Psyllid ID: psy17995

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120
Protein Sequence
MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEcccccccHHHHHHHHHHHcccccccccccccccccEEEEcccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccccHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccEEEEcccccHHHHHHHHHHHHcccccccccccEEEHcccEHHHcccccHHHHHHHHHHHHHHHHccHHHcccHHHHHHHHHHHHHHHHHHHccccHHHccc
Coil and Loop (DISEMBL)
mddqecprckttkyrkptLKLMVNIcghplcegcvdllflkgtgncyecnqplrrgnfrvqlfddssVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK
Flexible Loop (DISEMBL)
mddqecprckttkyrkptlkLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFrvqlfddssveKEVEIRKKllkdynkveedfnSLAEYNDYLEEIEEIVFNLCNNIDILETNK
Low Complexity Region (SEG)
MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK
Disordered region (IsUnstruct)
***********TKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDIL****
Disordered Region (DISOPRED)
*DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVE**KKL***YNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNID******
Disordered Region (DISEMBL)
********CKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK
Disordered Region (DISPRO)
****ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDIL*T**
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYxxxxxxxxxxxxxxxxxxxxxK
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	120	2.2.26 [Sep-21-2011]
P51949	309	CDK-activating kinase ass	yes	N/A	1.0	0.388	0.741	8e-49
P51948	309	CDK-activating kinase ass	yes	N/A	1.0	0.388	0.741	1e-48
P51951	309	CDK-activating kinase ass	N/A	N/A	1.0	0.388	0.7	5e-47
P51950	324	CDK-activating kinase ass	N/A	N/A	1.0	0.370	0.616	2e-42
Q6BP96	340	RNA polymerase II transcr	yes	N/A	0.941	0.332	0.491	2e-25
O94684	318	RNA polymerase II transcr	yes	N/A	0.966	0.364	0.445	2e-25
Q6FMP4	330	RNA polymerase II transcr	yes	N/A	0.941	0.342	0.487	3e-24
Q6CT73	318	RNA polymerase II transcr	yes	N/A	0.941	0.355	0.478	3e-23
Q03290	321	RNA polymerase II transcr	yes	N/A	0.941	0.352	0.478	4e-23
Q75D20	318	RNA polymerase II transcr	yes	N/A	0.958	0.361	0.471	2e-22

>sp|P51949|MAT1_MOUSE CDK-activating kinase assembly factor MAT1 OS=Mus musculus GN=Mnat1 PE=2 SV=2

 Score =  191 bits (486), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 89/120 (74%), Positives = 102/120 (85%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct: 1   MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D +V+KEVEIRKK+LK YNK EEDF SL EYND+LEE+EEIVFNL NN+D+  T K
Sbjct: 61  QLFEDPTVDKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLENTKK 120

Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex. CAK activates the cyclin-associated kinases CDK1, CDK2, CDK4 and CDK6 by threonine phosphorylation. CAK complexed to the core-TFIIH basal transcription factor activates RNA polymerase II by serine phosphorylation of the repetitive C-terminus domain (CTD) of its large subunit (POLR2A), allowing its escape from the promoter and elongation of the transcripts. Involved in cell cycle control and in RNA transcription by RNA polymerase II.
Mus musculus (taxid: 10090)

>sp|P51948|MAT1_HUMAN CDK-activating kinase assembly factor MAT1 OS=Homo sapiens GN=MNAT1 PE=1 SV=1

 Score =  191 bits (485), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 89/120 (74%), Positives = 102/120 (85%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct: 1   MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D +V+KEVEIRKK+LK YNK EEDF SL EYND+LEE+EEIVFNL NN+D+  T K
Sbjct: 61  QLFEDPTVDKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKK 120

Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex. CAK activates the cyclin-associated kinases CDK1, CDK2, CDK4 and CDK6 by threonine phosphorylation. CAK complexed to the core-TFIIH basal transcription factor activates RNA polymerase II by serine phosphorylation of the repetitive C-terminus domain (CTD) of its large subunit (POLR2A), allowing its escape from the promoter and elongation of the transcripts. Involved in cell cycle control and in RNA transcription by RNA polymerase II.

Homo sapiens (taxid: 9606)

>sp|P51951|MAT1_XENLA CDK-activating kinase assembly factor MAT1 OS=Xenopus laevis GN=mnat1 PE=2 SV=1

 Score =  186 bits (471), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 84/120 (70%), Positives = 103/120 (85%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CV+LLF++G+G+C EC+ PLR+ NF+V
Sbjct: 1   MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVELLFVRGSGSCQECDTPLRKSNFKV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D +++KEVEIRKK+LK YNK EEDF SL EYND+LEEIEEIV NL NN+D+  T +
Sbjct: 61  QLFEDPTIDKEVEIRKKILKIYNKREEDFPSLREYNDFLEEIEEIVLNLTNNVDLDNTRR 120

Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex.

Xenopus laevis (taxid: 8355)

>sp|P51950|MAT1_MARGL CDK-activating kinase assembly factor MAT1 OS=Marthasterias glacialis PE=1 SV=1

 Score =  171 bits (432), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 74/120 (61%), Positives = 99/120 (82%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           M++Q CPRCK+TKYR P+LKL+VN+CGH LCE CV++LF++G+G+C  CN PLRR  FRV
Sbjct: 2   MEEQACPRCKSTKYRNPSLKLLVNVCGHTLCENCVEILFVRGSGSCPSCNTPLRRNQFRV 61

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           Q F+D+ VEKEV+IRK++LKD+NK EE+F +L +YNDYLEEIE I+FNL N  ++  T +
Sbjct: 62  QEFEDAYVEKEVDIRKRILKDFNKQEEEFPALKDYNDYLEEIETIIFNLANGTELEATKR 121

Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex.

Marthasterias glacialis (taxid: 7609)

>sp|Q6BP96|TFB3_DEBHA RNA polymerase II transcription factor B subunit 3 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=TFB3 PE=3 SV=2

 Score =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 57/116 (49%), Positives = 76/116 (65%), Gaps = 3/116 (2%)

Query: 6   CPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKGTGNCY--ECNQPLRRGNFRVQL 62
           CP CKT KY  P +  ++N  C H +CE CVD +F  G   C   +C + LR+  F+ Q+
Sbjct: 12  CPICKTDKYLSPNMNFLINPECYHKICESCVDRIFSLGPAPCPYPKCGKILRKNKFKKQI 71

Query: 63  FDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILET 118
           FDD  +EKE++IRK++   YNK EEDF+ L +YN YLE +E I+FNL N IDI ET
Sbjct: 72  FDDLGIEKEIDIRKRVSGIYNKTEEDFDDLKDYNKYLESVENIIFNLNNGIDIEET 127

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH as CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|O94684|TFB3_SCHPO RNA polymerase II transcription factor B subunit 3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pmh1 PE=1 SV=1

 Score =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 53/119 (44%), Positives = 81/119 (68%), Gaps = 3/119 (2%)

Query: 3   DQECPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKGTGNCYE--CNQPLRRGNFR 59
           D++CP C+  +Y  P +KL++N  C H +CE CVD +F  G   C    CN+ LR+  FR
Sbjct: 10  DEKCPLCQADRYLNPNMKLLINPECYHKMCESCVDRIFTTGPAQCPTPGCNKILRKAKFR 69

Query: 60  VQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILET 118
            Q F+D+ +E+EV++RK++ + +NK +++F+SL  YNDYLEE+E + FNL   ID+ ET
Sbjct: 70  EQTFEDAQIEREVDVRKRISRIFNKGQQEFDSLQAYNDYLEEVEILTFNLIYKIDVEET 128

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH has CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

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

>sp|Q6FMP4|TFB3_CANGA RNA polymerase II transcription factor B subunit 3 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=TFB3 PE=3 SV=1

 Score =  110 bits (274), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 57/117 (48%), Positives = 77/117 (65%), Gaps = 4/117 (3%)

Query: 6   CPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKGTGNC--YECNQPLRRGNFRVQL 62
           CP CKT +Y  P ++ +VN  C H +CE CVD +F  G   C    C++ LR+  F+ Q+
Sbjct: 23  CPICKTDRYLSPDVRFLVNPECYHKICESCVDRIFSLGPAPCPYKSCDKILRKNKFKTQI 82

Query: 63  FDDSSVEKEVEIRKKLLKDYNKVEEDF-NSLAEYNDYLEEIEEIVFNLCNNIDILET 118
           FDD  VEKEV+IRK++   +NK  EDF N L  YN YLEE+E+IV+ L N ID++ET
Sbjct: 83  FDDVGVEKEVDIRKRVFNVFNKTLEDFDNDLEAYNKYLEEVEDIVYKLDNKIDVVET 139

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH as CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

>sp|Q6CT73|TFB3_KLULA RNA polymerase II transcription factor B subunit 3 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=TFB3 PE=3 SV=1

 Score =  107 bits (266), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 56/117 (47%), Positives = 80/117 (68%), Gaps = 4/117 (3%)

Query: 6   CPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKGTGNC-YE-CNQPLRRGNFRVQL 62
           CP CKT +Y  P +K ++N  C H +CE CVD +F  G   C YE C++ LRR  F+ Q+
Sbjct: 10  CPICKTDRYLSPDMKFLINPECYHKICESCVDRIFSLGPAQCPYEGCDKILRRNKFKTQI 69

Query: 63  FDDSSVEKEVEIRKKLLKDYNKVEEDF-NSLAEYNDYLEEIEEIVFNLCNNIDILET 118
           FDD  VEKEV+IRK++   +NK  EDF N+  +Y+ YLEE+E+I++NL + ID+ +T
Sbjct: 70  FDDVGVEKEVDIRKRVFNVFNKTLEDFDNNQDDYDKYLEEVEDIIYNLDHGIDMEKT 126

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH as CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

>sp|Q03290|TFB3_YEAST RNA polymerase II transcription factor B subunit 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TFB3 PE=1 SV=1

 Score =  106 bits (265), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 56/117 (47%), Positives = 79/117 (67%), Gaps = 4/117 (3%)

Query: 6   CPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKGTGNC-YE-CNQPLRRGNFRVQL 62
           CP CKT +Y  P +K +VN  C H +CE CVD +F  G   C Y+ C++ LR+  F+ Q+
Sbjct: 13  CPICKTDRYLSPDVKFLVNPECYHRICESCVDRIFSLGPAQCPYKGCDKILRKNKFKTQI 72

Query: 63  FDDSSVEKEVEIRKKLLKDYNKVEEDFNS-LAEYNDYLEEIEEIVFNLCNNIDILET 118
           FDD  VEKEV+IRK++   +NK  +DFN  L EYN YLEE+E+I++ L + ID+ +T
Sbjct: 73  FDDVEVEKEVDIRKRVFNVFNKTIDDFNGDLVEYNKYLEEVEDIIYKLDHGIDVAKT 129

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH has CTD kinase and DNA-dependent ATPase activity, and is essential for polymerase II transcription in vitro.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q75D20|TFB3_ASHGO RNA polymerase II transcription factor B subunit 3 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=TFB3 PE=3 SV=1

 Score =  104 bits (260), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 58/123 (47%), Positives = 79/123 (64%), Gaps = 8/123 (6%)

Query: 1   MDDQE----CPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKGTGNC-YE-CNQPL 53
           MDD E    CP CKT +Y  P +K +VN  C H +CE CVD +F  G   C YE C++ L
Sbjct: 1   MDDDEKKDMCPICKTDRYLSPDMKFLVNPECYHKICESCVDRIFSLGPAQCPYEGCDKIL 60

Query: 54  RRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNS-LAEYNDYLEEIEEIVFNLCNN 112
           R+  F+ Q+F D  VE+EV+IRK++   +NK  EDF+   A Y+ YLEE+E+IV+ L N 
Sbjct: 61  RKNKFKTQIFADVDVEREVDIRKRVFNVFNKTIEDFDGDTAAYDQYLEEVEDIVYGLDNG 120

Query: 113 IDI 115
           ID+
Sbjct: 121 IDV 123

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH as CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) (taxid: 284811)

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	120
20151823	320	RH31013p [Drosophila melanogaster]	1.0	0.375	0.791	4e-51
19921990	320	Mat1 [Drosophila melanogaster] gi|328886	1.0	0.375	0.791	4e-51
194884185	320	GG22722 [Drosophila erecta] gi|190659363	1.0	0.375	0.783	7e-51
170030344	312	CDK-activating kinase assembly factor MA	1.0	0.384	0.791	8e-51
195483649	320	GE13079 [Drosophila yakuba] gi|194176475	1.0	0.375	0.783	9e-51
195333217	276	GM20498 [Drosophila sechellia] gi|194125	1.0	0.434	0.783	2e-50
194758008	320	GF11091 [Drosophila ananassae] gi|190622	1.0	0.375	0.783	6e-50
307197843	322	CDK-activating kinase assembly factor MA	1.0	0.372	0.733	1e-49
322798720	323	hypothetical protein SINV_10084 [Solenop	1.0	0.371	0.741	2e-49
195429573	321	GK19660 [Drosophila willistoni] gi|19415	1.0	0.373	0.775	2e-49

>gi|20151823|gb|AAM11271.1| RH31013p [Drosophila melanogaster]

 Score =  204 bits (520), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 95/120 (79%), Positives = 107/120 (89%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLFLKG+G C EC  PLRR NFRV
Sbjct: 1   MDDQACPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFLKGSGACPECMVPLRRNNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D  VEKEV+IR+++L+DYNK EEDF SLAEYNDYLEEIE+IV+NLCNNIDI+ETNK
Sbjct: 61  QLFEDPMVEKEVDIRRRILRDYNKREEDFASLAEYNDYLEEIEDIVYNLCNNIDIIETNK 120

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|19921990|ref|NP_610605.1| Mat1 [Drosophila melanogaster] gi|3288866|gb|AAC25575.1| CDK7/cyclin H assembly factor MAT1 [Drosophila melanogaster] gi|7303708|gb|AAF58758.1| Mat1 [Drosophila melanogaster] gi|94400536|gb|ABF17904.1| FI01030p [Drosophila melanogaster]

 Score =  204 bits (520), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 95/120 (79%), Positives = 107/120 (89%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLFLKG+G C EC  PLRR NFRV
Sbjct: 1   MDDQACPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFLKGSGACPECMVPLRRNNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D  VEKEV+IR+++L+DYNK EEDF SLAEYNDYLEEIE+IV+NLCNNIDI+ETNK
Sbjct: 61  QLFEDPMVEKEVDIRRRILRDYNKREEDFASLAEYNDYLEEIEDIVYNLCNNIDIIETNK 120

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194884185|ref|XP_001976176.1| GG22722 [Drosophila erecta] gi|190659363|gb|EDV56576.1| GG22722 [Drosophila erecta]

 Score =  204 bits (518), Expect = 7e-51,   Method: Compositional matrix adjust.
 Identities = 94/120 (78%), Positives = 107/120 (89%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLFLKG+G C EC  PLRR NFRV
Sbjct: 1   MDDQACPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFLKGSGACPECMVPLRRNNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D  VEKEV+IR+++L+DYNK EEDF SLAEYNDYLEEIE+IV+NLCNNI+I+ETNK
Sbjct: 61  QLFEDPMVEKEVDIRRRILRDYNKREEDFASLAEYNDYLEEIEDIVYNLCNNIEIIETNK 120

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170030344|ref|XP_001843049.1| CDK-activating kinase assembly factor MAT1 [Culex quinquefasciatus] gi|167866941|gb|EDS30324.1| CDK-activating kinase assembly factor MAT1 [Culex quinquefasciatus]

 Score =  204 bits (518), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 95/120 (79%), Positives = 109/120 (90%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CV+LLFLKG+G+C ECN  LRR NFRV
Sbjct: 1   MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVELLFLKGSGSCPECNVALRRSNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+DS+V+KEV+IRK++LKD+NK E+DFNSLAEYNDYLE IEEIVFNLCNNIDI+ TNK
Sbjct: 61  QLFEDSNVDKEVQIRKRILKDFNKKEDDFNSLAEYNDYLEMIEEIVFNLCNNIDIINTNK 120

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195483649|ref|XP_002090374.1| GE13079 [Drosophila yakuba] gi|194176475|gb|EDW90086.1| GE13079 [Drosophila yakuba]

 Score =  203 bits (517), Expect = 9e-51,   Method: Compositional matrix adjust.
 Identities = 94/120 (78%), Positives = 107/120 (89%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLFLKG+G C EC  PLRR NFRV
Sbjct: 1   MDDQACPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFLKGSGACPECMVPLRRNNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D  VEKEV+IR+++L+DYNK EEDF SLAEYNDYLEEIE+IV+NLCNNI+I+ETNK
Sbjct: 61  QLFEDPMVEKEVDIRRRILRDYNKREEDFASLAEYNDYLEEIEDIVYNLCNNIEIIETNK 120

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195333217|ref|XP_002033288.1| GM20498 [Drosophila sechellia] gi|194125258|gb|EDW47301.1| GM20498 [Drosophila sechellia]

 Score =  202 bits (515), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 94/120 (78%), Positives = 107/120 (89%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLFLKG+G C EC  PLRR NFRV
Sbjct: 1   MDDQACPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFLKGSGACPECMVPLRRNNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D  VEKEV+IR+++L+DYNK EEDF SLAEYNDYLEEIE+IV+NLCNNI+I+ETNK
Sbjct: 61  QLFEDPMVEKEVDIRRRILRDYNKREEDFASLAEYNDYLEEIEDIVYNLCNNIEIIETNK 120

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194758008|ref|XP_001961254.1| GF11091 [Drosophila ananassae] gi|190622552|gb|EDV38076.1| GF11091 [Drosophila ananassae]

 Score =  201 bits (510), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 94/120 (78%), Positives = 104/120 (86%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLFLKG+G C EC  PLRR NFRV
Sbjct: 1   MDDQACPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFLKGSGACPECMVPLRRNNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D  VEKEV+IR+++L+DYNK EEDF SL EYNDYLEEIE IVFNLCNNI+I ETNK
Sbjct: 61  QLFEDPMVEKEVDIRRRILRDYNKREEDFGSLEEYNDYLEEIENIVFNLCNNIEIFETNK 120

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307197843|gb|EFN78954.1| CDK-activating kinase assembly factor MAT1 [Harpegnathos saltator]

 Score =  199 bits (507), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 88/120 (73%), Positives = 104/120 (86%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LK+MVN+CGH LCE CVDLLFLKG+G+C EC  PLRR NFR+
Sbjct: 1   MDDQACPRCKTTKYRNPSLKMMVNVCGHALCESCVDLLFLKGSGSCPECKIPLRRANFRI 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           Q+F+D  VEKEV IRK++L+DYNK EEDF +L EYNDYLEEIE I++NL NNID++ETNK
Sbjct: 61  QMFEDPMVEKEVNIRKRILRDYNKREEDFATLREYNDYLEEIEHIIYNLANNIDVVETNK 120

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322798720|gb|EFZ20318.1| hypothetical protein SINV_10084 [Solenopsis invicta]

 Score =  199 bits (506), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 89/120 (74%), Positives = 106/120 (88%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LK+MVN+CGH LCE CVDLLFLKG+G+C EC  PLRR NFRV
Sbjct: 1   MDDQACPRCKTTKYRNPSLKMMVNVCGHTLCESCVDLLFLKGSGSCPECKIPLRRTNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           Q+F+DS VEKEV IRK++L+D+NK EEDF++L EYNDYLEEIE I++NL NNID++ETNK
Sbjct: 61  QMFEDSMVEKEVNIRKRILRDFNKKEEDFSTLREYNDYLEEIETIIYNLANNIDVVETNK 120

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195429573|ref|XP_002062832.1| GK19660 [Drosophila willistoni] gi|194158917|gb|EDW73818.1| GK19660 [Drosophila willistoni]

 Score =  199 bits (505), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 93/120 (77%), Positives = 105/120 (87%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLFLKG+G C EC  PLRR NFRV
Sbjct: 1   MDDQACPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFLKGSGACPECMVPLRRNNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D  VEKEV+IR+++L+DYNK EEDF SL EYNDYLEEIE IV+NLCNNI+I+ETNK
Sbjct: 61  QLFEDPMVEKEVDIRRRILRDYNKREEDFASLDEYNDYLEEIENIVYNLCNNIEIIETNK 120

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	120
FB|FBgn0024956	320	Mat1 "Mat1" [Drosophila melano	1.0	0.375	0.791	8.3e-51
UNIPROTKB|E2QVF4	309	MNAT1 "Uncharacterized protein	1.0	0.388	0.741	2e-47
MGI|MGI:106207	309	Mnat1 "menage a trois 1" [Mus	1.0	0.388	0.741	2e-47
RGD|628874	309	Mnat1 "menage a trois homolog	1.0	0.388	0.741	2e-47
UNIPROTKB|E1BVP0	309	MNAT1 "Uncharacterized protein	1.0	0.388	0.725	2.6e-47
UNIPROTKB|Q3SX39	309	MNAT1 "MNAT1 protein" [Bos tau	1.0	0.388	0.741	2.6e-47
UNIPROTKB|G3V1U8	267	MNAT1 "CDK-activating kinase a	1.0	0.449	0.741	2.6e-47
UNIPROTKB|P51948	309	MNAT1 "CDK-activating kinase a	1.0	0.388	0.741	2.6e-47
ZFIN|ZDB-GENE-041010-203	309	mnat1 "menage a trois homolog	1.0	0.388	0.691	1.6e-45
UNIPROTKB|E1C2D2	209	MNAT1 "Uncharacterized protein	0.825	0.473	0.707	8e-37

FB|FBgn0024956 Mat1 "Mat1" [Drosophila melanogaster (taxid:7227)]

 Score = 528 (190.9 bits), Expect = 8.3e-51, P = 8.3e-51
 Identities = 95/120 (79%), Positives = 107/120 (89%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLFLKG+G C EC  PLRR NFRV
Sbjct:     1 MDDQACPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFLKGSGACPECMVPLRRNNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLF+D  VEKEV+IR+++L+DYNK EEDF SLAEYNDYLEEIE+IV+NLCNNIDI+ETNK
Sbjct:    61 QLFEDPMVEKEVDIRRRILRDYNKREEDFASLAEYNDYLEEIEDIVYNLCNNIDIIETNK 120

GO:0005675 "holo TFIIH complex" evidence=ISS;IDA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISS

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IDA

GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=IDA

GO:0032806 "carboxy-terminal domain protein kinase complex" evidence=IDA

GO:0007049 "cell cycle" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2QVF4 MNAT1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 496 (179.7 bits), Expect = 2.0e-47, P = 2.0e-47
 Identities = 89/120 (74%), Positives = 102/120 (85%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct:     1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFMRGAGNCPECGTPLRKSNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLF+D +V+KEVEIRKK+LK YNK EEDF SL EYND+LEE+EEIVFNL NN+D+  T K
Sbjct:    61 QLFEDPTVDKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKK 120

GO:0051592 "response to calcium ion" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

MGI|MGI:106207 Mnat1 "menage a trois 1" [Mus musculus (taxid:10090)]

 Score = 496 (179.7 bits), Expect = 2.0e-47, P = 2.0e-47
 Identities = 89/120 (74%), Positives = 102/120 (85%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct:     1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLF+D +V+KEVEIRKK+LK YNK EEDF SL EYND+LEE+EEIVFNL NN+D+  T K
Sbjct:    61 QLFEDPTVDKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLENTKK 120

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IMP

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISO

GO:0006468 "protein phosphorylation" evidence=ISO

GO:0006915 "apoptotic process" evidence=IMP

GO:0007049 "cell cycle" evidence=IEA

GO:0007512 "adult heart development" evidence=IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0021591 "ventricular system development" evidence=IMP

GO:0043066 "negative regulation of apoptotic process" evidence=ISO

GO:0044236 "multicellular organismal metabolic process" evidence=IMP

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=ISO

GO:0048661 "positive regulation of smooth muscle cell proliferation" evidence=ISO

GO:0050790 "regulation of catalytic activity" evidence=IMP

GO:0051592 "response to calcium ion" evidence=IMP

RGD|628874 Mnat1 "menage a trois homolog 1, cyclin H assembly factor (Xenopus laevis)" [Rattus norvegicus (taxid:10116)]

 Score = 496 (179.7 bits), Expect = 2.0e-47, P = 2.0e-47
 Identities = 89/120 (74%), Positives = 102/120 (85%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct:     1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLF+D +V+KEVEIRKK+LK YNK EEDF SL EYND+LEE+EEIVFNL NN+D+  T K
Sbjct:    61 QLFEDPTVDKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLENTKK 120

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=IMP

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=ISO

GO:0005675 "holo TFIIH complex" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISO

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA;ISO

GO:0006468 "protein phosphorylation" evidence=ISO

GO:0006915 "apoptotic process" evidence=IEA;ISO

GO:0007512 "adult heart development" evidence=IEA;ISO

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA;ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA;ISO

GO:0021591 "ventricular system development" evidence=IEA;ISO

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

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

GO:0044236 "multicellular organismal metabolic process" evidence=IEA;ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA;ISO

GO:0047485 "protein N-terminus binding" evidence=IEA;ISO

GO:0048661 "positive regulation of smooth muscle cell proliferation" evidence=IMP

GO:0050790 "regulation of catalytic activity" evidence=IEA;ISO

GO:0051592 "response to calcium ion" evidence=IEA;ISO

GO:0004672 "protein kinase activity" evidence=ISO

UNIPROTKB|E1BVP0 MNAT1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 87/120 (72%), Positives = 105/120 (87%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MD+Q CPRCKTTKYR P+LKLMVN+CGH LCE CV+LLF++G GNC+EC+ PLR+ NFRV
Sbjct:     1 MDEQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVELLFVRGAGNCHECDTPLRKSNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLFDD +V+KEVEIRKK+LK YNK E+DF SL+EYND+LEEIEEIVFNL NN+D+  T +
Sbjct:    61 QLFDDPAVDKEVEIRKKVLKIYNKREDDFPSLSEYNDFLEEIEEIVFNLTNNVDLENTKR 120

GO:0007049 "cell cycle" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0051592 "response to calcium ion" evidence=IEA

UNIPROTKB|Q3SX39 MNAT1 "MNAT1 protein" [Bos taurus (taxid:9913)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 89/120 (74%), Positives = 102/120 (85%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct:     1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLF+D +V+KEVEIRKK+LK YNK EEDF SL EYND+LEE+EEIVFNL NN+D+  T K
Sbjct:    61 QLFEDPTVDKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKK 120

GO:0051592 "response to calcium ion" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

UNIPROTKB|G3V1U8 MNAT1 "CDK-activating kinase assembly factor MAT1" [Homo sapiens (taxid:9606)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 89/120 (74%), Positives = 102/120 (85%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct:     1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLF+D +V+KEVEIRKK+LK YNK EEDF SL EYND+LEE+EEIVFNL NN+D+  T K
Sbjct:    61 QLFEDPTVDKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKK 120

GO:0005634 "nucleus" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|P51948 MNAT1 "CDK-activating kinase assembly factor MAT1" [Homo sapiens (taxid:9606)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 89/120 (74%), Positives = 102/120 (85%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct:     1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLF+D +V+KEVEIRKK+LK YNK EEDF SL EYND+LEE+EEIVFNL NN+D+  T K
Sbjct:    61 QLFEDPTVDKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKK 120

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

GO:0048661 "positive regulation of smooth muscle cell proliferation" evidence=IEA

GO:0051592 "response to calcium ion" evidence=IEA

GO:0004672 "protein kinase activity" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0047485 "protein N-terminus binding" evidence=IPI

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IDA;IMP

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IDA;TAS

GO:0005675 "holo TFIIH complex" evidence=IDA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IDA

GO:0008094 "DNA-dependent ATPase activity" evidence=IDA

GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=TAS

GO:0006461 "protein complex assembly" evidence=TAS

GO:0008283 "cell proliferation" evidence=TAS

GO:0000080 "G1 phase of mitotic cell cycle" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000086 "G2/M transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0000718 "nucleotide-excision repair, DNA damage removal" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0006283 "transcription-coupled nucleotide-excision repair" evidence=TAS

GO:0006289 "nucleotide-excision repair" evidence=TAS

GO:0006360 "transcription from RNA polymerase I promoter" evidence=TAS

GO:0006361 "transcription initiation from RNA polymerase I promoter" evidence=TAS

GO:0006362 "transcription elongation from RNA polymerase I promoter" evidence=TAS

GO:0006363 "termination of RNA polymerase I transcription" evidence=TAS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=TAS

GO:0006368 "transcription elongation from RNA polymerase II promoter" evidence=TAS

GO:0006370 "7-methylguanosine mRNA capping" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0050434 "positive regulation of viral transcription" evidence=TAS

GO:0006468 "protein phosphorylation" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

ZFIN|ZDB-GENE-041010-203 mnat1 "menage a trois homolog 1" [Danio rerio (taxid:7955)]

 Score = 478 (173.3 bits), Expect = 1.6e-45, P = 1.6e-45
 Identities = 83/120 (69%), Positives = 103/120 (85%)

Query:     1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
             MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVD+LF++G+GNC +C+ PLR+ NFRV
Sbjct:     1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDMLFVRGSGNCVQCDTPLRKSNFRV 60

Query:    61 QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             QLF+D ++ KEVEIRKK+LK YNK E DF+SL EYNDYLE++E+IVFNL NN+D+  T +
Sbjct:    61 QLFEDPAIGKEVEIRKKVLKIYNKREFDFSSLTEYNDYLEQVEDIVFNLANNMDVEMTKQ 120

GO:0007049 "cell cycle" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|E1C2D2 MNAT1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 396 (144.5 bits), Expect = 8.0e-37, P = 8.0e-37
 Identities = 70/99 (70%), Positives = 86/99 (86%)

Query:    22 MVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKD 81
             MVN+CGH LCE CV+LLF++G GNC+EC+ PLR+ NFRVQLFDD +V+KEVEIRKK+LK 
Sbjct:     1 MVNVCGHTLCESCVELLFVRGAGNCHECDTPLRKSNFRVQLFDDPAVDKEVEIRKKVLKI 60

Query:    82 YNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
             YNK E+DF SL+EYND+LEEIEEIVFNL NN+D+  T +
Sbjct:    61 YNKREDDFPSLSEYNDFLEEIEEIVFNLTNNVDLENTKR 99

GO:0007049 "cell cycle" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0051592 "response to calcium ion" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P51949	MAT1_MOUSE	No assigned EC number	0.7416	1.0	0.3883	yes	N/A
P51948	MAT1_HUMAN	No assigned EC number	0.7416	1.0	0.3883	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	120
TIGR00570	309	TIGR00570, cdk7, CDK-activating kinase assembly fa	5e-69
COG5220	314	COG5220, TFB3, Cdk activating kinase (CAK)/RNA pol	2e-32
pfam06391	200	pfam06391, MAT1, CDK-activating kinase assembly fa	3e-29

>gnl|CDD|129661 TIGR00570, cdk7, CDK-activating kinase assembly factor MAT1

 Score =  209 bits (533), Expect = 5e-69
 Identities = 87/120 (72%), Positives = 104/120 (86%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
           MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G+G+C EC+ PLR+ NFRV
Sbjct: 1   MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRV 60

Query: 61  QLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK 120
           QLF+D +VEKEV+IRK++LK YNK EEDF SL EYNDYLEE+E+IV+NL NNID+  T K
Sbjct: 61  QLFEDPTVEKEVDIRKRVLKIYNKREEDFPSLREYNDYLEEVEDIVYNLTNNIDLENTKK 120

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) [DNA metabolism, DNA replication, recombination, and repair]. Length = 309

>gnl|CDD|227545 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]

 Score =  115 bits (289), Expect = 2e-32
 Identities = 58/122 (47%), Positives = 83/122 (68%), Gaps = 4/122 (3%)

Query: 1   MDDQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNC--YECNQPLRRGN 57
           M+D+ CP CK+ +Y  P +K+++N  C H +CE CVD +F +G   C    C + LR+  
Sbjct: 8   MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIK 67

Query: 58  FRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFN-SLAEYNDYLEEIEEIVFNLCNNIDIL 116
           F  Q F+D +VEKEV++RK+LL+ +NK EE+F   LA+YNDYLEE+EE+VF L   ID+ 
Sbjct: 68  FIKQTFEDITVEKEVDVRKRLLRAFNKEEEEFGGDLAKYNDYLEEVEELVFELLELIDVS 127

Query: 117 ET 118
            T
Sbjct: 128 LT 129

Length = 314

>gnl|CDD|115072 pfam06391, MAT1, CDK-activating kinase assembly factor MAT1

 Score =  104 bits (260), Expect = 3e-29
 Identities = 45/68 (66%), Positives = 57/68 (83%)

Query: 53  LRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNN 112
           LR+ NFRVQ+F+D ++EKEV+IRK++LK +NK EEDF SL EYNDYLEE+E IVFNL N 
Sbjct: 1   LRKNNFRVQIFEDPTIEKEVDIRKRILKIFNKREEDFPSLREYNDYLEEVETIVFNLTNG 60

Query: 113 IDILETNK 120
           ID+ ET +
Sbjct: 61  IDVEETEE 68

MAT1 is an assembly/targeting factor for cyclin-dependent kinase-activating kinase (CAK), which interacts with the transcription factor TFIIH. The domain found to the N-terminal side of this domain is a C3HC4 RING finger. Length = 200

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	120
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	100.0
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	100.0
KOG3800|consensus	300		100.0
PF06391	200	MAT1: CDK-activating kinase assembly factor MAT1;	99.89
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.36
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.25
KOG0320|consensus	187		99.24
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.22
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.21
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.16
PF14634	44	zf-RING_5: zinc-RING finger domain	99.15
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.07
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.07
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.0
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.94
KOG2164|consensus	513		98.94
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.88
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.88
KOG0287|consensus	442		98.88
PHA02929	238	N1R/p28-like protein; Provisional	98.87
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.83
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.83
KOG0978|consensus	698		98.82
KOG0823|consensus	230		98.74
KOG0317|consensus	293		98.72
KOG2177|consensus	386		98.7
PHA02926	242	zinc finger-like protein; Provisional	98.63
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.62
KOG0297|consensus	391		98.58
KOG0311|consensus	381		98.53
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.44
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.3
KOG2879|consensus	298		98.22
COG5152	259	Uncharacterized conserved protein, contains RING a	98.22
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.18
KOG3039|consensus	303		98.15
KOG4159|consensus	398		98.14
COG5222	427	Uncharacterized conserved protein, contains RING Z	98.08
KOG4739|consensus	233		98.02
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.01
KOG2660|consensus	331		98.01
PF04641	260	Rtf2: Rtf2 RING-finger	98.0
KOG1813|consensus	313		97.94
KOG4628|consensus	348		97.79
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.79
KOG4172|consensus	62		97.7
KOG0802|consensus	543		97.59
KOG0824|consensus	324		97.58
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	97.48
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	97.45
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.45
KOG1002|consensus	791		97.41
COG5236	493	Uncharacterized conserved protein, contains RING Z	97.33
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	97.26
KOG1039|consensus	344		97.1
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.03
KOG0827|consensus	465		96.91
KOG1001|consensus	674		96.87
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	96.72
KOG1645|consensus	463		96.7
KOG0804|consensus	493		96.69
KOG4692|consensus	489		96.68
KOG4367|consensus	699		96.64
KOG1814|consensus	445		96.55
KOG4185|consensus	296		96.55
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	96.55
KOG1785|consensus	563		96.39
KOG0825|consensus	1134		96.34
KOG4265|consensus	349		96.19
KOG0828|consensus	636		96.16
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	95.86
KOG1812|consensus	384		95.68
KOG3002|consensus	299		95.54
KOG1734|consensus	328		95.22
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	95.11
PRK00420	112	hypothetical protein; Validated	94.95
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	94.74
COG5219	1525	Uncharacterized conserved protein, contains RING Z	94.46
KOG2817|consensus	394		94.43
KOG1941|consensus	518		94.18
PLN02436	1094	cellulose synthase A	94.13
PLN02189	1040	cellulose synthase	94.09
KOG0826|consensus	357		93.94
KOG3113|consensus	293		93.92
PLN02638	1079	cellulose synthase A (UDP-forming), catalytic subu	93.88
PLN02915	1044	cellulose synthase A [UDP-forming], catalytic subu	93.44
KOG1493|consensus	84		93.25
PLN02195	977	cellulose synthase A	93.16
KOG4362|consensus	684		93.06
PLN02400	1085	cellulose synthase	92.02
KOG1940|consensus	276		91.97
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	91.9
KOG1571|consensus	355		91.62
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	91.6
KOG3799|consensus	169		90.91
PHA03096	284	p28-like protein; Provisional	90.86
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	90.52
PF10235	90	Cript: Microtubule-associated protein CRIPT; Inter	90.23
KOG2114|consensus	933		90.23
KOG3161|consensus	861		89.86
KOG1428|consensus	3738		89.77
KOG4275|consensus	350		89.47
PRK14559	645	putative protein serine/threonine phosphatase; Pro	88.44
KOG0298|consensus	1394		87.29
KOG2113|consensus	394		87.1
KOG2068|consensus	327		86.84
PF12773	50	DZR: Double zinc ribbon	86.84
KOG0006|consensus	446		86.4
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	86.34
COG3813	84	Uncharacterized protein conserved in bacteria [Fun	85.61
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	85.38
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	85.09
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	83.87
KOG3039|consensus	303		83.73
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	83.41
KOG2930|consensus	114		82.65
PF09723	42	Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR0134	82.05
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	81.62
COG5109	396	Uncharacterized conserved protein, contains RING Z	81.06
KOG1815|consensus	444		80.78
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	80.42
smart00834	41	CxxC_CXXC_SSSS Putative regulatory protein. CxxC_C	80.23

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=100.00  E-value=8.8e-45  Score=282.17  Aligned_cols=120  Identities=73%  Similarity=1.286  Sum_probs=117.0

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHHHHHHhhh
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLK   80 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~~k   80 (120)
                      ||+++||+|+++.|.+|.+++++++|||+||.+|++.+|..++.+||+|+.++++.+|++++|+|..+++|++|||||++
T Consensus         1 md~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q~F~D~~vekEV~iRkrv~~   80 (309)
T TIGR00570         1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQLFEDPTVEKEVDIRKRVLK   80 (309)
T ss_pred             CCCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhccccccccHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999998888999999999999999999999999999999999999


Q ss_pred             hhhcccCCccCHHHHHHHHHHHHHHHHHHhcccchhhhcC
Q psy17995         81 DYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK  120 (120)
Q Consensus        81 ~~~~~~~~~~~l~~y~~yle~~E~~i~~L~~~~d~~~~~~  120 (120)
                      |||++++||.||++||||||+||+|||||++|+|+++|++
T Consensus        81 i~Nk~e~dF~~l~~yNdYLE~vEdii~nL~~~~d~~~te~  120 (309)
T TIGR00570        81 IYNKREEDFPSLREYNDYLEEVEDIVYNLTNNIDLENTKK  120 (309)
T ss_pred             HHccchhccCCHHHHHHHHHHHHHHHHHhhcCCcHHHHHH
Confidence            9999999999999999999999999999999999999874

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).

>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=100.00  E-value=2.2e-37  Score=232.89  Aligned_cols=119  Identities=49%  Similarity=0.953  Sum_probs=114.9

Q ss_pred             CCCccCcccCCCcccCCCCcccccc-cCCccchhHHHHHhhcCCCCCC--CCCccccCCCCccccccchhHHHHHHHHHH
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKGTGNCY--ECNQPLRRGNFRVQLFDDSSVEKEVEIRKK   77 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~-CGH~fC~~Ci~~~~~~~~~~CP--~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~   77 (120)
                      |.+-+||+|+++.|+||+++++++| |.|++|.+|++++|+.|+.+||  .|++.+++..|+.++|+|..+++|+++||+
T Consensus         8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf~~qtFeD~~vEkEvdvRkr   87 (314)
T COG5220           8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKFIKQTFEDITVEKEVDVRKR   87 (314)
T ss_pred             hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcccccccchhhhhhhhhHHHH
Confidence            4566999999999999999999995 9999999999999999999999  999999999999999999999999999999


Q ss_pred             hhhhhhcccCCc-cCHHHHHHHHHHHHHHHHHHhcccchhhhc
Q psy17995         78 LLKDYNKVEEDF-NSLAEYNDYLEEIEEIVFNLCNNIDILETN  119 (120)
Q Consensus        78 ~~k~~~~~~~~~-~~l~~y~~yle~~E~~i~~L~~~~d~~~~~  119 (120)
                      ++.+||+...+| |+|.+||+|||+||+|+|+|++++|++.|+
T Consensus        88 ~~r~Fnk~~~eF~gdl~~YNdYLEevE~l~f~l~~~idv~~te  130 (314)
T COG5220          88 LLRAFNKEEEEFGGDLAKYNDYLEEVEELVFELLELIDVSLTE  130 (314)
T ss_pred             HHHHhccchhhhCccHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            999999999999 799999999999999999999999999986

>KOG3800|consensus

Probab=100.00  E-value=1.7e-36  Score=232.35  Aligned_cols=116  Identities=61%  Similarity=1.106  Sum_probs=113.4

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHHHHHHhhhhhhc
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNK   84 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~~k~~~~   84 (120)
                      .||+|+++.|+||++++++++|||++|.+|++++|..|+..||+|...+++.+|+.++|+|+.+++|+++||+++++||+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q~fED~~vekEv~iRrri~~~~nk   81 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQTFEDPTVEKEVDIRRRILRIFNK   81 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchhhcchhHHHHHHHHHHHHHHHhcc
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCc-cCHHHHHHHHHHHHHHHHHHhcccchhhhcC
Q psy17995         85 VEEDF-NSLAEYNDYLEEIEEIVFNLCNNIDILETNK  120 (120)
Q Consensus        85 ~~~~~-~~l~~y~~yle~~E~~i~~L~~~~d~~~~~~  120 (120)
                      .+++| ++|.+||||||++||++|||++++|+.+|++
T Consensus        82 ~~eeF~~~LaeyndylEe~Ediv~nl~~~~dv~~t~~  118 (300)
T KOG3800|consen   82 KEEEFTGSLAEYNDYLEEVEDIVFNLGNNIDVTETKE  118 (300)
T ss_pred             chhhhhhhHHHHhcccHHHHHHHHHhhcccchhHHHH
Confidence            99999 6999999999999999999999999999874

>PF06391 MAT1: CDK-activating kinase assembly factor MAT1; InterPro: IPR015877 MAT1 (menage a trois 1) is a RING finger protein with a characteristic C3HC4 motif located in the N-terminal domain

Probab=99.89  E-value=1.6e-24  Score=160.48  Aligned_cols=68  Identities=65%  Similarity=1.012  Sum_probs=4.5

Q ss_pred             ccCCCCccccccchhHHHHHHHHHHhhhhhhcccCCccCHHHHHHHHHHHHHHHHHHhcccchhhhcC
Q psy17995         53 LRRGNFRVQLFDDSSVEKEVEIRKKLLKDYNKVEEDFNSLAEYNDYLEEIEEIVFNLCNNIDILETNK  120 (120)
Q Consensus        53 ~~~~~~~~~~f~d~~~~~e~~~rk~~~k~~~~~~~~~~~l~~y~~yle~~E~~i~~L~~~~d~~~~~~  120 (120)
                      |++++|+.++|+|+.|+||++|||||+++||++++||+||++||||||+||+|||||++|+|+++|++
T Consensus         1 LRK~~Fr~Q~FeD~~VekEv~iRkrV~~ifNk~eeDF~~l~~YNdYLE~vE~iifnL~~~idv~~te~   68 (200)
T PF06391_consen    1 LRKNNFRTQTFEDLGVEKEVDIRKRVLKIFNKREEDFESLREYNDYLEEVEDIIFNLVNGIDVEETEA   68 (200)
T ss_dssp             -SS---EEE-----------------------------------------------------------
T ss_pred             CccccchhhcccchhHHHHHHHHHHHHHHHccChhhcCCHHHHHHHHHHHHHHHHHHhcCCCHHHHHH
Confidence            57889999999999999999999999999999999999999999999999999999999999999974

This entry represents the central region of MAT1. MAT1 stabilises the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex which then goes on to activate many of the CDK enzymes intimately involved in the cell cycle []. CDK7 forms a stable complex with cyclin H and MAT1 in vivo only when phosphorylated on either one of two residues (Ser164 or Thr170) in its T-loop. The requirement for MAT1 for the activation of CAK can be by-passed by the phosphorylation of CDK7 on the T-loop. The two mechanisms for CDK7 complex stabilisation and activation (MAT1 addition and T-loop phosphorylation), which can operate independently in vitro, actually cooperate under physiological conditions to maintain complex integrity. With prolonged exposure to elevated temperature, dissociation to monomeric subunits occurs in vivo when CDK7 is dephosphorylated, even in the presence of MAT1 []. The Cyclin H-MAT1-CDK7 complex also forms part of TFIIH, a multiprotein complex required for both transcription and DNA repair.; GO: 0007049 cell cycle, 0005634 nucleus; PDB: 1G25_A.

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

Probab=99.36  E-value=3.4e-13  Score=77.04  Aligned_cols=39  Identities=33%  Similarity=0.967  Sum_probs=29.7

Q ss_pred             CcccCCCcccCCCCcccccccCCccchhHHHHHhhcCC---CCCCCC
Q psy17995          6 CPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGT---GNCYEC   49 (120)
Q Consensus         6 CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~---~~CP~C   49 (120)
                      ||||+ +++.+|    +..+|||+||.+||.++|....   ..||+|
T Consensus         1 CpiC~-~~~~~P----v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICL-DLFKDP----VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTT-SB-SSE----EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccc-hhhCCc----cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999 599999    3459999999999999998642   479987

>smart00504 Ubox Modified RING finger domain

Probab=99.25  E-value=6.1e-12  Score=76.49  Aligned_cols=51  Identities=18%  Similarity=0.316  Sum_probs=43.3

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      ++.||||++ ++.+|    ++++|||+||..||..++.. ...||.|+.++...++.
T Consensus         1 ~~~Cpi~~~-~~~~P----v~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~   51 (63)
T smart00504        1 EFLCPISLE-VMKDP----VILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLI   51 (63)
T ss_pred             CcCCcCCCC-cCCCC----EECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhce
Confidence            468999995 88999    56799999999999999987 47899999998765543

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

>KOG0320|consensus

Probab=99.24  E-value=3.1e-12  Score=93.00  Aligned_cols=52  Identities=21%  Similarity=0.628  Sum_probs=40.1

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNF   58 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~   58 (120)
                      -|.||||+.+ +..-  ..+.+.|||+||..||+.++..+ .+||+|++.+..+.|
T Consensus       131 ~~~CPiCl~~-~sek--~~vsTkCGHvFC~~Cik~alk~~-~~CP~C~kkIt~k~~  182 (187)
T KOG0320|consen  131 TYKCPICLDS-VSEK--VPVSTKCGHVFCSQCIKDALKNT-NKCPTCRKKITHKQF  182 (187)
T ss_pred             ccCCCceecc-hhhc--cccccccchhHHHHHHHHHHHhC-CCCCCcccccchhhh
Confidence            4799999964 3322  11347999999999999999864 799999998876654

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.22  E-value=1.4e-11  Score=99.57  Aligned_cols=75  Identities=21%  Similarity=0.455  Sum_probs=62.5

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHHHHHHhhhhh
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDY   82 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~~k~~   82 (120)
                      .+.|+||++ ++.+|    ++++|||.||..||..++... ..||+|+..+....++.+++-+..++.=...|..++...
T Consensus        26 ~l~C~IC~d-~~~~P----vitpCgH~FCs~CI~~~l~~~-~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~~~~R~~Lle~~   99 (397)
T TIGR00599        26 SLRCHICKD-FFDVP----VLTSCSHTFCSLCIRRCLSNQ-PKCPLCRAEDQESKLRSNWLVSEIVESFKNLRPSLLEFL   99 (397)
T ss_pred             ccCCCcCch-hhhCc----cCCCCCCchhHHHHHHHHhCC-CCCCCCCCccccccCccchHHHHHHHHHHHhhHHHHHHh
Confidence            579999995 88999    467999999999999988764 589999999988788888887888887777777777664


Q ss_pred             h
Q psy17995         83 N   83 (120)
Q Consensus        83 ~   83 (120)
                      .
T Consensus       100 ~  100 (397)
T TIGR00599       100 R  100 (397)
T ss_pred             c
Confidence            3

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

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.21  E-value=8.8e-12  Score=92.00  Aligned_cols=54  Identities=24%  Similarity=0.624  Sum_probs=42.9

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc---------------CCCCCCCCCccccCCCCcc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK---------------GTGNCYECNQPLRRGNFRV   60 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~---------------~~~~CP~C~~~~~~~~~~~   60 (120)
                      +++.||||++ .+.+|    ++++|||.||..||..++..               +...||+|+..+...++.+
T Consensus        17 ~~~~CpICld-~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvP   85 (193)
T PLN03208         17 GDFDCNICLD-QVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVP   85 (193)
T ss_pred             CccCCccCCC-cCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEE
Confidence            3579999995 78888    56899999999999986531               2368999999997665543

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

Probab=99.16  E-value=1.3e-11  Score=69.04  Aligned_cols=39  Identities=36%  Similarity=1.012  Sum_probs=31.6

Q ss_pred             CcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCC
Q psy17995          6 CPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYEC   49 (120)
Q Consensus         6 CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C   49 (120)
                      ||||++ .+.+|   +++++|||.||.+|+.++++. ...||.|
T Consensus         1 C~iC~~-~~~~~---~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLD-ELRDP---VVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTS-B-SSE---EEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCC-cccCc---CEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            899995 77777   235799999999999999988 5899987

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.15  E-value=3.1e-11  Score=69.29  Aligned_cols=44  Identities=30%  Similarity=0.681  Sum_probs=35.5

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCc
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQ   51 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~   51 (120)
                      .|++|.+ .| ++..+.++++|||.||..|+..+. .....||+|++
T Consensus         1 ~C~~C~~-~~-~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFE-KY-SEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCc-cc-cCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            4999996 55 445556788999999999999987 44578999985

>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=99.07  E-value=7e-11  Score=66.37  Aligned_cols=40  Identities=30%  Similarity=0.903  Sum_probs=33.6

Q ss_pred             CcccCCCcccCCCCcccccccCCccchhHHHHHhh-cCCCCCCCC
Q psy17995          6 CPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFL-KGTGNCYEC   49 (120)
Q Consensus         6 CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~-~~~~~CP~C   49 (120)
                      ||||.+ .+.+|.   .+++|||+||..|+..+++ .+...||.|
T Consensus         1 C~iC~~-~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLE-PFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSS-BCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCc-cccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899995 778772   2569999999999999999 556889987

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 ....

>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=99.07  E-value=7.1e-11  Score=69.35  Aligned_cols=47  Identities=36%  Similarity=0.853  Sum_probs=36.0

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ++..|+||++ ...++    ++.+|||. ||..|+.+++. ....||+|++++.
T Consensus         1 ~~~~C~iC~~-~~~~~----~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFE-NPRDV----VLLPCGHLCFCEECAERLLK-RKKKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSS-SBSSE----EEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-S
T ss_pred             CcCCCccCCc-cCCce----EEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhc
Confidence            3578999996 44443    45699999 99999999988 4589999999875

...

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

Probab=99.00  E-value=4.2e-10  Score=62.85  Aligned_cols=44  Identities=36%  Similarity=1.019  Sum_probs=34.7

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcc
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQP   52 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~   52 (120)
                      .|+||++ .+.++   +.+.+|||.||..|+..++..+...||.|+..
T Consensus         1 ~C~iC~~-~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLE-EFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP   44 (45)
T ss_pred             CCCcCch-hhhCc---eEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence            4999996 44444   23457999999999999888766889999875

>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=98.94  E-value=2.5e-10  Score=65.24  Aligned_cols=43  Identities=26%  Similarity=0.695  Sum_probs=32.3

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCC
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECN   50 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~   50 (120)
                      .||||++ .+.+. ..++..+|||.||.+||..+++.. ..||+||
T Consensus         2 ~C~IC~~-~~~~~-~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLE-EFEDG-EKVVKLPCGHVFHRSCIKEWLKRN-NSCPVCR   44 (44)
T ss_dssp             CETTTTC-BHHTT-SCEEEETTSEEEEHHHHHHHHHHS-SB-TTTH
T ss_pred             CCcCCCh-hhcCC-CeEEEccCCCeeCHHHHHHHHHhC-CcCCccC
Confidence            6999996 44432 223456899999999999988874 6999996

...

>KOG2164|consensus

Probab=98.94  E-value=1.3e-09  Score=89.73  Aligned_cols=101  Identities=20%  Similarity=0.403  Sum_probs=70.0

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC----CCCCCCCCccccCCCCccccccchhHHHHHHHHHHh
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG----TGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKL   78 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~----~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~   78 (120)
                      ++.||||++ ...-|    +.+.|||.||-.||-.+|..+    ...||.|+..+..+++.+...++.....++..    
T Consensus       186 ~~~CPICL~-~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qkke~l~~----  256 (513)
T KOG2164|consen  186 DMQCPICLE-PPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQKKEELKL----  256 (513)
T ss_pred             CCcCCcccC-CCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccccHHHHH----
Confidence            578999996 33333    245799999999999999864    46899999999999998888888755555432    


Q ss_pred             hhhhh---cccCCc-cCH-HHHHHHHHHHHHHHHHHhcc
Q psy17995         79 LKDYN---KVEEDF-NSL-AEYNDYLEEIEEIVFNLCNN  112 (120)
Q Consensus        79 ~k~~~---~~~~~~-~~l-~~y~~yle~~E~~i~~L~~~  112 (120)
                      ...-|   .-.--| +.. +.+.+++.++...++-++.+
T Consensus       257 ~~~~ng~~~~~r~F~~d~~r~~p~fl~dl~~~a~~~i~~  295 (513)
T KOG2164|consen  257 HQDPNGIPDYNRRFSGDPARFVPDFLMDLPTYARINIRN  295 (513)
T ss_pred             HhcccCCCccccceecCcccccHHHHHhHHHHHHHHHHH
Confidence            21111   111235 443 77888888877766655543

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

Probab=98.88  E-value=7.5e-10  Score=69.95  Aligned_cols=62  Identities=18%  Similarity=0.338  Sum_probs=44.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEV   72 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~   72 (120)
                      +.+.|||+++ ++.+|    +++++||+|++++|...+..+...||.++.++...++.    .+..++..|
T Consensus         3 ~~f~CpIt~~-lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~----pn~~Lk~~I   64 (73)
T PF04564_consen    3 DEFLCPITGE-LMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI----PNRALKSAI   64 (73)
T ss_dssp             GGGB-TTTSS-B-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE----E-HHHHHHH
T ss_pred             cccCCcCcCc-HhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce----ECHHHHHHH
Confidence            5689999995 99999    67799999999999999998678999999998765443    444444444

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 ....

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

Probab=98.88  E-value=4.7e-10  Score=69.24  Aligned_cols=55  Identities=20%  Similarity=0.603  Sum_probs=26.2

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHH
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVE   73 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~   73 (120)
                      +.|++|.+ ++..|.   ..+.|.|.||..||...+.   ..||+|+++-.        ..|..+.|+++
T Consensus         8 LrCs~C~~-~l~~pv---~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw--------~qD~~~NrqLd   62 (65)
T PF14835_consen    8 LRCSICFD-ILKEPV---CLGGCEHIFCSSCIRDCIG---SECPVCHTPAW--------IQDIQINRQLD   62 (65)
T ss_dssp             TS-SSS-S---SS-B------SSS--B-TTTGGGGTT---TB-SSS--B-S---------SS----HHHH
T ss_pred             cCCcHHHH-HhcCCc---eeccCccHHHHHHhHHhcC---CCCCCcCChHH--------HHHHHhhhhhh
Confidence            68999995 889992   1469999999999987554   35999998754        45555555554

>KOG0287|consensus

Probab=98.88  E-value=5.8e-10  Score=88.37  Aligned_cols=74  Identities=22%  Similarity=0.416  Sum_probs=61.4

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHHHHHHhhhhh
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDY   82 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~~k~~   82 (120)
                      -+.|.||++ .|.-|    +++||||.||.-||..++... +.||.|..+++...++.+.+-|-.++-=-.+|--+++.+
T Consensus        23 lLRC~IC~e-yf~ip----~itpCsHtfCSlCIR~~L~~~-p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~~~R~~Ll~fl   96 (442)
T KOG0287|consen   23 LLRCGICFE-YFNIP----MITPCSHTFCSLCIRKFLSYK-PQCPTCCVTVTESDLRNNRILDEIVKSLNFARNHLLQFL   96 (442)
T ss_pred             HHHHhHHHH-HhcCc----eeccccchHHHHHHHHHhccC-CCCCceecccchhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            358999995 77878    678999999999999998864 789999999999888888877777776666777766664

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.87  E-value=2.1e-09  Score=81.90  Aligned_cols=50  Identities=24%  Similarity=0.674  Sum_probs=36.6

Q ss_pred             CccCcccCCCcccCCCC---cc-cccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTL---KL-MVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~---~~-~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +..||||++. +.++..   .+ ++++|||.||..||..++.. ...||+||.++.
T Consensus       174 ~~eC~ICle~-~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~  227 (238)
T PHA02929        174 DKECAICMEK-VYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFI  227 (238)
T ss_pred             CCCCccCCcc-cccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEee
Confidence            4689999974 444321   11 24589999999999986554 578999999774

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

Probab=98.83  E-value=1.8e-09  Score=61.91  Aligned_cols=40  Identities=35%  Similarity=0.730  Sum_probs=21.9

Q ss_pred             CcccCCCcccCCCCcccccccCCccchhHHHHHhhcC---CCCCC
Q psy17995          6 CPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG---TGNCY   47 (120)
Q Consensus         6 CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~---~~~CP   47 (120)
                      ||||++  +.++...-++.+|||+||+.|+.++++.+   ...||
T Consensus         1 CpIc~e--~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE--FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT------TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc--ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899995  56632222456799999999999999864   46676

>smart00184 RING Ring finger

Probab=98.83  E-value=3e-09  Score=57.33  Aligned_cols=39  Identities=33%  Similarity=0.962  Sum_probs=31.1

Q ss_pred             CcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCC
Q psy17995          6 CPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYEC   49 (120)
Q Consensus         6 CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C   49 (120)
                      |+||++ ...++    ++.+|||.||..|+..++..+...||.|
T Consensus         1 C~iC~~-~~~~~----~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLE-ELKDP----VVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCcc-CCCCc----EEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            899996 43444    4569999999999999888556789987

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)

>KOG0978|consensus

Probab=98.82  E-value=1.3e-09  Score=92.97  Aligned_cols=52  Identities=25%  Similarity=0.747  Sum_probs=43.9

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCcc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV   60 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~   60 (120)
                      +.||+|.+ ..++-    +++.|||.||..|+...+......||.|+++|...+|.+
T Consensus       644 LkCs~Cn~-R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~  695 (698)
T KOG0978|consen  644 LKCSVCNT-RWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR  695 (698)
T ss_pred             eeCCCccC-chhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence            68999994 44544    578999999999999998877789999999999887653

>KOG0823|consensus

Probab=98.74  E-value=5.6e-09  Score=78.75  Aligned_cols=51  Identities=22%  Similarity=0.561  Sum_probs=42.1

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc--CCCCCCCCCccccCCCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK--GTGNCYECNQPLRRGNF   58 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~--~~~~CP~C~~~~~~~~~   58 (120)
                      .+.|.||++ .-.+|    ++|.|||-||=.||.+++..  +...||+|+..+..+.+
T Consensus        47 ~FdCNICLd-~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v   99 (230)
T KOG0823|consen   47 FFDCNICLD-LAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV   99 (230)
T ss_pred             ceeeeeecc-ccCCC----EEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence            478999995 77999    78999999999999998774  34679999998765543

>KOG0317|consensus

Probab=98.72  E-value=7e-09  Score=80.40  Aligned_cols=49  Identities=20%  Similarity=0.596  Sum_probs=40.1

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGN   57 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (120)
                      ..+|.+|++ .-.||.    .+||||.||-+||..+.... ..||.||..+.+.+
T Consensus       239 ~~kC~LCLe-~~~~pS----aTpCGHiFCWsCI~~w~~ek-~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  239 TRKCSLCLE-NRSNPS----ATPCGHIFCWSCILEWCSEK-AECPLCREKFQPSK  287 (293)
T ss_pred             CCceEEEec-CCCCCC----cCcCcchHHHHHHHHHHccc-cCCCcccccCCCcc
Confidence            368999996 557883    57999999999999877654 56999999987654

>KOG2177|consensus

Probab=98.70  E-value=5.7e-09  Score=77.43  Aligned_cols=44  Identities=30%  Similarity=0.853  Sum_probs=38.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQ   51 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~   51 (120)
                      +.+.||||++ .|..|    .+.+|||+||..|+..+|. ....||.|+.
T Consensus        12 ~~~~C~iC~~-~~~~p----~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen   12 EELTCPICLE-YFREP----VLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             ccccChhhHH-HhhcC----ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            5689999995 88999    3679999999999999998 6689999994

>PHA02926 zinc finger-like protein; Provisional

Probab=98.63  E-value=2.9e-08  Score=74.86  Aligned_cols=52  Identities=25%  Similarity=0.624  Sum_probs=37.4

Q ss_pred             CccCcccCCCcccCC--CC-ccc-ccccCCccchhHHHHHhhcC-----CCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKP--TL-KLM-VNICGHPLCEGCVDLLFLKG-----TGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p--~~-~~~-~~~CGH~fC~~Ci~~~~~~~-----~~~CP~C~~~~~   54 (120)
                      +..|+||++.++..+  +- .+. ..+|||.||-+||....+..     ...||.||..+.
T Consensus       170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            568999998655432  11 223 45999999999999876532     246999999875

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

Probab=98.62  E-value=1.9e-08  Score=78.58  Aligned_cols=50  Identities=22%  Similarity=0.542  Sum_probs=41.1

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      +.|-||.. .+.-|    +.|+|||.||.-||.+++... +.||+|+......-++
T Consensus        26 lrC~IC~~-~i~ip----~~TtCgHtFCslCIR~hL~~q-p~CP~Cr~~~~esrlr   75 (391)
T COG5432          26 LRCRICDC-RISIP----CETTCGHTFCSLCIRRHLGTQ-PFCPVCREDPCESRLR   75 (391)
T ss_pred             HHhhhhhh-eeecc----eecccccchhHHHHHHHhcCC-CCCccccccHHhhhcc
Confidence            47999995 77878    578999999999999998864 7899999987654443

>KOG0297|consensus

Probab=98.58  E-value=6.6e-08  Score=78.34  Aligned_cols=85  Identities=24%  Similarity=0.430  Sum_probs=64.8

Q ss_pred             CccCcccCCCcccCCCCcccc-cccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHHHHHHhhhh
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV-NICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKD   81 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~-~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~~k~   81 (120)
                      ++.||+|. .++.+|    ++ +.|||.||..|+...... ...||+|+..+..+.   ..+.+....+++..    +.+
T Consensus        21 ~l~C~~C~-~vl~~p----~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~---~~~~~~~~~~~~~~----l~i   87 (391)
T KOG0297|consen   21 NLLCPICM-SVLRDP----VQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAE---ELPVPRALRRELLK----LPI   87 (391)
T ss_pred             cccCcccc-ccccCC----CCCCCCCCcccccccchhhcc-CcCCcccccccchhh---ccCchHHHHHHHHh----ccc
Confidence            58999999 488999    45 499999999999998777 689999988776543   33355666666653    566


Q ss_pred             hhccc---CCc-cCHHHHHHHHH
Q psy17995         82 YNKVE---EDF-NSLAEYNDYLE  100 (120)
Q Consensus        82 ~~~~~---~~~-~~l~~y~~yle  100 (120)
                      ++...   +-| ..++.|++|+.
T Consensus        88 ~c~~~~~GC~~~~~l~~~~~Hl~  110 (391)
T KOG0297|consen   88 RCIFASRGCRADLELEALQGHLS  110 (391)
T ss_pred             ccccCCCCccccccHHHHHhHhc
Confidence            66432   667 89999999985

>KOG0311|consensus

Probab=98.53  E-value=9.1e-09  Score=81.73  Aligned_cols=53  Identities=25%  Similarity=0.611  Sum_probs=42.0

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc-CCCCc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR-RGNFR   59 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~-~~~~~   59 (120)
                      +++||||++ ++++.   |.+..|+|+||..||...++.+...||.|++.+. +..++
T Consensus        43 ~v~c~icl~-llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr   96 (381)
T KOG0311|consen   43 QVICPICLS-LLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLR   96 (381)
T ss_pred             hhccHHHHH-HHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCC
Confidence            579999995 66655   1233899999999999999988899999999875 33443

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

Probab=98.44  E-value=9e-08  Score=73.53  Aligned_cols=48  Identities=25%  Similarity=0.536  Sum_probs=38.0

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC-CCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG-TGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~-~~~CP~C~~~~~~   55 (120)
                      ++.|++|.+ ...+|    .-++|||.||-+||-..|... ...||.||+..-.
T Consensus       215 d~kC~lC~e-~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         215 DYKCFLCLE-EPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccceeeeec-ccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            689999996 55777    347999999999999866654 4569999986643

>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=98.30  E-value=6.4e-07  Score=56.60  Aligned_cols=46  Identities=22%  Similarity=0.614  Sum_probs=32.6

Q ss_pred             CccCcccCCCcccCCC---------CcccccccCCccchhHHHHHhhcCCCCCCCCC
Q psy17995          3 DQECPRCKTTKYRKPT---------LKLMVNICGHPLCEGCVDLLFLKGTGNCYECN   50 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~---------~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~   50 (120)
                      +..|+||++ .+.+|.         ..++..+|||.|...||.+.+..+ ..||.||
T Consensus        19 ~d~C~IC~~-~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICRE-PLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN-NTCPLCR   73 (73)
T ss_dssp             CSBETTTTS-BTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS-SB-TTSS
T ss_pred             CCcccccCh-hhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC-CcCCCCC
Confidence            346999996 444432         223345899999999999988765 5999996

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 ....

>KOG2879|consensus

Probab=98.22  E-value=8.8e-07  Score=68.54  Aligned_cols=49  Identities=31%  Similarity=0.689  Sum_probs=39.3

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc-CCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK-GTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~-~~~~CP~C~~~~~   54 (120)
                      ++..||+|.+    .|.+++++.+|||++|-.|+...... .++.||.|+++..
T Consensus       238 ~~~~C~~Cg~----~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  238 SDTECPVCGE----PPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             CCceeeccCC----CCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            4568999996    45555666789999999999987664 4689999999775

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

Probab=98.22  E-value=4e-07  Score=67.87  Aligned_cols=45  Identities=33%  Similarity=0.769  Sum_probs=38.0

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +.|.||+. -|..|    +++.|||.||..|..+-+..+ ..|-+|++...
T Consensus       197 F~C~iCKk-dy~sp----vvt~CGH~FC~~Cai~~y~kg-~~C~~Cgk~t~  241 (259)
T COG5152         197 FLCGICKK-DYESP----VVTECGHSFCSLCAIRKYQKG-DECGVCGKATY  241 (259)
T ss_pred             eeehhchh-hccch----hhhhcchhHHHHHHHHHhccC-Ccceecchhhc
Confidence            58999997 67889    678999999999988877765 78999998653

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

Probab=98.18  E-value=8.1e-07  Score=53.79  Aligned_cols=42  Identities=19%  Similarity=0.508  Sum_probs=29.1

Q ss_pred             CccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhc-CCCCCCCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLK-GTGNCYEC   49 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~-~~~~CP~C   49 (120)
                      .+.||+.+. .+.+|    +.+ .|||.|.++.|..++.. +...||+-
T Consensus        11 ~~~CPiT~~-~~~~P----V~s~~C~H~fek~aI~~~i~~~~~~~CPv~   54 (57)
T PF11789_consen   11 SLKCPITLQ-PFEDP----VKSKKCGHTFEKEAILQYIQRNGSKRCPVA   54 (57)
T ss_dssp             -SB-TTTSS-B-SSE----EEESSS--EEEHHHHHHHCTTTS-EE-SCC
T ss_pred             ccCCCCcCC-hhhCC----cCcCCCCCeecHHHHHHHHHhcCCCCCCCC
Confidence            478999995 89999    455 89999999999999954 45789983

>KOG3039|consensus

Probab=98.15  E-value=1.5e-06  Score=66.59  Aligned_cols=54  Identities=19%  Similarity=0.298  Sum_probs=43.6

Q ss_pred             CccCcccCCCcccCCCCccc-ccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          3 DQECPRCKTTKYRKPTLKLM-VNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~-~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      .|+||+|+. .+.|. ++.. ..+|||+||..|+.+++... +.||+|+.+++..++.
T Consensus       221 ryiCpvtrd-~LtNt-~~ca~Lr~sg~Vv~~ecvEklir~D-~v~pv~d~plkdrdiI  275 (303)
T KOG3039|consen  221 RYICPVTRD-TLTNT-TPCAVLRPSGHVVTKECVEKLIRKD-MVDPVTDKPLKDRDII  275 (303)
T ss_pred             ceecccchh-hhcCc-cceEEeccCCcEeeHHHHHHhcccc-ccccCCCCcCcccceE
Confidence            689999995 66765 3333 45999999999999998864 8999999999876643

>KOG4159|consensus

Probab=98.14  E-value=1.1e-06  Score=71.34  Aligned_cols=48  Identities=29%  Similarity=0.675  Sum_probs=40.4

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +++.|-||. ..+.+|    ++++|||.||..||.+.+.. ...||.|+..+..
T Consensus        83 sef~c~vc~-~~l~~p----v~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   83 SEFECCVCS-RALYPP----VVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVE  130 (398)
T ss_pred             chhhhhhhH-hhcCCC----ccccccccccHHHHHHHhcc-CCCCccccccccc
Confidence            468999999 488888    45699999999999997664 4899999998864

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

Probab=98.08  E-value=3.7e-06  Score=66.21  Aligned_cols=62  Identities=31%  Similarity=0.686  Sum_probs=45.5

Q ss_pred             ccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHH
Q psy17995          4 QECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVE   73 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~   73 (120)
                      +.||.|+. ++.+|    +-+ .|||.||+.||...+-.....||.|..   +.-+...+.+|..-++|++
T Consensus       275 LkCplc~~-Llrnp----~kT~cC~~~fc~eci~~al~dsDf~CpnC~r---kdvlld~l~pD~dk~~EvE  337 (427)
T COG5222         275 LKCPLCHC-LLRNP----MKTPCCGHTFCDECIGTALLDSDFKCPNCSR---KDVLLDGLTPDIDKKLEVE  337 (427)
T ss_pred             ccCcchhh-hhhCc----ccCccccchHHHHHHhhhhhhccccCCCccc---ccchhhccCccHHHHHHHH
Confidence            78999995 88999    335 799999999999988776799999975   1112233446666555554

>KOG4739|consensus

Probab=98.02  E-value=3.2e-06  Score=64.21  Aligned_cols=51  Identities=24%  Similarity=0.566  Sum_probs=39.1

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCC
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGN   57 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (120)
                      |+-..|-.|.-  +.+ ..++++|.|+|+||..|.....   +..||.|+++++-..
T Consensus         1 m~~VhCn~C~~--~~~-~~~f~LTaC~HvfC~~C~k~~~---~~~C~lCkk~ir~i~   51 (233)
T KOG4739|consen    1 MDFVHCNKCFR--FPS-QDPFFLTACRHVFCEPCLKASS---PDVCPLCKKSIRIIQ   51 (233)
T ss_pred             CceEEeccccc--cCC-CCceeeeechhhhhhhhcccCC---ccccccccceeeeee
Confidence            77889999983  344 5667899999999999986422   238999999976543

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

Probab=98.01  E-value=2.7e-06  Score=66.86  Aligned_cols=49  Identities=29%  Similarity=0.600  Sum_probs=39.8

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ..|.||++++.++-  +++++||.|+|-.+|+++++..-..+||+|++++.
T Consensus       324 veCaICms~fiK~d--~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         324 VECAICMSNFIKND--RLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             ceEEEEhhhhcccc--eEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            47999998665433  46688999999999999987755689999999874

>KOG2660|consensus

Probab=98.01  E-value=4.2e-06  Score=66.15  Aligned_cols=58  Identities=17%  Similarity=0.447  Sum_probs=45.7

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDD   65 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d   65 (120)
                      ..+|++|.. .+.|+..   ++.|-|.||++||-+++.. ...||.|+..+.+.....++-.|
T Consensus        15 ~itC~LC~G-YliDATT---I~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t~pl~ni~~D   72 (331)
T KOG2660|consen   15 HITCRLCGG-YLIDATT---ITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKTHPLLNIRSD   72 (331)
T ss_pred             ceehhhccc-eeecchh---HHHHHHHHHHHHHHHHHHH-hccCCccceeccCccccccCCcc
Confidence            358999995 7888853   5699999999999999987 58999999988776544444333

>PF04641 Rtf2: Rtf2 RING-finger

Probab=98.00  E-value=4.6e-06  Score=64.15  Aligned_cols=53  Identities=19%  Similarity=0.424  Sum_probs=42.2

Q ss_pred             CccCcccCCCcccCCCCcccc-cccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV-NICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~-~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      .+.|||... .+ ++..+++. -+|||+|+..++..+-  ....||+|+++|...++.
T Consensus       113 ~~~CPvt~~-~~-~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~DiI  166 (260)
T PF04641_consen  113 RFICPVTGK-EF-NGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEEDII  166 (260)
T ss_pred             eeECCCCCc-cc-CCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCCEE
Confidence            579999995 44 66666654 4999999999999983  346799999999987654

>KOG1813|consensus

Probab=97.94  E-value=3e-06  Score=66.21  Aligned_cols=45  Identities=36%  Similarity=0.859  Sum_probs=38.1

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +.|-||+. .|.+|    +++.|||.||..|....+..+ .+|++|+...-
T Consensus       242 f~c~icr~-~f~~p----Vvt~c~h~fc~~ca~~~~qk~-~~c~vC~~~t~  286 (313)
T KOG1813|consen  242 FKCFICRK-YFYRP----VVTKCGHYFCEVCALKPYQKG-EKCYVCSQQTH  286 (313)
T ss_pred             cccccccc-ccccc----hhhcCCceeehhhhccccccC-Ccceecccccc
Confidence            46999995 78999    679999999999988877764 78999998653

>KOG4628|consensus

Probab=97.79  E-value=1.5e-05  Score=63.71  Aligned_cols=50  Identities=26%  Similarity=0.563  Sum_probs=40.3

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      .|.||+++ |.. .-++.+.||+|.|-..||+.++...-..||+|+..+++.
T Consensus       231 ~CaIClEd-Y~~-GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~  280 (348)
T KOG4628|consen  231 TCAICLED-YEK-GDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD  280 (348)
T ss_pred             eEEEeecc-ccc-CCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence            89999975 443 345567899999999999999887656799999977654

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

Probab=97.79  E-value=2.7e-05  Score=45.58  Aligned_cols=47  Identities=23%  Similarity=0.653  Sum_probs=23.8

Q ss_pred             CcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          6 CPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         6 CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      ||+|-+.+ ..-...+.--+||+.+|..|...+.+.....||.|++++
T Consensus         1 cp~C~e~~-d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEEL-DETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B---CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCccccc-ccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            78888643 111222222389999999999999986678999999875

>KOG4172|consensus

Probab=97.70  E-value=9.7e-06  Score=48.69  Aligned_cols=46  Identities=28%  Similarity=0.612  Sum_probs=36.0

Q ss_pred             ccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ..|.||.+. -.|.    ++..|||- +|-.|-.++|......||+|+.+++
T Consensus         8 dECTICye~-pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEH-PVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccC-cchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            469999962 2222    34589998 8999999999876789999999875

>KOG0802|consensus

Probab=97.59  E-value=3.7e-05  Score=64.67  Aligned_cols=52  Identities=21%  Similarity=0.429  Sum_probs=38.6

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +..|+||.+.+..-+++.....+|||.|+..|+..+++. ...||.|+..+..
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLYD  342 (543)
T ss_pred             CCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhhc
Confidence            468999997554433321123499999999999999987 5789999995543

>KOG0824|consensus

Probab=97.58  E-value=3.3e-05  Score=60.66  Aligned_cols=46  Identities=24%  Similarity=0.547  Sum_probs=36.7

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      -.|+||+. .---|    +..+|+|.||--||+.....+...||+|+.++.
T Consensus         8 ~eC~IC~n-t~n~P----v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid   53 (324)
T KOG0824|consen    8 KECLICYN-TGNCP----VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID   53 (324)
T ss_pred             Ccceeeec-cCCcC----ccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence            36999995 33444    234999999999999988877677999999885

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

Probab=97.48  E-value=9e-05  Score=51.95  Aligned_cols=51  Identities=25%  Similarity=0.601  Sum_probs=38.1

Q ss_pred             ccCcccCCCcccCCCCccc-cc-ccCCccchhHHHHHhhcCC--CCCCCCCccccCCC
Q psy17995          4 QECPRCKTTKYRKPTLKLM-VN-ICGHPLCEGCVDLLFLKGT--GNCYECNQPLRRGN   57 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~-~~-~CGH~fC~~Ci~~~~~~~~--~~CP~C~~~~~~~~   57 (120)
                      |.|-||++. ..++.  ++ -+ -||-++|..|--.+|....  +.||+|+++|+.++
T Consensus        81 YeCnIC~et-S~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   81 YECNICKET-SAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             eeccCcccc-cchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            689999963 33321  11 12 5999999999999999643  78999999998653

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

Probab=97.45  E-value=0.00011  Score=59.45  Aligned_cols=51  Identities=22%  Similarity=0.487  Sum_probs=38.5

Q ss_pred             CCccCcccCCCcccCCCC--------cccccccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTL--------KLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~--------~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      ++-.|.||++.++..|+.        +-.-.||||.|--+|++.+.++ +..||+|+.++
T Consensus       286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~  344 (491)
T COG5243         286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPV  344 (491)
T ss_pred             CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcc
Confidence            466899999766655422        1112389999999999988776 47999999985

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

Probab=97.45  E-value=0.00015  Score=47.24  Aligned_cols=34  Identities=26%  Similarity=0.592  Sum_probs=27.9

Q ss_pred             ccccccCCccchhHHHHHhhcC--CCCCCCCCcccc
Q psy17995         21 LMVNICGHPLCEGCVDLLFLKG--TGNCYECNQPLR   54 (120)
Q Consensus        21 ~~~~~CGH~fC~~Ci~~~~~~~--~~~CP~C~~~~~   54 (120)
                      ++...|||.|-..||.+.++..  ...||.||.++.
T Consensus        47 lv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   47 LVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             eeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            3445899999999999988853  478999998764

>KOG1002|consensus

Probab=97.41  E-value=0.00017  Score=60.75  Aligned_cols=48  Identities=21%  Similarity=0.481  Sum_probs=38.1

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc----CCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK----GTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~----~~~~CP~C~~~~~~   55 (120)
                      ...|.+|.+ .-.++    +.+.|.|.||+-|+..+...    ..-.||+|..++.-
T Consensus       536 ~~~C~lc~d-~aed~----i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  536 EVECGLCHD-PAEDY----IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             ceeecccCC-hhhhh----HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            457999994 66777    56899999999999887653    23789999998853

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

Probab=97.33  E-value=0.00027  Score=56.82  Aligned_cols=92  Identities=20%  Similarity=0.329  Sum_probs=59.3

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc-CCCCCCCCCccccC-----C---CCc------------c
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK-GTGNCYECNQPLRR-----G---NFR------------V   60 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~-~~~~CP~C~~~~~~-----~---~~~------------~   60 (120)
                      +...|.||-..+....     ++||||.+|..|.-++-.- ....||.|++.-..     .   ++.            -
T Consensus        60 en~~C~ICA~~~TYs~-----~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI~D~~~~k~~~EK~G  134 (493)
T COG5236          60 ENMNCQICAGSTTYSA-----RYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADITDRRQWKGREEKVG  134 (493)
T ss_pred             ccceeEEecCCceEEE-----eccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcchhHhhhccccccee
Confidence            3457999986554433     5799999999998776553 35789999873311     1   100            0


Q ss_pred             ccccchhHHHHHHHHHHhhhhhhccc-CCc--cCHHHHHHHHHH
Q psy17995         61 QLFDDSSVEKEVEIRKKLLKDYNKVE-EDF--NSLAEYNDYLEE  101 (120)
Q Consensus        61 ~~f~d~~~~~e~~~rk~~~k~~~~~~-~~~--~~l~~y~~yle~  101 (120)
                      -.|.+..+..|...   +|+.+|... ++-  +.+.+|+.|+..
T Consensus       135 I~y~~E~v~~E~~~---LL~F~CP~skc~~~C~~~k~lk~H~K~  175 (493)
T COG5236         135 IFYEGEDVRDEMED---LLSFKCPKSKCHRRCGSLKELKKHYKA  175 (493)
T ss_pred             eeecchHHHHHHHH---HHHhcCCchhhhhhhhhHHHHHHHHHh
Confidence            02556677777763   677777544 333  568889888764

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=97.26  E-value=0.00013  Score=43.70  Aligned_cols=31  Identities=29%  Similarity=0.663  Sum_probs=24.3

Q ss_pred             ccccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995         23 VNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus        23 ~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      +.+|||.+|..|....--   .-||.|++++...
T Consensus        22 ~~pCgH~I~~~~f~~~rY---ngCPfC~~~~~~~   52 (55)
T PF14447_consen   22 VLPCGHLICDNCFPGERY---NGCPFCGTPFEFD   52 (55)
T ss_pred             cccccceeeccccChhhc---cCCCCCCCcccCC
Confidence            569999999999875322   4599999988654

>KOG1039|consensus

Probab=97.10  E-value=0.00038  Score=55.83  Aligned_cols=55  Identities=24%  Similarity=0.472  Sum_probs=38.0

Q ss_pred             CccCcccCCCcccCC--CCccccc-ccCCccchhHHHHHhhc-C-----CCCCCCCCccccCCC
Q psy17995          3 DQECPRCKTTKYRKP--TLKLMVN-ICGHPLCEGCVDLLFLK-G-----TGNCYECNQPLRRGN   57 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p--~~~~~~~-~CGH~fC~~Ci~~~~~~-~-----~~~CP~C~~~~~~~~   57 (120)
                      +..|.||++.++..+  ..++.+. +|-|.||..||..+-.. .     ...||.|+.+.+...
T Consensus       161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~  224 (344)
T KOG1039|consen  161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN  224 (344)
T ss_pred             cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence            568999998665433  1123344 69999999999875422 1     368999999876543

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.03  E-value=0.00029  Score=56.52  Aligned_cols=54  Identities=22%  Similarity=0.522  Sum_probs=39.5

Q ss_pred             ccCcccCCCcc-cCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          4 QECPRCKTTKY-RKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         4 ~~CpiC~~~~~-~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      ..||.|.+.+- .+-  .++--+||-.+|+.|...+...-.+.||.||..+...+.+
T Consensus        15 d~cplcie~mditdk--nf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~   69 (480)
T COG5175          15 DYCPLCIEPMDITDK--NFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR   69 (480)
T ss_pred             ccCcccccccccccC--CcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence            35999997432 222  2233589999999999988776457999999988766544

>KOG0827|consensus

Probab=96.91  E-value=0.00057  Score=55.53  Aligned_cols=66  Identities=24%  Similarity=0.440  Sum_probs=44.3

Q ss_pred             ccCcccCCCcccCCCCccc--ccccCCccchhHHHHHhhcCC--CCCCCCCccccCCCCccccccchhHHHHH
Q psy17995          4 QECPRCKTTKYRKPTLKLM--VNICGHPLCEGCVDLLFLKGT--GNCYECNQPLRRGNFRVQLFDDSSVEKEV   72 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~--~~~CGH~fC~~Ci~~~~~~~~--~~CP~C~~~~~~~~~~~~~f~d~~~~~e~   72 (120)
                      ..|.||- +.+  |+..-+  +..|||.|-..|+..+|+-.|  ..||+|+..+....+....|-|..++.+.
T Consensus         5 A~C~Ic~-d~~--p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~N~~~~d~vvEe~~   74 (465)
T KOG0827|consen    5 AECHICI-DGR--PNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVANPSTVDHVVEESV   74 (465)
T ss_pred             ceeeEec-cCC--ccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeeechhhhhhhhccch
Confidence            4799996 443  332222  347999999999999998654  47999996666555444455565554443

>KOG1001|consensus

Probab=96.87  E-value=0.00024  Score=61.42  Aligned_cols=51  Identities=20%  Similarity=0.520  Sum_probs=39.6

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC-CCCCCCCCccccCCCCcc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG-TGNCYECNQPLRRGNFRV   60 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~-~~~CP~C~~~~~~~~~~~   60 (120)
                      +.|++|.+  ...+    +++.|||.||.+|+...+... ..+||.|+..+....+..
T Consensus       455 ~~c~ic~~--~~~~----~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s  506 (674)
T KOG1001|consen  455 HWCHICCD--LDSF----FITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS  506 (674)
T ss_pred             cccccccc--cccc----eeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence            68999995  3444    578999999999999988753 368999998876554443

>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A

Probab=96.72  E-value=0.003  Score=40.43  Aligned_cols=54  Identities=22%  Similarity=0.512  Sum_probs=26.7

Q ss_pred             CccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      ...|.||.+++-.+.+-.+++  ..||--.|+.|..--.+.+...||.|++.+++.
T Consensus         9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~   64 (80)
T PF14569_consen    9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRH   64 (80)
T ss_dssp             S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----
T ss_pred             CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccc
Confidence            357999998877777666565  389999999999988888889999999988754

>KOG1645|consensus

Probab=96.70  E-value=0.0016  Score=53.20  Aligned_cols=55  Identities=18%  Similarity=0.437  Sum_probs=40.9

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC-CCCCCCCCccccCCCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG-TGNCYECNQPLRRGNF   58 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~-~~~CP~C~~~~~~~~~   58 (120)
                      ..||||++.....-+-.++...|||-|=.+||.+++.+. .+.||.|...-.++.+
T Consensus         5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i   60 (463)
T KOG1645|consen    5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQI   60 (463)
T ss_pred             ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHH
Confidence            489999975444444455556899999999999988643 3789999876655543

>KOG0804|consensus

Probab=96.69  E-value=0.00062  Score=56.07  Aligned_cols=45  Identities=18%  Similarity=0.487  Sum_probs=32.8

Q ss_pred             ccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      -+||||++.+  |+....+++ .|-|+|-.+|+..+|-   ..||+||-..
T Consensus       176 PTCpVCLERM--D~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q  221 (493)
T KOG0804|consen  176 PTCPVCLERM--DSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQ  221 (493)
T ss_pred             CCcchhHhhc--CccccceeeeecccccchHHHhhccc---CcChhhhhhc
Confidence            4899999853  555544444 8999999999988764   4577776533

>KOG4692|consensus

Probab=96.68  E-value=0.001  Score=53.69  Aligned_cols=47  Identities=23%  Similarity=0.667  Sum_probs=36.4

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ++-.||||... -.+.    +.+||||+-|..||.+.+.+. ..|--|++.+.
T Consensus       421 Ed~lCpICyA~-pi~A----vf~PC~H~SC~~CI~qHlmN~-k~CFfCktTv~  467 (489)
T KOG4692|consen  421 EDNLCPICYAG-PINA----VFAPCSHRSCYGCITQHLMNC-KRCFFCKTTVI  467 (489)
T ss_pred             ccccCcceecc-cchh----hccCCCCchHHHHHHHHHhcC-CeeeEecceee
Confidence            45689999952 2333    457999999999999998864 78999988764

>KOG4367|consensus

Probab=96.64  E-value=0.00084  Score=55.55  Aligned_cols=35  Identities=31%  Similarity=0.981  Sum_probs=29.5

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK   41 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~   41 (120)
                      ++++||||. ..|.+|    .+.+|||++|+.|......+
T Consensus         3 eelkc~vc~-~f~~ep----iil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    3 EELKCPVCG-SFYREP----IILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             ccccCceeh-hhccCc----eEeecccHHHHHHHHhhccc
Confidence            458999999 599999    46799999999998876654

>KOG1814|consensus

Probab=96.55  E-value=0.0011  Score=54.23  Aligned_cols=46  Identities=17%  Similarity=0.354  Sum_probs=32.7

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc-------CCCCCCCCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK-------GTGNCYECN   50 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~-------~~~~CP~C~   50 (120)
                      .+.|.||.+.  ...+.-++..||+|+||++|+..++..       +...||.++
T Consensus       184 lf~C~ICf~e--~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  184 LFDCCICFEE--QMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             cccceeeehh--hcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            4689999963  333333445699999999999999863       236788644

>KOG4185|consensus

Probab=96.55  E-value=0.0022  Score=49.66  Aligned_cols=52  Identities=27%  Similarity=0.545  Sum_probs=39.4

Q ss_pred             CCCccCcccCCCcccCCC--CcccccccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          1 MDDQECPRCKTTKYRKPT--LKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~--~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      |.-+.|-||.+ .|.+-.  ..-.+..|||.||..|+..+...+...||-|+.+.
T Consensus         1 m~~~~c~~c~~-~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    1 MSFPECEICNE-DYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCCCceeecCc-cccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            77889999996 454321  10013369999999999999998878899999974

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

Probab=96.55  E-value=0.0008  Score=42.09  Aligned_cols=52  Identities=25%  Similarity=0.592  Sum_probs=23.5

Q ss_pred             CccCcccCCCcccCCCCcccc-c--ccCCccchhHHHHHhhc--CC--------CCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV-N--ICGHPLCEGCVDLLFLK--GT--------GNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~-~--~CGH~fC~~Ci~~~~~~--~~--------~~CP~C~~~~~   54 (120)
                      +..|+||......+.....++ .  .||+.|-..||...|..  ++        +.||.|++++.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            467999996443233232222 2  79999999999998873  11        46999999874

>KOG1785|consensus

Probab=96.39  E-value=0.0013  Score=53.86  Aligned_cols=46  Identities=22%  Similarity=0.562  Sum_probs=34.5

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC-CCCCCCCCccccC
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG-TGNCYECNQPLRR   55 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~-~~~CP~C~~~~~~   55 (120)
                      .|-||-+.   +-+.  .+-||||-+|.+|+..+..+. ...||-|+-.++-
T Consensus       371 LCKICaen---dKdv--kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAEN---DKDV--KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhcc---CCCc--ccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            68999862   3332  256999999999998765443 5789999988764

>KOG0825|consensus

Probab=96.34  E-value=0.00066  Score=59.39  Aligned_cols=48  Identities=21%  Similarity=0.422  Sum_probs=34.3

Q ss_pred             ccCcccCCCcccCCCCccccc--ccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMVN--ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~--~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      -.||+|.. .+.+.   +..+  +|||.||.+||..+ ......||+|+..|.+.
T Consensus       124 ~~CP~Ci~-s~~Dq---L~~~~k~c~H~FC~~Ci~sW-sR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  124 NQCPNCLK-SCNDQ---LEESEKHTAHYFCEECVGSW-SRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhHHHH-HHHHH---hhccccccccccHHHHhhhh-hhhcccCchhhhhhhee
Confidence            46888884 44443   2233  79999999999874 44457899999988654

>KOG4265|consensus

Probab=96.19  E-value=0.0024  Score=51.20  Aligned_cols=45  Identities=40%  Similarity=0.833  Sum_probs=34.4

Q ss_pred             ccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ..|.||++. .+|=    ++.||-|- +|++|.+.+.-. ...||+||.++.
T Consensus       291 keCVIClse-~rdt----~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~  336 (349)
T KOG4265|consen  291 KECVICLSE-SRDT----VVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIE  336 (349)
T ss_pred             CeeEEEecC-Ccce----EEecchhhehhHhHHHHHHHh-hcCCCccccchH
Confidence            579999963 2432    45699999 999999887532 467999999875

>KOG0828|consensus

Probab=96.16  E-value=0.0024  Score=53.47  Aligned_cols=51  Identities=22%  Similarity=0.355  Sum_probs=36.4

Q ss_pred             ccCcccCCCccc----CCCCc--------ccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYR----KPTLK--------LMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~----~p~~~--------~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      .-|+||.+++-.    .+-+.        .++|||-|.|-..|+.+....-...||+|+.++.
T Consensus       572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             ccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            469999976431    12111        2356999999999999876644578999999874

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

Probab=95.86  E-value=0.0093  Score=38.50  Aligned_cols=49  Identities=18%  Similarity=0.407  Sum_probs=33.8

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      .||-|+.....+-+-+++...|.|.|-..||.+.+.. ...||.+++++.
T Consensus        33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~   81 (88)
T COG5194          33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWV   81 (88)
T ss_pred             cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeE
Confidence            4777764331222223334589999999999998886 478999988763

>KOG1812|consensus

Probab=95.68  E-value=0.0084  Score=48.78  Aligned_cols=52  Identities=25%  Similarity=0.500  Sum_probs=34.7

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc-----CCCCCC--CCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK-----GTGNCY--ECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~-----~~~~CP--~C~~~~~~   55 (120)
                      ...|+||.... ..+...+.+..|||.||..|+.+++..     ..+.||  .|...+..
T Consensus       146 ~~~C~iC~~e~-~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~  204 (384)
T KOG1812|consen  146 KEECGICFVED-PEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTL  204 (384)
T ss_pred             cccCccCcccc-ccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCH
Confidence            45799999322 333222234589999999999998873     347788  46665543

>KOG3002|consensus

Probab=95.54  E-value=0.0091  Score=47.14  Aligned_cols=44  Identities=25%  Similarity=0.623  Sum_probs=32.5

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      -+.||||.. .+.-|-   ++-+=||-.|.+|-.+.    +..||.|+.++.
T Consensus        48 lleCPvC~~-~l~~Pi---~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   48 LLDCPVCFN-PLSPPI---FQCDNGHLACSSCRTKV----SNKCPTCRLPIG   91 (299)
T ss_pred             hccCchhhc-cCcccc---eecCCCcEehhhhhhhh----cccCCccccccc
Confidence            468999996 556671   22234999999997542    468999999886

>KOG1734|consensus

Probab=95.22  E-value=0.0056  Score=47.83  Aligned_cols=53  Identities=19%  Similarity=0.357  Sum_probs=35.7

Q ss_pred             CCccCcccCCCcccCCCC-----cccccccCCccchhHHHHHhhcC-CCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTL-----KLMVNICGHPLCEGCVDLLFLKG-TGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~-----~~~~~~CGH~fC~~Ci~~~~~~~-~~~CP~C~~~~~   54 (120)
                      ++-.|.||...+..+-+-     +.....|+|+|-+.||....--| .+.||=|++.+.
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            456799998654322100     11234899999999999876554 478999987553

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

Probab=95.11  E-value=0.024  Score=33.02  Aligned_cols=43  Identities=16%  Similarity=0.413  Sum_probs=30.7

Q ss_pred             cCcccCCCcccCCCCcccccccC-----CccchhHHHHHhhcC-CCCCCCCC
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICG-----HPLCEGCVDLLFLKG-TGNCYECN   50 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CG-----H~fC~~Ci~~~~~~~-~~~CP~C~   50 (120)
                      .|-||++  ..++... +++||.     |.+-.+|+.+.+... ...||+|+
T Consensus         1 ~CrIC~~--~~~~~~~-l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD--EGDEGDP-LVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC--CCCCCCe-eEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889995  2233222 467885     889999999988753 46899995

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

>PRK00420 hypothetical protein; Validated

Probab=94.95  E-value=0.12  Score=35.39  Aligned_cols=22  Identities=36%  Similarity=0.446  Sum_probs=17.3

Q ss_pred             CCccCHHHHHHHHHHHHHHHHH
Q psy17995         87 EDFNSLAEYNDYLEEIEEIVFN  108 (120)
Q Consensus        87 ~~~~~l~~y~~yle~~E~~i~~  108 (120)
                      .+.+...++-.+|+.+|+|..-
T Consensus        89 ~~~~ri~Ei~~~l~~l~ki~~~  110 (112)
T PRK00420         89 EDIERITEIIRYLEVLERIRKI  110 (112)
T ss_pred             cchhHHHHHHHHHHHHHHHHHH
Confidence            3557788999999999988754

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

Probab=94.74  E-value=0.0034  Score=39.43  Aligned_cols=41  Identities=32%  Similarity=0.722  Sum_probs=22.5

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +..||.|...  ..+      +. ||-.|..|-..+...  +.||.|+.++.
T Consensus         1 e~~CP~C~~~--L~~------~~-~~~~C~~C~~~~~~~--a~CPdC~~~Le   41 (70)
T PF07191_consen    1 ENTCPKCQQE--LEW------QG-GHYHCEACQKDYKKE--AFCPDCGQPLE   41 (70)
T ss_dssp             --B-SSS-SB--EEE------ET-TEEEETTT--EEEEE--EE-TTT-SB-E
T ss_pred             CCcCCCCCCc--cEE------eC-CEEECccccccceec--ccCCCcccHHH
Confidence            4689999953  233      22 899999998765433  68999999874

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

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

Probab=94.46  E-value=0.016  Score=52.09  Aligned_cols=48  Identities=21%  Similarity=0.547  Sum_probs=35.3

Q ss_pred             ccCcccCCCccc-----CCCCcccccccCCccchhHHHHHhhc-CCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYR-----KPTLKLMVNICGHPLCEGCVDLLFLK-GTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~-----~p~~~~~~~~CGH~fC~~Ci~~~~~~-~~~~CP~C~~~~~   54 (120)
                      ..|+||.. ++.     -|+.+  -..|.|.|-.+|+.+++++ +...||.||..+.
T Consensus      1470 eECaICYs-vL~~vdr~lPskr--C~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1470 EECAICYS-VLDMVDRSLPSKR--CATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             chhhHHHH-HHHHHhccCCccc--cchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            47999984 543     23221  1269999999999999986 4589999997653

>KOG2817|consensus

Probab=94.43  E-value=0.035  Score=45.21  Aligned_cols=47  Identities=23%  Similarity=0.444  Sum_probs=34.2

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCC--CCCCCCCcc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGT--GNCYECNQP   52 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~--~~CP~C~~~   52 (120)
                      +.|||=++ -..+-|.+| ...|||++++.-+.++...|.  .+||=|-..
T Consensus       335 F~CPVlKe-qtsdeNPPm-~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  335 FICPVLKE-QTSDENPPM-MLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             eecccchh-hccCCCCCe-eeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            57999875 333323232 348999999999999988876  789988653

>KOG1941|consensus

Probab=94.18  E-value=0.015  Score=47.56  Aligned_cols=47  Identities=23%  Similarity=0.478  Sum_probs=35.9

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc-CCCCCCCCCc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK-GTGNCYECNQ   51 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~-~~~~CP~C~~   51 (120)
                      +.|..|.+.+-..|. .+...||.|.|-..|+..++.+ ++..||.|++
T Consensus       366 L~Cg~CGe~~Glk~e-~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  366 LYCGLCGESIGLKNE-RLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhcCCcc-cccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            569999875555542 2233599999999999999876 4688999995

>PLN02436 cellulose synthase A

Probab=94.13  E-value=0.052  Score=49.24  Aligned_cols=53  Identities=25%  Similarity=0.514  Sum_probs=42.3

Q ss_pred             ccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      ..|.||.+++-.+.+-.+++  +.||--.|..|.+.-.+.+...||.|++.+++-
T Consensus        37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~   91 (1094)
T PLN02436         37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRI   91 (1094)
T ss_pred             ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence            47999998876555554555  489999999999777777889999999988743

>PLN02189 cellulose synthase

Probab=94.09  E-value=0.054  Score=48.99  Aligned_cols=53  Identities=32%  Similarity=0.605  Sum_probs=41.7

Q ss_pred             ccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      ..|.||.+++-.+.+-.+++  ..||--.|..|.+.-.+.+...||.|++.+++-
T Consensus        35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~   89 (1040)
T PLN02189         35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRL   89 (1040)
T ss_pred             ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence            47999998766555444444  489999999999777777889999999998743

>KOG0826|consensus

Probab=93.94  E-value=0.04  Score=44.02  Aligned_cols=47  Identities=28%  Similarity=0.650  Sum_probs=36.1

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      ++-.||+|+. .-.||.   +...-|-+||-.|+-.+... -..||+-+.+.
T Consensus       299 ~~~~CpvClk-~r~Npt---vl~vSGyVfCY~Ci~~Yv~~-~~~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLK-KRQNPT---VLEVSGYVFCYPCIFSYVVN-YGHCPVTGYPA  345 (357)
T ss_pred             ccccChhHHh-ccCCCc---eEEecceEEeHHHHHHHHHh-cCCCCccCCcc
Confidence            4568999996 446774   24456999999999998884 47899988765

>KOG3113|consensus

Probab=93.92  E-value=0.043  Score=42.54  Aligned_cols=51  Identities=14%  Similarity=0.331  Sum_probs=36.5

Q ss_pred             CccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccCCCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNF   58 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~   58 (120)
                      .+.|||-.- .+ |..-+++.. +|||+|=..-+..+-   ...|++|+..+...+.
T Consensus       111 ~fiCPvtgl-eM-ng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~dv  162 (293)
T KOG3113|consen  111 RFICPVTGL-EM-NGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQEDDV  162 (293)
T ss_pred             eeecccccc-ee-cceEEEEEEeccceeccHHHHHHhh---hccccccCCcccccCe
Confidence            468999873 33 333344444 999999998888764   4679999999876543

>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit

Probab=93.88  E-value=0.047  Score=49.49  Aligned_cols=52  Identities=23%  Similarity=0.603  Sum_probs=42.2

Q ss_pred             ccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          4 QECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ..|-||.+++-.+++-.++|  +.||--.|+.|.+--.+.+...||.|++.+++
T Consensus        18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr   71 (1079)
T PLN02638         18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKR   71 (1079)
T ss_pred             ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence            47999998877666555555  49999999999976666788999999998873

>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit

Probab=93.44  E-value=0.07  Score=48.30  Aligned_cols=53  Identities=26%  Similarity=0.629  Sum_probs=42.8

Q ss_pred             CccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ...|.||.+++-.+++-.+++  ..||--.|+.|.+--.+.+...||.|++.+++
T Consensus        15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~   69 (1044)
T PLN02915         15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKR   69 (1044)
T ss_pred             cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence            357999998877776665555  48999999999976666678899999998874

>KOG1493|consensus

Probab=93.25  E-value=0.039  Score=35.34  Aligned_cols=35  Identities=23%  Similarity=0.469  Sum_probs=27.4

Q ss_pred             cccccccCCccchhHHHHHhhcC--CCCCCCCCcccc
Q psy17995         20 KLMVNICGHPLCEGCVDLLFLKG--TGNCYECNQPLR   54 (120)
Q Consensus        20 ~~~~~~CGH~fC~~Ci~~~~~~~--~~~CP~C~~~~~   54 (120)
                      +++..-|-|.|-..||.+.+...  ...||.||..+.
T Consensus        45 PLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   45 PLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            34456899999999999987743  478999998653

>PLN02195 cellulose synthase A

Probab=93.16  E-value=0.12  Score=46.51  Aligned_cols=52  Identities=23%  Similarity=0.591  Sum_probs=41.7

Q ss_pred             ccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          4 QECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ..|.||.+.+-.+++-.+++  ..||--.|+.|.+--.+.|...||.|++.++.
T Consensus         7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~   60 (977)
T PLN02195          7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA   60 (977)
T ss_pred             ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence            37999998776666555555  48999999999976666678899999999883

>KOG4362|consensus

Probab=93.06  E-value=0.03  Score=48.58  Aligned_cols=52  Identities=27%  Similarity=0.659  Sum_probs=41.6

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc--CCCCCCCCCccccCCCCcc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK--GTGNCYECNQPLRRGNFRV   60 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~--~~~~CP~C~~~~~~~~~~~   60 (120)
                      +.||||.. .+..|    ..+.|-|.||..|+...|..  +...||+|+..+.+...+.
T Consensus        22 lEc~ic~~-~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E   75 (684)
T KOG4362|consen   22 LECPICLE-HVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE   75 (684)
T ss_pred             ccCCceeE-Eeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc
Confidence            58999996 67777    23599999999999998774  3578999998887766554

>PLN02400 cellulose synthase

Probab=92.02  E-value=0.098  Score=47.56  Aligned_cols=52  Identities=31%  Similarity=0.590  Sum_probs=41.8

Q ss_pred             ccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          4 QECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ..|.||.+++-.+.+-.+++  ..||--.|+.|.+--.+.+...||.|++.+++
T Consensus        37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR   90 (1085)
T PLN02400         37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRR   90 (1085)
T ss_pred             ceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccc
Confidence            37999998877666655555  48999999999976556678899999998874

>KOG1940|consensus

Probab=91.97  E-value=0.13  Score=40.34  Aligned_cols=47  Identities=26%  Similarity=0.555  Sum_probs=34.7

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQ   51 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~   51 (120)
                      +..||+|.+.+|..- ....+.+|||..=..|+....-.+ .+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~-~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSF-EDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhcccc-ccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence            456999997554321 111245999999999998877777 99999998

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

Probab=91.90  E-value=0.057  Score=31.50  Aligned_cols=46  Identities=24%  Similarity=0.652  Sum_probs=23.7

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      .+.|-.|.-   .+-+   ++.-=.|-.|..|+...++. +..||+|+.++..
T Consensus         2 r~nCKsCWf---~~k~---Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPt   47 (50)
T PF03854_consen    2 RYNCKSCWF---ANKG---LIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPT   47 (50)
T ss_dssp             -----SS-S-----SS---EEE-SS-EEEHHHHHHT-SS-SSEETTTTEE---
T ss_pred             CccChhhhh---cCCC---eeeecchhHHHHHHHHHhcc-ccCCCcccCcCcc
Confidence            356777762   2222   13333599999999988876 4789999998753

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.

>KOG1571|consensus

Probab=91.62  E-value=0.072  Score=42.94  Aligned_cols=42  Identities=29%  Similarity=0.599  Sum_probs=27.3

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ..|.||.+. ..+.    +--||||.-|  |..-  +..-+.||+|+..++
T Consensus       306 ~lcVVcl~e-~~~~----~fvpcGh~cc--ct~c--s~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  306 DLCVVCLDE-PKSA----VFVPCGHVCC--CTLC--SKHLPQCPVCRQRIR  347 (355)
T ss_pred             CceEEecCC-ccce----eeecCCcEEE--chHH--HhhCCCCchhHHHHH
Confidence            479999963 3333    2349999966  6443  333466999998664

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

Probab=91.60  E-value=0.12  Score=26.31  Aligned_cols=9  Identities=33%  Similarity=1.058  Sum_probs=5.8

Q ss_pred             cCcccCCCc
Q psy17995          5 ECPRCKTTK   13 (120)
Q Consensus         5 ~CpiC~~~~   13 (120)
                      .||.|...+
T Consensus         2 ~CP~C~~~V   10 (26)
T PF10571_consen    2 TCPECGAEV   10 (26)
T ss_pred             cCCCCcCCc
Confidence            578887533

Several members are annotated as putative helicases.

>KOG3799|consensus

Probab=90.91  E-value=0.11  Score=36.91  Aligned_cols=27  Identities=41%  Similarity=0.930  Sum_probs=19.4

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDL   37 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~   37 (120)
                      |+..|.||+.+.|-        ..|||. |..|-.+
T Consensus        64 ddatC~IC~KTKFA--------DG~GH~-C~YCq~r   90 (169)
T KOG3799|consen   64 DDATCGICHKTKFA--------DGCGHN-CSYCQTR   90 (169)
T ss_pred             cCcchhhhhhcccc--------cccCcc-cchhhhh
Confidence            57799999975433        469997 7888544

>PHA03096 p28-like protein; Provisional

Probab=90.86  E-value=0.15  Score=40.11  Aligned_cols=50  Identities=12%  Similarity=0.150  Sum_probs=31.6

Q ss_pred             ccCcccCCCcccCCCC--ccc-ccccCCccchhHHHHHhhcC--C---CCCCCCCccc
Q psy17995          4 QECPRCKTTKYRKPTL--KLM-VNICGHPLCEGCVDLLFLKG--T---GNCYECNQPL   53 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~--~~~-~~~CGH~fC~~Ci~~~~~~~--~---~~CP~C~~~~   53 (120)
                      -.|.||++.++..|..  .+. .+.|-|.||..|+.......  .   +.||+|+..+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence            4699999877655411  222 34899999999998654431  2   3455555443

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

Probab=90.52  E-value=0.31  Score=27.55  Aligned_cols=41  Identities=24%  Similarity=0.552  Sum_probs=20.5

Q ss_pred             CcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCC-CCCCCC
Q psy17995          6 CPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGT-GNCYEC   49 (120)
Q Consensus         6 CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~-~~CP~C   49 (120)
                      |.+|++ +..-..+  =.+ .|+=++-..|+..+|+..+ ..||.|
T Consensus         1 C~~C~~-iv~~G~~--C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKE-IVTQGQR--CSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-S-B-SSSEE---SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             Ccccch-hHeeecc--CCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            667885 4332200  012 5888999999999999754 369987

; PDB: 3NW0_A 2CT0_A.

>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production

Probab=90.23  E-value=0.18  Score=33.18  Aligned_cols=35  Identities=34%  Similarity=0.831  Sum_probs=25.5

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      .|-+|.. ....+         ||.||..|...     ...|+.||+.+.
T Consensus        46 ~C~~CK~-~v~q~---------g~~YCq~CAYk-----kGiCamCGKki~   80 (90)
T PF10235_consen   46 KCKICKT-KVHQP---------GAKYCQTCAYK-----KGICAMCGKKIL   80 (90)
T ss_pred             ccccccc-ccccC---------CCccChhhhcc-----cCcccccCCeec
Confidence            6788884 22322         89999999643     368999999873

This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].

>KOG2114|consensus

Probab=90.23  E-value=0.13  Score=45.63  Aligned_cols=43  Identities=26%  Similarity=0.750  Sum_probs=32.2

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      -+|..|.. .+--|   +|---|||.|-+.|+.    .+...||.|+..++
T Consensus       841 skCs~C~~-~LdlP---~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  841 SKCSACEG-TLDLP---FVHFLCGHSYHQHCLE----DKEDKCPKCLPELR  883 (933)
T ss_pred             eeecccCC-ccccc---eeeeecccHHHHHhhc----cCcccCCccchhhh
Confidence            47999995 33445   3445999999999987    45689999987443

>KOG3161|consensus

Probab=89.86  E-value=0.093  Score=45.50  Aligned_cols=37  Identities=30%  Similarity=0.660  Sum_probs=25.6

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK   41 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~   41 (120)
                      +.|+||.. .|.+...--+...|||.+|..|+..+...
T Consensus        12 l~c~ic~n-~f~~~~~~Pvsl~cghtic~~c~~~lyn~   48 (861)
T KOG3161|consen   12 LLCDICLN-LFVVQRLEPVSLQCGHTICGHCVQLLYNA   48 (861)
T ss_pred             hhchHHHH-HHHHHhcCcccccccchHHHHHHHhHhhc
Confidence            57999974 55443221123389999999999987764

>KOG1428|consensus

Probab=89.77  E-value=0.29  Score=46.46  Aligned_cols=50  Identities=22%  Similarity=0.457  Sum_probs=36.8

Q ss_pred             CccCcccCCCccc-CCCCcccccccCCccchhHHHHHhhc---CC------CCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYR-KPTLKLMVNICGHPLCEGCVDLLFLK---GT------GNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~-~p~~~~~~~~CGH~fC~~Ci~~~~~~---~~------~~CP~C~~~~~~   55 (120)
                      +.+|-||.+..+. .|   ..+..|||.|--.|..+++++   |+      ..||+|..++..
T Consensus      3486 DDmCmICFTE~L~AAP---~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAP---AIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             CceEEEEehhhhCCCc---ceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            4589999865432 33   124599999999999999875   33      479999988753

>KOG4275|consensus

Probab=89.47  E-value=0.032  Score=44.08  Aligned_cols=43  Identities=28%  Similarity=0.617  Sum_probs=28.8

Q ss_pred             CccCcccCCCcccCCCCcccccccCCcc-chhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPL-CEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~f-C~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +..|.||.+ .-.+-    +..+|||.. |-.|-.+.     ..||+||+.+++
T Consensus       300 ~~LC~ICmD-aP~DC----vfLeCGHmVtCt~CGkrm-----~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMD-APRDC----VFLECGHMVTCTKCGKRM-----NECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhc-CCcce----EEeecCcEEeehhhcccc-----ccCchHHHHHHH
Confidence            467999995 43443    345999974 66664432     479999886543

>PRK14559 putative protein serine/threonine phosphatase; Provisional

Probab=88.44  E-value=0.27  Score=42.66  Aligned_cols=20  Identities=30%  Similarity=1.044  Sum_probs=13.2

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhH
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGC   34 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~C   34 (120)
                      ..||-|..   .+|.        |++||..|
T Consensus         2 ~~Cp~Cg~---~n~~--------~akFC~~C   21 (645)
T PRK14559          2 LICPQCQF---ENPN--------NNRFCQKC   21 (645)
T ss_pred             CcCCCCCC---cCCC--------CCcccccc
Confidence            47999995   3442        56666666

>KOG0298|consensus

Probab=87.29  E-value=0.14  Score=47.25  Aligned_cols=44  Identities=25%  Similarity=0.548  Sum_probs=34.6

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQP   52 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~   52 (120)
                      ..|++|++ +..+-.+   +..|||-+|..|....... ...||.|+..
T Consensus      1154 ~~c~ic~d-il~~~~~---I~~cgh~~c~~c~~~~l~~-~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1154 FVCEICLD-ILRNQGG---IAGCGHEPCCRCDELWLYA-SSRCPICKSI 1197 (1394)
T ss_pred             cchHHHHH-HHHhcCC---eeeechhHhhhHHHHHHHH-hccCcchhhh
Confidence            47999995 7776543   7899999999998876654 4789999853

>KOG2113|consensus

Probab=87.10  E-value=0.4  Score=38.47  Aligned_cols=44  Identities=5%  Similarity=-0.077  Sum_probs=31.4

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCcc
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQP   52 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~   52 (120)
                      |..+.|-+|........     ..+|||+ ||.+|..   .+..+.||+|...
T Consensus       341 ~s~~~~~~~~~~~~st~-----~~~~~~n~~~~~~a~---~s~~~~~~~c~~~  385 (394)
T KOG2113|consen  341 MSSLKGTSAGFGLLSTI-----WSGGNMNLSPGSLAS---ASASPTSSTCDHN  385 (394)
T ss_pred             hhhcccccccCceeeeE-----eecCCcccChhhhhh---cccCCcccccccc
Confidence            56678888886543322     4699998 7999987   2335789999763

>KOG2068|consensus

Probab=86.84  E-value=0.53  Score=37.69  Aligned_cols=84  Identities=14%  Similarity=0.314  Sum_probs=46.0

Q ss_pred             CCccchhHHHHHhhcCC--CCCCCCCccccCCCC--ccccccchhHHHHHHHH-HHhhhh---hhcccCCccCHHHHHHH
Q psy17995         27 GHPLCEGCVDLLFLKGT--GNCYECNQPLRRGNF--RVQLFDDSSVEKEVEIR-KKLLKD---YNKVEEDFNSLAEYNDY   98 (120)
Q Consensus        27 GH~fC~~Ci~~~~~~~~--~~CP~C~~~~~~~~~--~~~~f~d~~~~~e~~~r-k~~~k~---~~~~~~~~~~l~~y~~y   98 (120)
                      |-.+|..|+..+-....  +.||-|++++.+..+  ++...++...  +...+ ++..++   ...++.+|.+++-.+..
T Consensus         1 ~yqIc~~cwh~i~~~~~~~grcpncr~ky~e~ki~~r~~~~~~l~~--~~n~~kk~e~e~k~~~~s~r~~ls~~rvVqkn   78 (327)
T KOG2068|consen    1 GYQICDSCWHHIATSAEKKGRCPNCRTKYKEEKIVLRRVQWESLVA--EKNKEKKKEQEIKRKLSSNRKHLSGVRVVQKN   78 (327)
T ss_pred             CceeeHHHHhccccccccccCCccccCccchhhhccccccHHHHHH--hhhhhhhhHHHHhhhhhhcccccccchhhhhh
Confidence            44679999888766555  899999999975532  2222222211  11111 122222   22344668788877777


Q ss_pred             HHHHHHHHHHHhcc
Q psy17995         99 LEEIEEIVFNLCNN  112 (120)
Q Consensus        99 le~~E~~i~~L~~~  112 (120)
                      |+-+-.+=.+|-+.
T Consensus        79 lvyvvgl~~~~ade   92 (327)
T KOG2068|consen   79 LVYVVGLPLDLADE   92 (327)
T ss_pred             hhhhhCCCccccch
Confidence            66654444444333

>PF12773 DZR: Double zinc ribbon

Probab=86.84  E-value=0.61  Score=26.55  Aligned_cols=29  Identities=17%  Similarity=0.303  Sum_probs=20.2

Q ss_pred             CCccchhHHHHHh--hcCCCCCCCCCccccC
Q psy17995         27 GHPLCEGCVDLLF--LKGTGNCYECNQPLRR   55 (120)
Q Consensus        27 GH~fC~~Ci~~~~--~~~~~~CP~C~~~~~~   55 (120)
                      +-.||..|=..+.  ......||.|++.+..
T Consensus        11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~   41 (50)
T PF12773_consen   11 DAKFCPHCGTPLPPPDQSKKICPNCGAENPP   41 (50)
T ss_pred             cccCChhhcCChhhccCCCCCCcCCcCCCcC
Confidence            4678888876665  2334789999997643

>KOG0006|consensus

Probab=86.40  E-value=0.91  Score=36.62  Aligned_cols=37  Identities=24%  Similarity=0.660  Sum_probs=27.3

Q ss_pred             CCCccC--cccCCCcccCCCCcccc--cccCCccchhHHHH
Q psy17995          1 MDDQEC--PRCKTTKYRKPTLKLMV--NICGHPLCEGCVDL   37 (120)
Q Consensus         1 ~d~~~C--piC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~   37 (120)
                      |+-..|  |.|...++..|+.+-++  ..||-.||+.|...
T Consensus       313 ~gGVlCP~pgCG~gll~EPD~rkvtC~~gCgf~FCR~C~e~  353 (446)
T KOG0006|consen  313 MGGVLCPRPGCGAGLLPEPDQRKVTCEGGCGFAFCRECKEA  353 (446)
T ss_pred             cCCEecCCCCCCcccccCCCCCcccCCCCchhHhHHHHHhh
Confidence            455667  46877788888765443  36999999999983

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

Probab=86.34  E-value=0.58  Score=27.20  Aligned_cols=44  Identities=25%  Similarity=0.483  Sum_probs=18.9

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhh----cCCCCCCCCCcc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFL----KGTGNCYECNQP   52 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~----~~~~~CP~C~~~   52 (120)
                      +.||+... ....|.   .-..|.|.-|-+= ..++.    .+...||+|+++
T Consensus         3 L~CPls~~-~i~~P~---Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQ-RIRIPV---RGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSS-B-SSEE---EETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCC-EEEeCc---cCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            68999995 667771   1248999966332 22222    345789999864

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

>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.61  E-value=0.64  Score=29.52  Aligned_cols=51  Identities=20%  Similarity=0.402  Sum_probs=30.8

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      .|--|-.++-.+..-.+ +-.=-|.||..|....+.   ..||-|+..+.....+
T Consensus         7 nCECCDrDLpp~s~dA~-ICtfEcTFCadCae~~l~---g~CPnCGGelv~RP~R   57 (84)
T COG3813           7 NCECCDRDLPPDSTDAR-ICTFECTFCADCAENRLH---GLCPNCGGELVARPIR   57 (84)
T ss_pred             CCcccCCCCCCCCCcee-EEEEeeehhHhHHHHhhc---CcCCCCCchhhcCcCC
Confidence            46666544322222221 212237899999987654   5899999988665444

>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=85.38  E-value=2.3  Score=30.83  Aligned_cols=15  Identities=13%  Similarity=0.204  Sum_probs=12.0

Q ss_pred             CCc-cCHHHHHHHHHH
Q psy17995         87 EDF-NSLAEYNDYLEE  101 (120)
Q Consensus        87 ~~~-~~l~~y~~yle~  101 (120)
                      +.| |+-.++..|...
T Consensus       115 C~F~GtY~eLrKHar~  130 (162)
T PF07800_consen  115 CSFSGTYSELRKHARS  130 (162)
T ss_pred             cccccCHHHHHHHHHh
Confidence            678 888888888754

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.

>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length

Probab=85.09  E-value=1  Score=27.13  Aligned_cols=46  Identities=22%  Similarity=0.612  Sum_probs=29.3

Q ss_pred             cCcccCCCcccCCCCcccc-c-ccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          5 ECPRCKTTKYRKPTLKLMV-N-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~-~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      .|-.|..++-.+..-. ++ + .|  .||..|....+.   ..||-||..|.++
T Consensus         7 nCE~C~~dLp~~s~~A-~ICSfEC--TFC~~C~e~~l~---~~CPNCgGelv~R   54 (57)
T PF06906_consen    7 NCECCDKDLPPDSPEA-YICSFEC--TFCADCAETMLN---GVCPNCGGELVRR   54 (57)
T ss_pred             CccccCCCCCCCCCcc-eEEeEeC--cccHHHHHHHhc---CcCcCCCCccccC
Confidence            5777775543222111 22 2 33  699999998774   5799999887654

This family contains a number of conserved cysteine residues and its function is unknown.

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

Probab=83.87  E-value=1.3  Score=35.88  Aligned_cols=25  Identities=24%  Similarity=0.596  Sum_probs=20.0

Q ss_pred             chhHHHHHhhc------------CCCCCCCCCccccC
Q psy17995         31 CEGCVDLLFLK------------GTGNCYECNQPLRR   55 (120)
Q Consensus        31 C~~Ci~~~~~~------------~~~~CP~C~~~~~~   55 (120)
                      |-+|+.+.|.+            +..+||.||+.|.-
T Consensus       316 C~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  316 CLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             HHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            88999999873            23689999998863

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

>KOG3039|consensus

Probab=83.73  E-value=0.73  Score=35.83  Aligned_cols=31  Identities=16%  Similarity=0.190  Sum_probs=26.0

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhh
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFL   40 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~   40 (120)
                      -|+.|+ ..+.+|    ++++=||.||+.||-..+-
T Consensus        45 cCsLtL-qPc~dP----vit~~GylfdrEaILe~il   75 (303)
T KOG3039|consen   45 CCSLTL-QPCRDP----VITPDGYLFDREAILEYIL   75 (303)
T ss_pred             eeeeec-ccccCC----ccCCCCeeeeHHHHHHHHH
Confidence            478888 488999    6899999999999987654

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=83.41  E-value=1.1  Score=23.63  Aligned_cols=11  Identities=27%  Similarity=0.612  Sum_probs=8.4

Q ss_pred             CCCCCCCCCcc
Q psy17995         42 GTGNCYECNQP   52 (120)
Q Consensus        42 ~~~~CP~C~~~   52 (120)
                      .+..||+|+.+
T Consensus        16 ~~~~CP~Cg~~   26 (33)
T cd00350          16 APWVCPVCGAP   26 (33)
T ss_pred             CCCcCcCCCCc
Confidence            35789999873

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>KOG2930|consensus

Probab=82.65  E-value=1.1  Score=30.38  Aligned_cols=28  Identities=18%  Similarity=0.402  Sum_probs=23.9

Q ss_pred             cccCCccchhHHHHHhhcCCCCCCCCCcc
Q psy17995         24 NICGHPLCEGCVDLLFLKGTGNCYECNQP   52 (120)
Q Consensus        24 ~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~   52 (120)
                      ..|.|.|--.||.+.++.. ..||.|.+.
T Consensus        79 G~CNHaFH~hCisrWlktr-~vCPLdn~e  106 (114)
T KOG2930|consen   79 GVCNHAFHFHCISRWLKTR-NVCPLDNKE  106 (114)
T ss_pred             eecchHHHHHHHHHHHhhc-CcCCCcCcc
Confidence            3799999999999988864 689999764

>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria

Probab=82.05  E-value=0.23  Score=27.78  Aligned_cols=28  Identities=25%  Similarity=0.393  Sum_probs=16.1

Q ss_pred             ccCCccchhHHHHHhhcCCCCCCCCCc-ccc
Q psy17995         25 ICGHPLCEGCVDLLFLKGTGNCYECNQ-PLR   54 (120)
Q Consensus        25 ~CGH~fC~~Ci~~~~~~~~~~CP~C~~-~~~   54 (120)
                      .|||.|=..-  .........||.|+. .++
T Consensus        10 ~Cg~~fe~~~--~~~~~~~~~CP~Cg~~~~~   38 (42)
T PF09723_consen   10 ECGHEFEVLQ--SISEDDPVPCPECGSTEVR   38 (42)
T ss_pred             CCCCEEEEEE--EcCCCCCCcCCCCCCCceE
Confidence            6888873221  111123478999998 443

The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins

Probab=81.62  E-value=0.71  Score=26.94  Aligned_cols=40  Identities=25%  Similarity=0.489  Sum_probs=24.7

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc-CCCCCCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK-GTGNCYECNQPL   53 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~-~~~~CP~C~~~~   53 (120)
                      +.+.||.|.. -+. -          ..+...|....... ....||+|...+
T Consensus         1 ~~f~CP~C~~-~~~-~----------~~L~~H~~~~H~~~~~~v~CPiC~~~~   41 (54)
T PF05605_consen    1 DSFTCPYCGK-GFS-E----------SSLVEHCEDEHRSESKNVVCPICSSRV   41 (54)
T ss_pred             CCcCCCCCCC-ccC-H----------HHHHHHHHhHCcCCCCCccCCCchhhh
Confidence            4689999996 322 1          24555555554443 346899998643

Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.

>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=81.06  E-value=1.3  Score=35.62  Aligned_cols=48  Identities=21%  Similarity=0.362  Sum_probs=33.5

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCC--CCCCCCCccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGT--GNCYECNQPL   53 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~--~~CP~C~~~~   53 (120)
                      +.||+=++ ...+-+.+ +...|||++=..-++.+-+.|+  ..||-|-..-
T Consensus       337 FiCPVlKe-~~t~ENpP-~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~  386 (396)
T COG5109         337 FICPVLKE-LCTDENPP-VMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS  386 (396)
T ss_pred             eeccccHh-hhcccCCC-eeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence            57998775 33332323 2348999999999998877764  7899886543

>KOG1815|consensus

Probab=80.78  E-value=1  Score=37.18  Aligned_cols=49  Identities=27%  Similarity=0.608  Sum_probs=32.1

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc----CC---CCCC--CCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK----GT---GNCY--ECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~----~~---~~CP--~C~~~~~~   55 (120)
                      ...|.||.+ .+..   .+..-.|||.||..|+..++..    +.   ..||  .|...+..
T Consensus        70 ~~~c~ic~~-~~~~---~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~  127 (444)
T KOG1815|consen   70 DVQCGICVE-SYDG---EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGE  127 (444)
T ss_pred             cccCCcccC-CCcc---hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCC
Confidence            368999996 3333   1223499999999999998764    22   2455  56665543

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

Probab=80.42  E-value=1.4  Score=25.96  Aligned_cols=25  Identities=28%  Similarity=0.794  Sum_probs=14.2

Q ss_pred             ccCCccchhHHHHHhhcCCCCCCCCC
Q psy17995         25 ICGHPLCEGCVDLLFLKGTGNCYECN   50 (120)
Q Consensus        25 ~CGH~fC~~Ci~~~~~~~~~~CP~C~   50 (120)
                      .|++.||-.| +.+....--.||.|.
T Consensus        26 ~C~~~FC~dC-D~fiHE~LH~CPGC~   50 (51)
T PF07975_consen   26 KCKNHFCIDC-DVFIHETLHNCPGCE   50 (51)
T ss_dssp             TTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred             CCCCccccCc-ChhhhccccCCcCCC
Confidence            7999999999 333343446899985

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

>smart00834 CxxC_CXXC_SSSS Putative regulatory protein

Probab=80.23  E-value=0.59  Score=25.32  Aligned_cols=13  Identities=38%  Similarity=0.848  Sum_probs=9.7

Q ss_pred             CCCCCCCCccccC
Q psy17995         43 TGNCYECNQPLRR   55 (120)
Q Consensus        43 ~~~CP~C~~~~~~   55 (120)
                      ...||.|+..+++
T Consensus        26 ~~~CP~Cg~~~~r   38 (41)
T smart00834       26 LATCPECGGDVRR   38 (41)
T ss_pred             CCCCCCCCCccee
Confidence            4689999986543

CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	120
1g25_A	65	Solution Structure Of The N-Terminal Domain Of The		3e-26

>pdb|1G25|A Chain A, Solution Structure Of The N-Terminal Domain Of The Human Tfiih Mat1 Subunit Length = 65

Iteration: 1
 Score =  113 bits (282), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 50/65 (76%), Positives = 56/65 (86%)
Query: 1  MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
          MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct: 1  MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60
Query: 61 QLFDD 65
          QLF+D
Sbjct: 61 QLFED 65

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	120
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	3e-27
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	8e-04

>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 = 94.6 bits (235), Expect = 3e-27
 Identities = 50/65 (76%), Positives = 56/65 (86%)

Query: 1  MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
          MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct: 1  MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query: 61 QLFDD 65
          QLF+D
Sbjct: 61 QLFED 65

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

 Score = 35.1 bits (81), Expect = 8e-04
 Identities = 15/75 (20%), Positives = 24/75 (32%), Gaps = 5/75 (6%)

Query: 6  CPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDD 65
          C  C    +       ++  C H  C  C+   FL     C  C   +   + +     D
Sbjct: 25 CGICFE-YFNIAM---IIPQCSHNYCSLCIRK-FLSYKTQCPTCCVTVTEPDLKNNRILD 79

Query: 66 SSVEKEVEIRKKLLK 80
            V+     R  LL+
Sbjct: 80 ELVKSLNFARNHLLQ 94

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	120
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.77
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.66
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.57
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.57
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.55
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.51
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.48
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.47
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.47
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.46
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.46
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.45
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.44
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.44
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.43
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.43
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.41
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.41
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.4
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.4
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.38
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.38
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.37
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.37
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.37
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.37
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.33
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.33
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.32
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.32
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.32
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.31
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.31
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.31
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.3
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.28
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.28
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.28
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.27
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.27
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.23
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.23
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.2
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.18
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.16
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.16
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.11
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.1
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.1
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.09
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.08
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.02
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.02
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.0
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.98
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.92
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.91
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.91
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.9
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.85
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.79
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.79
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.78
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.7
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.61
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.44
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.1
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.96
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.8
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.35
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.31
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	97.12
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.05
3nw0_A	238	Non-structural maintenance of chromosomes element	95.74
2jne_A	101	Hypothetical protein YFGJ; zinc fingers, two zinc,	94.96
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	94.92
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.91
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	92.18
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	91.63
6rxn_A	46	Rubredoxin; electron transfer(iron-sulfur protein)	89.63
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	89.19
2a20_A	62	Regulating synaptic membrane exocytosis protein 2;	86.85
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	86.11
4rxn_A	54	Rubredoxin; electron transfer(iron-sulfur protein)	83.4
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	83.21
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	81.68
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	81.49
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	81.25

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

Probab=99.77  E-value=3.2e-19  Score=108.70  Aligned_cols=65  Identities=77%  Similarity=1.506  Sum_probs=57.6

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccc
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDD   65 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d   65 (120)
                      |+++.||||+++.+.+|..++++++|||+||..||..++..+...||+|++.+.+.++++.+|+|
T Consensus         1 m~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~d   65 (65)
T 1g25_A            1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQLFED   65 (65)
T ss_dssp             CCTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCEEECCCC
T ss_pred             CCCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccceeecccC
Confidence            89999999994378899766566799999999999999887778899999999999999998886

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

Probab=99.66  E-value=9e-18  Score=117.35  Aligned_cols=95  Identities=23%  Similarity=0.451  Sum_probs=75.9

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCC-----CccccccchhHHHHHHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGN-----FRVQLFDDSSVEKEVEIRK   76 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~-----~~~~~f~d~~~~~e~~~rk   76 (120)
                      +++.||||++ ++.+|    ++++|||+||..||..++..+...||+|+..+....     ....+|.|..+++++..  
T Consensus        30 ~~~~C~IC~~-~~~~p----v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~~~~~~d~~~~~~i~~--  102 (141)
T 3knv_A           30 AKYLCSACRN-VLRRP----FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVES--  102 (141)
T ss_dssp             GGGBCTTTCS-BCSSE----EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCCTTTTEECGGGCEECHHHHHHHHT--
T ss_pred             cCcCCCCCCh-hhcCc----EECCCCCccCHHHHHHHHhcCCCCCCCCCCcccccccccccchhhhcccHHHHHHHcc--
Confidence            4579999995 88999    457999999999999999876678999999753221     12367899999999974  


Q ss_pred             Hhhhhhhccc-CCc-cCHHHHHH-HHHHHHHH
Q psy17995         77 KLLKDYNKVE-EDF-NSLAEYND-YLEEIEEI  105 (120)
Q Consensus        77 ~~~k~~~~~~-~~~-~~l~~y~~-yle~~E~~  105 (120)
                        ++++|.+. +.| +++.+|++ |+.+-+.+
T Consensus       103 --L~v~Cpn~GC~~~~~l~~l~~~H~~~~~~~  132 (141)
T 3knv_A          103 --LPAVCPSDGCTWKGTLKEYESCHEGRCPLM  132 (141)
T ss_dssp             --SEEECCSTTCCCEEEHHHHHHHTTTCCHHH
T ss_pred             --cccccCCCCCCCEeEHHHHHHHHHHHhHHH
Confidence              89998765 677 99999998 88665554

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

Probab=99.57  E-value=1.6e-15  Score=95.02  Aligned_cols=56  Identities=13%  Similarity=0.284  Sum_probs=46.9

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQL   62 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~   62 (120)
                      +++.||||++ ++.+|    ++++|||+||..||..++..+...||+|+..+...++.++.
T Consensus         7 ~~~~C~IC~~-~~~~P----v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~   62 (78)
T 1t1h_A            7 EYFRCPISLE-LMKDP----VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNY   62 (78)
T ss_dssp             SSSSCTTTSC-CCSSE----EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECT
T ss_pred             ccCCCCCccc-cccCC----EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCH
Confidence            5689999995 88999    45699999999999999987678999999999876554443

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

Probab=99.57  E-value=2.8e-16  Score=106.08  Aligned_cols=87  Identities=25%  Similarity=0.382  Sum_probs=70.2

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHHHHHHhhhh
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKD   81 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~~k~   81 (120)
                      +++.||||++ .+.+|    ++++|||.||..||..++..+...||+|+..+...    .++.+..+++.+..    +++
T Consensus        17 ~~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~----~~~~~~~l~~~i~~----l~v   83 (118)
T 3hct_A           17 SKYECPICLM-ALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN----QLFPDNFAKREILS----LMV   83 (118)
T ss_dssp             GGGBCTTTCS-BCSSE----EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG----GCEECHHHHHHHHT----SEE
T ss_pred             CCCCCCcCCh-hhcCe----EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH----hcccCHHHHHHHcc----cee
Confidence            3579999995 88888    45699999999999998887656999999998753    45678888888864    888


Q ss_pred             hhccc-CCc-cCHHHHHHHHHH
Q psy17995         82 YNKVE-EDF-NSLAEYNDYLEE  101 (120)
Q Consensus        82 ~~~~~-~~~-~~l~~y~~yle~  101 (120)
                      ++.+. +.| +++.++.+|+++
T Consensus        84 ~C~n~gC~~~~~~~~l~~H~~~  105 (118)
T 3hct_A           84 KCPNEGCLHKMELRHLEDHQAH  105 (118)
T ss_dssp             ECSSTTCCCEEEGGGSGGGTSS
T ss_pred             ECCCCCCCCEEeeHHHHHHHHH
Confidence            88755 667 889888888753

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

Probab=99.55  E-value=3e-15  Score=100.39  Aligned_cols=87  Identities=18%  Similarity=0.286  Sum_probs=65.5

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHHHHHHhhhhh
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKDY   82 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~~k~~   82 (120)
                      ++.||||++ .+.+|    ++++|||+||..||..++..+...||+|+..+...++..   .+..+.+.+.    -++++
T Consensus        23 ~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~---~~~~l~~~i~----~l~v~   90 (116)
T 1rmd_A           23 SISCQICEH-ILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES---PVKSFLNILN----SLMVK   90 (116)
T ss_dssp             HTBCTTTCS-BCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBC---CCHHHHHHHH----HCEEE
T ss_pred             CCCCCCCCc-HhcCc----EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccc---cHHHHHHHHH----HhcCC
Confidence            468999995 88888    457999999999999999875678999999987654432   2333443443    36777


Q ss_pred             hccc-CCc-cCHHHHHHHHHH
Q psy17995         83 NKVE-EDF-NSLAEYNDYLEE  101 (120)
Q Consensus        83 ~~~~-~~~-~~l~~y~~yle~  101 (120)
                      +.+. +.| +++.++.+|+++
T Consensus        91 C~~~gC~~~~~~~~~~~H~~~  111 (116)
T 1rmd_A           91 CPAQDCNEEVSLEKYNHHVSS  111 (116)
T ss_dssp             CCSTTCCCEEEHHHHHHHHHT
T ss_pred             CCCCCCcchhhHhHHHHHHHH
Confidence            7764 666 899999999863

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

Probab=99.51  E-value=4.9e-15  Score=105.34  Aligned_cols=86  Identities=26%  Similarity=0.385  Sum_probs=69.7

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHHHHHHhhhh
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVEIRKKLLKD   81 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~~rk~~~k~   81 (120)
                      +++.||||++ ++.+|    ++++|||+||..||..++..+...||.|+..+...    .++.+..+++++..    +++
T Consensus        17 ~~~~C~IC~~-~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~----~~~~~~~~~~~i~~----l~v   83 (170)
T 3hcs_A           17 SKYECPICLM-ALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN----QLFPDNFAKREILS----LMV   83 (170)
T ss_dssp             GGGBCTTTCS-BCSSE----EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG----GCEECHHHHHHHHT----SEE
T ss_pred             CCCCCCCCCh-hhcCc----EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchh----hhhhhHHHHHHHhh----ccc
Confidence            4579999995 88999    45799999999999999887556999999998754    35678888888864    888


Q ss_pred             hhccc-CCc-cCHHHHHHHHH
Q psy17995         82 YNKVE-EDF-NSLAEYNDYLE  100 (120)
Q Consensus        82 ~~~~~-~~~-~~l~~y~~yle  100 (120)
                      ++.+. +.+ .++.++.+|++
T Consensus        84 ~C~n~GC~~~~~~~~l~~H~~  104 (170)
T 3hcs_A           84 KCPNEGCLHKMELRHLEDHQA  104 (170)
T ss_dssp             ECCSTTCCCEEEGGGHHHHHT
T ss_pred             CCCCCCCCceecHhHHHHHHh
Confidence            88765 566 88888888863

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

Probab=99.48  E-value=3e-14  Score=86.68  Aligned_cols=51  Identities=25%  Similarity=0.742  Sum_probs=42.9

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGN   57 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (120)
                      +++.||||++ .+.+|    ++++|||+||..||..++..+...||+|++.+...+
T Consensus        14 ~~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           14 DKYKCEKCHL-VLCSP----KQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCEECTTTCC-EESSC----CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             cCCCCCCCCh-HhcCe----eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            4678999995 88888    346999999999999998755678999999987643

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

Probab=99.47  E-value=1.8e-14  Score=97.68  Aligned_cols=48  Identities=27%  Similarity=0.675  Sum_probs=41.6

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ++.||||++ .+.+|    ++++|||+||..||..++..+...||.|+..+..
T Consensus        52 ~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQE-LVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSS-BCSSE----EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCCh-HHcCc----EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            468999995 88888    4569999999999999998666799999999976

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

Probab=99.47  E-value=9.9e-15  Score=91.20  Aligned_cols=57  Identities=21%  Similarity=0.591  Sum_probs=45.9

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC------CCCCCCCCccccCCCCccccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG------TGNCYECNQPLRRGNFRVQLF   63 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~------~~~CP~C~~~~~~~~~~~~~f   63 (120)
                      +++.||||++ .+.+|    ++.+|||+||..|+..++...      ...||.|+..+...++..+..
T Consensus        11 ~~~~C~IC~~-~~~~p----~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~   73 (79)
T 2egp_A           11 EEVTCPICLE-LLTEP----LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQH   73 (79)
T ss_dssp             CCCEETTTTE-ECSSC----CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSS
T ss_pred             cCCCCcCCCc-ccCCe----eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHH
Confidence            4678999995 78888    346999999999999988752      578999999998766655543

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

Probab=99.46  E-value=1.7e-14  Score=94.85  Aligned_cols=56  Identities=20%  Similarity=0.441  Sum_probs=46.3

Q ss_pred             CccCcccCCCcccCCCCcccc-cccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV-NICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLF   63 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~-~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f   63 (120)
                      ++.||||++ .+.+|    ++ ++|||.||..||..++......||.|+.++...++....+
T Consensus        22 ~~~C~IC~~-~~~~p----~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~   78 (100)
T 3lrq_A           22 VFRCFICME-KLRDA----RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRW   78 (100)
T ss_dssp             HTBCTTTCS-BCSSE----EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTT
T ss_pred             CCCCccCCc-cccCc----cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHH
Confidence            578999995 88888    45 7999999999999999876579999999998766554443

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

Probab=99.46  E-value=4.9e-14  Score=90.67  Aligned_cols=53  Identities=25%  Similarity=0.571  Sum_probs=42.6

Q ss_pred             CCccCcccCCCcccCCCCcccccc-cCCccchhHHHHHhhc-CCCCCCCCCccc-cCCCCc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLK-GTGNCYECNQPL-RRGNFR   59 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~-CGH~fC~~Ci~~~~~~-~~~~CP~C~~~~-~~~~~~   59 (120)
                      +++.||||++ ++.+|    ++++ |||+||..||..++.. +...||.|+..+ ...++.
T Consensus        12 ~~~~C~IC~~-~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~   67 (92)
T 3ztg_A           12 DELLCLICKD-IMTDA----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALI   67 (92)
T ss_dssp             TTTEETTTTE-ECSSC----EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCE
T ss_pred             cCCCCCCCCh-hhcCc----eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccC
Confidence            4689999995 88999    4567 9999999999999875 347899999987 343443

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

Probab=99.45  E-value=6.6e-14  Score=88.06  Aligned_cols=57  Identities=30%  Similarity=0.792  Sum_probs=46.7

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC-----CCCCCCCCccccCCCCccccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG-----TGNCYECNQPLRRGNFRVQLF   63 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~-----~~~CP~C~~~~~~~~~~~~~f   63 (120)
                      +++.||||++ .+.+|    ++++|||.||..|+..++...     ...||.|+..+...++.++..
T Consensus        18 ~~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~   79 (85)
T 2ecw_A           18 EEVTCPICLE-LLKEP----VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLH   79 (85)
T ss_dssp             TTTSCTTTCS-CCSSC----EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSC
T ss_pred             cCCCCcCCCh-hhCcc----eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHH
Confidence            4678999995 78888    456999999999999988862     578999999998776665544

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

Probab=99.44  E-value=1.9e-13  Score=90.45  Aligned_cols=64  Identities=22%  Similarity=0.459  Sum_probs=50.5

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC--CCCCCCCCccccCCCCccccccchhHHHH
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG--TGNCYECNQPLRRGNFRVQLFDDSSVEKE   71 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~--~~~CP~C~~~~~~~~~~~~~f~d~~~~~e   71 (120)
                      .+.||||++ .+.+|    ++++|||.||..||..++..+  ...||+|+..+...++..+...+..++.-
T Consensus        21 ~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~~~~~   86 (112)
T 1jm7_A           21 ILECPICLE-LIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEEL   86 (112)
T ss_dssp             HTSCSSSCC-CCSSC----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHH
T ss_pred             CCCCcccCh-hhcCe----EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCccHHHHHHHHHH
Confidence            468999995 78888    356999999999999998853  36899999999887777666555555433

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

Probab=99.44  E-value=9.3e-14  Score=87.36  Aligned_cols=57  Identities=26%  Similarity=0.658  Sum_probs=46.4

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc-----CCCCCCCCCccccCCCCccccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK-----GTGNCYECNQPLRRGNFRVQLF   63 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~-----~~~~CP~C~~~~~~~~~~~~~f   63 (120)
                      +.+.||||++ .+.+|    ++.+|||.||..|+..++..     +...||.|+..+...++.++..
T Consensus        18 ~~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~   79 (85)
T 2ecv_A           18 EEVTCPICLE-LLTQP----LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRH   79 (85)
T ss_dssp             CCCCCTTTCS-CCSSC----BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCC
T ss_pred             CCCCCCCCCc-ccCCc----eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHH
Confidence            4679999995 77888    34699999999999998875     3578999999998776665544

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

Probab=99.43  E-value=1.8e-13  Score=86.81  Aligned_cols=56  Identities=23%  Similarity=0.555  Sum_probs=42.2

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNF   58 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~   58 (120)
                      +++.||||++ .+..+...++..+|||+||..|+..+|..+...||.||+++....+
T Consensus        10 ~~~~CpICle-~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A           10 DPVECPLCME-PLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCBCTTTCC-BCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             cCCcCCccCc-cCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            5679999996 5433322222235999999999999997767899999999987654

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

Probab=99.43  E-value=9.7e-14  Score=89.04  Aligned_cols=62  Identities=13%  Similarity=0.067  Sum_probs=49.3

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVE   73 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~   73 (120)
                      +++.||||++ ++.+|    ++++|||+||.+||..+|.. ...||+|+.++...++    +.+..+++.|+
T Consensus        13 ~~~~CpI~~~-~m~dP----V~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~~~l----~pn~~L~~~i~   74 (85)
T 2kr4_A           13 DEFRDPLMDT-LMTDP----VRLPSGTVMDRSIILRHLLN-SPTDPFNRQMLTESML----EPVPELKEQIQ   74 (85)
T ss_dssp             TTTBCTTTCS-BCSSE----EECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCGGGC----EECHHHHHHHH
T ss_pred             hheECcccCc-hhcCC----eECCCCCEECHHHHHHHHhc-CCCCCCCcCCCChHhc----chHHHHHHHHH
Confidence            4689999995 99999    56799999999999999986 4789999999976544    44445554443

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

Probab=99.41  E-value=1.4e-13  Score=84.85  Aligned_cols=51  Identities=27%  Similarity=0.659  Sum_probs=42.0

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc--CCCCCCCCCccccCCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK--GTGNCYECNQPLRRGN   57 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~--~~~~CP~C~~~~~~~~   57 (120)
                      +++.||||++ .+.+|    ++.+|||.||..|+..++..  +...||+|+..+...+
T Consensus        19 ~~~~C~IC~~-~~~~~----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           19 EEVICPICLD-ILQKP----VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCBCTTTCS-BCSSE----EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             cCCEeccCCc-ccCCe----EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            4578999995 77888    34599999999999998863  4578999999987654

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

Probab=99.41  E-value=9.3e-14  Score=91.84  Aligned_cols=62  Identities=13%  Similarity=0.099  Sum_probs=49.6

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVE   73 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~   73 (120)
                      +++.||||++ ++.+|    ++++|||+||.+||..+|.. ...||+|+.++...++.    ++..+.+.|+
T Consensus        28 ~~~~CpI~~~-~m~dP----V~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~~~L~----pn~~Lk~~I~   89 (100)
T 2kre_A           28 DEFRDPLMDT-LMTDP----VRLPSGTIMDRSIILRHLLN-SPTDPFNRQTLTESMLE----PVPELKEQIQ   89 (100)
T ss_dssp             TTTBCTTTCS-BCSSE----EEETTTEEEEHHHHHHHTTS-CSBCSSSCCBCCTTSSE----ECHHHHHHHH
T ss_pred             HhhCCcCccC-cccCC----eECCCCCEEchHHHHHHHHc-CCCCCCCCCCCChhhce----ECHHHHHHHH
Confidence            4689999995 99999    56799999999999999985 57899999999875544    4445554444

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

Probab=99.40  E-value=9.1e-14  Score=90.71  Aligned_cols=60  Identities=18%  Similarity=0.412  Sum_probs=45.8

Q ss_pred             CccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhH
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSV   68 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~   68 (120)
                      .+.||||++ .+.+|    ++. +|||.||..||..++.. ...||+|+..+...++..+..-+..+
T Consensus        22 ~~~C~IC~~-~~~~p----~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~l~~n~~l~~~i   82 (99)
T 2y43_A           22 LLRCGICFE-YFNIA----MIIPQCSHNYCSLCIRKFLSY-KTQCPTCCVTVTEPDLKNNRILDELV   82 (99)
T ss_dssp             HTBCTTTCS-BCSSE----EECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCGGGCEECHHHHHHH
T ss_pred             CCCcccCCh-hhCCc----CEECCCCCHhhHHHHHHHHHC-CCCCCCCCCcCChhhCCcCHHHHHHH
Confidence            468999995 78888    344 89999999999998875 47899999998865555444333333

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

Probab=99.40  E-value=1.1e-13  Score=97.38  Aligned_cols=49  Identities=22%  Similarity=0.548  Sum_probs=42.8

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      .+.||||++ ++.+|    ++++|||+||..||..++..+...||+|+..+...
T Consensus        78 ~~~C~IC~~-~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQE-LVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSS-BCSSE----EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCCh-hhcCC----EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            468999995 88999    45799999999999999987667899999999765

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

Probab=99.38  E-value=1.6e-13  Score=102.83  Aligned_cols=63  Identities=11%  Similarity=0.068  Sum_probs=50.0

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVE   73 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~   73 (120)
                      +.+.||||++ ++.+|    |+++|||+||.+||..+|..+...||+|+.++...+    ++++..+++.|+
T Consensus       207 ~~~~c~i~~~-~~~dP----v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~----l~~n~~l~~~i~  269 (281)
T 2c2l_A          207 DYLCGKISFE-LMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ----LIPNLAMKEVID  269 (281)
T ss_dssp             STTBCTTTCS-BCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG----CEECHHHHHHHH
T ss_pred             cccCCcCcCC-HhcCC----eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhc----CcccHHHHHHHH
Confidence            4689999995 99999    567999999999999999876556999999997544    445555555443

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

Probab=99.38  E-value=3.4e-13  Score=83.91  Aligned_cols=50  Identities=26%  Similarity=0.593  Sum_probs=41.1

Q ss_pred             CCccCcccCCCcccCCCCcccccc-cCCccchhHHHHHhhcC-CCCCCCCCccccCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKG-TGNCYECNQPLRRG   56 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~-CGH~fC~~Ci~~~~~~~-~~~CP~C~~~~~~~   56 (120)
                      +++.||||++ .+.+|    ++++ |||.||..||..++... ...||+|++.+...
T Consensus        14 ~~~~C~IC~~-~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           14 DELLCLICKD-IMTDA----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             GGGSCSSSCC-CCTTC----EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCCcCCCh-HHhCC----eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            4578999995 88998    4567 99999999999999853 46899999976543

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

Probab=99.37  E-value=2.7e-13  Score=89.30  Aligned_cols=62  Identities=13%  Similarity=0.113  Sum_probs=50.0

Q ss_pred             CCccCcccCCCcccCCCCcccccccC-CccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICG-HPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVE   73 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CG-H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~   73 (120)
                      +++.||||++ ++.+|    |+++|| |+||..||..+|.. ...||+|+.++...++    +++..+++.|+
T Consensus        21 ~~~~CpI~~~-~m~dP----V~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l~~~~L----~pn~~Lk~~I~   83 (98)
T 1wgm_A           21 DEFLDPIMST-LMCDP----VVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTMDQI----RPNTELKEKIQ   83 (98)
T ss_dssp             TTTBCTTTCS-BCSSE----EECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCTTTS----EECHHHHHHHH
T ss_pred             HhcCCcCccc-cccCC----eECCCCCeEECHHHHHHHHHh-CCCCCCCCCCCChhhc----eEcHHHHHHHH
Confidence            4689999995 99999    567999 99999999999986 4789999999986554    45555555554

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

Probab=99.37  E-value=3e-13  Score=90.95  Aligned_cols=60  Identities=25%  Similarity=0.521  Sum_probs=47.3

Q ss_pred             CCccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVE   69 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~   69 (120)
                      +++.||||++ ++.+|    +++ +|||+||..||..++.   ..||+|+..+...++..+..-...++
T Consensus        21 ~~~~C~IC~~-~~~~p----v~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~~~~~~n~~l~~l~~   81 (117)
T 1jm7_B           21 KLLRCSRCTN-ILREP----VCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQDLKINRQLDSMIQ   81 (117)
T ss_dssp             HTTSCSSSCS-CCSSC----BCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCSCSSCCCCHHHHHHHH
T ss_pred             hCCCCCCCCh-HhhCc----cEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCccccccccHHHHHHHH
Confidence            3578999995 88999    455 9999999999998876   68999999997766665554444444

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

Probab=99.37  E-value=2.8e-13  Score=82.91  Aligned_cols=58  Identities=19%  Similarity=0.555  Sum_probs=44.8

Q ss_pred             CCccCcccCCCcccCC---CCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKP---TLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQ   61 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p---~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~   61 (120)
                      +++.||||++ .+.+|   ...+++.+|||.||..||..++... ..||.|+..+...++.+.
T Consensus         9 ~~~~C~IC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~   69 (71)
T 3ng2_A            9 GTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRYHPI   69 (71)
T ss_dssp             TCCBCTTTCC-BHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC-SBCTTTCCBCCCCSCCCC
T ss_pred             CCCCCcccCh-hhhccccccCCeEeCCCCChHhHHHHHHHHHcC-CCCCCCCCccChhheeec
Confidence            4678999996 66665   1222356999999999999988764 799999999987766543

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

Probab=99.37  E-value=5e-13  Score=82.56  Aligned_cols=53  Identities=23%  Similarity=0.477  Sum_probs=42.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      +++.||||++ .+.+|.   .+++|||.||..||..++.. ...||+|++.+...++.
T Consensus        14 ~~~~C~IC~~-~~~~p~---~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~   66 (72)
T 2djb_A           14 PYILCSICKG-YLIDAT---TITECLHTFCKSCIVRHFYY-SNRCPKCNIVVHQTQPL   66 (72)
T ss_dssp             GGGSCTTTSS-CCSSCE---ECSSSCCEECHHHHHHHHHH-CSSCTTTCCCCCSSCSC
T ss_pred             CCCCCCCCCh-HHHCcC---EECCCCCHHHHHHHHHHHHc-CCcCCCcCcccCccccc
Confidence            3578999995 778881   23499999999999998876 47899999999876544

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

Probab=99.33  E-value=5.3e-13  Score=79.90  Aligned_cols=57  Identities=19%  Similarity=0.563  Sum_probs=44.2

Q ss_pred             CCccCcccCCCcccCCC---CcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCcc
Q psy17995          2 DDQECPRCKTTKYRKPT---LKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV   60 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~---~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~   60 (120)
                      +++.||||++ .+.+|.   ...++++|||.||..|+..++.. ...||.|++.+...++.+
T Consensus         2 ~~~~C~IC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~   61 (64)
T 2xeu_A            2 AMVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRYHP   61 (64)
T ss_dssp             CCCBCTTTCC-BHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH-CSBCTTTCCBCTTTCEEE
T ss_pred             CCCCCCccCh-hhhCccccCCCEEeCCCCCchhHHHHHHHHHc-CCCCCCCCccCCccceee
Confidence            5789999996 666651   12235699999999999998876 479999999998766543

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

Probab=99.33  E-value=1.3e-12  Score=86.50  Aligned_cols=49  Identities=16%  Similarity=0.434  Sum_probs=41.6

Q ss_pred             CCccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      +++.||||++ .+.+|    ++. +|||+||..||..++..+ ..||.|+..+...
T Consensus        14 ~~~~C~IC~~-~~~~p----~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGG-YFIDA----TTIIECLHSFCKTCIVRYLETS-KYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSS-BCSSE----EEETTTCCEEEHHHHHHHHTSC-SBCTTTCCBSCSS
T ss_pred             CcCCCccCCh-HHhCc----CEeCCCCChhhHHHHHHHHHhC-CcCcCCCcccccc
Confidence            4679999995 88888    444 999999999999988764 7899999998764

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

Probab=99.32  E-value=1.2e-12  Score=82.50  Aligned_cols=47  Identities=34%  Similarity=0.769  Sum_probs=40.2

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +.+.||||++ .+.+|    ++++|||.||..||..++.. ...||+|+..+.
T Consensus        14 ~~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~   60 (81)
T 2csy_A           14 IPFRCFICRQ-AFQNP----VVTKCRHYFCESCALEHFRA-TPRCYICDQPTG   60 (81)
T ss_dssp             CCSBCSSSCS-BCCSE----EECTTSCEEEHHHHHHHHHH-CSBCSSSCCBCC
T ss_pred             CCCCCcCCCc-hhcCe----eEccCCCHhHHHHHHHHHHC-CCcCCCcCcccc
Confidence            3578999995 78888    45799999999999998875 478999999885

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

Probab=99.32  E-value=6.6e-13  Score=93.91  Aligned_cols=63  Identities=22%  Similarity=0.526  Sum_probs=46.9

Q ss_pred             CccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccchhHHHHHH
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDDSSVEKEVE   73 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d~~~~~e~~   73 (120)
                      ++.||||++ .+.+|    ++. +|||.||..||..++..+...||.|+..+...   ..+..+..++.-+.
T Consensus        54 ~~~C~IC~~-~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~---~~l~~~~~l~~~i~  117 (165)
T 2ckl_B           54 ELMCPICLD-MLKNT----MTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK---RSLRPDPNFDALIS  117 (165)
T ss_dssp             HHBCTTTSS-BCSSE----EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSG---GGEEECHHHHHHHH
T ss_pred             CCCCcccCh-HhhCc----CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCc---ccCCcCHHHHHHHH
Confidence            358999995 78888    344 99999999999999987678899999998532   12334445544443

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

Probab=99.32  E-value=4.6e-13  Score=92.50  Aligned_cols=47  Identities=17%  Similarity=0.585  Sum_probs=39.7

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ++.||||++ .+.+|    ++++|||.||..||..++.. ...||+|++++..
T Consensus        53 ~~~C~iC~~-~~~~~----~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSE-YFIEA----VTLNCAHSFCSYCINEWMKR-KIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCS-BCSSE----EEETTSCEEEHHHHHHHTTT-CSBCTTTCCBCCC
T ss_pred             cCCCcccCc-ccCCc----eECCCCCCccHHHHHHHHHc-CCcCCCCCCcCCC
Confidence            468999995 88888    45699999999999998775 4789999998864

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

Probab=99.31  E-value=1.3e-12  Score=78.59  Aligned_cols=43  Identities=30%  Similarity=0.700  Sum_probs=36.2

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc--CCCCCCCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK--GTGNCYEC   49 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~--~~~~CP~C   49 (120)
                      +++.||||++ .+.+|    ++++|||+||..||..++..  +...||+|
T Consensus        19 ~~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLD-ILQKP----VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCS-BCSSC----EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCc-hhCCe----EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4679999995 78888    45699999999999999974  45689998

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

Probab=99.31  E-value=5.3e-13  Score=86.93  Aligned_cols=63  Identities=25%  Similarity=0.608  Sum_probs=48.8

Q ss_pred             CCccCcccCCCcccCCCCcccccc-cCCccchhHHHHHhhcC-----CCCCCC--CCcc-ccCCCCccccccchhHHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNI-CGHPLCEGCVDLLFLKG-----TGNCYE--CNQP-LRRGNFRVQLFDDSSVEKEV   72 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~-CGH~fC~~Ci~~~~~~~-----~~~CP~--C~~~-~~~~~~~~~~f~d~~~~~e~   72 (120)
                      +++.||||++ ++.+|    |+++ |||+||..||..+|..+     ...||+  |+.. +...    .++++..+++.|
T Consensus         6 ~~~~CPI~~~-~~~dP----V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~----~L~pn~~L~~~I   76 (94)
T 2yu4_A            6 SGFTCPITKE-EMKKP----VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKS----DLIQDEALRRAI   76 (94)
T ss_dssp             SCCBCTTTCS-BCSSE----EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGG----GEEECHHHHHHH
T ss_pred             cEeECcCcCc-hhcCC----EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHh----hCcCCHHHHHHH
Confidence            4689999995 99999    5665 99999999999999853     468999  8866 6543    345666666665


Q ss_pred             H
Q psy17995         73 E   73 (120)
Q Consensus        73 ~   73 (120)
                      +
T Consensus        77 ~   77 (94)
T 2yu4_A           77 E   77 (94)
T ss_dssp             H
T ss_pred             H
Confidence            5

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

Probab=99.31  E-value=1.6e-12  Score=82.49  Aligned_cols=55  Identities=25%  Similarity=0.627  Sum_probs=42.5

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC--CCCCCCCCccccCCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG--TGNCYECNQPLRRGN   57 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~--~~~CP~C~~~~~~~~   57 (120)
                      +.+.||||++ .+.+.....++.+|||.||..|+..++...  ...||.|+..+...+
T Consensus        14 ~~~~C~IC~~-~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           14 EVLECPICME-SFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             SCCBCTTTCC-BCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             CCCCCccCCc-cccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            4578999995 777732212456999999999999998864  478999999887653

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

Probab=99.30  E-value=2e-13  Score=91.27  Aligned_cols=47  Identities=23%  Similarity=0.548  Sum_probs=40.5

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ++.||||++ .+.+|    ++.+|||.||..||..++..+...||.|+..+.
T Consensus        15 ~~~C~iC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           15 ECQCGICME-ILVEP----VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHBCTTTCS-BCSSC----EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCccCCc-ccCce----eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            468999995 78888    446999999999999988776689999999875

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

Probab=99.28  E-value=1.2e-12  Score=94.93  Aligned_cols=55  Identities=11%  Similarity=-0.015  Sum_probs=45.4

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQ   61 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~   61 (120)
                      +.+.||||++ ++.+|    |+++|||+||.+||..+|..+...||+|+.++...++.++
T Consensus       105 ~~f~CPI~~e-lm~DP----V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN  159 (179)
T 2f42_A          105 DYLCGKISFE-LMREP----CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPN  159 (179)
T ss_dssp             GGGBCTTTCS-BCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEEC
T ss_pred             HhhcccCccc-cCCCC----eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcch
Confidence            4679999995 99999    5679999999999999998754479999999976554433

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=99.28  E-value=2.9e-12  Score=74.71  Aligned_cols=50  Identities=26%  Similarity=0.570  Sum_probs=39.5

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      ++..|+||++ .+.+.....++.+|||.||..|+..++..+ ..||+|+..+
T Consensus         4 ~~~~C~IC~~-~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~   53 (55)
T 2ecm_A            4 GSSGCPICLE-DIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPS   53 (55)
T ss_dssp             CCCSCTTTCC-CCCTTTSCEEECTTSCEEETTHHHHHHHHT-CCCTTSCCSS
T ss_pred             CCCcCcccCh-hhcCCCcCeEecCCCCcccHHHHHHHHHcC-CcCCCCCCcC
Confidence            4678999996 555533333456999999999999988875 8899999876

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

Probab=99.28  E-value=3.3e-12  Score=75.13  Aligned_cols=43  Identities=23%  Similarity=0.697  Sum_probs=35.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc--CCCCCCCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK--GTGNCYEC   49 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~--~~~~CP~C   49 (120)
                      +.+.||||++ .+.+|    ++++|||.||..||..++..  ....||+|
T Consensus        14 ~~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLE-YLKEP----VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCC-BCSSC----CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCc-ccCcc----EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4679999995 78888    35699999999999998764  45789998

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

Probab=99.27  E-value=6.1e-13  Score=81.93  Aligned_cols=48  Identities=27%  Similarity=0.514  Sum_probs=40.0

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +++.|+||++ .+.+|    ++++|||.||..||..++..+ ..||+|+..+..
T Consensus        14 ~~~~C~IC~~-~~~~~----~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~   61 (71)
T 2d8t_A           14 TVPECAICLQ-TCVHP----VSLPCKHVFCYLCVKGASWLG-KRCALCRQEIPE   61 (71)
T ss_dssp             SCCBCSSSSS-BCSSE----EEETTTEEEEHHHHHHCTTCS-SBCSSSCCBCCH
T ss_pred             CCCCCccCCc-ccCCC----EEccCCCHHHHHHHHHHHHCC-CcCcCcCchhCH
Confidence            4678999995 77887    456999999999999877654 789999998864

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

Probab=99.27  E-value=2e-12  Score=78.45  Aligned_cols=52  Identities=21%  Similarity=0.618  Sum_probs=40.4

Q ss_pred             CCccCcccCCCcccCCC---CcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKPT---LKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~---~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +...|+||++ .+.+|.   ..+++.+|||.||..||..++.. ...||+|+..+.+
T Consensus        14 ~~~~C~IC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           14 GTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   68 (69)
T ss_dssp             CCCCCTTTCC-CHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCcccCc-cccccccccCCeEeCCCCChhcHHHHHHHHHc-CCCCCCCCCccCc
Confidence            4578999996 666652   12235699999999999998876 4789999998764

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

Probab=99.23  E-value=6.1e-12  Score=78.45  Aligned_cols=57  Identities=23%  Similarity=0.476  Sum_probs=43.9

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQ   61 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~   61 (120)
                      +...|+||++ .+.++.. +.+.+|||.||..||..++... ..||+|+..+...++..+
T Consensus        14 ~~~~C~IC~~-~~~~~~~-~~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A           14 SGLECPVCKE-DYALGES-VRQLPCNHLFHDSCIVPWLEQH-DSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             SSCCCTTTTS-CCCTTSC-EEECTTSCEEETTTTHHHHTTT-CSCTTTCCCCCCSCSCCC
T ss_pred             CCCCCeeCCc-cccCCCC-EEEeCCCCeecHHHHHHHHHcC-CcCcCcCCccCCcccCCC
Confidence            4578999996 6666642 2345899999999999988754 789999999987665443

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

Probab=99.23  E-value=3.6e-12  Score=75.49  Aligned_cols=45  Identities=27%  Similarity=0.676  Sum_probs=37.3

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +.+.|+||++ .+.+|    ++.+|||+||..|+..    ....||+|++.+..
T Consensus         5 ~~~~C~IC~~-~~~~p----~~l~CgH~fC~~Ci~~----~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            5 QFLRCQQCQA-EAKCP----KLLPCLHTLCSGCLEA----SGMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCS-SCBCC----SCSTTSCCSBTTTCSS----SSSSCSSCCSSSSC
T ss_pred             cCCCceEeCC-ccCCe----EEcCCCCcccHHHHcc----CCCCCCcCCcEeec
Confidence            5679999995 88888    4569999999999876    35789999998753

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

Probab=99.20  E-value=4.7e-12  Score=85.32  Aligned_cols=60  Identities=18%  Similarity=0.542  Sum_probs=46.5

Q ss_pred             CCccCcccCCCcccCC---CCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccc
Q psy17995          2 DDQECPRCKTTKYRKP---TLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLF   63 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p---~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f   63 (120)
                      +++.||||++ .+.+|   ....++++|||.||..||..++..+ ..||+|++.+...++....+
T Consensus         6 ~~~~C~IC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~l~~l~i   68 (133)
T 4ap4_A            6 GTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRYHPIYI   68 (133)
T ss_dssp             CSCBCTTTCC-BHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTC-SBCTTTCCBCTTTCEEECBC
T ss_pred             CCCCCcccCh-hhhCccccccCeEecCCCChhhHHHHHHHHHhC-CCCCCCCCcCcccccccccc
Confidence            5689999995 67776   2222456999999999999988764 69999999998776655443

>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=99.18  E-value=8.4e-12  Score=95.12  Aligned_cols=55  Identities=20%  Similarity=0.455  Sum_probs=45.4

Q ss_pred             CCccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhc-CCCCCCC--CCccccCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLK-GTGNCYE--CNQPLRRGNFRVQ   61 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~-~~~~CP~--C~~~~~~~~~~~~   61 (120)
                      .++.||||+. ++.+|    |++ .|||+||+.||..+|.. +...||+  |++.+...+++++
T Consensus       180 ~el~CPIcl~-~f~DP----Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN  238 (267)
T 3htk_C          180 IELTCPITCK-PYEAP----LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRD  238 (267)
T ss_dssp             CCSBCTTTSS-BCSSE----EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEEC
T ss_pred             eeeECcCccC-cccCC----eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcC
Confidence            3579999995 89999    444 99999999999999986 3468999  9999887666543

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

Probab=99.16  E-value=2.7e-11  Score=70.65  Aligned_cols=49  Identities=24%  Similarity=0.525  Sum_probs=36.7

Q ss_pred             CCccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      ++..|+||++ .+.+.... ++. .|||.||..|+..++.. ...||.|++.+
T Consensus         4 ~~~~C~IC~~-~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~   53 (55)
T 1iym_A            4 DGVECAVCLA-ELEDGEEA-RFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCC-CCCTTSCC-EECSSSCCEECTTHHHHTTTT-CCSCSSSCCCS
T ss_pred             CCCcCccCCc-cccCCCce-EECCCCCCcccHHHHHHHHHc-CCcCcCCCCEe
Confidence            4578999996 55553221 234 49999999999987765 47899999875

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

Probab=99.16  E-value=2.1e-11  Score=74.02  Aligned_cols=48  Identities=23%  Similarity=0.546  Sum_probs=38.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ++..||||++ .+.+|.   ++.+|||.||..|+..++..+ ..||.|+..+.
T Consensus         4 ~~~~C~IC~~-~~~~~~---~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~   51 (68)
T 1chc_A            4 VAERCPICLE-DPSNYS---MALPCLHAFCYVCITRWIRQN-PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCS-CCCSCE---EETTTTEEESTTHHHHHHHHS-CSTTTTCCCCC
T ss_pred             CCCCCeeCCc-cccCCc---EecCCCCeeHHHHHHHHHhCc-CcCcCCChhhH
Confidence            3468999996 666652   356999999999999987754 78999999885

>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=99.11  E-value=8e-11  Score=71.66  Aligned_cols=50  Identities=18%  Similarity=0.451  Sum_probs=38.1

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +..|+||++ .+.++. ..++.+|||.||..||..++..+ ..||+|+..+..
T Consensus        14 ~~~C~IC~~-~~~~~~-~~~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~~   63 (69)
T 2kiz_A           14 EEKCTICLS-ILEEGE-DVRRLPCMHLFHQVCVDQWLITN-KKCPICRVDIEA   63 (69)
T ss_dssp             CCSBTTTTB-CCCSSS-CEEECTTSCEEEHHHHHHHHHHC-SBCTTTCSBSCS
T ss_pred             CCCCeeCCc-cccCCC-cEEEeCCCCHHHHHHHHHHHHcC-CCCcCcCccccC
Confidence            468999996 444322 22356999999999999988764 579999998864

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

Probab=99.10  E-value=6.2e-11  Score=73.08  Aligned_cols=51  Identities=20%  Similarity=0.412  Sum_probs=39.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ++..|+||++ .+.++.. +.+.+|||.||..||..++... ..||.|+..+..
T Consensus        14 ~~~~C~IC~~-~~~~~~~-~~~~~C~H~f~~~Ci~~~~~~~-~~CP~Cr~~~~~   64 (74)
T 2ep4_A           14 LHELCAVCLE-DFKPRDE-LGICPCKHAFHRKCLIKWLEVR-KVCPLCNMPVLQ   64 (74)
T ss_dssp             CSCBCSSSCC-BCCSSSC-EEEETTTEEEEHHHHHHHHHHC-SBCTTTCCBCSS
T ss_pred             CCCCCcCCCc-ccCCCCc-EEEcCCCCEecHHHHHHHHHcC-CcCCCcCccccc
Confidence            3568999996 6666633 2334899999999999988764 589999998864

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

Probab=99.10  E-value=6e-11  Score=78.79  Aligned_cols=52  Identities=17%  Similarity=0.447  Sum_probs=38.7

Q ss_pred             CccCcccCCCcccCCC--------------CcccccccCCccchhHHHHHhhc----CCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPT--------------LKLMVNICGHPLCEGCVDLLFLK----GTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~--------------~~~~~~~CGH~fC~~Ci~~~~~~----~~~~CP~C~~~~~~   55 (120)
                      +..||||++ .+.+|.              ....+.+|||.||..||..++..    ....||+|++.+..
T Consensus        25 ~~~C~ICl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICME-KLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTE-ETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCcCccCCh-hhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            458999996 555442              22224699999999999998853    34689999998854

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

Probab=99.09  E-value=3.3e-11  Score=74.73  Aligned_cols=51  Identities=22%  Similarity=0.440  Sum_probs=39.6

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ++..|+||++ .+.++. .+...+|||.||..||..++... ..||+|+..+..
T Consensus        22 ~~~~C~IC~~-~~~~~~-~~~~l~C~H~fh~~Ci~~w~~~~-~~CP~Cr~~~~~   72 (75)
T 1x4j_A           22 EQTLCVVCMC-DFESRQ-LLRVLPCNHEFHAKCVDKWLKAN-RTCPICRADSGP   72 (75)
T ss_dssp             SCCEETTTTE-ECCBTC-EEEEETTTEEEETTHHHHHHHHC-SSCTTTCCCCCC
T ss_pred             CCCCCeECCc-ccCCCC-eEEEECCCCHhHHHHHHHHHHcC-CcCcCcCCcCCC
Confidence            3568999996 555553 22346899999999999988764 689999998764

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

Probab=99.08  E-value=2e-11  Score=74.62  Aligned_cols=48  Identities=25%  Similarity=0.609  Sum_probs=38.6

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      +...|+||++ .+.+     ++.+|||.||..|+..++. ....||.|+..+...
T Consensus        14 ~~~~C~IC~~-~~~~-----~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           14 DEEECCICMD-GRAD-----LILPCAHSFCQKCIDKWSD-RHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCSSSCC-SCCS-----EEETTTEEECHHHHHHSSC-CCSSCHHHHHCTTCC
T ss_pred             CCCCCeeCCc-CccC-----cccCCCCcccHHHHHHHHH-CcCcCCCcCCcccCC
Confidence            4578999996 5444     3679999999999998766 458999999988754

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

Probab=99.02  E-value=9.5e-11  Score=72.97  Aligned_cols=43  Identities=21%  Similarity=0.567  Sum_probs=35.3

Q ss_pred             CccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +..|+||++ .+.+|    +..+|||. ||..|+..     ...||.|+..+..
T Consensus        25 ~~~C~IC~~-~~~~~----~~~pCgH~~~C~~C~~~-----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMD-RNIAI----VFVPCGHLVTCKQCAEA-----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCS-SCCCB----CCSSSCCCCBCHHHHHH-----CSBCTTTCCBCCC
T ss_pred             CCCCCcCCC-CCCCE----EEecCCCHHHHHHHhhC-----CCCCccCCceecC
Confidence            357999995 67887    35699999 99999964     3689999998864

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

Probab=99.02  E-value=5.5e-11  Score=74.02  Aligned_cols=43  Identities=21%  Similarity=0.581  Sum_probs=35.6

Q ss_pred             CccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +..|+||++ .+.+|    +..+|||. ||..|+..+     ..||.|++.+..
T Consensus        24 ~~~C~iC~~-~~~~~----~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMD-RNIAI----VFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSS-SBCCE----EEETTCCBCCCHHHHTTC-----SBCTTTCCBCSE
T ss_pred             CCCCCCCCC-CCCCE----EEcCCCChhHHHHhhhcC-----ccCCCcCcCccC
Confidence            468999995 67877    34599999 999999764     689999998864

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

Probab=99.00  E-value=1.3e-10  Score=74.92  Aligned_cols=49  Identities=27%  Similarity=0.550  Sum_probs=37.3

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +..|+||++ .+.+.. ...+.+|||.||..||..++.. ...||.|+..+.
T Consensus        40 ~~~C~IC~~-~~~~~~-~~~~l~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~   88 (91)
T 2l0b_A           40 EMCCPICCS-EYVKGD-VATELPCHHYFHKPCVSIWLQK-SGTCPVCRCMFP   88 (91)
T ss_dssp             CSEETTTTE-ECCTTC-EEEEETTTEEEEHHHHHHHHTT-TCBCTTTCCBSS
T ss_pred             CCCCcccCh-hhcCCC-cEEecCCCChHHHHHHHHHHHc-CCcCcCcCccCC
Confidence            467999996 444422 2234689999999999998775 468999998775

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

Probab=98.98  E-value=1.2e-10  Score=78.29  Aligned_cols=56  Identities=20%  Similarity=0.596  Sum_probs=41.9

Q ss_pred             CCccCcccCCCcccCC---CCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          2 DDQECPRCKTTKYRKP---TLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p---~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      +...|+||++ .+.+|   ....+..+|||.||..||..++... ..||+|+..+.++++.
T Consensus        71 ~~~~C~iC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~  129 (133)
T 4ap4_A           71 GTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKRYH  129 (133)
T ss_dssp             SSCBCTTTCC-BHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC-SBCTTTCCBCCGGGEE
T ss_pred             CCCCCCCCCC-ccccccccCcceEeCCCCChhhHHHHHHHHHcC-CCCCCCCCcCChhcce
Confidence            3568999995 55554   1111346999999999999988764 7999999999876554

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

Probab=98.92  E-value=6.2e-10  Score=70.30  Aligned_cols=52  Identities=19%  Similarity=0.434  Sum_probs=37.6

Q ss_pred             CCccCcccCCCcccCC----------CCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKP----------TLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p----------~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ++..|+||++ .+.++          ....++. +|||.|+..||...+... ..||+|++.+..
T Consensus        14 ~~~~C~IC~~-~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRV-QVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN-NRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTB-CTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC-CBCTTTCCBCCE
T ss_pred             CCCCCcccCh-hhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC-CCCCCcCCCcch
Confidence            4567999996 44442          1112233 699999999999987764 689999998753

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

Probab=98.91  E-value=5.1e-10  Score=67.92  Aligned_cols=47  Identities=23%  Similarity=0.522  Sum_probs=37.3

Q ss_pred             CCccCcccCCCcccCCCCccccc--ccCCc-cchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVN--ICGHP-LCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~--~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ++..|+||++ ...++    +..  +|||. ||..|+..++.. ...||+|+.++.
T Consensus         7 ~~~~C~IC~~-~~~~~----~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQG-RPKNG----CIVHGKTGHLMACFTCAKKLKKR-NKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSS-SCSCE----EEEETTEEEEEECHHHHHHHHHT-TCCCTTTCCCCC
T ss_pred             CcCCCCcCCC-CCCCE----EEECCCCCChhhHHHHHHHHHHc-CCcCCCcCcchh
Confidence            3568999996 55655    333  99999 899999998875 468999999875

>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=98.91  E-value=7.5e-10  Score=88.42  Aligned_cols=48  Identities=21%  Similarity=0.520  Sum_probs=39.9

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      ..|+||.+ .+.+|    +.++|||.||..|+..++......||.|+..+...
T Consensus       333 ~~C~ICle-~~~~p----v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          333 QLCKICAE-NDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SBCTTTSS-SBCCE----EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCccCc-CCCCe----EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            68999995 66777    45799999999999887764568999999988643

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

Probab=98.90  E-value=6e-10  Score=67.40  Aligned_cols=48  Identities=23%  Similarity=0.541  Sum_probs=37.3

Q ss_pred             CccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +..|+||++ ...++.  ++..+|||. ||..|+..++..+ ..||+|++++.
T Consensus         7 ~~~C~IC~~-~~~~~~--~~~~pCgH~~~C~~C~~~~~~~~-~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEK-RPRDGN--IIHGRTGHLVTCFHCARRLKKAG-ASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSS-SBSCEE--EEETTEEEEEECHHHHHHHHHTT-CBCTTTCCBCC
T ss_pred             CCCCcccCC-cCCCeE--EEecCCCCHhHHHHHHHHHHHhC-CcCCCcCchhh
Confidence            458999995 555551  122499999 9999999988764 78999999885

>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=98.85  E-value=7.9e-10  Score=71.37  Aligned_cols=49  Identities=18%  Similarity=0.516  Sum_probs=36.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc----C---CCCCCC--CCcc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK----G---TGNCYE--CNQP   52 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~----~---~~~CP~--C~~~   52 (120)
                      +.+.||||++ .+..|.+. ...+|||+||..|+..+|..    +   +..||.  |+..
T Consensus         4 ~~~~C~IC~~-~~~~~~~~-~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLG-EYPVEQMT-TIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCC-CCBGGGEE-EETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCc-ccccccce-EcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3578999996 56666321 11379999999999999873    2   357999  9987

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

Probab=98.79  E-value=1.8e-09  Score=65.18  Aligned_cols=54  Identities=15%  Similarity=0.160  Sum_probs=45.2

Q ss_pred             CccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQL   62 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~   62 (120)
                      .+.|||+++ ++.||    +++ ++||.|++.||.+++..+ ..||+.+.++...++.+..
T Consensus         3 ~~~CpIs~~-~m~dP----V~~~~sG~~yer~~I~~~l~~~-~~cP~t~~~L~~~~Lip~~   57 (61)
T 2bay_A            3 HMLCAISGK-VPRRP----VLSPKSRTIFEKSLLEQYVKDT-GNDPITNEPLSIEEIVEIV   57 (61)
T ss_dssp             -CCCTTTCS-CCSSE----EEETTTTEEEEHHHHHHHHHHH-SBCTTTCCBCCGGGCEECC
T ss_pred             eEEecCCCC-CCCCC----EEeCCCCcEEcHHHHHHHHHhC-CCCcCCcCCCChhhcEECc
Confidence            478999995 88999    667 899999999999999864 4699999999877766543

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.79  E-value=9.8e-10  Score=69.36  Aligned_cols=43  Identities=26%  Similarity=0.591  Sum_probs=34.8

Q ss_pred             CccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      +..|+||++ ...+|    +..+|||. ||..|+..+     ..||.|+..+..
T Consensus        18 ~~~C~IC~~-~~~~~----v~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   61 (79)
T 2yho_A           18 AMLCMVCCE-EEINS----TFCPCGHTVCCESCAAQL-----QSCPVCRSRVEH   61 (79)
T ss_dssp             HTBCTTTSS-SBCCE----EEETTCBCCBCHHHHTTC-----SBCTTTCCBCCE
T ss_pred             CCEeEEeCc-ccCcE----EEECCCCHHHHHHHHHhc-----CcCCCCCchhhC
Confidence            357999995 66776    44699999 999999764     489999998864

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

Probab=98.78  E-value=4.4e-09  Score=64.56  Aligned_cols=44  Identities=27%  Similarity=0.696  Sum_probs=35.1

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ++..|+||++ ...++    +..||||. ||..|+..     ...||+|+..+..
T Consensus        14 ~~~~C~IC~~-~~~~~----v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           14 NSKDCVVCQN-GTVNW----VLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCSSSSS-SCCCC----EETTTTBCCSCTTHHHH-----CSSCTTTCCCCCC
T ss_pred             CCCCCCCcCc-CCCCE----EEECCCChhhhHHHHhc-----CCCCCCCCcchhc
Confidence            4568999995 55655    45699999 99999984     3689999998864

>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=98.70  E-value=1.7e-08  Score=67.19  Aligned_cols=51  Identities=14%  Similarity=0.329  Sum_probs=38.3

Q ss_pred             CCccCcccCCCcccCCCC--------------cccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTL--------------KLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~--------------~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ++..|+||++ .|.++-.              .++..+|||.|+..||...+.. ...||+|+..+.
T Consensus        36 ~~d~CaIC~~-~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRN-HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCS-CTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCC
T ss_pred             CCCCCccCCh-hHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc-CCcCcCCCCcce
Confidence            4568999996 5554411              1234699999999999998776 478999999764

>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=98.61  E-value=9.3e-09  Score=80.94  Aligned_cols=44  Identities=25%  Similarity=0.651  Sum_probs=36.4

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCc-cchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHP-LCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~-fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ++..|+||++ .+.+|    +..+|||. ||..|+..+     ..||.|+.++..
T Consensus       294 ~~~~C~IC~~-~~~~~----v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMD-KEVSV----VFIPCGHLVVCQECAPSL-----RKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSS-SBCCE----EEETTCCEEECTTTGGGC-----SBCTTTCCBCCE
T ss_pred             CCCCCCccCC-cCCce----EEcCCCChhHhHHHHhcC-----CcCCCCCCCccC
Confidence            3578999995 77888    34599999 999999864     689999998864

>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=98.44  E-value=2.9e-08  Score=67.22  Aligned_cols=51  Identities=14%  Similarity=0.329  Sum_probs=1.0

Q ss_pred             CCccCcccCCCcccCCCC--------------cccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTL--------------KLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~--------------~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ++..|+||++ .|.++..              .++..+|||.|+..||...+.. ...||.|+..+.
T Consensus        47 ~~d~CaICl~-~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~-~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRN-HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  111 (117)
T ss_dssp             CC-----------------------------------------------------------------
T ss_pred             CCCcCeECCh-hhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc-CCcCCCCCCeee
Confidence            4568999996 5554311              1223489999999999998776 478999998764

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

Probab=98.10  E-value=2.3e-06  Score=53.97  Aligned_cols=49  Identities=16%  Similarity=0.398  Sum_probs=37.1

Q ss_pred             CccCcccCCCcccCCCCcccccccC-----CccchhHHHHHhhc-CCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICG-----HPLCEGCVDLLFLK-GTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CG-----H~fC~~Ci~~~~~~-~~~~CP~C~~~~~   54 (120)
                      ...|+||++ -+.+. -. ++.+|+     |.|...||.+++.. +...||+|+..+.
T Consensus        15 ~~~C~IC~~-~~~~~-~~-l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~   69 (80)
T 2d8s_A           15 QDICRICHC-EGDDE-SP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFI   69 (80)
T ss_dssp             SCCCSSSCC-CCCSS-SC-EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCC
T ss_pred             CCCCeEcCc-cccCC-Ce-eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeee
Confidence            468999996 34322 22 357996     99999999998876 3468999999885

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

Probab=97.96  E-value=3.7e-06  Score=55.32  Aligned_cols=47  Identities=28%  Similarity=0.552  Sum_probs=35.2

Q ss_pred             cCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          5 ECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      .|++|.- .+.--   ....||+|+||-+|+..+..++...||.|+.++.+
T Consensus         3 fC~~C~~-Pi~iy---gRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGL-PIKVY---GRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCS-BCSEE---EEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCC-CeEEE---eeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            4888873 32211   11459999999999998887777899999998854

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

Probab=97.80  E-value=1.8e-05  Score=49.37  Aligned_cols=47  Identities=21%  Similarity=0.448  Sum_probs=35.9

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC-CCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG-TGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~-~~~CP~C~~~~~   54 (120)
                      ..|+||++ ++. |..+  -..|||.|-..||.++|+.. ...||.|+..+.
T Consensus        16 ~~C~IC~~-~i~-~g~~--C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           16 KICNICHS-LLI-QGQS--CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             CBCSSSCC-BCS-SSEE--CSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CcCcchhh-Hcc-cCCc--cCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            47999996 544 4321  23899999999999999753 378999998764

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

Probab=97.35  E-value=5.8e-05  Score=59.69  Aligned_cols=50  Identities=20%  Similarity=0.338  Sum_probs=36.0

Q ss_pred             ccCcccCCCcccC-CCCccc---ccccCCccchhHHHHHhhcC-C---------CCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRK-PTLKLM---VNICGHPLCEGCVDLLFLKG-T---------GNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~-p~~~~~---~~~CGH~fC~~Ci~~~~~~~-~---------~~CP~C~~~~~   54 (120)
                      ..|+||.+ .+.+ ..++-.   -..|||.|-..|+.+++... .         ..||-|+.++.
T Consensus       309 ~ECaICys-~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          309 LRCNICFA-YRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCSSSCC-SSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             ccCcccce-eecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            46999996 5554 322212   13799999999999988741 1         57999999875

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=97.31  E-value=0.00014  Score=46.84  Aligned_cols=36  Identities=14%  Similarity=0.430  Sum_probs=27.2

Q ss_pred             CCCccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhh
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFL   40 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~   40 (120)
                      .+++.|++|.++.+.+|    +.  .+|||+||..|+...+.
T Consensus         1 ~ee~~C~~C~~~~~~~a----v~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            1 AEKVLCQFCDQDPAQDA----VKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCCBCTTCCSSSCCBC----CEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCCcCCCCCCCCCc----eEECCcCChHHhHHHCHHHhc
Confidence            36789999996444555    23  48999999999998443

>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

Probab=97.12  E-value=0.001  Score=42.71  Aligned_cols=52  Identities=33%  Similarity=0.613  Sum_probs=43.6

Q ss_pred             ccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhcCCCCCCCCCccccC
Q psy17995          4 QECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLKGTGNCYECNQPLRR   55 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~   55 (120)
                      ..|.||.+++-.+.+-.+++  ..|+-.+|+.|...-.+.+...||.|++.+++
T Consensus        17 qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr   70 (93)
T 1weo_A           17 QFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             CBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             CccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCcccc
Confidence            47999998877776665555  48999999999998888888999999999874

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

Probab=97.05  E-value=0.00079  Score=39.91  Aligned_cols=46  Identities=15%  Similarity=0.385  Sum_probs=34.5

Q ss_pred             ccCcccCCCcccCCCCcccccccC--C---ccchhHHHHHhhc-CCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICG--H---PLCEGCVDLLFLK-GTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CG--H---~fC~~Ci~~~~~~-~~~~CP~C~~~~~   54 (120)
                      ..|.||++. ..+|    +++||.  |   .|-.+|+.+.+.. +...||+|+..+.
T Consensus         7 ~~CrIC~~~-~~~~----l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            7 PVCWICNEE-LGNE----RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CEETTTTEE-CSCC----CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CEeEEeecC-CCCc----eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            479999963 3333    357754  4   8999999998874 5689999998774

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

Probab=95.74  E-value=0.0073  Score=44.95  Aligned_cols=47  Identities=21%  Similarity=0.439  Sum_probs=34.5

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC-CCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG-TGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~-~~~CP~C~~~~~   54 (120)
                      ..|.+|++.+ . +..+  -..|||+|-..|+..+++.. ...||.|+....
T Consensus       181 ~~C~iC~~iv-~-~g~~--C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          181 KICNICHSLL-I-QGQS--CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             CBCTTTCSBC-S-SCEE--CSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CcCcchhhHH-h-CCcc--cCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            4699999643 3 3211  12499999999999998763 478999998754

>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1

Probab=94.96  E-value=0.0016  Score=42.42  Aligned_cols=42  Identities=31%  Similarity=0.873  Sum_probs=27.9

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      |+ ..||+|...+..+.         |+.+|..|-..+..  .+.||.|+.++.
T Consensus        31 M~-~~CP~Cq~eL~~~g---------~~~hC~~C~~~f~~--~a~CPdC~q~Le   72 (101)
T 2jne_A           31 ME-LHCPQCQHVLDQDN---------GHARCRSCGEFIEM--KALCPDCHQPLQ   72 (101)
T ss_dssp             CC-CBCSSSCSBEEEET---------TEEEETTTCCEEEE--EEECTTTCSBCE
T ss_pred             cc-ccCccCCCcceecC---------CEEECccccchhhc--cccCcchhhHHH
Confidence            66 78999995332211         45569999654332  368999999874

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}

Probab=94.92  E-value=0.0026  Score=40.14  Aligned_cols=41  Identities=34%  Similarity=0.758  Sum_probs=25.1

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      |+ ..||.|...+..+.         |+..|..|-..+-..  ..||.|+.++
T Consensus         1 M~-~~CP~C~~~l~~~~---------~~~~C~~C~~~~~~~--afCPeCgq~L   41 (81)
T 2jrp_A            1 ME-ITCPVCHHALERNG---------DTAHCETCAKDFSLQ--ALCPDCRQPL   41 (81)
T ss_dssp             CC-CCCSSSCSCCEECS---------SEEECTTTCCEEEEE--EECSSSCSCC
T ss_pred             CC-CCCCCCCCccccCC---------CceECccccccCCCc--ccCcchhhHH
Confidence            67 78999996443332         244477775433222  3788888776

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=92.18  E-value=0.11  Score=45.70  Aligned_cols=54  Identities=13%  Similarity=0.108  Sum_probs=44.1

Q ss_pred             CCccCcccCCCcccCCCCcccccccC-CccchhHHHHHhhcCCCCCCCCCccccCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICG-HPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQ   61 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CG-H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~   61 (120)
                      +++.|||-.+ ++.||    |+.+-| +.+=++.|.+++..+ ..||.-+.++...++.++
T Consensus       890 ~~F~cPIs~~-lM~DP----VilpsG~~TydR~~I~~wl~~~-~tdP~Tr~~L~~~~liPN  944 (968)
T 3m62_A          890 DEFLDPLMYT-IMKDP----VILPASKMNIDRSTIKAHLLSD-STDPFNRMPLKLEDVTPN  944 (968)
T ss_dssp             GGGBCTTTCS-BCSSE----EECTTTCCEEEHHHHHHHHTTC-CBCTTTCCBCCGGGCEEC
T ss_pred             HHhCCcchhh-HHhCC----eEcCCCCEEECHHHHHHHHhcC-CCCCCCCCCCCccccccc
Confidence            4678999995 99999    567888 589999999988764 689999999986555444

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4

Probab=91.63  E-value=0.068  Score=33.44  Aligned_cols=31  Identities=16%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             CcccCCCcccCCCCccccc-ccCCccchhHHH
Q psy17995          6 CPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVD   36 (120)
Q Consensus         6 CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~   36 (120)
                      ||-|...+..++....++- .|||.||-.|-.
T Consensus        28 CP~C~~~~~~~~~~~~v~C~~C~~~FC~~C~~   59 (86)
T 2ct7_A           28 CAQCSFGFIYEREQLEATCPQCHQTFCVRCKR   59 (86)
T ss_dssp             CSSSCCCEECCCSCSCEECTTTCCEECSSSCS
T ss_pred             CcCCCchheecCCCCceEeCCCCCccccccCC
Confidence            9988854444444332333 499999888854

>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A {Desulfovibrio desulfuricans} SCOP: g.41.5.1

Probab=89.63  E-value=0.13  Score=28.79  Aligned_cols=36  Identities=22%  Similarity=0.396  Sum_probs=22.4

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCC--CCCCCCCcc
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGT--GNCYECNQP   52 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~--~~CP~C~~~   52 (120)
                      |..+.|++|. .+| +|..   -.+           ..|..-+  ..||+|+..
T Consensus         2 m~~y~C~vCG-yvy-d~~~---Gd~-----------t~f~~lP~dw~CP~Cg~~   39 (46)
T 6rxn_A            2 MQKYVCNVCG-YEY-DPAE---HDN-----------VPFDQLPDDWCCPVCGVS   39 (46)
T ss_dssp             CCCEEETTTC-CEE-CGGG---GTT-----------CCGGGSCTTCBCTTTCCB
T ss_pred             CCEEECCCCC-eEE-eCCc---CCC-----------cchhhCCCCCcCcCCCCc
Confidence            7889999999 464 4411   012           3344433  489999974

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}

Probab=89.19  E-value=0.25  Score=30.48  Aligned_cols=34  Identities=26%  Similarity=0.708  Sum_probs=22.8

Q ss_pred             ccCcc--cCCCcccCCCCccccc------ccCCccchhHHHH
Q psy17995          4 QECPR--CKTTKYRKPTLKLMVN------ICGHPLCEGCVDL   37 (120)
Q Consensus         4 ~~Cpi--C~~~~~~~p~~~~~~~------~CGH~fC~~Ci~~   37 (120)
                      ..||.  |...+..++....++=      .|||.||-.|...
T Consensus        26 ~~CP~p~C~~~v~~~~~~~~v~C~~~~~~~C~~~FC~~C~~~   67 (80)
T 2jmo_A           26 VLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEA   67 (80)
T ss_dssp             CCCCSSSCCCCCCCCSCTTSBCTTSSSTTCCSCCEETTTTEE
T ss_pred             EECCCCCCCcccEECCCCCcCCCCCCCCCCCCCeeccccCcc
Confidence            46887  8865555554333432      5999999999654

>2a20_A Regulating synaptic membrane exocytosis protein 2; zinc-finger domain, metal binding protein; NMR {Rattus norvegicus} PDB: 2cjs_C

Probab=86.85  E-value=0.27  Score=29.11  Aligned_cols=37  Identities=35%  Similarity=0.835  Sum_probs=24.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      |...|+||+.+.|-        ..+||. |..|       ....|..|+..+.
T Consensus         8 d~~~C~iC~KTKFA--------DG~Gh~-C~yC-------k~r~CaRCGg~v~   44 (62)
T 2a20_A            8 DAPTCGICHKTKFA--------DGCGHN-CSYC-------QTKFCARCGGRVS   44 (62)
T ss_dssp             CCCCCSSSSCSCCC--------SSCCEE-BTTT-------CCEECTTSEEEEE
T ss_pred             Ccchhhhhccceec--------cCCCcc-cccc-------CCeeecccCCEee
Confidence            45689999975433        368886 7777       2456777876543

>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein VPS27; endosome maturation, intracellular trafficking; 1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1

Probab=86.11  E-value=0.53  Score=28.37  Aligned_cols=35  Identities=23%  Similarity=0.472  Sum_probs=22.2

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDL   37 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~   37 (120)
                      ++..|.+|.. .|.--..+-.-..||+.||..|...
T Consensus        10 ~~~~C~~C~~-~F~~~~RrHHCR~CG~v~C~~Cs~~   44 (73)
T 1vfy_A           10 DSDACMICSK-KFSLLNRKHHCRSCGGVFCQEHSSN   44 (73)
T ss_dssp             CCSBCTTTCC-BCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             cCCcccCCCC-ccCCccccccCCCCCEEEcccccCC
Confidence            4568999995 4432211111237999999999653

>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A {Clostridium pasteurianum} SCOP: g.41.5.1 PDB: 5rxn_A 1bfy_A 1fhh_A 1fhm_A 1irn_A 1iro_A 1r0f_A 1r0g_A 1r0h_A 1r0i_A 1r0j_A 1t9q_A 1c09_A 1b2j_A 1b13_A 1smm_A 1smu_A 1smw_A 1be7_A 1t9o_A ...

Probab=83.40  E-value=0.63  Score=26.84  Aligned_cols=41  Identities=20%  Similarity=0.222  Sum_probs=24.0

Q ss_pred             CCCccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhc--CCCCCCCCCcc
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLK--GTGNCYECNQP   52 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~--~~~~CP~C~~~   52 (120)
                      |..+.|++|. .+| +|..----  -+=|..|         ..  ....||+|+..
T Consensus         1 m~~y~C~vCG-yvY-d~~~Gdp~~gi~pGt~f---------e~lP~dw~CP~Cg~~   45 (54)
T 4rxn_A            1 MKKYTCTVCG-YIY-DPEDGDPDDGVNPGTDF---------KDIPDDWVCPLCGVG   45 (54)
T ss_dssp             CCCEEETTTC-CEE-CTTTCBGGGTBCTTCCG---------GGSCTTCBCTTTCCB
T ss_pred             CCceECCCCC-eEE-CCCcCCcccCcCCCCCh---------hHCCCCCcCcCCCCc
Confidence            8899999999 465 33210000  1225554         22  23589999985

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=83.21  E-value=0.65  Score=36.72  Aligned_cols=51  Identities=24%  Similarity=0.405  Sum_probs=33.1

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHH---hhcCCCCCCCCCccccCCCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLL---FLKGTGNCYECNQPLRRGNF   58 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~---~~~~~~~CP~C~~~~~~~~~   58 (120)
                      +.||+-.. .+..|.   --..|.|.-|-.-..-+   ...+...||+|++.+...++
T Consensus       250 L~CPlS~~-ri~~Pv---Rg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~dL  303 (371)
T 3i2d_A          250 LQCPISYT-RMKYPS---KSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENL  303 (371)
T ss_dssp             SBCTTTSS-BCSSEE---EETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGGE
T ss_pred             ecCCCccc-cccccC---cCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHHe
Confidence            68999984 667771   12389999554442222   12356899999998875543

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=81.68  E-value=1.9  Score=27.07  Aligned_cols=36  Identities=14%  Similarity=0.371  Sum_probs=25.5

Q ss_pred             CccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLK   41 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~   41 (120)
                      .+.|.+|++ .+.+-.  +++  +.=+|+||-.|-...++.
T Consensus        15 ~l~CtlC~e-rLEdtH--FVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           15 PLCCTICHE-RLEDTH--FVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             SCCCSSSCS-CCSSTT--SEECSSCSSCEECHHHHHHHHHH
T ss_pred             eeEeecchh-hhccCc--eeeCCCccCCeeeccccHHHHHh
Confidence            368999996 445543  233  245899999999888764

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=81.49  E-value=0.84  Score=35.94  Aligned_cols=51  Identities=24%  Similarity=0.325  Sum_probs=33.0

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHH--h-hcCCCCCCCCCccccCCCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLL--F-LKGTGNCYECNQPLRRGNF   58 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~--~-~~~~~~CP~C~~~~~~~~~   58 (120)
                      +.||+-.. .+..|-   .-..|.|.-|-.-..-+  . ..+...||+|++.+...++
T Consensus       216 L~CPlS~~-ri~~P~---Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~dL  269 (360)
T 4fo9_A          216 LMCPLGKM-RLTIPC---RAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESL  269 (360)
T ss_dssp             SBCTTTCS-BCSSEE---EETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGGE
T ss_pred             eeCCCccc-eeccCC---cCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHHe
Confidence            57999884 667771   12389999554443222  1 2356899999998875443

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=81.25  E-value=0.82  Score=30.48  Aligned_cols=33  Identities=21%  Similarity=0.586  Sum_probs=21.4

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHH
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDL   37 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~   37 (120)
                      ..|.+|.. .|.--..+..-..||+.||..|...
T Consensus        70 ~~C~~C~~-~Fs~~~RrHHCR~CG~vfC~~Cs~~  102 (125)
T 1joc_A           70 QNCMACGK-GFSVTVRRHHCRQCGNIFCAECSAK  102 (125)
T ss_dssp             CBCTTTCC-BCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             CCCcCcCC-ccccccccccCCCCCeEEChHHhCC
Confidence            36999995 5542222222247999999999754

---

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	120
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-12

>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 = 56.3 bits (135), Expect = 1e-12
 Identities = 50/65 (76%), Positives = 56/65 (86%)

Query: 1  MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRV 60
          MDDQ CPRCKTTKYR P+LKLMVN+CGH LCE CVDLLF++G GNC EC  PLR+ NFRV
Sbjct: 1  MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

Query: 61 QLFDD 65
          QLF+D
Sbjct: 61 QLFED 65

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	120
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.82
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.56
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.55
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.54
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.49
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.43
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.41
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.39
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.33
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.26
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.25
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.23
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.2
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.84
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.84
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.58
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.26
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	97.5
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	93.34
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	90.16
d6rxna_	45	Rubredoxin {Desulfovibrio desulfuricans, strain 27	89.21
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	86.92
d1nnqa2	37	Rubrerythrin, C-terminal domain {Archaeon Pyrococc	85.74
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	85.56
d1yuza2	36	Nigerythrin, C-terminal domain {Desulfovibrio vulg	85.22
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	83.37
d1zbdb_	124	Effector domain of rabphilin-3a {Rat (Rattus norve	82.77
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	81.56

>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=99.82  E-value=4.1e-21  Score=116.90  Aligned_cols=65  Identities=77%  Similarity=1.506  Sum_probs=58.7

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccccc
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLFDD   65 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f~d   65 (120)
                      ||+..||||+++++.+|...+++++|||.||..||..++..++..||.||+++++++|+.+.|+|
T Consensus         1 ~dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~~~~~fdD   65 (65)
T d1g25a_           1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQLFED   65 (65)
T ss_dssp             CCTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCEEECCCC
T ss_pred             CCCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccccccccCCCC
Confidence            89999999997666777777777899999999999999987777899999999999999999987

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=4.2e-15  Score=96.85  Aligned_cols=63  Identities=22%  Similarity=0.481  Sum_probs=50.8

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcC--CCCCCCCCccccCCCCccccccchhHHH
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKG--TGNCYECNQPLRRGNFRVQLFDDSSVEK   70 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~--~~~CP~C~~~~~~~~~~~~~f~d~~~~~   70 (120)
                      .+.||||++ ++.+|    ++++|||.||..||..++...  ...||.|+.++...++.++..-+..+++
T Consensus        21 ~l~CpIC~~-~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~ve~   85 (103)
T d1jm7a_          21 ILECPICLE-LIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEE   85 (103)
T ss_dssp             HTSCSSSCC-CCSSC----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHH
T ss_pred             CcCCCccCc-hhCCe----EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCHHHHHHHHH
Confidence            478999995 88999    456999999999999988653  4689999999988887777665555553

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.55  E-value=9.1e-16  Score=95.97  Aligned_cols=52  Identities=12%  Similarity=0.010  Sum_probs=45.1

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNF   58 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~   58 (120)
                      +++.||||++ ++.+|    ++++|||+||.+||...+..+...||.|+.++...++
T Consensus         6 ~~l~CpIc~~-l~~dP----v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l   57 (80)
T d2c2la2           6 DYLCGKISFE-LMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL   57 (80)
T ss_dssp             STTBCTTTCS-BCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGC
T ss_pred             ccccCcCcCc-hhhhh----cccCCcCeecHHHHHHHHhcCCccCCCcccccccccc
Confidence            6789999995 99999    5679999999999999998777789999998875443

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.54  E-value=1.8e-15  Score=94.07  Aligned_cols=57  Identities=12%  Similarity=0.280  Sum_probs=48.8

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCccccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQLF   63 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~f   63 (120)
                      +++.||||++ ++.+|    ++++|||+||++||..++..+...||.|+.++...++.++..
T Consensus         7 ~~l~CpIc~~-~m~dP----V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~   63 (78)
T d1t1ha_           7 EYFRCPISLE-LMKDP----VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYV   63 (78)
T ss_dssp             SSSSCTTTSC-CCSSE----EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTT
T ss_pred             ccCCCcCcCc-hhhCc----eEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHH
Confidence            5789999995 99999    567999999999999998876678999999998776665544

>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=99.49  E-value=6.6e-15  Score=93.71  Aligned_cols=51  Identities=20%  Similarity=0.463  Sum_probs=43.6

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNF   58 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~   58 (120)
                      .+.||||++ ++.+|    ++++|||.||..||..++..+...||.|+.++...++
T Consensus        23 ~l~C~IC~~-~~~~p----v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l   73 (86)
T d1rmda2          23 SISCQICEH-ILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (86)
T ss_dssp             HTBCTTTCS-BCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CcCCccCCc-chhcc----eecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhc
Confidence            368999995 88999    5679999999999999998766789999999876554

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=2.7e-14  Score=92.03  Aligned_cols=53  Identities=25%  Similarity=0.580  Sum_probs=42.0

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQL   62 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~~   62 (120)
                      .+.||||++ ++.+|.   .+++|||.||..||..++.   ..||.|+.++...++.++.
T Consensus        22 ~l~C~IC~~-~~~~pv---~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~~~l~~n~   74 (97)
T d1jm7b_          22 LLRCSRCTN-ILREPV---CLGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQDLKINR   74 (97)
T ss_dssp             TTSCSSSCS-CCSSCB---CCCSSSCCBCTTTGGGGTT---TBCSSSCCBCSCSSCCCCH
T ss_pred             cCCCccCCc-hhhcCc---eeCCCCCchhHHHHHHHHh---ccccccCCcCchhhCcccH
Confidence            468999995 889992   2358999999999988764   3599999998877665443

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=1e-13  Score=86.49  Aligned_cols=49  Identities=20%  Similarity=0.515  Sum_probs=41.5

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGN   57 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (120)
                      ..||||++ .+.+|    ++++|||.||..||..++..+...||+||..+....
T Consensus        24 ~~C~IC~~-~~~~~----~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          24 QLCKICAE-NDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TBCTTTSS-SBCCE----ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCccCCC-cCCCe----EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            47999995 77887    567999999999999988766678999999997643

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=8.1e-14  Score=80.58  Aligned_cols=50  Identities=24%  Similarity=0.612  Sum_probs=39.4

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +.||||++ .+...+..+.+.+|||.||..|+.+++..+...||.||+++.
T Consensus         1 leCpICl~-~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCME-PLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTE-ECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCS
T ss_pred             CCCcCCCh-hhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCC
Confidence            46999996 555444444456999999999999988766678999999875

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.33  E-value=1.5e-13  Score=80.58  Aligned_cols=50  Identities=16%  Similarity=0.183  Sum_probs=42.3

Q ss_pred             ccCcccCCCcccCCCCccccc-ccCCccchhHHHHHhhcCCCCCCCCCccccCCCCc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRGNFR   59 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~   59 (120)
                      +.||||++ ++.+|    +++ .|||.||.+||.+++..+ ..||+||+++..+++.
T Consensus         1 l~C~Ic~~-~~~~P----v~~~~cGh~fc~~cI~~~l~~~-~~CP~c~~~l~~~dLi   51 (56)
T d2baya1           1 MLCAISGK-VPRRP----VLSPKSRTIFEKSLLEQYVKDT-GNDPITNEPLSIEEIV   51 (56)
T ss_dssp             CCCTTTCS-CCSSE----EEETTTTEEEEHHHHHHHHHHH-SBCTTTCCBCCGGGCE
T ss_pred             CCCccCCc-hHHhc----CccCCCCCcccHHHHHHHHhhc-cCCCccCCcCCHHhce
Confidence            47999995 88999    455 699999999999999874 5899999999876653

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=1.2e-12  Score=84.71  Aligned_cols=54  Identities=17%  Similarity=0.090  Sum_probs=44.3

Q ss_pred             CCccCcccCCCcccCCCCcccccccC-CccchhHHHHHhhcCCCCCCCCCccccCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICG-HPLCEGCVDLLFLKGTGNCYECNQPLRRGNFRVQ   61 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CG-H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~~~~~~   61 (120)
                      +++.||||++ ++.+|    |+++|| |.||++||.+++..+ ..||.|++++...++.++
T Consensus        21 ~~f~CPI~~~-lm~dP----V~~~~~~~ty~r~~I~~~l~~~-~~~P~~~~~l~~~~L~pN   75 (98)
T d1wgma_          21 DEFLDPIMST-LMCDP----VVLPSSRVTVDRSTIARHLLSD-QTDPFNRSPLTMDQIRPN   75 (98)
T ss_dssp             TTTBCTTTCS-BCSSE----EECTTTCCEEEHHHHHHHTTTS-CBCTTTCSBCCTTTSEEC
T ss_pred             HHhCCcCchh-HHHHH----HhcccccchhhHHHHHHHHHhc-CCcccccccccchhhcch
Confidence            5799999995 99999    567665 589999999988764 689999999987665543

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=2.2e-12  Score=75.66  Aligned_cols=45  Identities=29%  Similarity=0.718  Sum_probs=36.8

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      .+.||||++ .+.+|    ++.+|||+||..||.+    ....||.|++.+...
T Consensus         6 ~l~C~IC~~-~~~~p----~~lpCgH~fC~~Ci~~----~~~~CP~Cr~~~~~~   50 (56)
T d1bora_           6 FLRCQQCQA-EAKCP----KLLPCLHTLCSGCLEA----SGMQCPICQAPWPLG   50 (56)
T ss_dssp             CSSCSSSCS-SCBCC----SCSTTSCCSBTTTCSS----SSSSCSSCCSSSSCC
T ss_pred             CCCCcccCc-ccCCC----EEecCCCHHhHHHHHc----CCCcCcCCCCcccCC
Confidence            369999995 78988    4569999999999863    357899999988644

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.23  E-value=3.7e-12  Score=74.31  Aligned_cols=50  Identities=24%  Similarity=0.547  Sum_probs=38.5

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      |+..||||++ .|.+++....++.|||.||..|+.++++. ...||.||..+
T Consensus         4 d~~~C~ICl~-~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i   53 (55)
T d1iyma_           4 DGVECAVCLA-ELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCC-CCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCS
T ss_pred             CCCCCeEECc-cccCCCEEEEeCCCCCcccHHHHHHHHHh-CCcCCCCCCEe
Confidence            4568999996 55555443334579999999999998876 46899999875

>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=99.20  E-value=3.5e-12  Score=77.14  Aligned_cols=46  Identities=24%  Similarity=0.566  Sum_probs=37.3

Q ss_pred             ccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          4 QECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      ..||||++ .+.+|   .++++|||+||..|+.+++..+ ..||+||..+.
T Consensus         6 d~C~IC~~-~~~~~---~~~~~C~H~Fc~~Ci~~w~~~~-~~CP~CR~~i~   51 (68)
T d1chca_           6 ERCPICLE-DPSNY---SMALPCLHAFCYVCITRWIRQN-PTCPLCKVPVE   51 (68)
T ss_dssp             CCCSSCCS-CCCSC---EEETTTTEEESTTHHHHHHHHS-CSTTTTCCCCC
T ss_pred             CCCccCCc-CccCC---cEEeCCCCcCcHHHHHHHHHhC-CcCCCCCcchH
Confidence            36999996 55555   2356999999999999988764 68999999875

>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=98.84  E-value=1.1e-09  Score=71.56  Aligned_cols=53  Identities=15%  Similarity=0.399  Sum_probs=37.6

Q ss_pred             CccCcccCCCcccCC--------------CCcccccccCCccchhHHHHHhhcC----CCCCCCCCccccCC
Q psy17995          3 DQECPRCKTTKYRKP--------------TLKLMVNICGHPLCEGCVDLLFLKG----TGNCYECNQPLRRG   56 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p--------------~~~~~~~~CGH~fC~~Ci~~~~~~~----~~~CP~C~~~~~~~   56 (120)
                      +..|+||++. +.++              ...+.+++|||.||..||..++...    ...||+||+.+..+
T Consensus        25 ~~~C~IC~e~-l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          25 EEDCIICMEK-LAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEE-TTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccchhhe-ecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            4579999964 3332              1112346899999999999988753    35799999987543

>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=98.84  E-value=1.1e-09  Score=68.96  Aligned_cols=51  Identities=14%  Similarity=0.324  Sum_probs=37.8

Q ss_pred             CCccCcccCCCcccCCCC--------------cccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          2 DDQECPRCKTTKYRKPTL--------------KLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~--------------~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      .+..|+||++ .+.++..              .+++.+|||.|+..||.+.++.+ ..||.||+++.
T Consensus        20 ~~d~C~IC~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRN-HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCS-CTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC-SBCSSSCSBCC
T ss_pred             CCCcCEEccc-hhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHC-CcCCCCCCccc
Confidence            4457999985 4444322              12345899999999999988875 68999999875

>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=98.58  E-value=2.2e-08  Score=58.45  Aligned_cols=51  Identities=10%  Similarity=0.169  Sum_probs=36.4

Q ss_pred             CccCcccCCCcccCCCCcc-cccccCCccchhHHHHHhhc-CCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKL-MVNICGHPLCEGCVDLLFLK-GTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~-~~~~CGH~fC~~Ci~~~~~~-~~~~CP~C~~~~~   54 (120)
                      ...|+||++ .+.++.... .-..|+|.|+..||...+.. +...||+|+++++
T Consensus         6 ~~~C~IC~~-~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           6 VPVCWICNE-ELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CCEETTTTE-ECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCccCCc-cCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            468999996 445552211 11246799999999998764 5578999999875

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.26  E-value=1.7e-07  Score=58.67  Aligned_cols=46  Identities=17%  Similarity=0.414  Sum_probs=31.8

Q ss_pred             CccCcccCCCcccCCCCcccc-cccCCccchhHHHHHhhc----C---CCCCCCCCc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV-NICGHPLCEGCVDLLFLK----G---TGNCYECNQ   51 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~-~~CGH~fC~~Ci~~~~~~----~---~~~CP~C~~   51 (120)
                      ...||||.+. +...+  ++. .+|||.||..|+..++..    +   ...||.|+-
T Consensus         5 ~~~C~IC~~~-~~~~~--~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGE-YPVEQ--MTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCC-CBGGG--EEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCc-ccCCc--eEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4589999964 33222  223 489999999999998863    2   246998654

>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=97.50  E-value=0.00013  Score=45.06  Aligned_cols=55  Identities=31%  Similarity=0.557  Sum_probs=46.0

Q ss_pred             CCccCcccCCCcccCCCCccccc--ccCCccchhHHHHHhhcCCCCCCCCCccccCC
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVN--ICGHPLCEGCVDLLFLKGTGNCYECNQPLRRG   56 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~--~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (120)
                      ....|.||.+.+-.+.+-.+++.  .||--+|+.|..--.+.+...||.|++.+++-
T Consensus        15 ~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr~   71 (93)
T d1weoa_          15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRL   71 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCC
T ss_pred             ccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhhh
Confidence            45689999988777776666664  89999999999988888889999999998754

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=93.34  E-value=0.0021  Score=38.03  Aligned_cols=41  Identities=32%  Similarity=0.855  Sum_probs=28.6

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHHHHHhhcCCCCCCCCCcccc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLKGTGNCYECNQPLR   54 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~~   54 (120)
                      +..||.|...  +++       .=||.+|..|-..+...  ..||.|+.++.
T Consensus         2 ~~~CP~C~~e--L~~-------~~~~~~C~~C~~~~~~~--a~CPdC~~~Le   42 (71)
T d2jnea1           2 ELHCPQCQHV--LDQ-------DNGHARCRSCGEFIEMK--ALCPDCHQPLQ   42 (71)
T ss_dssp             CCBCSSSCSB--EEE-------ETTEEEETTTCCEEEEE--EECTTTCSBCE
T ss_pred             CCcCCCccCc--ccc-------cCCCEehhhhhhhheeE--EeCCccccHHH
Confidence            3589999953  333       12789999996554332  58999999874

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.16  E-value=0.048  Score=31.67  Aligned_cols=33  Identities=15%  Similarity=0.312  Sum_probs=21.9

Q ss_pred             cCcccCCCcccCCCCccccc-ccCCccchhHHHH
Q psy17995          5 ECPRCKTTKYRKPTLKLMVN-ICGHPLCEGCVDL   37 (120)
Q Consensus         5 ~CpiC~~~~~~~p~~~~~~~-~CGH~fC~~Ci~~   37 (120)
                      .||-|...+..++.-..++- .||+.||-.|-..
T Consensus        20 ~CP~C~~~~~~~~~~~~~~C~~C~~~fC~~C~~~   53 (73)
T d2ct7a1          20 WCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQ   53 (73)
T ss_dssp             CCSSSCCCEECCCSCSCEECTTTCCEECSSSCSB
T ss_pred             CCCCCCCEeEECCCCCEEEcCCCCCeECcccCcc
Confidence            68999876666665544443 6888887777443

>d6rxna_ g.41.5.1 (A:) Rubredoxin {Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]

Probab=89.21  E-value=0.059  Score=28.83  Aligned_cols=36  Identities=25%  Similarity=0.505  Sum_probs=23.2

Q ss_pred             CCCccCcccCCCcccCCCCcccccccCCccchhHHHHHhhc--CCCCCCCCCcc
Q psy17995          1 MDDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDLLFLK--GTGNCYECNQP   52 (120)
Q Consensus         1 ~d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~~~~~--~~~~CP~C~~~   52 (120)
                      |.++.|.+|. .+| +|.    ... |-.         |..  ....||+|+.+
T Consensus         1 M~~y~C~~Cg-yiY-d~~----~Gd-gt~---------Fe~LP~dw~CP~C~a~   38 (45)
T d6rxna_           1 MQKYVCNVCG-YEY-DPA----EHD-NVP---------FDQLPDDWCCPVCGVS   38 (45)
T ss_dssp             CCCEEETTTC-CEE-CGG----GGT-TCC---------GGGSCTTCBCTTTCCB
T ss_pred             CCCeEeCCCC-eEE-Ccc----cCC-CCC---------HHHCCCCCCCcCCCCc
Confidence            8999999999 464 452    112 322         332  24689999975

>d1vfya_ g.50.1.1 (A:) vps27p protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: vps27p protein
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.92  E-value=0.22  Score=28.28  Aligned_cols=35  Identities=23%  Similarity=0.472  Sum_probs=22.1

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDL   37 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~   37 (120)
                      ++-.|.+|.. .|.--..+-.=..||..||..|...
T Consensus         4 ~~~~C~~C~~-~F~~~~rkhhCr~CG~~fC~~Cs~~   38 (67)
T d1vfya_           4 DSDACMICSK-KFSLLNRKHHCRSCGGVFCQEHSSN   38 (67)
T ss_dssp             CCSBCTTTCC-BCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             cCcccccCCC-cccCcccccccccCCCEecccccCC
Confidence            5568999995 4432211111136999999999643

>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=85.74  E-value=0.14  Score=26.19  Aligned_cols=20  Identities=30%  Similarity=0.670  Sum_probs=13.5

Q ss_pred             ccCCccchhHHHHHhhcCCCCCCCCCcc
Q psy17995         25 ICGHPLCEGCVDLLFLKGTGNCYECNQP   52 (120)
Q Consensus        25 ~CGH~fC~~Ci~~~~~~~~~~CP~C~~~   52 (120)
                      .|||.+=        ...+-.||+|+.+
T Consensus        10 vCG~i~~--------g~~P~~CPvCg~~   29 (37)
T d1nnqa2          10 ICGYTAV--------DEAPEYCPVCGAP   29 (37)
T ss_dssp             TTCCEEE--------SCCCSBCTTTCCB
T ss_pred             CCCCEec--------CCCCCcCCCCCCc
Confidence            6788751        1235689999975

>d1dvpa2 g.50.1.1 (A:149-220) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Hrs
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=85.56  E-value=0.21  Score=28.80  Aligned_cols=35  Identities=26%  Similarity=0.673  Sum_probs=22.3

Q ss_pred             CCccCcccCCCcccCCCCcccccccCCccchhHHHH
Q psy17995          2 DDQECPRCKTTKYRKPTLKLMVNICGHPLCEGCVDL   37 (120)
Q Consensus         2 d~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci~~   37 (120)
                      ++-.|.+|.. .|.--..+-.=..||+.||..|...
T Consensus        12 ~~~~C~~C~~-~F~~~~rrhhCr~CG~~~C~~C~~~   46 (72)
T d1dvpa2          12 DGRVCHRCRV-EFTFTNRKHHCRNCGQVFCGQCTAK   46 (72)
T ss_dssp             CCSBCTTTCC-BCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             cCCccccCCC-cccCccccccccccCCeeChhhhCC
Confidence            4567999995 4432222211237999999999754

>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Nigerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=85.22  E-value=0.15  Score=25.87  Aligned_cols=21  Identities=29%  Similarity=0.444  Sum_probs=13.8

Q ss_pred             ccCCccchhHHHHHhhcCCCCCCCCCccc
Q psy17995         25 ICGHPLCEGCVDLLFLKGTGNCYECNQPL   53 (120)
Q Consensus        25 ~CGH~fC~~Ci~~~~~~~~~~CP~C~~~~   53 (120)
                      .|||..        ....+-.||+|+.+-
T Consensus        10 vCGyi~--------~g~~Pe~CPvCg~~~   30 (36)
T d1yuza2          10 ICGYIH--------KGEDFEKCPICFRPK   30 (36)
T ss_dssp             SSCCEE--------ESSCCSBCTTTCCBG
T ss_pred             CCCCEe--------eCCCCCcCCCCCCcH
Confidence            688864        112356899999753

>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=83.37  E-value=0.88  Score=26.44  Aligned_cols=36  Identities=14%  Similarity=0.371  Sum_probs=25.5

Q ss_pred             CccCcccCCCcccCCCCcccc--cccCCccchhHHHHHhhc
Q psy17995          3 DQECPRCKTTKYRKPTLKLMV--NICGHPLCEGCVDLLFLK   41 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~--~~CGH~fC~~Ci~~~~~~   41 (120)
                      .+.|.+|.+ .+.+-.  +++  +.=+|+||-.|-...+++
T Consensus         8 ~l~CtlC~e-rLEdtH--FVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHE-RLEDTH--FVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCS-CCSSTT--SEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehh-hhcCCc--eEeCCCCcCCceeccccHHHHHh
Confidence            478999996 455543  233  235899999999887764

>d1zbdb_ g.50.1.1 (B:) Effector domain of rabphilin-3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Effector domain of rabphilin-3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=82.77  E-value=0.26  Score=31.16  Aligned_cols=33  Identities=15%  Similarity=0.355  Sum_probs=19.7

Q ss_pred             CccCcccCCCcccCCCCcccccccCCccchhHH
Q psy17995          3 DQECPRCKTTKYRKPTLKLMVNICGHPLCEGCV   35 (120)
Q Consensus         3 ~~~CpiC~~~~~~~p~~~~~~~~CGH~fC~~Ci   35 (120)
                      ...|++|...+..--+.+..=..||+.||..|-
T Consensus        48 ~~~C~~C~~~f~~~~~~~~~C~~C~~~~C~~C~   80 (124)
T d1zbdb_          48 VNRCILCGEQLGMLGSASVVCEDCKKNVCTKCG   80 (124)
T ss_dssp             SSBCSSSCCBCSTTSCCEEECTTTCCEEETTSE
T ss_pred             CCcCcccCCcccCCCCCCCcCccCCcccccCCC
Confidence            357999986422111111112379999999994

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.56  E-value=0.44  Score=26.64  Aligned_cols=42  Identities=21%  Similarity=0.694  Sum_probs=26.2

Q ss_pred             ccCcccCCCcccCCCCcccc-cccCCccchhHHHHHhhcCCCCCCCC
Q psy17995          4 QECPRCKTTKYRKPTLKLMV-NICGHPLCEGCVDLLFLKGTGNCYEC   49 (120)
Q Consensus         4 ~~CpiC~~~~~~~p~~~~~~-~~CGH~fC~~Ci~~~~~~~~~~CP~C   49 (120)
                      ..|-.|+. .+.+.  ..+. ..|++.||..| +.+....--.||.|
T Consensus        16 ~~C~gC~~-~l~~~--~~y~C~~C~~~FC~dC-D~fiHe~lh~CpgC   58 (59)
T d1z60a1          16 RFCYGCQG-ELKDQ--HVYVCAVCQNVFCVDC-DVFVHDSLHSCPGC   58 (59)
T ss_dssp             CEETTTTE-ECTTS--EEECCTTTTCCBCHHH-HHTTTTTSCSSSTT
T ss_pred             CCccCCCC-cCCCC--ceEECcCCCCcccccc-chhhhhhhcCCCCC
Confidence            35888885 33433  1122 37999999999 33333334679987