-value=1.8e-07  Score=56.40  Aligned_cols=52  Identities=15%  Similarity=0.284  Sum_probs=42.6

Q ss_pred             ccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHh
Q 047964           77 SKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVA  132 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~  132 (168)
                      ...|+||.+.+.+|..   + ++||.|...||..|+..+ ..||..+.++..+++.+
T Consensus         3 ~~~CpIs~~~m~dPV~---~~~sG~~yer~~I~~~l~~~-~~cP~t~~~L~~~~Lip   55 (61)
T 2bay_A            3 HMLCAISGKVPRRPVL---SPKSRTIFEKSLLEQYVKDT-GNDPITNEPLSIEEIVE   55 (61)
T ss_dssp             -CCCTTTCSCCSSEEE---ETTTTEEEEHHHHHHHHHHH-SBCTTTCCBCCGGGCEE
T ss_pred             eEEecCCCCCCCCCEE---eCCCCcEEcHHHHHHHHHhC-CCCcCCcCCCChhhcEE
Confidence            3579999999998754   6 899999999999999875 56999999986655433

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

Probab=97.70  E-value=2.2e-05  Score=59.67  Aligned_cols=51  Identities=25%  Similarity=0.541  Sum_probs=40.2

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCCCc
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVLPD  128 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~~~  128 (168)
                      ....|.||.+....+...  ..|+|.||..|+..|++.+ ...||.|+..+..+
T Consensus       179 ~i~~C~iC~~iv~~g~~C--~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSC--ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSCEEC--SSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCCccc--CccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            367899999988876542  3599999999999999754 24799999987543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=94.32  E-value=0.025  Score=36.61  Aligned_cols=34  Identities=18%  Similarity=0.443  Sum_probs=25.0

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHH
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKW  110 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (168)
                      +..|+||.+.+..+....-+.|+|.||..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            4689999976433333333689999999999973

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=94.21  E-value=0.033  Score=33.54  Aligned_cols=49  Identities=22%  Similarity=0.420  Sum_probs=33.7

Q ss_pred             CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC---CCCCCCCCCcC
Q 047964           74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY---LATCPLCRTKV  125 (168)
Q Consensus        74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~---~~~CP~Cr~~~  125 (168)
                      +.....|.+|.+.   +..+.--.|...||..|+...+...   ...||.|+...
T Consensus         9 ~~~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C            9 LAPGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CCTTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            3456689999754   4433223788999999998776532   23799997654

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=93.24  E-value=0.072  Score=33.49  Aligned_cols=37  Identities=22%  Similarity=0.530  Sum_probs=24.1

Q ss_pred             CCCcccccccccccccCCcceEeeCCCCcchHHHHHHH
Q 047964           73 SPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKW  110 (168)
Q Consensus        73 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (168)
                      ....++.|.||-. +.......---|+.+||..|+.+.
T Consensus        11 ~~~~D~~C~VC~~-~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           11 PVVNDEMCDVCEV-WTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTTCC-CCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCCCcccCcccc-ccccceeccccccccccHhhcccc
Confidence            3456889999963 222332111247899999999986

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=90.87  E-value=0.58  Score=32.41  Aligned_cols=47  Identities=19%  Similarity=0.521  Sum_probs=32.7

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHH----------hCCCCCCCCCCc
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ----------EYLATCPLCRTK  124 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~----------~~~~~CP~Cr~~  124 (168)
                      ..+..|.+|.+.   +..+.--.|-..||..|+.+-+.          .....||.|+..
T Consensus        61 g~~d~C~vC~~G---G~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~  117 (142)
T 2lbm_A           61 GMDEQCRWCAEG---GNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             SCBCSCSSSCCC---SSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             CCCCeecccCCC---CcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            446789999875   44432237888999999996542          234589999754

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=86.32  E-value=0.44  Score=42.74  Aligned_cols=59  Identities=12%  Similarity=0.151  Sum_probs=47.4

Q ss_pred             CcccccccccccccCCcceEeeCCC-CcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhH
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCK-HTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQ  137 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~-H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~  137 (168)
                      -+...|||-.+.+.+|..   ++.| +.+-..+|..|+..+ .+||.=|.++....+.++....
T Consensus       889 P~~F~cPIs~~lM~DPVi---lpsG~~TydR~~I~~wl~~~-~tdP~Tr~~L~~~~liPN~~Lk  948 (968)
T 3m62_A          889 PDEFLDPLMYTIMKDPVI---LPASKMNIDRSTIKAHLLSD-STDPFNRMPLKLEDVTPNEELR  948 (968)
T ss_dssp             CGGGBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHHTTC-CBCTTTCCBCCGGGCEECHHHH
T ss_pred             cHHhCCcchhhHHhCCeE---cCCCCEEECHHHHHHHHhcC-CCCCCCCCCCCcccccccHHHH
Confidence            345689999999998876   7887 589999999999874 7899999999776666654433

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=83.85  E-value=1  Score=28.01  Aligned_cols=39  Identities=23%  Similarity=0.396  Sum_probs=29.0

Q ss_pred             CcccccccccccccCCcceEee-CCCCcchHHHHHHHHHh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQE  113 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~  113 (168)
                      .....|.+|.+.+.+...+.-. -=.|.||..|-+..++.
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            3456899999999887763211 12789999999988864

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=83.72  E-value=0.41  Score=29.13  Aligned_cols=51  Identities=20%  Similarity=0.414  Sum_probs=32.5

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh---CCCCCCCCCCcC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE---YLATCPLCRTKV  125 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---~~~~CP~Cr~~~  125 (168)
                      .+...|.+|.........+.--.|...||..|+..-...   ....||.|+..+
T Consensus        16 ~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~   69 (75)
T 2k16_A           16 NQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKI   69 (75)
T ss_dssp             CEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHH
T ss_pred             CCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCch
Confidence            345679999876543233222368888999998754332   234699996544

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=82.87  E-value=1.5  Score=29.82  Aligned_cols=47  Identities=19%  Similarity=0.540  Sum_probs=30.9

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHH----------HhCCCCCCCCCCc
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWL----------QEYLATCPLCRTK  124 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~----------~~~~~~CP~Cr~~  124 (168)
                      ..+..|.+|-+.   +..+---.|-..||..|+.+-+          ......|+.|+..
T Consensus        55 g~~~~C~vC~dG---G~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~~  111 (129)
T 3ql9_A           55 GMDEQCRWCAEG---GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHPE  111 (129)
T ss_dssp             SCBSSCTTTCCC---SEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCCG
T ss_pred             CCCCcCeecCCC---CeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCCH
Confidence            345679999864   3332112678899999999752          1234589999653

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=81.77  E-value=0.38  Score=34.75  Aligned_cols=51  Identities=22%  Similarity=0.475  Sum_probs=34.4

Q ss_pred             ccccccccccccCCc----ceEeeCCCCcchHHHHHH------HHH----hCCCCCCCCCCcCCC
Q 047964           77 SKDCAVCLSDFEDGE----MVRKLNCKHTFHRDCLDK------WLQ----EYLATCPLCRTKVLP  127 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~----~~~~~~C~H~f~~~Ci~~------w~~----~~~~~CP~Cr~~~~~  127 (168)
                      +..|+||...+..+.    .+.--.|...||..|..-      -+.    .....||.|+..-.+
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~~   66 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHPA   66 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSSC
T ss_pred             cCcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCCH
Confidence            356999999888765    332236889999999642      111    014689999987544

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=81.49  E-value=0.53  Score=26.30  Aligned_cols=45  Identities=33%  Similarity=0.620  Sum_probs=27.7

Q ss_pred             ccccccccccCCcceEeeCCCCcchHHHHHHHHHh---CCCCCCCCCC
Q 047964           79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE---YLATCPLCRT  123 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---~~~~CP~Cr~  123 (168)
                      .|.+|...-..+..+.--.|...||..|+.+=+..   +...||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            47888765333333222368889999999653332   2236999965

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=80.49  E-value=0.24  Score=36.34  Aligned_cols=48  Identities=27%  Similarity=0.498  Sum_probs=31.9

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh---CCCCCCCCCCcC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE---YLATCPLCRTKV  125 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---~~~~CP~Cr~~~  125 (168)
                      ..+..|.+|...   +..+.--.|...||..|+.+-+..   +...||.|+..-
T Consensus         5 ~~~~~C~~C~~~---g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            5 PNEDWCAVCQNG---GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SSCSSBTTTCCC---EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCC---CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            346789999854   333222268889999998765532   234799998754

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=80.31  E-value=0.52  Score=27.56  Aligned_cols=47  Identities=28%  Similarity=0.653  Sum_probs=30.7

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh---CCCCCCCCCCc
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE---YLATCPLCRTK  124 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---~~~~CP~Cr~~  124 (168)
                      ..+..|.+|...   +..+.--.|...||..|+..-+..   ....||.|+..
T Consensus         9 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            346789999863   333222368889999999864432   22369999653

---

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	168
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	5e-17
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-14
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	8e-13
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	7e-11
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-10
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	6e-10
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-09
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	6e-09
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	7e-09
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	6e-08
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	1e-05
d1we9a_	64	g.50.1.2 (A:) PHD finger protein At5g26210 {Thale	6e-04
d1mm2a_	61	g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens	9e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.001
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 68.7 bits (168), Expect = 5e-17
 Identities = 26/52 (50%), Positives = 35/52 (67%), Gaps = 2/52 (3%)

Query: 76  ESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126
           +  +CAVCL++ EDGE  R L  C H FH +C+D WL  + +TCPLCR  V+
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTVV 54

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.9 bits (150), Expect = 3e-14
 Identities = 16/75 (21%), Positives = 32/75 (42%), Gaps = 3/75 (4%)

Query: 57  EKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA 116
           + +  ++ ++  L  +  S  + C +C  + +D   V+   C H     CL  W +    
Sbjct: 3   QDHIKVTQEQYELYCEMGSTFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQ 59

Query: 117 TCPLCRTKVLPDEIV 131
            CP CR ++   E +
Sbjct: 60  GCPFCRCEIKGTEPI 74

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 58.0 bits (140), Expect = 8e-13
 Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)

Query: 75  SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
           + ++ C +CL D  +      L C H F   C+ +W+++   TCPLC+  V
Sbjct: 3   TVAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQN-PTCPLCKVPV 50

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.0 bits (129), Expect = 2e-11
 Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 1/51 (1%)

Query: 79  DCAVCLSDFEDGEMVRK-LNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128
           +C +C+   E  ++      C +   R C  +   +    CP CR     D
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.2 bits (127), Expect = 7e-11
 Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 2/52 (3%)

Query: 76  ESKDCAVCLSDFEDGEMVRKL--NCKHTFHRDCLDKWLQEYLATCPLCRTKV 125
           + + C  C +       ++ +   C HT    C+D         CP C T +
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 52.2 bits (125), Expect = 1e-10
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 7/50 (14%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE 129
           C  C ++ +     + L C HT    CL+         CP+C+       
Sbjct: 9   CQQCQAEAKC---PKLLPCLHTLCSGCLEASGM----QCPICQAPWPLGA 51

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.2 bits (122), Expect = 6e-10
 Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 19/81 (23%)

Query: 75  SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-------TCPLCRTK--- 124
           S S  C +CL ++   +M     C+  F   CL ++++  +        +CP        
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQG 62

Query: 125 ---------VLPDEIVAKYQH 136
                    ++  EI+ +Y+ 
Sbjct: 63  HLQENEIECMVAAEIMQRYKK 83

>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 = 49.3 bits (117), Expect = 4e-09
 Identities = 15/67 (22%), Positives = 29/67 (43%), Gaps = 5/67 (7%)

Query: 79  DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY--LATCPLCRTKVLPDEIVAKYQH 136
           +C +CL   ++        C H F + C+ K L +    + CPLC+  +    +    + 
Sbjct: 23  ECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRF 79

Query: 137 QQNLQNL 143
            Q ++ L
Sbjct: 80  SQLVEEL 86

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.6 bits (115), Expect = 6e-09
 Identities = 15/64 (23%), Positives = 23/64 (35%), Gaps = 16/64 (25%)

Query: 76  ESKDCAVCLSDFEDGEM---------------VRKLNCKHTFHRDCLDKWLQEYLATCPL 120
              +CA+C +   D  +               V    C H FH  C+ +WL+     CPL
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPL 78

Query: 121 CRTK 124
              +
Sbjct: 79  DNRE 82

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.9 bits (115), Expect = 7e-09
 Identities = 14/79 (17%), Positives = 23/79 (29%), Gaps = 19/79 (24%)

Query: 66  KSMLMKKSPSESKDCAVCLSDF---------------EDGEMVRKLNCKHTFHRDCLDKW 110
           +    +   +  +DC +C+                      + R   C H FH  CL   
Sbjct: 14  RKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAM 73

Query: 111 LQ----EYLATCPLCRTKV 125
                 +    CP C+T  
Sbjct: 74  YCNGNKDGSLQCPSCKTIY 92

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.0 bits (114), Expect = 1e-08
 Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 3/52 (5%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
           C +C     D       +CKH F R C+ + L+   + CP CR    P ++ 
Sbjct: 26  CQICEHILADPVE---TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE 74

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 45.2 bits (106), Expect = 6e-08
 Identities = 10/52 (19%), Positives = 15/52 (28%), Gaps = 3/52 (5%)

Query: 76  ESKDCAVCLSDFEDGE--MVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTK 124
           +   C +C  +  +               HR CL  WL       C +C   
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (93), Expect = 1e-05
 Identities = 10/56 (17%), Positives = 22/56 (39%), Gaps = 5/56 (8%)

Query: 76  ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
           +   C+ C +   +   +    C+H F  +C+   +      CP+C T     ++ 
Sbjct: 21  KLLRCSRCTNILREPVCL--GGCEHIFCSNCVSDCIGT---GCPVCYTPAWIQDLK 71

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

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]

 Score = 34.6 bits (79), Expect = 6e-04
 Identities = 14/57 (24%), Positives = 17/57 (29%), Gaps = 5/57 (8%)

Query: 73  SPSESKDCAVC-LSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLAT----CPLCRTK 124
           S   S  C  C  S   D   +    C+  FH  C+              CP C  K
Sbjct: 2   SSGSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK 58

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]} Length = 61

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.8 bits (77), Expect = 9e-04
 Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 6/51 (11%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA---TCPLCRTKVLP 127
           C VC    + GE++    C  ++H  CL+  L E       CP C    L 
Sbjct: 12  CRVC---KDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPALK 59

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 33.6 bits (76), Expect = 0.001
 Identities = 8/52 (15%), Positives = 21/52 (40%), Gaps = 3/52 (5%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
           CA+         +      +  F +  L++++++     P+    +  +EIV
Sbjct: 3   CAISGKVPRRPVLSP--KSRTIFEKSLLEQYVKDT-GNDPITNEPLSIEEIV 51

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

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]

 Score = 33.5 bits (76), Expect = 0.002
 Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 3/52 (5%)

Query: 80  CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131
           C + L   +D  +   ++   T+ R  + KWL     TCP  +  +L   + 
Sbjct: 11  CPISLELMKDPVI---VSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLT 59

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	168
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.61
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.5
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.47
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.47
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.46
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.39
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.37
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.35
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.32
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.31
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.25
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.24
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.17
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.13
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.12
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.89
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.53
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	92.36
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	91.06
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	88.5
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	84.93
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	83.49

>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=99.61  E-value=1.1e-16  Score=94.15  Aligned_cols=51  Identities=51%  Similarity=1.140  Sum_probs=43.9

Q ss_pred             CcccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      +++.+|+||++++..+..+..+ +|+|.||..|+.+|++.+ .+||+||+++.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~-~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC-CSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhC-CcCCCCCCEeE
Confidence            4567899999999988777665 699999999999999874 78999999863

>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=99.50  E-value=3.4e-15  Score=86.64  Aligned_cols=49  Identities=20%  Similarity=0.505  Sum_probs=40.4

Q ss_pred             ccccccccccCCcce-EeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           79 DCAVCLSDFEDGEMV-RKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      +|+||++++..+... ..++|||.||..|+..|++.....||+||+++..
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            799999998765443 3358999999999999998655679999999854

>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=99.47  E-value=8.9e-15  Score=89.50  Aligned_cols=48  Identities=33%  Similarity=0.861  Sum_probs=40.8

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      ..+.|+||++.+.++.  +.++|||.||..|+.+|++.+ .+||+||+++.
T Consensus         4 ~~d~C~IC~~~~~~~~--~~~~C~H~Fc~~Ci~~w~~~~-~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSNYS--MALPCLHAFCYVCITRWIRQN-PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSCE--EETTTTEEESTTHHHHHHHHS-CSTTTTCCCCC
T ss_pred             CCCCCccCCcCccCCc--EEeCCCCcCcHHHHHHHHHhC-CcCCCCCcchH
Confidence            4578999999987653  347999999999999999975 78999999874

>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=99.47  E-value=1.9e-14  Score=87.22  Aligned_cols=53  Identities=21%  Similarity=0.436  Sum_probs=41.4

Q ss_pred             cccccccccccccCC--cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           76 ESKDCAVCLSDFEDG--EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~--~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      ++..|+||++.+..+  ..+..++|||.||..|+..|+......||.||..+...
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            357899999976433  23344699999999999999976656899999988543

>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=99.46  E-value=2.2e-14  Score=90.21  Aligned_cols=49  Identities=24%  Similarity=0.611  Sum_probs=41.0

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP  127 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~  127 (168)
                      +...|+||++.+..+.   .++|||.||..|+..|+..+...||+||..+..
T Consensus        22 ~~~~C~IC~~~~~~~~---~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          22 TFQLCKICAENDKDVK---IEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             CTTBCTTTSSSBCCEE---CSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCCCccCCCcCCCeE---EeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            3457999999877643   489999999999999998655789999999854

>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=99.39  E-value=1.4e-13  Score=88.19  Aligned_cols=50  Identities=30%  Similarity=0.639  Sum_probs=40.5

Q ss_pred             cccccccccccccCCc---------------ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964           76 ESKDCAVCLSDFEDGE---------------MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL  126 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~---------------~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~  126 (168)
                      .++.|+||++.+..+.               .+..++|||.||..||.+|++.+ .+||+||+++.
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC-SBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHC-CcCCCCCCccc
Confidence            4567999998876432               24457999999999999999975 78999999874

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=9e-14  Score=88.53  Aligned_cols=52  Identities=31%  Similarity=0.645  Sum_probs=43.7

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHH
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV  131 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~  131 (168)
                      ...|+||++.+.++..   ++|||.||..|+..|++.+...||.||.++.+.++.
T Consensus        23 ~l~C~IC~~~~~~pv~---~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          23 SISCQICEHILADPVE---TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HTBCTTTCSBCSSEEE---CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             CcCCccCCcchhccee---cCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            4589999999887654   899999999999999986656899999998665543

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=2.7e-14  Score=94.21  Aligned_cols=55  Identities=24%  Similarity=0.614  Sum_probs=45.0

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCC--CCCCCCCCcCCCchHHhhH
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYL--ATCPLCRTKVLPDEIVAKY  134 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~--~~CP~Cr~~~~~~~~~~~~  134 (168)
                      ...|+||++.+..|..   ++|||.||..|+..|+....  ..||.||.++...++..+.
T Consensus        21 ~l~CpIC~~~~~~pv~---~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~   77 (103)
T d1jm7a_          21 ILECPICLELIKEPVS---TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQEST   77 (103)
T ss_dssp             HTSCSSSCCCCSSCCB---CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCC
T ss_pred             CcCCCccCchhCCeEE---cCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCH
Confidence            4579999999988865   79999999999999997542  3799999998766655443

>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=99.32  E-value=6.6e-13  Score=88.90  Aligned_cols=53  Identities=26%  Similarity=0.529  Sum_probs=40.7

Q ss_pred             cccccccccccccCC---------------cceEeeCCCCcchHHHHHHHHHhCC----CCCCCCCCcCCCc
Q 047964           76 ESKDCAVCLSDFEDG---------------EMVRKLNCKHTFHRDCLDKWLQEYL----ATCPLCRTKVLPD  128 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~---------------~~~~~~~C~H~f~~~Ci~~w~~~~~----~~CP~Cr~~~~~~  128 (168)
                      .++.|+||++.+..+               ..+..++|+|.||..||..|+....    ..||+||+.+..+
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            356899999988543               2345579999999999999998532    3699999987443

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.31  E-value=5.3e-13  Score=83.93  Aligned_cols=65  Identities=9%  Similarity=0.184  Sum_probs=54.0

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhh
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNL  143 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~  143 (168)
                      ++..|+||++.+.+|..   ++|||.||..||..|+..+...||.||.++...++.++......+++.
T Consensus         6 ~~l~CpIc~~l~~dPv~---~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~I~~~   70 (80)
T d2c2la2           6 DYLCGKISFELMREPCI---TPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAF   70 (80)
T ss_dssp             STTBCTTTCSBCSSEEE---CSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHH
T ss_pred             ccccCcCcCchhhhhcc---cCCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHHHHHH
Confidence            46789999999998865   899999999999999987667899999999877777766666555553

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.25  E-value=1.2e-12  Score=81.93  Aligned_cols=64  Identities=22%  Similarity=0.469  Sum_probs=51.7

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhh
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQ  141 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~  141 (168)
                      .++..|+||++.+.+|..   ++|||.||..|+..|+..+...||.|+.++..+.+.++......++
T Consensus         6 P~~l~CpIc~~~m~dPV~---~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~~~I~   69 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPVI---VSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIA   69 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEE---ETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHH
T ss_pred             CccCCCcCcCchhhCceE---ccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHHHHHH
Confidence            456899999999998865   7999999999999999876567999999998776666554444443

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.24  E-value=1e-12  Score=77.06  Aligned_cols=48  Identities=15%  Similarity=0.295  Sum_probs=41.1

Q ss_pred             ccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964           79 DCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI  130 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~  130 (168)
                      .|+||++.+.+|..   + .|||.||..||.+|++++ ..||.||.++..+++
T Consensus         2 ~C~Ic~~~~~~Pv~---~~~cGh~fc~~cI~~~l~~~-~~CP~c~~~l~~~dL   50 (56)
T d2baya1           2 LCAISGKVPRRPVL---SPKSRTIFEKSLLEQYVKDT-GNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCTTTCSCCSSEEE---ETTTTEEEEHHHHHHHHHHH-SBCTTTCCBCCGGGC
T ss_pred             CCccCCchHHhcCc---cCCCCCcccHHHHHHHHhhc-cCCCccCCcCCHHhc
Confidence            59999999887754   5 699999999999999976 689999999866554

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=1.5e-12  Score=76.20  Aligned_cols=46  Identities=24%  Similarity=0.558  Sum_probs=38.4

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD  128 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~  128 (168)
                      +...|+||++.+.++..   ++|||.||..|+..|    ...||+||+++...
T Consensus         5 ~~l~C~IC~~~~~~p~~---lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKL---LPCLHTLCSGCLEAS----GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCCSC---STTSCCSBTTTCSSS----SSSCSSCCSSSSCC
T ss_pred             CCCCCcccCcccCCCEE---ecCCCHHhHHHHHcC----CCcCcCCCCcccCC
Confidence            34689999999988765   799999999999764    46899999998543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.13  E-value=2.6e-11  Score=71.85  Aligned_cols=49  Identities=22%  Similarity=0.621  Sum_probs=38.4

Q ss_pred             CcccccccccccccCCcceEeeCC-----CCcchHHHHHHHHHh-CCCCCCCCCCcCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNC-----KHTFHRDCLDKWLQE-YLATCPLCRTKVL  126 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C-----~H~f~~~Ci~~w~~~-~~~~CP~Cr~~~~  126 (168)
                      ++...|+||++.+..+..   .+|     +|.||..|+..|+.. +..+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~~~---~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERF---RACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCC---CSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCcee---EecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            456789999998775543   344     599999999999964 3457999999874

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=2.9e-12  Score=83.34  Aligned_cols=58  Identities=19%  Similarity=0.462  Sum_probs=44.8

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhh
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQN  139 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~  139 (168)
                      ...|+||++.+..|..  .++|||.||..|+..|+.   ..||.||.++...++..+......
T Consensus        22 ~l~C~IC~~~~~~pv~--~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~~~l~~n~~l~~l   79 (97)
T d1jm7b_          22 LLRCSRCTNILREPVC--LGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQDLKINRQLDSM   79 (97)
T ss_dssp             TTSCSSSCSCCSSCBC--CCSSSCCBCTTTGGGGTT---TBCSSSCCBCSCSSCCCCHHHHHH
T ss_pred             cCCCccCCchhhcCce--eCCCCCchhHHHHHHHHh---ccccccCCcCchhhCcccHHHHHH
Confidence            4689999999998865  248999999999999984   359999998876555554444433

>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=98.89  E-value=4.7e-10  Score=72.76  Aligned_cols=65  Identities=17%  Similarity=0.146  Sum_probs=52.2

Q ss_pred             cccccccccccccCCcceEeeCCC-CcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhhh
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCK-HTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLD  144 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~-H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      ++..||||.+.+.+|..   ++|+ |.|+..||..|+..+ ..||.||.++..+.+.++......+++..
T Consensus        21 ~~f~CPI~~~lm~dPV~---~~~~~~ty~r~~I~~~l~~~-~~~P~~~~~l~~~~L~pN~~Lr~~I~~~~   86 (98)
T d1wgma_          21 DEFLDPIMSTLMCDPVV---LPSSRVTVDRSTIARHLLSD-QTDPFNRSPLTMDQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             TTTBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHTTTS-CBCTTTCSBCCTTTSEECHHHHHHHHHHH
T ss_pred             HHhCCcCchhHHHHHHh---cccccchhhHHHHHHHHHhc-CCcccccccccchhhcchHHHHHHHHHHH
Confidence            46799999999999875   6765 579999999999864 78999999998877777766665554443

>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=98.53  E-value=1e-08  Score=65.62  Aligned_cols=49  Identities=27%  Similarity=0.642  Sum_probs=37.7

Q ss_pred             CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC----CC---CCCCCCC
Q 047964           75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY----LA---TCPLCRT  123 (168)
Q Consensus        75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~---~CP~Cr~  123 (168)
                      .+...|+||++++.....+..++|+|.||..|+..|++..    ..   .||.|.-
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            3467899999998766666656899999999999999632    11   4998643

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.36  E-value=0.048  Score=32.58  Aligned_cols=38  Identities=21%  Similarity=0.537  Sum_probs=26.0

Q ss_pred             CCCCcccccccccccccCCcceEeeCCCCcchHHHHHHH
Q 047964           72 KSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKW  110 (168)
Q Consensus        72 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (168)
                      +....|..|.|| +.+.......---|+.+||..|+.+.
T Consensus        10 e~v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          10 EPVVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             cCCCcCcccccc-CcccccceecceeecchhhHHHHHHh
Confidence            344568899999 55555444111136889999999986

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.06  E-value=0.036  Score=29.97  Aligned_cols=45  Identities=33%  Similarity=0.641  Sum_probs=29.0

Q ss_pred             ccccccccccCCcceEeeCCCCcchHHHHHHHHHhC---CCCCCCCCC
Q 047964           79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY---LATCPLCRT  123 (168)
Q Consensus        79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~---~~~CP~Cr~  123 (168)
                      .|.||...-.....+.--.|...||..|+..-+...   ...||.||.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            478887654333332222789999999998765421   236999975

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.50  E-value=0.13  Score=28.60  Aligned_cols=44  Identities=25%  Similarity=0.573  Sum_probs=30.4

Q ss_pred             ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCC
Q 047964           77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLC  121 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~C  121 (168)
                      ...|--|...+.+.....-..|++.||.+|=.- .......||-|
T Consensus        15 ~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~f-iHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVF-VHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTSEEECCTTTTCCBCHHHHHT-TTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCCceEECcCCCCccccccchh-hhhhhcCCCCC
Confidence            467989988876554433347999999999532 23334579988

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.93  E-value=0.37  Score=27.70  Aligned_cols=37  Identities=22%  Similarity=0.405  Sum_probs=28.0

Q ss_pred             ccccccccccccCCcceEee-CCCCcchHHHHHHHHHh
Q 047964           77 SKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQE  113 (168)
Q Consensus        77 ~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~  113 (168)
                      ...|.+|.+.+.+...+.-. -=+|.||..|.+..++.
T Consensus         8 ~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            46899999999887763211 12799999999988864

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.49  E-value=0.063  Score=30.13  Aligned_cols=47  Identities=30%  Similarity=0.586  Sum_probs=30.3

Q ss_pred             cccccccccccccCCcceEeeCCCCcchHHHHHHHHHh---CCCCCCCCCCcC
Q 047964           76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE---YLATCPLCRTKV  125 (168)
Q Consensus        76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---~~~~CP~Cr~~~  125 (168)
                      .++.|.+|.+.   +..+.--.|...||..|+...+..   ....||.|+..-
T Consensus         8 ~~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           8 HMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CcCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            34579999753   333222268889999998754432   223699997653