Citrus Sinensis ID: 037450

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220----
Protein Sequence
MSNCELKLRQDNTILNKVRNQLWDLPNMQPGFIFQLRAHHVINQRATSAKPDTFLYLQADHTLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS
Secondary Structure (PSIPRED)
cccccEEEcccHHHHHHHHHccccccccccccEEEEccccccccccccccccHHHHHccccccHHccccHHHHHHHcccccccccccccccccccccEEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHcccccHHHHHccccEEEccccccEEEccccccccEEEEccccccccHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEccccHHHHHHHHHHcccccccccHHHEHEHHEHEEccccccccccEEEEEccccEEEEHHHHHHHHHHHHHccccEEEcccEEEccccEEEEEEEcccccEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccEEEEcccccccccccEEEEcccccccEEEEEccccEEcHHcccHHHHHcccccccccccccc
Coil and Loop (DISEMBL)
MSNCELKLRQDNTILNKVRNQlwdlpnmqpgfifQLRAHHVInqratsakpdtflylQADHTLFVTYNNMFHFLSNILadegvtvdangcflsdkglhllrldasggmpimfpqsVRIYTLTKLVVCVLDYFKrlrtnpsnrfrkfVPIAMDLRMAINnksnvtrlpekriesekdcaicldgivvgqlasctpcdhvfHKRCIDFWLeksrscplcrndlpas
Flexible Loop (DISEMBL)
MSNCELKLRQDNTILNKVRNQLWDLPNMQPGFIFQLRAHHVINQRATSAKPDTFLYLQADHTLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYfkrlrtnpsnrfrkfvPIAMDLRMAinnksnvtrlpekriESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWleksrscplcrndlpas
Low Complexity Region (SEG)
MSNCELKLRQDNTILNKVRNQLWDLPNMQPGFIFQLRAHHVINQRATSAKPDTFLYLQADHTLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS
Disordered region (IsUnstruct)
**********DNTILNKVRNQLWDLPNMQPGFIFQLRAHHVINQRATSAKPDTFLYLQADHTLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVTRL***RIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLC*******
Disordered Region (DISOPRED)
******K*RQDNTILNKVRNQLWDLPNMQPGFIFQ*******************************************************FLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRL***********************************IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA*
Disordered Region (DISEMBL)
MSNCELKLRQDNTILNKVRNQLWDLPNMQPGFIFQLRAHHVINQRATSAKPDTFLYLQADHTLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS
Disordered Region (DISPRO)
*SNCELKLRQDNTILNKVRNQLWDLPNMQPGFIFQLRAHHVINQRATSAKPDTFLYLQADHTLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSNCELKLRQDNTILNKVRNQLWDLPNMQPGFIFQLRAHHVINQRATSAKPDTFLYLQADHTLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS
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	224	2.2.26 [Sep-21-2011]
Q4KLR8	784	E3 ubiquitin-protein liga	N/A	no	0.218	0.062	0.469	7e-09
Q63364	707	E3 ubiquitin-protein liga	yes	no	0.339	0.107	0.341	9e-09
Q5R4R1	708	E3 ubiquitin-protein liga	yes	no	0.339	0.107	0.341	9e-09
O43164	708	E3 ubiquitin-protein liga	yes	no	0.339	0.107	0.341	9e-09
Q9C919	178	Putative RING-H2 finger p	no	no	0.25	0.314	0.5	9e-09
Q80U04	707	E3 ubiquitin-protein liga	yes	no	0.339	0.107	0.341	9e-09
Q4V7B8	350	RING finger protein 44 OS	no	no	0.276	0.177	0.382	2e-08
Q8RXD3	310	E3 ubiquitin-protein liga	no	no	0.241	0.174	0.407	2e-08
Q3UHJ8	407	RING finger protein 44 OS	no	no	0.276	0.152	0.382	2e-08
Q5SSZ7	913	E3 ubiquitin-protein liga	no	no	0.218	0.053	0.428	2e-08

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

 Score = 60.8 bits (146), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 23/49 (46%), Positives = 33/49 (67%)

Query: 173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           S  DCAICL+  + G+     PC H FHKRC+D WL ++ +CP CR+++
Sbjct: 198 SISDCAICLEKYIDGEELRVIPCTHRFHKRCVDPWLLQNHTCPHCRHNI 246

E3 ubiquitin-protein ligase that acts as a negative regulator of the Wnt signaling pathway by mediating the ubiquitination and subsequent degradation of Wnt receptor complex components.
Xenopus laevis (taxid: 8355)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q63364|PJA2_RAT E3 ubiquitin-protein ligase Praja-2 OS=Rattus norvegicus GN=Pja2 PE=2 SV=1

 Score = 60.5 bits (145), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 9/85 (10%)

Query: 149 IAMDLRMA--INNKSNVTRLPEK-------RIESEKDCAICLDGIVVGQLASCTPCDHVF 199
           +A+D+ +A    +K ++  LPE         I  E+ C IC    +   +A+  PC H F
Sbjct: 596 LAVDVEVANPPASKESIDGLPETLVLEDHTAIGQEQCCPICCSEYIKDDIATELPCHHFF 655

Query: 200 HKRCIDFWLEKSRSCPLCRNDLPAS 224
           HK C+  WL+KS +CP+CR   P +
Sbjct: 656 HKPCVSIWLQKSGTCPVCRRHFPPA 680

Has E2-dependent E3 ubiquitin-protein ligase activity. Responsible for ubiquitination of cAMP-dependent protein kinase type I and type II-alpha/beta regulatory subunits and for targeting them for proteasomal degradation. Essential for PKA-mediated long-term memory processes.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5R4R1|PJA2_PONAB E3 ubiquitin-protein ligase Praja-2 OS=Pongo abelii GN=PJA2 PE=2 SV=1

 Score = 60.5 bits (145), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 9/85 (10%)

Query: 149 IAMDLRMA--INNKSNVTRLPEK-------RIESEKDCAICLDGIVVGQLASCTPCDHVF 199
           +A+D+ +A    +K ++  LPE         I  E+ C IC    +   +A+  PC H F
Sbjct: 597 LAVDVEVANPPASKESIDGLPETLVLEDHTAIGQEQCCPICCSEYIKDDIATELPCHHFF 656

Query: 200 HKRCIDFWLEKSRSCPLCRNDLPAS 224
           HK C+  WL+KS +CP+CR   P +
Sbjct: 657 HKPCVSIWLQKSGTCPVCRRHFPPA 681

Has E2-dependent E3 ubiquitin-protein ligase activity. Responsible for ubiquitination of cAMP-dependent protein kinase type I and type II-alpha/beta regulatory subunits and for targeting them for proteasomal degradation. Essential for PKA-mediated long-term memory processes.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O43164|PJA2_HUMAN E3 ubiquitin-protein ligase Praja-2 OS=Homo sapiens GN=PJA2 PE=1 SV=4

 Score = 60.5 bits (145), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 9/85 (10%)

Query: 149 IAMDLRMA--INNKSNVTRLPEK-------RIESEKDCAICLDGIVVGQLASCTPCDHVF 199
           +A+D+ +A    +K ++  LPE         I  E+ C IC    +   +A+  PC H F
Sbjct: 597 LAVDVEVANPPASKESIDGLPETLVLEDHTAIGQEQCCPICCSEYIKDDIATELPCHHFF 656

Query: 200 HKRCIDFWLEKSRSCPLCRNDLPAS 224
           HK C+  WL+KS +CP+CR   P +
Sbjct: 657 HKPCVSIWLQKSGTCPVCRRHFPPA 681

Has E2-dependent E3 ubiquitin-protein ligase activity. Responsible for ubiquitination of cAMP-dependent protein kinase type I and type II-alpha/beta regulatory subunits and for targeting them for proteasomal degradation. Essential for PKA-mediated long-term memory processes.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C919|ATL19_ARATH Putative RING-H2 finger protein ATL19 OS=Arabidopsis thaliana GN=ATL19 PE=3 SV=1

 Score = 60.5 bits (145), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 29/58 (50%), Positives = 37/58 (63%), Gaps = 2/58 (3%)

Query: 168 EKRIESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
           EK +ES ++CAICL G VV +     P C H++H  CID WL+   +CP CR DLP S
Sbjct: 122 EKSLES-RECAICLSGYVVNEECRVFPVCRHIYHALCIDAWLKNHLTCPTCRKDLPES 178

Arabidopsis thaliana (taxid: 3702)

>sp|Q80U04|PJA2_MOUSE E3 ubiquitin-protein ligase Praja-2 OS=Mus musculus GN=Pja2 PE=1 SV=2

 Score = 60.5 bits (145), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 9/85 (10%)

Query: 149 IAMDLRMA--INNKSNVTRLPEK-------RIESEKDCAICLDGIVVGQLASCTPCDHVF 199
           +A+D+ +A    +K ++  LPE         I  E+ C IC    +   +A+  PC H F
Sbjct: 596 LAVDVEVANPPASKESIDGLPETLVLEDHTAIGQEQCCPICCSEYIKDDIATELPCHHFF 655

Query: 200 HKRCIDFWLEKSRSCPLCRNDLPAS 224
           HK C+  WL+KS +CP+CR   P +
Sbjct: 656 HKPCVSIWLQKSGTCPVCRRHFPPA 680

Has E2-dependent E3 ubiquitin-protein ligase activity. Responsible for ubiquitination of cAMP-dependent protein kinase type I and type II-alpha/beta regulatory subunits and for targeting them for proteasomal degradation. Essential for PKA-mediated long-term memory processes.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q4V7B8|RNF44_RAT RING finger protein 44 OS=Rattus norvegicus GN=Rnf44 PE=2 SV=1

 Score = 59.7 bits (143), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 40/68 (58%), Gaps = 6/68 (8%)

Query: 159 NKSNVTRLPEKRI-----ESEKD-CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR 212
            K+++ +LP  R      +SE+  C +C     V QL    PC+H FH +C+D WL+ +R
Sbjct: 274 TKADIEQLPSYRFNPDSHQSEQTLCVVCFSDFEVRQLLRVLPCNHEFHAKCVDKWLKANR 333

Query: 213 SCPLCRND 220
           +CP+CR D
Sbjct: 334 TCPICRAD 341

Rattus norvegicus (taxid: 10116)

>sp|Q8RXD3|AIP2_ARATH E3 ubiquitin-protein ligase AIP2 OS=Arabidopsis thaliana GN=AIP2 PE=1 SV=1

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 34/54 (62%)

Query: 169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP 222
           K+  +E +C IC + +V+G      PC H FH  C+  WL++  SCP+CR++LP
Sbjct: 222 KKFGAEAECCICKENLVIGDKMQELPCKHTFHPPCLKPWLDEHNSCPICRHELP 275

E3 ubiquitin-protein ligase that acts as a negative regulator of abscisic acid (ABA) signaling. Mediates ubiquitination and subsequent proteasomal degradation of the transcription factor ABI3.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q3UHJ8|RNF44_MOUSE RING finger protein 44 OS=Mus musculus GN=Rnf44 PE=2 SV=1

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 40/68 (58%), Gaps = 6/68 (8%)

Query: 159 NKSNVTRLPEKRI-----ESEKD-CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR 212
            K+++ +LP  R      +SE+  C +C     V QL    PC+H FH +C+D WL+ +R
Sbjct: 331 TKADIEQLPSYRFNPDSHQSEQTLCVVCFSDFEVRQLLRVLPCNHEFHAKCVDKWLKANR 390

Query: 213 SCPLCRND 220
           +CP+CR D
Sbjct: 391 TCPICRAD 398

Mus musculus (taxid: 10090)

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

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/49 (42%), Positives = 32/49 (65%)

Query: 173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           S  DCAICL+  + G+     PC H FH++C+D WL +  +CP CR+++
Sbjct: 286 STSDCAICLEKYIDGEELRVIPCTHRFHRKCVDPWLLQHHTCPHCRHNI 334

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	224
332017271	146	E3 ubiquitin-protein ligase rnf181 [Acro	0.290	0.445	0.507	1e-10
297835334	494	hypothetical protein ARALYDRAFT_342455 [	0.290	0.131	0.523	2e-09
307175837	146	RING finger protein 181 [Camponotus flor	0.290	0.445	0.492	4e-09
341891898	481	hypothetical protein CAEBREN_19991 [Caen	0.455	0.212	0.333	9e-09
308477284	483	hypothetical protein CRE_16154 [Caenorha	0.455	0.211	0.333	1e-08
17553878	473	Protein H10E21.5 [Caenorhabditis elegans	0.455	0.215	0.333	1e-08
449478392	196	PREDICTED: E3 ubiquitin-protein ligase R	0.285	0.326	0.437	1e-08
170592343	519	Goliath protein [Brugia malayi] gi|15859	0.276	0.119	0.402	1e-08
268575936	473	Hypothetical protein CBG15229 [Caenorhab	0.455	0.215	0.342	1e-08
449435338	207	PREDICTED: E3 ubiquitin-protein ligase R	0.285	0.309	0.437	1e-08

>gi|332017271|gb|EGI58040.1| E3 ubiquitin-protein ligase rnf181 [Acromyrmex echinatior]

 Score = 72.4 bits (176), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/67 (50%), Positives = 42/67 (62%), Gaps = 2/67 (2%)

Query: 159 NKSNVTRLPEKRIESE--KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPL 216
           +K+ V  LPE +IES   K C +CL    +G  A   PC HVFH+ CI  WLEK+ SCPL
Sbjct: 49  SKNAVANLPEIKIESNENKQCPVCLKEFEIGNKAKSMPCQHVFHQECIIPWLEKTNSCPL 108

Query: 217 CRNDLPA 223
           CR +LP 
Sbjct: 109 CRYELPT 115

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|297835334|ref|XP_002885549.1| hypothetical protein ARALYDRAFT_342455 [Arabidopsis lyrata subsp. lyrata] gi|297331389|gb|EFH61808.1| hypothetical protein ARALYDRAFT_342455 [Arabidopsis lyrata subsp. lyrata]

 Score = 68.9 bits (167), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 34/65 (52%), Positives = 39/65 (60%)

Query: 159 NKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
           ++S V RL    IE +  C ICLD + VG  AS  PC H FHK CI  WL+ S  CPLCR
Sbjct: 426 SESAVRRLKITWIEEKIGCTICLDELAVGAEASTLPCRHHFHKGCIVEWLKSSHFCPLCR 485

Query: 219 NDLPA 223
             LPA
Sbjct: 486 FALPA 490

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307175837|gb|EFN65652.1| RING finger protein 181 [Camponotus floridanus]

 Score = 67.4 bits (163), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 33/67 (49%), Positives = 40/67 (59%), Gaps = 2/67 (2%)

Query: 159 NKSNVTRLPEKRIE--SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPL 216
           +K+ V  LPE +IE    K C +CL    V   A   PC HVFH+ CI  WLEK+ SCPL
Sbjct: 49  SKNAVETLPEIKIEPSETKQCPVCLKEFEVNDKAKSMPCHHVFHQECILPWLEKTNSCPL 108

Query: 217 CRNDLPA 223
           CR +LP 
Sbjct: 109 CRYELPT 115

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|341891898|gb|EGT47833.1| hypothetical protein CAEBREN_19991 [Caenorhabditis brenneri]

 Score = 66.2 bits (160), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 35/105 (33%), Positives = 55/105 (52%), Gaps = 3/105 (2%)

Query: 118 IYTLTKLVVCVLDYFKRLR-TNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKD 176
           I  +  L   V  Y +R R  +  +R ++ +  A   R A+     +T  P    E + D
Sbjct: 171 ILMVISLAWLVFYYVQRFRYAHAKDRLQRRLFNAA--RKALTRIPTMTITPAMTQELQSD 228

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           CA+CLD   +  +    PC H++HK CID WL + R+CP+C+ND+
Sbjct: 229 CAVCLDPYQLQDVIRLLPCKHIYHKSCIDPWLLEHRTCPMCKNDI 273

Source: Caenorhabditis brenneri

Species: Caenorhabditis brenneri

Genus: Caenorhabditis

Family: Rhabditidae

Order: Rhabditida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|308477284|ref|XP_003100856.1| hypothetical protein CRE_16154 [Caenorhabditis remanei] gi|308264430|gb|EFP08383.1| hypothetical protein CRE_16154 [Caenorhabditis remanei]

 Score = 66.2 bits (160), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 35/105 (33%), Positives = 55/105 (52%), Gaps = 3/105 (2%)

Query: 118 IYTLTKLVVCVLDYFKRLR-TNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKD 176
           I  +  L   V  Y +R R  +  +R ++ +  A   R A+     +T  P    E + D
Sbjct: 169 ILMVISLAWLVFYYVQRFRYAHAKDRLQRRLFNAA--RKALTRIPTMTITPGMNQELQSD 226

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           CA+CLD   +  +    PC H++HK CID WL + R+CP+C+ND+
Sbjct: 227 CAVCLDPYQLQDVIRLLPCKHIYHKSCIDPWLLEHRTCPMCKNDI 271

Source: Caenorhabditis remanei

Species: Caenorhabditis remanei

Genus: Caenorhabditis

Family: Rhabditidae

Order: Rhabditida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|17553878|ref|NP_497129.1| Protein H10E21.5 [Caenorhabditis elegans] gi|351060563|emb|CCD68273.1| Protein H10E21.5 [Caenorhabditis elegans]

 Score = 65.9 bits (159), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 35/105 (33%), Positives = 55/105 (52%), Gaps = 3/105 (2%)

Query: 118 IYTLTKLVVCVLDYFKRLR-TNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKD 176
           I  +  L   V  Y +R R  +  +R ++ +  A   R A+     +T  P    E + D
Sbjct: 169 ILMVISLAWLVFYYVQRFRYAHAKDRLQRRLFNAA--RKALTRIPTMTITPGMTQELQSD 226

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           CA+CLD   +  +    PC H++HK CID WL + R+CP+C+ND+
Sbjct: 227 CAVCLDPYQLQDVIRLLPCKHIYHKSCIDPWLLEHRTCPMCKNDI 271

Source: Caenorhabditis elegans

Species: Caenorhabditis elegans

Genus: Caenorhabditis

Family: Rhabditidae

Order: Rhabditida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|449478392|ref|XP_004155306.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus]

 Score = 65.9 bits (159), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/64 (43%), Positives = 39/64 (60%)

Query: 159 NKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
           +K+++  +P   +    +C ICLD I VG+LA   PC+H FH  CI  WLE   SCP+CR
Sbjct: 81  SKASIKAMPSLPVSEVTECVICLDEIEVGRLAKQMPCNHKFHGDCIQKWLELHGSCPVCR 140

Query: 219 NDLP 222
             +P
Sbjct: 141 YQMP 144

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|170592343|ref|XP_001900928.1| Goliath protein [Brugia malayi] gi|158591623|gb|EDP30228.1| Goliath protein, putative [Brugia malayi]

 Score = 65.9 bits (159), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 41/67 (61%), Gaps = 5/67 (7%)

Query: 160 KSNVTRLPEKRI-----ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSC 214
           K  +TR+P K I     E + DC +C+D    G +    PC H+FHK C+D WL + R+C
Sbjct: 221 KKALTRIPTKPIRVGDKELDTDCPVCIDPYRAGDIIRSLPCRHIFHKTCVDPWLLEHRTC 280

Query: 215 PLCRNDL 221
           P+C++D+
Sbjct: 281 PMCKSDI 287

Source: Brugia malayi

Species: Brugia malayi

Genus: Brugia

Family: Onchocercidae

Order: Spirurida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|268575936|ref|XP_002642948.1| Hypothetical protein CBG15229 [Caenorhabditis briggsae]

 Score = 65.9 bits (159), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 36/105 (34%), Positives = 55/105 (52%), Gaps = 3/105 (2%)

Query: 118 IYTLTKLVVCVLDYFKRLR-TNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKD 176
           I  +  L   V  Y +R R  +  +R ++ +  A   R A+     +T  P    E + D
Sbjct: 169 ILMVISLAWLVFYYVQRFRYAHAKDRLQRRLFNAA--RKALTRIPTMTISPGMTQELQSD 226

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           CA+CLD   +  +    PC HV+HK CID WL + R+CP+C+ND+
Sbjct: 227 CAVCLDPYQLQDVIRLLPCKHVYHKSCIDPWLLEHRTCPMCKNDI 271

Source: Caenorhabditis briggsae

Species: Caenorhabditis briggsae

Genus: Caenorhabditis

Family: Rhabditidae

Order: Rhabditida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|449435338|ref|XP_004135452.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus]

 Score = 65.9 bits (159), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/64 (43%), Positives = 39/64 (60%)

Query: 159 NKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
           +K+++  +P   +    +C ICLD I VG+LA   PC+H FH  CI  WLE   SCP+CR
Sbjct: 81  SKASIKAMPSLPVSEVTECVICLDEIEVGRLAKQMPCNHKFHGDCIQKWLELHGSCPVCR 140

Query: 219 NDLP 222
             +P
Sbjct: 141 YQMP 144

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	224
TAIR|locus:2011491	178	AT1G53010 [Arabidopsis thalian	0.25	0.314	0.5	1.7e-11
WB|WBGene00019185	473	H10E21.5 [Caenorhabditis elega	0.455	0.215	0.333	1.8e-11
TAIR|locus:2035843	179	AT1G14200 [Arabidopsis thalian	0.281	0.351	0.397	2e-10
TAIR|locus:2053994	181	AT2G18670 [Arabidopsis thalian	0.232	0.287	0.452	2.5e-10
TAIR|locus:2118651	176	AT4G30370 [Arabidopsis thalian	0.477	0.607	0.341	2.5e-10
TAIR|locus:2050522	180	AT2G44330 [Arabidopsis thalian	0.236	0.294	0.471	5.2e-10
TAIR|locus:2177866	161	AT5G41430 [Arabidopsis thalian	0.348	0.484	0.361	8.4e-10
UNIPROTKB|I3L7L2	180	LOC100514278 "Uncharacterized	0.330	0.411	0.349	1.1e-09
UNIPROTKB|F1MCR4	431	RNF128 "E3 ubiquitin-protein l	0.491	0.255	0.313	1.9e-09
UNIPROTKB|Q29RU0	431	RNF128 "E3 ubiquitin-protein l	0.491	0.255	0.313	1.9e-09

TAIR|locus:2011491 AT1G53010 [Arabidopsis thaliana (taxid:3702)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 29/58 (50%), Positives = 37/58 (63%)

Query:   168 EKRIESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
             EK +ES ++CAICL G VV +     P C H++H  CID WL+   +CP CR DLP S
Sbjct:   122 EKSLES-RECAICLSGYVVNEECRVFPVCRHIYHALCIDAWLKNHLTCPTCRKDLPES 178

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

WB|WBGene00019185 H10E21.5 [Caenorhabditis elegans (taxid:6239)]

 Score = 165 (63.1 bits), Expect = 1.8e-11, P = 1.8e-11
 Identities = 35/105 (33%), Positives = 55/105 (52%)

Query:   118 IYTLTKLVVCVLDYFKRLR-TNPSNRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEKD 176
             I  +  L   V  Y +R R  +  +R ++ +  A   R A+     +T  P    E + D
Sbjct:   169 ILMVISLAWLVFYYVQRFRYAHAKDRLQRRLFNAA--RKALTRIPTMTITPGMTQELQSD 226

Query:   177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
             CA+CLD   +  +    PC H++HK CID WL + R+CP+C+ND+
Sbjct:   227 CAVCLDPYQLQDVIRLLPCKHIYHKSCIDPWLLEHRTCPMCKNDI 271

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

TAIR|locus:2035843 AT1G14200 [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 2.0e-10, P = 2.0e-10
 Identities = 27/68 (39%), Positives = 40/68 (58%)

Query:   160 KSNVTRLPEKRIESEKD-----CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSC 214
             KS V  +P   I  +K+     CAICLD    G +A+  PC H FH +C++ WL +  +C
Sbjct:    87 KSEVENMPRVVIGEDKEKYGGSCAICLDEWSKGDVAAEMPCKHKFHSKCVEEWLGRHATC 146

Query:   215 PLCRNDLP 222
             P+CR ++P
Sbjct:   147 PMCRYEMP 154

GO:0005634 "nucleus" evidence=ISM

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

GO:0006457 "protein folding" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

GO:0042542 "response to hydrogen peroxide" evidence=RCA

TAIR|locus:2053994 AT2G18670 [Arabidopsis thaliana (taxid:3702)]

 Score = 146 (56.5 bits), Expect = 2.5e-10, P = 2.5e-10
 Identities = 24/53 (45%), Positives = 31/53 (58%)

Query:   167 PEKRIESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCR 218
             P      E DC +C DG   GQ     P C HVFH++C+D WL K+ +CP+CR
Sbjct:   100 PSTYTRYESDCVVCFDGFRQGQWCRNLPGCGHVFHRKCVDTWLLKASTCPICR 152

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2118651 AT4G30370 [Arabidopsis thaliana (taxid:3702)]

 Score = 146 (56.5 bits), Expect = 2.5e-10, P = 2.5e-10
 Identities = 41/120 (34%), Positives = 62/120 (51%)

Query:   110 IMFPQSVR--IYTLTKL-VVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVTRL 166
             IM P ++   I+ LT L       ++  L+ N  +R R+      +    ++ +  V RL
Sbjct:    42 IMIPVAITAFIFILTSLGFTFFFAFYWFLQRNYRHRLRRHR--RHEYSDGLSPRC-VKRL 98

Query:   167 PE-KRIE--SE---KDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRN 219
             P+ K  E  SE    DC +C+DG   GQ     P C HVFH++C+D WL K  +CP+CR+
Sbjct:    99 PQFKYCEPSSEYGGDDCVVCIDGFRQGQWCRKLPRCGHVFHRKCVDLWLIKVSTCPICRD 158

GO:0005634 "nucleus" evidence=ISM

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

GO:0010200 "response to chitin" evidence=IEP

TAIR|locus:2050522 AT2G44330 [Arabidopsis thaliana (taxid:3702)]

 Score = 143 (55.4 bits), Expect = 5.2e-10, P = 5.2e-10
 Identities = 25/53 (47%), Positives = 33/53 (62%)

Query:   172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
             +S   CAIC +  VVG+ A   PC+H++H  CI  WL    SCPLCR +LP +
Sbjct:    91 DSALPCAICREDFVVGESARRLPCNHLYHNDCIIPWLTSHNSCPLCRVELPVA 143

GO:0005634 "nucleus" evidence=ISM

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

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

TAIR|locus:2177866 AT5G41430 [Arabidopsis thaliana (taxid:3702)]

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 30/83 (36%), Positives = 46/83 (55%)

Query:   141 NRFRKFVPIAMDLRMAINNKSNVTRLPEKRIESEK-D---CAICLDGIVVG-QLASCTPC 195
             N     +P+   L   I  ++++  +  K IE E  D   C+ICL+ +  G ++     C
Sbjct:    77 NETGHLMPLHSQLEFKIGYRASIEEMEFKDIEKEGFDEIGCSICLEELEDGHEIIRIKKC 136

Query:   196 DHVFHKRCIDFWLEKSRSCPLCR 218
              HVFH+ CID WL+++RSCP CR
Sbjct:   137 RHVFHRSCIDSWLKQNRSCPNCR 159

GO:0005634 "nucleus" evidence=ISM

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

UNIPROTKB|I3L7L2 LOC100514278 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 29/83 (34%), Positives = 44/83 (53%)

Query:   149 IAMDLRMAIN--NKSNVTRLPEK-------RIESEKDCAICLDGIVVGQLASCTPCDHVF 199
             +A+D+ +A    +K ++  LPE         I  E+ C IC    +   +A+  PC H F
Sbjct:    69 LAVDVEVANPPASKESIDGLPETLVLEDHTAIGQEQCCPICCSEYIKDDIATELPCHHFF 128

Query:   200 HKRCIDFWLEKSRSCPLCRNDLP 222
             HK C+  WL+KS +CP+CR   P
Sbjct:   129 HKPCVSIWLQKSGTCPVCRRHFP 151

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1MCR4 RNF128 "E3 ubiquitin-protein ligase RNF128" [Bos taurus (taxid:9913)]

 Score = 150 (57.9 bits), Expect = 1.9e-09, Sum P(2) = 1.9e-09
 Identities = 36/115 (31%), Positives = 59/115 (51%)

Query:   111 MFPQSVRIYTLTKLVVCVLDYF--KRLRTNPSNRFRKFVPIAMDLRMAINN-KSNVTRLP 167
             +F  SV  + +T   V    ++  +RLR N   + RK   +  D + AI   +    +  
Sbjct:   211 IFFVSVSFFIITAATVGYFIFYSARRLR-NARAQSRKQRQLKADAKKAIGRLQLRTLKQG 269

Query:   168 EKRIESEKD-CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
             +K I  + D CA+C++      L     C+HVFHK C+D WL + R+CP+C+ D+
Sbjct:   270 DKEIGPDGDSCAVCIELYKPNDLVRILTCNHVFHKTCVDPWLLEHRTCPMCKCDI 324

GO:0042036 "negative regulation of cytokine biosynthetic process" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005770 "late endosome" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q29RU0 RNF128 "E3 ubiquitin-protein ligase RNF128" [Bos taurus (taxid:9913)]

 Score = 150 (57.9 bits), Expect = 1.9e-09, Sum P(2) = 1.9e-09
 Identities = 36/115 (31%), Positives = 59/115 (51%)

Query:   111 MFPQSVRIYTLTKLVVCVLDYF--KRLRTNPSNRFRKFVPIAMDLRMAINN-KSNVTRLP 167
             +F  SV  + +T   V    ++  +RLR N   + RK   +  D + AI   +    +  
Sbjct:   211 IFFVSVSFFIITAATVGYFIFYSARRLR-NARAQSRKQRQLKADAKKAIGRLQLRTQKQG 269

Query:   168 EKRIESEKD-CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
             +K I  + D CA+C++      L     C+HVFHK C+D WL + R+CP+C+ D+
Sbjct:   270 DKEIGPDGDSCAVCIELYKPNDLVRILTCNHVFHKTCVDPWLLEHRTCPMCKCDI 324

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0012505 "endomembrane system" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh1_pg.C_scaffold_3002218 annotation not avaliable (494 aa) (Arabidopsis lyrata)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	224
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-14
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	4e-10
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	7e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-08
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-08
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	9e-08
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	4e-06
smart00184	40	smart00184, RING, Ring finger	2e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	6e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	3e-04
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	8e-04
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	9e-04
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	0.003
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.003

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

 Score = 63.6 bits (155), Expect = 5e-14
 Identities = 23/43 (53%), Positives = 27/43 (62%)

Query: 176 DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
           +C ICLD    G+     PC HVFHK C+D WL  S +CPLCR
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 58.5 bits (141), Expect = 4e-10
 Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 176 DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWL-EKSRSCPLCRNDLP 222
           +CAIC+   +        PCDH FH  C+D WL   S  CP+CR  +P
Sbjct: 325 ECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372

Length = 374

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

 Score = 54.6 bits (131), Expect = 7e-09
 Identities = 32/120 (26%), Positives = 50/120 (41%), Gaps = 21/120 (17%)

Query: 110 IMFPQ-SVRIYTLTKLVVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVTRLPE 168
             FP   V IY + ++  C    F+R+R        +F     DL     N    T   E
Sbjct: 232 YQFPYVRVPIYLIRQMYTCFYALFRRIRE-----HARFRRATKDL-----NAMYPTATEE 281

Query: 169 KRIESEKDCAICLDGIV----------VGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
           +   S++ C IC+D +           +       PC H+ H  C+  WLE+ ++CP+CR
Sbjct: 282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICR 341

Length = 491

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

 Score = 48.3 bits (115), Expect = 3e-08
 Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 2/46 (4%)

Query: 173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
            E +C ICLD +        TPC HVF + CI  +L+K   CP+CR
Sbjct: 1   EELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

>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 = 47.4 bits (113), Expect = 5e-08
 Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 3/47 (6%)

Query: 176 DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDL 221
           +C ICL+     +     PC HVF + CID WL+    +CPLCR  +
Sbjct: 1   ECPICLE--EFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 47.4 bits (113), Expect = 9e-08
 Identities = 20/53 (37%), Positives = 23/53 (43%), Gaps = 10/53 (18%)

Query: 176 DCAIC---LDGIVVGQLAS---CTP----CDHVFHKRCIDFWLEKSRSCPLCR 218
            CAIC    DG      +    C      C H FH  CI  WL+   +CPLCR
Sbjct: 21  VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 45.9 bits (109), Expect = 4e-06
 Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 5/51 (9%)

Query: 174 EKDCAICLDGIVVGQLAS-----CTPCDHVFHKRCIDFWLEKSRSCPLCRN 219
           +K+CAIC++ +   ++ +      + C+HVF   CID W ++  +CP+CR 
Sbjct: 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224

Length = 238

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

 Score = 40.6 bits (95), Expect = 2e-05
 Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLC 217
           C ICL+     +     PC H F + CI  WLE  + +CP+C
Sbjct: 1   CPICLE--EYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 39.0 bits (91), Expect = 6e-05
 Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLC 217
           C ICL+           PC H+F  +CI  WLE  + +CPLC
Sbjct: 1   CPICLEEPKDPVTI--LPCGHLFCSKCILSWLESGNVTCPLC 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|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 40.8 bits (95), Expect = 3e-04
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 6/59 (10%)

Query: 170  RIESEKDCAICLDGI--VVGQLAS--CTPCDHVFHKRCIDFWLEKSRS--CPLCRNDLP 222
            +    ++CAIC   +  V   L S  C  C + FH RC+  W   S    CPLCR+++ 
Sbjct: 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523

Length = 1525

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

 Score = 37.1 bits (86), Expect = 8e-04
 Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 15/56 (26%)

Query: 177 CAICLDGIVVGQLASCTP--------------CDHVFHKRCIDFWLEKSRSCPLCR 218
           CAIC + I+ G    C                C+H FH  CI  WL+    CPL R
Sbjct: 23  CAICRNHIM-GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 39.1 bits (91), Expect = 9e-04
 Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 5/49 (10%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCI--DFWLEKSRSCPLCR 218
            ++  C +CL+   V    SCTPC H+F   C+   +  +K   CPLCR
Sbjct: 213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCR 258

Length = 271

>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 37.8 bits (87), Expect = 0.003
 Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 4/71 (5%)

Query: 151 MDLRMAINNKSNVTRLPE-KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE 209
            +L     +  N T++P  K ++S   C IC   I +      T C H F   CI   L 
Sbjct: 1   NELDATDPSDWNQTKIPSLKGLDSMLRCRICDCRISIPCE---TTCGHTFCSLCIRRHLG 57

Query: 210 KSRSCPLCRND 220
               CP+CR D
Sbjct: 58  TQPFCPVCRED 68

Length = 391

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

 Score = 35.5 bits (82), Expect = 0.003
 Identities = 21/67 (31%), Positives = 25/67 (37%), Gaps = 25/67 (37%)

Query: 171 IESEKDCAIC---LDG-------------IVVGQLASCTPCDHVFHKRCIDFWLEKSRS- 213
             S+  C IC    DG             +V G+      C H FH  CI  WL    S 
Sbjct: 18  TPSDDVCGICRVSFDGTCPQCKFPGDDCPLVWGK------CKHNFHMHCILKWLATETSK 71

Query: 214 --CPLCR 218
             CP+CR
Sbjct: 72  GLCPMCR 78

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	224
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.65
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.58
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.45
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.42
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.32
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	99.31
PHA02929	238	N1R/p28-like protein; Provisional	99.3
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.12
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.09
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.09
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.05
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.04
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.94
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.93
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.9
PF14634	44	zf-RING_5: zinc-RING finger domain	98.9
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.86
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.86
PHA02926	242	zinc finger-like protein; Provisional	98.86
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.84
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.82
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.78
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.75
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.67
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.53
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	98.53
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.51
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.43
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.4
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.36
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.35
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.28
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.21
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.17
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.16
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.15
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.1
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.01
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.87
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.85
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.83
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.71
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.62
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.56
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.38
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.19
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.12
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.03
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.02
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.99
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.63
KOG2660	331	consensus Locus-specific chromosome binding protei	96.5
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.37
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.33
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.2
COG5152	259	Uncharacterized conserved protein, contains RING a	96.19
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.13
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.08
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.05
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.98
PHA03096	284	p28-like protein; Provisional	95.86
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.81
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.74
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.71
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.63
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.53
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.53
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.49
PHA02862	156	5L protein; Provisional	95.33
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.21
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.07
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.02
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.72
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.59
KOG3039	303	consensus Uncharacterized conserved protein [Funct	94.25
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	94.09
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	93.93
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.66
KOG1940	276	consensus Zn-finger protein [General function pred	93.45
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	92.66
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.62
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	92.39
PF04641	260	Rtf2: Rtf2 RING-finger	91.46
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	91.16
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	91.11
KOG3053	293	consensus Uncharacterized conserved protein [Funct	90.9
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.63
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	90.1
KOG0298	1394	consensus DEAD box-containing helicase-like transc	90.04
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	89.94
PF14369	35	zf-RING_3: zinc-finger	88.64
KOG2807	378	consensus RNA polymerase II transcription initiati	88.19
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	87.23
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	86.45
KOG3002	299	consensus Zn finger protein [General function pred	85.19
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	84.96
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	84.65
COG5175	480	MOT2 Transcriptional repressor [Transcription]	84.62
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	82.8
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	81.7
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	81.46
KOG1609	323	consensus Protein involved in mRNA turnover and st	81.06

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

Probab=99.65  E-value=1.7e-16  Score=141.49  Aligned_cols=68  Identities=37%  Similarity=0.821  Sum_probs=57.6

Q ss_pred             ccCChhhhhcCCcccc---cCc---cccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-CCCCcccCCCC
Q 037450          156 AINNKSNVTRLPEKRI---ESE---KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLPA  223 (224)
Q Consensus       156 ~~~~k~~i~~lp~~~~---~~~---~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  223 (224)
                      ....++.+.++|...+   .++   ..|+||+|+|+.|++++.|||+|.||..||++||.+.. .||+||.++++
T Consensus       205 ~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  205 NRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             hhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            3566777888887776   112   38999999999999999999999999999999998885 59999998864

>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=99.58  E-value=5.7e-16  Score=99.22  Aligned_cols=44  Identities=45%  Similarity=1.155  Sum_probs=40.4

Q ss_pred             cccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcc
Q 037450          175 KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR  218 (224)
Q Consensus       175 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR  218 (224)
                      ++|+||+++++.++.+..++|+|.||.+||.+|++.+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            37999999998888999999999999999999999999999997

...

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

Probab=99.45  E-value=1e-13  Score=123.24  Aligned_cols=50  Identities=34%  Similarity=0.988  Sum_probs=44.5

Q ss_pred             cCccccceeccc-cccC---------CeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDG-IVVG---------QLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~-~~~~---------~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      ..+..|.||+++ |+.+         .++++|||||++|..|++.|++++++||+||.++
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            678899999999 5444         2578999999999999999999999999999985

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

Probab=99.42  E-value=1.1e-13  Score=120.34  Aligned_cols=52  Identities=38%  Similarity=0.979  Sum_probs=48.2

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHh-cCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  223 (224)
                      ...-+|+|||+.|-.++++++|||+|.||..|+++|+. .++.||+||.++|+
T Consensus       321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            45678999999998889999999999999999999998 78899999999986

>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=99.32  E-value=1.1e-12  Score=93.11  Aligned_cols=46  Identities=39%  Similarity=0.995  Sum_probs=36.9

Q ss_pred             CccccceeccccccC----------CeeEEcCCCCcccHHHHHHHHhcCCCCCCcc
Q 037450          173 SEKDCAICLDGIVVG----------QLASCTPCDHVFHKRCIDFWLEKSRSCPLCR  218 (224)
Q Consensus       173 ~~~~C~ICle~~~~~----------~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR  218 (224)
                      .+..|+||++.+...          -.+...+|+|.||..||..||+.+.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            355699999999321          2355667999999999999999999999998

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 ....

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

Probab=99.31  E-value=1.2e-12  Score=120.07  Aligned_cols=142  Identities=23%  Similarity=0.470  Sum_probs=90.8

Q ss_pred             hhhhhhccCCCCCCCCchhhhhhccccccccCccCCCCCccccccCCcccccchhhhHHHHh--------hHhhhcCcee
Q 037450           14 ILNKVRNQLWDLPNMQPGFIFQLRAHHVINQRATSAKPDTFLYLQADHTLFVTYNNMFHFLS--------NILADEGVTV   85 (224)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~f~~~~~~~lf~t~~~~~~~l~--------~~l~~~~~~~   85 (224)
                      +-|++|| |+.     +-|-|    -|++|+..+|..++-|-+..+.|+....++-.+++..        ++|-.|++  
T Consensus       470 v~Nvvrg-~SR-----~Pl~w----~yIlG~Tv~Rl~~plyVF~~s~n~~r~~p~~~f~v~L~lwmlFQv~vLl~Qd~--  537 (636)
T KOG0828|consen  470 VANVVRG-DSR-----KPLHW----YYILGMTVTRLAIPLYVFGCSENFMRVEPKYFFAVGLVLWMLFQVLVLLVQDY--  537 (636)
T ss_pred             HHHHhcC-CCC-----CCcch----hhhhhHhHHhhhcceEEEecchhhhccCCchhhHHHHHHHHHHHHHHHHHHhh--
Confidence            5688898 554     66899    9999999999777766666677777777754444332        25555554  


Q ss_pred             cCCC-ccccCCCceeeEecCCCCcccchhhHHHHHHHHHHHHHHHHHHhHhCCCchhhHHhhcCchhhhccccCChhhhh
Q 037450           86 DANG-CFLSDKGLHLLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRLRTNPSNRFRKFVPIAMDLRMAINNKSNVT  164 (224)
Q Consensus        86 di~g-~f~~~~g~~~l~~d~~gg~~i~~~~~v~i~~l~~l~~~~~~y~~~~~~~~~~~~~r~~~~~~~~~~~~~~k~~i~  164 (224)
                        .| |+..++-.              +|..+             +|+....                       .+.. 
T Consensus       538 --lGsR~FlPkk~--------------lpe~Y-------------sY~r~l~-----------------------~dh~-  564 (636)
T KOG0828|consen  538 --LGSRCFLPKKF--------------LPEKY-------------SYHRRLQ-----------------------QDHL-  564 (636)
T ss_pred             --cccccccchhh--------------Ccccc-------------ccccccc-----------------------cccc-
Confidence              55 44333211              11100             0111100                       0000 


Q ss_pred             cCCcccccCccccceeccccccCC--------------eeEEcCCCCcccHHHHHHHHh-cCCCCCCcccCCCC
Q 037450          165 RLPEKRIESEKDCAICLDGIVVGQ--------------LASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDLPA  223 (224)
Q Consensus       165 ~lp~~~~~~~~~C~ICle~~~~~~--------------~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  223 (224)
                         +.-.+...+|+|||..++.-.              .++.+||+|+||..|+..|+. .+..||+||.++|+
T Consensus       565 ---~~~~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  565 ---EAFVRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ---cchhhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence               001155678999999875311              277889999999999999999 55599999999986

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.30  E-value=1.9e-12  Score=110.95  Aligned_cols=65  Identities=31%  Similarity=0.786  Sum_probs=49.3

Q ss_pred             CChhhhhcCCcccc--------cCccccceeccccccCCe-----eEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          158 NNKSNVTRLPEKRI--------ESEKDCAICLDGIVVGQL-----ASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       158 ~~k~~i~~lp~~~~--------~~~~~C~ICle~~~~~~~-----~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ..+..+..+|....        ..+.+|+||++.+...+.     ...++|+|.||.+||.+|++.+.+||+||.++.
T Consensus       150 ~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        150 NYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             hhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            35555666665432        457899999998764331     244569999999999999999999999999764

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

Probab=99.12  E-value=6.5e-11  Score=102.60  Aligned_cols=49  Identities=37%  Similarity=0.929  Sum_probs=44.1

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      +.+..|.+|+|..   ..+..+||||+||+.||..|...+..||+||..+++
T Consensus       237 ~a~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  237 EATRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             CCCCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            5668899999987   456789999999999999999999999999999865

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.09  E-value=7.9e-11  Score=97.51  Aligned_cols=49  Identities=35%  Similarity=0.818  Sum_probs=41.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc----------------CCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK----------------SRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~----------------~~~CP~CR~~l~~  223 (224)
                      .++.+|+||++.++   .+.+++|+|.||..||..|+..                ...||+||..+..
T Consensus        16 ~~~~~CpICld~~~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         16 GGDFDCNICLDQVR---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CCccCCccCCCcCC---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            56789999999884   5577899999999999999853                2479999998853

>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=99.09  E-value=6.7e-11  Score=77.62  Aligned_cols=47  Identities=28%  Similarity=0.889  Sum_probs=39.8

Q ss_pred             CccccceeccccccCCeeEEcCCCCc-ccHHHHHHHHhcCCCCCCcccCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHV-FHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ++..|.||++..   ..+..+||+|. |+.+|+..|++....||+||+++.
T Consensus         1 ~~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENP---RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSB---SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CcCCCccCCccC---CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            357899999986   45788999999 999999999999999999999874

...

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

Probab=99.05  E-value=1.9e-10  Score=72.17  Aligned_cols=44  Identities=43%  Similarity=1.117  Sum_probs=36.8

Q ss_pred             ccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCC
Q 037450          176 DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDL  221 (224)
Q Consensus       176 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l  221 (224)
                      +|+||++.+.  +....++|+|.||..|++.|++. +..||.||..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999982  44555669999999999999998 67899999864

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

Probab=99.04  E-value=1.5e-10  Score=72.11  Aligned_cols=39  Identities=49%  Similarity=1.127  Sum_probs=33.1

Q ss_pred             cceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCc
Q 037450          177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLC  217 (224)
Q Consensus       177 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~C  217 (224)
                      |+||++.+.  +.+..++|||.||.+||..|++.+..||+|
T Consensus         1 C~iC~~~~~--~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELR--DPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-S--SEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCccc--CcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            899999885  344789999999999999999998899998

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

Probab=98.94  E-value=2.7e-10  Score=108.62  Aligned_cols=50  Identities=38%  Similarity=0.979  Sum_probs=44.6

Q ss_pred             cCccccceeccccccCCe--eEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQL--ASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~--~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      ..+..|+||+|++..+..  ++++||+|+||..|+..|++++++||+||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            568899999999976544  78999999999999999999999999999843

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

Probab=98.93  E-value=5.7e-10  Score=94.13  Aligned_cols=49  Identities=33%  Similarity=0.761  Sum_probs=42.4

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC---CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR---SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~l~~  223 (224)
                      ....+|.||+|.-   ++++++.|||.||+-||.+||+.+.   .||+||..+..
T Consensus        45 ~~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   45 GGFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CCceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            6788999999975   5678899999999999999998765   69999998754

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

Probab=98.90  E-value=9.8e-10  Score=69.68  Aligned_cols=38  Identities=37%  Similarity=0.926  Sum_probs=30.4

Q ss_pred             cceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCc
Q 037450          177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLC  217 (224)
Q Consensus       177 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~C  217 (224)
                      |+||++.|   .+++.|+|||.|+..||..|.+...    .||.|
T Consensus         1 CpiC~~~~---~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLF---KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB----SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhh---CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999   6788999999999999999987653    59987

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.90  E-value=1.2e-09  Score=69.89  Aligned_cols=44  Identities=32%  Similarity=0.816  Sum_probs=38.7

Q ss_pred             ccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCccc
Q 037450          176 DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRN  219 (224)
Q Consensus       176 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~  219 (224)
                      .|+||++.|.....+..++|+|+||..|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            59999999965667889999999999999999866778999985

>smart00504 Ubox Modified RING finger domain

Probab=98.86  E-value=2.5e-09  Score=72.85  Aligned_cols=45  Identities=22%  Similarity=0.417  Sum_probs=40.4

Q ss_pred             cccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          175 KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       175 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ..|+||.+.++   .+..++|||+|+.+||..|++.+.+||+|+.++.
T Consensus         2 ~~Cpi~~~~~~---~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMK---DPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCC---CCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence            47999999985   3578899999999999999999889999999875

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

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

Probab=98.86  E-value=1.3e-09  Score=88.63  Aligned_cols=51  Identities=35%  Similarity=0.800  Sum_probs=43.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      +....|+|||+.++.. .+..+.|||+||+.||+.-++....||+||..|..
T Consensus       129 ~~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH  179 (187)
T ss_pred             ccccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence            5568899999998632 23558899999999999999999999999987753

>PHA02926 zinc finger-like protein; Provisional

Probab=98.86  E-value=1.4e-09  Score=91.34  Aligned_cols=50  Identities=30%  Similarity=0.877  Sum_probs=38.0

Q ss_pred             cCccccceeccccccC----C-eeEEc-CCCCcccHHHHHHHHhcC------CCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVG----Q-LASCT-PCDHVFHKRCIDFWLEKS------RSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~----~-~~~~l-pC~H~FH~~CI~~Wl~~~------~~CP~CR~~l  221 (224)
                      ..+.+|+||+|..-..    + ....| +|+|.||..||..|.+.+      .+||+||..+
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f  229 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF  229 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence            6688999999976321    1 12344 599999999999999854      3599999875

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

Probab=98.84  E-value=2.4e-09  Score=77.53  Aligned_cols=51  Identities=31%  Similarity=0.720  Sum_probs=39.1

Q ss_pred             cCccccceecccccc--------CC-eeEE-cCCCCcccHHHHHHHHhcC---CCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVV--------GQ-LASC-TPCDHVFHKRCIDFWLEKS---RSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~--------~~-~~~~-lpC~H~FH~~CI~~Wl~~~---~~CP~CR~~l~  222 (224)
                      ..++.|.||...|+.        |+ .+.+ -.|+|.||..||.+|++++   ..||+||++..
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            458889999999862        22 2333 3499999999999999863   58999999753

>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=3.2e-09  Score=66.48  Aligned_cols=39  Identities=44%  Similarity=1.060  Sum_probs=33.0

Q ss_pred             cceeccccccCCeeEEcCCCCcccHHHHHHHHh--cCCCCCCc
Q 037450          177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE--KSRSCPLC  217 (224)
Q Consensus       177 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~--~~~~CP~C  217 (224)
                      |+||++.++  +....++|+|.||.+||..|++  ....||+|
T Consensus         1 C~iC~~~~~--~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFE--DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCS--SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCcccc--CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999985  3335899999999999999999  44579998

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=98.78  E-value=5.7e-09  Score=63.11  Aligned_cols=38  Identities=39%  Similarity=1.149  Sum_probs=33.1

Q ss_pred             cceeccccccCCeeEEcCCCCcccHHHHHHHHh-cCCCCCCc
Q 037450          177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLC  217 (224)
Q Consensus       177 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~C  217 (224)
                      |+||++..   ..+..++|+|.||..|++.|++ .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999984   5678899999999999999998 55679987

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)

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

Probab=98.75  E-value=4e-09  Score=90.73  Aligned_cols=58  Identities=36%  Similarity=0.781  Sum_probs=45.1

Q ss_pred             hcCCcccccCccccceeccccccCC-------eeEEcCCCCcccHHHHHHH--HhcCCCCCCcccCCC
Q 037450          164 TRLPEKRIESEKDCAICLDGIVVGQ-------LASCTPCDHVFHKRCIDFW--LEKSRSCPLCRNDLP  222 (224)
Q Consensus       164 ~~lp~~~~~~~~~C~ICle~~~~~~-------~~~~lpC~H~FH~~CI~~W--l~~~~~CP~CR~~l~  222 (224)
                      +.+|++. .++..|+||-..+....       ..-+|.|+|+||..||..|  +.++++||.|++.+.
T Consensus       215 ~glPtkh-l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  215 SGLPTKH-LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CCCCCCC-CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            3555544 56788999998775433       4567899999999999999  457789999998764

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.67  E-value=1.3e-08  Score=93.26  Aligned_cols=48  Identities=33%  Similarity=0.699  Sum_probs=42.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      +....|+||++.|.   .++.++|+|.||..||..|+.....||+||..+.
T Consensus        24 e~~l~C~IC~d~~~---~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~   71 (397)
T TIGR00599        24 DTSLRCHICKDFFD---VPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ   71 (397)
T ss_pred             ccccCCCcCchhhh---CccCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence            66789999999984   4567899999999999999998889999999864

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

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

Probab=98.53  E-value=5.1e-08  Score=83.80  Aligned_cols=49  Identities=37%  Similarity=0.967  Sum_probs=42.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHH-HHhcCCC-CCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDF-WLEKSRS-CPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~-Wl~~~~~-CP~CR~~l~~  223 (224)
                      ..+..|+||++..   +.+..+||+|+||..||-. |-.++.. ||+||+.+.+
T Consensus       213 ~~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            5688999999987   5678899999999999999 9887776 9999997754

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

Probab=98.53  E-value=2.9e-08  Score=89.58  Aligned_cols=150  Identities=18%  Similarity=0.338  Sum_probs=96.2

Q ss_pred             ccccchhhhHHHHhhHhhhcCceecCCCccccCCCce-eeEecCCCCcccchhhHHHHHHHHHHHHHHHHHHhHhCCCch
Q 037450           62 TLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLH-LLRLDASGGMPIMFPQSVRIYTLTKLVVCVLDYFKRLRTNPS  140 (224)
Q Consensus        62 ~lf~t~~~~~~~l~~~l~~~~~~~di~g~f~~~~g~~-~l~~d~~gg~~i~~~~~v~i~~l~~l~~~~~~y~~~~~~~~~  140 (224)
                      ..|.||+++.+-|.......|..+.+.+|...  |+| +......|.+...||....++....-..--+.|..-.+....
T Consensus       260 mAFLTYDEVk~RLqk~~~KpGSYIFRlSCTRl--GQWAIGYVt~dG~IlQTIP~NKpL~QaL~eG~keGFYlyPdGr~~n  337 (563)
T KOG1785|consen  260 MAFLTYDEVKARLQKYIKKPGSYIFRLSCTRL--GQWAIGYVTADGNILQTIPQNKPLFQALLEGHKEGFYLYPDGRDQN  337 (563)
T ss_pred             eEEeeHHHHHHHHHHHhcCCCceEEeeccCcc--cceeEEEEcCCCceeeccCCCcHHHHHHHhccccceEECCCCccCC
Confidence            57999999999999999999999998887655  488 777788999998998876554442211111222222222211


Q ss_pred             hhHHhhcCchhhhccccCChhhhhc----CCcccccCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc--CCCC
Q 037450          141 NRFRKFVPIAMDLRMAINNKSNVTR----LPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK--SRSC  214 (224)
Q Consensus       141 ~~~~r~~~~~~~~~~~~~~k~~i~~----lp~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~--~~~C  214 (224)
                      .++...      ..+++...-.+..    +-.+....-.-|.||-|.   ++.++.-||||..|..|+..|-..  .++|
T Consensus       338 pdLt~l------~~~~p~d~i~VtqEQyeLYceMgsTFeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~C  408 (563)
T KOG1785|consen  338 PDLTGL------CQPPPQDRIKVTQEQYELYCEMGSTFELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTC  408 (563)
T ss_pred             CChhhc------cCCCcccceeeeHHHHHHHHHccchHHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCC
Confidence            122111      1112222211111    111111556679999885   356788999999999999999754  4699


Q ss_pred             CCcccCCC
Q 037450          215 PLCRNDLP  222 (224)
Q Consensus       215 P~CR~~l~  222 (224)
                      |.||.+|.
T Consensus       409 PFCRcEIK  416 (563)
T KOG1785|consen  409 PFCRCEIK  416 (563)
T ss_pred             CceeeEec
Confidence            99999873

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

Probab=98.51  E-value=7.4e-08  Score=61.34  Aligned_cols=38  Identities=37%  Similarity=0.832  Sum_probs=23.0

Q ss_pred             cceecccccc-CCeeEEcCCCCcccHHHHHHHHhcCC----CCC
Q 037450          177 CAICLDGIVV-GQLASCTPCDHVFHKRCIDFWLEKSR----SCP  215 (224)
Q Consensus       177 C~ICle~~~~-~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP  215 (224)
                      |+||.| |.. ...+++|+|||+|+.+||+.+++.+.    .||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 643 44578999999999999999998542    576

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

Probab=98.43  E-value=6.1e-08  Score=85.93  Aligned_cols=48  Identities=29%  Similarity=0.722  Sum_probs=44.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .....|.||.|.|   ..++.+||+|.||.-||...|..+..||.|+.++.
T Consensus        21 D~lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~   68 (442)
T KOG0287|consen   21 DDLLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT   68 (442)
T ss_pred             HHHHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence            5677899999999   56789999999999999999999999999998875

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

Probab=98.40  E-value=2.3e-07  Score=65.91  Aligned_cols=32  Identities=38%  Similarity=0.847  Sum_probs=27.8

Q ss_pred             eEEcC-CCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          190 ASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       190 ~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      +.... |+|.||..||..||..+..||++|++.
T Consensus        48 ~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w   80 (88)
T COG5194          48 PVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW   80 (88)
T ss_pred             eEEEEecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence            34444 999999999999999999999999864

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

Probab=98.36  E-value=3.3e-07  Score=59.98  Aligned_cols=42  Identities=29%  Similarity=0.796  Sum_probs=33.9

Q ss_pred             ccceeccccccCCeeEEcCCC-----CcccHHHHHHHHhcCC--CCCCcc
Q 037450          176 DCAICLDGIVVGQLASCTPCD-----HVFHKRCIDFWLEKSR--SCPLCR  218 (224)
Q Consensus       176 ~C~ICle~~~~~~~~~~lpC~-----H~FH~~CI~~Wl~~~~--~CP~CR  218 (224)
                      .|.||++ .+.++.+...||.     |.+|.+|+..|+..+.  +||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            3899999 3344566789985     8999999999997654  899995

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

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

Probab=98.35  E-value=2.6e-07  Score=65.31  Aligned_cols=48  Identities=25%  Similarity=0.472  Sum_probs=38.1

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDLPA  223 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  223 (224)
                      +...|+|+.+.|   ..++.+|+||.|...||..|++. ..+||+|+.++..
T Consensus         3 ~~f~CpIt~~lM---~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    3 DEFLCPITGELM---RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGGB-TTTSSB----SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             cccCCcCcCcHh---hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            467899999999   56788999999999999999999 7799999998754

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 ....

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

Probab=98.28  E-value=4.5e-07  Score=84.29  Aligned_cols=48  Identities=33%  Similarity=0.782  Sum_probs=38.7

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC-----CCCCCcccCCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS-----RSCPLCRNDLPA  223 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~-----~~CP~CR~~l~~  223 (224)
                      .+..||||++..   ..+..+.|||+||..||-..+...     ..||+||..|..
T Consensus       185 t~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  185 TDMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             cCCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            388999999976   455667799999999998877655     269999998754

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

Probab=98.21  E-value=3e-07  Score=64.82  Aligned_cols=50  Identities=32%  Similarity=0.744  Sum_probs=37.8

Q ss_pred             cCccccceecccccc--------C-CeeEEcC-CCCcccHHHHHHHHhcCC---CCCCcccCC
Q 037450          172 ESEKDCAICLDGIVV--------G-QLASCTP-CDHVFHKRCIDFWLEKSR---SCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~--------~-~~~~~lp-C~H~FH~~CI~~Wl~~~~---~CP~CR~~l  221 (224)
                      ..+++|.||.-.|..        | +.+.++. |.|.||.-||.+|+....   .||+||++.
T Consensus        18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~   80 (84)
T KOG1493|consen   18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW   80 (84)
T ss_pred             CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence            445689999988842        2 2344444 999999999999997544   699999875

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

Probab=98.17  E-value=4.6e-07  Score=89.08  Aligned_cols=51  Identities=33%  Similarity=0.929  Sum_probs=39.9

Q ss_pred             cCccccceeccccccCC----eeEEcCCCCcccHHHHHHHHhcCC--CCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQ----LASCTPCDHVFHKRCIDFWLEKSR--SCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~----~~~~lpC~H~FH~~CI~~Wl~~~~--~CP~CR~~l~  222 (224)
                      ...++||||...+..-+    .-++-.|.|.||..|+.+|.+++.  +||+||.++|
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            67889999998774111    113334999999999999998765  7999999986

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

Probab=98.16  E-value=7.5e-07  Score=76.02  Aligned_cols=44  Identities=36%  Similarity=0.780  Sum_probs=38.8

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR  218 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR  218 (224)
                      .+...|+||++.|...   +.+||+|.||..||..+......||.||
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence            5788999999999644   8899999999999999988556899999

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

Probab=98.15  E-value=9.2e-07  Score=77.14  Aligned_cols=47  Identities=36%  Similarity=0.697  Sum_probs=41.9

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      .....|-||-+.|   ..+..++|+|.||.-||...|..+.-||+||++.
T Consensus        23 Ds~lrC~IC~~~i---~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          23 DSMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             hhHHHhhhhhhee---ecceecccccchhHHHHHHHhcCCCCCccccccH
Confidence            5677899999998   4557789999999999999999999999999864

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

Probab=98.10  E-value=1.7e-06  Score=64.44  Aligned_cols=49  Identities=33%  Similarity=0.733  Sum_probs=37.1

Q ss_pred             cCccccceecccc-------------ccCCeeEEcC-CCCcccHHHHHHHHhcCCCCCCcccC
Q 037450          172 ESEKDCAICLDGI-------------VVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~-------------~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~  220 (224)
                      ...+.|+||..-+             ..++...... |+|.||.-||..||++++.||+|..+
T Consensus        44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            4567899987533             1123344444 99999999999999999999999765

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

Probab=98.01  E-value=7.4e-07  Score=62.62  Aligned_cols=49  Identities=29%  Similarity=0.842  Sum_probs=23.0

Q ss_pred             ccccceeccccc-cCCe--eEEc--CCCCcccHHHHHHHHhcC----C-------CCCCcccCCC
Q 037450          174 EKDCAICLDGIV-VGQL--ASCT--PCDHVFHKRCIDFWLEKS----R-------SCPLCRNDLP  222 (224)
Q Consensus       174 ~~~C~ICle~~~-~~~~--~~~l--pC~H~FH~~CI~~Wl~~~----~-------~CP~CR~~l~  222 (224)
                      +.+|.||++.+. .++.  +..-  .|++.||..||..|+...    .       .||.|+++|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            468999999865 3332  2222  499999999999998631    1       4999999874

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

Probab=97.87  E-value=9.7e-06  Score=72.62  Aligned_cols=47  Identities=30%  Similarity=0.751  Sum_probs=40.2

Q ss_pred             CccccceeccccccCCeeEEcCCCCc-ccHHHHHHHHhcCCCCCCcccCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHV-FHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ...+|.||+.+-   ....+|||+|. .|.+|.+..--+++.||+||+++.
T Consensus       289 ~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  289 SGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            367899999986   45678999998 699999998888889999999874

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

Probab=97.85  E-value=2.5e-06  Score=58.46  Aligned_cols=46  Identities=28%  Similarity=0.707  Sum_probs=23.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      ++...|++|.+.++  +.+....|.|+||+.||..-+.  ..||+|+.+-
T Consensus         5 e~lLrCs~C~~~l~--~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa   50 (65)
T PF14835_consen    5 EELLRCSICFDILK--EPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPA   50 (65)
T ss_dssp             HHTTS-SSS-S--S--S-B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred             HHhcCCcHHHHHhc--CCceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence            45678999999985  3344566999999999988544  4599998763

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

Probab=97.83  E-value=7e-06  Score=75.35  Aligned_cols=49  Identities=29%  Similarity=0.703  Sum_probs=38.0

Q ss_pred             cCccccceeccccccCC-eeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQ-LASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .+.-+|+||+|.+.... -+..+.|.|.||..|+..|-.  .+||+||.-..
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~  222 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS  222 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence            56778999999985432 235566999999999999954  57999997543

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

Probab=97.71  E-value=4.1e-06  Score=74.86  Aligned_cols=49  Identities=33%  Similarity=0.579  Sum_probs=39.8

Q ss_pred             cCccccceeccccccCCeeEEcC-CCCcccHHHHHHHHhcC-CCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKS-RSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  223 (224)
                      ..+.-|+||++.++   ..+.++ |.|.||.+||..-++.. +.||.||..+.+
T Consensus        41 ~~~v~c~icl~llk---~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   41 DIQVICPICLSLLK---KTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             hhhhccHHHHHHHH---hhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            67888999999985   334444 99999999998888765 589999998754

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

Probab=97.62  E-value=2.9e-05  Score=70.15  Aligned_cols=50  Identities=40%  Similarity=0.868  Sum_probs=37.0

Q ss_pred             cCccccceeccccccCC--e--eEEcC-CCCcccHHHHHHHH--hc-----CCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQ--L--ASCTP-CDHVFHKRCIDFWL--EK-----SRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~--~--~~~lp-C~H~FH~~CI~~Wl--~~-----~~~CP~CR~~l  221 (224)
                      ..+..|.||+|..-...  .  -..+| |.|.||..||..|-  .+     ...||.||...
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            56889999999764221  0  12345 99999999999998  44     45799999753

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

Probab=97.56  E-value=1.5e-05  Score=77.47  Aligned_cols=50  Identities=24%  Similarity=0.543  Sum_probs=42.2

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      .....|++|+..+-.+.....-+|+|.||..||..|-+..++||+||.++
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            45667888888876655556677999999999999999999999999875

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

Probab=97.39  E-value=8.3e-05  Score=68.42  Aligned_cols=48  Identities=38%  Similarity=0.877  Sum_probs=42.7

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ..+..|.||+..+   ..+.++||||.||..||+.-+.+...||.||.+++
T Consensus        82 ~sef~c~vc~~~l---~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   82 RSEFECCVCSRAL---YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             cchhhhhhhHhhc---CCCccccccccccHHHHHHHhccCCCCcccccccc
Confidence            6788999999988   45677899999999999998888889999999875

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

Probab=97.38  E-value=5.4e-05  Score=66.48  Aligned_cols=51  Identities=31%  Similarity=0.797  Sum_probs=41.9

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHH------------------hc-----CCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWL------------------EK-----SRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl------------------~~-----~~~CP~CR~~l~  222 (224)
                      .....|.||+--|..++...+++|-|.||..|+...|                  +.     ...||+||..|.
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            4466899999999988889999999999999987755                  21     226999999874

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

Probab=97.19  E-value=0.00018  Score=66.26  Aligned_cols=50  Identities=28%  Similarity=0.660  Sum_probs=41.8

Q ss_pred             ccCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       171 ~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ..++..|++|...+.+..  ..+.|+|.||..|+..|+..++.||.|+.++.
T Consensus        18 ~~~~l~C~~C~~vl~~p~--~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~   67 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPV--QTTTCGHRFCAGCLLESLSNHQKCPVCRQELT   67 (391)
T ss_pred             CcccccCccccccccCCC--CCCCCCCcccccccchhhccCcCCcccccccc
Confidence            367889999999985332  22589999999999999999999999988764

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

Probab=97.12  E-value=0.00014  Score=70.66  Aligned_cols=50  Identities=28%  Similarity=0.624  Sum_probs=41.0

Q ss_pred             ccCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-CCCCcccCCCC
Q 037450          171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLPA  223 (224)
Q Consensus       171 ~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  223 (224)
                      +..-..|++|-...   .....+.|+|.||..||.+-+..++ .||.|...+.+
T Consensus       640 yK~~LkCs~Cn~R~---Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  640 YKELLKCSVCNTRW---KDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             HHhceeCCCccCch---hhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            37788999999766   3445566999999999999998776 79999998753

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

Probab=97.03  E-value=0.00037  Score=46.95  Aligned_cols=43  Identities=23%  Similarity=0.581  Sum_probs=28.9

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC--CCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--RSCPL  216 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~--~~CP~  216 (224)
                      .....|+|.+..|+  +-++...|+|+|-.+.|..|++.+  ..||+
T Consensus         9 ~~~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            44678999999996  445667899999999999999443  36998

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

Probab=97.02  E-value=0.00017  Score=47.82  Aligned_cols=46  Identities=22%  Similarity=0.539  Sum_probs=33.0

Q ss_pred             CccccceeccccccCCeeEEcCCCCc-ccHHHH-HHHHhcCCCCCCcccCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHV-FHKRCI-DFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI-~~Wl~~~~~CP~CR~~l  221 (224)
                      .+.+|.||+|.-   ..-....|+|. .|.+|- ..|-..+..||+||.++
T Consensus         6 ~~dECTICye~p---vdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    6 WSDECTICYEHP---VDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cccceeeeccCc---chHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            347899999954   22234459997 577775 55655788999999976

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

Probab=96.99  E-value=0.00022  Score=64.82  Aligned_cols=48  Identities=40%  Similarity=0.863  Sum_probs=40.0

Q ss_pred             cCccccceeccccccCC-eeEEcCCCCcccHHHHHHHHhcCC--CCCCccc
Q 037450          172 ESEKDCAICLDGIVVGQ-LASCTPCDHVFHKRCIDFWLEKSR--SCPLCRN  219 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~--~CP~CR~  219 (224)
                      +.+.-|..|-|.+-..+ ....|||.|+||..|+...|.++.  +||.||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            55778999999886543 456799999999999999998775  7999994

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

Probab=96.63  E-value=0.0018  Score=56.45  Aligned_cols=49  Identities=22%  Similarity=0.531  Sum_probs=37.8

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC--CCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--RSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~--~~CP~CR~~l~  222 (224)
                      ..+.+|++|-+.-.  ......+|+|+||-.||..-....  .+||.|-++++
T Consensus       237 t~~~~C~~Cg~~Pt--iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPT--IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCC--CCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            56789999988642  223345699999999999876644  58999998875

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

Probab=96.50  E-value=0.00063  Score=60.57  Aligned_cols=48  Identities=31%  Similarity=0.685  Sum_probs=39.4

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      .....|.+|-..|-  +.....-|-|.||..||-..+....+||.|...+
T Consensus        13 n~~itC~LC~GYli--DATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~i   60 (331)
T KOG2660|consen   13 NPHITCRLCGGYLI--DATTITECLHTFCKSCIVKYLEESKYCPTCDIVI   60 (331)
T ss_pred             ccceehhhccceee--cchhHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence            56778999999984  2223344999999999999999999999998755

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

Probab=96.37  E-value=0.0013  Score=51.64  Aligned_cols=39  Identities=21%  Similarity=0.434  Sum_probs=30.5

Q ss_pred             ccccceeccccccCCeeEEcCCC------CcccHHHHHHHHhcCC
Q 037450          174 EKDCAICLDGIVVGQLASCTPCD------HVFHKRCIDFWLEKSR  212 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~~~~lpC~------H~FH~~CI~~Wl~~~~  212 (224)
                      ..+|+||++.+..++-+..++|+      |.||.+|++.|-+.+.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~   70 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERN   70 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhcc
Confidence            67899999999774445666775      9999999999954333

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.

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

Probab=96.33  E-value=0.0019  Score=41.93  Aligned_cols=43  Identities=26%  Similarity=0.621  Sum_probs=22.1

Q ss_pred             cceeccccccCCeeEEcC--CCCcccHHHHHHHHh-cCCCCCCcccC
Q 037450          177 CAICLDGIVVGQLASCTP--CDHVFHKRCIDFWLE-KSRSCPLCRND  220 (224)
Q Consensus       177 C~ICle~~~~~~~~~~lp--C~H~FH~~CI~~Wl~-~~~~CP~CR~~  220 (224)
                      |++|.+++...+ ....|  |++..+..|...-++ ....||-||++
T Consensus         1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            789999984333 24466  899999999888876 46689999985

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

Probab=96.20  E-value=0.0017  Score=52.57  Aligned_cols=30  Identities=30%  Similarity=0.834  Sum_probs=28.1

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccH
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHK  201 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~  201 (224)
                      ....+|.||+|+++.++.+..|||-.+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            667899999999999999999999999996

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

Probab=96.19  E-value=0.0017  Score=54.11  Aligned_cols=44  Identities=25%  Similarity=0.506  Sum_probs=37.4

Q ss_pred             ccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccC
Q 037450          174 EKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRND  220 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~  220 (224)
                      -..|.||.++|   +.+.++.|||.||..|.-.-.+....|-+|-..
T Consensus       196 PF~C~iCKkdy---~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         196 PFLCGICKKDY---ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             ceeehhchhhc---cchhhhhcchhHHHHHHHHHhccCCcceecchh
Confidence            34799999999   456788899999999998888888899999653

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

Probab=96.13  E-value=0.0041  Score=64.56  Aligned_cols=51  Identities=31%  Similarity=0.749  Sum_probs=37.8

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----------CCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----------SCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----------~CP~CR~~l~  222 (224)
                      ..++.|.||+.+--.......|.|+|+||..|....|+.+-          +||+|+.++.
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            55777888887643333456788999999999977665443          6999998764

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

Probab=96.08  E-value=0.0059  Score=51.94  Aligned_cols=49  Identities=22%  Similarity=0.680  Sum_probs=40.2

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC--------CCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--------RSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~--------~~CP~CR~~l  221 (224)
                      ..+..|..|-..+..|+.++ |-|-|.||.+|++.|-..-        ..||-|-.+|
T Consensus        48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei  104 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI  104 (299)
T ss_pred             CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence            34567999999998888755 6799999999999997642        2699998876

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

Probab=96.05  E-value=0.0038  Score=57.22  Aligned_cols=47  Identities=30%  Similarity=0.629  Sum_probs=37.9

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC--------CCCCCcc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--------RSCPLCR  218 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~--------~~CP~CR  218 (224)
                      .....|.||+++..-......+||+|.||..|+.......        ..||-+.
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            6788999999997544778899999999999999987532        2587654

>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=95.98  E-value=0.0033  Score=46.68  Aligned_cols=33  Identities=27%  Similarity=0.655  Sum_probs=28.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHH
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCID  205 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~  205 (224)
                      .++..|++|-..+.. ....+.||+|+||..|++
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            778889999999865 567789999999999975

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 [].

>PHA03096 p28-like protein; Provisional

Probab=95.86  E-value=0.0042  Score=54.92  Aligned_cols=45  Identities=31%  Similarity=0.601  Sum_probs=32.6

Q ss_pred             cccceeccccccC----CeeEEcC-CCCcccHHHHHHHHhcCC---CCCCccc
Q 037450          175 KDCAICLDGIVVG----QLASCTP-CDHVFHKRCIDFWLEKSR---SCPLCRN  219 (224)
Q Consensus       175 ~~C~ICle~~~~~----~~~~~lp-C~H~FH~~CI~~Wl~~~~---~CP~CR~  219 (224)
                      ..|.||+|.....    .....|+ |.|.||..||..|...+.   +||.||.
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            6899999976532    1234566 999999999999976543   4655554

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

Probab=95.81  E-value=0.0055  Score=39.56  Aligned_cols=40  Identities=35%  Similarity=1.042  Sum_probs=27.1

Q ss_pred             cceeccccccCCeeEEcCCC-----CcccHHHHHHHHhcC--CCCCCc
Q 037450          177 CAICLDGIVVGQLASCTPCD-----HVFHKRCIDFWLEKS--RSCPLC  217 (224)
Q Consensus       177 C~ICle~~~~~~~~~~lpC~-----H~FH~~CI~~Wl~~~--~~CP~C  217 (224)
                      |-||++.-+... ....||.     -.-|.+|+..|+..+  .+|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            678998765444 5678865     367999999999854  479987

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.74  E-value=0.0095  Score=48.08  Aligned_cols=46  Identities=30%  Similarity=0.747  Sum_probs=34.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCC-----cccHHHHHHHHhcCC--CCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDH-----VFHKRCIDFWLEKSR--SCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H-----~FH~~CI~~Wl~~~~--~CP~CR~~l  221 (224)
                      ..+..|=||.++-.  +  ..-||.-     .-|.+|++.|+..+.  .|++|+.+.
T Consensus         6 ~~~~~CRIC~~~~~--~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y   58 (162)
T PHA02825          6 LMDKCCWICKDEYD--V--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY   58 (162)
T ss_pred             CCCCeeEecCCCCC--C--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence            45678999998843  2  2358654     449999999998665  799998864

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

Probab=95.71  E-value=0.0069  Score=54.62  Aligned_cols=48  Identities=29%  Similarity=0.657  Sum_probs=34.7

Q ss_pred             cccccCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          168 EKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       168 ~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      .........|.||+++.+   ...-+||||.-|  |..-- +...+||+||..+
T Consensus       299 ~~~~~~p~lcVVcl~e~~---~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI  346 (355)
T KOG1571|consen  299 FRELPQPDLCVVCLDEPK---SAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRI  346 (355)
T ss_pred             ccccCCCCceEEecCCcc---ceeeecCCcEEE--chHHH-hhCCCCchhHHHH
Confidence            333456778999999874   367899999966  65543 2334599999876

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

Probab=95.63  E-value=0.023  Score=50.75  Aligned_cols=45  Identities=20%  Similarity=0.370  Sum_probs=35.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR  218 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR  218 (224)
                      .....|+||+...++..  ...--|-+||..||-..+..++.||+=-
T Consensus       298 ~~~~~CpvClk~r~Npt--vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~  342 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPT--VLEVSGYVFCYPCIFSYVVNYGHCPVTG  342 (357)
T ss_pred             CccccChhHHhccCCCc--eEEecceEEeHHHHHHHHHhcCCCCccC
Confidence            56788999999875332  2222699999999999999999999743

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

Probab=95.53  E-value=0.00078  Score=61.19  Aligned_cols=51  Identities=27%  Similarity=0.658  Sum_probs=43.6

Q ss_pred             cCccccceeccccccC-CeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVG-QLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~-~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .-...|+||.+.++.. +....+-|+|++|.+||.+||.....||.||.+|+
T Consensus       194 slv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~  245 (465)
T KOG0827|consen  194 SLVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP  245 (465)
T ss_pred             HHHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence            3456799999998755 45666779999999999999999999999999886

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

Probab=95.53  E-value=0.0057  Score=57.76  Aligned_cols=48  Identities=29%  Similarity=0.727  Sum_probs=38.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-----CCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-----SRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~  222 (224)
                      .++.+|.+|.+.-   +.+....|.|.||.-||..+...     +.+||.|-..|.
T Consensus       534 k~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  534 KGEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             cCceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            6678899999865   56778899999999999888652     348999977654

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

Probab=95.49  E-value=0.008  Score=59.48  Aligned_cols=48  Identities=38%  Similarity=0.902  Sum_probs=36.8

Q ss_pred             cCccccceeccccccCCee-EEcCCCCcccHHHHHHHHhcCC-------CCCCccc
Q 037450          172 ESEKDCAICLDGIVVGQLA-SCTPCDHVFHKRCIDFWLEKSR-------SCPLCRN  219 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~-~~lpC~H~FH~~CI~~Wl~~~~-------~CP~CR~  219 (224)
                      ....+|.||.+.+.....+ ....|=|+||..||..|-++..       .||.|+.
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            6788999999998644322 2334779999999999987532       5999984

>PHA02862 5L protein; Provisional

Probab=95.33  E-value=0.015  Score=46.17  Aligned_cols=48  Identities=27%  Similarity=0.636  Sum_probs=31.3

Q ss_pred             ccccceeccccccCCee-EEcCCCCcccHHHHHHHHhcCC--CCCCcccCC
Q 037450          174 EKDCAICLDGIVVGQLA-SCTPCDHVFHKRCIDFWLEKSR--SCPLCRNDL  221 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~~-~~lpC~H~FH~~CI~~Wl~~~~--~CP~CR~~l  221 (224)
                      +..|=||.++-+++..+ ....-...-|.+|+..|+..+.  .||+|+.+.
T Consensus         2 ~diCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY   52 (156)
T PHA02862          2 SDICWICNDVCDERNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY   52 (156)
T ss_pred             CCEEEEecCcCCCCcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence            45799999974322100 0000025789999999998655  799999864

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

Probab=95.21  E-value=0.0068  Score=53.38  Aligned_cols=44  Identities=25%  Similarity=0.470  Sum_probs=38.1

Q ss_pred             cccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          175 KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       175 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      ..|-||.+.|   ..++++.|+|.||..|-..-++....|++|-...
T Consensus       242 f~c~icr~~f---~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  242 FKCFICRKYF---YRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             cccccccccc---ccchhhcCCceeehhhhccccccCCcceeccccc
Confidence            4599999999   4567889999999999998888889999997654

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

Probab=95.07  E-value=0.022  Score=51.45  Aligned_cols=48  Identities=27%  Similarity=0.589  Sum_probs=41.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .++..|+||...-   ...+-.||+|.=|.+||.+-+-..+.|=.|+..+.
T Consensus       420 sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             cccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            6788999998743   45678999999999999999999999999998653

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

Probab=95.02  E-value=0.028  Score=50.72  Aligned_cols=46  Identities=30%  Similarity=0.740  Sum_probs=38.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHH--HhcCCCCCCcccC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFW--LEKSRSCPLCRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~W--l~~~~~CP~CR~~  220 (224)
                      +++..|-||-+.+   .-..++||+|..|.-|.-..  |...+.||+||.+
T Consensus        59 Een~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          59 EENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             cccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence            6778899999876   34568999999999998553  6778899999985

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

Probab=94.72  E-value=0.02  Score=50.69  Aligned_cols=43  Identities=30%  Similarity=0.617  Sum_probs=34.5

Q ss_pred             ccccceeccccccCCeeEEcC-CCCcccHHHHHHHHh-cCCCCCCccc
Q 037450          174 EKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLE-KSRSCPLCRN  219 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~Wl~-~~~~CP~CR~  219 (224)
                      ...|+.|.-.+.   .++++| |+|.||.+||..-|. ....||.|-.
T Consensus       274 ~LkCplc~~Llr---np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         274 SLKCPLCHCLLR---NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             cccCcchhhhhh---CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            378999998873   456677 999999999987654 5568999965

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.59  E-value=0.021  Score=38.03  Aligned_cols=45  Identities=27%  Similarity=0.676  Sum_probs=33.0

Q ss_pred             ccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          174 EKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      ...|-.|...   +.+-.++||+|..+..|.+.  +.-+.||+|-.++..
T Consensus         7 ~~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~   51 (55)
T PF14447_consen    7 EQPCVFCGFV---GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEF   51 (55)
T ss_pred             ceeEEEcccc---ccccccccccceeeccccCh--hhccCCCCCCCcccC
Confidence            3345556553   34567899999999999766  456689999988754

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.25  E-value=0.047  Score=47.13  Aligned_cols=51  Identities=20%  Similarity=0.345  Sum_probs=42.2

Q ss_pred             cCccccceeccccccCCee-EEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLA-SCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~-~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .....|+||.+.+.+.-.. ..-||+|+|+.+|.+..+..-..||+|-.++.
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk  270 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK  270 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence            3567899999999765443 44559999999999999999999999988764

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

Probab=94.09  E-value=0.13  Score=47.18  Aligned_cols=49  Identities=18%  Similarity=0.345  Sum_probs=41.7

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC---CCCCcccC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR---SCPLCRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~  220 (224)
                      .....|||=.+.=.+.+.++.|.|||+...+-|..-.+...   .||.|-.+
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            67889999888777777899999999999999999877554   69999654

>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=93.93  E-value=0.029  Score=35.51  Aligned_cols=41  Identities=27%  Similarity=0.724  Sum_probs=22.9

Q ss_pred             cceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC--CCCCc
Q 037450          177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR--SCPLC  217 (224)
Q Consensus       177 C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~--~CP~C  217 (224)
                      |.+|.+..-.|..=....|+=.+|..|++.+++...  .||.|
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            678888765443222224888999999999998776  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=93.66  E-value=0.034  Score=55.21  Aligned_cols=44  Identities=25%  Similarity=0.714  Sum_probs=34.3

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      ....|..|--.++.+  .+...|+|.||..|++   .....||.|+.+.
T Consensus       839 q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            346899999888533  3456699999999999   5566899998743

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

Probab=93.45  E-value=0.04  Score=48.48  Aligned_cols=47  Identities=30%  Similarity=0.726  Sum_probs=38.8

Q ss_pred             CccccceeccccccCC-eeEEcCCCCcccHHHHHHHHhcCCCCCCccc
Q 037450          173 SEKDCAICLDGIVVGQ-LASCTPCDHVFHKRCIDFWLEKSRSCPLCRN  219 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~-~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~  219 (224)
                      ....|+||.|.+-... .+..++|+|.-|..|...-...+-+||+|-.
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            3445999999775543 5678999999999999998888889999976

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

Probab=92.66  E-value=0.049  Score=54.35  Aligned_cols=36  Identities=25%  Similarity=0.627  Sum_probs=29.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHH
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWL  208 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl  208 (224)
                      +..+.|.+|.-.+... .-.+-||+|.||.+||..-.
T Consensus       815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            7889999999987533 45678999999999997653

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

Probab=92.62  E-value=0.044  Score=53.97  Aligned_cols=43  Identities=40%  Similarity=0.793  Sum_probs=36.4

Q ss_pred             cccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC--CCCCcccCC
Q 037450          175 KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR--SCPLCRNDL  221 (224)
Q Consensus       175 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~--~CP~CR~~l  221 (224)
                      ..|.||++ .   +....++|+|.||.+|+..-+....  .||.||..+
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence            89999999 2   6677889999999999988877554  599999765

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

Probab=92.39  E-value=0.086  Score=43.46  Aligned_cols=51  Identities=25%  Similarity=0.727  Sum_probs=35.3

Q ss_pred             cCccccceeccccccCCee----EEcCCCCcccHHHHHHHHhcC----C-------CCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLA----SCTPCDHVFHKRCIDFWLEKS----R-------SCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~----~~lpC~H~FH~~CI~~Wl~~~----~-------~CP~CR~~l~  222 (224)
                      ++...|.||...--.|..+    --..|+.-||.-|+..||+.-    +       .||.|-.++.
T Consensus       163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia  228 (234)
T KOG3268|consen  163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA  228 (234)
T ss_pred             hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence            4556788887643333221    234599999999999999732    1       5999988764

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.46  E-value=0.22  Score=43.44  Aligned_cols=50  Identities=22%  Similarity=0.454  Sum_probs=38.8

Q ss_pred             cCccccceeccccccCCe-eEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQL-ASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~-~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .....|||...+|..... +...||||+|...+|+.-- ....||+|-.++.
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT  161 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence            566789999999943333 3456799999999999973 3568999988764

>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=91.16  E-value=0.07  Score=34.45  Aligned_cols=32  Identities=34%  Similarity=0.911  Sum_probs=22.8

Q ss_pred             cCC-CCcccHHHHHHHHhcCCCCCCcccCCCCC
Q 037450          193 TPC-DHVFHKRCIDFWLEKSRSCPLCRNDLPAS  224 (224)
Q Consensus       193 lpC-~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  224 (224)
                      ..| .|..|..|+..-+..+..||+|..++|++
T Consensus        16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             EE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             eeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            346 49999999999999999999999999874

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.

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

Probab=91.11  E-value=0.039  Score=48.67  Aligned_cols=41  Identities=29%  Similarity=0.742  Sum_probs=29.9

Q ss_pred             ccccceeccccccCCeeEEcCCCCcc-cHHHHHHHHhcCCCCCCcccCC
Q 037450          174 EKDCAICLDGIVVGQLASCTPCDHVF-HKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~~~~lpC~H~F-H~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      ..-|+||++.-   ..-..|+|||.- |.+|-+.    -+.||+||+-+
T Consensus       300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCC---cceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence            67899999964   445679999964 6666443    23799999754

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.90  E-value=0.11  Score=45.12  Aligned_cols=49  Identities=33%  Similarity=0.809  Sum_probs=36.0

Q ss_pred             cCccccceeccccccCCe-eEEcCCC-----CcccHHHHHHHHhcCC--------CCCCcccC
Q 037450          172 ESEKDCAICLDGIVVGQL-ASCTPCD-----HVFHKRCIDFWLEKSR--------SCPLCRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~-~~~lpC~-----H~FH~~CI~~Wl~~~~--------~CP~CR~~  220 (224)
                      +.+..|-||+..=++.-. .-+-||.     |.-|..|+..|+..++        +||.|+.+
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE   80 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE   80 (293)
T ss_pred             ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence            567789999986443222 2456763     8999999999986443        59999975

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

Probab=90.63  E-value=0.11  Score=46.18  Aligned_cols=44  Identities=30%  Similarity=0.668  Sum_probs=31.1

Q ss_pred             ccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          174 EKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      ...|.-|---+.  .--+.+||.|+||.+|...  ...+.||.|-..|
T Consensus        90 VHfCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   90 VHFCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eEeecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            455777754442  2347899999999999754  4466899997654

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=90.10  E-value=0.33  Score=32.24  Aligned_cols=34  Identities=21%  Similarity=0.543  Sum_probs=27.8

Q ss_pred             CccccceeccccccCCeeEEcC-CCCcccHHHHHH
Q 037450          173 SEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDF  206 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~  206 (224)
                      ....|++|-+.|++++.+++=| |+-.+|.+|.+.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            3567999999998777776666 999999999544

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

Probab=90.04  E-value=0.079  Score=54.88  Aligned_cols=47  Identities=32%  Similarity=0.687  Sum_probs=39.1

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~  220 (224)
                      .....|.||++.+..  .-....|+|.+|..|+..|+..+..||.|++.
T Consensus      1151 ~~~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             hcccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence            455589999999862  33456699999999999999999999999853

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

Probab=89.94  E-value=0.19  Score=49.58  Aligned_cols=41  Identities=34%  Similarity=0.784  Sum_probs=31.5

Q ss_pred             cccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCC
Q 037450          175 KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPL  216 (224)
Q Consensus       175 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~  216 (224)
                      ..|+||--.+ .|.......|+|..|.+|...|++....||.
T Consensus      1029 ~~C~~C~l~V-~gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAV-RGSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eeeeeEeeEe-eccchhhccccccccHHHHHHHHhcCCcCCC
Confidence            3466665443 3445667789999999999999999999985

>PF14369 zf-RING_3: zinc-finger

Probab=88.64  E-value=0.19  Score=30.32  Aligned_cols=17  Identities=18%  Similarity=0.241  Sum_probs=13.3

Q ss_pred             ccCCC-CCCCCchhhhhh
Q 037450           20 NQLWD-LPNMQPGFIFQL   36 (224)
Q Consensus        20 ~~~~~-~~~~~~~~~~~~   36 (224)
                      +.+.. ||.|+.|||.||
T Consensus        18 ~~~~~~CP~C~~gFvEei   35 (35)
T PF14369_consen   18 PDSDVACPRCHGGFVEEI   35 (35)
T ss_pred             CCCCcCCcCCCCcEeEeC
Confidence            34445 999999999875

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

Probab=88.19  E-value=0.52  Score=42.37  Aligned_cols=57  Identities=25%  Similarity=0.592  Sum_probs=43.6

Q ss_pred             hcCCcccccCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccC
Q 037450          164 TRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRND  220 (224)
Q Consensus       164 ~~lp~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~  220 (224)
                      .+.|...+.....|-.|.++......++.-.|.|.||.+|=.-.-++-+.||-|.+.
T Consensus       320 ~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~  376 (378)
T KOG2807|consen  320 VEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK  376 (378)
T ss_pred             hhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence            344554445667799998888877888888899999999965555555689999754

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

Probab=87.23  E-value=0.24  Score=45.67  Aligned_cols=40  Identities=25%  Similarity=0.602  Sum_probs=29.0

Q ss_pred             cCccccceec-cccccCCeeEEcCCCCcccHHHHHHHHhcC
Q 037450          172 ESEKDCAICL-DGIVVGQLASCTPCDHVFHKRCIDFWLEKS  211 (224)
Q Consensus       172 ~~~~~C~ICl-e~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~  211 (224)
                      ....+|.||. +..+......+..|+|.||.+|+...+..+
T Consensus       144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence            3467899999 544433333456699999999999887644

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

Probab=86.45  E-value=0.44  Score=43.55  Aligned_cols=28  Identities=25%  Similarity=0.883  Sum_probs=21.5

Q ss_pred             CCCcccHHHHHHHHhcCC-------------CCCCcccCCC
Q 037450          195 CDHVFHKRCIDFWLEKSR-------------SCPLCRNDLP  222 (224)
Q Consensus       195 C~H~FH~~CI~~Wl~~~~-------------~CP~CR~~l~  222 (224)
                      |.=..|.+|+-+|+..++             .||+||+.+.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC  351 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC  351 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence            556779999988875443             6999999763

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

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

Probab=85.19  E-value=0.7  Score=41.26  Aligned_cols=45  Identities=24%  Similarity=0.558  Sum_probs=34.9

Q ss_pred             ccCccccceeccccccCCeeEEcCC--CCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          171 IESEKDCAICLDGIVVGQLASCTPC--DHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       171 ~~~~~~C~ICle~~~~~~~~~~lpC--~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      +.+-.+||||.+.+....    ..|  ||+-|..|=.   +.++.||.||-+++
T Consensus        45 ~~~lleCPvC~~~l~~Pi----~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPI----FQCDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             chhhccCchhhccCcccc----eecCCCcEehhhhhh---hhcccCCccccccc
Confidence            367889999999986332    345  6999999965   45678999999886

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

Probab=84.96  E-value=0.75  Score=36.19  Aligned_cols=50  Identities=18%  Similarity=0.480  Sum_probs=35.1

Q ss_pred             cCccccceeccccccCCeeEEcC---CCCcccHHHHHHHHh---cCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTP---CDHVFHKRCIDFWLE---KSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lp---C~H~FH~~CI~~Wl~---~~~~CP~CR~~l~~  223 (224)
                      ..-.+|-||.|.-.  ++...-|   ||-..|..|-....+   .+..||+|+.++.+
T Consensus        78 ~~lYeCnIC~etS~--ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   78 PKLYECNICKETSA--EERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             CCceeccCcccccc--hhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            45678999999753  3333334   999999999755444   34589999998753

>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=84.65  E-value=0.39  Score=31.27  Aligned_cols=43  Identities=21%  Similarity=0.556  Sum_probs=21.9

Q ss_pred             cccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-----CCCCcccC
Q 037450          175 KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-----SCPLCRND  220 (224)
Q Consensus       175 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-----~CP~CR~~  220 (224)
                      ..|+|....++  .-++...|.|.-+.+ ++.||....     .||+|.++
T Consensus         3 L~CPls~~~i~--~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIR--IPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-S--SEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEE--eCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            46888888775  345667799986554 456665333     69999763

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=84.62  E-value=0.6  Score=42.24  Aligned_cols=50  Identities=20%  Similarity=0.563  Sum_probs=35.0

Q ss_pred             cCccccceeccccccCCee-EEcCCCCcccHHHHHHHHhc-CCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLA-SCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~-~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l  221 (224)
                      .+++-|+.|+|++...++- .--|||-..|.-|....-+. +..||-||..-
T Consensus        12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y   63 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY   63 (480)
T ss_pred             cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence            4455599999999766543 23458988888886654333 34799999753

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

Probab=82.80  E-value=0.59  Score=44.97  Aligned_cols=43  Identities=40%  Similarity=0.920  Sum_probs=37.3

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      .....|.||.++.    ..+..+|.   |.-|+..|+..+..||+|+..+
T Consensus       477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~  519 (543)
T KOG0802|consen  477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYM  519 (543)
T ss_pred             cccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhh
Confidence            6788899999987    45677888   9999999999999999998765

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

Probab=81.70  E-value=0.74  Score=38.95  Aligned_cols=39  Identities=28%  Similarity=0.660  Sum_probs=29.1

Q ss_pred             cceeccccccCCeeEEcCCCC-cccHHHHHHHHhcCCCCCCcccCCC
Q 037450          177 CAICLDGIVVGQLASCTPCDH-VFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       177 C~ICle~~~~~~~~~~lpC~H-~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      |-.|.+.   +..+..+||.| .+|..|=..    -.+||+|+....
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhh
Confidence            8888874   35688999986 577788554    446999998653

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

Probab=81.46  E-value=0.37  Score=47.29  Aligned_cols=48  Identities=33%  Similarity=0.823  Sum_probs=37.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC---CCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR---SCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~l~  222 (224)
                      ....+|+||.+-+...   ..+.|.|.|+..|+..-+....   .||+|+..++
T Consensus        19 ~k~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   19 QKILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             hhhccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            4467899999988533   5677999999999876655444   6999997654

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

Probab=81.06  E-value=0.86  Score=39.98  Aligned_cols=48  Identities=21%  Similarity=0.607  Sum_probs=35.8

Q ss_pred             ccccceeccccccCCe-eEEcCCC-----CcccHHHHHHHHhcC--CCCCCcccCC
Q 037450          174 EKDCAICLDGIVVGQL-ASCTPCD-----HVFHKRCIDFWLEKS--RSCPLCRNDL  221 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~-~~~lpC~-----H~FH~~CI~~Wl~~~--~~CP~CR~~l  221 (224)
                      ...|-||.++...... ....||.     +..|..|++.|+..+  ..|.+|....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~  133 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF  133 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence            4689999997653321 4677865     667999999999844  4799998754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	224
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		3e-08
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		4e-07
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		6e-07
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-06
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		3e-06
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		1e-05
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		2e-05

>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 = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 27/71 (38%), Positives = 37/71 (52%), Gaps = 7/71 (9%)
Query: 159 NKSNVTRLPE-------KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS 211
           +K ++  LPE         +  E  C IC    V G +A+  PC H FHK C+  WL+KS
Sbjct: 18  SKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS 77
Query: 212 RSCPLCRNDLP 222
            +CP+CR   P
Sbjct: 78  GTCPVCRCMFP 88

>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 = 51.2 bits (121), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%)
Query: 168 EKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           E+ + S  +C +C +   +G+     PC+H+FH  CI  WLE+  SCP+CR  L
Sbjct: 9   EEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/50 (40%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
           K++  E++C IC+DG    +     PC H F ++CID W ++ R+CP+CR
Sbjct: 10  KQLTDEEECCICMDG----RADLILPCAHSFCQKCIDKWSDRHRNCPICR 55

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 30/54 (55%)
Query: 167 PEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRND 220
           P      +  C +C+      QL    PC+H FH +C+D WL+ +R+CP+CR D
Sbjct: 16  PNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRAD 69

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/44 (45%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 176 DCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCR 218
           +CA+CL  +  G+ A   P C H FH  C+D WL    +CPLCR
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 20/48 (41%), Positives = 29/48 (60%)
Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
           C ICL  +  G+     PC H+FH+ C+D WL  ++ CP+CR D+ A 
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/49 (36%), Positives = 26/49 (53%)
Query: 169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLC 217
           K +   + CA+CL+           PC H FH++C+  WLE  + CPLC
Sbjct: 10  KELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	224
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-20
2ect_A	78	Ring finger protein 126; metal binding protein, st	8e-20
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-18
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-17
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-17
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-17
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-14
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	4e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	5e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-13
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	6e-13
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-12
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	5e-11
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-10
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-10
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-10
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	8e-10
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	1e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-08
3nw0_A	238	Non-structural maintenance of chromosomes element	4e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	4e-07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	9e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-06
1z6u_A	150	NP95-like ring finger protein isoform B; structura	3e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	9e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-05
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	3e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	4e-04
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	4e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	4e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	5e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	6e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	7e-04
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	8e-04

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

 Score = 81.2 bits (201), Expect = 2e-20
 Identities = 27/70 (38%), Positives = 36/70 (51%), Gaps = 7/70 (10%)

Query: 160 KSNVTRLPEKRI-------ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR 212
           K ++  LPE  +         E  C IC    V G +A+  PC H FHK C+  WL+KS 
Sbjct: 19  KESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSG 78

Query: 213 SCPLCRNDLP 222
           +CP+CR   P
Sbjct: 79  TCPVCRCMFP 88

>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 = 79.4 bits (196), Expect = 8e-20
 Identities = 21/55 (38%), Positives = 32/55 (58%)

Query: 168 EKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP 222
           E+ + S  +C +C +   +G+     PC+H+FH  CI  WLE+  SCP+CR  L 
Sbjct: 9   EEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT 63

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

 Score = 75.5 bits (186), Expect = 2e-18
 Identities = 21/57 (36%), Positives = 34/57 (59%), Gaps = 4/57 (7%)

Query: 168 EKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
            K++  E++C IC+DG     L    PC H F ++CID W ++ R+CP+CR  +  +
Sbjct: 9   VKQLTDEEECCICMDGRADLIL----PCAHSFCQKCIDKWSDRHRNCPICRLQMTGA 61

>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 = 72.8 bits (179), Expect = 2e-17
 Identities = 21/53 (39%), Positives = 33/53 (62%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
           ++E+ C ICL  +  G+     PC H+FH+ C+D WL  ++ CP+CR D+ A 
Sbjct: 12  DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64

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

 Score = 72.7 bits (179), Expect = 2e-17
 Identities = 23/72 (31%), Positives = 35/72 (48%), Gaps = 6/72 (8%)

Query: 159 NKSNVTRLPEKRIESEK------DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR 212
           +  +  +LP  R            C +C+      QL    PC+H FH +C+D WL+ +R
Sbjct: 2   SSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANR 61

Query: 213 SCPLCRNDLPAS 224
           +CP+CR D   S
Sbjct: 62  TCPICRADSGPS 73

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

 Score = 72.5 bits (178), Expect = 3e-17
 Identities = 18/55 (32%), Positives = 27/55 (49%)

Query: 168 EKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP 222
            K +   + CA+CL+           PC H FH++C+  WLE  + CPLC   + 
Sbjct: 9   VKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63

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

 Score = 64.9 bits (159), Expect = 1e-14
 Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 176 DCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           +CA+CL  +  G+ A   P C H FH  C+D WL    +CPLCR  +
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>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 = 63.4 bits (155), Expect = 4e-14
 Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 172 ESEKDCAICLDGIVVG-QLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
                C ICL+ I     +A   PC H+ H+ C +  L++   CPLC 
Sbjct: 3   SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 64.0 bits (156), Expect = 5e-14
 Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 2/50 (4%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
              + C ICL+       +   PC H F   CI  W+ ++ +CPLC+  +
Sbjct: 3   TVAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

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

 Score = 62.6 bits (152), Expect = 2e-13
 Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 4/54 (7%)

Query: 172 ESEKDCAICLDGIV----VGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
                C IC+DG       G+L   T C HVF  +C+   L+ + +CP CR  +
Sbjct: 13  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 61.8 bits (150), Expect = 3e-13
 Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 3/53 (5%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
            +  +CAICL            PC HVF   C+       + C LCR ++P  
Sbjct: 13  LTVPECAICLQTC---VHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED 62

>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 = 61.0 bits (148), Expect = 6e-13
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 4/58 (6%)

Query: 168 EKRIESEKDCAICLD----GIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
             R      C IC+D     +  G+L   T C HVF  +C+   L+ + +CP CR  +
Sbjct: 4   GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

>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 = 59.9 bits (145), Expect = 2e-12
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 4/53 (7%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRS--CPLCRNDLP 222
           ++ K C IC   ++ GQ  SC  C    H  C+  + + +    CP C +  P
Sbjct: 13  DAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP 63

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

 Score = 59.0 bits (143), Expect = 3e-12
 Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 4/49 (8%)

Query: 177 CAICLD----GIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           C IC+D     +  G+L   T C HVF  +C+   L+ + +CP CR  +
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

>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 = 56.8 bits (137), Expect = 5e-11
 Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 2/59 (3%)

Query: 163 VTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
            TR+    +     C +C    +     +   C H F K CI  +LE S+ CP+C   +
Sbjct: 4   TTRIKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

>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 = 55.7 bits (134), Expect = 1e-10
 Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 3/68 (4%)

Query: 158 NNKSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPL 216
           ++ S++     + I     C IC++ +       C  C  +    CI  WL + R  CP 
Sbjct: 6   HHHSHMDEQSVESIAEVFRCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQCPH 63

Query: 217 CRNDLPAS 224
           CR  L   
Sbjct: 64  CRAPLQLR 71

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

 Score = 54.4 bits (131), Expect = 2e-10
 Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 2/53 (3%)

Query: 169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
             +     C+IC   ++     + T C H F K CI      S  CP C   +
Sbjct: 10  SELTPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

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

 Score = 56.2 bits (135), Expect = 2e-10
 Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 3/63 (4%)

Query: 160 KSNVTRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRN 219
           K  V       +E+E  C IC +  +         C H F   CI+ W+++   CP+CR 
Sbjct: 50  KEEVLSHMNDVLENELQCIICSEYFIEAVT---LNCAHSFCSYCINEWMKRKIECPICRK 106

Query: 220 DLP 222
           D+ 
Sbjct: 107 DIK 109

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

 Score = 52.9 bits (127), Expect = 8e-10
 Identities = 10/44 (22%), Positives = 13/44 (29%), Gaps = 3/44 (6%)

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRND 220
           C IC            T C H F + C       +  C +C   
Sbjct: 18  CFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICDQP 58

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

 Score = 52.6 bits (126), Expect = 1e-09
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 170 RIESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           R++    C  C               C+H FH  C+  W++++  CPLC+ D 
Sbjct: 22  RVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

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

 Score = 50.9 bits (121), Expect = 1e-08
 Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 4/57 (7%)

Query: 170 RIESEKDCAICLD----GIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP 222
                  C IC+D     +  G+L   T C HVF  +C+   L+ + +CP CR  + 
Sbjct: 3   MGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59

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

 Score = 45.2 bits (106), Expect = 2e-06
 Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 176 DCAICLDG----IVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRN 219
            C IC+DG    +  G+L   T C HVF  +C+   L+ + +CP CR 
Sbjct: 74  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 121

>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 = 50.2 bits (119), Expect = 1e-08
 Identities = 16/73 (21%), Positives = 25/73 (34%), Gaps = 20/73 (27%)

Query: 166 LPEKRIESEKDCAICLDGIVV---------------GQLASCTPCDHVFHKRCIDFWLEK 210
             E ++  E+DC IC++ + V                 +   T C H FH  C+      
Sbjct: 17  TEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCN 76

Query: 211 S-----RSCPLCR 218
                   CP C+
Sbjct: 77  GNKDGSLQCPSCK 89

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

 Score = 51.3 bits (122), Expect = 4e-08
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 4/53 (7%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRS--CPLCRNDLP 222
           ++ K C IC   ++ GQ  SC  C    H  C+  + + +    CP C +  P
Sbjct: 178 DAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP 228

>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 = 50.5 bits (120), Expect = 1e-07
 Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 4/52 (7%)

Query: 168 EKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCR 218
            +   + + C IC +     +     PC H+    C+  W E   + CP CR
Sbjct: 326 CEMGSTFQLCKICAE---NDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 374

>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 = 47.2 bits (111), Expect = 2e-07
 Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 15/62 (24%)

Query: 174 EKDCAICLDGIVVGQLASCTP---------------CDHVFHKRCIDFWLEKSRSCPLCR 218
             +CAIC + I+   +                    C+H FH  CI  WL+  + CPL  
Sbjct: 48  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

Query: 219 ND 220
            +
Sbjct: 108 RE 109

>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 = 3e-07
 Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 15/63 (23%)

Query: 173 SEKDCAICLDGIVVGQ---------------LASCTPCDHVFHKRCIDFWLEKSRSCPLC 217
              +CAIC + I+                    +   C+H FH  CI  WL+  + CPL 
Sbjct: 36  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 95

Query: 218 RND 220
             +
Sbjct: 96  NRE 98

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

 Score = 45.9 bits (109), Expect = 4e-07
 Identities = 13/52 (25%), Positives = 18/52 (34%), Gaps = 6/52 (11%)

Query: 169 KRIESEKDCAICLDGIV--VGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
           K I+    C IC +     +        C H +   CI  +L     CP C 
Sbjct: 17  KTIDDLLRCGICFEYFNIAM----IIPQCSHNYCSLCIRKFLSYKTQCPTCC 64

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 45.7 bits (108), Expect = 9e-07
 Identities = 16/55 (29%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLP 222
            ++E    C  C +   +      T C H   K C+D        SCP CR DL 
Sbjct: 47  SKVEETFQCICCQE---LVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98

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

 Score = 44.1 bits (104), Expect = 2e-06
 Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 4/52 (7%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS-RSCPLCRNDLP 222
            SE  C IC++   +       PC+H   K C    +EK+   CP CR  + 
Sbjct: 13  LSECQCGICME---ILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS 61

>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 = 44.6 bits (105), Expect = 3e-06
 Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCID-FWLEKSRSCPLCRNDLP 222
           K++E    C  C +   +      T C H   K C+   +  +  SCP CR+DL 
Sbjct: 73  KKLEQSFMCVCCQE---LVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLG 124

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

 Score = 46.4 bits (109), Expect = 3e-06
 Identities = 14/70 (20%), Positives = 20/70 (28%), Gaps = 16/70 (22%)

Query: 168 EKRIESEKDCAICL-----DGIVVGQLASCTPCDHVFHKRCIDFWLEKSRS--------- 213
           ++    E  C IC       G V         C    H  C++ W +             
Sbjct: 302 DEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSF 361

Query: 214 --CPLCRNDL 221
             CP C+  L
Sbjct: 362 GQCPFCKAKL 371

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

 Score = 41.3 bits (97), Expect = 9e-06
 Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 4/54 (7%)

Query: 169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDL 221
           K +E +  C  C     V      T C H F + C+   L  S   C  C+  +
Sbjct: 10  KTVEDKYKCEKCHL---VLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESI 60

>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 = 42.7 bits (100), Expect = 2e-05
 Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 3/59 (5%)

Query: 164 TRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS-RSCPLCRNDL 221
             +  + + SE  C ICLD +      +   C H F   CI   L    + CP CR  L
Sbjct: 44  IVVSPRSLHSELMCPICLDMLK--NTMTTKECLHRFCADCIITALRSGNKECPTCRKKL 100

>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 = 2e-05
 Identities = 12/55 (21%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 164 TRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCR 218
           +R    R+E    C+ C +  ++ +      C+H+F   C+   +     CP+C 
Sbjct: 12  SRAALDRLEKLLRCSRCTN--ILREPVCLGGCEHIFCSNCVSDCIGT--GCPVCY 62

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A Length = 61

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 7/56 (12%)

Query: 167 PEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK----SRSCPLCR 218
           P       + C +C DG   G+L  C  C   +H  C++  L +       CP C 
Sbjct: 2   PLGSDHHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCT 54

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

 Score = 41.8 bits (97), Expect = 1e-04
 Identities = 30/171 (17%), Positives = 59/171 (34%), Gaps = 54/171 (31%)

Query: 4   CELKLRQDN------TILNKVRN----QLWDL-PNMQPGFIFQLRAHHVINQRATSAKPD 52
            ELK++ +N      +I++           DL P     + +    HH+ N      +  
Sbjct: 433 LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE-RMT 491

Query: 53  TF--LYLQADHTLFVTYNNMFHFLSNILADEGVTVDANGCFLSDKGLHLLRLDASGGMPI 110
            F  ++L  D          F FL   +  +    +A+G  L+     L +L        
Sbjct: 492 LFRMVFL--D----------FRFLEQKIRHDSTAWNASGSILNT----LQQL-------- 527

Query: 111 MFPQSVRIY---------TLTKLVVCVLDYFKRLRTNP-SNRFRKFVPIAM 151
                 + Y            +LV  +LD+  ++  N   +++   + IA+
Sbjct: 528 ------KFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIAL 572

>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 = 38.2 bits (89), Expect = 3e-04
 Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 12/56 (21%)

Query: 169 KRIESEKDCAICLDGI---VVGQLASCTPCDHVFHKRCIDFWLEKSR---SCPLCR 218
             ++   +C ICL+ I   V       T CDH+F K C+   L + +    CPLC+
Sbjct: 16  NAMQKILECPICLELIKEPVS------TKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65

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

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 6/55 (10%)

Query: 167 PEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR---SCPLCR 218
              +++ E  C ICLD   + Q      C H F  +CI    E S     CPLC+
Sbjct: 13  FVNKLQEEVICPICLD---ILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCK 64

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens} Length = 61

 Score = 36.6 bits (85), Expect = 4e-04
 Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 7/54 (12%)

Query: 171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK----SRSCPLCRND 220
            + +  C +C  G   G++  C  C   +H  C+D  +EK      SCP C  +
Sbjct: 8   TDHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE 58

>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 = 37.0 bits (86), Expect = 4e-04
 Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 4/50 (8%)

Query: 171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--RSCPLCR 218
           I  E  C IC D  ++        C + +   CI   L +S   +CP C 
Sbjct: 12  IPDELLCLICKD--IMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 59

>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 = 37.9 bits (88), Expect = 5e-04
 Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 4/52 (7%)

Query: 171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWL-EKSRSCPLCRNDL 221
           +ES+ +C ICL  +     A  TPC H F K CI   + +    CP+    L
Sbjct: 15  LESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL 63

>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 = 6e-04
 Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 4/50 (8%)

Query: 171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--RSCPLCR 218
           I  E  C IC D +    +  C  C + +   CI   L +S   +CP C 
Sbjct: 10  IPDELLCLICKDIMTDAVVIPC--CGNSYCDECIRTALLESDEHTCPTCH 57

>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 = 38.1 bits (88), Expect = 7e-04
 Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)

Query: 168 EKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRS-CPLCR 218
           +  +ES+ +C ICL      + A  TPC H F K CI   +  +   CP+  
Sbjct: 12  DPPLESKYECPICLM---ALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens} Length = 60

 Score = 35.9 bits (83), Expect = 8e-04
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 7/53 (13%)

Query: 171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK----SRSCPLCRN 219
           +  E  C++C      GQL  C  C  V+H  C+D  L+        CP C++
Sbjct: 2   MIHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD 51

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	224
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.68
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.65
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.59
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.57
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.55
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.54
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.51
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.5
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.47
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.46
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.44
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.44
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.41
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.41
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.39
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.38
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.38
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.35
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.34
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.34
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.34
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.33
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.33
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.32
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.3
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.29
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.29
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.28
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.25
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.25
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.25
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.23
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.23
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.22
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.22
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.22
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.19
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.18
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.18
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.17
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.16
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.15
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.14
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.13
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.11
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.1
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.07
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.07
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.06
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.01
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.01
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.98
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.95
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.93
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.92
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.92
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.88
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.85
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.82
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.77
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.75
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.72
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.68
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.65
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.64
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.62
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.47
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.44
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.43
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.13
3nw0_A	238	Non-structural maintenance of chromosomes element	97.77
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.27
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.7
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.61
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	92.4
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	90.27
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	89.3
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	88.85
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	88.18
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	87.5
1we9_A	64	PHD finger family protein; structural genomics, PH	86.63
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	85.52
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	84.97
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	84.02
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	83.48
2yt5_A	66	Metal-response element-binding transcription facto	81.66
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	80.82
1z60_A	59	TFIIH basal transcription factor complex P44 subun	80.58
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	80.26

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

Probab=99.68  E-value=2.2e-17  Score=120.50  Aligned_cols=72  Identities=38%  Similarity=0.799  Sum_probs=63.0

Q ss_pred             hhccccCChhhhhcCCcccc-------cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          152 DLRMAINNKSNVTRLPEKRI-------ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       152 ~~~~~~~~k~~i~~lp~~~~-------~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .....+++++.++.+|...+       ..+..|+||+++|+.++.++.+||+|.||..||+.|++.+.+||+||.++++
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            34566888999999987655       3567899999999988889999999999999999999999999999999875

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

Probab=99.65  E-value=5e-17  Score=114.12  Aligned_cols=53  Identities=38%  Similarity=0.938  Sum_probs=48.8

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS  224 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  224 (224)
                      .++..|+||+++++.++.++.+||+|.||..||..|++.+.+||+||.++.++
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            56778999999999888889999999999999999999999999999998753

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

Probab=99.59  E-value=5.5e-16  Score=102.08  Aligned_cols=51  Identities=39%  Similarity=0.974  Sum_probs=46.8

Q ss_pred             cCccccceeccccccCCeeEEcC-CCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      +++.+|+||+++++.++.+..++ |+|.||.+||.+|++.+.+||+||.+++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            45678999999999888888898 9999999999999999999999999875

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

Probab=99.57  E-value=2.4e-15  Score=103.63  Aligned_cols=52  Identities=40%  Similarity=0.990  Sum_probs=47.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      ..+..|+||++.+..++.++.+||+|.||..||..|+..+.+||+||..+..
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            5677899999999888888999999999999999999999999999998864

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

Probab=99.55  E-value=3.1e-15  Score=104.41  Aligned_cols=51  Identities=33%  Similarity=0.838  Sum_probs=47.1

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ..+..|+||++.+..+..+..+||+|.||..||..|++.+.+||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~   63 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL   63 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCS
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccc
Confidence            567789999999988888888999999999999999999999999999875

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

Probab=99.54  E-value=3.6e-15  Score=105.13  Aligned_cols=52  Identities=38%  Similarity=0.968  Sum_probs=47.7

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      ..+..|+||++.|..++.++.++|+|.||..||..|++.+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   64 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTG   64 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCC
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCC
Confidence            5678999999999888888889999999999999999999999999998864

>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=99.51  E-value=1.1e-14  Score=95.77  Aligned_cols=50  Identities=32%  Similarity=0.812  Sum_probs=44.3

Q ss_pred             CccccceeccccccC-CeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          173 SEKDCAICLDGIVVG-QLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       173 ~~~~C~ICle~~~~~-~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .+..|+||++.+..+ +.++.++|+|.||.+||..|++.+.+||+||.+++
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            467899999999653 35788999999999999999999999999999886

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

Probab=99.50  E-value=7.5e-15  Score=104.83  Aligned_cols=51  Identities=29%  Similarity=0.778  Sum_probs=41.7

Q ss_pred             cCccccceecccccc-----------CCeeEEcC-CCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVV-----------GQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~-----------~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .++..|+||++.|+.           ++.++.++ |+|.||.+||++|++.+.+||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            346668888888753           34466665 9999999999999999999999999875

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

Probab=99.47  E-value=2.9e-14  Score=97.60  Aligned_cols=53  Identities=32%  Similarity=0.744  Sum_probs=45.9

Q ss_pred             cCccccceeccccccC----CeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCCC
Q 037450          172 ESEKDCAICLDGIVVG----QLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS  224 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  224 (224)
                      .+...|+||++.+...    ..+..++|+|.||..||..|++.+.+||+||.++..+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~r   69 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   69 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCcC
Confidence            5678899999998643    3457899999999999999999999999999998753

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

Probab=99.46  E-value=2.2e-14  Score=98.94  Aligned_cols=52  Identities=33%  Similarity=0.758  Sum_probs=45.2

Q ss_pred             cCccccceeccccccC----CeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVG----QLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.+...    +.++.++|+|.||..||..|++.+.+||+||.++..
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   63 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccCh
Confidence            5677899999998642    445789999999999999999999999999998864

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

Probab=99.44  E-value=3.1e-14  Score=96.00  Aligned_cols=51  Identities=33%  Similarity=0.763  Sum_probs=44.2

Q ss_pred             CccccceeccccccC----CeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          173 SEKDCAICLDGIVVG----QLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       173 ~~~~C~ICle~~~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      ++..|+||++.++..    +.+..++|+|.||.+||..|++.+.+||+||.++..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   56 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   56 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCc
Confidence            467899999999642    345788999999999999999999999999999864

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

Probab=99.44  E-value=4.5e-14  Score=106.39  Aligned_cols=51  Identities=31%  Similarity=0.731  Sum_probs=41.6

Q ss_pred             cCccccceeccccccCC---------------eeEEcCCCCcccHHHHHHHH-----hcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQ---------------LASCTPCDHVFHKRCIDFWL-----EKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~---------------~~~~lpC~H~FH~~CI~~Wl-----~~~~~CP~CR~~l~  222 (224)
                      ..+..|+||++.|..+.               .++.++|+|.||..||..|+     ..+.+||+||..+.
T Consensus        23 ~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            34568999999996543               34478999999999999999     45679999999874

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

Probab=99.41  E-value=1.1e-13  Score=94.79  Aligned_cols=49  Identities=31%  Similarity=0.824  Sum_probs=43.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ..+..|+||++.++  +.++.+||+|.||..||..|++.+.+||+||.++.
T Consensus         3 ~~~~~C~IC~~~~~--~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCCeeCCcccc--CCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            35678999999985  33578999999999999999999999999999875

>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=99.41  E-value=1.1e-13  Score=103.84  Aligned_cols=50  Identities=32%  Similarity=0.681  Sum_probs=43.2

Q ss_pred             cCccccceeccccccCC---------------eeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQ---------------LASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~---------------~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      .++..|+||++.|+..-               .++.++|+|.||..||++||..+.+||+||.++
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~   99 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   99 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcc
Confidence            46788999999997431               256789999999999999999999999999985

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

Probab=99.39  E-value=2.7e-13  Score=97.13  Aligned_cols=52  Identities=25%  Similarity=0.658  Sum_probs=45.1

Q ss_pred             ccCccccceeccccccCCe-eEEcCCCCcccHHHHHHHHhcC---CCCCCcccCCC
Q 037450          171 IESEKDCAICLDGIVVGQL-ASCTPCDHVFHKRCIDFWLEKS---RSCPLCRNDLP  222 (224)
Q Consensus       171 ~~~~~~C~ICle~~~~~~~-~~~lpC~H~FH~~CI~~Wl~~~---~~CP~CR~~l~  222 (224)
                      ..+...|+||++.|..++. ++.++|+|.||..||..|++.+   ..||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   67 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR   67 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBC
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCccc
Confidence            3667899999999976553 7889999999999999999986   68999999874

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

Probab=99.38  E-value=2.9e-13  Score=93.99  Aligned_cols=49  Identities=29%  Similarity=0.496  Sum_probs=42.5

Q ss_pred             cCccccceeccccccCCeeEEc-CCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCT-PCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.+..   ++.+ +|+|.||..||..|++.+..||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A           13 TPYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             CGGGSCTTTSSCCSS---CEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             CCCCCCCCCChHHHC---cCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            667899999999852   4454 999999999999999999999999998853

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

Probab=99.38  E-value=1.5e-13  Score=95.29  Aligned_cols=48  Identities=35%  Similarity=0.747  Sum_probs=42.8

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .++..|+||++.+.   .++.++|+|.||..||..|+..+.+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           13 LTVPECAICLQTCV---HPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             SSCCBCSSSSSBCS---SEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             CCCCCCccCCcccC---CCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            55778999999984   4577899999999999999999999999999875

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

Probab=99.35  E-value=1.2e-13  Score=95.31  Aligned_cols=48  Identities=40%  Similarity=1.059  Sum_probs=43.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .+...|+||++.+..    +.+||+|.||..||..|+..+.+||+||.++..
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccC
Confidence            567889999999853    779999999999999999999999999998864

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

Probab=99.34  E-value=4.3e-13  Score=95.75  Aligned_cols=51  Identities=29%  Similarity=0.673  Sum_probs=43.3

Q ss_pred             cCccccceeccccccCCeeEEcCCC-----CcccHHHHHHHHhcCC--CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCD-----HVFHKRCIDFWLEKSR--SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~-----H~FH~~CI~~Wl~~~~--~CP~CR~~l~~  223 (224)
                      .++..|.||+++++.++.. .+||+     |.||.+||+.|+..+.  +||+||.++..
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            4567899999999766654 69997     9999999999998774  89999998753

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

Probab=99.34  E-value=3.1e-13  Score=105.58  Aligned_cols=49  Identities=35%  Similarity=0.880  Sum_probs=43.3

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.|.   .++.+||||.||..||..|+..+.+||+||.++..
T Consensus        51 ~~~~~C~iC~~~~~---~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           51 ENELQCIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HHHSBCTTTCSBCS---SEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cccCCCcccCcccC---CceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            45678999999984   56789999999999999999999999999998853

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

Probab=99.34  E-value=5.4e-13  Score=91.03  Aligned_cols=49  Identities=24%  Similarity=0.546  Sum_probs=41.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHh-cCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  223 (224)
                      .+...|+||++.+.   .+..++|+|.||..||..|+. ....||+||.++..
T Consensus        13 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           13 EDKYKCEKCHLVLC---SPKQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             CCCEECTTTCCEES---SCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CcCCCCCCCChHhc---CeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            56788999999985   345589999999999999995 56689999999864

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

Probab=99.33  E-value=1.1e-12  Score=90.97  Aligned_cols=49  Identities=33%  Similarity=0.626  Sum_probs=42.3

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHh---cCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE---KSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~---~~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.+.   .+..++|+|.||..||..|++   ....||+||.++..
T Consensus        18 ~~~~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           18 QEEVICPICLDILQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCBCTTTCSBCS---SEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             ccCCEeccCCcccC---CeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            66789999999984   467789999999999999997   45589999999864

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

Probab=99.33  E-value=8.4e-13  Score=92.27  Aligned_cols=48  Identities=31%  Similarity=0.611  Sum_probs=41.7

Q ss_pred             cCccccceeccccccCCeeEEcC-CCCcccHHHHHHHHhcC--CCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKS--RSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~  222 (224)
                      .++..|+||++.|.   .++.++ |+|.||..||..|++.+  ..||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           13 PDELLCLICKDIMT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             CGGGSCSSSCCCCT---TCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCCcCCChHHh---CCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            66789999999995   456799 99999999999999876  58999999753

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

Probab=99.32  E-value=1.2e-12  Score=92.81  Aligned_cols=48  Identities=23%  Similarity=0.459  Sum_probs=42.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .....|+||++.+.   .+..++|+|.||..||..|++....||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQ---NPVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCC---SEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhc---CeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            55778999999984   4567999999999999999999999999999874

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

Probab=99.30  E-value=1.6e-12  Score=91.29  Aligned_cols=49  Identities=18%  Similarity=0.426  Sum_probs=42.9

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.|+   .++.++|||.||..||..|+.. +.+||+||.++..
T Consensus         6 ~~~~~C~IC~~~~~---~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            6 PEYFRCPISLELMK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCS---SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cccCCCCCcccccc---CCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            56789999999994   5677899999999999999987 6789999998753

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

Probab=99.29  E-value=2.3e-12  Score=91.29  Aligned_cols=50  Identities=34%  Similarity=0.787  Sum_probs=43.0

Q ss_pred             ccCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc------CCCCCCcccCCCC
Q 037450          171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK------SRSCPLCRNDLPA  223 (224)
Q Consensus       171 ~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~  223 (224)
                      ..++..|+||++.+.   .+..++|+|.||..||..|+..      ...||+||..+..
T Consensus        16 ~~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           16 IKEEVTCPICLELLK---EPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CCTTTSCTTTCSCCS---SCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             CccCCCCcCCChhhC---cceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            366789999999984   3467999999999999999988      6689999998863

>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=99.29  E-value=3.1e-13  Score=103.18  Aligned_cols=50  Identities=32%  Similarity=0.709  Sum_probs=1.7

Q ss_pred             cCccccceeccccccC-------------C--eeEEcCCCCcccHHHHHHHHhcCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVG-------------Q--LASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~-------------~--~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l  221 (224)
                      ..+..|+||++.|+..             +  .+..++|+|.||..||++||+.+.+||+||.++
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~  110 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW  110 (117)
T ss_dssp             CCC--------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCee
Confidence            4568899999999642             1  233468999999999999999999999999985

>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=99.28  E-value=1e-12  Score=97.18  Aligned_cols=48  Identities=29%  Similarity=0.670  Sum_probs=42.5

Q ss_pred             cCccccceeccccccCCeeEE-cCCCCcccHHHHHHHHhcC-CCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASC-TPCDHVFHKRCIDFWLEKS-RSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~-lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~  222 (224)
                      .++..|+||++.+.   .++. ++|+|.||..||..|+..+ .+||+||.++.
T Consensus        20 ~~~~~C~IC~~~~~---~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   69 (100)
T 3lrq_A           20 AEVFRCFICMEKLR---DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ   69 (100)
T ss_dssp             HHHTBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCcccc---CccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCC
Confidence            66788999999994   4566 9999999999999999988 69999999875

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

Probab=99.25  E-value=3.5e-12  Score=90.36  Aligned_cols=49  Identities=31%  Similarity=0.691  Sum_probs=42.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc------CCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK------SRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~  223 (224)
                      .+...|+||++.+.   .+..++|+|.||..||..|+..      ...||+||..+..
T Consensus        17 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           17 KEEVTCPICLELLT---QPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCTTTCSCCS---SCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             cCCCCCCCCCcccC---CceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            66789999999985   3567899999999999999987      7799999998753

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

Probab=99.25  E-value=2.2e-12  Score=98.66  Aligned_cols=52  Identities=33%  Similarity=0.758  Sum_probs=44.9

Q ss_pred             cCccccceeccccccC----CeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVG----QLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.|+..    ..++.++|||.||.+||..|++.+.+||+||..+..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   60 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcc
Confidence            4567899999999643    445889999999999999999999999999998864

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

Probab=99.25  E-value=9.9e-13  Score=92.39  Aligned_cols=49  Identities=27%  Similarity=0.613  Sum_probs=42.2

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-------CCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-------SRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-------~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.+.   .++.++|+|.||..||..|+..       ...||+||..+..
T Consensus        10 ~~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           10 QEEVTCPICLELLT---EPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCEETTTTEECS---SCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             ccCCCCcCCCcccC---CeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            56789999999985   3566899999999999999987       5689999998753

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

Probab=99.23  E-value=3.5e-12  Score=93.78  Aligned_cols=48  Identities=25%  Similarity=0.618  Sum_probs=42.0

Q ss_pred             cCccccceeccccccCCeeEEc-CCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCT-PCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .+...|+||++.+.   .+..+ +|+|.||..||..|+..+.+||+||..+.
T Consensus        20 ~~~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   68 (99)
T 2y43_A           20 DDLLRCGICFEYFN---IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT   68 (99)
T ss_dssp             HHHTBCTTTCSBCS---SEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCCCCcccCChhhC---CcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCC
Confidence            55778999999995   35555 89999999999999999999999999875

>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=99.23  E-value=5.5e-12  Score=94.20  Aligned_cols=49  Identities=31%  Similarity=0.640  Sum_probs=42.7

Q ss_pred             cCccccceeccccccCCeeEEc-CCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCT-PCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.+.   .+..+ +|+|.||..||..|+..+..||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           13 NPHLMCVLCGGYFI---DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GGGTBCTTTSSBCS---SEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             CCcCCCccCChHHh---CcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            66789999999995   34555 999999999999999999999999998753

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

Probab=99.22  E-value=8.5e-12  Score=84.14  Aligned_cols=43  Identities=37%  Similarity=0.681  Sum_probs=37.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHh---cCCCCCCc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE---KSRSCPLC  217 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~---~~~~CP~C  217 (224)
                      .++..|+||++.++   .++.++|+|.||..||..|++   ....||+|
T Consensus        18 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCS---SCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhC---CeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            67789999999985   467789999999999999998   45589998

>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=99.22  E-value=4.4e-12  Score=96.99  Aligned_cols=49  Identities=33%  Similarity=0.618  Sum_probs=42.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  223 (224)
                      .++..|+||++.+.   .++.+||+|.||..||..|+..+. .||+||..+..
T Consensus        50 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVF---RPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCS---SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHc---CcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            56778999999994   567789999999999999998655 89999998854

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

Probab=99.22  E-value=7e-12  Score=85.17  Aligned_cols=51  Identities=22%  Similarity=0.585  Sum_probs=40.7

Q ss_pred             Cccccceecc-ccccCCee-EEcCCCCcccHHHHHHHHhcC-CCCCCcccCCCC
Q 037450          173 SEKDCAICLD-GIVVGQLA-SCTPCDHVFHKRCIDFWLEKS-RSCPLCRNDLPA  223 (224)
Q Consensus       173 ~~~~C~ICle-~~~~~~~~-~~lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  223 (224)
                      ++..|+||++ .+...... ..++|||.||..||+.|+... ..||+||..+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            4568999999 77654432 468999999999999997654 579999998853

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

Probab=99.19  E-value=1.4e-11  Score=89.21  Aligned_cols=47  Identities=32%  Similarity=0.636  Sum_probs=41.2

Q ss_pred             cCccccceeccccccCCeeEEcC-CCCcccHHHHHHHHhcC--CCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKS--RSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~Wl~~~--~~CP~CR~~l  221 (224)
                      .++..|+||++.|.   .++.+| |+|.||..||..|+..+  ..||+||..+
T Consensus        11 ~~~~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           11 PDELLCLICKDIMT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CTTTEETTTTEECS---SCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             CcCCCCCCCChhhc---CceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            66789999999994   567899 99999999999999754  4899999986

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

Probab=99.18  E-value=7.5e-12  Score=95.65  Aligned_cols=52  Identities=33%  Similarity=0.758  Sum_probs=45.1

Q ss_pred             cCccccceeccccccC----CeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVG----QLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~----~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .+...|+||++.++..    ..++.++|+|.||..||++|++.+.+||+||.++..
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~  125 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH  125 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCCh
Confidence            5678899999998642    334788999999999999999999999999999864

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

Probab=99.18  E-value=1.2e-11  Score=81.71  Aligned_cols=43  Identities=35%  Similarity=0.903  Sum_probs=36.3

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHh---cCCCCCCc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE---KSRSCPLC  217 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~---~~~~CP~C  217 (224)
                      .+...|+||++.++.   ++.++|+|.||..||..|+.   .+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKE---PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSS---CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCc---cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            567889999999953   46689999999999999954   56689998

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

Probab=99.17  E-value=1.7e-11  Score=86.20  Aligned_cols=49  Identities=31%  Similarity=0.786  Sum_probs=42.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC--CCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--RSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~--~~CP~CR~~l~  222 (224)
                      +....|+||.+.+..++  +...|+|.||..||.+|++.+  .+||+||.+.+
T Consensus        13 ~~i~~C~IC~~~i~~g~--~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSE--ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCC--ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            45678999999997554  444899999999999999988  79999999865

>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=99.16  E-value=1.1e-11  Score=92.57  Aligned_cols=49  Identities=39%  Similarity=0.849  Sum_probs=41.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC---CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR---SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~l~~  223 (224)
                      .+...|+||++.+.   .+..++|+|.||..||..|+..+.   .||+||..+..
T Consensus        19 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           19 QKILECPICLELIK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHHTSCSSSCCCCS---SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCCCCCcccChhhc---CeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            45678999999984   345689999999999999998764   89999998753

>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=99.15  E-value=1.4e-11  Score=92.98  Aligned_cols=48  Identities=29%  Similarity=0.525  Sum_probs=42.1

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~  222 (224)
                      .++..|+||++.+.   .+..++|+|.||..||..|+.. ..+||+||.++.
T Consensus        21 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   69 (116)
T 1rmd_A           21 VKSISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF   69 (116)
T ss_dssp             HHHTBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             cCCCCCCCCCcHhc---CcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCC
Confidence            55788999999984   4567999999999999999997 678999999875

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

Probab=99.14  E-value=2e-11  Score=96.86  Aligned_cols=49  Identities=31%  Similarity=0.573  Sum_probs=42.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  223 (224)
                      .+...|+||++.+.   .+..++|+|.||..||..|+.... .||+||..+..
T Consensus        76 ~~~~~C~IC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  125 (150)
T 1z6u_A           76 EQSFMCVCCQELVY---QPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ  125 (150)
T ss_dssp             HHHTBCTTTSSBCS---SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCEeecCChhhc---CCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCC
Confidence            55788999999984   566799999999999999999765 89999998864

>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=99.13  E-value=1.6e-11  Score=98.31  Aligned_cols=49  Identities=37%  Similarity=0.695  Sum_probs=41.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~  222 (224)
                      .....|+||++.+.  +.+..++|+|.||..||..|+.. +..||+||..+.
T Consensus        52 ~~~~~C~IC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  101 (165)
T 2ckl_B           52 HSELMCPICLDMLK--NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV  101 (165)
T ss_dssp             HHHHBCTTTSSBCS--SEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCCCCCcccChHhh--CcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCC
Confidence            56779999999995  33333499999999999999997 678999999874

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

Probab=99.11  E-value=2.2e-11  Score=92.40  Aligned_cols=49  Identities=37%  Similarity=0.634  Sum_probs=42.7

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  223 (224)
                      .++..|+||++.+.   .+..++|+|.||..||..|+..+. +||+||.++..
T Consensus        16 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           16 ESKYECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             CGGGBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCcCChhhc---CeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            66789999999984   457789999999999999998876 99999998753

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

Probab=99.10  E-value=5.4e-11  Score=85.52  Aligned_cols=49  Identities=18%  Similarity=0.078  Sum_probs=44.1

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .+...|+||++.|   ..++.++|||+|+..||..|+..+.+||+||.++..
T Consensus        12 p~~~~CpI~~~~m---~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           12 PDEFRDPLMDTLM---TDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             CTTTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             chheECcccCchh---cCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            5678999999999   567889999999999999999988899999998753

>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=99.07  E-value=1.2e-11  Score=93.21  Aligned_cols=48  Identities=38%  Similarity=0.806  Sum_probs=41.4

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~  222 (224)
                      .++..|+||++.+.   .++.++|+|.||..||..|+.. ...||+||..+.
T Consensus        13 ~~~~~C~iC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILV---EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCS---SCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccC---ceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            55778999999984   4677899999999999999987 568999999864

>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=99.07  E-value=1e-10  Score=86.36  Aligned_cols=49  Identities=16%  Similarity=0.055  Sum_probs=44.3

Q ss_pred             cCccccceeccccccCCeeEEcCCC-CcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCD-HVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.|   ..++.++|+ |.|+..||..|+..+.+||+||.++..
T Consensus        20 p~~~~CpI~~~~m---~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           20 CDEFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CTTTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             cHhcCCcCccccc---cCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            5678999999999   567889999 999999999999988899999998864

>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=99.06  E-value=1e-10  Score=86.67  Aligned_cols=49  Identities=16%  Similarity=0.096  Sum_probs=44.4

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .+...|+||++.|   ..++.++|||+|+..||..|+..+.+||+||.+++.
T Consensus        27 p~~~~CpI~~~~m---~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           27 PDEFRDPLMDTLM---TDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             STTTBCTTTCSBC---SSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             cHhhCCcCccCcc---cCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            5688999999999   567889999999999999999988899999998864

>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=99.06  E-value=8.1e-11  Score=106.28  Aligned_cols=47  Identities=28%  Similarity=0.816  Sum_probs=41.5

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHh-cCCCCCCcccCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDLP  222 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~-~~~~CP~CR~~l~  222 (224)
                      ....|+||++.+   ..++.+||+|.||..||..|+. .+.+||+||.++.
T Consensus       331 ~~~~C~ICle~~---~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~  378 (389)
T 2y1n_A          331 TFQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK  378 (389)
T ss_dssp             SSSBCTTTSSSB---CCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCcCC---CCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccC
Confidence            347899999988   4578899999999999999999 6789999999875

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

Probab=99.01  E-value=1.5e-10  Score=78.74  Aligned_cols=48  Identities=19%  Similarity=0.480  Sum_probs=40.4

Q ss_pred             cCccccceeccccccCCeeEEc--CCCCc-ccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCT--PCDHV-FHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~l--pC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .++..|.||++...   .+..+  ||||. |+.+|+..|.+.+..||+||.++.
T Consensus         6 ~~~~~C~IC~~~~~---~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPK---NGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCS---CEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCC---CEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            45678999999874   33444  99999 899999999999999999999874

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

Probab=99.01  E-value=1.1e-10  Score=91.70  Aligned_cols=47  Identities=19%  Similarity=0.454  Sum_probs=41.4

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-CCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l  221 (224)
                      .++..|+||++.+.   .++.++|||.||..||..|+.... +||+||.++
T Consensus        29 ~~~~~C~IC~~~~~---~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           29 EAKYLCSACRNVLR---RPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             CGGGBCTTTCSBCS---SEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             CcCcCCCCCChhhc---CcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            67889999999994   457789999999999999998775 899999975

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

Probab=98.98  E-value=8.7e-11  Score=77.73  Aligned_cols=45  Identities=22%  Similarity=0.547  Sum_probs=38.4

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .+...|+||++.+.   .++.+||+|.||..||..|   ...||+||..+.
T Consensus         4 ~~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~   48 (56)
T 1bor_A            4 FQFLRCQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSSCB---CCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSS
T ss_pred             ccCCCceEeCCccC---CeEEcCCCCcccHHHHccC---CCCCCcCCcEee
Confidence            45678999999995   4578999999999999884   568999999875

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

Probab=98.95  E-value=3.2e-10  Score=80.35  Aligned_cols=51  Identities=22%  Similarity=0.617  Sum_probs=39.9

Q ss_pred             cCccccceeccccccCCeeEEcC--CCCcccHHHHHHHHhc-CCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTP--CDHVFHKRCIDFWLEK-SRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lp--C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.+...+ +..+|  |||.||..|+..++.. ...||.||..+..
T Consensus         9 ~~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~   62 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   62 (78)
T ss_dssp             CCCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSS
T ss_pred             ccCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCC
Confidence            56788999999885433 23444  9999999999998754 4589999998753

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

Probab=98.93  E-value=1.3e-10  Score=88.01  Aligned_cols=46  Identities=24%  Similarity=0.637  Sum_probs=40.2

Q ss_pred             cCccccceeccccccCCeeEEc-CCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCT-PCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .+...|+||++.|.   .+..+ +|||.||..||..|+.  ..||+||..+.
T Consensus        20 ~~~~~C~IC~~~~~---~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           20 EKLLRCSRCTNILR---EPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             HHTTSCSSSCSCCS---SCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             hhCCCCCCCChHhh---CccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            56789999999994   45667 8999999999999998  78999999874

>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=98.92  E-value=4.8e-10  Score=76.02  Aligned_cols=48  Identities=19%  Similarity=0.438  Sum_probs=39.8

Q ss_pred             cCccccceeccccccCCeeEEc--CCCCc-ccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCT--PCDHV-FHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~l--pC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      +....|.||++...   ....+  ||||. |+.+|+..|.+.+..||+||.++.
T Consensus         5 ~~~~~C~IC~~~~~---~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPR---DGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBS---CEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCC---CeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            44668999999763   23344  99998 999999999998889999999875

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

Probab=98.92  E-value=2.1e-10  Score=80.17  Aligned_cols=44  Identities=32%  Similarity=0.742  Sum_probs=38.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCc-ccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHV-FHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .++..|+||++.+   ..+..+||+|. ||..|+..|    ..||+||..+.
T Consensus        22 ~~~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           22 QEEKLCKICMDRN---IAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HHHTBCTTTSSSB---CCEEEETTCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             ccCCCCCCCCCCC---CCEEEcCCCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            5567899999987   45678899999 999999998    78999999875

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.88  E-value=8.8e-10  Score=94.02  Aligned_cols=49  Identities=16%  Similarity=0.218  Sum_probs=42.9

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  223 (224)
                      .....|+||++.|   ..++++||||+||..||..|+..+. +||+||.+++.
T Consensus       206 ~~~~~c~i~~~~~---~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          206 PDYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CSTTBCTTTCSBC---SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CcccCCcCcCCHh---cCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            5688999999999   5678899999999999999998754 59999998863

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

Probab=98.85  E-value=9.4e-10  Score=88.28  Aligned_cols=49  Identities=37%  Similarity=0.634  Sum_probs=42.3

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC-CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  223 (224)
                      .+...|+||++.+.   .+..++|+|+||..||..|+..+. +||+||..+..
T Consensus        16 ~~~~~C~IC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           16 ESKYECPICLMALR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             CGGGBCTTTCSBCS---SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCChhhc---CcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            66789999999994   456789999999999999998755 99999998753

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.82  E-value=1.4e-09  Score=79.40  Aligned_cols=46  Identities=22%  Similarity=0.486  Sum_probs=39.2

Q ss_pred             cCccccceeccccccCCeeEEcC-CCCcccHHHHHHHHhcC------CCCCC--cccC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKS------RSCPL--CRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~Wl~~~------~~CP~--CR~~  220 (224)
                      ..+..|+||++.|   ..++.++ |||+|+..||..|+..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~---~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEM---KKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBC---SSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchh---cCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            4567899999999   4577886 99999999999999864      48999  9865

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

Probab=98.77  E-value=1.5e-09  Score=96.20  Aligned_cols=52  Identities=25%  Similarity=0.678  Sum_probs=40.8

Q ss_pred             cCccccceecccccc-CCeeE----EcCCCCcccHHHHHHHHhcC-----------CCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVV-GQLAS----CTPCDHVFHKRCIDFWLEKS-----------RSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~-~~~~~----~lpC~H~FH~~CI~~Wl~~~-----------~~CP~CR~~l~~  223 (224)
                      +...+|+||++.+.. +..+.    -.+|+|.||..||.+|++..           .+||.||++++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            567899999999876 33221    24699999999999999753           369999998754

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

Probab=98.75  E-value=2.1e-09  Score=75.08  Aligned_cols=45  Identities=31%  Similarity=0.720  Sum_probs=37.3

Q ss_pred             cCccccceeccccccCCeeEEcCCCCc-ccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHV-FHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .++..|+||++.+   ..+..+||+|. ||..|+..    ...||+||.++..
T Consensus        23 ~~~~~C~IC~~~~---~~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           23 QEEKLCKICMDRN---IAIVFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHHSCSSSCSSC---CCBCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCCCcCCCCC---CCEEEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            4567899999987   45677999999 99999964    4789999998753

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

Probab=98.72  E-value=5.7e-09  Score=85.01  Aligned_cols=49  Identities=16%  Similarity=0.219  Sum_probs=42.7

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC-CCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS-RSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  223 (224)
                      .....|+||++.|   ..++.+||||+|+..||..|+..+ .+||+||.+++.
T Consensus       104 p~~f~CPI~~elm---~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccccC---CCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            5678999999999   457889999999999999999874 479999998863

>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=98.68  E-value=9.3e-09  Score=74.70  Aligned_cols=50  Identities=28%  Similarity=0.686  Sum_probs=40.2

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC--------CCCCC--cccC--CC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--------RSCPL--CRND--LP  222 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~--------~~CP~--CR~~--l~  222 (224)
                      +..+|+||++++...+.+...+|+|.||.+||..++..+        ..||.  |+..  ++
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~   65 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQ   65 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEEC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccC
Confidence            466899999999765555556899999999999998642        37999  9988  54

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

Probab=98.65  E-value=1.6e-08  Score=69.53  Aligned_cols=44  Identities=32%  Similarity=0.859  Sum_probs=37.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCc-ccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHV-FHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .+...|.||++..   ..+..+||+|. ||..|+..    ...||+||..+.
T Consensus        13 ~~~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~   57 (68)
T 2ea5_A           13 ENSKDCVVCQNGT---VNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQ   57 (68)
T ss_dssp             CCSSCCSSSSSSC---CCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCC
T ss_pred             CCCCCCCCcCcCC---CCEEEECCCChhhhHHHHhc----CCCCCCCCcchh
Confidence            4577899999976   45788999999 99999984    578999999875

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

Probab=98.64  E-value=1.6e-08  Score=67.99  Aligned_cols=49  Identities=24%  Similarity=0.637  Sum_probs=38.4

Q ss_pred             cCccccceeccccccCCeeEEcCCC--C---cccHHHHHHHHhc--CCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCD--H---VFHKRCIDFWLEK--SRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~--H---~FH~~CI~~Wl~~--~~~CP~CR~~l~~  223 (224)
                      ++...|.||+++.  ++. ..+||.  |   .||.+||..|+..  +.+||+||.++..
T Consensus         4 ~~~~~CrIC~~~~--~~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNE-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEEC--SCC-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCC--CCc-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            4567899999974  233 468965  4   9999999999975  4689999998764

>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=98.62  E-value=6.7e-09  Score=73.50  Aligned_cols=44  Identities=25%  Similarity=0.677  Sum_probs=37.3

Q ss_pred             cCccccceeccccccCCeeEEcCCCCc-ccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHV-FHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .++..|+||++.+   ..+..+||||. ||..|+..|    ..||+||..+.
T Consensus        16 ~~~~~C~IC~~~~---~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           16 KEAMLCMVCCEEE---INSTFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HHHTBCTTTSSSB---CCEEEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCCCEeEEeCccc---CcEEEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            4466899999987   45778999999 999999877    38999999874

>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=98.47  E-value=5.6e-08  Score=65.45  Aligned_cols=47  Identities=15%  Similarity=0.228  Sum_probs=40.5

Q ss_pred             ccccceeccccccCCeeEEc-CCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          174 EKDCAICLDGIVVGQLASCT-PCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       174 ~~~C~ICle~~~~~~~~~~l-pC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      ...|+||++.++   .+..+ +|||+|..+||.+|++.+.+||+.+.++..
T Consensus         3 ~~~CpIs~~~m~---dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPR---RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCS---SEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             eEEecCCCCCCC---CCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            457999999995   45667 899999999999999988899999998853

>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=98.44  E-value=7.1e-08  Score=82.66  Aligned_cols=49  Identities=27%  Similarity=0.533  Sum_probs=40.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC--CCCCC--cccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--RSCPL--CRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~--~~CP~--CR~~l~  222 (224)
                      ..+..|+||++.|+  +-++.+.|||+|+..||..|++.+  .+||+  ||..+.
T Consensus       179 ~~el~CPIcl~~f~--DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          179 KIELTCPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             BCCSBCTTTSSBCS--SEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             ceeeECcCccCccc--CCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            67889999999995  333345899999999999999865  37999  998764

>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=98.43  E-value=3.6e-08  Score=87.94  Aligned_cols=44  Identities=30%  Similarity=0.815  Sum_probs=38.9

Q ss_pred             cCccccceeccccccCCeeEEcCCCCc-ccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHV-FHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .++..|+||++.+   ..+..+||||. ||..|+..|    ..||+||.++.
T Consensus       293 ~~~~~C~IC~~~~---~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          293 QEERTCKVCMDKE---VSVVFIPCGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             HTTCBCTTTSSSB---CCEEEETTCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             cCCCCCCccCCcC---CceEEcCCCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            5678999999988   45677899999 999999988    68999999875

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=98.13  E-value=1.5e-06  Score=63.72  Aligned_cols=45  Identities=29%  Similarity=0.583  Sum_probs=37.2

Q ss_pred             ccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCCC
Q 037450          176 DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDLP  222 (224)
Q Consensus       176 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~  222 (224)
                      -|++|--.+.  ...+.+||+|+||.+|+..|.++ .++||.|+.++.
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            4778877664  55789999999999999999865 578999999874

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

Probab=97.77  E-value=1.3e-05  Score=67.78  Aligned_cols=48  Identities=29%  Similarity=0.766  Sum_probs=40.1

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC--CCCCcccCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR--SCPLCRNDLP  222 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~--~CP~CR~~l~  222 (224)
                      ....|.||.+....|  .+.-.|+|.||..|+..|++.+.  .||.|+...+
T Consensus       179 ~i~~C~iC~~iv~~g--~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          179 AVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             TCCBCTTTCSBCSSC--EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCCcCcchhhHHhCC--cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            477899999988755  34555999999999999998765  8999998765

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.27  E-value=0.011  Score=42.56  Aligned_cols=36  Identities=14%  Similarity=0.484  Sum_probs=27.0

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHH-HH
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDF-WL  208 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~-Wl  208 (224)
                      ++..|+||.+.+........+.|+|.||..|+.. |.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            4568999998653333334599999999999998 53

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=94.61  E-value=0.02  Score=38.62  Aligned_cols=47  Identities=28%  Similarity=0.559  Sum_probs=35.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~CR~~l  221 (224)
                      .....|.||.+   .++.+..-.|...||..|+++.|....    .||.|....
T Consensus        10 ~~~~~C~vC~~---~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           10 APGARCGVCGD---GTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CTTCCCTTTSC---CTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCcCCCCC---CCeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            34567999975   345555566999999999998876554    699998754

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=92.40  E-value=0.099  Score=36.90  Aligned_cols=38  Identities=24%  Similarity=0.619  Sum_probs=25.5

Q ss_pred             ccccCccccceeccccccCCeeEEcCCCCcccHHHHHHH
Q 037450          169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFW  207 (224)
Q Consensus       169 ~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~W  207 (224)
                      +.+..+..|.||-. +..++....--|+-.||..|+.+-
T Consensus        10 e~~~~D~~C~VC~~-~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           10 EPVVNDEMCDVCEV-WTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCSCCCTTTCC-CCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             cCCCCCcccCcccc-ccccceeccccccccccHhhcccc
Confidence            33467888999953 333333223338899999999986

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=90.27  E-value=0.14  Score=33.73  Aligned_cols=45  Identities=33%  Similarity=0.919  Sum_probs=33.4

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC----CCCCCccc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS----RSCPLCRN  219 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~----~~CP~CR~  219 (224)
                      ..+..|.||.+.   ++.+..-.|...||..|+.+-+...    -.||.|+.
T Consensus         9 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            9 DHQDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCCSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            567789999873   4555555699999999999855432    26999975

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=89.30  E-value=0.15  Score=32.03  Aligned_cols=44  Identities=27%  Similarity=0.656  Sum_probs=30.3

Q ss_pred             ccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCccc
Q 037450          176 DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLCRN  219 (224)
Q Consensus       176 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~CR~  219 (224)
                      .|.||...-..++.+..-.|...||..|+++=+....    .||.|+.
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            4888886533334445556999999999986444322    5999975

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=88.85  E-value=0.068  Score=35.23  Aligned_cols=47  Identities=30%  Similarity=0.735  Sum_probs=33.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~CR~~l  221 (224)
                      ..+..|.||.+.   ++.+..-.|...||..|+.+-+....    .||.|+...
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            557779999862   34444455999999999987554332    699998754

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=88.18  E-value=0.16  Score=36.20  Aligned_cols=51  Identities=29%  Similarity=0.565  Sum_probs=36.7

Q ss_pred             CcccccCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCcccC
Q 037450          167 PEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLCRND  220 (224)
Q Consensus       167 p~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~CR~~  220 (224)
                      .......+..|.+|...   ++.+..-.|.-.||..|+.+=+....    .||.|+..
T Consensus        18 ~~~~d~n~~~C~vC~~~---g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           18 FGTLDDSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             CCSSSSSSSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             ccccCCCCCcCcCcCCC---CCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            33333677889999863   45555556999999999988665433    69999864

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=87.50  E-value=0.11  Score=35.47  Aligned_cols=50  Identities=22%  Similarity=0.492  Sum_probs=34.2

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc----CCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK----SRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~----~~~CP~CR~~l  221 (224)
                      .+...|.||......+..+..-.|...||..|+..-...    .-.||.|+..+
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            445669999876532233444559999999999765442    33699998754

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=86.63  E-value=0.099  Score=34.52  Aligned_cols=49  Identities=27%  Similarity=0.661  Sum_probs=34.1

Q ss_pred             cCccccceeccccccC-CeeEEcCCCCcccHHHHHHHHh-----cCCCCCCcccC
Q 037450          172 ESEKDCAICLDGIVVG-QLASCTPCDHVFHKRCIDFWLE-----KSRSCPLCRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~-~~~~~lpC~H~FH~~CI~~Wl~-----~~~~CP~CR~~  220 (224)
                      .+...|+||...+..+ ..+..-.|...||..|+.--..     ....||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            4567899999887433 3344556999999999854322     33479999764

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=85.52  E-value=0.22  Score=35.89  Aligned_cols=48  Identities=21%  Similarity=0.430  Sum_probs=33.6

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc---CCCCCCcccC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK---SRSCPLCRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~---~~~CP~CR~~  220 (224)
                      .+...| ||......+..+..-.|.-.||..|+..=+..   ...||.|+..
T Consensus        26 ~d~vrC-iC~~~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~~   76 (98)
T 2lv9_A           26 TDVTRC-ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQPR   76 (98)
T ss_dssp             CCBCCC-TTSCCSCSSCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSSS
T ss_pred             CCCEEe-ECCCccCCCcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcCC
Confidence            344567 89877655666666679999999999653322   2379999753

>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=84.97  E-value=0.62  Score=46.37  Aligned_cols=49  Identities=14%  Similarity=0.065  Sum_probs=42.8

Q ss_pred             cCccccceeccccccCCeeEEcCCC-CcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCD-HVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .+...|||-++.+   ..++.+|-| +.|-..+|..|+..+.+||.=|.++..
T Consensus       889 P~~F~cPIs~~lM---~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~  938 (968)
T 3m62_A          889 PDEFLDPLMYTIM---KDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKL  938 (968)
T ss_dssp             CGGGBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             cHHhCCcchhhHH---hCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCc
Confidence            5678899999988   567889987 699999999999999999999888753

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=84.02  E-value=0.08  Score=34.17  Aligned_cols=45  Identities=36%  Similarity=0.848  Sum_probs=32.7

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCccc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLCRN  219 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~CR~  219 (224)
                      ..+..|.||.+.   ++.+..-.|...||..|+.+-+....    .||.|+.
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS---SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC---CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            557789999874   45555556999999999987554332    5888864

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=83.48  E-value=0.26  Score=36.05  Aligned_cols=47  Identities=28%  Similarity=0.647  Sum_probs=32.3

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc----CCCCCCcc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK----SRSCPLCR  218 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~----~~~CP~CR  218 (224)
                      ..+..|.||.+.=+..+.+..-.|...||..|+...+..    .-.||.|+
T Consensus         5 ~~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            5 SSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            457789999875332333566679999999999887642    22566654

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=81.66  E-value=0.25  Score=32.69  Aligned_cols=52  Identities=19%  Similarity=0.502  Sum_probs=35.4

Q ss_pred             cCccccceecccccc--CCeeEEcCCCCcccHHHHHHHHh-------cCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVV--GQLASCTPCDHVFHKRCIDFWLE-------KSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~--~~~~~~lpC~H~FH~~CI~~Wl~-------~~~~CP~CR~~l~~  223 (224)
                      .++..|.||......  +..+..-.|.-.||..|+.+-+.       ..-.||.|......
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~~~   64 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATTT   64 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTTSC
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCcccc
Confidence            456789999976432  33444455999999999986432       23379999876543

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=80.82  E-value=1.1  Score=30.74  Aligned_cols=49  Identities=22%  Similarity=0.490  Sum_probs=32.2

Q ss_pred             cCccccceeccccc-cCCeeEEcCCCCcccHHHHHHHHh-----cCCCCCCcccCC
Q 037450          172 ESEKDCAICLDGIV-VGQLASCTPCDHVFHKRCIDFWLE-----KSRSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~-~~~~~~~lpC~H~FH~~CI~~Wl~-----~~~~CP~CR~~l  221 (224)
                      .+...| ||...+. .+..+..-.|...||..|+.--..     ....||.|+...
T Consensus        10 ~~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           10 LVPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CCccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            344556 8988764 233455556999999999842211     344799998754

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=80.58  E-value=0.46  Score=31.20  Aligned_cols=43  Identities=28%  Similarity=0.599  Sum_probs=31.2

Q ss_pred             cccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCc
Q 037450          175 KDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLC  217 (224)
Q Consensus       175 ~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~C  217 (224)
                      ..|-.|...+.....++...|++.|+.+|=.-.-++-+.||-|
T Consensus        16 ~~C~~C~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           16 RFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CcccccCcccCCCccEECCccCcCcccchhHHHHhhccCCcCC
Confidence            4599999988533346667799999999944434455689988

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=80.26  E-value=0.16  Score=33.93  Aligned_cols=46  Identities=35%  Similarity=0.855  Sum_probs=33.0

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCcccC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLCRND  220 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~CR~~  220 (224)
                      ..+..|.||.+.   ++.+..-.|...||..|+.+-+....    .||.|...
T Consensus         6 ~~~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~   55 (66)
T 1xwh_A            6 KNEDECAVCRDG---GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQA   55 (66)
T ss_dssp             SCCCSBSSSSCC---SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHT
T ss_pred             CCCCCCccCCCC---CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCc
Confidence            456789999863   45555556999999999986544322    59999753

---

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	224
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-15
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	6e-12
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	8e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	7e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	7e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	2e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	6e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-06
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-06
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	8e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	3e-05
d1mm2a_	61	g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens	2e-04
d1fp0a1	70	g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-	6e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	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 = 65.3 bits (159), Expect = 4e-15
 Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 171 IESEKDCAICLDGIVVGQ-LASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDL 221
           ++   +CA+CL  +  G+       C H FH  C+D WL    +CPLCR  +
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 56.9 bits (137), Expect = 6e-12
 Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP 222
           C ICL+       +   PC H F   CI  W+ ++ +CPLC+  + 
Sbjct: 8   CPICLE--DPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.1 bits (124), Expect = 8e-10
 Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 15/63 (23%)

Query: 173 SEKDCAICLDGIV---------------VGQLASCTPCDHVFHKRCIDFWLEKSRSCPLC 217
              +CAIC + I+                    +   C+H FH  CI  WL+  + CPL 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 218 RND 220
             +
Sbjct: 80  NRE 82

>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 = 49.2 bits (117), Expect = 7e-09
 Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 4/51 (7%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDL 221
            + + C IC +           PC H+    C+  W E + + CP CR ++
Sbjct: 21  STFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.6 bits (108), Expect = 7e-08
 Identities = 10/48 (20%), Positives = 15/48 (31%), Gaps = 6/48 (12%)

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
           C  C       +     PC H     C++        CP+C+   P  
Sbjct: 9   CQQCQAEAKCPK---LLPCLHTLCSGCLEAS---GMQCPICQAPWPLG 50

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.2 bits (106), Expect = 2e-07
 Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 3/51 (5%)

Query: 174 EKDCAICLDGIVVGQ--LASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDL 221
           ++ C  C                C H   + C+D      + +CP C   L
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 44.3 bits (104), Expect = 6e-07
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 6/57 (10%)

Query: 169 KRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR---SCPLCRNDLP 222
             ++   +C ICL+ I   +    T CDH+F K C+   L + +    CPLC+ND+ 
Sbjct: 16  NAMQKILECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT 69

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.9 bits (102), Expect = 1e-06
 Identities = 16/73 (21%), Positives = 25/73 (34%), Gaps = 20/73 (27%)

Query: 166 LPEKRIESEKDCAICLDGIVVGQ---------------LASCTPCDHVFHKRCIDFWLEK 210
             E ++  E+DC IC++ + V                 +   T C H FH  C+      
Sbjct: 17  TEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCN 76

Query: 211 S-----RSCPLCR 218
                   CP C+
Sbjct: 77  GNKDGSLQCPSCK 89

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 42.2 bits (98), Expect = 1e-06
 Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 4/51 (7%)

Query: 172 ESEKDCAICLDGIVVGQL--ASCTPCDHVFHKRCIDFWLEKS--RSCPLCR 218
           E    C IC + +   +     CT      H+ C+  WL  S   +C +C 
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>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 = 42.0 bits (98), Expect = 2e-06
 Identities = 9/49 (18%), Positives = 19/49 (38%), Gaps = 2/49 (4%)

Query: 176 DCAICLDGIVVG-QLASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDLP 222
           +C +C++ + +         C +   + C       ++  CP CR   P
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>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 = 40.7 bits (95), Expect = 8e-06
 Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 4/55 (7%)

Query: 171 IESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLE-KSRSCPLCRNDLPAS 224
                 C IC   +        T C H+F + CI   L+     CP CR     +
Sbjct: 20  FVKSISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.5 bits (94), Expect = 1e-05
 Identities = 12/55 (21%), Positives = 19/55 (34%), Gaps = 8/55 (14%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR--------SCPLCR 218
                C +CL    V Q+ +   C  +F   C+  ++E           SCP   
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.4 bits (91), Expect = 3e-05
 Identities = 12/61 (19%), Positives = 22/61 (36%), Gaps = 4/61 (6%)

Query: 164 TRLPEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA 223
           +R    R+E    C+ C + +          C+H+F   C+   +     CP+C      
Sbjct: 12  SRAALDRLEKLLRCSRCTNILREPV--CLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWI 67

Query: 224 S 224
            
Sbjct: 68  Q 68

>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 = 36.5 bits (84), Expect = 2e-04
 Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 7/57 (12%)

Query: 167 PEKRIESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRS----CPLCRN 219
           P       + C +C DG   G+L  C  C   +H  C++  L +  +    CP C  
Sbjct: 2   PLGSDHHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTC 55

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]} Length = 70

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.4 bits (81), Expect = 6e-04
 Identities = 14/52 (26%), Positives = 18/52 (34%), Gaps = 7/52 (13%)

Query: 172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRS----CPLCRN 219
           +S   C +C      G L  C  C+  FH  C    L+        C LC  
Sbjct: 5   DSATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV 53

>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 = 0.002
 Identities = 8/48 (16%), Positives = 18/48 (37%), Gaps = 2/48 (4%)

Query: 177 CAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPAS 224
           CAI     V  +         +F K  ++ +++ + + P+    L   
Sbjct: 3   CAISGK--VPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE 48

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	224
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.69
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.53
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.48
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.46
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.43
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.42
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.41
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.27
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.27
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.25
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.25
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.11
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.07
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.06
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.04
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.81
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.62
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.44
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	92.01
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	90.8
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	90.26
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	89.67
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	89.09
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	80.98
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	80.76

>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=99.69  E-value=4.3e-18  Score=111.86  Aligned_cols=51  Identities=39%  Similarity=0.974  Sum_probs=46.3

Q ss_pred             cCccccceeccccccCCeeEEcC-CCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      +++.+|+||+++|+.++.+..++ |+|.||.+||.+|++.+.+||+||++|.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            45678999999999988888876 9999999999999999999999999873

>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=99.53  E-value=1.9e-15  Score=103.03  Aligned_cols=48  Identities=31%  Similarity=0.841  Sum_probs=42.4

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ..+.|+||++.++  +.++.+||+|.||.+||..|++.+.+||+||.++.
T Consensus         4 ~~d~C~IC~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCcc--CCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            3567999999986  34577999999999999999999999999999874

>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=99.48  E-value=4.8e-15  Score=95.85  Aligned_cols=49  Identities=18%  Similarity=0.565  Sum_probs=41.4

Q ss_pred             ccceeccccccCCe-eEEcCCCCcccHHHHHHHHhcCC-CCCCcccCCCCC
Q 037450          176 DCAICLDGIVVGQL-ASCTPCDHVFHKRCIDFWLEKSR-SCPLCRNDLPAS  224 (224)
Q Consensus       176 ~C~ICle~~~~~~~-~~~lpC~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~~  224 (224)
                      +|+||+++|+.++. +..++|+|.||.+||+.|++.+. +||+||+++..+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~d   52 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   52 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSCC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCCC
Confidence            79999999976654 45568999999999999998654 799999998764

>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=99.46  E-value=1.8e-14  Score=102.91  Aligned_cols=51  Identities=31%  Similarity=0.665  Sum_probs=42.5

Q ss_pred             cCccccceeccccccCC---------------eeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQ---------------LASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~---------------~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      ..+..|+||++.+....               .+..++|+|+||.+||.+||+.+.+||+||.+..
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            34667999999885422               2577889999999999999999999999999763

>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=99.43  E-value=4.2e-14  Score=95.41  Aligned_cols=51  Identities=20%  Similarity=0.553  Sum_probs=40.9

Q ss_pred             CccccceeccccccCC--eeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCCCC
Q 037450          173 SEKDCAICLDGIVVGQ--LASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDLPA  223 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~--~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  223 (224)
                      ++..|+||++.+..+.  ....++|+|.||.+||..|+.. +.+||+||+++..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            4678999999864332  3466789999999999999965 4579999998853

>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=99.42  E-value=3e-14  Score=106.01  Aligned_cols=51  Identities=29%  Similarity=0.700  Sum_probs=40.8

Q ss_pred             cCccccceeccccccC---------------CeeEEcCCCCcccHHHHHHHHhcCC-----CCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVG---------------QLASCTPCDHVFHKRCIDFWLEKSR-----SCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~---------------~~~~~lpC~H~FH~~CI~~Wl~~~~-----~CP~CR~~l~  222 (224)
                      ..+..|+||++.+...               ..++.++|+|+||.+||..|++.+.     +||+||..+.
T Consensus        23 ~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~   93 (114)
T d1v87a_          23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             cccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhc
Confidence            4467899999988532               2356788999999999999998543     7999998764

>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=99.41  E-value=6.8e-14  Score=97.96  Aligned_cols=48  Identities=27%  Similarity=0.795  Sum_probs=40.9

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhc-CCCCCCcccCCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEK-SRSCPLCRNDLPA  223 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  223 (224)
                      ....|+||++.+   ..++.+||||.||.+||..|+.. +++||+||.+|..
T Consensus        22 ~~~~C~IC~~~~---~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          22 TFQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             CTTBCTTTSSSB---CCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCCCccCCCcC---CCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            345699999988   45788999999999999999985 4689999998853

>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=99.27  E-value=1e-12  Score=93.25  Aligned_cols=48  Identities=29%  Similarity=0.510  Sum_probs=41.4

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC-CCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS-RSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~  222 (224)
                      .....|+||++.+   ..++.++|+|.||..||..|++.+ .+||+||.++.
T Consensus        21 ~~~l~C~IC~~~~---~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~   69 (86)
T d1rmda2          21 VKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF   69 (86)
T ss_dssp             HHHTBCTTTCSBC---SSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             ccCcCCccCCcch---hcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCC
Confidence            3557899999998   457889999999999999999755 58999999875

>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=99.27  E-value=7.2e-13  Score=86.64  Aligned_cols=45  Identities=18%  Similarity=0.306  Sum_probs=39.6

Q ss_pred             ccceeccccccCCeeEEcC-CCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          176 DCAICLDGIVVGQLASCTP-CDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       176 ~C~ICle~~~~~~~~~~lp-C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .|+||++.++   .+..++ |||+||.+||.+|++++.+||+||+++..
T Consensus         2 ~C~Ic~~~~~---~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           2 LCAISGKVPR---RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCTTTCSCCS---SEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCccCCchHH---hcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            6999999984   455665 99999999999999999999999998864

>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=99.25  E-value=8.7e-13  Score=96.44  Aligned_cols=49  Identities=39%  Similarity=0.849  Sum_probs=41.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC---CCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR---SCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~---~CP~CR~~l~~  223 (224)
                      .....|+||++.|+   .+..++|||.||..||..|+..+.   .||+||.++..
T Consensus        19 ~~~l~CpIC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          19 QKILECPICLELIK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HHHTSCSSSCCCCS---SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             ccCcCCCccCchhC---CeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            45678999999994   456789999999999999997764   79999998853

>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=99.25  E-value=3.3e-13  Score=88.37  Aligned_cols=45  Identities=22%  Similarity=0.567  Sum_probs=38.1

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      +...|+||++.++   .++.+||+|.||..||+.|   +.+||+||++++.
T Consensus         5 ~~l~C~IC~~~~~---~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAK---CPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCB---CCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             CCCCCcccCcccC---CCEEecCCCHHhHHHHHcC---CCcCcCCCCcccC
Confidence            3468999999994   4678999999999999865   6689999999864

>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=99.11  E-value=1.7e-11  Score=85.36  Aligned_cols=49  Identities=16%  Similarity=0.229  Sum_probs=42.2

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC-CCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS-RSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  223 (224)
                      .++..|+||++.|   ..++.++|||.|+..||..|+... .+||.||.++..
T Consensus         5 P~~l~CpIc~~l~---~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           5 PDYLCGKISFELM---REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CSTTBCTTTCSBC---SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CccccCcCcCchh---hhhcccCCcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            4678899999999   456789999999999999999764 579999998753

>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=99.07  E-value=3.1e-11  Score=79.57  Aligned_cols=49  Identities=22%  Similarity=0.548  Sum_probs=38.0

Q ss_pred             cCccccceeccccccCCeeEEcCC-----CCcccHHHHHHHHhc--CCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPC-----DHVFHKRCIDFWLEK--SRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC-----~H~FH~~CI~~Wl~~--~~~CP~CR~~l~~  223 (224)
                      ++...|.||+++++..   ...||     +|.||..||..|+..  +.+||+||+++..
T Consensus         4 ed~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            5667899999987533   33444     599999999999964  4589999998754

>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=99.06  E-value=4.7e-11  Score=82.69  Aligned_cols=49  Identities=18%  Similarity=0.451  Sum_probs=42.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC-CCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS-RSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  223 (224)
                      .++..|+||++.|   ..++.++|||+|+..||..|++.+ ..||.|+.++..
T Consensus         6 P~~l~CpIc~~~m---~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           6 PEYFRCPISLELM---KDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCC---SSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CccCCCcCcCchh---hCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            4678999999999   456788999999999999999875 479999998854

>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=99.04  E-value=1.2e-11  Score=89.23  Aligned_cols=47  Identities=21%  Similarity=0.530  Sum_probs=37.7

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~CR~~l~  222 (224)
                      .+...|+||++.|..  .+...+|+|.||.+||..|+.  ..||.||.++.
T Consensus        20 ~~~l~C~IC~~~~~~--pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (97)
T d1jm7b_          20 EKLLRCSRCTNILRE--PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (97)
T ss_dssp             HHTTSCSSSCSCCSS--CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             hhcCCCccCCchhhc--CceeCCCCCchhHHHHHHHHh--ccccccCCcCc
Confidence            456789999999953  233457999999999999985  45999998764

>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=98.81  E-value=1.3e-09  Score=78.62  Aligned_cols=49  Identities=16%  Similarity=0.055  Sum_probs=42.9

Q ss_pred             cCccccceeccccccCCeeEEcCCC-CcccHHHHHHHHhcCCCCCCcccCCCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCD-HVFHKRCIDFWLEKSRSCPLCRNDLPA  223 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~  223 (224)
                      .++..|+||.+.|   ..+++++|+ |.|+..||..|+..+.+||+||.++..
T Consensus        20 P~~f~CPI~~~lm---~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          20 CDEFLDPIMSTLM---CDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CTTTBCTTTCSBC---SSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             cHHhCCcCchhHH---HHHHhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            4578999999999   567889865 589999999999999999999998864

>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=98.62  E-value=4.7e-09  Score=74.59  Aligned_cols=46  Identities=26%  Similarity=0.628  Sum_probs=37.5

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC--------CCCCCcc
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS--------RSCPLCR  218 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~--------~~CP~CR  218 (224)
                      ....|+||++++...+.+..++|+|.||.+||..|+..+        ..||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            467899999999766667777899999999999998632        1599864

>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=94.44  E-value=0.0069  Score=36.92  Aligned_cols=44  Identities=27%  Similarity=0.656  Sum_probs=31.6

Q ss_pred             ccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCccc
Q 037450          176 DCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLCRN  219 (224)
Q Consensus       176 ~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~CR~  219 (224)
                      .|.||...-..+..+..-.|...||.+|+++-+....    .||.||.
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            5888976543344444555999999999998765433    6999975

>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=92.01  E-value=0.019  Score=36.24  Aligned_cols=46  Identities=28%  Similarity=0.595  Sum_probs=34.5

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCCCCCCc
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSRSCPLC  217 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~~CP~C  217 (224)
                      .....|.-|...+.....++...|++.|+.+|=.-.-+.-+.||-|
T Consensus        13 ~~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          13 NGERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CSCCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            4567799999988755556677799999999944433445689988

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.80  E-value=0.039  Score=35.74  Aligned_cols=45  Identities=33%  Similarity=0.696  Sum_probs=32.1

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcCC----CCCCcccC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKSR----SCPLCRND  220 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~~----~CP~CR~~  220 (224)
                      ....|.+|.+   .++.+..-.|...||..|+.+.+....    .||.|+..
T Consensus         6 ~c~~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   54 (70)
T d1fp0a1           6 SATICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   54 (70)
T ss_dssp             SSSCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCCCCCCC---cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCc
Confidence            3455777754   455555566999999999998775443    69999764

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=90.26  E-value=0.017  Score=36.72  Aligned_cols=51  Identities=27%  Similarity=0.687  Sum_probs=35.3

Q ss_pred             cCccccceeccccccCCe-eEEcCCCCcccHHHHHHH---Hh--cCCCCCCcccCCC
Q 037450          172 ESEKDCAICLDGIVVGQL-ASCTPCDHVFHKRCIDFW---LE--KSRSCPLCRNDLP  222 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~-~~~lpC~H~FH~~CI~~W---l~--~~~~CP~CR~~l~  222 (224)
                      .....|.+|.+....++. +..-.|+..||..|+..=   ..  ..-.||.|+..-.
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~~   60 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSG   60 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTC
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcCC
Confidence            346689999987765543 345569999999998531   11  2347999987543

>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=89.67  E-value=0.026  Score=35.63  Aligned_cols=47  Identities=28%  Similarity=0.661  Sum_probs=33.1

Q ss_pred             cCccccceeccccccCCeeEEcCCCCcccHHHHHHHHhcC----CCCCCcccCC
Q 037450          172 ESEKDCAICLDGIVVGQLASCTPCDHVFHKRCIDFWLEKS----RSCPLCRNDL  221 (224)
Q Consensus       172 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~~Wl~~~----~~CP~CR~~l  221 (224)
                      ..+..|.+|.+   .++.+..-.|.-.||..|+...+...    -.||.|+..-
T Consensus         7 ~~~~~C~~C~~---~g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           7 HHMEFCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCcCCCcCCCC---CCeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            44557999975   34555555699999999997655432    2699998653

>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=89.09  E-value=0.11  Score=34.72  Aligned_cols=36  Identities=22%  Similarity=0.633  Sum_probs=26.6

Q ss_pred             cccccCccccceeccccccCCeeEEcC---CCCcccHHHHHHH
Q 037450          168 EKRIESEKDCAICLDGIVVGQLASCTP---CDHVFHKRCIDFW  207 (224)
Q Consensus       168 ~~~~~~~~~C~ICle~~~~~~~~~~lp---C~H~FH~~CI~~W  207 (224)
                      .+.+..+..|.|| +.+...+   .+|   |+..||..|+..-
T Consensus         9 re~v~~D~mC~vC-~v~t~~~---l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_           9 REPVVNDEMCDVC-EVWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCCSCCCTTT-CCCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             ccCCCcCcccccc-Ccccccc---eecceeecchhhHHHHHHh
Confidence            3344678899999 6664433   345   7899999999886

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.98  E-value=0.43  Score=30.63  Aligned_cols=48  Identities=23%  Similarity=0.486  Sum_probs=31.6

Q ss_pred             CccccceeccccccCCeeEEcCCCCcccHHHHH----H--H---HhcCCCCCCcccCC
Q 037450          173 SEKDCAICLDGIVVGQLASCTPCDHVFHKRCID----F--W---LEKSRSCPLCRNDL  221 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~CI~----~--W---l~~~~~CP~CR~~l  221 (224)
                      ....| ||......+..+..-.|.-.||..|+.    .  .   ....-.||.|+..-
T Consensus        15 ~~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~   71 (76)
T d1wema_          15 NALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             TCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CcCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcC
Confidence            44557 898766444445556699999999982    1  1   12346899997644

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.76  E-value=0.3  Score=31.55  Aligned_cols=44  Identities=32%  Similarity=0.801  Sum_probs=26.4

Q ss_pred             CccccceeccccccCCeeEEcC--CC-CcccHHHHHHHHhcC----CCCCCcccC
Q 037450          173 SEKDCAICLDGIVVGQLASCTP--CD-HVFHKRCIDFWLEKS----RSCPLCRND  220 (224)
Q Consensus       173 ~~~~C~ICle~~~~~~~~~~lp--C~-H~FH~~CI~~Wl~~~----~~CP~CR~~  220 (224)
                      +..-| ||.+.. .++.++.--  |. ..||..|+.  |...    -.||.|+..
T Consensus        15 e~~~C-iC~~~~-~~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          15 EPTYC-LCNQVS-YGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             SCCCS-TTCCCC-CSSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CCCEE-EeCCCC-CCCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            33456 998753 333333322  44 579999984  3322    269999865