Citrus Sinensis ID: 036765

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350
Protein Sequence
MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP
Secondary Structure (PSIPRED)
ccccccEEEEEEEEEcccccEEEEEccccccccccccEEEEEEEEEcccccccEEEEEEcccEEEEEEEEEccccccEEEEEEEcccHHccccccccccccccccccccccccccccEEEEEEEEccEEEEEEEcccccEEEEEEEcccccEEEEEEEEEEEEEEEccccEEEccccccEEEEEEEcccccEEEEEccccccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccEEEEccccccccHHHHHHHHHcccccccccccccccEEEEccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEEEEEcccccccEEEEccccccccccEccccEEEEEEccccccEEEEEEccccEEEEEEEEEccccccEEEEEEEccccHHHHcccccccccccccccccccccccccEEEEEEEccccEEEEEEEccccEEEEEEEcccccEEEEEEEEEEEEEEEcccccccccccccEEEEEEEccccEEEEEEcccccccccEEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccEEEEEcccccEEEEEcccEEEHHHHHHHHHHHccccccccHHHHHEEEEEccc
Coil and Loop (DISEMBL)
MKASSLFVRQVEvradsekgfllygfsekpqlthetnWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFqtllpkftsssdppaltdpidgmIFVSLAFSFQmnkkskigqydveeddmyyfgvtnknprsitMTMNVNVTSKIYDLTkaknmcsssngscrlkllfpnsqyvilttpsngdldgwHVEVSFAARLIIYIAILGFITLIIFLVSKylgacdgnsdntdstaarevtetdplvhekpvqftygttnndedddagfsstssddlydaKLCVICyddqrncffvpcghcatcydcgqrimkddskvcpicRTLIHKVRRLFTP
Flexible Loop (DISEMBL)
mkasslfvrqvevradsekgfllygfsekpqltheTNWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFSFQMNKKSKIGQYDVEEDDMYYFGvtnknprsitmtMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTtpsngdldGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSDNTDSTAARevtetdplvhekpvqftygttnndedddAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRtlihkvrrlftp
Low Complexity Region (SEG)
MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP
Disordered region (IsUnstruct)
*******VRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKF********LTDPIDGMIFVSLAFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACD**************************************************LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF**
Disordered Region (DISOPRED)
***SSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYV**************VEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGN*******************************************************VICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP
Disordered Region (DISEMBL)
MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP
Disordered Region (DISPRO)
***SSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACD*****************************************************AKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP
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	350	2.2.26 [Sep-21-2011]
Q24306	438	Apoptosis 1 inhibitor OS=	yes	no	0.168	0.134	0.359	3e-06
Q5M870	254	E3 ubiquitin-protein liga	yes	no	0.242	0.334	0.354	4e-06
Q24307	498	Apoptosis 2 inhibitor OS=	no	no	0.148	0.104	0.403	5e-06
Q8CJC5	254	E3 ubiquitin-protein liga	yes	no	0.242	0.334	0.354	9e-06
D3ZDI6	445	E3 ubiquitin-protein liga	no	no	0.154	0.121	0.322	1e-05
Q8WY64	445	E3 ubiquitin-protein liga	yes	no	0.154	0.121	0.322	1e-05
Q923S6	574	Neuralized-like protein 1	no	no	0.425	0.259	0.253	2e-05
Q86XN8	651	RNA-binding protein MEX3D	no	no	0.18	0.096	0.353	2e-05
Q3UE17	643	RNA-binding protein MEX3D	no	no	0.157	0.085	0.363	2e-05
Q95M72	236	Baculoviral IAP repeat-co	no	no	0.202	0.300	0.325	3e-05

>sp|Q24306|IAP1_DROME Apoptosis 1 inhibitor OS=Drosophila melanogaster GN=th PE=1 SV=2

 Score = 53.1 bits (126), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 5/64 (7%)

Query: 285 SSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
           +S+ S  + + KLC ICY  + N  F+PCGH   C  C   + K     CP+CR     V
Sbjct: 378 NSSGSTSIPEEKLCKICYGAEYNTAFLPCGHVVACAKCASSVTK-----CPLCRKPFTDV 432

Query: 345 RRLF 348
            R++
Sbjct: 433 MRVY 436

Anti-apoptotic protein which functions as a caspase regulator, using its E3 ubiquitin-protein ligase activity to smother caspase activity. Binds, ubiquitinates and inactivates initator caspase Nc, and effector caspases ICE and DCP-1. Acts as a NEDD8-E3 ubiquitin-protein ligase for ICE. Suppresses apoptosis by targeting the apoptosome for ubiquitination and inactivation. Plays an important role in cell motility. Overexpression suppresses rpr and W-dependent cell death in the eye. Interaction of th with Nc is required to suppress Nc-mediated cell death; th-mediated ubiquitination of Nc. Acts as a positive regulator of Wnt signaling.
Drosophila melanogaster (taxid: 7227)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q5M870|NEUL3_RAT E3 ubiquitin-protein ligase NEURL3 OS=Rattus norvegicus GN=Neurl3 PE=2 SV=1

 Score = 52.8 bits (125), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/96 (35%), Positives = 47/96 (48%), Gaps = 11/96 (11%)

Query: 259 DPLVHEKP---VQFTYGTTNNDE--DDDAGFSSTSSDDLYDAKL-----CVICYDDQRNC 308
           D LV   P   V   YGTT   E  D  A    TS + + ++++     CVIC+ +  N 
Sbjct: 148 DVLVQGAPLWAVMDVYGTTKAIELLDPKANAWITSGEPMPESEVTSGEECVICFHNTANT 207

Query: 309 FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
             +PCGH   C  C   I KD ++ CP+CR  I +V
Sbjct: 208 RLMPCGHSQFCGSCAWHIFKDTAR-CPMCRWQIEEV 242

E3 ubiquitin-protein ligase. Seems to utilize UBE2E1. In vitro, generates polyubiquitin chains via non-canonical lysine residues suggesting that it is not involved in tagging substrates for proteasomal degradation.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q24307|IAP2_DROME Apoptosis 2 inhibitor OS=Drosophila melanogaster GN=Iap2 PE=2 SV=3

 Score = 52.4 bits (124), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 30/57 (52%), Gaps = 5/57 (8%)

Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
           L DA+LC +C D++    F+PCGH ATC  C   +       CP+CR  I    R F
Sbjct: 445 LKDARLCKVCLDEEVGVVFLPCGHLATCNQCAPSVAN-----CPMCRADIKGFVRTF 496

Anti-apoptotic protein with E3 ubiquitin-protein ligase activity which is essential for the activation of NF-kappaB transcription factors in the immune deficiency (Imd) signaling cascade which is essential for innate immune responses upon infection by Gram-negative bacteria. Functions as a caspase regulator, by using its E3 ubiquitin-protein ligase activity to smother caspase activity. Binds, ubiquitinates and inactivates the effector caspase ICE. Overexpression suppresses RPR and HID-dependent cell death in the eye.

Drosophila melanogaster (taxid: 7227)

>sp|Q8CJC5|NEUL3_MOUSE E3 ubiquitin-protein ligase NEURL3 OS=Mus musculus GN=Neurl3 PE=2 SV=1

 Score = 51.6 bits (122), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 34/96 (35%), Positives = 46/96 (47%), Gaps = 11/96 (11%)

Query: 259 DPLVHEKP---VQFTYGTTNNDE--DDDAGFSSTSSDDLYDAKL-----CVICYDDQRNC 308
           D LV   P   V   YGTT   E  D  A     S + + ++++     CVIC+ +  N 
Sbjct: 148 DVLVQGAPLWAVMDVYGTTKAIELLDPKANAWIRSGEPVPESEVISGEECVICFHNTANT 207

Query: 309 FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
             +PCGH   C  C   I KD ++ CPICR  I +V
Sbjct: 208 RLMPCGHSHFCGSCAWHIFKDTAR-CPICRWQIEEV 242

E3 ubiquitin-protein ligase. Seems to utilize UBE2E1. In vitro, generates polyubiquitin chains via non-canonical lysine residues suggesting that it is not involved in tagging substrates for proteasomal degradation.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|D3ZDI6|MYLIP_RAT E3 ubiquitin-protein ligase MYLIP OS=Rattus norvegicus GN=Mylip PE=2 SV=1

 Score = 51.2 bits (121), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 5/59 (8%)

Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP 350
           L +A LC++C +++ N  F PCGH   C  C  ++     + CP+CR+ +  V+ ++ P
Sbjct: 381 LKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-----QSCPVCRSRVEHVQHVYLP 434

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of myosin regulatory light chain (MRLC), LDLR, VLDLR and LRP8. Proteasomal degradation of MRLC leads to inhibit neurite outgrowth in presence of NGF by counteracting the stabilization of MRLC by saposin-like protein (CNPY2/MSAP) and reducing CNPY2-stimulated neurite outgrowth. Acts as a sterol-dependent inhibitor of cellular cholesterol uptake by mediating ubiquitination and subsequent degradation of LDLR.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8WY64|MYLIP_HUMAN E3 ubiquitin-protein ligase MYLIP OS=Homo sapiens GN=MYLIP PE=1 SV=2

 Score = 51.2 bits (121), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 5/59 (8%)

Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP 350
           L +A LC++C +++ N  F PCGH   C  C  ++     + CP+CR+ +  V+ ++ P
Sbjct: 381 LKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-----QSCPVCRSRVEHVQHVYLP 434

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of myosin regulatory light chain (MRLC), LDLR, VLDLR and LRP8. Proteasomal degradation of MRLC leads to inhibit neurite outgrowth in presence of NGF by counteracting the stabilization of MRLC by saposin-like protein (CNPY2/MSAP) and reducing CNPY2-stimulated neurite outgrowth. Acts as a sterol-dependent inhibitor of cellular cholesterol uptake by mediating ubiquitination and subsequent degradation of LDLR.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q923S6|NEU1A_MOUSE Neuralized-like protein 1A OS=Mus musculus GN=Neurl PE=1 SV=1

 Score = 50.4 bits (119), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 40/158 (25%), Positives = 62/158 (39%), Gaps = 9/158 (5%)

Query: 200 NGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNS------DNTDSTAAR 253
           NG   G  + V  +  L +  ++ G IT +  L S  +    G S          S +A 
Sbjct: 414 NGAAAGMQLCVDASQPLWMLFSLHGAITQVRILGSTIMTERGGPSLPCSPASTPTSPSAL 473

Query: 254 EVTETDPLVH---EKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFF 310
            +  +DPL+      P+  + G T  +       S  +      +  C ICY+   +   
Sbjct: 474 GIRLSDPLLSTCGSGPLGGSAGGTAPNSPVSLPESPVTPGLGQWSDECTICYEHAVDTVI 533

Query: 311 VPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
             CGH   CY CG R+ K     CPICR  I  + + +
Sbjct: 534 YTCGHMCLCYSCGLRLKKALHACCPICRRPIKDIIKTY 571

Can function as an E3 ubiquitin-protein ligase to activate monoubiquitination of JAG1 (in vitro).

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q86XN8|MEX3D_HUMAN RNA-binding protein MEX3D OS=Homo sapiens GN=MEX3D PE=1 SV=3

 Score = 50.1 bits (118), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 33/65 (50%), Gaps = 2/65 (3%)

Query: 285 SSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
           S++S+  L  A+ CV+C + +     VPCGH   C DC  RI       CP CRT   + 
Sbjct: 589 SASSAPAL--ARECVVCAEGEVMAALVPCGHNLFCMDCAVRICGKSEPECPACRTPATQA 646

Query: 345 RRLFT 349
             +F+
Sbjct: 647 IHIFS 651

RNA binding protein, may be involved in post-transcriptional regulatory mechanisms.

Homo sapiens (taxid: 9606)

>sp|Q3UE17|MEX3D_MOUSE RNA-binding protein MEX3D OS=Mus musculus GN=Mex3d PE=2 SV=2

 Score = 50.1 bits (118), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 27/55 (49%)

Query: 295 AKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT 349
           A+ CV+C + +     VPCGH   C DC  RI       CP CRT   +   +F+
Sbjct: 589 ARECVVCSEGEAMAALVPCGHNLFCMDCAVRICGKSEPECPACRTPATQAIHIFS 643

RNA binding protein, may be involved in post-transcriptional regulatory mechanisms.

Mus musculus (taxid: 10090)

>sp|Q95M72|BIRC8_PANTR Baculoviral IAP repeat-containing protein 8 OS=Pan troglodytes GN=BIRC8 PE=2 SV=1

 Score = 50.1 bits (118), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 9/80 (11%)

Query: 273 TTNNDEDDDAGFSSTSSDD----LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMK 328
           TT N+ +  +     S ++    L D KLC IC D      F+PCGH  TC  C + + +
Sbjct: 160 TTENESNQTSLQREISPEEPLRRLQDEKLCKICMDRHIAVVFIPCGHLVTCKQCAEAVDR 219

Query: 329 DDSKVCPICRTLIHKVRRLF 348
                CP+C  +I   +R+F
Sbjct: 220 -----CPMCSAVIDFKQRVF 234

Protects against apoptosis mediated by BAX.

Pan troglodytes (taxid: 9598)

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	350
224136848	386	predicted protein [Populus trichocarpa]	0.942	0.854	0.620	1e-127
359491993	388	PREDICTED: uncharacterized protein LOC10	0.948	0.855	0.592	1e-121
147782531	1001	hypothetical protein VITISV_012133 [Viti	0.88	0.307	0.584	1e-108
356509761	416	PREDICTED: uncharacterized protein LOC10	0.94	0.790	0.495	5e-90
87241421	400	Zinc finger, RING-type [Medicago truncat	0.891	0.78	0.467	6e-88
357437679	374	hypothetical protein MTR_1g018650 [Medic	0.825	0.772	0.472	7e-80
356518116	368	PREDICTED: uncharacterized protein LOC10	0.868	0.826	0.482	1e-78
255538134	224	ubiquitin-protein ligase, putative [Rici	0.637	0.995	0.608	1e-74
296087364	192	unnamed protein product [Vitis vinifera]	0.44	0.802	0.490	2e-38
255569361	502	ubiquitin-protein ligase, putative [Rici	0.94	0.655	0.289	2e-38

>gi|224136848|ref|XP_002326960.1| predicted protein [Populus trichocarpa] gi|222835275|gb|EEE73710.1| predicted protein [Populus trichocarpa]

 Score =  461 bits (1187), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 219/353 (62%), Positives = 278/353 (78%), Gaps = 23/353 (6%)

Query: 1   MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNK 60
           MKASS+FV  VEVR + +KG LLYGF EKP+L+ ETNW+V+++++V SYSRKG SLWLNK
Sbjct: 52  MKASSVFVDHVEVRDEDKKGVLLYGFYEKPELSFETNWSVADYMIVASYSRKGFSLWLNK 111

Query: 61  GSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFS 120
           GS IRMRWE R S LNQ Q+V+IKGER+++TLLPK TSS D   L++P++G         
Sbjct: 112 GSKIRMRWEARTSILNQLQVVMIKGERKYETLLPKQTSSPDALNLSEPLNG--------- 162

Query: 121 FQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGS 180
                  K  +Y +EED+ YY G+ N NP++I  T++VNVTSK+Y+L+KA+NMCS++ GS
Sbjct: 163 -------KEAEYTIEEDNRYYLGLINTNPKNIITTLSVNVTSKMYELSKARNMCSTTQGS 215

Query: 181 CRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGAC 240
           CRLKLLFP +QYV++TTP NGD++GW++EV+F AR IIY+AILG I +IIFL+ KYLGAC
Sbjct: 216 CRLKLLFPKTQYVVVTTPDNGDINGWNIEVAFVARAIIYVAILGAIVIIIFLILKYLGAC 275

Query: 241 DGN-SDNTDSTA---AREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAK 296
           D + S N   TA   A E +ET+P++  K V+ TYGT   +E+DD G S +SS+DLYDAK
Sbjct: 276 DTDQSTNLVETATWQASEPSETEPIMPAKSVRLTYGT---NEEDDEGSSCSSSEDLYDAK 332

Query: 297 LCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT 349
           LCVICYDDQRNCFFVPCGHCATCYDC QRIM++D+K+CPICR LIHKVRRLFT
Sbjct: 333 LCVICYDDQRNCFFVPCGHCATCYDCAQRIMEEDNKMCPICRRLIHKVRRLFT 385

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359491993|ref|XP_002283216.2| PREDICTED: uncharacterized protein LOC100248821 [Vitis vinifera] gi|302142238|emb|CBI19441.3| unnamed protein product [Vitis vinifera]

 Score =  441 bits (1135), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 208/351 (59%), Positives = 273/351 (77%), Gaps = 19/351 (5%)

Query: 1   MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNK 60
           MKASSLFV+Q+EV+ D +KG LLYGF+EKP+L+ ETNW+VSN+L+VGSY RKG SLWLNK
Sbjct: 56  MKASSLFVKQIEVKDDDKKGVLLYGFAEKPELSVETNWSVSNYLIVGSYGRKGFSLWLNK 115

Query: 61  GSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFS 120
           GS IR+RWE + S L+  Q+ +IKGER+++TLLP  T+S   PA             AF 
Sbjct: 116 GSSIRVRWEAQPSSLSDLQVFLIKGERKYETLLPNPTNS---PA-------------AFP 159

Query: 121 FQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGS 180
           F  +   +  +Y + ED+ YY G+ N N +S+ MT+NVNVTSK+YD+TKAK+MCS+  GS
Sbjct: 160 FHESTNGREAEYTILEDNRYYVGIINANRKSVIMTLNVNVTSKMYDITKAKSMCSTIKGS 219

Query: 181 CRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGAC 240
           CRL LLFPN+Q+VILTTP+NGDL GW++E+SF AR++ Y++ILGF+ +IIFLV KYLGAC
Sbjct: 220 CRLNLLFPNTQFVILTTPNNGDLAGWYIELSFVARVVTYVSILGFVVIIIFLVLKYLGAC 279

Query: 241 DGNSD-NTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCV 299
           +G+++ + +    REVTET PL+ EK  + TYGT   +ED ++G SS+SS+DLYD K+C 
Sbjct: 280 EGDNEVHVEEITPREVTETHPLMPEKLFRLTYGT--GEEDAESGMSSSSSEDLYDGKICT 337

Query: 300 ICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP 350
           ICYD+ RNCFFVPCGHCATCYDC +RI++ ++KVCPICR  IHKVR+LFTP
Sbjct: 338 ICYDEPRNCFFVPCGHCATCYDCAKRIIEGENKVCPICRRFIHKVRKLFTP 388

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147782531|emb|CAN68429.1| hypothetical protein VITISV_012133 [Vitis vinifera]

 Score =  399 bits (1024), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 191/327 (58%), Positives = 251/327 (76%), Gaps = 19/327 (5%)

Query: 1   MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNK 60
           MKASSLFV+Q+EV+ D +KG LLYGF+EKP+L+ ETNW+VSN+L+VGSY RKG SLWLNK
Sbjct: 161 MKASSLFVKQIEVKDDDKKGVLLYGFAEKPELSVETNWSVSNYLIVGSYGRKGFSLWLNK 220

Query: 61  GSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAFS 120
           GS IR+RWE + S L+  Q+ +IKGER+++TLLP  T+S   PA             AF 
Sbjct: 221 GSSIRVRWEAQPSSLSDLQVFLIKGERKYETLLPNPTNS---PA-------------AFP 264

Query: 121 FQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGS 180
           F  +   +  +Y + ED+ YY G+ N N +S+ MT+NVNVTSK+YD+TKAK+MCS+  GS
Sbjct: 265 FHESTNGREAEYTILEDNRYYVGIINANRKSVIMTLNVNVTSKMYDITKAKSMCSTIKGS 324

Query: 181 CRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGAC 240
           CRL LLFPN+Q+VILTTP+NGDL GW+ E+SF AR++ Y++ILGF+ +IIFLV KYLGAC
Sbjct: 325 CRLNLLFPNTQFVILTTPNNGDLAGWYXELSFVARVVTYVSILGFVVIIIFLVLKYLGAC 384

Query: 241 DGNSD-NTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCV 299
           +G+++ + +    REVTET PL+ EK  + TYGT   +ED ++G SS+SS+DLYD K+C 
Sbjct: 385 EGDNEVHVEEITPREVTETHPLMPEKLFRLTYGT--GEEDAESGXSSSSSEDLYDGKICT 442

Query: 300 ICYDDQRNCFFVPCGHCATCYDCGQRI 326
           ICYD+ RNCFFVPCGHCATCYDC +R+
Sbjct: 443 ICYDEPRNCFFVPCGHCATCYDCAKRL 469

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356509761|ref|XP_003523614.1| PREDICTED: uncharacterized protein LOC100777075 [Glycine max]

 Score =  337 bits (864), Expect = 5e-90,   Method: Compositional matrix adjust.
 Identities = 179/361 (49%), Positives = 247/361 (68%), Gaps = 32/361 (8%)

Query: 1   MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNK 60
           MK SS+FV+Q++V  +     +L+ F+E+P+L+ +TNWTVSNF +V +Y  K ISLWLN+
Sbjct: 73  MKTSSVFVKQLQVSNEDNNQVILHAFNEEPELSSQTNWTVSNFFLVEAYKSKVISLWLNQ 132

Query: 61  GSGIRMRWETRA-SKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAF 119
           GS IRMRWE    S L+Q   ++IKGE++F+ L PK TS  +  AL   ++G        
Sbjct: 133 GSTIRMRWEAHTTSSLDQLHGMVIKGEKKFELLQPKQTSFLNAIALRKTVNG-------- 184

Query: 120 SFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNG 179
                   K  +Y+VEED++Y+ GV N N R+I +TM VNV +K+YD TK K MCS++NG
Sbjct: 185 --------KEAEYNVEEDNIYHIGVLNMNSRNIILTMKVNVLAKVYDTTKGKKMCSTANG 236

Query: 180 SCRLKLLFPNSQYVILTTPSNGDLDGW-HVEVSFAARLIIYIAILGFITLIIFLVSKYLG 238
            CRL  +FPN+QYVILT  + G +DG  +VE+SF AR++ YI +LG + ++I+LV K+L 
Sbjct: 237 FCRLSFVFPNTQYVILT--ATGKVDGGSYVEISFLARVLTYILLLGALMIVIYLVLKFLE 294

Query: 239 ACDGNSDN----------TDSTAAREVTETDPLVHEKPVQFTYGT-TNNDEDDDAGFSST 287
             +G   N          T +  AR+ TET PL+  +  + TYGT   +DE++D+G SS+
Sbjct: 295 VHEGGDQNSHAAVDVTYRTSNVVARQ-TETQPLMQVETNRLTYGTNAKDDEEEDSGASSS 353

Query: 288 SSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL 347
           SS++LYD KLC ICYD+QR+ FFVPCGHCATCYDC QRI+ ++S VCPICR LIHKVRRL
Sbjct: 354 SSEELYDEKLCCICYDEQRSSFFVPCGHCATCYDCAQRILDEESIVCPICRRLIHKVRRL 413

Query: 348 F 348
           +
Sbjct: 414 Y 414

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|87241421|gb|ABD33279.1| Zinc finger, RING-type [Medicago truncatula]

 Score =  330 bits (846), Expect = 6e-88,   Method: Compositional matrix adjust.
 Identities = 171/366 (46%), Positives = 227/366 (62%), Gaps = 54/366 (14%)

Query: 1   MKASSLFVRQVEVR---ADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLW 57
           +++ S FV Q+EV     ++     LY F+EKP+L  E NWT S FL+V +YSRKGISLW
Sbjct: 71  IQSRSFFVDQIEVTNEYTNANNDIHLYAFNEKPELNSEINWTTSKFLVVEAYSRKGISLW 130

Query: 58  LNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSL 117
           LN+GS I +RWE  AS LN+ + ++IKGE+ F+ L P                       
Sbjct: 131 LNEGSTICLRWEAEASSLNKLEGIVIKGEKRFEKLEPN---------------------- 168

Query: 118 AFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSS 177
                     K  +Y VEEDD Y  G+ N N R+I +T+++NV++KIYD TKA N CS+ 
Sbjct: 169 --------NGKRAEYIVEEDDRYQIGILNMNARNIILTLHINVSAKIYDTTKATNKCSTR 220

Query: 178 NGSCRLKLLFPNSQYVILTTPSNG--DLDGWHVEVSFAARLIIYIAILGFITLIIFLVSK 235
           NGSC+L L FP + Y++LT P NG  D D W VE+SF AR+  YI +LG   ++IF++ K
Sbjct: 221 NGSCKLDLFFPITYYLVLTAPKNGNDDDDAWFVEISFMARVFSYIILLGVFMIVIFMILK 280

Query: 236 YLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDA 295
            LGA  G   N     A+EVTET+PL+   PV  TYGT    E ++   +S  S++LYD 
Sbjct: 281 CLGADYGEIHNV--AEAQEVTETEPLMQPNPV--TYGTNIFHEKEET--NSDVSEELYDE 334

Query: 296 KLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD-------------SKVCPICRTLIH 342
           KLC+IC+D+QRNCFFVPCGHCATCYDC QRIM ++             SKVCP+CR +I+
Sbjct: 335 KLCIICFDEQRNCFFVPCGHCATCYDCAQRIMDEESNSTLTDQIANPKSKVCPVCRRVIN 394

Query: 343 KVRRLF 348
           KV+RLF
Sbjct: 395 KVKRLF 400

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357437679|ref|XP_003589115.1| hypothetical protein MTR_1g018650 [Medicago truncatula] gi|355478163|gb|AES59366.1| hypothetical protein MTR_1g018650 [Medicago truncatula]

 Score =  303 bits (777), Expect = 7e-80,   Method: Compositional matrix adjust.
 Identities = 156/330 (47%), Positives = 206/330 (62%), Gaps = 41/330 (12%)

Query: 1   MKASSLFVRQVEVR---ADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLW 57
           +++ S FV Q+EV     ++     LY F+EKP+L  E NWT S FL+V +YSRKGISLW
Sbjct: 71  IQSRSFFVDQIEVTNEYTNANNDIHLYAFNEKPELNSEINWTTSKFLVVEAYSRKGISLW 130

Query: 58  LNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSL 117
           LN+GS I +RWE  AS LN+ + ++IKGE+ F+ L P                       
Sbjct: 131 LNEGSTICLRWEAEASSLNKLEGIVIKGEKRFEKLEPN---------------------- 168

Query: 118 AFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSS 177
                     K  +Y VEEDD Y  G+ N N R+I +T+++NV++KIYD TKA N CS+ 
Sbjct: 169 --------NGKRAEYIVEEDDRYQIGILNMNARNIILTLHINVSAKIYDTTKATNKCSTR 220

Query: 178 NGSCRLKLLFPNSQYVILTTPSNG--DLDGWHVEVSFAARLIIYIAILGFITLIIFLVSK 235
           NGSC+L L FP + Y++LT P NG  D D W VE+SF AR+  YI +LG   ++IF++ K
Sbjct: 221 NGSCKLDLFFPITYYLVLTAPKNGNDDDDAWFVEISFMARVFSYIILLGVFMIVIFMILK 280

Query: 236 YLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDA 295
            LGA  G   N     A+EVTET+PL+   PV  TYGT    E ++   +S  S++LYD 
Sbjct: 281 CLGADYGEIHNV--AEAQEVTETEPLMQPNPV--TYGTNIFHEKEET--NSDVSEELYDE 334

Query: 296 KLCVICYDDQRNCFFVPCGHCATCYDCGQR 325
           KLC+IC+D+QRNCFFVPCGHCATCYDC QR
Sbjct: 335 KLCIICFDEQRNCFFVPCGHCATCYDCAQR 364

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356518116|ref|XP_003527728.1| PREDICTED: uncharacterized protein LOC100794488 [Glycine max]

 Score =  299 bits (766), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 161/334 (48%), Positives = 221/334 (66%), Gaps = 30/334 (8%)

Query: 1   MKASSLFVRQVEVRADSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWLNK 60
           MK SS+FV+Q++V        +L+ F+EKP+L+ +TNWTVSN  +V +Y  KGISLWLN+
Sbjct: 44  MKTSSVFVKQLQVSNKDNNQVILHAFNEKPELSSQTNWTVSNLCLVEAYKSKGISLWLNQ 103

Query: 61  GSGIRMRWETRA-SKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLAF 119
           GS IRM WE    S L+Q   ++IKGE++F+    K TS  +  AL   ++G        
Sbjct: 104 GSTIRMGWEAHTTSSLDQLHGMVIKGEKKFKLPQAKQTSFPNAMALHKIVNG-------- 155

Query: 120 SFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNG 179
                   K  +Y VEED+MY+ GV N N R+I + M VNV++K+YD TK K MCS++NG
Sbjct: 156 --------KEAEYKVEEDNMYHMGVLNMNARNIILNMKVNVSAKVYDTTKGKKMCSTANG 207

Query: 180 SCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGA 239
           SCRL  +FPN+QYVI T P  GD  G +VE+SF AR++ YI +LG + ++++L+ K+LG 
Sbjct: 208 SCRLSFVFPNTQYVIFTAPGKGD-GGSYVEISFLARVLTYILLLGALMIVVYLILKFLGV 266

Query: 240 CDGNSDN----------TDSTAAREVTETDPLVHEKPVQFTYGT-TNNDEDDDAGFSSTS 288
            DG   N          T    AR+ TET+PL+  +  ++TYGT   +DE++D+G SS+S
Sbjct: 267 YDGGDRNSRVTVDATYRTSDVVARQ-TETEPLMQVETNRWTYGTNAKDDEEEDSGASSSS 325

Query: 289 SDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDC 322
           S++LYD KLC ICYD+QRN FFVPCGHCATCYDC
Sbjct: 326 SEELYDEKLCCICYDEQRNSFFVPCGHCATCYDC 359

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255538134|ref|XP_002510132.1| ubiquitin-protein ligase, putative [Ricinus communis] gi|223550833|gb|EEF52319.1| ubiquitin-protein ligase, putative [Ricinus communis]

 Score =  286 bits (732), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 137/225 (60%), Positives = 180/225 (80%), Gaps = 2/225 (0%)

Query: 126 KSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKL 185
           +SK  +Y +EEDD YY  + N NP+SI + + VNVTSK+YDL+KA+NMCS+  GSCRL +
Sbjct: 2   ESKEAEYKIEEDDKYYLSLVNTNPKSILVRVAVNVTSKLYDLSKARNMCSAIKGSCRLTI 61

Query: 186 LFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSD 245
           LFP +QYV++ TP  GD+ GW++E+SF AR+I YIAILGFI +IIFL+ KYLGAC  N+ 
Sbjct: 62  LFPKTQYVVVATPDTGDIRGWYIELSFVARVITYIAILGFIIVIIFLILKYLGACSENTV 121

Query: 246 NTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQ 305
              +    +++ET P++ EK +++TYGT  NDED+D   SS+SS+DLYDAKLCVICYD+Q
Sbjct: 122 VEMAAGPIQISETQPILPEKSIRYTYGT--NDEDNDEDGSSSSSEDLYDAKLCVICYDEQ 179

Query: 306 RNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP 350
           RNCFFVPCGHCATC+DC QRI++ + K+CPICR LIH+VR+LFTP
Sbjct: 180 RNCFFVPCGHCATCFDCAQRIIEGEGKMCPICRRLIHRVRKLFTP 224

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087364|emb|CBI33738.3| unnamed protein product [Vitis vinifera]

 Score =  166 bits (419), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 77/157 (49%), Positives = 99/157 (63%), Gaps = 3/157 (1%)

Query: 191 QYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSDNTDST 250
            + +LT+P   D   W+  +SF ARL+ Y++ LG + + IFL+ KY G  D  S+ T   
Sbjct: 36  HFRVLTSPVQDDQIAWYYAISFVARLVAYVSTLGLLVIFIFLILKYFG--DFGSETTTFE 93

Query: 251 AAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFF 310
                TET+PL+  K V FTYG    D +   G +  SS DLYD K+CVIC+D+ RNCFF
Sbjct: 94  EEVRETETNPLLPSKRVPFTYGACEEDLESGEG-NGGSSQDLYDGKICVICFDEPRNCFF 152

Query: 311 VPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL 347
           VPCGHCATCY C QRI K D+ VCP+CR  I KVR+ 
Sbjct: 153 VPCGHCATCYVCAQRIAKGDNSVCPVCRRFIRKVRKF 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569361|ref|XP_002525648.1| ubiquitin-protein ligase, putative [Ricinus communis] gi|223535084|gb|EEF36766.1| ubiquitin-protein ligase, putative [Ricinus communis]

 Score =  166 bits (419), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 106/366 (28%), Positives = 181/366 (49%), Gaps = 37/366 (10%)

Query: 1   MKASSLFVRQVEVRA--DSEKGFLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWL 58
           +K + LFV+ ++V    + + G +LYGF + P +  ET WT ++  ++  + ++  + +L
Sbjct: 156 IKTNPLFVQSIKVEEVDEPKHGPMLYGFHKPPPMDVETTWTETHKALILPHLQEW-AYFL 214

Query: 59  NKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLA 118
           NKGS + + +  ++   +   LVI +G                  +L + ID   + +  
Sbjct: 215 NKGSKVAIFYTIKSPSSSPLSLVIAQGRD----------------SLVEWIDEPSYPNST 258

Query: 119 FSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSN 178
            S+ +   S   + ++ E   YY  V N N   + + +   + + IY+ T A  MCS  +
Sbjct: 259 LSWNIIFGSGKIEQEISESSNYYIAVGNLNSEDVEVELKFRMNAFIYNTTNAFYMCSLGH 318

Query: 179 GSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLG 238
             C LKL    +   +LT+P   + D W+V+VS+  R + Y    GF+TL+I    +Y  
Sbjct: 319 RLCSLKLFLLGTNVAVLTSPVPQEGDDWYVKVSYGPRWMTYFIGSGFMTLLILFTLRYCK 378

Query: 239 ACDGNSDNTDSTAAREVTETDPLVHEKPVQF-----TYGTTNNDEDDD----------AG 283
               +S +         +E  PL+  K         +YG+T+ +E +D          AG
Sbjct: 379 MFQASSGDGIQEGDNLRSERAPLLLPKDDDVSSWGSSYGSTSQEEHEDLDELLAMNSGAG 438

Query: 284 FSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK 343
              +  ++L   +LCVIC+D  R+CFF+PCGHCA C+ CG RI  ++   CPICR  + K
Sbjct: 439 KQLSEGENL--NRLCVICFDAPRDCFFLPCGHCAACFTCGTRI-AEEPGTCPICRRSMKK 495

Query: 344 VRRLFT 349
           VR++FT
Sbjct: 496 VRKIFT 501

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	350
TAIR|locus:2042922	404	APD3 "ABERRANT POLLEN DEVELOPM	0.897	0.777	0.314	1.2e-35
TAIR|locus:4515102961	399	APD4 "ABERRANT POLLEN DEVELOPM	0.885	0.776	0.306	3.6e-34
TAIR|locus:2179187	444	APD2 "ABERRANT POLLEN DEVELOPM	0.925	0.729	0.284	9.8e-32
TAIR|locus:4515103444	178	AT4G24204 [Arabidopsis thalian	0.408	0.803	0.464	8.8e-31
ZFIN|ZDB-GENE-090311-3	558	neurla "neuralized homolog a (	0.431	0.270	0.305	1.9e-07
DICTYBASE|DDB_G0270000	424	DDB_G0270000 [Dictyostelium di	0.197	0.162	0.311	1.4e-06
RGD|1359633	254	Neurl3 "neuralized homolog 3 (	0.242	0.334	0.354	1.1e-05
ZFIN|ZDB-GENE-050522-102	560	zgc:110426 "zgc:110426" [Danio	0.305	0.191	0.290	1.1e-05
FB|FBgn0260635	438	th "thread" [Drosophila melano	0.168	0.134	0.359	2.2e-05
UNIPROTKB|I3LE70	387	MEX3C "Uncharacterized protein	0.248	0.224	0.287	2.3e-05

TAIR|locus:2042922 APD3 "ABERRANT POLLEN DEVELOPMENT 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 385 (140.6 bits), Expect = 1.2e-35, P = 1.2e-35
 Identities = 114/363 (31%), Positives = 185/363 (50%)

Query:     1 MKASSLFVRQVEVRA-D-SEKGFLLYGFS-EKPQLTHETNWTVSNFLMVGSYSRKGISLW 57
             +K SS+FV+ ++V+  D S+ G  LYGF+ +     +  NWT S  L V   S KG   +
Sbjct:    76 VKPSSIFVKSIKVKELDFSKPGLQLYGFNGQSTPSGYFVNWTESRVLSVSQNSYKGWPYY 135

Query:    58 LNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSL 117
             LN+G+ + + +     K +  +LVI +G +     +P F  SS    L D    + F   
Sbjct:   136 LNRGTHMNISYNI-LPKGSAVRLVITEGSQVIG--MPFFYRSS----LKD----IAFRDT 184

Query:   118 AFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSS 177
             A+S+ + + S + Q D+ +   YY  V N   + I + ++++V + +YD  +    CS S
Sbjct:   185 AWSWNLIQGSGMIQLDISKSKGYYLTVANLKRKDIEVELDIDVKAVLYDTKQTSYNCSFS 244

Query:   178 NGSCRLKL--LFPNSQYVILTTPSNGDL----DGWHVEVSFAARLIIYIA----ILGFIT 227
             NG C  K+   +P   Y ++T+P+ G      D W++E+S+  RLI Y +    +L F+ 
Sbjct:   245 NGECSFKMNERYPVENYAVVTSPALGQGVSIDDEWYIELSYQPRLIAYGSFTGVLLSFML 304

Query:   228 LIIFLVSKYLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSST 287
             + I   +K L  C G    +   + R       L+ +K      G  +ND  +D   S+ 
Sbjct:   305 VAIHFCNK-LKCCGGEGFLSGDDSVRTC-----LLADK------G--DNDCCNDVEASNK 350

Query:   288 SSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRT-LIHKVRR 346
             S        LC IC+D  R+C F+PCGHC +CY CG +I +   + CPICR  +IH V+R
Sbjct:   351 S--------LCAICFDAPRDCCFLPCGHCVSCYQCGTKIKRTKGR-CPICRKKMIH-VKR 400

Query:   347 LFT 349
             ++T
Sbjct:   401 IYT 403

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007067 "mitosis" evidence=IMP

TAIR|locus:4515102961 APD4 "ABERRANT POLLEN DEVELOPMENT 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 371 (135.7 bits), Expect = 3.6e-34, P = 3.6e-34
 Identities = 111/362 (30%), Positives = 180/362 (49%)

Query:     1 MKASSLFVRQVEVRA-D-SEKGFLLYGFS-EKPQLTHETNWTVSNFLMVGSYSRKGISLW 57
             +K SS+FV+ +  +  D S+ G  LYGF+ +     +  NWT S  L V   S KG   +
Sbjct:    76 VKPSSIFVKSINAKELDFSKPGLQLYGFNGQSTPSGYFVNWTESRVLSVSQNSYKGWPYY 135

Query:    58 LNKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSL 117
             LN+G+ + + +     K +  +LVI +G       +P F  SS    L D    + F   
Sbjct:   136 LNRGTHMNISYNI-LPKGSAVRLVITEG-------MPFFYRSS----LKD----IAFRDT 179

Query:   118 AFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSS 177
             A+S+ + + S + Q D+ +   YY  V N   + + + ++++V   +YD  ++   CS S
Sbjct:   180 AWSWNLIQGSGMIQLDISKSKGYYLTVANLKRKDVEVELDIDVKVVLYDTKQSSYNCSFS 239

Query:   178 NGSCRLKL--LFPNSQYVILTTPSNGDL----DGWHVEVSFAARLIIYIA----ILGFIT 227
             NG C  K+    P   Y ++T+P+ G      D W++E+S+  RLI Y +    +L F+ 
Sbjct:   240 NGECSFKMNERSPVENYAVVTSPALGQGVSIDDEWYIELSYQPRLIAYGSFTGVLLSFML 299

Query:   228 LIIFLVSKYLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSST 287
             + I   +K L  C G    ++  + R       L+ +K      G  +ND  +D   S+ 
Sbjct:   300 VAIHFCNK-LKCCGGEGFLSEDDSVRTC-----LLADK------G--DNDCCNDVEASNK 345

Query:   288 SSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL 347
             S        LC IC+D  R+C F+PCGHC +CY CG +I +   + CPICR  I  V+R+
Sbjct:   346 S--------LCAICFDAPRDCCFLPCGHCVSCYQCGTKIKRTKGR-CPICRKKIMHVKRI 396

Query:   348 FT 349
             +T
Sbjct:   397 YT 398

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007067 "mitosis" evidence=IMP

TAIR|locus:2179187 APD2 "ABERRANT POLLEN DEVELOPMENT 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 348 (127.6 bits), Expect = 9.8e-32, P = 9.8e-32
 Identities = 102/359 (28%), Positives = 161/359 (44%)

Query:     1 MKASSLFVRQVEVRADSEKG--FLLYGFSEKPQLTHETNWTVSNFLMVGSYSRKGISLWL 58
             +K +S+FV+ V V     KG   +LYG ++ PQL   T W+  ++L V + S K    +L
Sbjct:   108 IKPTSVFVQNVIVEELGNKGSGLILYGLNQAPQLDVLTKWSEVHYLAVPNDSYKYWIQYL 167

Query:    59 NKGSGIRMRWETRASKLNQTQLVIIKGEREFQTLLPKFTSSSDPPALTDPIDGMIFVSLA 118
             NKGS +++ +    S  +   LVI +G       +       DP   T P          
Sbjct:   168 NKGSRVKVSYNVE-SVGSSLYLVIAQGVDGLSEWV------QDP---TRP-------DTT 210

Query:   119 FSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSN 178
              S+ +   S   + D+ +   YY  V N     +  T+++ V   +YD T A   CS  N
Sbjct:   211 LSWHIISDSGYIEQDITKSSSYYVAVGNVYLNEVKATIDIQVEGVLYDTTNAYYNCSFPN 270

Query:   179 GSCRLKLLFPNSQYVILTTPS---NGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSK 235
               C L +    +   +LT+P    N   + +  ++S+  R I YI  +G +T ++ +VS 
Sbjct:   271 DKCTLSVPLFGTNAAVLTSPGPKLNNSKNEFCAKLSYEPRWIAYIVCMGVVTALLLIVSS 330

Query:   236 YLGACDGNSDNTDSTAAREVTETDPLVHEKPVQ-----FTYGTT-NNDEDDDAGFSSTSS 289
                        T+     E  +  PL+  K         +Y +   + E+ +       S
Sbjct:   331 LFNK---RQPVTEDETVDENDDVAPLIPGKDDDNSSWCSSYSSILTSTEELEGAHGEGHS 387

Query:   290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
                Y   LC ICYD  R+CFF+ CGHC  C+ CG RI  + S  CP+CR  I KV+++F
Sbjct:   388 STRY---LCAICYDAPRDCFFLSCGHCVACFQCGTRIA-ETSGFCPVCRKKIRKVKKIF 442

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007067 "mitosis" evidence=IMP

TAIR|locus:4515103444 AT4G24204 [Arabidopsis thaliana (taxid:3702)]

 Score = 339 (124.4 bits), Expect = 8.8e-31, P = 8.8e-31
 Identities = 72/155 (46%), Positives = 98/155 (63%)

Query:   198 PSNGD-LDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSDNT--DSTAARE 254
             PS+ D    W++ +SF+AR++IYI +LG I  I +LV K+L  CD   D       A  E
Sbjct:    26 PSDNDEFVRWYLGLSFSARVVIYITVLGTIMTITYLVLKFLSECDMEDDTQRLPLVAEEE 85

Query:   255 VTE--TDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVP 312
             VT   T PL++E     +   T   + + A FSS  SDD+  + LCVIC++++RNCFFVP
Sbjct:    86 VTTDWTPPLINE-----SLEVTGKGDVETASFSS--SDDVDYSTLCVICFEERRNCFFVP 138

Query:   313 CGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL 347
             CGH ATC  C QRI+ ++SKVCPICR +I K +RL
Sbjct:   139 CGHSATCRGCAQRILSEESKVCPICRRVIRKSKRL 173

GO:0005576 "extracellular region" evidence=ISM

GO:0005634 "nucleus" evidence=ISM

GO:0005886 "plasma membrane" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-090311-3 neurla "neuralized homolog a (Drosophila)" [Danio rerio (taxid:7955)]

 Score = 149 (57.5 bits), Expect = 1.9e-07, P = 1.9e-07
 Identities = 51/167 (30%), Positives = 76/167 (45%)

Query:   193 VILTTPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLG-ACDGNSDNTDSTA 251
             VIL+   NG   G  V V  +  L ++  + G +T +  L S +LG A D +S  + S +
Sbjct:   394 VILS--HNGTNVGMQVCVDNSRPLWMFFGLHGAVTQLRILGSTFLGDARDPSSPGSPSAS 451

Query:   252 AREVT--ETDPLVHEK--PVQF---TYGTTNNDEDD---DAGFSSTSSDDLYDAKLCVIC 301
                +     +P +HE+     F   T GTT N   +      F S S   L +   C IC
Sbjct:   452 PSGLCGGSPEPSLHERGCSAAFCSSTEGTTPNSPINLPKSPTFPSASGSWLDE---CSIC 508

Query:   302 YDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
             Y++  +     CGH   CY CG R+ K  +  CPICR  I  + + +
Sbjct:   509 YENTVDTVIYTCGHMCLCYTCGLRLKKMANASCPICRRAIKDIIKTY 555

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

DICTYBASE|DDB_G0270000 DDB_G0270000 [Dictyostelium discoideum (taxid:44689)]

 Score = 125 (49.1 bits), Expect = 1.4e-06, Sum P(2) = 1.4e-06
 Identities = 24/77 (31%), Positives = 42/77 (54%)

Query:   275 NNDEDDDAG--FS-STSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDS 331
             NN+ + ++G  F+ +    +  ++  C IC+D + N   + CGHCA C  C ++I     
Sbjct:   351 NNNSNSNSGNVFNHNVLQGETPESDCCTICFDSKINAVLLKCGHCAVCLQCTRKI----- 405

Query:   332 KVCPICRTLIHKVRRLF 348
              +CPICR  I  V +++
Sbjct:   406 SICPICRQKIDSVVQMY 422

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

RGD|1359633 Neurl3 "neuralized homolog 3 (Drosophila)" [Rattus norvegicus (taxid:10116)]

 Score = 127 (49.8 bits), Expect = 1.1e-05, P = 1.1e-05
 Identities = 34/96 (35%), Positives = 47/96 (48%)

Query:   259 DPLVHEKP---VQFTYGTTNNDE--DDDAGFSSTSSDDLYDAKL-----CVICYDDQRNC 308
             D LV   P   V   YGTT   E  D  A    TS + + ++++     CVIC+ +  N 
Sbjct:   148 DVLVQGAPLWAVMDVYGTTKAIELLDPKANAWITSGEPMPESEVTSGEECVICFHNTANT 207

Query:   309 FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
               +PCGH   C  C   I KD ++ CP+CR  I +V
Sbjct:   208 RLMPCGHSQFCGSCAWHIFKDTAR-CPMCRWQIEEV 242

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

ZFIN|ZDB-GENE-050522-102 zgc:110426 "zgc:110426" [Danio rerio (taxid:7955)]

 Score = 133 (51.9 bits), Expect = 1.1e-05, P = 1.1e-05
 Identities = 32/110 (29%), Positives = 50/110 (45%)

Query:   242 GNS-DNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVI 300
             G+S D++DS  A  V  +        V  T  ++         FSS+ +     +  C +
Sbjct:   453 GSSPDDSDSDLAFSVNRSSSASESSLV--TAPSSPLSPPVSPSFSSSDAPLSNKSSECTV 510

Query:   301 CYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP 350
             C+D + +     CGH   C DCGQR+ +  +  CPICR  I  V + + P
Sbjct:   511 CFDQEVDTVIYTCGHMCLCNDCGQRLKRQINACCPICRRPIKDVIKTYRP 560

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

FB|FBgn0260635 th "thread" [Drosophila melanogaster (taxid:7227)]

 Score = 122 (48.0 bits), Expect = 2.2e-05, Sum P(2) = 2.2e-05
 Identities = 23/64 (35%), Positives = 33/64 (51%)

Query:   285 SSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
             +S+ S  + + KLC ICY  + N  F+PCGH   C  C   + K     CP+CR     V
Sbjct:   378 NSSGSTSIPEEKLCKICYGAEYNTAFLPCGHVVACAKCASSVTK-----CPLCRKPFTDV 432

Query:   345 RRLF 348
              R++
Sbjct:   433 MRVY 436

GO:0043066 "negative regulation of apoptotic process" evidence=IGI;ISS;NAS;IMP;IDA;TAS

GO:0006915 "apoptotic process" evidence=NAS;TAS;IPI

GO:0007275 "multicellular organismal development" evidence=TAS

GO:0043154 "negative regulation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IGI;TAS

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

GO:0006513 "protein monoubiquitination" evidence=TAS

GO:0008354 "germ cell migration" evidence=TAS

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

GO:0007289 "spermatid nucleus differentiation" evidence=IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009987 "cellular process" evidence=IMP

GO:0007298 "border follicle cell migration" evidence=IGI;IMP

GO:0048800 "antennal morphogenesis" evidence=IMP

GO:0007423 "sensory organ development" evidence=IMP

GO:0046673 "negative regulation of compound eye retinal cell programmed cell death" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

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

GO:0045035 "sensory organ precursor cell division" evidence=IGI

GO:0008407 "chaeta morphogenesis" evidence=IMP

GO:0019899 "enzyme binding" evidence=IPI

GO:0019788 "NEDD8 ligase activity" evidence=IDA

GO:0090263 "positive regulation of canonical Wnt receptor signaling pathway" evidence=IMP

UNIPROTKB|I3LE70 MEX3C "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 128 (50.1 bits), Expect = 2.3e-05, P = 2.3e-05
 Identities = 25/87 (28%), Positives = 44/87 (50%)

Query:   255 VTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCG 314
             ++ T P   E P+      TN+    + G +S+S  +      CVIC++++     VPCG
Sbjct:   293 LSPTFPESIEHPLARRVSGTNSYSSSNGGSTSSSPPESRRKHDCVICFENEVIAALVPCG 352

Query:   315 HCATCYDCGQRIMKDDSKVCPICRTLI 341
             H   C +C  +I +  +  CP+C+T +
Sbjct:   353 HNLFCMECANKICEKRTPSCPVCQTAV 379

GO:0043231 "intracellular membrane-bounded organelle" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003723 "RNA 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: eugene3.00400367 hypothetical protein (386 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	350
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	1e-16
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	8e-10
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-08
smart00184	40	smart00184, RING, Ring finger	2e-06
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	9e-05

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 72.8 bits (179), Expect = 1e-16
 Identities = 23/51 (45%), Positives = 29/51 (56%), Gaps = 2/51 (3%)

Query: 294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
           +  LCVIC +  RN  F+PCGH   C +C +R+     K CPICR  I  V
Sbjct: 1   EDDLCVICLERPRNVVFLPCGHLCLCEECAKRLRS--KKKCPICRQPIESV 49

Length = 49

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

 Score = 53.3 bits (128), Expect = 8e-10
 Identities = 21/47 (44%), Positives = 25/47 (53%), Gaps = 3/47 (6%)

Query: 294 DAKLCVICYDDQRNC-FFVPCGHCATCYDCGQRIMKDDSKVCPICRT 339
           +   C IC D  R+     PCGH   C +C  R +K  SK CPICRT
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVF-CRECILRYLKKKSK-CPICRT 45

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 = 49.0 bits (117), Expect = 3e-08
 Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 298 CVICYDD-QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLI 341
           C IC ++ +     +PCGH   C  C  + +K     CP+CRT I
Sbjct: 2   CPICLEEFREPVVLLPCGHV-FCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 43.7 bits (103), Expect = 2e-06
 Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 2/41 (4%)

Query: 298 CVICYDD-QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPIC 337
           C IC ++  ++   +PCGH   C  C ++ ++  +  CPIC
Sbjct: 1   CPICLEEYLKDPVILPCGH-TFCRSCIRKWLESGNNTCPIC 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|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 39.3 bits (92), Expect = 9e-05
 Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 5/45 (11%)

Query: 298 CVICYDD---QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRT 339
           C IC D+         +PCGH     +C  + ++  S  CP+CR 
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHV-FHKECLDKWLRS-SNTCPLCRA 45

Length = 46

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	350
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	99.53
KOG1001	674	consensus Helicase-like transcription factor HLTF/	99.5
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	99.38
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.25
KOG1002	791	consensus Nucleotide excision repair protein RAD16	99.15
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	99.06
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.89
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.81
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.76
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.75
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.74
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	98.73
PHA02929	238	N1R/p28-like protein; Provisional	98.72
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.67
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.64
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.53
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.49
PHA02926	242	zinc finger-like protein; Provisional	98.47
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.47
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.4
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.37
PF14634	44	zf-RING_5: zinc-RING finger domain	98.36
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.36
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.23
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.2
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.14
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.09
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.07
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.02
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.01
KOG1327	529	consensus Copine [Signal transduction mechanisms]	97.99
KOG4439	901	consensus RNA polymerase II transcription terminat	97.93
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.87
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.85
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.79
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.78
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.74
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	97.72
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.71
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.69
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.53
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.47
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.31
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.29
COG5236	493	Uncharacterized conserved protein, contains RING Z	97.09
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.07
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	96.9
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	96.83
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.83
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.65
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.63
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.52
KOG3002	299	consensus Zn finger protein [General function pred	96.51
COG5152	259	Uncharacterized conserved protein, contains RING a	96.29
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.14
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	95.99
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.98
KOG0825	1134	consensus PHD Zn-finger protein [General function	95.87
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.87
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.24
PF04641	260	Rtf2: Rtf2 RING-finger	95.2
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.19
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	95.18
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	94.95
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	94.55
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.44
KOG2660	331	consensus Locus-specific chromosome binding protei	93.67
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	93.47
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	92.99
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	92.7
COG5219	1525	Uncharacterized conserved protein, contains RING Z	92.7
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	92.56
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	92.31
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.49
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	90.82
cd01459	254	vWA_copine_like VWA Copine: Copines are phospholip	90.61
COG5222	427	Uncharacterized conserved protein, contains RING Z	90.43
PHA02825	162	LAP/PHD finger-like protein; Provisional	90.36
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.07
KOG4445	368	consensus Uncharacterized conserved protein, conta	89.84
PHA02862	156	5L protein; Provisional	89.66
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	88.01
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	87.84
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	87.75
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	87.74
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	87.45
KOG3842	429	consensus Adaptor protein Pellino [Signal transduc	86.58
KOG0385	971	consensus Chromatin remodeling complex WSTF-ISWI,	86.46
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	86.11
PLN03142	1033	Probable chromatin-remodeling complex ATPase chain	85.85
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	85.37
PHA03096	284	p28-like protein; Provisional	84.9
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	83.21
KOG2113	394	consensus Predicted RNA binding protein, contains	82.93
PF04710	416	Pellino: Pellino; InterPro: IPR006800 Pellino is i	80.12

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

Probab=99.53  E-value=8.1e-16  Score=144.48  Aligned_cols=51  Identities=49%  Similarity=1.209  Sum_probs=48.4

Q ss_pred             CcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeeccc
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT  349 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~  349 (350)
                      .+.+|.||+|+++|++|++|||++.|.+|++++     ..|||||+.|.++++||+
T Consensus       299 ~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~rvvrif~  349 (350)
T KOG4275|consen  299 TRRLCAICMDAPRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIVRVVRIFR  349 (350)
T ss_pred             HHHHHHHHhcCCcceEEeecCcEEeehhhcccc-----ccCchHHHHHHHHHhhhc
Confidence            378999999999999999999999999999998     589999999999999996

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

Probab=99.50  E-value=2e-15  Score=159.30  Aligned_cols=198  Identities=15%  Similarity=0.209  Sum_probs=146.3

Q ss_pred             cchhhccccccceeeeecccccceeEeec-CCCCcceeEEEeeechhhhHHHHhhhccCCCCCCceeEeeccCCceEEEE
Q 036765          117 LAFSFQMNKKSKIGQYDVEEDDMYYFGVT-NKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVIL  195 (350)
Q Consensus       117 ~~~~~~li~~l~i~~y~~~~~~~~~~~~~-n~~~~si~m~l~v~v~~~l~~~mk~~~k~s~~~g~~iL~l~f~~~q~vv~  195 (350)
                      +...||+++||++.||+.+..|.-.+..+ ..+...-.+   -.+++.+..+|++|+|..+++|+||+  .+|++++.+.
T Consensus       297 ~~~lysl~~fl~~~p~~~~~~~~~~i~~p~~~~~~~~~~---k~l~~~L~~v~lrrtK~~~~~gk~i~--~lppk~v~~~  371 (674)
T KOG1001|consen  297 LDELYSLFKFLEIHPYCDQNYFKLLIQDPDERNKYKEGV---KTLQGILKKVMLRRTKEMEVDGKPIL--ELPPKTVFVT  371 (674)
T ss_pred             HHHHHHHHHHhhcCCchhhHHHHHHhcChhhhhhHHHHH---HHHHHHHHHHHhcccccccccCcccc--ccCcceeEee
Confidence            45789999999999999999999888876 222211122   26788999999999999999999988  7899999999


Q ss_pred             EcCCCCCccchhhhchhhHHHHH--HHH---HHHHHHHHHHHHHHHhCCCCCCCCCCCcccccccCCCCcCCCCCCcccc
Q 036765          196 TTPSNGDLDGWHVEVSFAARLII--YIA---ILGFITLIIFLVSKYLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFT  270 (350)
Q Consensus       196 t~~~s~~e~~~y~el~~~~r~l~--yi~---~~G~~~~il~LlLrl~~~c~h~~~~~~~~~~~~~~e~~pl~~~~~~~~~  270 (350)
                      +...+..++.||++++...+.++  |+-   ....|+.+++++||+||+|+|+.+.......   .+......+.     
T Consensus       372 ~~~~~~~e~~~y~~l~~~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~---~~~~~~~~~~-----  443 (674)
T KOG1001|consen  372 EVDLSKSERSAYKALKANSRNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDS---LGDSGSAAAL-----  443 (674)
T ss_pred             eccccHhHHHHHHHHhhhhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhc---cccccccchH-----
Confidence            99999999999999999888887  433   2334999999999999999998653321000   0000000000     


Q ss_pred             cCCCCCCCCCCCCCCCCCcccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcC-CCCCccccccccc
Q 036765          271 YGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD-SKVCPICRTLIHK  343 (350)
Q Consensus       271 ~g~~~~~~~d~~~~s~~~~~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~-~~~CPiCR~~I~~  343 (350)
                                    ......+......|.+|.+ ...+++++||| .+|.+|....++.. ...||+||..+..
T Consensus       444 --------------~~~~i~~l~~~~~c~ic~~-~~~~~it~c~h-~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  444 --------------IIRLIVDLSVSHWCHICCD-LDSFFITRCGH-DFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             --------------HHHHHHHHhhccccccccc-cccceeecccc-hHHHHHHHhccccccCCCCcHHHHHHHH
Confidence                          0000111112278999999 77888999999 99999999987763 3469999988764

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

Probab=99.38  E-value=3.6e-14  Score=101.86  Aligned_cols=55  Identities=36%  Similarity=0.905  Sum_probs=51.2

Q ss_pred             ceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecccC
Q 036765          296 KLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP  350 (350)
Q Consensus       296 ~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~p  350 (350)
                      .+|.||++.+.|.++.-||||+.|++|..++++.....||+||++|..++|.|++
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY~s   62 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTYRS   62 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhhcC
Confidence            6799999999999999999999999999999987678899999999999998874

>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=99.25  E-value=3.7e-12  Score=91.14  Aligned_cols=49  Identities=41%  Similarity=1.069  Sum_probs=42.2

Q ss_pred             cceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccce
Q 036765          295 AKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV  344 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~  344 (350)
                      +..|.||++..++++++||||..+|..|+.++.+. ...||+||++|+.+
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~~V   50 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIESV   50 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-SEE
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhcCC
Confidence            46799999999999999999955999999999875 68999999999864

...

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

Probab=99.15  E-value=3e-11  Score=121.45  Aligned_cols=143  Identities=16%  Similarity=0.243  Sum_probs=103.9

Q ss_pred             echhhhHHHHhhhccCCCCCCceeEeeccCCceEEEEEcCCCCCccchhhhchhhHHHH--HHHH---HHHHHHHHHHHH
Q 036765          159 NVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARLI--IYIA---ILGFITLIIFLV  233 (350)
Q Consensus       159 ~v~~~l~~~mk~~~k~s~~~g~~iL~l~f~~~q~vv~t~~~s~~e~~~y~el~~~~r~l--~yi~---~~G~~~~il~Ll  233 (350)
                      .+...+.++|++|+|    =|+. -.+-+|+.-+-+-..-+++.|.++|..|=..++.-  .||.   .+..|++|..|+
T Consensus       434 ~~h~llk~ImlrrTk----l~RA-dDLgLPPRiv~vRrD~fn~eE~D~YeSLY~dSkrkfntyieeGvvlNNYAnIF~Li  508 (791)
T KOG1002|consen  434 NIHTLLKNIMLRRTK----LERA-DDLGLPPRIVTVRRDFFNEEEKDLYESLYKDSKRKFNTYIEEGVVLNNYANIFTLI  508 (791)
T ss_pred             HHHHHHHHHHHHHhh----cccc-cccCCCccceeeehhhhhhHHHHHHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHH
Confidence            567899999999999    3332 12457777666655666677888998887665554  4877   355599999999


Q ss_pred             HHHhCCCCCCCCCCCcccccccCCCCcCCCCCCcccccCCCCCCCCCCCCCCCCCcccccCcceeeccccccccEEEcCC
Q 036765          234 SKYLGACDGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPC  313 (350)
Q Consensus       234 Lrl~~~c~h~~~~~~~~~~~~~~e~~pl~~~~~~~~~~g~~~~~~~d~~~~s~~~~~~~~~~~~C~IC~d~~~~~v~lpC  313 (350)
                      -|+||+-.||.+.+.       +....++                           .+..+..+|.+|.|...+.+...|
T Consensus       509 tRmRQ~aDHP~LVl~-------S~~~n~~---------------------------~enk~~~~C~lc~d~aed~i~s~C  554 (791)
T KOG1002|consen  509 TRMRQAADHPDLVLY-------SANANLP---------------------------DENKGEVECGLCHDPAEDYIESSC  554 (791)
T ss_pred             HHHHHhccCcceeee-------hhhcCCC---------------------------ccccCceeecccCChhhhhHhhhh
Confidence            999999999976442       1111111                           011245789999999999999999


Q ss_pred             CCccccHHhHHHHhhc----CCCCCccccccc
Q 036765          314 GHCATCYDCGQRIMKD----DSKVCPICRTLI  341 (350)
Q Consensus       314 GH~~~C~~C~~~~~~~----~~~~CPiCR~~I  341 (350)
                      .| .||+-|+......    ....||.|-..+
T Consensus       555 hH-~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  555 HH-KFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             hH-HHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            99 9999999776553    357899997654

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

Probab=99.06  E-value=9.6e-11  Score=113.69  Aligned_cols=56  Identities=30%  Similarity=0.810  Sum_probs=49.6

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeeccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT  349 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~  349 (350)
                      +...+|+||++..+|.+++||.|++.|..|+..+.-+ ...||+||++|...++|+.
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~ll~i~~  343 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEELLEIYV  343 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHh-hcCCCccccchHhhheecc
Confidence            4578999999999999999999999999999998633 4679999999999888763

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.89  E-value=1.5e-09  Score=98.19  Aligned_cols=55  Identities=24%  Similarity=0.645  Sum_probs=45.2

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhc---------------CCCCCccccccccc--eeecc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKD---------------DSKVCPICRTLIHK--VRRLF  348 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~---------------~~~~CPiCR~~I~~--~~ri~  348 (350)
                      .++.+|+||++..++++.++||| .||..|+..|...               +...||+||.+|..  .+++|
T Consensus        16 ~~~~~CpICld~~~dPVvT~CGH-~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiy   87 (193)
T PLN03208         16 GGDFDCNICLDQVRDPVVTLCGH-LFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIY   87 (193)
T ss_pred             CCccCCccCCCcCCCcEEcCCCc-hhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEee
Confidence            45688999999999999999999 9999999988542               13579999999875  45554

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

Probab=98.81  E-value=3.6e-09  Score=73.22  Aligned_cols=39  Identities=41%  Similarity=0.950  Sum_probs=31.6

Q ss_pred             eeccccccccEEEcCCCCccccHHhHHHHhhcCC---CCCccc
Q 036765          298 CVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDS---KVCPIC  337 (350)
Q Consensus       298 C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~---~~CPiC  337 (350)
                      |+||++...+++.++||| .||..|+.++++...   ..||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH-~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGH-SFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSS-EEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcC-HHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999999999999999 999999999998743   359988

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

Probab=98.76  E-value=9e-09  Score=94.87  Aligned_cols=55  Identities=29%  Similarity=0.646  Sum_probs=47.4

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcC--CCCCcccccccc--ceeecc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD--SKVCPICRTLIH--KVRRLF  348 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~--~~~CPiCR~~I~--~~~ri~  348 (350)
                      .....|-||+|..++++++.||| .||..|+-+|....  .+.||+|+..|+  +++.||
T Consensus        45 ~~~FdCNICLd~akdPVvTlCGH-LFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDPVVTLCGH-LFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY  103 (230)
T ss_pred             CCceeeeeeccccCCCEEeeccc-ceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence            45789999999999999999999 89999999997752  466999998876  567776

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

Probab=98.75  E-value=4.8e-09  Score=99.35  Aligned_cols=51  Identities=25%  Similarity=0.735  Sum_probs=45.1

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCcccccccccee
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR  345 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~  345 (350)
                      +....|.+|++...++..+|||| .||..|+..|... +..||.||+++....
T Consensus       237 ~a~~kC~LCLe~~~~pSaTpCGH-iFCWsCI~~w~~e-k~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSATPCGH-IFCWSCILEWCSE-KAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCceEEEecCCCCCCcCcCcc-hHHHHHHHHHHcc-ccCCCcccccCCCcc
Confidence            34578999999999999999999 9999999999876 577999999988643

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

Probab=98.74  E-value=6.7e-09  Score=70.43  Aligned_cols=38  Identities=37%  Similarity=1.097  Sum_probs=33.4

Q ss_pred             eeccccccccE-EEcCCCCccccHHhHHHHhhcCCCCCccc
Q 036765          298 CVICYDDQRNC-FFVPCGHCATCYDCGQRIMKDDSKVCPIC  337 (350)
Q Consensus       298 C~IC~d~~~~~-v~lpCGH~~~C~~C~~~~~~~~~~~CPiC  337 (350)
                      |+||++...++ ++++||| .||.+|+.++.+. ..+||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH-~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGH-SFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSE-EEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCC-chhHHHHHHHHHC-cCCCcCC
Confidence            89999999998 6899999 8999999999888 6899998

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

Probab=98.73  E-value=3.2e-09  Score=103.30  Aligned_cols=52  Identities=38%  Similarity=1.012  Sum_probs=47.4

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeeccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT  349 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~  349 (350)
                      .....|.||.+++.+++|+||||++.|..|...+     ..||+||+.|..++++|.
T Consensus       303 ~~p~lcVVcl~e~~~~~fvpcGh~ccct~cs~~l-----~~CPvCR~rI~~~~k~y~  354 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKSAVFVPCGHVCCCTLCSKHL-----PQCPVCRQRIRLVRKRYR  354 (355)
T ss_pred             CCCCceEEecCCccceeeecCCcEEEchHHHhhC-----CCCchhHHHHHHHHHHhc
Confidence            3567899999999999999999999999998887     679999999999999885

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.72  E-value=8.9e-09  Score=96.48  Aligned_cols=51  Identities=29%  Similarity=0.708  Sum_probs=42.1

Q ss_pred             Ccceeecccccccc--------EEEcCCCCccccHHhHHHHhhcCCCCCccccccccceee
Q 036765          294 DAKLCVICYDDQRN--------CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRR  346 (350)
Q Consensus       294 ~~~~C~IC~d~~~~--------~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~r  346 (350)
                      .+.+|+||++...+        .+..+||| .||.+|+.+|.+. ...||+||.++..+++
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H-~FC~~CI~~Wl~~-~~tCPlCR~~~~~v~~  231 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNH-VFCIECIDIWKKE-KNTCPVCRTPFISVIK  231 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCC-cccHHHHHHHHhc-CCCCCCCCCEeeEEee
Confidence            45789999997543        35678999 9999999998775 6889999999987654

>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=98.67  E-value=9.4e-09  Score=71.41  Aligned_cols=40  Identities=33%  Similarity=0.865  Sum_probs=34.3

Q ss_pred             eeecccccc---ccEEEcCCCCccccHHhHHHHhhcCCCCCcccc
Q 036765          297 LCVICYDDQ---RNCFFVPCGHCATCYDCGQRIMKDDSKVCPICR  338 (350)
Q Consensus       297 ~C~IC~d~~---~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR  338 (350)
                      +|+||++..   ..++.++||| .||.+|+..|.+. ...||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H-~fh~~Ci~~~~~~-~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGH-VFHRSCIKEWLKR-NNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSE-EEEHHHHHHHHHH-SSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCC-eeCHHHHHHHHHh-CCcCCccC
Confidence            599999986   3477889999 9999999999887 57999998

...

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

Probab=98.64  E-value=1.2e-08  Score=90.55  Aligned_cols=52  Identities=31%  Similarity=0.760  Sum_probs=42.9

Q ss_pred             cceeecccccccc--EEEcCCCCccccHHhHHHHhhcCCCCCccccccccc--eeecc
Q 036765          295 AKLCVICYDDQRN--CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK--VRRLF  348 (350)
Q Consensus       295 ~~~C~IC~d~~~~--~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~--~~ri~  348 (350)
                      -..|||||+....  ++-+.||| +||..|++...+. ..+||+||..|+.  +.+||
T Consensus       131 ~~~CPiCl~~~sek~~vsTkCGH-vFC~~Cik~alk~-~~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKVPVSTKCGH-VFCSQCIKDALKN-TNKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             ccCCCceecchhhccccccccch-hHHHHHHHHHHHh-CCCCCCcccccchhhheecc
Confidence            4679999998665  45579999 9999999998776 6889999998875  46665

>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=98.53  E-value=6.6e-08  Score=65.86  Aligned_cols=39  Identities=36%  Similarity=1.019  Sum_probs=35.2

Q ss_pred             eeccccccccEE-EcCCCCccccHHhHHHHhh-cCCCCCccc
Q 036765          298 CVICYDDQRNCF-FVPCGHCATCYDCGQRIMK-DDSKVCPIC  337 (350)
Q Consensus       298 C~IC~d~~~~~v-~lpCGH~~~C~~C~~~~~~-~~~~~CPiC  337 (350)
                      |+||++...++. +++||| .||..|+.++++ .....||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H-~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGH-SFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSE-EEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCC-cchHHHHHHHHHhcCCccCCcC
Confidence            899999999988 999999 899999999988 446779998

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 ....

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

Probab=98.49  E-value=9.5e-08  Score=64.85  Aligned_cols=44  Identities=39%  Similarity=0.984  Sum_probs=35.7

Q ss_pred             eeeccccccccEE-EcCCCCccccHHhHHHHhhcCCCCCccccccc
Q 036765          297 LCVICYDDQRNCF-FVPCGHCATCYDCGQRIMKDDSKVCPICRTLI  341 (350)
Q Consensus       297 ~C~IC~d~~~~~v-~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I  341 (350)
                      .|+||++...+.+ +.+||| .||..|+..+.+.....||+||..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H-~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGH-VFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCC-hhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999985544 445999 8999999998776457899999764

>PHA02926 zinc finger-like protein; Provisional

Probab=98.47  E-value=7.4e-08  Score=88.49  Aligned_cols=51  Identities=31%  Similarity=0.660  Sum_probs=39.8

Q ss_pred             Ccceeecccccc---------ccEEEcCCCCccccHHhHHHHhhcC-----CCCCcccccccccee
Q 036765          294 DAKLCVICYDDQ---------RNCFFVPCGHCATCYDCGQRIMKDD-----SKVCPICRTLIHKVR  345 (350)
Q Consensus       294 ~~~~C~IC~d~~---------~~~v~lpCGH~~~C~~C~~~~~~~~-----~~~CPiCR~~I~~~~  345 (350)
                      .+.+|+||++..         +-.++.+|+| .||..|+..|.+..     ...||+||+.+..+.
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnH-sFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~  233 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNH-IFCITCINIWHRTRRETGASDNCPICRTRFRNIT  233 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCc-hHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence            457899999863         1256779999 99999999997642     245999999987653

>smart00504 Ubox Modified RING finger domain

Probab=98.47  E-value=1.2e-07  Score=70.28  Aligned_cols=46  Identities=13%  Similarity=0.236  Sum_probs=41.8

Q ss_pred             ceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          296 KLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       296 ~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..|+||.+...+++.++||| .||++|+.+++.. ...||+|+.++..
T Consensus         2 ~~Cpi~~~~~~~Pv~~~~G~-v~~~~~i~~~~~~-~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDPVILPSGQ-TYERRAIEKWLLS-HGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCCEECCCCC-EEeHHHHHHHHHH-CCCCCCCcCCCCh
Confidence            46999999999999999999 9999999999887 6789999998853

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

>smart00184 RING Ring finger

Probab=98.40  E-value=2.1e-07  Score=60.94  Aligned_cols=39  Identities=36%  Similarity=1.071  Sum_probs=34.6

Q ss_pred             eeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccc
Q 036765          298 CVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPIC  337 (350)
Q Consensus       298 C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiC  337 (350)
                      |+||++...+++.++||| .||..|+..+.+.....||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H-~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGH-TFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCC-hHHHHHHHHHHHhCcCCCCCC
Confidence            889999988999999999 899999999987445779987

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)

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.37  E-value=2e-07  Score=93.33  Aligned_cols=53  Identities=26%  Similarity=0.512  Sum_probs=46.0

Q ss_pred             cccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          289 SDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       289 ~~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...++....|+||.+...++++++||| .||..|+..++.. ...||.||..+..
T Consensus        20 l~~Le~~l~C~IC~d~~~~PvitpCgH-~FCs~CI~~~l~~-~~~CP~Cr~~~~~   72 (397)
T TIGR00599        20 LYPLDTSLRCHICKDFFDVPVLTSCSH-TFCSLCIRRCLSN-QPKCPLCRAEDQE   72 (397)
T ss_pred             ccccccccCCCcCchhhhCccCCCCCC-chhHHHHHHHHhC-CCCCCCCCCcccc
Confidence            344567789999999999999999999 9999999998876 4679999998764

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.36  E-value=2.8e-07  Score=64.13  Aligned_cols=41  Identities=37%  Similarity=0.914  Sum_probs=34.1

Q ss_pred             eeecccccc---ccEEEcCCCCccccHHhHHHHhhcCCCCCccccc
Q 036765          297 LCVICYDDQ---RNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRT  339 (350)
Q Consensus       297 ~C~IC~d~~---~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~  339 (350)
                      .|+||++..   ..+.+++||| .||..|+..+. .....||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH-~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGH-IFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCC-HHHHHHHHhhc-CCCCCCcCCCC
Confidence            489998877   3478899999 99999999996 22578999985

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

Probab=98.36  E-value=2e-07  Score=94.46  Aligned_cols=48  Identities=29%  Similarity=0.580  Sum_probs=43.4

Q ss_pred             cceeeccccccccEEEcCCCCccccHHhHHHHhhcC----CCCCccccccccc
Q 036765          295 AKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD----SKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~----~~~CPiCR~~I~~  343 (350)
                      +..||||++.+.-++.+.||| .||..|+-++|...    -..||+||..|..
T Consensus       186 ~~~CPICL~~~~~p~~t~CGH-iFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGH-IFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcccccccCc-eeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            788999999999999999999 99999999998873    3579999999987

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

Probab=98.23  E-value=6.2e-07  Score=62.37  Aligned_cols=36  Identities=39%  Similarity=0.922  Sum_probs=22.2

Q ss_pred             eecccccccc----EEEcCCCCccccHHhHHHHhhcC---CCCCc
Q 036765          298 CVICYDDQRN----CFFVPCGHCATCYDCGQRIMKDD---SKVCP  335 (350)
Q Consensus       298 C~IC~d~~~~----~v~lpCGH~~~C~~C~~~~~~~~---~~~CP  335 (350)
                      |+||.+ ..+    ++.++||| .+|.+|+.++....   .-+||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH-~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGH-VFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS--EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCcc-HHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 766    88899999 99999999998852   33576

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

Probab=98.20  E-value=7.9e-07  Score=86.89  Aligned_cols=47  Identities=30%  Similarity=0.737  Sum_probs=39.3

Q ss_pred             cCcceeeccccccc-------------cEEEcCCCCccccHHhHHHHhhcCCCCCccccccc
Q 036765          293 YDAKLCVICYDDQR-------------NCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLI  341 (350)
Q Consensus       293 ~~~~~C~IC~d~~~-------------~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I  341 (350)
                      +++..|.||+|+.-             .+.-+|||| ++..+|++.|.++ +..||+||.++
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGH-ilHl~CLknW~ER-qQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGH-ILHLHCLKNWLER-QQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccc-eeeHHHHHHHHHh-ccCCCcccCcc
Confidence            35678999999821             245689999 9999999999887 78999999984

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

Probab=98.14  E-value=1e-06  Score=82.79  Aligned_cols=50  Identities=24%  Similarity=0.652  Sum_probs=41.6

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCC-CCCccccccccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDS-KVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~-~~CPiCR~~I~~  343 (350)
                      ..+..|+||++.+.++..+|||| .||..|+-..|...+ ..||.||+.+..
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgH-lFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGH-LFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCcccccccc-hhhHHHHHHHHHhhccccCchhhhhccc
Confidence            34678999999999999999999 999999998444323 459999998764

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

Probab=98.09  E-value=2.7e-06  Score=65.62  Aligned_cols=49  Identities=22%  Similarity=0.354  Sum_probs=40.2

Q ss_pred             CcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +...|+||.+.+.+++.+|||| .+++.|+.++.......||+|++++..
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~-tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGH-TYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSE-EEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             cccCCcCcCcHhhCceeCCcCC-EEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            5689999999999999999999 999999999988766889999998875

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 ....

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

Probab=98.07  E-value=7.4e-07  Score=94.03  Aligned_cols=55  Identities=24%  Similarity=0.632  Sum_probs=48.3

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc--eeecc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK--VRRLF  348 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~--~~ri~  348 (350)
                      ..-..|++|-+.+++++++.||| +||..|.....+.+..+||.|..++..  +.+||
T Consensus       641 K~~LkCs~Cn~R~Kd~vI~kC~H-~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVITKCGH-VFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             HhceeCCCccCchhhHHHHhcch-HHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence            45689999999999999999999 999999999877767899999999864  66665

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

Probab=98.02  E-value=1.5e-06  Score=80.46  Aligned_cols=46  Identities=35%  Similarity=0.834  Sum_probs=40.6

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRT  339 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~  339 (350)
                      ..+...|+||++..+++..+|||| .||..|+..++. ....||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~p~~l~C~H-~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREPVLLPCGH-NFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcCccccccc-hHhHHHHHHhcC-CCcCCcccCC
Confidence            346788999999999999999999 999999999987 3578999993

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

Probab=98.01  E-value=4.7e-06  Score=64.41  Aligned_cols=41  Identities=32%  Similarity=0.861  Sum_probs=32.2

Q ss_pred             ceeecccccc-------------ccEEEcCCCCccccHHhHHHHhhcCCCCCcccc
Q 036765          296 KLCVICYDDQ-------------RNCFFVPCGHCATCYDCGQRIMKDDSKVCPICR  338 (350)
Q Consensus       296 ~~C~IC~d~~-------------~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR  338 (350)
                      ..|.||++..             ..++..+||| .|...|+.+|.+. ...||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H-~FH~~Ci~~Wl~~-~~~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGH-IFHFHCISQWLKQ-NNTCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSE-EEEHHHHHHHHTT-SSB-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCC-CEEHHHHHHHHhc-CCcCCCCC
Confidence            3499999875             2245668999 9999999999877 56999998

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 ....

>KOG1327 consensus Copine [Signal transduction mechanisms]

Probab=97.99  E-value=3.8e-06  Score=86.23  Aligned_cols=78  Identities=18%  Similarity=0.143  Sum_probs=68.5

Q ss_pred             CCCCcceeEEEeeechhhhHHHHhhhccCCCCCCceeEe----eccCCceEEEEEcCCCCCccchhhhchhhHHHHHHHH
Q 036765          146 NKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLK----LLFPNSQYVILTTPSNGDLDGWHVEVSFAARLIIYIA  221 (350)
Q Consensus       146 n~~~~si~m~l~v~v~~~l~~~mk~~~k~s~~~g~~iL~----l~f~~~q~vv~t~~~s~~e~~~y~el~~~~r~l~yi~  221 (350)
                      +..|.||++   ||||+..|++|+.+++    |++....    +.+|++|||.|+..+++.++.+-++.+++..+|++|+
T Consensus       439 S~lPlSIIi---VGVGd~df~~M~~lD~----d~~~l~~~gr~~~rD~vQFV~f~~~~~~~~~~~~~~~~lA~~vL~EIP  511 (529)
T KOG1327|consen  439 SDLPLSIII---VGVGDADFDMMRELDG----DDPKLRSPGRIAERDNVQFVPFRDIMNGAENPSDKEAALALAVLAEIP  511 (529)
T ss_pred             ccCCeEEEE---EEeCCCCHHHHHHhhc----CCcccccccccccccceEeecHHHHhhcCCcccchhHHHHHHHHHHhh
Confidence            688999999   9999999999999998    5544333    6799999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 036765          222 ILGFITLIIFLVS  234 (350)
Q Consensus       222 ~~G~~~~il~LlL  234 (350)
                      .|.+    .|+.+
T Consensus       512 ~Q~~----~y~~~  520 (529)
T KOG1327|consen  512 QQYV----QYMRL  520 (529)
T ss_pred             HHHH----HHHHh
Confidence            9998    45555

>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=97.93  E-value=3.4e-06  Score=88.50  Aligned_cols=117  Identities=9%  Similarity=0.004  Sum_probs=82.5

Q ss_pred             hhccccccceeeeecccccceeEeecCCCCcceeEEEeeechhhhHHHHhhhccCCCCCCceeEeeccCCceEEEEEcCC
Q 036765          120 SFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILTTPS  199 (350)
Q Consensus       120 ~~~li~~l~i~~y~~~~~~~~~~~~~n~~~~si~m~l~v~v~~~l~~~mk~~~k~s~~~g~~iL~l~f~~~q~vv~t~~~  199 (350)
                      -|+|++|||+.||.+.+.-..     |.++.+..+.  =+|.=+...+|++|+|.-+-.+..+.  .+|++++.+-+..+
T Consensus       509 vysLlrFLr~~pF~D~~~Wke-----~i~~~s~~g~--~rlnll~K~LmLRRTKdQl~a~~klv--~Lp~k~i~l~~leL  579 (901)
T KOG4439|consen  509 VYSLLRFLRCPPFGDLKQWKE-----NIDNMSKGGA--NRLNLLTKSLMLRRTKDQLQANGKLV--NLPEKNIELHELEL  579 (901)
T ss_pred             HHHHHHHhcCCCcchHHHHHH-----hccCccccch--hhhhhhhhhHHhhhhHHhhccccccc--cCcccceEEEEEee
Confidence            699999999999986655443     3444444442  22333678889999886664445544  58899999999999


Q ss_pred             CCCccchhhhchhhHHHHH-H-HHH---------------------------------------HHHHHHHHHHHHHHhC
Q 036765          200 NGDLDGWHVEVSFAARLII-Y-IAI---------------------------------------LGFITLIIFLVSKYLG  238 (350)
Q Consensus       200 s~~e~~~y~el~~~~r~l~-y-i~~---------------------------------------~G~~~~il~LlLrl~~  238 (350)
                      +++|..-|.-+.-+.+-++ . +..                                       .-+.++||.||+||||
T Consensus       580 s~~E~~vY~i~~~askk~~kq~L~~~e~~~~~~~~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ  659 (901)
T KOG4439|consen  580 SGDEAKVYQIMMEASKKLFKQFLLQREDRNNDGGYQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQ  659 (901)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHhhhhhccccCccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHH
Confidence            9999988887765554443 2 210                                       0124679999999999


Q ss_pred             CCCCCCC
Q 036765          239 ACDGNSD  245 (350)
Q Consensus       239 ~c~h~~~  245 (350)
                      +|||+.+
T Consensus       660 ~ccH~~~  666 (901)
T KOG4439|consen  660 ACCHFGL  666 (901)
T ss_pred             HhcCcch
Confidence            9999954

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

Probab=97.87  E-value=4.8e-06  Score=79.60  Aligned_cols=50  Identities=34%  Similarity=0.697  Sum_probs=43.2

Q ss_pred             CcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccce
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV  344 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~  344 (350)
                      ...+|+||+.....++.++|+| .||+.|++-....+...|++||++|+..
T Consensus         6 ~~~eC~IC~nt~n~Pv~l~C~H-kFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    6 KKKECLICYNTGNCPVNLYCFH-KFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             cCCcceeeeccCCcCccccccc-hhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            3467999999988899999999 9999999887666567799999999864

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

Probab=97.85  E-value=5.9e-06  Score=80.05  Aligned_cols=49  Identities=24%  Similarity=0.611  Sum_probs=44.0

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .+-..|-||.+-++.++++|||| .||.-|+..+... ...||.|+.++..
T Consensus        21 D~lLRC~IC~eyf~ip~itpCsH-tfCSlCIR~~L~~-~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIPMITPCSH-TFCSLCIRKFLSY-KPQCPTCCVTVTE   69 (442)
T ss_pred             HHHHHHhHHHHHhcCceeccccc-hHHHHHHHHHhcc-CCCCCceecccch
Confidence            45578999999999999999999 9999999999877 6899999988764

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

Probab=97.79  E-value=6.9e-06  Score=81.02  Aligned_cols=50  Identities=32%  Similarity=0.808  Sum_probs=44.1

Q ss_pred             ceeeccccccccEEEcCCCCccccHHhHHHHhhcC-CCCCccccccccceee
Q 036765          296 KLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD-SKVCPICRTLIHKVRR  346 (350)
Q Consensus       296 ~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~-~~~CPiCR~~I~~~~r  346 (350)
                      .+|.||-++.+|+.+-|||| ..|..|+..|.... ...||.||..|....+
T Consensus       370 eLCKICaendKdvkIEPCGH-LlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGH-LLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHHhhccCCCcccccccc-hHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            68999999999999999999 89999999997664 5789999999987543

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

Probab=97.78  E-value=1.1e-05  Score=76.83  Aligned_cols=49  Identities=27%  Similarity=0.483  Sum_probs=42.9

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .....|-||-+..+.++.++||| .||.-|+.+.... ...||.||.+...
T Consensus        23 Ds~lrC~IC~~~i~ip~~TtCgH-tFCslCIR~hL~~-qp~CP~Cr~~~~e   71 (391)
T COG5432          23 DSMLRCRICDCRISIPCETTCGH-TFCSLCIRRHLGT-QPFCPVCREDPCE   71 (391)
T ss_pred             hhHHHhhhhhheeecceeccccc-chhHHHHHHHhcC-CCCCccccccHHh
Confidence            34578999999999999999999 9999999998776 6889999987543

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

Probab=97.74  E-value=1.7e-05  Score=78.04  Aligned_cols=47  Identities=26%  Similarity=0.709  Sum_probs=39.8

Q ss_pred             ceeecccccccc---EEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          296 KLCVICYDDQRN---CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       296 ~~C~IC~d~~~~---~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..|+||+|..+.   ...+||+| .|...|+..|.......||+|++.+.+
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H-~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSH-KFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCC-chhhccchhhHhhcCccCCCCCCcCCC
Confidence            589999998654   56789999 999999999988754569999998765

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

Probab=97.72  E-value=1.3e-05  Score=73.98  Aligned_cols=46  Identities=26%  Similarity=0.755  Sum_probs=41.3

Q ss_pred             eeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecc
Q 036765          298 CVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF  348 (350)
Q Consensus       298 C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~  348 (350)
                      |..|.+....++++||.|+++|..|....     ..||+|+.+......+|
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~~-----~~CPiC~~~~~s~~~v~  206 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDESL-----RICPICRSPKTSSVEVN  206 (207)
T ss_pred             ceecCcCCceEEeecccceEecccccccC-----ccCCCCcChhhceeecc
Confidence            99999999999999999999999998763     66999999998877765

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

Probab=97.71  E-value=1.2e-05  Score=84.04  Aligned_cols=47  Identities=30%  Similarity=0.785  Sum_probs=41.4

Q ss_pred             cCcceeecccccccc-----EEEcCCCCccccHHhHHHHhhcCCCCCccccccc
Q 036765          293 YDAKLCVICYDDQRN-----CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLI  341 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~-----~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I  341 (350)
                      ..+..|+||+|....     +..+|||| .||..|+..|.++ ...||+||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~H-ifh~~CL~~W~er-~qtCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGH-IFHDSCLRSWFER-QQTCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhccccccccceeeccc-chHHHHHHHHHHH-hCcCCcchhhh
Confidence            456789999999877     67889999 9999999999998 78999999843

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

Probab=97.69  E-value=2.3e-05  Score=75.10  Aligned_cols=50  Identities=28%  Similarity=0.582  Sum_probs=40.6

Q ss_pred             cCcceeeccccccc---cEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          293 YDAKLCVICYDDQR---NCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~---~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...-+|.||+....   ..+.+||.| .|...|+..|...-+.+||+||.++..
T Consensus       321 ~~GveCaICms~fiK~d~~~vlPC~H-~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLPCDH-RFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEeccCc-eechhHHHHHHhhhcccCCccCCCCCC
Confidence            45578999998743   266789999 999999999977446789999998753

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

Probab=97.53  E-value=3.6e-05  Score=75.04  Aligned_cols=49  Identities=35%  Similarity=0.880  Sum_probs=43.7

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .++..||||+..+.+.+|.||+| .-|+.|+.+...+ .+.|-.|...+..
T Consensus       420 sEd~lCpICyA~pi~Avf~PC~H-~SC~~CI~qHlmN-~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFAPCSH-RSCYGCITQHLMN-CKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecccchhhccCCCC-chHHHHHHHHHhc-CCeeeEecceeee
Confidence            46789999999999999999999 8999999998776 6889999988764

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

Probab=97.47  E-value=0.00011  Score=58.37  Aligned_cols=34  Identities=21%  Similarity=0.535  Sum_probs=28.2

Q ss_pred             EEEcCCCCccccHHhHHHHhhcC--CCCCcccccccc
Q 036765          308 CFFVPCGHCATCYDCGQRIMKDD--SKVCPICRTLIH  342 (350)
Q Consensus       308 ~v~lpCGH~~~C~~C~~~~~~~~--~~~CPiCR~~I~  342 (350)
                      .+.-.|+| .|..-|+.++.+..  +..||+||++..
T Consensus        47 lv~g~C~H-~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   47 LVWGKCSH-NFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             eeeccCcc-HHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            34568999 99999999998863  478999999865

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

Probab=97.31  E-value=3.3e-05  Score=75.35  Aligned_cols=53  Identities=25%  Similarity=0.610  Sum_probs=43.5

Q ss_pred             ccCcceeeccccccccEE-EcCCCCccccHHhHHHHhhcCCCCCcccccccccee
Q 036765          292 LYDAKLCVICYDDQRNCF-FVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR  345 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v-~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~  345 (350)
                      +..+..|+||++-.+... ...|+| .||.+|+..-.+.....||.||+.....+
T Consensus        40 ~~~~v~c~icl~llk~tmttkeClh-rfc~~ci~~a~r~gn~ecptcRk~l~Skr   93 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKTMTTKECLH-RFCFDCIWKALRSGNNECPTCRKKLVSKR   93 (381)
T ss_pred             hhhhhccHHHHHHHHhhcccHHHHH-HHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence            356788999999987754 446999 89999999988876788999999876543

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

Probab=97.29  E-value=0.00011  Score=73.73  Aligned_cols=50  Identities=26%  Similarity=0.716  Sum_probs=43.7

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...+.+|.||+...-.++.+|||| .+|..|+.+..+. ...||.||..+..
T Consensus        81 ~~sef~c~vc~~~l~~pv~tpcgh-s~c~~Cl~r~ld~-~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPPVVTPCGH-SFCLECLDRSLDQ-ETECPLCRDELVE  130 (398)
T ss_pred             ccchhhhhhhHhhcCCCccccccc-cccHHHHHHHhcc-CCCCccccccccc
Confidence            357899999999999999999999 9999999887665 6889999988764

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

Probab=97.09  E-value=0.00047  Score=67.27  Aligned_cols=54  Identities=33%  Similarity=0.626  Sum_probs=42.9

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhc-CCCCCccccccccce
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKD-DSKVCPICRTLIHKV  344 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~-~~~~CPiCR~~I~~~  344 (350)
                      +..++...|.||-+...-...+||+| .+|..|+.++.-- ..+.||+||..-+.+
T Consensus        56 dtDEen~~C~ICA~~~TYs~~~PC~H-~~CH~Ca~RlRALY~~K~C~~CrTE~e~V  110 (493)
T COG5236          56 DTDEENMNCQICAGSTTYSARYPCGH-QICHACAVRLRALYMQKGCPLCRTETEAV  110 (493)
T ss_pred             ccccccceeEEecCCceEEEeccCCc-hHHHHHHHHHHHHHhccCCCccccccceE
Confidence            33467889999988887788899999 8999999887332 357899999876554

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

Probab=97.07  E-value=9.2e-05  Score=55.58  Aligned_cols=45  Identities=27%  Similarity=0.643  Sum_probs=25.0

Q ss_pred             cCcceeeccccccccEE-EcCCCCccccHHhHHHHhhcCCCCCccccccc
Q 036765          293 YDAKLCVICYDDQRNCF-FVPCGHCATCYDCGQRIMKDDSKVCPICRTLI  341 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v-~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I  341 (350)
                      ++...|.+|.+-.+.++ +..|.| .||..|+.+...   ..||+|+.|-
T Consensus         5 e~lLrCs~C~~~l~~pv~l~~CeH-~fCs~Ci~~~~~---~~CPvC~~Pa   50 (65)
T PF14835_consen    5 EELLRCSICFDILKEPVCLGGCEH-IFCSSCIRDCIG---SECPVCHTPA   50 (65)
T ss_dssp             HHTTS-SSS-S--SS-B---SSS---B-TTTGGGGTT---TB-SSS--B-
T ss_pred             HHhcCCcHHHHHhcCCceeccCcc-HHHHHHhHHhcC---CCCCCcCChH
Confidence            45578999999999986 579999 999999977533   4699999885

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=96.90  E-value=0.00057  Score=66.42  Aligned_cols=31  Identities=35%  Similarity=0.804  Sum_probs=27.5

Q ss_pred             CCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          312 PCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       312 pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +||| .||..|+.+++..+...||.|+.++..
T Consensus        25 ~CGH-~~C~sCv~~l~~~~~~~CP~C~~~lrk   55 (309)
T TIGR00570        25 VCGH-TLCESCVDLLFVRGSGSCPECDTPLRK   55 (309)
T ss_pred             CCCC-cccHHHHHHHhcCCCCCCCCCCCccch
Confidence            8999 999999999987766789999988765

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

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

Probab=96.83  E-value=0.00047  Score=69.96  Aligned_cols=50  Identities=30%  Similarity=0.654  Sum_probs=39.1

Q ss_pred             cCcceeecccccc-----------------ccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          293 YDAKLCVICYDDQ-----------------RNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~-----------------~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +....|+||+...                 ++-.++||.| .|...|+.+|.+.-+-.||.||.++..
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~H-ifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHH-IFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHH-HHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            3457899999752                 2344679999 999999999988434589999998754

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

Probab=96.83  E-value=0.00053  Score=67.73  Aligned_cols=51  Identities=31%  Similarity=0.666  Sum_probs=40.6

Q ss_pred             CcceeeccccccccEE-----E---cCCCCccccHHhHHHHhhcC------CCCCcccccccccee
Q 036765          294 DAKLCVICYDDQRNCF-----F---VPCGHCATCYDCGQRIMKDD------SKVCPICRTLIHKVR  345 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v-----~---lpCGH~~~C~~C~~~~~~~~------~~~CPiCR~~I~~~~  345 (350)
                      .+..|.||++...+..     +   .+|-| .||..|+..|....      ...||+||.+...+.
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H-~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~  224 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNH-SFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN  224 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcch-hhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence            5688999999876655     4   68999 99999999986432      367999999876543

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

Probab=96.65  E-value=0.00087  Score=47.64  Aligned_cols=43  Identities=28%  Similarity=0.727  Sum_probs=21.9

Q ss_pred             eecccccc--ccEEEc--CCCCccccHHhHHHHhhcCCCCCccccccc
Q 036765          298 CVICYDDQ--RNCFFV--PCGHCATCYDCGQRIMKDDSKVCPICRTLI  341 (350)
Q Consensus       298 C~IC~d~~--~~~v~l--pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I  341 (350)
                      ||+|.+..  .+.-|.  +||+ ..|..|..++.+.....||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf-~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGF-QICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS-----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCC-cHHHHHHHHHHhccCCCCCCCCCCC
Confidence            67777664  223344  5799 8999999999875568999999874

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

Probab=96.63  E-value=0.0017  Score=61.66  Aligned_cols=51  Identities=25%  Similarity=0.518  Sum_probs=39.7

Q ss_pred             ccCcceeeccccccccEEEc-CCCCccccHHhHHHHhhcC-CCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDD-SKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~-~~~CPiCR~~I~~  343 (350)
                      ...+.+|++|-+.+..+... +||| .+|+.|+..-...+ .-.||.|..+...
T Consensus       236 ~t~~~~C~~Cg~~PtiP~~~~~C~H-iyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPHVIGKCGH-IYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             ccCCceeeccCCCCCCCeeeccccc-eeehhhhhhhhcchhhcccCccCCCCcc
Confidence            34678999999999887655 5999 99999997753321 3589999988764

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.52  E-value=0.0012  Score=48.18  Aligned_cols=46  Identities=28%  Similarity=0.596  Sum_probs=37.3

Q ss_pred             CcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ....|..|.......+++|||| ..|..|..-. +  -..||+|.++++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH-~I~~~~f~~~-r--YngCPfC~~~~~~   51 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGH-LICDNCFPGE-R--YNGCPFCGTPFEF   51 (55)
T ss_pred             cceeEEEccccccccccccccc-eeeccccChh-h--ccCCCCCCCcccC
Confidence            3467999988888888889999 8999997654 1  2679999999875

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

Probab=96.51  E-value=0.0011  Score=64.51  Aligned_cols=46  Identities=33%  Similarity=0.863  Sum_probs=39.3

Q ss_pred             cCcceeeccccccccEEEcCC--CCccccHHhHHHHhhcCCCCCccccccccce
Q 036765          293 YDAKLCVICYDDQRNCFFVPC--GHCATCYDCGQRIMKDDSKVCPICRTLIHKV  344 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpC--GH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~  344 (350)
                      .+-.+||||++....+++ .|  || ..|..|..+.    ..+||.||.+|..+
T Consensus        46 ~~lleCPvC~~~l~~Pi~-QC~nGH-laCssC~~~~----~~~CP~Cr~~~g~~   93 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPPIF-QCDNGH-LACSSCRTKV----SNKCPTCRLPIGNI   93 (299)
T ss_pred             hhhccCchhhccCcccce-ecCCCc-Eehhhhhhhh----cccCCccccccccH
Confidence            456789999999998877 77  89 8999999876    57899999999854

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

Probab=96.29  E-value=0.0017  Score=59.11  Aligned_cols=49  Identities=27%  Similarity=0.537  Sum_probs=40.9

Q ss_pred             CcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccce
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV  344 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~  344 (350)
                      -.+.|.||-...+.++...||| .||..|+.+-.+. ...|-+|.......
T Consensus       195 IPF~C~iCKkdy~spvvt~CGH-~FC~~Cai~~y~k-g~~C~~Cgk~t~G~  243 (259)
T COG5152         195 IPFLCGICKKDYESPVVTECGH-SFCSLCAIRKYQK-GDECGVCGKATYGR  243 (259)
T ss_pred             Cceeehhchhhccchhhhhcch-hHHHHHHHHHhcc-CCcceecchhhccc
Confidence            3579999999999999999999 9999999876544 57899998765543

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

Probab=96.14  E-value=0.002  Score=64.94  Aligned_cols=53  Identities=28%  Similarity=0.679  Sum_probs=44.7

Q ss_pred             ccCcceeeccccccccEEE-cCCCCccccHHhHHHHhhcCCCCCccccccccceee
Q 036765          292 LYDAKLCVICYDDQRNCFF-VPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRR  346 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~-lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~r  346 (350)
                      ..++..|++|....++++. ..||| .||..|+..+... ...||.||+.+.....
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh-~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~   71 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGH-RFCAGCLLESLSN-HQKCPVCRQELTQAEE   71 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCC-cccccccchhhcc-CcCCcccccccchhhc
Confidence            3466889999999999988 49999 9999999998766 6899999988765443

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

Probab=95.99  E-value=0.0043  Score=62.60  Aligned_cols=45  Identities=22%  Similarity=0.620  Sum_probs=36.1

Q ss_pred             ccCcceeecccccccc----EEEcCCCCccccHHhHHHHhhcCCCCCcccccc
Q 036765          292 LYDAKLCVICYDDQRN----CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTL  340 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~----~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~  340 (350)
                      ..+-..||||++....    ++.+.|.| .|...|+..|+.   ..||+||--
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~c~H-sfh~~cl~~w~~---~scpvcR~~  220 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTILCNH-SFHCSCLMKWWD---SSCPVCRYC  220 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeeeccc-ccchHHHhhccc---CcChhhhhh
Confidence            4466789999988654    35679999 999999999965   579999843

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

Probab=95.98  E-value=0.0025  Score=61.19  Aligned_cols=48  Identities=23%  Similarity=0.505  Sum_probs=41.3

Q ss_pred             cceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccce
Q 036765          295 AKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV  344 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~  344 (350)
                      .+.|-||.....+++...||| .||..|+..-.+. ...|++|.+.+..+
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h-~fc~~ca~~~~qk-~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGH-YFCEVCALKPYQK-GEKCYVCSQQTHGS  288 (313)
T ss_pred             CccccccccccccchhhcCCc-eeehhhhcccccc-CCcceecccccccc
Confidence            466999999999999999999 9999998776554 57899999988764

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

Probab=95.87  E-value=0.0025  Score=67.88  Aligned_cols=50  Identities=18%  Similarity=0.332  Sum_probs=40.0

Q ss_pred             CcceeeccccccccE---EEcCCCCccccHHhHHHHhhcCCCCCcccccccccee
Q 036765          294 DAKLCVICYDDQRNC---FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR  345 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~---v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~  345 (350)
                      ....|++|+....+-   .-.+|+| .||..|+..|.+. ...||+||..+..++
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H-~FC~~Ci~sWsR~-aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAH-YFCEECVGSWSRC-AQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhcccccccc-ccHHHHhhhhhhh-cccCchhhhhhheee
Confidence            346799998876663   2458999 9999999999776 688999999887654

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

Probab=95.87  E-value=0.013  Score=57.01  Aligned_cols=56  Identities=23%  Similarity=0.545  Sum_probs=42.4

Q ss_pred             cCcceeeccccccccE-EEcCCCCccccHHhHHHHhhcCCCCCccc--cccccceeecccC
Q 036765          293 YDAKLCVICYDDQRNC-FFVPCGHCATCYDCGQRIMKDDSKVCPIC--RTLIHKVRRLFTP  350 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~-v~lpCGH~~~C~~C~~~~~~~~~~~CPiC--R~~I~~~~ri~~p  350 (350)
                      .+...||+|+....++ ++.--|- +||+.|+-..... .+.||+-  ...++..+|+|.+
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGy-VfCY~Ci~~Yv~~-~~~CPVT~~p~~v~~l~rl~~~  356 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGY-VFCYPCIFSYVVN-YGHCPVTGYPASVDHLIRLFNK  356 (357)
T ss_pred             CccccChhHHhccCCCceEEecce-EEeHHHHHHHHHh-cCCCCccCCcchHHHHHHHhcC
Confidence            4567899999887764 4445688 9999999998775 6889974  4555667777754

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.24  E-value=0.015  Score=54.58  Aligned_cols=48  Identities=19%  Similarity=0.493  Sum_probs=40.3

Q ss_pred             Ccceeecccccccc----EEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRN----CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~----~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ....||||.|...+    .++-|||| ++|.+|..++.+. ...||+|-.+...
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~-Vv~~ecvEklir~-D~v~pv~d~plkd  271 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGH-VVTKECVEKLIRK-DMVDPVTDKPLKD  271 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCc-EeeHHHHHHhccc-cccccCCCCcCcc
Confidence            45799999998665    45679999 9999999999776 5789999988765

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.20  E-value=0.019  Score=54.70  Aligned_cols=49  Identities=18%  Similarity=0.420  Sum_probs=39.4

Q ss_pred             ccCcceeeccccccc----cEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQR----NCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~----~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ......|||+...+.    -+.+.|||| +++..++..+.  ....||+|-.++..
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~-V~s~~alke~k--~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGC-VFSEKALKELK--KSKKCPVCGKPFTE  162 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCC-EeeHHHHHhhc--ccccccccCCcccc
Confidence            345689999988763    356779999 99999999994  24679999999875

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

Probab=95.19  E-value=0.0093  Score=59.66  Aligned_cols=45  Identities=27%  Similarity=0.628  Sum_probs=34.1

Q ss_pred             cCcceeecccccccc---EEEcCCCCccccHHhHHHHhhc-------CCCCCcccc
Q 036765          293 YDAKLCVICYDDQRN---CFFVPCGHCATCYDCGQRIMKD-------DSKVCPICR  338 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~---~v~lpCGH~~~C~~C~~~~~~~-------~~~~CPiCR  338 (350)
                      .....|.||++...-   ..++||+| +||..|.....+.       ...+||-|.
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~H-v~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSH-VFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccch-HHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            345789999998654   77999999 9999999887553       124577654

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

Probab=95.18  E-value=0.018  Score=50.76  Aligned_cols=51  Identities=24%  Similarity=0.575  Sum_probs=35.3

Q ss_pred             cceeeccccccccEEEcCCC-Ccc-----------ccHHhHHHHhhc------------------------------CCC
Q 036765          295 AKLCVICYDDQRNCFFVPCG-HCA-----------TCYDCGQRIMKD------------------------------DSK  332 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~lpCG-H~~-----------~C~~C~~~~~~~------------------------------~~~  332 (350)
                      +-.||||||.+-+.++|-|. |-.           -...|+.++.+.                              ..-
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L   81 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL   81 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence            35699999999999998773 211           135677776442                              023


Q ss_pred             CCcccccccccee
Q 036765          333 VCPICRTLIHKVR  345 (350)
Q Consensus       333 ~CPiCR~~I~~~~  345 (350)
                      .||+||+.|..-.
T Consensus        82 ~CPLCRG~V~GWt   94 (162)
T PF07800_consen   82 ACPLCRGEVKGWT   94 (162)
T ss_pred             cCccccCceeceE
Confidence            5999999987643

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

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

Probab=94.95  E-value=0.022  Score=40.55  Aligned_cols=41  Identities=32%  Similarity=0.842  Sum_probs=32.3

Q ss_pred             eeecccc--ccccEEEcCCC-----CccccHHhHHHHhhcC-CCCCcccc
Q 036765          297 LCVICYD--DQRNCFFVPCG-----HCATCYDCGQRIMKDD-SKVCPICR  338 (350)
Q Consensus       297 ~C~IC~d--~~~~~v~lpCG-----H~~~C~~C~~~~~~~~-~~~CPiCR  338 (350)
                      .|.||++  ...++.+.||.     | .+...|+.+|.... ...||+|.
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~-~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLK-YVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchh-HHHHHHHHHHHHHcCCCcCCCCC
Confidence            3889997  45667788995     6 68999999998763 45799994

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

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

Probab=94.55  E-value=0.025  Score=41.67  Aligned_cols=42  Identities=21%  Similarity=0.339  Sum_probs=28.9

Q ss_pred             CcceeeccccccccEEE-cCCCCccccHHhHHHHhhc-CCCCCcc
Q 036765          294 DAKLCVICYDDQRNCFF-VPCGHCATCYDCGQRIMKD-DSKVCPI  336 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~-lpCGH~~~C~~C~~~~~~~-~~~~CPi  336 (350)
                      ....|||.+....+++. ..||| .|.++.+.++... ....||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H-~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGH-TFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS---EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcCCCCC-eecHHHHHHHHHhcCCCCCCC
Confidence            35789999999999876 48999 9999999999843 3467998

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.44  E-value=0.019  Score=56.28  Aligned_cols=47  Identities=28%  Similarity=0.658  Sum_probs=36.1

Q ss_pred             ceeecccccccc----EEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          296 KLCVICYDDQRN----CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       296 ~~C~IC~d~~~~----~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .-||.|++....    -.--|||. ..|..|...+.+.-.++||-||+..+.
T Consensus        15 d~cplcie~mditdknf~pc~cgy-~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          15 DYCPLCIEPMDITDKNFFPCPCGY-QICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             ccCcccccccccccCCcccCCccc-HHHHHHHHHHHhhccCCChHhhhhccc
Confidence            449999987532    23347898 899999999866656899999998764

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

Probab=93.67  E-value=0.02  Score=55.81  Aligned_cols=51  Identities=27%  Similarity=0.604  Sum_probs=42.7

Q ss_pred             cCcceeeccccccccEE-EcCCCCccccHHhHHHHhhcCCCCCcccccccccee
Q 036765          293 YDAKLCVICYDDQRNCF-FVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR  345 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v-~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~  345 (350)
                      .....|.+|-.-..|+. +.-|=| .||..|+.+.+.. ...||.|...|....
T Consensus        13 n~~itC~LC~GYliDATTI~eCLH-TFCkSCivk~l~~-~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATTITECLH-TFCKSCIVKYLEE-SKYCPTCDIVIHKTH   64 (331)
T ss_pred             ccceehhhccceeecchhHHHHHH-HHHHHHHHHHHHH-hccCCccceeccCcc
Confidence            45578999999888864 456999 9999999999887 688999999887653

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

Probab=93.47  E-value=0.016  Score=44.33  Aligned_cols=47  Identities=23%  Similarity=0.403  Sum_probs=23.5

Q ss_pred             ceeeccccccc-c---EEE----cCCCCccccHHhHHHHhhc----C------CCCCccccccccc
Q 036765          296 KLCVICYDDQR-N---CFF----VPCGHCATCYDCGQRIMKD----D------SKVCPICRTLIHK  343 (350)
Q Consensus       296 ~~C~IC~d~~~-~---~v~----lpCGH~~~C~~C~~~~~~~----~------~~~CPiCR~~I~~  343 (350)
                      .+|.||+...- +   +..    -.|++ .|...|+.+|...    +      .+.||.|+.+|.-
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~-~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGK-KFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT-----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCC-HHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            56999997643 2   221    26888 8999999999764    1      2469999998863

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

Probab=92.99  E-value=0.048  Score=51.97  Aligned_cols=50  Identities=18%  Similarity=0.479  Sum_probs=38.7

Q ss_pred             cCcceeeccccccc----------cEEEcCCCCccccHHhHHHHhhcC-CCCCccccccccc
Q 036765          293 YDAKLCVICYDDQR----------NCFFVPCGHCATCYDCGQRIMKDD-SKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~----------~~v~lpCGH~~~C~~C~~~~~~~~-~~~CPiCR~~I~~  343 (350)
                      .++..|.||-...-          +.--+.|+| +|...|+.-|.-.+ ++.||-|...++.
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnH-vFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNH-VFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeeccc-chHHHhhhhheeecCCCCCchHHHHhhH
Confidence            46678999954422          344689999 99999999986653 4679999998875

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

Probab=92.70  E-value=0.07  Score=45.79  Aligned_cols=49  Identities=29%  Similarity=0.628  Sum_probs=40.6

Q ss_pred             ceeeccccccccEEEcC----CCCccccHHhHHHHhhcC--CCCCcccccccccee
Q 036765          296 KLCVICYDDQRNCFFVP----CGHCATCYDCGQRIMKDD--SKVCPICRTLIHKVR  345 (350)
Q Consensus       296 ~~C~IC~d~~~~~v~lp----CGH~~~C~~C~~~~~~~~--~~~CPiCR~~I~~~~  345 (350)
                      -+|-||.|...+-.|+.    ||- ..|..|-..+|+..  -+.||.|+..+...-
T Consensus        81 YeCnIC~etS~ee~FLKPneCCgY-~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   81 YECNICKETSAEERFLKPNECCGY-SICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             eeccCcccccchhhcCCcccccch-HHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            46999999988877662    898 89999999999874  367999999987643

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

Probab=92.70  E-value=0.05  Score=59.53  Aligned_cols=48  Identities=23%  Similarity=0.520  Sum_probs=35.6

Q ss_pred             Ccceeeccccccc-------cEEEcCCCCccccHHhHHHHhhcC-CCCCcccccccc
Q 036765          294 DAKLCVICYDDQR-------NCFFVPCGHCATCYDCGQRIMKDD-SKVCPICRTLIH  342 (350)
Q Consensus       294 ~~~~C~IC~d~~~-------~~v~lpCGH~~~C~~C~~~~~~~~-~~~CPiCR~~I~  342 (350)
                      .-.+|+||+....       .-..-.|.| -|...|+-.|.+.. ..+||.||..|+
T Consensus      1468 G~eECaICYsvL~~vdr~lPskrC~TCkn-KFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSKRCATCKN-KFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCccccchhhh-hhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3478999986421       111235889 89999999998863 568999998875

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

Probab=92.56  E-value=0.05  Score=51.04  Aligned_cols=45  Identities=29%  Similarity=0.733  Sum_probs=34.3

Q ss_pred             Ccceeeccccc---cccEEE--cC-CCCccccHHhHHHHhhcCCCCCc--cccc
Q 036765          294 DAKLCVICYDD---QRNCFF--VP-CGHCATCYDCGQRIMKDDSKVCP--ICRT  339 (350)
Q Consensus       294 ~~~~C~IC~d~---~~~~v~--lp-CGH~~~C~~C~~~~~~~~~~~CP--iCR~  339 (350)
                      .+..||+|...   ..|+.+  -| |-| ..|..|..+++..+...||  -|..
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyH-rmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYH-RMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHH-HHHHHHHHHHhcCCCCCCCCccHHH
Confidence            34679999764   233333  36 999 8999999999998778999  7854

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

Probab=92.31  E-value=0.085  Score=59.96  Aligned_cols=49  Identities=24%  Similarity=0.763  Sum_probs=39.6

Q ss_pred             Ccceeecccccc---ccEEEcCCCCccccHHhHHHHhhcC---------CCCCccccccccc
Q 036765          294 DAKLCVICYDDQ---RNCFFVPCGHCATCYDCGQRIMKDD---------SKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~---~~~v~lpCGH~~~C~~C~~~~~~~~---------~~~CPiCR~~I~~  343 (350)
                      .+..|.||+.+.   ..++-+.|+| .|...|..++.+++         -..||+|.++|+.
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL~C~H-iFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSH-IFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cCceEEEEehhhhCCCcceecCCcc-chhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            467899999874   3467889999 89999999987762         2569999999874

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

Probab=91.49  E-value=0.18  Score=50.31  Aligned_cols=47  Identities=28%  Similarity=0.692  Sum_probs=31.0

Q ss_pred             cceeeccccccccEEEc-----------------CCCCccc-----cHHhHHHHhhc------------CCCCCcccccc
Q 036765          295 AKLCVICYDDQRNCFFV-----------------PCGHCAT-----CYDCGQRIMKD------------DSKVCPICRTL  340 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~l-----------------pCGH~~~-----C~~C~~~~~~~------------~~~~CPiCR~~  340 (350)
                      ...|.-|+.+..++.+.                 +|+. ++     |.+|..+|+-.            ++..||.||++
T Consensus       271 ~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~-C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~  349 (358)
T PF10272_consen  271 LEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQ-CYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAK  349 (358)
T ss_pred             cCCccccccCCCCcEEEeccCCcccCCcccccCCCCcc-ccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccc
Confidence            34577777766665433                 3444 32     78999988553            34679999998


Q ss_pred             cc
Q 036765          341 IH  342 (350)
Q Consensus       341 I~  342 (350)
                      +-
T Consensus       350 FC  351 (358)
T PF10272_consen  350 FC  351 (358)
T ss_pred             ce
Confidence            65

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

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

Probab=90.82  E-value=0.22  Score=39.12  Aligned_cols=32  Identities=28%  Similarity=0.472  Sum_probs=27.2

Q ss_pred             EEcCCCCccccHHhHHHHhhcCCCCCcccccccc
Q 036765          309 FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIH  342 (350)
Q Consensus       309 v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~  342 (350)
                      +---|.| .|..-|+.+|... +..||+||++..
T Consensus        50 ~wG~CnH-aFH~HCI~rWL~T-k~~CPld~q~w~   81 (88)
T COG5194          50 VWGVCNH-AFHDHCIYRWLDT-KGVCPLDRQTWV   81 (88)
T ss_pred             EEEecch-HHHHHHHHHHHhh-CCCCCCCCceeE
Confidence            3446999 9999999999887 688999999764

>cd01459 vWA_copine_like VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium

Probab=90.61  E-value=0.24  Score=47.30  Aligned_cols=75  Identities=20%  Similarity=0.121  Sum_probs=51.4

Q ss_pred             eeEeecCCCCcceeEEEeeechhhhHHHHhhhccCCC---CCCceeEeeccCCceEEEEEcCCCCCccchhhhchhhHHH
Q 036765          140 YYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSS---SNGSCRLKLLFPNSQYVILTTPSNGDLDGWHVEVSFAARL  216 (350)
Q Consensus       140 ~~~~~~n~~~~si~m~l~v~v~~~l~~~mk~~~k~s~---~~g~~iL~l~f~~~q~vv~t~~~s~~e~~~y~el~~~~r~  216 (350)
                      ..+.-++..|.||++   ||||+..++.|++.+..-.   .+|+.   +.+||+|||.|+......+   ..+.+++.++
T Consensus       176 ~aIv~AS~~PlSIii---VGVGd~~F~~M~~LD~d~~l~~~~~~~---~~rDnvqFV~f~~~~~~~~---~~~~~La~~~  246 (254)
T cd01459         176 KAIVEASKYPLSIVI---VGVGDGPFDAMERLDDDDGLESSDGRI---ATRDIVQFVPFTEFMSNAG---NPEAALATAA  246 (254)
T ss_pred             HHHHHHhcCCeEEEE---EEeCCCChHHHHHhcCccccccccCCc---ceecceeeecchhhccccc---ccHHHHHHHH
Confidence            334444678999999   9999999999999876211   12343   4689999999987653321   2344566677


Q ss_pred             HHHHHHH
Q 036765          217 IIYIAIL  223 (350)
Q Consensus       217 l~yi~~~  223 (350)
                      +++|+.|
T Consensus       247 L~EiP~Q  253 (254)
T cd01459         247 LAEIPSQ  253 (254)
T ss_pred             HHhcccc
Confidence            7777754

They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. Phylogenetic distribution suggests that copines have been lost in some eukaryotes. No functional properties have been assigned to the VWA domains present in copines. The members of this subgroup contain a functional MIDAS motif based on their preferential binding to magnesium and manganese. However, the MIDAS motif is not totally conserved, in most cases the MIDAS consists of the sequence DxTxS instead of the motif DxSxS that is found in most cases. The C2 domains present in copines mediate phospholipid binding.

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

Probab=90.43  E-value=0.13  Score=49.71  Aligned_cols=43  Identities=33%  Similarity=0.681  Sum_probs=35.2

Q ss_pred             ceeeccccccccEEEcC-CCCccccHHhHHHHhhcCCCCCccccc
Q 036765          296 KLCVICYDDQRNCFFVP-CGHCATCYDCGQRIMKDDSKVCPICRT  339 (350)
Q Consensus       296 ~~C~IC~d~~~~~v~lp-CGH~~~C~~C~~~~~~~~~~~CPiCR~  339 (350)
                      ..|+.|....++++-+| ||| .||.+|+....-...-.||.|.+
T Consensus       275 LkCplc~~Llrnp~kT~cC~~-~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGH-TFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccc-hHHHHHHhhhhhhccccCCCccc
Confidence            78999999999988775 789 99999998654433578999976

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=90.36  E-value=0.37  Score=42.66  Aligned_cols=49  Identities=22%  Similarity=0.400  Sum_probs=36.2

Q ss_pred             CcceeeccccccccEEEcCCCCc----cccHHhHHHHhhcC-CCCCccccccccc
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHC----ATCYDCGQRIMKDD-SKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~----~~C~~C~~~~~~~~-~~~CPiCR~~I~~  343 (350)
                      .+..|-||++...+. .-||...    ....+|+.+|.... ...|++|+++..-
T Consensus         7 ~~~~CRIC~~~~~~~-~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          7 MDKCCWICKDEYDVV-TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCeeEecCCCCCCc-cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            457899999987543 4588542    13689999998763 4679999998754

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

Probab=90.07  E-value=0.091  Score=51.01  Aligned_cols=34  Identities=26%  Similarity=0.935  Sum_probs=26.3

Q ss_pred             EEcCCCCccccHHhHHHHhhcCCCCCccccccccceee
Q 036765          309 FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRR  346 (350)
Q Consensus       309 v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~r  346 (350)
                      ..+||-| +||.+|+..-.   .+.||.|-.+|.++..
T Consensus       105 RmIPCkH-vFCl~CAr~~~---dK~Cp~C~d~VqrIeq  138 (389)
T KOG2932|consen  105 RMIPCKH-VFCLECARSDS---DKICPLCDDRVQRIEQ  138 (389)
T ss_pred             cccccch-hhhhhhhhcCc---cccCcCcccHHHHHHH
Confidence            3679999 99999987642   3679999887766443

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

Probab=89.84  E-value=0.11  Score=50.30  Aligned_cols=46  Identities=30%  Similarity=0.695  Sum_probs=33.8

Q ss_pred             ceeecccccccc---EEEcCCCCccccHHhHHHHhhc----------------------CCCCCcccccccc
Q 036765          296 KLCVICYDDQRN---CFFVPCGHCATCYDCGQRIMKD----------------------DSKVCPICRTLIH  342 (350)
Q Consensus       296 ~~C~IC~d~~~~---~v~lpCGH~~~C~~C~~~~~~~----------------------~~~~CPiCR~~I~  342 (350)
                      ..|.||+--+.+   ...++|-| .+...|+.+....                      -...||+||.+|.
T Consensus       116 gqCvICLygfa~~~~ft~T~C~H-y~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  116 GQCVICLYGFASSPAFTVTACDH-YMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CceEEEEEeecCCCceeeehhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            458888766544   44679999 8999998886542                      1346999999875

>PHA02862 5L protein; Provisional

Probab=89.66  E-value=0.36  Score=42.08  Aligned_cols=52  Identities=23%  Similarity=0.504  Sum_probs=37.3

Q ss_pred             ceeeccccccccEEEcCCCCc----cccHHhHHHHhhcC-CCCCccccccccceeeccc
Q 036765          296 KLCVICYDDQRNCFFVPCGHC----ATCYDCGQRIMKDD-SKVCPICRTLIHKVRRLFT  349 (350)
Q Consensus       296 ~~C~IC~d~~~~~v~lpCGH~----~~C~~C~~~~~~~~-~~~CPiCR~~I~~~~ri~~  349 (350)
                      ..|-||++...+. .-||+..    ....+|+.+|.... ...|++|+.+.. ..+.|.
T Consensus         3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~-Ik~~yK   59 (156)
T PHA02862          3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN-IKKTYV   59 (156)
T ss_pred             CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE-EEEccc
Confidence            5799999987555 3588631    25689999998763 467999999875 344443

>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=88.01  E-value=0.71  Score=44.52  Aligned_cols=35  Identities=26%  Similarity=0.788  Sum_probs=30.6

Q ss_pred             CcceeeccccccccEEEcCC----CCccccHHhHHHHhhc
Q 036765          294 DAKLCVICYDDQRNCFFVPC----GHCATCYDCGQRIMKD  329 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpC----GH~~~C~~C~~~~~~~  329 (350)
                      ....|.+|.+...|.-|+.|    .| -||+-|..+-++.
T Consensus       267 apLcCTLC~ERLEDTHFVQCPSVp~H-KFCFPCSResIK~  305 (352)
T KOG3579|consen  267 APLCCTLCHERLEDTHFVQCPSVPSH-KFCFPCSRESIKQ  305 (352)
T ss_pred             CceeehhhhhhhccCceeecCCCccc-ceecccCHHHHHh
Confidence            45789999999999999999    68 8999999887665

>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=87.84  E-value=0.24  Score=42.65  Aligned_cols=33  Identities=33%  Similarity=0.742  Sum_probs=26.6

Q ss_pred             cceeecccccccc---EEEcCCC------CccccHHhHHHHhh
Q 036765          295 AKLCVICYDDQRN---CFFVPCG------HCATCYDCGQRIMK  328 (350)
Q Consensus       295 ~~~C~IC~d~~~~---~v~lpCG------H~~~C~~C~~~~~~  328 (350)
                      ..+|.||++...+   .+.++||      | .||.+|..+|.+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEk-mfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEK-MFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHH-HHHHHHHHHHHh
Confidence            4689999998554   6777898      6 699999999943

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.

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

Probab=87.75  E-value=0.18  Score=39.35  Aligned_cols=45  Identities=22%  Similarity=0.438  Sum_probs=30.4

Q ss_pred             eeecccccccc-EE-EcCCCCccccHHhHHHHhhcC--CCCCcccccccc
Q 036765          297 LCVICYDDQRN-CF-FVPCGHCATCYDCGQRIMKDD--SKVCPICRTLIH  342 (350)
Q Consensus       297 ~C~IC~d~~~~-~v-~lpCGH~~~C~~C~~~~~~~~--~~~CPiCR~~I~  342 (350)
                      .||-|--.-.| +. .--|.| .|-.-|+.++....  +..||+||+...
T Consensus        33 ~Cp~Ck~PgDdCPLv~G~C~h-~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   33 CCPDCKLPGDDCPLVWGYCLH-AFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             cCCCCcCCCCCCccHHHHHHH-HHHHHHHHHHhcCccccccCCcchheeE
Confidence            34444333333 22 235999 89999999987653  467999999754

>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=87.74  E-value=0.22  Score=40.11  Aligned_cols=31  Identities=32%  Similarity=0.810  Sum_probs=23.8

Q ss_pred             Ccceeecccccccc--EEEcCCCCccccHHhHHH
Q 036765          294 DAKLCVICYDDQRN--CFFVPCGHCATCYDCGQR  325 (350)
Q Consensus       294 ~~~~C~IC~d~~~~--~v~lpCGH~~~C~~C~~~  325 (350)
                      ++..|.+|-....+  .++.|||| .++..|..+
T Consensus        77 ~~~~C~vC~k~l~~~~f~~~p~~~-v~H~~C~~r  109 (109)
T PF10367_consen   77 ESTKCSVCGKPLGNSVFVVFPCGH-VVHYSCIKR  109 (109)
T ss_pred             CCCCccCcCCcCCCceEEEeCCCe-EEecccccC
Confidence            45679999887655  44569999 999999753

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 [].

>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=87.45  E-value=0.41  Score=34.00  Aligned_cols=46  Identities=26%  Similarity=0.660  Sum_probs=26.2

Q ss_pred             eeeccccccccEEEcCCC-CccccHHhHHHHhhcCCCCCccccccccceee
Q 036765          297 LCVICYDDQRNCFFVPCG-HCATCYDCGQRIMKDDSKVCPICRTLIHKVRR  346 (350)
Q Consensus       297 ~C~IC~d~~~~~v~lpCG-H~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~r  346 (350)
                      -|.-|.-+.+..+  .|. | ..|..|+..+... +..||+|..++.+.+|
T Consensus         4 nCKsCWf~~k~Li--~C~dH-YLCl~CLt~ml~~-s~~C~iC~~~LPtkir   50 (50)
T PF03854_consen    4 NCKSCWFANKGLI--KCSDH-YLCLNCLTLMLSR-SDRCPICGKPLPTKIR   50 (50)
T ss_dssp             ---SS-S--SSEE--E-SS--EEEHHHHHHT-SS-SSEETTTTEE----S-
T ss_pred             cChhhhhcCCCee--eecch-hHHHHHHHHHhcc-ccCCCcccCcCccccC
Confidence            4777877666654  465 7 8999999999776 6789999998876543

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.

>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]

Probab=86.58  E-value=0.46  Score=46.38  Aligned_cols=48  Identities=25%  Similarity=0.588  Sum_probs=34.3

Q ss_pred             Ccceeecccccc-------------------ccEEEcCCCCccccHHhHHHHhhcC---------CCCCccccccccc
Q 036765          294 DAKLCVICYDDQ-------------------RNCFFVPCGHCATCYDCGQRIMKDD---------SKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~-------------------~~~v~lpCGH~~~C~~C~~~~~~~~---------~~~CPiCR~~I~~  343 (350)
                      .+.+||+|+..-                   .+-.|-||||  .|.+=-..+|.+-         ...||.|-+.+..
T Consensus       340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGH--v~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g  415 (429)
T KOG3842|consen  340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGH--VCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG  415 (429)
T ss_pred             ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCccc--ccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence            467899998752                   2234789999  4777777777651         2569999888764

>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]

Probab=86.46  E-value=0.13  Score=55.51  Aligned_cols=114  Identities=11%  Similarity=0.088  Sum_probs=78.8

Q ss_pred             ccchhhccccccceeeeecccccceeEeecCC-CCcceeEEEeeechhhhHHHHhhhccCCCCCCceeEeeccCCceEEE
Q 036765          116 SLAFSFQMNKKSKIGQYDVEEDDMYYFGVTNK-NPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVI  194 (350)
Q Consensus       116 ~~~~~~~li~~l~i~~y~~~~~~~~~~~~~n~-~~~si~m~l~v~v~~~l~~~mk~~~k~s~~~g~~iL~l~f~~~q~vv  194 (350)
                      +++..|+|+.|+==-=|+..++|...|-.-+. ...+++    ..+...|..-+++|.|+       -+--.+|++..++
T Consensus       331 NL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v----~~Lh~vL~pFlLRR~K~-------dVe~sLppKkE~~  399 (971)
T KOG0385|consen  331 NLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELV----SRLHKVLRPFLLRRIKS-------DVEKSLPPKKELI  399 (971)
T ss_pred             cHHHHHHHHHhhchhhccCHHHHHHHHcccccccCHHHH----HHHHhhhhHHHHHHHHH-------hHhhcCCCcceee
Confidence            46789999999877778888888888877532 223333    35666777777777773       1222478999999


Q ss_pred             EEcCCCCCccchhhhchhhHHHHHHHHH---HH--HHHHHHHHHHHHhCCCCCCCC
Q 036765          195 LTTPSNGDLDGWHVEVSFAARLIIYIAI---LG--FITLIIFLVSKYLGACDGNSD  245 (350)
Q Consensus       195 ~t~~~s~~e~~~y~el~~~~r~l~yi~~---~G--~~~~il~LlLrl~~~c~h~~~  245 (350)
                      ..++|+.-..+||+.+--     .-|..   .+  .=.-++-++..||.+|.||-+
T Consensus       400 iyvgms~mQkk~Y~~iL~-----kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYL  450 (971)
T KOG0385|consen  400 IYVGMSSMQKKWYKAILM-----KDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYL  450 (971)
T ss_pred             EeccchHHHHHHHHHHHH-----hcchhhcccccchhhHHHHHHHHHHHhcCCccc
Confidence            999999999999996321     12221   11  113356677889999999955

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

Probab=86.11  E-value=0.4  Score=46.09  Aligned_cols=33  Identities=27%  Similarity=0.878  Sum_probs=27.9

Q ss_pred             EEEcCCCCccccHHhHHHHhhcCCCCCccccccc
Q 036765          308 CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLI  341 (350)
Q Consensus       308 ~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I  341 (350)
                      +..+.||| .+|..|+..+.......||.||.+.
T Consensus        22 p~~l~c~h-~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen   22 PRVLKCGH-TICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CcccccCc-eehHhHHHHHhcCceeeccCCCCcc
Confidence            44556999 9999999999877667899999984

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional

Probab=85.85  E-value=0.14  Score=57.66  Aligned_cols=117  Identities=8%  Similarity=0.002  Sum_probs=79.6

Q ss_pred             cchhhccccccceeeeecccccceeEeecCCCCcceeEEEeeechhhhHHHHhhhccCCCCCCceeEeeccCCceEEEEE
Q 036765          117 LAFSFQMNKKSKIGQYDVEEDDMYYFGVTNKNPRSITMTMNVNVTSKIYDLTKAKNMCSSSNGSCRLKLLFPNSQYVILT  196 (350)
Q Consensus       117 ~~~~~~li~~l~i~~y~~~~~~~~~~~~~n~~~~si~m~l~v~v~~~l~~~mk~~~k~s~~~g~~iL~l~f~~~q~vv~t  196 (350)
                      ....|+|++||.-..+...+.|+..|.........-.+   -.+...+...|.+|.|..       +...||++...++.
T Consensus       334 l~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~~e~i---~~L~~~L~pf~LRR~Ksd-------V~~~LPpK~e~iv~  403 (1033)
T PLN03142        334 LHELWALLNFLLPEIFSSAETFDEWFQISGENDQQEVV---QQLHKVLRPFLLRRLKSD-------VEKGLPPKKETILK  403 (1033)
T ss_pred             HHHHHHHHhcCCCCcCCCHHHHHHHHccccccchHHHH---HHHHHHhhHHHhhhhHHH-------HhhhCCCceeEEEe
Confidence            45789999999988888888888888765333222222   245667778888888842       11257888889999


Q ss_pred             cCCCCCccchhhhchhhHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCC
Q 036765          197 TPSNGDLDGWHVEVSFAARLIIYIAILGFITLIIFLVSKYLGACDGNSD  245 (350)
Q Consensus       197 ~~~s~~e~~~y~el~~~~r~l~yi~~~G~~~~il~LlLrl~~~c~h~~~  245 (350)
                      .+|+..+..+|..+......  .+...+.-..++-++.+|+++|+||.+
T Consensus       404 v~LS~~Qk~lY~~ll~k~~~--~l~~g~~~~~LlnilmqLRk~cnHP~L  450 (1033)
T PLN03142        404 VGMSQMQKQYYKALLQKDLD--VVNAGGERKRLLNIAMQLRKCCNHPYL  450 (1033)
T ss_pred             eCCCHHHHHHHHHHHHHHHH--HHhccccHHHHHHHHHHHHHHhCCHHh
Confidence            99999888899866532211  111112234456777889999999854

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

Probab=85.37  E-value=0.58  Score=46.93  Aligned_cols=48  Identities=23%  Similarity=0.474  Sum_probs=37.2

Q ss_pred             cCcceeecccccccc---EEEcCCCCccccHHhHHHHhhcCC--CCCccccccc
Q 036765          293 YDAKLCVICYDDQRN---CFFVPCGHCATCYDCGQRIMKDDS--KVCPICRTLI  341 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~---~v~lpCGH~~~C~~C~~~~~~~~~--~~CPiCR~~I  341 (350)
                      ..-+.|||=.+...+   |.-+.||| +.|.+-+.++.+.+.  -+||-|-...
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~CGH-VISkdAlnrLS~ng~~sfKCPYCP~e~  384 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLICGH-VISKDALNRLSKNGSQSFKCPYCPVEQ  384 (394)
T ss_pred             cceeecccchhhccCCCCCeeeeccc-eecHHHHHHHhhCCCeeeeCCCCCccc
Confidence            345799997665333   67789999 999999999988754  4799997544

>PHA03096 p28-like protein; Provisional

Probab=84.90  E-value=0.49  Score=45.87  Aligned_cols=43  Identities=21%  Similarity=0.357  Sum_probs=30.3

Q ss_pred             ceeeccccccc--------cEEEcCCCCccccHHhHHHHhhcC--CCCCccccc
Q 036765          296 KLCVICYDDQR--------NCFFVPCGHCATCYDCGQRIMKDD--SKVCPICRT  339 (350)
Q Consensus       296 ~~C~IC~d~~~--------~~v~lpCGH~~~C~~C~~~~~~~~--~~~CPiCR~  339 (350)
                      ..|-||++...        ...+-.|-| .||..|...|....  ...||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h-~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKH-EFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCc-HHHHHHHHHHHHhhhhcccCccccc
Confidence            67999998733        244568999 99999999886542  233555543

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

Probab=83.21  E-value=0.37  Score=50.98  Aligned_cols=40  Identities=30%  Similarity=0.659  Sum_probs=30.8

Q ss_pred             Ccceeeccccc----cccEEEcCCCCccccHHhHHHHhhcCCCCCcccc
Q 036765          294 DAKLCVICYDD----QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICR  338 (350)
Q Consensus       294 ~~~~C~IC~d~----~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR  338 (350)
                      +-..|.||+..    ...++++.||| ..|..|++.+-   ...|| |.
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cgh-tic~~c~~~ly---n~scp-~~   53 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGH-TICGHCVQLLY---NASCP-TK   53 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccc-hHHHHHHHhHh---hccCC-CC
Confidence            34679999654    34588899999 99999999983   36788 53

>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]

Probab=82.93  E-value=0.94  Score=44.26  Aligned_cols=51  Identities=6%  Similarity=-0.107  Sum_probs=41.1

Q ss_pred             CcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeec
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL  347 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri  347 (350)
                      ...+|.+|-...-..+..||||..+|.+|+..-   ....||.|..-.....+|
T Consensus       342 s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~s---~~~~~~~c~~~~~~~~~i  392 (394)
T KOG2113|consen  342 SSLKGTSAGFGLLSTIWSGGNMNLSPGSLASAS---ASPTSSTCDHNDHTLVPI  392 (394)
T ss_pred             hhcccccccCceeeeEeecCCcccChhhhhhcc---cCCccccccccceeeeec
Confidence            457899998888888899999999999998832   147899998766665554

>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ]

Probab=80.12  E-value=0.55  Score=47.20  Aligned_cols=47  Identities=26%  Similarity=0.696  Sum_probs=0.0

Q ss_pred             cceeeccccc-------------------cccEEEcCCCCccccHHhHHHHhhc-----C----CCCCccccccccc
Q 036765          295 AKLCVICYDD-------------------QRNCFFVPCGHCATCYDCGQRIMKD-----D----SKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d~-------------------~~~~v~lpCGH~~~C~~C~~~~~~~-----~----~~~CPiCR~~I~~  343 (350)
                      ..+||+|+..                   +..-+|-||||  .|.+=-.+.|.+     .    ...||.|-.+++.
T Consensus       328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGH--v~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g  402 (416)
T PF04710_consen  328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGH--VCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG  402 (416)
T ss_dssp             -----------------------------------------------------------------------------
T ss_pred             cccCCCccccCCceeEeeccccceeecCCCCceeeccccc--ccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence            6789999864                   12345789999  355544455543     1    2579999999875

; PDB: 3EGB_B 3EGA_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	350
2yhn_A	79	The Idol-Ube2d Complex Mediates Sterol-Dependent De		8e-07
3eb5_A	74	Structure Of The Ciap2 Ring Domain Length = 74		2e-06
2ecg_A	75	Solution Structure Of The Ring Domain Of The Baculo		3e-06
4ic2_A	74	Crystal Structure Of The Xiap Ring Domain Length =		3e-06
3t6p_A	345	Iap Antagonist-Induced Conformational Change In Cia		4e-06
4ic3_A	74	Crystal Structure Of The F495l Mutant Xiap Ring Dom		7e-06

>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent Degradation Of The Ldl Receptor Length = 79

Iteration: 1
 Score = 51.2 bits (121), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 5/59 (8%)
Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP 350
           L +A LC++C +++ N  F PCGH   C  C  ++     + CP+CR+ +  V+ ++ P
Sbjct: 15  LKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-----QSCPVCRSRVEHVQHVYLP 68

>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain Length = 74

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
           L + + C +C D + +  F+PCGH   C DC   + K     CPICR+ I    R F
Sbjct: 21  LQEERTCKVCMDKEVSIVFIPCGHLVVCKDCAPSLRK-----CPICRSTIKGTVRTF 72

>pdb|2ECG|A Chain A, Solution Structure Of The Ring Domain Of The Baculoviral Iap Repeat-Containing Protein 4 From Homo Sapiens Length = 75

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 5/57 (8%)
Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
           L + KLC IC D      FVPCGH  TC  C + + K     CP+C T+I   +++F
Sbjct: 22  LQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDK-----CPMCYTVITFKQKIF 73

>pdb|4IC2|A Chain A, Crystal Structure Of The Xiap Ring Domain Length = 74

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 5/57 (8%)
Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
           L + KLC IC D      FVPCGH  TC  C + + K     CP+C T+I   +++F
Sbjct: 21  LQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDK-----CPMCYTVITFKQKIF 72

>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1 Promotes E3 Ligase Activation Via Dimerization Length = 345

Iteration: 1
 Score = 48.9 bits (115), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
           L + + C +C D + +  F+PCGH   C +C   + K     CPICR +I    R F
Sbjct: 292 LQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRK-----CPICRGIIKGTVRTF 343

>pdb|4IC3|A Chain A, Crystal Structure Of The F495l Mutant Xiap Ring Domain Length = 74

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 22/50 (44%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLI 341
           L + KLC IC D      FVPCGH  TC  C + + K     CP+C T+I
Sbjct: 21  LQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDK-----CPMCYTVI 65

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	350
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	4e-21
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	1e-20
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	1e-19
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	2e-18
2ea5_A	68	Cell growth regulator with ring finger domain prot	5e-18
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	1e-13
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	8e-09
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-06
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	8e-06
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	1e-05
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	2e-05
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	4e-05
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	4e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	5e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	7e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	7e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	8e-05
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	8e-05
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	9e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	1e-04
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	2e-04
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	7e-04

>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 Length = 64

 Score = 84.9 bits (210), Expect = 4e-21
 Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 288 SSDDLYDAKLCVICYDDQRNCFFVP--CGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR 345
           SS  L   + CVIC    +N   V    GH   C+ C +++ K +   CP+CR  I  + 
Sbjct: 1   SSLPLNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKP-CPVCRQPIQMIV 59

Query: 346 RLFTP 350
             + P
Sbjct: 60  LTYFP 64

>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 Length = 79

 Score = 84.0 bits (208), Expect = 1e-20
 Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 5/61 (8%)

Query: 290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT 349
             L +A LC++C +++ N  F PCGH   C  C  ++     + CP+CR+ +  V+ ++ 
Sbjct: 13  RKLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-----QSCPVCRSRVEHVQHVYL 67

Query: 350 P 350
           P
Sbjct: 68  P 68

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75

 Score = 81.4 bits (201), Expect = 1e-19
 Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 5/59 (8%)

Query: 290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
             L + KLC IC D      FVPCGH  TC  C + +       CP+C T+I   +++F
Sbjct: 20  RRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITFKQKIF 73

>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* Length = 63

 Score = 77.2 bits (190), Expect = 2e-18
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 3/56 (5%)

Query: 296 KLCVICYDDQRNCFFV--PCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT 349
           K C +C    R+   +    GH  TC+ C +R+ K  +  CPIC+  I  V ++F 
Sbjct: 8   KPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGAS-CPICKKEIQLVIKVFI 62

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 68

 Score = 76.4 bits (188), Expect = 5e-18
 Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 5/66 (7%)

Query: 285 SSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
           SS       ++K CV+C +   N   +PC H   C  C +       + CP+CR  + + 
Sbjct: 5   SSGVEPSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYF-----QQCPMCRQFVQES 59

Query: 345 RRLFTP 350
             L  P
Sbjct: 60  FALSGP 65

>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 Length = 345

 Score = 70.0 bits (169), Expect = 1e-13
 Identities = 23/106 (21%), Positives = 39/106 (36%), Gaps = 5/106 (4%)

Query: 243 NSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICY 302
             +   +     + E D  +++             ED            L + + C +C 
Sbjct: 243 KGNAAANIFKNSLKEIDSTLYKNLFVDKNMKYIPTEDVSGLSLEEQLRRLQEERTCKVCM 302

Query: 303 DDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
           D + +  F+PCGH   C +C   +     + CPICR +I    R F
Sbjct: 303 DKEVSVVFIPCGHLVVCQECAPSL-----RKCPICRGIIKGTVRTF 343

>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 = 55.5 bits (133), Expect = 8e-09
 Identities = 26/108 (24%), Positives = 37/108 (34%), Gaps = 18/108 (16%)

Query: 241 DGNSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVI 300
           DG + N D T    + E  P  H K  Q  Y                        +LC I
Sbjct: 295 DGRNQNPDLT---GLCEPTPQDHIKVTQEQYELYCEMGSTF--------------QLCKI 337

Query: 301 CYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
           C ++ ++    PCGH   C  C     + + + CP CR  I     + 
Sbjct: 338 CAENDKDVKIEPCGHLM-CTSCLTSWQESEGQGCPFCRCEIKGTEPIV 384

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

 Score = 47.8 bits (113), Expect = 1e-07
 Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 5/58 (8%)

Query: 286 STSSDDLYDAKLCVICYDD----QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRT 339
           S S D   D   C +C +       N F   CG+   C  C  RI  D++ +CP CR 
Sbjct: 2   SRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQ-ICRFCWHRIRTDENGLCPACRK 58

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

 Score = 46.7 bits (111), Expect = 2e-07
 Identities = 16/65 (24%), Positives = 22/65 (33%), Gaps = 5/65 (7%)

Query: 279 DDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICR 338
              +GF  T  D       C  C+    +     CGH   C  C   ++   S  C  C+
Sbjct: 3   SGSSGFVKTVEDKY----KCEKCHLVLCSPKQTECGHRF-CESCMAALLSSSSPKCTACQ 57

Query: 339 TLIHK 343
             I K
Sbjct: 58  ESIVK 62

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

 Score = 46.3 bits (110), Expect = 3e-07
 Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 11/74 (14%)

Query: 282 AGFSSTSSDDLYDAKLCVICYDDQRNCFFV-PCGH--CATCYDCGQRIMK--DDSKVCPI 336
           +  SS +  +L    LC IC     +   +  C H  C +C      I++    S  CP 
Sbjct: 2   SSGSSGNLSELTPYILCSICKGYLIDATTITECLHTFCKSC------IVRHFYYSNRCPK 55

Query: 337 CRTLIHKVRRLFTP 350
           C  ++H+ + L  P
Sbjct: 56  CNIVVHQTQPLSGP 69

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

 Score = 47.7 bits (113), Expect = 5e-07
 Identities = 20/83 (24%), Positives = 28/83 (33%), Gaps = 2/83 (2%)

Query: 264 EKPVQFTYGTTNNDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCG 323
            K ++ T       +       S  +D L +   C+IC +       + C H   C  C 
Sbjct: 33  NKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSF-CSYCI 91

Query: 324 QRIMKDDSKVCPICRTLIHKVRR 346
              MK     CPICR  I     
Sbjct: 92  NEWMK-RKIECPICRKDIKSKTY 113

>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 = 45.6 bits (108), Expect = 2e-06
 Identities = 15/65 (23%), Positives = 25/65 (38%), Gaps = 1/65 (1%)

Query: 279 DDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICR 338
           ++  G+       L     C IC    R     PCGH   C  C  + ++D    CP+  
Sbjct: 2   EEIQGYDVEFDPPLESKYECPICLMALREAVQTPCGHR-FCKACIIKSIRDAGHKCPVDN 60

Query: 339 TLIHK 343
            ++ +
Sbjct: 61  EILLE 65

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

 Score = 44.0 bits (104), Expect = 2e-06
 Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 2/57 (3%)

Query: 285 SSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLI 341
           SS ++        C IC     +   +PC H   CY C +       + C +CR  I
Sbjct: 5   SSGNTAPSLTVPECAICLQTCVHPVSLPCKH-VFCYLCVKGASWLGKR-CALCRQEI 59

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

 Score = 43.8 bits (103), Expect = 8e-06
 Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 1/62 (1%)

Query: 286 STSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR 345
                 + +   C+ C +         C H   C DC  R  +     CP CR  + +  
Sbjct: 43  QLFLSKVEETFQCICCQELVFRPITTVCQH-NVCKDCLDRSFRAQVFSCPACRYDLGRSY 101

Query: 346 RL 347
            +
Sbjct: 102 AM 103

>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 = 41.7 bits (98), Expect = 1e-05
 Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 11/71 (15%)

Query: 287 TSSDDLYDAKLCVICYDD-------QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRT 339
           T+         C IC D         R      CGH   C  C +  +K+ +  CP CR 
Sbjct: 2   TTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHV-FCSQCLRDSLKN-ANTCPTCRK 59

Query: 340 LI--HKVRRLF 348
            I   +   ++
Sbjct: 60  KINHKRYHPIY 70

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

 Score = 43.6 bits (102), Expect = 1e-05
 Identities = 18/57 (31%), Positives = 22/57 (38%), Gaps = 2/57 (3%)

Query: 283 GFSSTSSDDLYDAKL-CVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICR 338
           GFS T      +AK  C  C +  R  F   CGH   C  C   I+    + C  C 
Sbjct: 18  GFSKTLLGTKLEAKYLCSACRNVLRRPFQAQCGHRY-CSFCLASILSSGPQNCAACV 73

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

 Score = 41.7 bits (98), Expect = 2e-05
 Identities = 14/60 (23%), Positives = 20/60 (33%), Gaps = 2/60 (3%)

Query: 285 SSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV 344
           SS  S++      C IC    +N     C H   C  C     +   + C IC      +
Sbjct: 5   SSGGSEEEEIPFRCFICRQAFQNPVVTKCRHYF-CESCALEHFRATPR-CYICDQPTGGI 62

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 40.7 bits (95), Expect = 2e-05
 Identities = 13/55 (23%), Positives = 17/55 (30%), Gaps = 6/55 (10%)

Query: 294 DAKLCVICYDD-----QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK 343
           D + C  C                CGH   C  C   +    +  CP C T + K
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGH-TLCESCVDLLFVRGAGNCPECGTPLRK 55

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

 Score = 40.5 bits (95), Expect = 4e-05
 Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 3/50 (6%)

Query: 298 CVICYDDQRN-CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRR 346
           C IC +D  N    +PC H   CY C  R ++  +  CP+C+  +  V  
Sbjct: 8   CPICLEDPSNYSMALPCLHA-FCYVCITRWIRQ-NPTCPLCKVPVESVVH 55

>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 = 41.3 bits (97), Expect = 4e-05
 Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 3/59 (5%)

Query: 290 DDLYDAKLCVICYDDQRNC-FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL 347
            +L    +CV+C     +    + C H   C  C  R + + SK CPIC   +HK R L
Sbjct: 10  TELNPHLMCVLCGGYFIDATTIIECLHSF-CKTCIVRYL-ETSKYCPICDVQVHKTRPL 66

>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 = 4e-05
 Identities = 20/69 (28%), Positives = 27/69 (39%), Gaps = 2/69 (2%)

Query: 280 DDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVP-CGHCATCYDCGQRIMKDDSKVCPICR 338
            D      S   L+   +C IC D  +N      C H   C DC    ++  +K CP CR
Sbjct: 39  TDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHR-FCADCIITALRSGNKECPTCR 97

Query: 339 TLIHKVRRL 347
             +   R L
Sbjct: 98  KKLVSKRSL 106

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

 Score = 42.4 bits (99), Expect = 5e-05
 Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 283 GFSSTSSDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIH 342
           G+       L     C IC    R     PCGH   C  C  + ++D    CP+   ++ 
Sbjct: 6   GYDVEFDPPLESKYECPICLMALREAVQTPCGHRF-CKACIIKSIRDAGHKCPVDNEILL 64

Query: 343 K 343
           +
Sbjct: 65  E 65

>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 = 40.6 bits (95), Expect = 7e-05
 Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 2/69 (2%)

Query: 276 NDEDDDAGFSSTSSDDLYDAKLCVICYDDQRNCFFVP-CGHCATCYDCGQRIMKDDSKVC 334
           +     +     S + + +   C IC +  R+    P C     C+ C +R + +    C
Sbjct: 3   HHHHHHSHMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLC-CFSCIRRWLTEQRAQC 61

Query: 335 PICRTLIHK 343
           P CR  +  
Sbjct: 62  PHCRAPLQL 70

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

 Score = 40.7 bits (95), Expect = 7e-05
 Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 1/52 (1%)

Query: 298 CVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT 349
           C IC +       +PC H   C  C Q  ++  S  CP CR  +    R  T
Sbjct: 18  CGICMEILVEPVTLPCNHTL-CKPCFQSTVEKASLCCPFCRRRVSSWTRYHT 68

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

 Score = 40.1 bits (94), Expect = 8e-05
 Identities = 17/68 (25%), Positives = 26/68 (38%), Gaps = 9/68 (13%)

Query: 282 AGFSSTSSDDLYDAKLCVICYDDQRNCFFVP----CGHCAT-CYDCGQRIMKDDSK--VC 334
           +  SS + D L +   C IC +        P    CGH  T C  C ++++        C
Sbjct: 2   SSGSSGNLDALREVLECPICMESFTEEQLRPKLLHCGH--TICRQCLEKLLASSINGVRC 59

Query: 335 PICRTLIH 342
           P C  +  
Sbjct: 60  PFCSKITR 67

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

 Score = 39.4 bits (92), Expect = 8e-05
 Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 11/60 (18%)

Query: 298 CVICYDD-------QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIH--KVRRLF 348
           C IC D         R      CGH   C  C +  +K+ +  CP CR  I+  +   ++
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHV-FCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIY 63

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

 Score = 39.1 bits (91), Expect = 9e-05
 Identities = 18/64 (28%), Positives = 23/64 (35%), Gaps = 9/64 (14%)

Query: 285 SSTSSDDLYDAKLCVICYDD-------QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPIC 337
           SS +         C IC D         R      CGH   C  C +  +K ++  CP C
Sbjct: 5   SSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGH-VFCSQCLRDSLK-NANTCPTC 62

Query: 338 RTLI 341
           R  I
Sbjct: 63  RKKI 66

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

 Score = 39.7 bits (93), Expect = 1e-04
 Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 5/70 (7%)

Query: 277 DEDDDAGFSSTSS--DDLYDAKLCVICYDDQRNCFFVP-CGHCATCYDCGQRIMKDDSKV 333
           D   ++ +    +    + D   C IC++       +P C H   C  C ++ +   ++ 
Sbjct: 2   DSLAESRWPPGLAVMKTIDDLLRCGICFEYFNIAMIIPQCSHN-YCSLCIRKFLSYKTQ- 59

Query: 334 CPICRTLIHK 343
           CP C   + +
Sbjct: 60  CPTCCVTVTE 69

>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 = 41.1 bits (96), Expect = 1e-04
 Identities = 22/109 (20%), Positives = 34/109 (31%), Gaps = 5/109 (4%)

Query: 243 NSDNTDSTAAREVTETDPLVHEKPVQFTYGTTNNDEDDDAGFSSTSS----DDLYDAKLC 298
            S    ++ + E  E   L  ++         N    D+              L  + +C
Sbjct: 22  ASKVYKASDSAEAIEAFQLTPQQQHLIREDCQNQKLWDEVLSHLVEGPNFLKKLEQSFMC 81

Query: 299 VICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL 347
           V C +         C H   C DC QR  K     CP CR  + +   +
Sbjct: 82  VCCQELVYQPVTTECFHNV-CKDCLQRSFKAQVFSCPACRHDLGQNYIM 129

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 39.8 bits (92), Expect = 1e-04
 Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 2/50 (4%)

Query: 298 CVICYDDQRN-CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRR 346
           C  C    +     +PC H   CYDC     K   K+CP C   + ++ +
Sbjct: 4   CDKCGLPIKVYGRMIPCKH-VFCYDCAILHEKKGDKMCPGCSDPVQRIEQ 52

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1 Length = 93

 Score = 39.3 bits (91), Expect = 2e-04
 Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 6/52 (11%)

Query: 294 DAKLCVICYD----DQRNCFFVPCGHCA--TCYDCGQRIMKDDSKVCPICRT 339
           D + C IC D          FV C  C    C  C +   ++ ++ CP C+T
Sbjct: 15  DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKT 66

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

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 21/64 (32%), Positives = 27/64 (42%), Gaps = 11/64 (17%)

Query: 285 SSTSSDDLYDAKLCVICYDDQRNCFFVPCGH--CATCYDCGQRIMK--DDSKVCPICRTL 340
           SS     L D + C IC D + +   +PC H  C  C D      K  D  + CPICR  
Sbjct: 5   SSGRVKQLTDEEECCICMDGRADL-ILPCAHSFCQKCID------KWSDRHRNCPICRLQ 57

Query: 341 IHKV 344
           +   
Sbjct: 58  MTGA 61

>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 = 38.2 bits (89), Expect = 2e-04
 Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 3/71 (4%)

Query: 282 AGFSSTSSDDLYDAKLCVICYDDQRNCFFVP-CGHCATCYDC-GQRIMKDDSKVCPICRT 339
           +  SS   D + D  LC+IC D   +   +P CG+ + C +C    +++ D   CP C  
Sbjct: 2   SSGSSGEDDPIPDELLCLICKDIMTDAVVIPCCGN-SYCDECIRTALLESDEHTCPTCHQ 60

Query: 340 LIHKVRRLFTP 350
                  L  P
Sbjct: 61  NDVSPDALSGP 71

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

 Score = 38.0 bits (88), Expect = 7e-04
 Identities = 13/46 (28%), Positives = 15/46 (32%), Gaps = 1/46 (2%)

Query: 298 CVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK 343
           C IC     +     C H   C  C  R +K     CP CR     
Sbjct: 26  CQICEHILADPVETSCKHL-FCRICILRCLKVMGSYCPSCRYPCFP 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	350
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.45
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.42
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.41
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.29
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.23
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.22
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.19
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.14
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.14
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.14
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.13
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.1
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.08
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.08
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.06
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.05
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.05
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.04
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.04
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.04
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.03
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.03
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.01
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.99
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.97
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.96
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.95
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.95
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.95
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.93
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.93
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.93
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.92
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.92
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.92
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.91
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.91
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.9
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.88
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.88
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.85
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.84
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.84
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.82
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.8
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.79
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.76
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.76
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.7
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.68
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.67
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.67
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.62
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.58
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.56
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.55
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.44
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.24
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.19
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.14
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.11
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.98
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.95
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.42
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.16
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	96.67
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	93.41
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	93.14
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	91.65
3nw0_A	238	Non-structural maintenance of chromosomes element	90.59

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

Probab=99.45  E-value=3.8e-14  Score=106.86  Aligned_cols=53  Identities=30%  Similarity=0.775  Sum_probs=48.2

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecccC
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP  350 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~p  350 (350)
                      .+...|+||++..++++++||||..+|..|+..+     ..||+||++|..++++|.|
T Consensus        13 ~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~-----~~CP~CR~~i~~~~~i~~~   65 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYF-----QQCPMCRQFVQESFALSGP   65 (68)
T ss_dssp             CCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHHC-----SSCTTTCCCCCCEECCCSS
T ss_pred             CCCCCCCCcCcCCCCEEEECCCChhhhHHHHhcC-----CCCCCCCcchhceEEeecC
Confidence            3567899999999999999999966999999964     7899999999999999976

>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=99.42  E-value=5.2e-14  Score=104.75  Aligned_cols=56  Identities=32%  Similarity=0.782  Sum_probs=50.4

Q ss_pred             CcceeeccccccccEEEc--CCCCccccHHhHHHHhhcCCCCCccccccccceeecccC
Q 036765          294 DAKLCVICYDDQRNCFFV--PCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP  350 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~l--pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~p  350 (350)
                      ++.+|+||++..++++++  ||||+.+|.+|+.+++.. ...||+||++|..++++|.|
T Consensus         7 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~~i~i~~~   64 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKR-NKPCPVCRQPIQMIVLTYFP   64 (64)
T ss_dssp             GGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHT-TCCCTTTCCCCCEEEEEECC
T ss_pred             CcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHc-CCcCCCcCcchhceEeeecC
Confidence            456899999999999988  999966999999999875 57899999999999999976

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

Probab=99.41  E-value=7.4e-14  Score=103.58  Aligned_cols=56  Identities=32%  Similarity=0.740  Sum_probs=49.7

Q ss_pred             CcceeeccccccccEEEc--CCCCccccHHhHHHHhhcCCCCCccccccccceeecccC
Q 036765          294 DAKLCVICYDDQRNCFFV--PCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP  350 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~l--pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~p  350 (350)
                      ....|+||++..++++++  ||||+.+|.+|+.++++. ...||+||++|..++++|.+
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~~i~i~~s   63 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKA-GASCPICKKEIQLVIKVFIA   63 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHT-TCBCTTTCCBCCEEEEEEEC
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHh-CCcCCCcCchhhceEEEecC
Confidence            456899999999998777  999966999999999876 57899999999999999964

>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=99.29  E-value=4.5e-13  Score=103.82  Aligned_cols=54  Identities=35%  Similarity=1.032  Sum_probs=48.8

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecccC
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP  350 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~p  350 (350)
                      +.++..|+||++..++++++||||..||..|+.++     ..||+||++|...+++|.|
T Consensus        15 l~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~~~~i~~p   68 (79)
T 2yho_A           15 LKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-----QSCPVCRSRVEHVQHVYLP   68 (79)
T ss_dssp             HHHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC-----SBCTTTCCBCCEEEECBCT
T ss_pred             CCCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc-----CcCCCCCchhhCeEEEEeC
Confidence            45667899999999999999999955999999887     5899999999999999976

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

Probab=99.23  E-value=7.8e-13  Score=100.92  Aligned_cols=55  Identities=38%  Similarity=0.908  Sum_probs=48.5

Q ss_pred             cccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecccC
Q 036765          291 DLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP  350 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~p  350 (350)
                      .+.++..|+||++...+++++||||..||..|+..+     ..||+||++|...+++|.+
T Consensus        20 ~~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~~~~i~~S   74 (74)
T 4ic3_A           20 RLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITFKQKILMS   74 (74)
T ss_dssp             HHHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC-----SBCTTTCCBCSEEEECBC-
T ss_pred             cCccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC-----ccCCCcCcCccCcEEEeeC
Confidence            345678999999999999999999944999999887     7899999999999999864

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

Probab=99.22  E-value=9.9e-13  Score=100.45  Aligned_cols=54  Identities=41%  Similarity=0.958  Sum_probs=47.7

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecccC
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP  350 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~p  350 (350)
                      +.+...|+||++...+++++||||..||..|+.++     ..||+||++|...+++|.+
T Consensus        22 ~~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~~~~i~~S   75 (75)
T 2ecg_A           22 LQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITFKQKIFMS   75 (75)
T ss_dssp             HHHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHC-----SBCTTTCCBCCCCCBCCCC
T ss_pred             CCCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCC-----CCCccCCceecCcEEEecC
Confidence            45677899999999999999999944999999764     7899999999999999864

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

Probab=99.19  E-value=1.3e-11  Score=93.03  Aligned_cols=55  Identities=27%  Similarity=0.543  Sum_probs=47.2

Q ss_pred             cccccCcceeeccccccccEEEc-CCCCccccHHhHHHHhhcCCCCCcccccccccee
Q 036765          289 SDDLYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR  345 (350)
Q Consensus       289 ~~~~~~~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~  345 (350)
                      .+.+.+...|+||++...+++.+ +||| .||..|+.+++.. ...||+||+++....
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A            9 LSELTPYILCSICKGYLIDATTITECLH-TFCKSCIVRHFYY-SNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCCCCGGGSCTTTSSCCSSCEECSSSCC-EECHHHHHHHHHH-CSSCTTTCCCCCSSC
T ss_pred             HhhcCCCCCCCCCChHHHCcCEECCCCC-HHHHHHHHHHHHc-CCcCCCcCcccCccc
Confidence            34456778999999999998886 9999 9999999999876 588999999987643

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

Probab=99.16  E-value=1.8e-11  Score=92.02  Aligned_cols=49  Identities=29%  Similarity=0.595  Sum_probs=43.6

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .+...|+||++...+++.++||| .||..|+.+|... ...||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~CgH-~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVHPVSLPCKH-VFCYLCVKGASWL-GKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSSEEEETTTE-EEEHHHHHHCTTC-SSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCCCEEccCCC-HHHHHHHHHHHHC-CCcCcCcCchhCH
Confidence            45678999999999999999999 8999999998765 5789999999874

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

Probab=99.14  E-value=1.6e-11  Score=91.81  Aligned_cols=55  Identities=29%  Similarity=0.725  Sum_probs=47.1

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeeccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT  349 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~  349 (350)
                      ..+...|+||++...+ +.+|||| .||..|+.+|... ...||+||+++......|.
T Consensus        12 ~~~~~~C~IC~~~~~~-~~~~CgH-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~   66 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD-LILPCAH-SFCQKCIDKWSDR-HRNCPICRLQMTGANESSG   66 (70)
T ss_dssp             CCCCCCCSSSCCSCCS-EEETTTE-EECHHHHHHSSCC-CSSCHHHHHCTTCCCCCCC
T ss_pred             CCCCCCCeeCCcCccC-cccCCCC-cccHHHHHHHHHC-cCcCCCcCCcccCCCcccc
Confidence            4456789999999999 8889999 8999999998764 6889999999998766654

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

Probab=99.14  E-value=2.4e-11  Score=90.03  Aligned_cols=52  Identities=25%  Similarity=0.436  Sum_probs=45.3

Q ss_pred             cccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...+...|+||++...+++.++||| .||..|+.+++......||+||+++..
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           11 TVEDKYKCEKCHLVLCSPKQTECGH-RFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             SCCCCEECTTTCCEESSCCCCSSSC-CCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             cCCcCCCCCCCChHhcCeeECCCCC-HHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            3456789999999999998899999 899999999986445789999999875

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

Probab=99.14  E-value=4.3e-11  Score=92.20  Aligned_cols=50  Identities=22%  Similarity=0.412  Sum_probs=44.4

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..+...|+||++...+++.++||| .||..|+.+++.. ...||+||+++..
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   61 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNPVVTKCRH-YFCESCALEHFRA-TPRCYICDQPTGG   61 (81)
T ss_dssp             CCCCSBCSSSCSBCCSEEECTTSC-EEEHHHHHHHHHH-CSBCSSSCCBCCS
T ss_pred             CCCCCCCcCCCchhcCeeEccCCC-HhHHHHHHHHHHC-CCcCCCcCccccc
Confidence            345678999999999999999999 9999999999876 6789999999863

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

Probab=99.14  E-value=2.1e-11  Score=90.34  Aligned_cols=51  Identities=29%  Similarity=0.683  Sum_probs=43.8

Q ss_pred             cccCcceeeccccccccE-------EEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNC-------FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~-------v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...+...|+||++...++       +.++||| .||..|+..|... ...||+||+++..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGH-VFCSQCLRDSLKN-ANTCPTCRKKINH   68 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSC-EEEHHHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCC-hhcHHHHHHHHHc-CCCCCCCCCccCc
Confidence            345678899999987765       8899999 9999999999876 6789999999864

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

Probab=99.13  E-value=6.2e-11  Score=89.11  Aligned_cols=53  Identities=30%  Similarity=0.706  Sum_probs=45.3

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhc--CCCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKD--DSKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~--~~~~CPiCR~~I~~  343 (350)
                      +...+...|+||++...+++.++||| .||..|+..+++.  ....||+||+++..
T Consensus        15 ~~~~~~~~C~IC~~~~~~~~~~~CgH-~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQKPVTIDCGH-NFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSSEEECTTCC-EEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             HhCccCCEeccCCcccCCeEEcCCCC-hhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            34556789999999999999999999 8999999999763  24689999999864

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

Probab=99.10  E-value=2.9e-11  Score=93.52  Aligned_cols=56  Identities=29%  Similarity=0.664  Sum_probs=45.2

Q ss_pred             ccCcceeecccccc--ccEEEcC--CCCccccHHhHHHHhhcCCCCCccccccccceeecc
Q 036765          292 LYDAKLCVICYDDQ--RNCFFVP--CGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF  348 (350)
Q Consensus       292 ~~~~~~C~IC~d~~--~~~v~lp--CGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~  348 (350)
                      .+++..|+||++..  .++.++|  ||| .||..|+.++++.....||.||+++.....+|
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH-~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~   67 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGY-QICRFCWHRIRTDENGLCPACRKPYPEDPAVY   67 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSC-CCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCC
T ss_pred             cccCCcCCccCccCccccccccccCCCC-CcCHHHHHHHHhcCCCCCCCCCCccCCCchhh
Confidence            45678899999977  4566666  999 99999999998765678999999998754444

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

Probab=99.08  E-value=1e-10  Score=89.82  Aligned_cols=54  Identities=20%  Similarity=0.477  Sum_probs=46.1

Q ss_pred             cccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcC-----CCCCccccccccc
Q 036765          289 SDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD-----SKVCPICRTLIHK  343 (350)
Q Consensus       289 ~~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~-----~~~CPiCR~~I~~  343 (350)
                      .+...+...|+||++...+++.++||| .||..|+..++...     ...||+||+++..
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           13 LEMIKEEVTCPICLELLKEPVSADCNH-SFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CCCCCTTTSCTTTCSCCSSCEECTTSC-CBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             HHhCccCCCCcCCChhhCcceeCCCCC-HHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            344567789999999999999999999 89999999987762     4689999999874

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

Probab=99.08  E-value=6.4e-11  Score=89.93  Aligned_cols=54  Identities=28%  Similarity=0.709  Sum_probs=45.7

Q ss_pred             cccccCcceeeccccccccEEEcC-CCCccccHHhHHHHhhcC-CCCCccccccccc
Q 036765          289 SDDLYDAKLCVICYDDQRNCFFVP-CGHCATCYDCGQRIMKDD-SKVCPICRTLIHK  343 (350)
Q Consensus       289 ~~~~~~~~~C~IC~d~~~~~v~lp-CGH~~~C~~C~~~~~~~~-~~~CPiCR~~I~~  343 (350)
                      .+...+...|+||++...+++.++ ||| .||..|+.+++... ...||+||+++..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAVVIPCCGN-SYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCEECSSSCC-EECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             cccCCCCCCCcCCChHHhCCeEcCCCCC-HHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            344567789999999999999999 999 99999999998762 2589999997643

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

Probab=99.08  E-value=1.2e-10  Score=90.51  Aligned_cols=53  Identities=25%  Similarity=0.682  Sum_probs=44.9

Q ss_pred             ccccCcceeecccccccc----EEEcCCCCccccHHhHHHHhhcC--CCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRN----CFFVPCGHCATCYDCGQRIMKDD--SKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~----~v~lpCGH~~~C~~C~~~~~~~~--~~~CPiCR~~I~~  343 (350)
                      +...+...|+||++...+    ++.++||| .||..|+.+|+...  ...||+||+++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH-~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLLHCGH-TICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEECSSSC-EEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             hhccCCCCCccCCccccccCCCeEECCCCC-hhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            344567889999999988    99999999 99999999998763  3689999998753

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

Probab=99.06  E-value=4.4e-11  Score=89.32  Aligned_cols=53  Identities=28%  Similarity=0.726  Sum_probs=44.6

Q ss_pred             CcceeeccccccccE-------EEcCCCCccccHHhHHHHhhcCCCCCccccccccc--eeecc
Q 036765          294 DAKLCVICYDDQRNC-------FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK--VRRLF  348 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~-------v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~--~~ri~  348 (350)
                      ++..|+||++...++       +.++||| .||..|+.+|.+. ...||+||+++..  +.++|
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~   70 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTECGH-VFCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIY   70 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECTTSC-EEEHHHHHHHHHH-CSBCTTTCCBCCCCSCCCCC
T ss_pred             CCCCCcccChhhhccccccCCeEeCCCCC-hHhHHHHHHHHHc-CCCCCCCCCccChhheeecc
Confidence            567899999987775       8899999 9999999999876 5789999999874  44544

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

Probab=99.05  E-value=6.7e-11  Score=86.32  Aligned_cols=53  Identities=28%  Similarity=0.729  Sum_probs=44.6

Q ss_pred             CcceeeccccccccE-------EEcCCCCccccHHhHHHHhhcCCCCCcccccccc--ceeecc
Q 036765          294 DAKLCVICYDDQRNC-------FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIH--KVRRLF  348 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~-------v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~--~~~ri~  348 (350)
                      ++..|+||++...++       +.++||| .||.+|+.+|.+. ...||+||+++.  .+.++|
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~   63 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGH-VFCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIY   63 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSC-EEEHHHHHHHHHH-CSBCTTTCCBCTTTCEEECC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCC-chhHHHHHHHHHc-CCCCCCCCccCCccceeeee
Confidence            346799999987764       7889999 8999999999876 678999999987  456665

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

Probab=99.05  E-value=4.3e-11  Score=91.21  Aligned_cols=53  Identities=23%  Similarity=0.549  Sum_probs=45.2

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcC------CCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD------SKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~------~~~CPiCR~~I~~  343 (350)
                      +...+...|+||++...+++.++||| .||..|+.+++...      ...||+||+++..
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~l~CgH-~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLSLDCGH-SLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCCCSSSC-CCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             hhcccCCCCcCCCcccCCeeECCCCC-HHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            34556789999999999999999999 99999999987652      4679999999864

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

Probab=99.05  E-value=1.3e-10  Score=91.41  Aligned_cols=51  Identities=29%  Similarity=0.759  Sum_probs=44.2

Q ss_pred             ccccCcceeeccccccccEEEcC-CCCccccHHhHHHHhhcC-CCCCccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVP-CGHCATCYDCGQRIMKDD-SKVCPICRTLI  341 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lp-CGH~~~C~~C~~~~~~~~-~~~CPiCR~~I  341 (350)
                      +.+.+...|+||++...+++.+| ||| .||..|+..++... ...||+||.++
T Consensus         8 ~~~~~~~~C~IC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A            8 DPIPDELLCLICKDIMTDAVVIPCCGN-SYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CCCCTTTEETTTTEECSSCEECTTTCC-EECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             ccCCcCCCCCCCChhhcCceECCCCCC-HHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            34557789999999999999999 999 99999999998652 36899999987

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

Probab=99.04  E-value=9.9e-11  Score=89.30  Aligned_cols=52  Identities=21%  Similarity=0.516  Sum_probs=42.7

Q ss_pred             cccCcceeeccccccc---cEEEcCCCCccccHHhHHHHhhcCCCCCccccccccce
Q 036765          291 DLYDAKLCVICYDDQR---NCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV  344 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~---~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~  344 (350)
                      ...+...|+||++...   ....++||| .||..|+.+|++. ...||+||+++...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   65 (78)
T 2ect_A           11 HVGSGLECPVCKEDYALGESVRQLPCNH-LFHDSCIVPWLEQ-HDSCPVCRKSLTGQ   65 (78)
T ss_dssp             TSSSSCCCTTTTSCCCTTSCEEECTTSC-EEETTTTHHHHTT-TCSCTTTCCCCCCS
T ss_pred             cCCCCCCCeeCCccccCCCCEEEeCCCC-eecHHHHHHHHHc-CCcCcCcCCccCCc
Confidence            3456788999988764   356789999 8999999999876 57899999998764

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

Probab=99.04  E-value=1.1e-10  Score=89.12  Aligned_cols=51  Identities=16%  Similarity=0.249  Sum_probs=45.2

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..+...|+||++...+++.++||| .||..|+.+++..+...||+||+++..
T Consensus         5 ~~~~~~C~IC~~~~~~Pv~~~CgH-~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDPVIVSTGQ-TYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTE-EEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CcccCCCCCccccccCCEEcCCCC-eecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            346788999999999999999999 999999999987656789999999864

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

Probab=99.04  E-value=6.8e-11  Score=100.42  Aligned_cols=50  Identities=30%  Similarity=0.622  Sum_probs=44.3

Q ss_pred             CcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCcccccccccee
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR  345 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~  345 (350)
                      ++..|+||++...+++.+|||| .||..|+..|+.. ...||+||.++....
T Consensus        52 ~~~~C~iC~~~~~~~~~~~CgH-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~  101 (138)
T 4ayc_A           52 NELQCIICSEYFIEAVTLNCAH-SFCSYCINEWMKR-KIECPICRKDIKSKT  101 (138)
T ss_dssp             HHSBCTTTCSBCSSEEEETTSC-EEEHHHHHHHTTT-CSBCTTTCCBCCCEE
T ss_pred             ccCCCcccCcccCCceECCCCC-CccHHHHHHHHHc-CCcCCCCCCcCCCCC
Confidence            4567999999999999999999 9999999999876 678999999987643

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

Probab=99.04  E-value=1e-10  Score=86.75  Aligned_cols=53  Identities=34%  Similarity=0.807  Sum_probs=45.4

Q ss_pred             Ccceeecccccccc-EEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecc
Q 036765          294 DAKLCVICYDDQRN-CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF  348 (350)
Q Consensus       294 ~~~~C~IC~d~~~~-~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~  348 (350)
                      ++..|+||++...+ .+.+|||| .||..|+.+|... ...||+||+++...++.+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~   57 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLH-AFCYVCITRWIRQ-NPTCPLCKVPVESVVHTI   57 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTE-EESTTHHHHHHHH-SCSTTTTCCCCCCEECCC
T ss_pred             CCCCCeeCCccccCCcEecCCCC-eeHHHHHHHHHhC-cCcCcCCChhhHhhhhcc
Confidence            34679999999988 48899999 8999999999876 578999999998876654

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

Probab=99.03  E-value=1.3e-10  Score=89.24  Aligned_cols=54  Identities=24%  Similarity=0.557  Sum_probs=45.9

Q ss_pred             cccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhc-----CCCCCccccccccc
Q 036765          289 SDDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKD-----DSKVCPICRTLIHK  343 (350)
Q Consensus       289 ~~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~-----~~~~CPiCR~~I~~  343 (350)
                      .+...+...|+||++...+++.++||| .||..|+..++..     ....||+||+.+..
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           13 LVNVKEEVTCPICLELLTQPLSLDCGH-SFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCCCCCTTTCSCCSSCBCCSSSC-CBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             HHHccCCCCCCCCCcccCCceeCCCCC-HHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            344567789999999999999999999 9999999998765     25789999999874

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

Probab=99.03  E-value=8.9e-11  Score=88.65  Aligned_cols=56  Identities=29%  Similarity=0.628  Sum_probs=45.3

Q ss_pred             cccCcceeecccccccc---EEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecc
Q 036765          291 DLYDAKLCVICYDDQRN---CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF  348 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~---~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~  348 (350)
                      +..++..|+||++...+   ...+|||| .||..|+.+|++. ...||+||+++....++-
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H-~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~   69 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKH-AFHRKCLIKWLEV-RKVCPLCNMPVLQLAQLS   69 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTE-EEEHHHHHHHHHH-CSBCTTTCCBCSSCCSCC
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCC-EecHHHHHHHHHc-CCcCCCcCcccccccccC
Confidence            34566789999998654   45669999 8999999999877 568999999998766553

>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=99.01  E-value=2.8e-10  Score=84.75  Aligned_cols=50  Identities=28%  Similarity=0.527  Sum_probs=42.1

Q ss_pred             Ccceeecccccc---ccEEEcCCCCccccHHhHHHHhhcCCCCCcccccccccee
Q 036765          294 DAKLCVICYDDQ---RNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVR  345 (350)
Q Consensus       294 ~~~~C~IC~d~~---~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~  345 (350)
                      +...|+||++..   ..++.+|||| .||..|+..|+.. ...||+||+.+....
T Consensus        13 ~~~~C~IC~~~~~~~~~~~~~~C~H-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           13 TEEKCTICLSILEEGEDVRRLPCMH-LFHQVCVDQWLIT-NKKCPICRVDIEAQL   65 (69)
T ss_dssp             CCCSBTTTTBCCCSSSCEEECTTSC-EEEHHHHHHHHHH-CSBCTTTCSBSCSCC
T ss_pred             CCCCCeeCCccccCCCcEEEeCCCC-HHHHHHHHHHHHc-CCCCcCcCccccCcC
Confidence            457899998875   4578899999 8999999999877 578999999988654

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

Probab=98.99  E-value=1.3e-10  Score=96.65  Aligned_cols=51  Identities=24%  Similarity=0.540  Sum_probs=45.3

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..+...|+||++...+++.+|||| .||..|+..++......||+||+++..
T Consensus        49 ~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           49 VEETFQCICCQELVFRPITTVCQH-NVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHHTBCTTTSSBCSSEEECTTSC-EEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CccCCCCCcCChHHcCcEEeeCCC-cccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            456688999999999999999999 999999999987645689999999875

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

Probab=98.97  E-value=6.4e-10  Score=81.37  Aligned_cols=47  Identities=30%  Similarity=0.725  Sum_probs=40.7

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhc--CCCCCccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKD--DSKVCPIC  337 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~--~~~~CPiC  337 (350)
                      +...++..|+||++...+++.++||| .||..|+.++++.  ....||+|
T Consensus        15 ~~~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLDILQKPVTIDCGH-NFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCSBCSSCEECTTSS-EECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HhCccCCCCCcCCchhCCeEEeCCCC-cchHHHHHHHHHcCCCCCcCcCC
Confidence            34567789999999999999999999 8999999999874  34689998

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

Probab=98.96  E-value=2.3e-10  Score=84.39  Aligned_cols=48  Identities=29%  Similarity=0.618  Sum_probs=39.8

Q ss_pred             cceeecccc-ccccE----EEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          295 AKLCVICYD-DQRNC----FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d-~~~~~----v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +..|+||++ ...++    +.++||| .||.+|+.+++......||+||+++..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGH-TLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCC-CEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCC-HhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            467999999 55554    5789999 999999999977655789999999874

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

Probab=98.95  E-value=1.8e-10  Score=92.56  Aligned_cols=53  Identities=23%  Similarity=0.691  Sum_probs=46.1

Q ss_pred             ccccCcceeeccccccccEEE-cCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFF-VPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~-lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..+.+...|+||++...+++. ++||| .||..|+..|+......||+||.++..
T Consensus        17 ~~l~~~~~C~IC~~~~~~p~~~~~CgH-~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           17 ESIAEVFRCFICMEKLRDARLCPHCSK-LCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTTCC-EEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             ccCCCCCCCccCCccccCccccCCCCC-hhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            345677899999999999999 99999 999999999988744689999999864

>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=98.95  E-value=3.2e-10  Score=80.50  Aligned_cols=47  Identities=28%  Similarity=0.723  Sum_probs=40.7

Q ss_pred             Ccceeecccccccc----EEEcCCCCccccHHhHHHHhhcCCCCCcccccccc
Q 036765          294 DAKLCVICYDDQRN----CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIH  342 (350)
Q Consensus       294 ~~~~C~IC~d~~~~----~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~  342 (350)
                      ++..|+||++...+    ++.++||| .||..|+.+|... ...||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH-~fc~~Ci~~~~~~-~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGH-LLHRTCYEEMLKE-GYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSC-EEETTHHHHHHHH-TCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCC-cccHHHHHHHHHc-CCcCCCCCCcCC
Confidence            34679999998755    88899999 9999999999887 488999999875

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

Probab=98.95  E-value=4.3e-10  Score=80.56  Aligned_cols=47  Identities=28%  Similarity=0.735  Sum_probs=39.9

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhc--CCCCCccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKD--DSKVCPIC  337 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~--~~~~CPiC  337 (350)
                      +...+...|+||++...+++.++||| .||..|+.+++..  ....||+|
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           10 ENLQVEASCSVCLEYLKEPVIIECGH-NFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCSCCCCBCSSSCCBCSSCCCCSSCC-CCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hccccCCCCccCCcccCccEeCCCCC-ccCHHHHHHHHHhcCCCCCCCCC
Confidence            33456788999999999999999999 8999999999654  35789998

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

Probab=98.93  E-value=4.8e-10  Score=92.59  Aligned_cols=53  Identities=26%  Similarity=0.604  Sum_probs=46.1

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +...+...|+||++...+++.++||| .||..|+..++......||+||.++..
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQTPCGH-RFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSC-EEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             cCCCCCCCCCcCChhhcCeEECCcCC-hhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            34556789999999999999999999 999999999987644589999999875

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

Probab=98.93  E-value=4.1e-10  Score=79.99  Aligned_cols=47  Identities=28%  Similarity=0.779  Sum_probs=40.0

Q ss_pred             Ccceeecccccccc---EEEcC-CCCccccHHhHHHHhhcCCCCCcccccccc
Q 036765          294 DAKLCVICYDDQRN---CFFVP-CGHCATCYDCGQRIMKDDSKVCPICRTLIH  342 (350)
Q Consensus       294 ~~~~C~IC~d~~~~---~v~lp-CGH~~~C~~C~~~~~~~~~~~CPiCR~~I~  342 (350)
                      ++..|+||++...+   +..++ ||| .||..|+.+|.+. ...||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H-~f~~~Ci~~w~~~-~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGH-GFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCC-EECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCC-cccHHHHHHHHHc-CCcCcCCCCEeE
Confidence            45679999998776   67777 999 8999999999776 678999998864

>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=98.93  E-value=1.6e-10  Score=112.66  Aligned_cols=55  Identities=35%  Similarity=0.948  Sum_probs=48.1

Q ss_pred             cccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecccC
Q 036765          291 DLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP  350 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~p  350 (350)
                      .+.++..|+||++...+++++||||.+||..|+..+     ..||+||++|..++++|.+
T Consensus       291 ~l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~~~~i~~s  345 (345)
T 3t6p_A          291 RLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL-----RKCPICRGIIKGTVRTFLS  345 (345)
T ss_dssp             HHHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC-----SBCTTTCCBCCEEEECC--
T ss_pred             hCcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC-----CcCCCCCCCccCeEEeecC
Confidence            345678999999999999999999955999999887     7899999999999999964

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

Probab=98.92  E-value=2.2e-10  Score=93.97  Aligned_cols=51  Identities=27%  Similarity=0.602  Sum_probs=44.7

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..++..|+||++...+++.++||| .||..|+.+++......||+||+.+..
T Consensus        12 ~~~~~~C~iC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           12 SLSECQCGICMEILVEPVTLPCNH-TLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             CHHHHBCTTTCSBCSSCEECTTSC-EECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCCccCCcccCceeEcCCCC-HHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            456789999999999999999999 999999999976645789999998863

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

Probab=98.92  E-value=1.5e-09  Score=87.32  Aligned_cols=51  Identities=16%  Similarity=0.066  Sum_probs=46.0

Q ss_pred             cccCcceeeccccccccEEEcCCC-CccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFVPCG-HCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~lpCG-H~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...+...||||++.++|++.++|| | .||+.|+.+++.. ...||+||+++..
T Consensus        18 ~~p~~~~CpI~~~~m~dPV~~~cG~h-tf~r~cI~~~l~~-~~~cP~~~~~l~~   69 (98)
T 1wgm_A           18 DACDEFLDPIMSTLMCDPVVLPSSRV-TVDRSTIARHLLS-DQTDPFNRSPLTM   69 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCC-EEEHHHHHHHTTT-SCBCTTTCSBCCT
T ss_pred             cCcHhcCCcCccccccCCeECCCCCe-EECHHHHHHHHHh-CCCCCCCCCCCCh
Confidence            446789999999999999999999 9 9999999999986 5789999999864

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

Probab=98.92  E-value=7.4e-10  Score=87.44  Aligned_cols=49  Identities=24%  Similarity=0.548  Sum_probs=42.0

Q ss_pred             cCcceeecccccccc---EEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          293 YDAKLCVICYDDQRN---CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~---~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .++..|+||++...+   +..+|||| .||..|+..|+.. ...||+||..+..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H-~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHH-YFHKPCVSIWLQK-SGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTE-EEEHHHHHHHHTT-TCBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCC-hHHHHHHHHHHHc-CCcCcCcCccCCC
Confidence            356789999988766   77889999 9999999999876 5789999998865

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

Probab=98.91  E-value=1e-09  Score=85.82  Aligned_cols=51  Identities=16%  Similarity=0.067  Sum_probs=45.9

Q ss_pred             cccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...+...|+||++.+++++.++||| .||+.|+.+++.. ...||+||+++..
T Consensus        10 ~~p~~~~CpI~~~~m~dPV~~~cGh-tf~r~~I~~~l~~-~~~cP~~~~~l~~   60 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDPVRLPSGT-VMDRSIILRHLLN-SPTDPFNRQMLTE   60 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSEEECTTSC-EEEHHHHHHHHHH-CSBCTTTCCBCCG
T ss_pred             cCchheECcccCchhcCCeECCCCC-EECHHHHHHHHhc-CCCCCCCcCCCCh
Confidence            3457899999999999999999999 9999999999986 5789999998764

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

Probab=98.91  E-value=6e-10  Score=84.44  Aligned_cols=48  Identities=31%  Similarity=0.729  Sum_probs=40.8

Q ss_pred             Ccceeecccccccc---EEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRN---CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~---~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +...|+||++...+   +..+|||| .||..|+.+|... ...||+||+.+..
T Consensus        22 ~~~~C~IC~~~~~~~~~~~~l~C~H-~fh~~Ci~~w~~~-~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           22 EQTLCVVCMCDFESRQLLRVLPCNH-EFHAKCVDKWLKA-NRTCPICRADSGP   72 (75)
T ss_dssp             SCCEETTTTEECCBTCEEEEETTTE-EEETTHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCeECCcccCCCCeEEEECCCC-HhHHHHHHHHHHc-CCcCcCcCCcCCC
Confidence            45789999987655   47789999 8999999999876 5789999998865

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

Probab=98.90  E-value=3.5e-10  Score=90.28  Aligned_cols=52  Identities=21%  Similarity=0.591  Sum_probs=45.3

Q ss_pred             ccccCcceeeccccccccEEEc-CCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +...+...|+||++...+++.+ +||| .||..|+.+++.. ...||+||+++..
T Consensus        17 ~~~~~~~~C~IC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   69 (99)
T 2y43_A           17 KTIDDLLRCGICFEYFNIAMIIPQCSH-NYCSLCIRKFLSY-KTQCPTCCVTVTE   69 (99)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTTCC-EEEHHHHHHHHTT-CCBCTTTCCBCCG
T ss_pred             HhCCCCCCcccCChhhCCcCEECCCCC-HhhHHHHHHHHHC-CCCCCCCCCcCCh
Confidence            3445678999999999999887 8999 9999999999876 5789999998874

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

Probab=98.88  E-value=7.5e-10  Score=89.82  Aligned_cols=51  Identities=33%  Similarity=0.700  Sum_probs=45.2

Q ss_pred             cccCcceeeccccccccEEEc-CCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .+.+...|+||++...+++.+ +||| .||..|+..++.. ...||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           11 ELNPHLMCVLCGGYFIDATTIIECLH-SFCKTCIVRYLET-SKYCPICDVQVHK   62 (108)
T ss_dssp             HHGGGTBCTTTSSBCSSEEEETTTCC-EEEHHHHHHHHTS-CSBCTTTCCBSCS
T ss_pred             ccCCcCCCccCChHHhCcCEeCCCCC-hhhHHHHHHHHHh-CCcCcCCCccccc
Confidence            345678999999999999987 9999 9999999999876 5889999999875

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

Probab=98.88  E-value=5.5e-10  Score=96.48  Aligned_cols=52  Identities=31%  Similarity=0.556  Sum_probs=45.6

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccce
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKV  344 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~  344 (350)
                      ..+...|+||++...+++.+|||| .||..|+.+++......||+||.++...
T Consensus        75 l~~~~~C~IC~~~~~~pv~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           75 LEQSFMCVCCQELVYQPVTTECFH-NVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHHTBCTTTSSBCSSEEECTTSC-EEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CccCCEeecCChhhcCCEEcCCCC-chhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            346689999999999999999999 9999999999887445899999998753

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

Probab=98.85  E-value=1.5e-09  Score=107.04  Aligned_cols=54  Identities=28%  Similarity=0.733  Sum_probs=47.2

Q ss_pred             cceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeeccc
Q 036765          295 AKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT  349 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~~  349 (350)
                      ...|+||++...+++.+|||| .||..|+..|.......||+||+++.....+..
T Consensus       332 ~~~C~ICle~~~~pv~lpCGH-~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~i~v  385 (389)
T 2y1n_A          332 FQLCKICAENDKDVKIEPCGH-LMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVV  385 (389)
T ss_dssp             SSBCTTTSSSBCCEEEETTCC-EECHHHHHHHHHHTCSBCTTTCCBCCEEEECSC
T ss_pred             CCCCCccCcCCCCeEEeCCCC-hhhHHHHHHHHhcCCCCCCCCCCccCCceeEec
Confidence            468999999999999999999 899999999877446889999999998766643

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

Probab=98.84  E-value=9.7e-10  Score=95.74  Aligned_cols=53  Identities=30%  Similarity=0.652  Sum_probs=45.2

Q ss_pred             ccccCcceeeccccccccEEEc-CCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ....+...|+||++...+++.+ +||| .||..|+..|+......||+||.++..
T Consensus        49 ~~~~~~~~C~IC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           49 RSLHSELMCPICLDMLKNTMTTKECLH-RFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             -CCHHHHBCTTTSSBCSSEEEETTTCC-EEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             hhCCCCCCCcccChHhhCcCEeCCCCC-hhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            3445678999999999999877 9999 999999999988656789999999853

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

Probab=98.84  E-value=1e-09  Score=90.04  Aligned_cols=53  Identities=25%  Similarity=0.417  Sum_probs=46.2

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ....+...|+||++...+++.++||| .||..|+.+++......||+||.++..
T Consensus        18 ~~~~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           18 AHFVKSISCQICEHILADPVETSCKH-LFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTSC-EEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             HhccCCCCCCCCCcHhcCcEEcCCCC-cccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            34456789999999999999999999 999999999987645789999999864

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=98.82  E-value=3.3e-09  Score=85.57  Aligned_cols=51  Identities=16%  Similarity=0.034  Sum_probs=45.9

Q ss_pred             cccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...+...||||++.+++++.++||| .||+.|+.+++.. ...||+||+++..
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~~cGh-tf~r~~I~~~l~~-~~~cP~~~~~l~~   75 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRLPSGT-IMDRSIILRHLLN-SPTDPFNRQTLTE   75 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEETTTE-EEEHHHHHHHTTS-CSBCSSSCCBCCT
T ss_pred             cCcHhhCCcCccCcccCCeECCCCC-EEchHHHHHHHHc-CCCCCCCCCCCCh
Confidence            3467899999999999999999999 9999999999985 6889999999864

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

Probab=98.80  E-value=4.4e-10  Score=80.96  Aligned_cols=45  Identities=24%  Similarity=0.561  Sum_probs=39.5

Q ss_pred             CcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +...|+||++...+++.+|||| .||..|+..+    ...||+||+.+..
T Consensus         5 ~~~~C~IC~~~~~~p~~l~CgH-~fC~~Ci~~~----~~~CP~Cr~~~~~   49 (56)
T 1bor_A            5 QFLRCQQCQAEAKCPKLLPCLH-TLCSGCLEAS----GMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSC-CSBTTTCSSS----SSSCSSCCSSSSC
T ss_pred             cCCCceEeCCccCCeEEcCCCC-cccHHHHccC----CCCCCcCCcEeec
Confidence            4577999999999999999999 9999998773    4789999998864

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

Probab=98.79  E-value=8.3e-10  Score=89.54  Aligned_cols=50  Identities=24%  Similarity=0.582  Sum_probs=43.2

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcC--CCCCccccccccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD--SKVCPICRTLIHK  343 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~--~~~CPiCR~~I~~  343 (350)
                      .+...|+||++...+++.++||| .||..|+..++...  ...||+||+++..
T Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           19 QKILECPICLELIKEPVSTKCDH-IFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSC-CCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCCCCCcccChhhcCeEECCCCC-HHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            45678999999999999999999 99999999998762  2479999998874

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

Probab=98.76  E-value=2.3e-09  Score=91.73  Aligned_cols=51  Identities=27%  Similarity=0.522  Sum_probs=44.8

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLI  341 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I  341 (350)
                      +.+.+...|+||++...+++.++||| .||..|+.+++......||+||.++
T Consensus        26 ~~l~~~~~C~IC~~~~~~pv~~~CgH-~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRPFQAQCGH-RYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSEEECTTSC-EEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             ccCCcCcCCCCCChhhcCcEECCCCC-ccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            34567889999999999999999999 9999999999876445899999975

>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=98.76  E-value=3.8e-09  Score=86.15  Aligned_cols=48  Identities=25%  Similarity=0.546  Sum_probs=38.7

Q ss_pred             cceeeccccccccE------------------EEcCCCCccccHHhHHHHhhc----CCCCCccccccccc
Q 036765          295 AKLCVICYDDQRNC------------------FFVPCGHCATCYDCGQRIMKD----DSKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d~~~~~------------------v~lpCGH~~~C~~C~~~~~~~----~~~~CPiCR~~I~~  343 (350)
                      +..|+||++...+.                  ..++||| .||..|+..|+..    ....||+||..+..
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H-~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH-AFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCC-EECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCC-cccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            35799999987543                  3789999 9999999999852    24689999998864

>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=98.70  E-value=8.4e-09  Score=95.75  Aligned_cols=51  Identities=14%  Similarity=0.142  Sum_probs=45.0

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..+...|+||++.+.+++.+|||| .||+.|+.+++......||+||.++..
T Consensus       205 ~~~~~~c~i~~~~~~dPv~~~~gh-~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          205 IPDYLCGKISFELMREPCITPSGI-TYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCC-EEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCcccCCcCcCCHhcCCeECCCCC-EECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            346789999999999999999999 999999999998644559999999864

>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=98.68  E-value=6.9e-09  Score=90.63  Aligned_cols=53  Identities=26%  Similarity=0.604  Sum_probs=46.2

Q ss_pred             ccccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..+.+...|+||++...+++.++||| .||..|+.+++......||+||.++..
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQTPCGH-RFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSC-EEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             cCCCCCCCCCCCChhhcCcEECCCCC-HHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            34557789999999999999999999 999999999987644589999999875

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

Probab=98.67  E-value=6.3e-09  Score=86.11  Aligned_cols=48  Identities=31%  Similarity=0.757  Sum_probs=42.4

Q ss_pred             CcceeeccccccccE-------EEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRNC-------FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~-------v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +...|+||++...++       +.++||| .||.+|+.+|++. ...||+||+.+..
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGH-VFCSQCLRDSLKN-ANTCPTCRKKINH   60 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCC-EEEHHHHHHHHTT-CSBCTTTCCBCTT
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCC-hhhHHHHHHHHHh-CCCCCCCCCcCcc
Confidence            457899999998776       8899999 9999999999876 5789999999874

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

Probab=98.67  E-value=9.7e-09  Score=79.35  Aligned_cols=47  Identities=21%  Similarity=0.482  Sum_probs=36.4

Q ss_pred             cceeecccccccc--------------EE-EcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          295 AKLCVICYDDQRN--------------CF-FVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d~~~~--------------~v-~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +..|+||++...+              ++ ..+||| .||..|+.+|... ...||+||+++..
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H-~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   76 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNH-SFHNCCMSLWVKQ-NNRCPLCQQDWVV   76 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSC-EEEHHHHHHHTTT-CCBCTTTCCBCCE
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCC-ccChHHHHHHHHh-CCCCCCcCCCcch
Confidence            4557777776643              43 445999 9999999999877 5789999998764

>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=98.62  E-value=3.2e-09  Score=87.44  Aligned_cols=49  Identities=27%  Similarity=0.534  Sum_probs=43.1

Q ss_pred             ccccCcceeeccccccccEEEc-CCCCccccHHhHHHHhhcCCCCCcccccccc
Q 036765          290 DDLYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDDSKVCPICRTLIH  342 (350)
Q Consensus       290 ~~~~~~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~  342 (350)
                      +.+.+...|+||++...+++.+ +||| .||..|+..++.   ..||+||.++.
T Consensus        17 ~~l~~~~~C~IC~~~~~~pv~~~~CgH-~fC~~Ci~~~~~---~~CP~Cr~~~~   66 (117)
T 1jm7_B           17 DRLEKLLRCSRCTNILREPVCLGGCEH-IFCSNCVSDCIG---TGCPVCYTPAW   66 (117)
T ss_dssp             HHHHHTTSCSSSCSCCSSCBCCCSSSC-CBCTTTGGGGTT---TBCSSSCCBCS
T ss_pred             HhchhCCCCCCCChHhhCccEeCCCCC-HHHHHHHHHHhc---CCCcCCCCcCc
Confidence            3446778999999999999998 9999 999999999865   67999999985

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

Probab=98.58  E-value=2.6e-08  Score=88.52  Aligned_cols=51  Identities=14%  Similarity=0.133  Sum_probs=45.2

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .++...||||++.+.+|+.+|||| .||+.|+..++......||+||.++..
T Consensus       103 ip~~f~CPI~~elm~DPV~~~~Gh-tfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          103 IPDYLCGKISFELMREPCITPSGI-TYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSC-EEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CcHhhcccCccccCCCCeECCCCC-EECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            457899999999999999999999 999999999998633469999998864

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

Probab=98.56  E-value=2.2e-08  Score=82.85  Aligned_cols=53  Identities=28%  Similarity=0.726  Sum_probs=44.6

Q ss_pred             CcceeeccccccccE-------EEcCCCCccccHHhHHHHhhcCCCCCccccccccc--eeecc
Q 036765          294 DAKLCVICYDDQRNC-------FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK--VRRLF  348 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~-------v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~--~~ri~  348 (350)
                      +...|+||++...++       +.++||| .||..|+.+|++. ...||+||.++..  +.++|
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH-~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~  132 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGH-VFCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIY  132 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSB-EEEHHHHHHHHHH-CSBCTTTCCBCCGGGEEEEC
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCC-hhhHHHHHHHHHc-CCCCCCCCCcCChhcceeee
Confidence            456799999987764       7889999 9999999999887 5799999999874  56665

>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=98.55  E-value=3.6e-08  Score=78.33  Aligned_cols=47  Identities=21%  Similarity=0.407  Sum_probs=40.7

Q ss_pred             cCcceeeccccccccEEEcC-CCCccccHHhHHHHhhcC-----CCCCcc--cccc
Q 036765          293 YDAKLCVICYDDQRNCFFVP-CGHCATCYDCGQRIMKDD-----SKVCPI--CRTL  340 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lp-CGH~~~C~~C~~~~~~~~-----~~~CPi--CR~~  340 (350)
                      .+...||||++.+.+++.++ ||| .||+.|+..++...     ...||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~dPV~~~~cGh-~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKNKVCGH-TYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEESSSCC-EEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcCCEEcCCCCC-eecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            35688999999999999996 999 99999999998762     358999  9855

>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=98.44  E-value=9.7e-08  Score=77.83  Aligned_cols=46  Identities=26%  Similarity=0.566  Sum_probs=37.6

Q ss_pred             cceeecccccccc------------------EEEcCCCCccccHHhHHHHhhcCCCCCcccccccc
Q 036765          295 AKLCVICYDDQRN------------------CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIH  342 (350)
Q Consensus       295 ~~~C~IC~d~~~~------------------~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~  342 (350)
                      +..|.||++...+                  .+.++||| .||..|+..|... ...||+||+.+.
T Consensus        37 ~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H-~FH~~Ci~~Wl~~-~~~CP~Cr~~~~  100 (106)
T 3dpl_R           37 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNH-AFHFHCISRWLKT-RQVCPLDNREWE  100 (106)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSC-EEEHHHHHHHHTT-CSBCSSSCSBCC
T ss_pred             CCCCccCChhHhCcCchhhccccccCCccceEeecccCc-EECHHHHHHHHHc-CCcCcCCCCcce
Confidence            4568888877553                  45679999 9999999999876 678999999864

>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=98.24  E-value=8e-07  Score=83.14  Aligned_cols=52  Identities=17%  Similarity=0.268  Sum_probs=44.2

Q ss_pred             cccCcceeeccccccccEEEc-CCCCccccHHhHHHHhhcC-CCCCcc--ccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDD-SKVCPI--CRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~-~~~CPi--CR~~I~~  343 (350)
                      .......||||++.+++++.. .||| .||+.|+.+++... ...||+  ||+.+..
T Consensus       177 ~~~~el~CPIcl~~f~DPVts~~CGH-sFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          177 GGKIELTCPITCKPYEAPLISRKCNH-VFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             SSBCCSBCTTTSSBCSSEEEESSSCC-EEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             CCceeeECcCccCcccCCeeeCCCCC-cccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            346778999999999999974 9999 99999999998763 357999  9998753

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

Probab=98.19  E-value=8.8e-07  Score=68.50  Aligned_cols=51  Identities=22%  Similarity=0.544  Sum_probs=40.4

Q ss_pred             Ccceeecccccc--ccEEEcCCC-----CccccHHhHHHHhhcC-CCCCcccccccccee
Q 036765          294 DAKLCVICYDDQ--RNCFFVPCG-----HCATCYDCGQRIMKDD-SKVCPICRTLIHKVR  345 (350)
Q Consensus       294 ~~~~C~IC~d~~--~~~v~lpCG-----H~~~C~~C~~~~~~~~-~~~CPiCR~~I~~~~  345 (350)
                      ++..|.||++..  .+.+++||+     | .|+.+|+.+|.... ...||+||..+....
T Consensus        14 ~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h-~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPLITPCHCTGSLH-FVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCEECSSSCCSSSC-CEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCeEcCccccCCCeeEeccccCCcCC-eeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            456799999764  346678996     9 89999999998763 358999999986543

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

Probab=98.14  E-value=3.2e-07  Score=76.13  Aligned_cols=46  Identities=26%  Similarity=0.555  Sum_probs=0.4

Q ss_pred             cceeeccccccccE------------------EEcCCCCccccHHhHHHHhhcCCCCCcccccccc
Q 036765          295 AKLCVICYDDQRNC------------------FFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIH  342 (350)
Q Consensus       295 ~~~C~IC~d~~~~~------------------v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~  342 (350)
                      +..|+||++...+.                  +.++||| .||..|+.+|... ...||+||+++.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H-~FH~~CI~~Wl~~-~~~CP~Cr~~~~  111 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNH-AFHFHCISRWLKT-RQVCPLDNREWE  111 (117)
T ss_dssp             C-----------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCc-eEcHHHHHHHHHc-CCcCCCCCCeee
Confidence            45799999886542                  2359999 9999999999776 578999999864

>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=98.11  E-value=6.1e-07  Score=70.80  Aligned_cols=46  Identities=17%  Similarity=0.413  Sum_probs=35.9

Q ss_pred             CcceeeccccccccEE---EcCCCCccccHHhHHHHhhc----C---CCCCcc--cccc
Q 036765          294 DAKLCVICYDDQRNCF---FVPCGHCATCYDCGQRIMKD----D---SKVCPI--CRTL  340 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v---~lpCGH~~~C~~C~~~~~~~----~---~~~CPi--CR~~  340 (350)
                      +...|+||++......   +.+||| .||.+|+..+++.    +   ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH-~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQC-IFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTE-EEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCC-cccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3567999999876532   348999 9999999998764    1   247999  9988

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.98  E-value=5e-06  Score=66.60  Aligned_cols=49  Identities=29%  Similarity=0.682  Sum_probs=39.4

Q ss_pred             eecccccccc-EEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeec
Q 036765          298 CVICYDDQRN-CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL  347 (350)
Q Consensus       298 C~IC~d~~~~-~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri  347 (350)
                      |++|--.... ...+||.| +||.+|+..+...+...||+||.+|..+.++
T Consensus         4 C~~C~~Pi~iygRmIPCkH-vFCydCa~~~~~~~~k~Cp~C~~~V~rVe~~   53 (101)
T 3vk6_A            4 CDKCGLPIKVYGRMIPCKH-VFCYDCAILHEKKGDKMCPGCSDPVQRIEQC   53 (101)
T ss_dssp             CTTTCSBCSEEEEEETTCC-EEEHHHHHHHHHTTCCBCTTTCCBCSEEEEE
T ss_pred             cCccCCCeEEEeeeccccc-cHHHHHHHHHHhccCCCCcCcCCeeeeeEEe
Confidence            7777555444 45789999 9999999998776568899999999987654

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=97.95  E-value=3e-06  Score=62.07  Aligned_cols=47  Identities=17%  Similarity=0.109  Sum_probs=41.6

Q ss_pred             cceeeccccccccEEEc-CCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          295 AKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ...|+||++.+.|++.. +||| .||++|+.+|... ...||++++++..
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~-~yer~~I~~~l~~-~~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRT-IFEKSLLEQYVKD-TGNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTE-EEEHHHHHHHHHH-HSBCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCCEEeCCCCc-EEcHHHHHHHHHh-CCCCcCCcCCCCh
Confidence            36799999999999999 9999 9999999999876 4679999999864

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

Probab=97.42  E-value=0.00019  Score=54.58  Aligned_cols=49  Identities=20%  Similarity=0.456  Sum_probs=38.5

Q ss_pred             CcceeeccccccccEE-EcCCCCccccHHhHHHHhhcC-CCCCccccccccc
Q 036765          294 DAKLCVICYDDQRNCF-FVPCGHCATCYDCGQRIMKDD-SKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v-~lpCGH~~~C~~C~~~~~~~~-~~~CPiCR~~I~~  343 (350)
                      ....|.||++....-. -..|+| .|...|+.+|++.. ...||+||+....
T Consensus        14 ~i~~C~IC~~~i~~g~~C~~C~h-~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCETCGI-RMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECSSSCC-EECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCcCcchhhHcccCCccCCCCc-hhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            3467999998865422 338999 99999999998763 2689999998764

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

Probab=97.16  E-value=0.00023  Score=51.75  Aligned_cols=50  Identities=24%  Similarity=0.544  Sum_probs=39.0

Q ss_pred             CcceeeccccccccEEEcCCCCc----cccHHhHHHHhhc-CCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRNCFFVPCGHC----ATCYDCGQRIMKD-DSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCGH~----~~C~~C~~~~~~~-~~~~CPiCR~~I~~  343 (350)
                      +...|.||++...+..+.||.+.    .+...|+.+|... +...||+|+..+..
T Consensus         5 ~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            45689999988766667898642    4889999999875 35789999998753

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

Probab=96.67  E-value=0.00022  Score=69.02  Aligned_cols=49  Identities=20%  Similarity=0.459  Sum_probs=37.8

Q ss_pred             Ccceeecccccccc--------EEEcCCCCccccHHhHHHHhhcC----------CCCCccccccccc
Q 036765          294 DAKLCVICYDDQRN--------CFFVPCGHCATCYDCGQRIMKDD----------SKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~--------~v~lpCGH~~~C~~C~~~~~~~~----------~~~CPiCR~~I~~  343 (350)
                      ...+|+||++...+        +--..||| .|...|+.+|.+..          .+.||.||++|..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h-~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVL-KCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCC-CBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCC-ccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            56789999987554        11347999 99999999998651          1469999999875

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=93.41  E-value=0.034  Score=42.60  Aligned_cols=35  Identities=29%  Similarity=0.792  Sum_probs=29.9

Q ss_pred             CcceeeccccccccEEEcCC----CCccccHHhHHHHhhc
Q 036765          294 DAKLCVICYDDQRNCFFVPC----GHCATCYDCGQRIMKD  329 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpC----GH~~~C~~C~~~~~~~  329 (350)
                      ....|.+|.+...|.-|+.|    +| .||..|.....+.
T Consensus        14 a~l~CtlC~erLEdtHFVQCPsv~~H-kFCFpCsr~sIk~   52 (93)
T 2cs3_A           14 GPLCCTICHERLEDTHFVQCPSVPSH-KFCFPCSRESIKA   52 (93)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSC-EECHHHHHHHHHH
T ss_pred             CeeEeecchhhhccCceeeCCCccCC-eeeccccHHHHHh
Confidence            45789999999999888888    68 8999999887664

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=91.65  E-value=0.058  Score=42.21  Aligned_cols=31  Identities=26%  Similarity=0.626  Sum_probs=25.3

Q ss_pred             cceeeccccc-cccEEE--cCCCCccccHHhHHHH
Q 036765          295 AKLCVICYDD-QRNCFF--VPCGHCATCYDCGQRI  326 (350)
Q Consensus       295 ~~~C~IC~d~-~~~~v~--lpCGH~~~C~~C~~~~  326 (350)
                      +..|.||.+. ..+++.  +.|+| .||..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~-~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEV-SYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTE-EECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCcCCh-HHhHHHCHHH
Confidence            4679999975 555555  89999 9999999984

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

Probab=90.59  E-value=0.17  Score=46.42  Aligned_cols=48  Identities=21%  Similarity=0.467  Sum_probs=37.1

Q ss_pred             cceeeccccccccEEEc-CCCCccccHHhHHHHhhcC-CCCCccccccccc
Q 036765          295 AKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDD-SKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~-~~~CPiCR~~I~~  343 (350)
                      -..|.||.+.......- .|+| .+...|+..+++.. ...||.|+.....
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~-~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGI-RMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCC-EECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhCCcccCccCh-HHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            46799999876554333 3999 89999999998763 3589999987653

---

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	350
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-11
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	3e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-07
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	6e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-05
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	4e-05
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	5e-04
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	0.001
d1weoa_	93	g.44.1.1 (A:) Cellulose synthase A catalytic subun	0.003
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.003

>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 = 57.3 bits (138), Expect = 2e-11
 Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 1/56 (1%)

Query: 293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF 348
              +LC IC ++ ++    PCGH   C  C     + + + CP CR  I     + 
Sbjct: 21  STFQLCKICAENDKDVKIEPCGHL-MCTSCLTSWQESEGQGCPFCRCEIKGTEPIV 75

>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 = 44.9 bits (106), Expect = 3e-07
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 3/54 (5%)

Query: 298 CVICYDDQRN-CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFTP 350
           C IC +D  N    +PC H   CY C  R ++  +  CP+C+  +  V      
Sbjct: 8   CPICLEDPSNYSMALPCLHA-FCYVCITRWIR-QNPTCPLCKVPVESVVHTIES 59

>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 = 45.3 bits (107), Expect = 3e-07
 Identities = 15/61 (24%), Positives = 19/61 (31%), Gaps = 2/61 (3%)

Query: 290 DDLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLFT 349
                +  C IC     +     C H   C  C  R +K     CP CR        L +
Sbjct: 18  AHFVKSISCQICEHILADPVETSCKH-LFCRICILRCLKVMGSYCPSCRYPCFP-TDLES 75

Query: 350 P 350
           P
Sbjct: 76  P 76

>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 = 43.7 bits (103), Expect = 6e-07
 Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 5/42 (11%)

Query: 298 CVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRT 339
           C  C  + +    +PC H   C  C +         CPIC+ 
Sbjct: 9   CQQCQAEAKCPKLLPCLHT-LCSGCLEA----SGMQCPICQA 45

>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 = 40.1 bits (93), Expect = 4e-05
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 3/48 (6%)

Query: 298 CVICYDDQRNCFFVPCGHCATCYDCGQRIM--KDDSKVCPICRTLIHK 343
           C IC +  +      C H   C  C  +++  K     CP+C+  I K
Sbjct: 24  CPICLELIKEPVSTKCDHIF-CKFCMLKLLNQKKGPSQCPLCKNDITK 70

>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 = 38.5 bits (89), Expect = 4e-05
 Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)

Query: 298 CVICYDD----QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRT 339
           C +C +       N F   CG+   C  C  RI  D++ +CP CR 
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQ-ICRFCWHRIRTDENGLCPACRK 47

>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 = 38.6 bits (89), Expect = 5e-05
 Identities = 13/55 (23%), Positives = 17/55 (30%), Gaps = 6/55 (10%)

Query: 294 DAKLCVICYDD-----QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK 343
           D + C  C                CGH   C  C   +    +  CP C T + K
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHT-LCESCVDLLFVRGAGNCPECGTPLRK 55

>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 = 36.7 bits (84), Expect = 5e-04
 Identities = 12/61 (19%), Positives = 21/61 (34%), Gaps = 4/61 (6%)

Query: 277 DEDDDAGFSSTSS--DDLYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDDSKV 333
           + D    ++ + +  D L     C  C +  R    +  C H   C +C    +     V
Sbjct: 2   EPDGRGAWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHI-FCSNCVSDCIGTGCPV 60

Query: 334 C 334
           C
Sbjct: 61  C 61

>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 = 34.1 bits (78), Expect = 0.001
 Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 6/48 (12%)

Query: 298 CVICYDD----QRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLI 341
           C +C  +    +   F   CGH     +C    +      CP+CR  +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHG-FHAECVDMWLGS-HSTCPLCRLTV 53

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 93

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 34.4 bits (79), Expect = 0.003
 Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 6/52 (11%)

Query: 294 DAKLCVICYDD----QRNCFFVPCGHCA--TCYDCGQRIMKDDSKVCPICRT 339
           D + C IC D          FV C  C    C  C +   ++ ++ CP C+T
Sbjct: 15  DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKT 66

>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 = 33.7 bits (76), Expect = 0.003
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 5/51 (9%)

Query: 294 DAKLCVICYDDQRNCFFVPCGHCAT----CYDCGQR-IMKDDSKVCPICRT 339
           D  +C IC ++  N  F  CG           C    +    +  C IC  
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	350
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.23
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.11
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.1
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.01
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.96
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.96
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.95
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.94
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.92
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.88
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.86
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.71
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.61
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.6
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.56
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.31
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.72
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	90.77
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	80.72

>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=99.23  E-value=2.2e-12  Score=98.12  Aligned_cols=52  Identities=29%  Similarity=0.776  Sum_probs=45.8

Q ss_pred             ceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeecc
Q 036765          296 KLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRLF  348 (350)
Q Consensus       296 ~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri~  348 (350)
                      ..|+||++...+++++|||| .||.+|+.+|...+...||+||..|.....+.
T Consensus        24 ~~C~IC~~~~~~~~~~~CgH-~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i~   75 (79)
T d1fbva4          24 QLCKICAENDKDVKIEPCGH-LMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV   75 (79)
T ss_dssp             TBCTTTSSSBCCEECSSSCC-EECHHHHHHHHHTTCCSCTTTCCCCCCCCCSS
T ss_pred             CCCccCCCcCCCeEEeCCCC-eeeHHHHHHHHHHCcCcCCCCCcCccCCceee
Confidence            46999999999999999999 89999999998764578999999998866553

>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=99.11  E-value=9.8e-12  Score=96.13  Aligned_cols=52  Identities=25%  Similarity=0.427  Sum_probs=45.4

Q ss_pred             cccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +..+...|+||++...+++.++||| .||..|+.++++....+||+||.++..
T Consensus        19 d~~~~l~C~IC~~~~~~pv~~~CgH-~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          19 HFVKSISCQICEHILADPVETSCKH-LFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTSC-EEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             hhccCcCCccCCcchhcceecCCCC-hhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            3445678999999999999999999 899999999987656789999998764

>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=99.10  E-value=1.7e-11  Score=90.43  Aligned_cols=51  Identities=35%  Similarity=0.851  Sum_probs=43.1

Q ss_pred             cceeecccccccc-EEEcCCCCccccHHhHHHHhhcCCCCCccccccccceeec
Q 036765          295 AKLCVICYDDQRN-CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHKVRRL  347 (350)
Q Consensus       295 ~~~C~IC~d~~~~-~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~~~ri  347 (350)
                      ..+|+||++...+ .+.+|||| .||..|+.+|++. ...||+||++|......
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H-~Fc~~Ci~~w~~~-~~~CP~CR~~i~~~~~~   56 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLH-AFCYVCITRWIRQ-NPTCPLCKVPVESVVHT   56 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTE-EESTTHHHHHHHH-SCSTTTTCCCCCCEECC
T ss_pred             CCCCccCCcCccCCcEEeCCCC-cCcHHHHHHHHHh-CCcCCCCCcchHhhccc
Confidence            3569999999876 45689999 8999999999887 68899999999876543

>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=99.01  E-value=8e-11  Score=86.01  Aligned_cols=49  Identities=27%  Similarity=0.600  Sum_probs=39.4

Q ss_pred             Ccceeecccccc-----ccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          294 DAKLCVICYDDQ-----RNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~-----~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ++..|+||++..     ...++.+||| .||.+|+..|+......||+||+++..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H-~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGH-TLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCC-CEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccCh-HhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            346799999852     2246679999 999999999987655689999999864

>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=98.96  E-value=9.4e-11  Score=81.95  Aligned_cols=46  Identities=30%  Similarity=0.712  Sum_probs=37.7

Q ss_pred             eeecccccccc----EEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          297 LCVICYDDQRN----CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       297 ~C~IC~d~~~~----~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +|+||++....    +..++||| .||.+|+.+|.+..+.+||+||++++.
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH-~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGY-QICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSC-CCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCC-ccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            79999997532    34568999 999999999987655689999999864

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.96  E-value=1.6e-10  Score=87.56  Aligned_cols=51  Identities=14%  Similarity=0.142  Sum_probs=45.5

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..++..|+||++.+++++.++||| .||..|+.+++......||.||+++..
T Consensus         4 iP~~l~CpIc~~l~~dPv~~~cGh-tfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           4 IPDYLCGKISFELMREPCITPSGI-TYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCC-EEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCccccCcCcCchhhhhcccCCcC-eecHHHHHHHHhcCCccCCCccccccc
Confidence            356789999999999999999999 999999999987656789999998864

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=3.1e-11  Score=85.88  Aligned_cols=44  Identities=25%  Similarity=0.567  Sum_probs=38.8

Q ss_pred             cceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          295 AKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..+|+||++...+++.+|||| .||..|+.++    ...||+||+++..
T Consensus         6 ~l~C~IC~~~~~~p~~lpCgH-~fC~~Ci~~~----~~~CP~Cr~~~~~   49 (56)
T d1bora_           6 FLRCQQCQAEAKCPKLLPCLH-TLCSGCLEAS----GMQCPICQAPWPL   49 (56)
T ss_dssp             CSSCSSSCSSCBCCSCSTTSC-CSBTTTCSSS----SSSCSSCCSSSSC
T ss_pred             CCCCcccCcccCCCEEecCCC-HHhHHHHHcC----CCcCcCCCCcccC
Confidence            368999999999999999999 8999998654    5789999999864

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.94  E-value=2.3e-10  Score=86.22  Aligned_cols=51  Identities=16%  Similarity=0.249  Sum_probs=45.8

Q ss_pred             ccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          292 LYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       292 ~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      ..++..|+||++.+++++.++||| .||+.|+.++++.+...||.||.++..
T Consensus         5 iP~~l~CpIc~~~m~dPV~~~cgh-~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVIVSTGQ-TYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTE-EEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CCccCCCcCcCchhhCceEccCCC-cchHHHHHHHHHHCCCCCCcccccCCc
Confidence            457789999999999999999999 999999999987756779999999865

>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=98.92  E-value=2.1e-10  Score=81.09  Aligned_cols=46  Identities=26%  Similarity=0.749  Sum_probs=38.0

Q ss_pred             Ccceeecccccccc---EEEc-CCCCccccHHhHHHHhhcCCCCCccccccc
Q 036765          294 DAKLCVICYDDQRN---CFFV-PCGHCATCYDCGQRIMKDDSKVCPICRTLI  341 (350)
Q Consensus       294 ~~~~C~IC~d~~~~---~v~l-pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I  341 (350)
                      ++.+|+||++...+   +..+ +||| .||.+|+.+|.+. ...||+||++|
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H-~Fh~~Ci~~Wl~~-~~~CP~CR~~i   53 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGH-GFHAECVDMWLGS-HSTCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCC-EECTTHHHHTTTT-CCSCSSSCCCS
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCC-cccHHHHHHHHHh-CCcCCCCCCEe
Confidence            45679999998654   4444 6999 9999999999877 67899999976

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=1.3e-10  Score=92.19  Aligned_cols=49  Identities=22%  Similarity=0.572  Sum_probs=42.6

Q ss_pred             cCcceeeccccccccEEEcCCCCccccHHhHHHHhhcC--CCCCcccccccc
Q 036765          293 YDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDD--SKVCPICRTLIH  342 (350)
Q Consensus       293 ~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~--~~~CPiCR~~I~  342 (350)
                      .+...|+||++...+++.++||| .||..|+.+++...  ...||+||.++.
T Consensus        19 ~~~l~CpIC~~~~~~pv~~~CgH-~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          19 QKILECPICLELIKEPVSTKCDH-IFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSC-CCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             ccCcCCCccCchhCCeEEcCCCC-chhhHHHHHHHHHCCCCCcCcCCCCcCC
Confidence            45578999999999999999999 99999999998663  247999999885

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.86  E-value=3.3e-10  Score=80.24  Aligned_cols=45  Identities=20%  Similarity=0.191  Sum_probs=40.8

Q ss_pred             eeeccccccccEEEcC-CCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          297 LCVICYDDQRNCFFVP-CGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       297 ~C~IC~d~~~~~v~lp-CGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .|+||++..++++.++ ||| .||++|+.+|.+. ...||+||++++.
T Consensus         2 ~C~Ic~~~~~~Pv~~~~cGh-~fc~~cI~~~l~~-~~~CP~c~~~l~~   47 (56)
T d2baya1           2 LCAISGKVPRRPVLSPKSRT-IFEKSLLEQYVKD-TGNDPITNEPLSI   47 (56)
T ss_dssp             CCTTTCSCCSSEEEETTTTE-EEEHHHHHHHHHH-HSBCTTTCCBCCG
T ss_pred             CCccCCchHHhcCccCCCCC-cccHHHHHHHHhh-ccCCCccCCcCCH
Confidence            5999999999998875 999 9999999999887 5789999999874

>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=98.71  E-value=8.8e-09  Score=80.90  Aligned_cols=52  Identities=15%  Similarity=0.082  Sum_probs=45.4

Q ss_pred             cccCcceeeccccccccEEEcCCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +..++..||||.+.++|++.++|||..||+.|+.+++.. ...||+||+++..
T Consensus        18 ~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~-~~~~P~~~~~l~~   69 (98)
T d1wgma_          18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTM   69 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCT
T ss_pred             CCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHh-cCCcccccccccc
Confidence            345789999999999999999988647999999999876 6789999999864

>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=98.61  E-value=1.1e-08  Score=81.87  Aligned_cols=48  Identities=25%  Similarity=0.529  Sum_probs=37.6

Q ss_pred             cceeeccccccc------------------cEEEcCCCCccccHHhHHHHhhcC----CCCCccccccccc
Q 036765          295 AKLCVICYDDQR------------------NCFFVPCGHCATCYDCGQRIMKDD----SKVCPICRTLIHK  343 (350)
Q Consensus       295 ~~~C~IC~d~~~------------------~~v~lpCGH~~~C~~C~~~~~~~~----~~~CPiCR~~I~~  343 (350)
                      +..|+||++...                  ...+++||| .||.+|+..|+...    ..+||+||+.+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH-~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH-AFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCC-EECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCC-hhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            457999998643                  246789999 99999999998752    2479999987753

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=1.9e-09  Score=84.27  Aligned_cols=49  Identities=24%  Similarity=0.488  Sum_probs=41.0

Q ss_pred             cccCcceeeccccccccEEEc-CCCCccccHHhHHHHhhcCCCCCccccccccc
Q 036765          291 DLYDAKLCVICYDDQRNCFFV-PCGHCATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       291 ~~~~~~~C~IC~d~~~~~v~l-pCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      .+.+...|+||++...+++.+ +||| .||..|+.++..   ..||.||.++..
T Consensus        18 ~l~~~l~C~IC~~~~~~pv~~~~CgH-~fC~~Ci~~~~~---~~CP~Cr~~~~~   67 (97)
T d1jm7b_          18 RLEKLLRCSRCTNILREPVCLGGCEH-IFCSNCVSDCIG---TGCPVCYTPAWI   67 (97)
T ss_dssp             HHHHTTSCSSSCSCCSSCBCCCSSSC-CBCTTTGGGGTT---TBCSSSCCBCSC
T ss_pred             hhhhcCCCccCCchhhcCceeCCCCC-chhHHHHHHHHh---ccccccCCcCch
Confidence            345677899999999999864 8999 999999999853   469999988764

>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=98.56  E-value=1.8e-08  Score=77.41  Aligned_cols=33  Identities=27%  Similarity=0.545  Sum_probs=29.3

Q ss_pred             EEEcCCCCccccHHhHHHHhhcCCCCCcccccccc
Q 036765          308 CFFVPCGHCATCYDCGQRIMKDDSKVCPICRTLIH  342 (350)
Q Consensus       308 ~v~lpCGH~~~C~~C~~~~~~~~~~~CPiCR~~I~  342 (350)
                      +..++||| .||..|+.+|.+. ...||+||++..
T Consensus        52 ~~~~~C~H-~FH~~Ci~~Wl~~-~~~CP~CR~~~~   84 (88)
T d3dplr1          52 VAWGVCNH-AFHFHCISRWLKT-RQVCPLDNREWE   84 (88)
T ss_dssp             EEEETTSC-EEEHHHHHHHHTT-CSBCSSSCSBCC
T ss_pred             eEEccccC-cccHHHHHHHHHH-CCcCCCCCCccc
Confidence            56789999 9999999999887 678999999865

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.31  E-value=1.1e-07  Score=67.54  Aligned_cols=49  Identities=24%  Similarity=0.570  Sum_probs=39.7

Q ss_pred             CcceeeccccccccEEEcCCC-----CccccHHhHHHHhhc-CCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRNCFFVPCG-----HCATCYDCGQRIMKD-DSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~~v~lpCG-----H~~~C~~C~~~~~~~-~~~~CPiCR~~I~~  343 (350)
                      +...|.||++...+....||+     | .||..|+.+|... +...||+||+++..
T Consensus         5 d~~~C~IC~~~~~~~~~~~c~c~~c~h-~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           5 DVPVCWICNEELGNERFRACGCTGELE-NVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGG-SCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCccCCccCCCceeEecccCCCCC-EEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            457899999988777666764     9 8999999999764 35689999998763

>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=97.72  E-value=7.9e-06  Score=62.47  Aligned_cols=44  Identities=16%  Similarity=0.401  Sum_probs=32.7

Q ss_pred             cceeeccccccc--c-EEEcCCCCccccHHhHHHHhhc----C---CCCCccccc
Q 036765          295 AKLCVICYDDQR--N-CFFVPCGHCATCYDCGQRIMKD----D---SKVCPICRT  339 (350)
Q Consensus       295 ~~~C~IC~d~~~--~-~v~lpCGH~~~C~~C~~~~~~~----~---~~~CPiCR~  339 (350)
                      ..+|+||++...  + +.+.+||| .||.+|+..+++.    .   ..+||.|+-
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H-~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQC-IFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTE-EEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCcccCCceEEECCCCC-EeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            356999999864  3 45678999 8999999987653    1   236998653

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.77  E-value=0.04  Score=39.37  Aligned_cols=34  Identities=29%  Similarity=0.814  Sum_probs=29.2

Q ss_pred             cceeeccccccccEEEcCC----CCccccHHhHHHHhhc
Q 036765          295 AKLCVICYDDQRNCFFVPC----GHCATCYDCGQRIMKD  329 (350)
Q Consensus       295 ~~~C~IC~d~~~~~v~lpC----GH~~~C~~C~~~~~~~  329 (350)
                      ...|.+|.+...|.-|+.|    +| .||..|.....+.
T Consensus         8 ~l~CtlC~erLEdtHFVQCPsv~~H-kFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDTHFVQCPSVPSH-KFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSSTTSEECSSCSSC-EECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCCceEeCCCCcCC-ceeccccHHHHHh
Confidence            3679999999999888888    68 8999999887664

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=80.72  E-value=0.93  Score=33.18  Aligned_cols=50  Identities=30%  Similarity=0.775  Sum_probs=35.8

Q ss_pred             Ccceeecccccccc----EEEcCCCCc--cccHHhHHHHhhcCCCCCccccccccc
Q 036765          294 DAKLCVICYDDQRN----CFFVPCGHC--ATCYDCGQRIMKDDSKVCPICRTLIHK  343 (350)
Q Consensus       294 ~~~~C~IC~d~~~~----~v~lpCGH~--~~C~~C~~~~~~~~~~~CPiCR~~I~~  343 (350)
                      +.+.|.||-|...-    -+|+-|..+  ..|+.|..-=.+.....||.|..+...
T Consensus        15 ~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr   70 (93)
T d1weoa_          15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             ccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhh
Confidence            56789999887432    235555432  579999987666667889999988754