Citrus Sinensis ID: 046177

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270--
Protein Sequence
MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccHHcccccccccccccccccccccccccccEEEcccccccccccEEEcccccEEcccccccccccccccccccccccHHHHHHHHHccEEcccccccccccEEccccccccccccccccccccccccccEEEccHHHHHHHHHHcccccEEcccEEEEEEEEcccccccccEEEEEEEEccccEEEEEEEEEEcccccEEEEEEEEEcccccccccEEEEEEEEccEEEEEEEcccHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHcccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccEEEcccccEEEcccHHHHccccccccccccHHHHHHHHHHHHHccccccccccccccEEccccccHHHHHccccccccccccccccEEccHHHHHHHHHHHccEEEccccEEEEEEEccccccccccccEEEEEEccccEEEEEEEEEccccccEEEEEEEEcccHHHHccEEEEEEEEccccEEEEEEccccHHHHcccccc
Coil and Loop (DISEMBL)
masgnpfyddlrnkpevidppeseDLVEIVSessvndpaqialkpnltvssSVREllecpvclnamyppihqcsnghtlcsgckprvhnrcptcrhelgniRCLALEKVAASLelpckyqsygcmgiypyysklkhesqcifrpyncpyagsectvmgdiPYLVAHlkddhkvdmhngstfnhryvkqnphevenATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFmgddnesknysyslevggngrkmswqgvprsirdshkkvrd
Flexible Loop (DISEMBL)
masgnpfyddlrnkpevidPPESEDLVEIVSEssvndpaqialkpnltvssSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEvggngrkmswqgvprsirdshkkvrd
Low Complexity Region (SEG)
MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD
Disordered region (IsUnstruct)
******************************************LKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDD*************************************
Disordered Region (DISOPRED)
****************************************************VRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDS******
Disordered Region (DISEMBL)
MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGV*************
Disordered Region (DISPRO)
**************************************************SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSI*********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD
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	272	2.2.26 [Sep-21-2011]
Q8S3N1	309	E3 ubiquitin-protein liga	yes	no	0.875	0.770	0.756	1e-112
Q84JL3	326	E3 ubiquitin-protein liga	yes	no	0.830	0.693	0.800	1e-110
Q9STN8	327	E3 ubiquitin-protein liga	no	no	0.819	0.681	0.798	1e-109
Q9M2P4	308	E3 ubiquitin-protein liga	no	no	0.819	0.724	0.798	1e-108
P93748	305	Putative E3 ubiquitin-pro	no	no	0.819	0.731	0.793	1e-108
Q86MW9	371	E3 ubiquitin-protein liga	N/A	no	0.849	0.622	0.357	1e-38
Q920M9	282	E3 ubiquitin-protein liga	yes	no	0.805	0.776	0.374	3e-37
P61092	282	E3 ubiquitin-protein liga	yes	no	0.805	0.776	0.374	3e-37
Q7ZVG6	282	E3 ubiquitin-protein liga	yes	no	0.775	0.748	0.383	3e-37
Q8IUQ4	282	E3 ubiquitin-protein liga	yes	no	0.805	0.776	0.374	4e-37

>sp|Q8S3N1|SINA5_ARATH E3 ubiquitin-protein ligase SINAT5 OS=Arabidopsis thaliana GN=SINAT5 PE=1 SV=2

 Score =  405 bits (1042), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 183/242 (75%), Positives = 209/242 (86%), Gaps = 4/242 (1%)

Query: 31  SESSVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNR 90
           S +     A + + P    ++SV ELLECPVC N+MYPPIHQC NGHTLCS CK RVHNR
Sbjct: 22  SSTKSQGGATVVISP----ATSVYELLECPVCTNSMYPPIHQCHNGHTLCSTCKSRVHNR 77

Query: 91  CPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYA 150
           CPTCR ELG+IRCLALEKVA SLELPCKY + GC+GI+PYYSKLKHESQC FRPY+CPYA
Sbjct: 78  CPTCRQELGDIRCLALEKVAESLELPCKYYNLGCLGIFPYYSKLKHESQCNFRPYSCPYA 137

Query: 151 GSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYF 210
           GSEC  +GDI +LVAHL+DDHKVDMH G TFNHRYVK NP EVENATWMLTVF CFGQYF
Sbjct: 138 GSECAAVGDITFLVAHLRDDHKVDMHTGCTFNHRYVKSNPREVENATWMLTVFQCFGQYF 197

Query: 211 CLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKV 270
           CLHFEAFQLGMAPVY+AFLRFMGD+++++NY+YSLEVGG+GRK +W+G PRS+RDSH+KV
Sbjct: 198 CLHFEAFQLGMAPVYMAFLRFMGDEDDARNYTYSLEVGGSGRKQTWEGTPRSVRDSHRKV 257

Query: 271 RD 272
           RD
Sbjct: 258 RD 259

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Mediates the ubiquitin-mediated degradation of NAC021/NAC022, a transcription activator that functions downstream of the auxin signals, thereby acting as a down-regulator of auxin signals. Involved in the formation of lateral roots.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q84JL3|SINA3_ARATH E3 ubiquitin-protein ligase SINAT3 OS=Arabidopsis thaliana GN=SINAT3 PE=2 SV=1

 Score =  399 bits (1025), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 181/226 (80%), Positives = 202/226 (89%)

Query: 47  LTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLAL 106
           L  ++SV ELLECPVC N+MYPPIHQC NGHTLCS CK RVHNRCPTCR ELG+IRCLAL
Sbjct: 51  LPTTTSVHELLECPVCTNSMYPPIHQCHNGHTLCSTCKARVHNRCPTCRQELGDIRCLAL 110

Query: 107 EKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAH 166
           EKVA SLELPCK+ S GC  I+PYYSKLKHE+ C FRPY+CPYAGSEC+V GDIP+LVAH
Sbjct: 111 EKVAESLELPCKHMSLGCPEIFPYYSKLKHETVCNFRPYSCPYAGSECSVTGDIPFLVAH 170

Query: 167 LKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYI 226
           L+DDHKVDMH+G TFNHRYVK NP EVENATWMLTVF CFGQYFCLHFEAFQLGMAPVY+
Sbjct: 171 LRDDHKVDMHSGCTFNHRYVKSNPREVENATWMLTVFHCFGQYFCLHFEAFQLGMAPVYM 230

Query: 227 AFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           AFLRFMGD+ E++NY+YSLEVGG GRK+ W+G PRS+RDSH+KVRD
Sbjct: 231 AFLRFMGDETEARNYNYSLEVGGYGRKLIWEGTPRSVRDSHRKVRD 276

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9STN8|SINA4_ARATH E3 ubiquitin-protein ligase SINAT4 OS=Arabidopsis thaliana GN=SINAT4 PE=2 SV=1

 Score =  394 bits (1011), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 178/223 (79%), Positives = 201/223 (90%)

Query: 50  SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKV 109
           ++SV ELLECPVC  +MYPPIHQC NGHTLCS CK RVHNRCPTCR ELG+IRCLALEKV
Sbjct: 55  ATSVYELLECPVCTYSMYPPIHQCHNGHTLCSTCKVRVHNRCPTCRQELGDIRCLALEKV 114

Query: 110 AASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKD 169
           A SLELPCK+ + GC  I+PYYSKLKHES C FRPY+CPYAGSEC ++GDIP+LVAHL+D
Sbjct: 115 AESLELPCKFYNLGCPEIFPYYSKLKHESLCNFRPYSCPYAGSECGIVGDIPFLVAHLRD 174

Query: 170 DHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFL 229
           DHKVDMH GSTFNHRYVK NP EVENATWMLTVF CFGQYFCLHFEAFQLGM PVY+AFL
Sbjct: 175 DHKVDMHAGSTFNHRYVKSNPREVENATWMLTVFHCFGQYFCLHFEAFQLGMGPVYMAFL 234

Query: 230 RFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           RFMGD+ ++++YSYSLEVGG+GRK++W+G PRSIRDSH+KVRD
Sbjct: 235 RFMGDEEDARSYSYSLEVGGSGRKLTWEGTPRSIRDSHRKVRD 277

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9M2P4|SINA2_ARATH E3 ubiquitin-protein ligase SINAT2 OS=Arabidopsis thaliana GN=SINAT2 PE=2 SV=1

 Score =  392 bits (1008), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 178/223 (79%), Positives = 198/223 (88%)

Query: 50  SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKV 109
           ++ V ELLECPVC N MYPPIHQC NGHTLCS CK RV N CPTCR+ELGNIRCLALEKV
Sbjct: 51  NNGVYELLECPVCTNLMYPPIHQCPNGHTLCSNCKLRVQNTCPTCRYELGNIRCLALEKV 110

Query: 110 AASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKD 169
           A SLE+PC+YQ+ GC  I+PYYSKLKHE  C FRPY CPYAGSEC+V GDIP LV HLKD
Sbjct: 111 AESLEVPCRYQNLGCHDIFPYYSKLKHEQHCRFRPYTCPYAGSECSVTGDIPTLVVHLKD 170

Query: 170 DHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFL 229
           DHKVDMH+G TFNHRYVK NPHEVENATWMLTVF+CFG+ FCLHFEAFQLGMAPVY+AFL
Sbjct: 171 DHKVDMHDGCTFNHRYVKSNPHEVENATWMLTVFNCFGRQFCLHFEAFQLGMAPVYMAFL 230

Query: 230 RFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           RFMGD+NE+K +SYSLEVG +GRK++WQG+PRSIRDSH+KVRD
Sbjct: 231 RFMGDENEAKKFSYSLEVGAHGRKLTWQGIPRSIRDSHRKVRD 273

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P93748|SINA1_ARATH Putative E3 ubiquitin-protein ligase SINAT1 OS=Arabidopsis thaliana GN=SINAT1 PE=3 SV=1

 Score =  390 bits (1002), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 177/223 (79%), Positives = 197/223 (88%)

Query: 50  SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKV 109
           S+ V ELLECPVC N MYPPIHQC NGHTLCS CK RV N CPTCR+ELGNIRCLALEKV
Sbjct: 48  SNGVYELLECPVCTNLMYPPIHQCPNGHTLCSSCKLRVQNTCPTCRYELGNIRCLALEKV 107

Query: 110 AASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKD 169
           A SLE+PC+YQ+ GC  I+PYYSKLKHE  C FR Y+CPYAGSEC+V GDIP LV HLKD
Sbjct: 108 AESLEVPCRYQNLGCQDIFPYYSKLKHEQHCRFRSYSCPYAGSECSVTGDIPTLVDHLKD 167

Query: 170 DHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFL 229
           DHKVDMH+G TFNHRYVK NPHEVENATWMLTVF+CFG+ FCLHFEAFQLGMAPVY+AFL
Sbjct: 168 DHKVDMHDGCTFNHRYVKSNPHEVENATWMLTVFNCFGRQFCLHFEAFQLGMAPVYMAFL 227

Query: 230 RFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           RFMGD+NE+K +SYSLEVG + RK++WQG+PRSIRDSH+KVRD
Sbjct: 228 RFMGDENEAKKFSYSLEVGAHSRKLTWQGIPRSIRDSHRKVRD 270

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q86MW9|SINA_SCHMA E3 ubiquitin-protein ligase sina OS=Schistosoma mansoni GN=SINA PE=1 SV=1

 Score =  160 bits (404), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 85/238 (35%), Positives = 135/238 (56%), Gaps = 7/238 (2%)

Query: 31  SESSVNDPAQIALKPNLTVSSSV--RELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH 88
           S SS +D     L  N + SSS+    L ECPVC++   PPI QC +GH +C+ C+ ++ 
Sbjct: 96  SMSSASDTVCNILPHNTSDSSSIDLASLFECPVCMDYALPPIMQCQSGHIVCASCRSKL- 154

Query: 89  NRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCP 148
           + CPTCR  L NIR LA+EK+A+S+  PCKY + GC   + Y SK +HE+ C +RPY+CP
Sbjct: 155 SSCPTCRGNLDNIRNLAMEKLASSVLFPCKYSTSGCPETFHYTSKSEHEAACEYRPYDCP 214

Query: 149 YAGSECTVMGDIPYLVAHLKDDHK-VDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFG 207
             G+ C  +G++  ++ HL   HK +    G      ++  +        W++ + SCFG
Sbjct: 215 CPGASCKWLGELEQVMPHLVHHHKSITTLQGEDI--VFLATDISLPGAVDWVM-MQSCFG 271

Query: 208 QYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
             F L  E  +     ++ A ++ +G   ++  + Y LE+ G+ R+++W+  PRSI D
Sbjct: 272 HSFMLVLEKQERVPDQIFFALVQLIGTRKQADQFVYRLELNGHRRRLTWEACPRSIHD 329

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Mediates the ubiquitin-mediated degradation of nuclear receptors for retinoids SmRXR1 and SmRXR2.

Schistosoma mansoni (taxid: 6183)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q920M9|SIAH1_RAT E3 ubiquitin-protein ligase SIAH1 OS=Rattus norvegicus GN=Siah1 PE=1 SV=2

 Score =  155 bits (392), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 85/227 (37%), Positives = 128/227 (56%), Gaps = 8/227 (3%)

Query: 42  ALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNI 101
           AL      ++ +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR  LG+I
Sbjct: 24  ALTGTTASNNDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCRGPLGSI 82

Query: 102 RCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIP 161
           R LA+EKVA S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G + 
Sbjct: 83  RNLAMEKVANSVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLD 142

Query: 162 YLVAHLKDDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ- 218
            ++ HL   HK +    G          N P  V+   W++ + SCFG +F L  E  + 
Sbjct: 143 AVMPHLMHQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEK 198

Query: 219 LGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
                 + A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct: 199 YDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Mediates E3 ubiquitin ligase activity either through direct binding to substrates or by functioning as the essential RING domain subunit of larger E3 complexes. Triggers the ubiquitin-mediated degradation of many substrates, including proteins involved in transcription regulation (MYB, POU2AF1, PML and RBBP8), a cell surface receptor (DCC), cytoplasmic signal transduction molecules (KLF10/TIEG1 and NUMB), an antiapoptotic protein (BAG1), a microtubule motor protein (KIF22), a protein involved in synaptic vesicle function in neurons (SYP), a structural protein (CTNNB1) and SNCAIP. Confers constitutive instability to HIPK2 through proteasomal degradation. It is thereby involved in many cellular processes such as apoptosis, tumor suppression, cell cycle, axon guidance, transcription, spermatogenesis and TNF-alpha signaling. Has some overlapping function with SIAH2. Induces apoptosis in cooperation with PEG3 (By similarity). Upon nitric oxid (NO) generation that follows apoptotic stimulation, interacts with S-nitrosylated GAPDH, mediating the translocation of GAPDH to the nucleus. GAPDH acts as a stabilizer of SIAH1, facilitating the degradation of nuclear proteins.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P61092|SIA1A_MOUSE E3 ubiquitin-protein ligase SIAH1A OS=Mus musculus GN=Siah1a PE=1 SV=1

 Score =  155 bits (392), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 85/227 (37%), Positives = 128/227 (56%), Gaps = 8/227 (3%)

Query: 42  ALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNI 101
           AL      ++ +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR  LG+I
Sbjct: 24  ALTGTTASNNDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCRGPLGSI 82

Query: 102 RCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIP 161
           R LA+EKVA S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G + 
Sbjct: 83  RNLAMEKVANSVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLD 142

Query: 162 YLVAHLKDDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ- 218
            ++ HL   HK +    G          N P  V+   W++ + SCFG +F L  E  + 
Sbjct: 143 AVMPHLMHQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEK 198

Query: 219 LGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
                 + A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct: 199 YDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Mediates E3 ubiquitin ligase activity either through direct binding to substrates or by functioning as the essential RING domain subunit of larger E3 complexes. Triggers the ubiquitin-mediated degradation of many substrates, including proteins involved in transcription regulation (MYB, POU2AF1, PML and RBBP8), a cell surface receptor (DCC), the cell-surface receptor-type tyrosine kinase FLT3, the cytoplasmic signal transduction molecules (KLF10/TIEG1 and NUMB), an antiapoptotic protein (BAG1), a microtubule motor protein (KIF22), a protein involved in synaptic vesicle function in neurons (SYP), a structural protein (CTNNB1) and SNCAIP. Confers constitutive instability to HIPK2 through proteasomal degradation. It is thereby involved in many cellular processes such as apoptosis, tumor suppression, cell cycle, axon guidance, transcription, spermatogenesis and TNF-alpha signaling. Has some overlapping function with SIAH2. Required for completion of meiosis I in males. Induces apoptosis in cooperation with PEG3. Upon nitric oxid (NO) generation that follows apoptotic stimulation, interacts with S-nitrosylated GAPDH, mediating the translocation of GAPDH to the nucleus. GAPDH acts as a stabilizer of SIAH1, facilitating the degradation of nuclear proteins.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7ZVG6|SIAH1_DANRE E3 ubiquitin-protein ligase Siah1 OS=Danio rerio GN=siah1 PE=2 SV=2

 Score =  155 bits (392), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 84/219 (38%), Positives = 126/219 (57%), Gaps = 8/219 (3%)

Query: 50  SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKV 109
           +S +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR  LG+IR LA+EKV
Sbjct: 32  NSDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCRGPLGSIRNLAMEKV 90

Query: 110 AASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKD 169
           A S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G +  ++ HL  
Sbjct: 91  ANSVLFPCKYASSGCEVTLPHTDKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLLH 150

Query: 170 DHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ-LGMAPVYI 226
            HK +    G          N P  V+   W++ + SCFG +F L  E  +       + 
Sbjct: 151 QHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEKYDGHQQFF 206

Query: 227 AFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
           A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct: 207 AIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8IUQ4|SIAH1_HUMAN E3 ubiquitin-protein ligase SIAH1 OS=Homo sapiens GN=SIAH1 PE=1 SV=2

 Score =  155 bits (391), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 85/227 (37%), Positives = 127/227 (55%), Gaps = 8/227 (3%)

Query: 42  ALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNI 101
           AL      ++ +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR  LG+I
Sbjct: 24  ALTGTTASNNDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCRGPLGSI 82

Query: 102 RCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIP 161
           R LA+EKVA S+  PCKY S GC    P+  K  HE  C FRPY+CP  G+ C   G + 
Sbjct: 83  RNLAMEKVANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLD 142

Query: 162 YLVAHLKDDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ- 218
            ++ HL   HK +    G          N P  V+   W++ + SCFG +F L  E  + 
Sbjct: 143 AVMPHLMHQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEK 198

Query: 219 LGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
                 + A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct: 199 YDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Mediates E3 ubiquitin ligase activity either through direct binding to substrates or by functioning as the essential RING domain subunit of larger E3 complexes. Triggers the ubiquitin-mediated degradation of many substrates, including proteins involved in transcription regulation (MYB, POU2AF1, PML and RBBP8), a cell surface receptor (DCC), the cell-surface receptor-type tyrosine kinase FLT3, the cytoplasmic signal transduction molecules (KLF10/TIEG1 and NUMB), an antiapoptotic protein (BAG1), a microtubule motor protein (KIF22), a protein involved in synaptic vesicle function in neurons (SYP), a structural protein (CTNNB1) and SNCAIP. Confers constitutive instability to HIPK2 through proteasomal degradation. It is thereby involved in many cellular processes such as apoptosis, tumor suppression, cell cycle, axon guidance, transcription regulation, spermatogenesis and TNF-alpha signaling. Has some overlapping function with SIAH2. Induces apoptosis in cooperation with PEG3. Upon nitric oxid (NO) generation that follows apoptotic stimulation, interacts with S-nitrosylated GAPDH, mediating the translocation of GAPDH to the nucleus. GAPDH acts as a stabilizer of SIAH1, facilitating the degradation of nuclear proteins.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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	272
255544023	305	Ubiquitin ligase SINAT5, putative [Ricin	0.992	0.885	0.908	1e-148
224072867	305	predicted protein [Populus trichocarpa]	0.992	0.885	0.911	1e-148
225465943	305	PREDICTED: E3 ubiquitin-protein ligase S	0.992	0.885	0.897	1e-147
449452012	305	PREDICTED: E3 ubiquitin-protein ligase S	0.992	0.885	0.860	1e-142
356556829	304	PREDICTED: E3 ubiquitin-protein ligase S	0.988	0.884	0.867	1e-140
356548889	304	PREDICTED: E3 ubiquitin-protein ligase S	0.988	0.884	0.863	1e-139
379055943	304	E3 ubiquitin ligase-like protein [Lotus	0.988	0.884	0.856	1e-139
307136388	304	ubiquitin ligase SINAT5 [Cucumis melo su	0.988	0.884	0.871	1e-137
449449338	304	PREDICTED: E3 ubiquitin-protein ligase S	0.988	0.884	0.867	1e-137
357456699	304	E3 ubiquitin-protein ligase SINAT5 [Medi	0.988	0.884	0.834	1e-136

>gi|255544023|ref|XP_002513074.1| Ubiquitin ligase SINAT5, putative [Ricinus communis] gi|223548085|gb|EEF49577.1| Ubiquitin ligase SINAT5, putative [Ricinus communis]

 Score =  531 bits (1368), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 247/272 (90%), Positives = 263/272 (96%), Gaps = 2/272 (0%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           MASGNPF+DDLR+KPEVIDPP SED++++    SVNDPAQ A+KPN+TVSSSVRELLECP
Sbjct: 1   MASGNPFFDDLRSKPEVIDPPPSEDMMDV--GESVNDPAQTAMKPNVTVSSSVRELLECP 58

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKY 
Sbjct: 59  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYH 118

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
           S+GC+GIYPYYSKLKHESQC++RPYNCPYAGSECTV+GDIPYLVAHLKDDHKVDMHNGST
Sbjct: 119 SFGCVGIYPYYSKLKHESQCVYRPYNCPYAGSECTVIGDIPYLVAHLKDDHKVDMHNGST 178

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNE+KN
Sbjct: 179 FNHRYVKSNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNEAKN 238

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           Y+YSLEVGGNGRKM WQGVPRSIRDSH+KVRD
Sbjct: 239 YTYSLEVGGNGRKMIWQGVPRSIRDSHRKVRD 270

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224072867|ref|XP_002303919.1| predicted protein [Populus trichocarpa] gi|118483454|gb|ABK93626.1| unknown [Populus trichocarpa] gi|222841351|gb|EEE78898.1| predicted protein [Populus trichocarpa]

 Score =  529 bits (1362), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 248/272 (91%), Positives = 260/272 (95%), Gaps = 2/272 (0%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           MAS N F+DD+RNKPEVIDPP++EDL +I    SVNDPAQ ALKPN+TVSSSVRELLECP
Sbjct: 1   MASSNLFFDDIRNKPEVIDPPQNEDLTDI--GESVNDPAQTALKPNVTVSSSVRELLECP 58

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHTLCSGCKPRV NRCPTCRHELGNIRCLALEKVAASLELPCKYQ
Sbjct: 59  VCLNAMYPPIHQCSNGHTLCSGCKPRVQNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 118

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
           S+GC+GIYPYYSKLKHESQC+FRPYNCPYAGSECTV+GDIPYLVAHLKDDHKVDMHNGST
Sbjct: 119 SFGCIGIYPYYSKLKHESQCVFRPYNCPYAGSECTVIGDIPYLVAHLKDDHKVDMHNGST 178

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNE+KN
Sbjct: 179 FNHRYVKSNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNEAKN 238

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           YSYSLEVGG GRKM WQGVPRSIRDSH+KVRD
Sbjct: 239 YSYSLEVGGGGRKMIWQGVPRSIRDSHRKVRD 270

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465943|ref|XP_002272130.1| PREDICTED: E3 ubiquitin-protein ligase SINAT5 [Vitis vinifera] gi|147807603|emb|CAN68850.1| hypothetical protein VITISV_003067 [Vitis vinifera] gi|297742680|emb|CBI35133.3| unnamed protein product [Vitis vinifera]

 Score =  527 bits (1358), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 244/272 (89%), Positives = 260/272 (95%), Gaps = 2/272 (0%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           MASGN ++DD+R+K EVIDPP+SED++E+     VNDPAQ  LKPN+TVSSSVRELLECP
Sbjct: 1   MASGNTYFDDMRSKSEVIDPPQSEDMMEV--SEHVNDPAQTTLKPNVTVSSSVRELLECP 58

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ
Sbjct: 59  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 118

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
           S+GC+GIYPYYSKLKHESQC++RPYNCPYAGSECTV+GDIPYLVAHLKDDHKVDMHNGST
Sbjct: 119 SFGCLGIYPYYSKLKHESQCVYRPYNCPYAGSECTVIGDIPYLVAHLKDDHKVDMHNGST 178

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNE+KN
Sbjct: 179 FNHRYVKSNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNEAKN 238

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           YSYSLEVGG GRKM WQGVPRSIRDSH+KVRD
Sbjct: 239 YSYSLEVGGTGRKMIWQGVPRSIRDSHRKVRD 270

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452012|ref|XP_004143754.1| PREDICTED: E3 ubiquitin-protein ligase SINAT5-like [Cucumis sativus] gi|449516798|ref|XP_004165433.1| PREDICTED: E3 ubiquitin-protein ligase SINAT5-like [Cucumis sativus]

 Score =  508 bits (1309), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 234/272 (86%), Positives = 259/272 (95%), Gaps = 2/272 (0%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           MASG+P++DDLR+KPEVIDPP++ED+++I    +V+ P Q  LKPN+ VSSSVRELLECP
Sbjct: 1   MASGSPYFDDLRSKPEVIDPPQNEDMMDI--RETVDHPIQNELKPNVAVSSSVRELLECP 58

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKY 
Sbjct: 59  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYH 118

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
           +YGC+GIYPYYSK+KHESQC++RPY+CPYAGSEC+++GDIPYLVAHLKDDHKVDMH+GST
Sbjct: 119 TYGCIGIYPYYSKVKHESQCVYRPYSCPYAGSECSIVGDIPYLVAHLKDDHKVDMHSGST 178

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NP EVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDN++KN
Sbjct: 179 FNHRYVKSNPQEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNDAKN 238

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           YSYSLEVGGNGRKM WQGVPRSIRDSH+KVRD
Sbjct: 239 YSYSLEVGGNGRKMVWQGVPRSIRDSHRKVRD 270

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556829|ref|XP_003546723.1| PREDICTED: E3 ubiquitin-protein ligase SINAT5-like [Glycine max]

 Score =  501 bits (1291), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 236/272 (86%), Positives = 253/272 (93%), Gaps = 3/272 (1%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           MAS N F+DD+R+K +V DPP++++  ++     VNDPAQ ALKPN TVSSSVRELLECP
Sbjct: 1   MASSNLFFDDIRSKVDV-DPPQNDESTDV--GELVNDPAQTALKPNGTVSSSVRELLECP 57

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHT+CSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ
Sbjct: 58  VCLNAMYPPIHQCSNGHTICSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 117

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
            +GC+GIYPYYSKLKHESQC  RPYNCPYAGSEC++MGDIPYLVAHLKDDHKVDMHNGST
Sbjct: 118 GFGCIGIYPYYSKLKHESQCAHRPYNCPYAGSECSIMGDIPYLVAHLKDDHKVDMHNGST 177

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NP EVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNE+KN
Sbjct: 178 FNHRYVKSNPQEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNEAKN 237

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           YSYSLEVGGNGRKM WQGVPRSIRDSH+KVRD
Sbjct: 238 YSYSLEVGGNGRKMIWQGVPRSIRDSHRKVRD 269

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356548889|ref|XP_003542831.1| PREDICTED: E3 ubiquitin-protein ligase SINAT5-like [Glycine max]

 Score =  500 bits (1287), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 235/272 (86%), Positives = 253/272 (93%), Gaps = 3/272 (1%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           MAS N F+DD+R+K +V DPP++E+  ++     +NDPAQ ALKPN TVSSSVRELLECP
Sbjct: 1   MASSNLFFDDIRSKVDV-DPPQNEESTDV--GELLNDPAQTALKPNGTVSSSVRELLECP 57

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHT+CSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ
Sbjct: 58  VCLNAMYPPIHQCSNGHTICSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 117

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
            +GC+GIYPYYSKLKHESQC  RPYNCPYAGSEC++MGDIPYLVAHLKDDHKVDMHNGST
Sbjct: 118 GFGCIGIYPYYSKLKHESQCAHRPYNCPYAGSECSIMGDIPYLVAHLKDDHKVDMHNGST 177

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NP EVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDD+E+KN
Sbjct: 178 FNHRYVKSNPQEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDDEAKN 237

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           YSYSLEVGGNGRKM WQGVPRSIRDSH+KVRD
Sbjct: 238 YSYSLEVGGNGRKMIWQGVPRSIRDSHRKVRD 269

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|379055943|emb|CCG06553.1| E3 ubiquitin ligase-like protein [Lotus japonicus]

 Score =  499 bits (1285), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 233/272 (85%), Positives = 251/272 (92%), Gaps = 3/272 (1%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           MAS NP +DD+R+K +V DPP++E+L  ++    VND AQ  LKPN TVSSSVRELLECP
Sbjct: 1   MASSNPLFDDIRSKADV-DPPQNEELTGVIE--LVNDTAQATLKPNGTVSSSVRELLECP 57

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHT+CSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ
Sbjct: 58  VCLNAMYPPIHQCSNGHTICSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 117

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
            +GC+GIYPYYSKLKHES C +RPYNCPYAGSEC+VMGDIPYLV HLKDDHKVDMHNGST
Sbjct: 118 GFGCIGIYPYYSKLKHESLCTYRPYNCPYAGSECSVMGDIPYLVTHLKDDHKVDMHNGST 177

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NP EVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDD+E+KN
Sbjct: 178 FNHRYVKSNPQEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDSEAKN 237

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           YSYSLEVGGNGRKM WQGVPRSIRDSH+K+RD
Sbjct: 238 YSYSLEVGGNGRKMIWQGVPRSIRDSHRKIRD 269

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136388|gb|ADN34198.1| ubiquitin ligase SINAT5 [Cucumis melo subsp. melo]

 Score =  494 bits (1272), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 237/272 (87%), Positives = 258/272 (94%), Gaps = 3/272 (1%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           M S NP++DD+RNKPEVIDPP+ +D++++    SV+DPA+   KPN+ VSSSVRELLECP
Sbjct: 1   MTSANPYFDDIRNKPEVIDPPQDDDMMDV--SESVSDPARAGGKPNV-VSSSVRELLECP 57

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ
Sbjct: 58  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 117

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
           ++GC+GIYPYYSKLKHESQCI+RPYNCPYAGSEC+V+GDIP+LVAHLKDDHKVDMHNGST
Sbjct: 118 TFGCVGIYPYYSKLKHESQCIYRPYNCPYAGSECSVIGDIPFLVAHLKDDHKVDMHNGST 177

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NP EVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNE+KN
Sbjct: 178 FNHRYVKSNPQEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNEAKN 237

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           YSYSLEVGGNGRKM WQGVPRSIRDSH+KVRD
Sbjct: 238 YSYSLEVGGNGRKMVWQGVPRSIRDSHRKVRD 269

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449338|ref|XP_004142422.1| PREDICTED: E3 ubiquitin-protein ligase SINAT5-like [Cucumis sativus] gi|449524030|ref|XP_004169026.1| PREDICTED: E3 ubiquitin-protein ligase SINAT5-like [Cucumis sativus]

 Score =  493 bits (1268), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 236/272 (86%), Positives = 258/272 (94%), Gaps = 3/272 (1%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           M S NP++DD+RNKPEVIDPP+ +D++++    SV+DPA+   KPN+ VSSSVRELLECP
Sbjct: 1   MTSANPYFDDIRNKPEVIDPPQDDDMMDV--SESVSDPARSGGKPNV-VSSSVRELLECP 57

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ
Sbjct: 58  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 117

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
           ++GC+GIYPYYSKLKHESQCI+RPYNCPYAGSEC+V+GDIP+LV+HLKDDHKVDMHNGST
Sbjct: 118 TFGCVGIYPYYSKLKHESQCIYRPYNCPYAGSECSVIGDIPFLVSHLKDDHKVDMHNGST 177

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NP EVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNE+KN
Sbjct: 178 FNHRYVKSNPQEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNEAKN 237

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           YSYSLEVGGNGRKM WQGVPRSIRDSH+KVRD
Sbjct: 238 YSYSLEVGGNGRKMVWQGVPRSIRDSHRKVRD 269

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357456699|ref|XP_003598630.1| E3 ubiquitin-protein ligase SINAT5 [Medicago truncatula] gi|158516796|gb|ABW70161.1| SINA3 [Medicago truncatula] gi|355487678|gb|AES68881.1| E3 ubiquitin-protein ligase SINAT5 [Medicago truncatula]

 Score =  490 bits (1261), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 227/272 (83%), Positives = 250/272 (91%), Gaps = 3/272 (1%)

Query: 1   MASGNPFYDDLRNKPEVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECP 60
           M S NPF+DD+R++P V DPP++E+  EI     VNDP Q  +KPN TVSSSVRELLECP
Sbjct: 1   MTSSNPFFDDIRSRPGV-DPPQTEESTEI--PELVNDPIQTVVKPNGTVSSSVRELLECP 57

Query: 61  VCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQ 120
           VCLNAMYPPIHQCSNGHTLCSGCKPRVH+RCPTCRHELGNIRCLALEKVAASLELPCKYQ
Sbjct: 58  VCLNAMYPPIHQCSNGHTLCSGCKPRVHDRCPTCRHELGNIRCLALEKVAASLELPCKYQ 117

Query: 121 SYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST 180
            +GC+GIYPYYSKLKHESQC+FRPYNCPYAGSEC V+GD+ +LV HLKDDHKVDMH+G T
Sbjct: 118 GFGCIGIYPYYSKLKHESQCVFRPYNCPYAGSECAVVGDVQFLVDHLKDDHKVDMHSGCT 177

Query: 181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKN 240
           FNHRYVK NP EVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDD+++KN
Sbjct: 178 FNHRYVKSNPQEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDDQAKN 237

Query: 241 YSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           Y+YSLEVGGNGRKM+WQGVPRSIR+SH+KVRD
Sbjct: 238 YTYSLEVGGNGRKMTWQGVPRSIRESHRKVRD 269

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	272
TAIR|locus:2076810	326	AT3G61790 [Arabidopsis thalian	0.830	0.693	0.800	1.1e-105
TAIR|locus:2095848	308	SINAT2 "seven in absentia of A	0.893	0.788	0.741	2.5e-104
TAIR|locus:2137395	327	AT4G27880 [Arabidopsis thalian	0.838	0.697	0.786	3.2e-104
TAIR|locus:2064642	305	AT2G41980 [Arabidopsis thalian	0.819	0.731	0.793	4.7e-103
TAIR|locus:2091581	220	SINA2 "AT3G13672" [Arabidopsis	0.477	0.590	0.592	5.3e-49
ZFIN|ZDB-GENE-010319-31	282	siah1 "seven in absentia homol	0.819	0.790	0.377	4.8e-39
MGI|MGI:108064	282	Siah1a "seven in absentia 1A"	0.805	0.776	0.374	7.8e-39
RGD|620449	282	Siah1a "seven in absentia 1A"	0.805	0.776	0.374	7.8e-39
UNIPROTKB|Q920M9	282	Siah1 "E3 ubiquitin-protein li	0.805	0.776	0.374	7.8e-39
UNIPROTKB|F1P2G0	282	SIAH1 "Uncharacterized protein	0.805	0.776	0.374	1.3e-38

TAIR|locus:2076810 AT3G61790 [Arabidopsis thaliana (taxid:3702)]

 Score = 1046 (373.3 bits), Expect = 1.1e-105, P = 1.1e-105
 Identities = 181/226 (80%), Positives = 202/226 (89%)

Query:    47 LTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLAL 106
             L  ++SV ELLECPVC N+MYPPIHQC NGHTLCS CK RVHNRCPTCR ELG+IRCLAL
Sbjct:    51 LPTTTSVHELLECPVCTNSMYPPIHQCHNGHTLCSTCKARVHNRCPTCRQELGDIRCLAL 110

Query:   107 EKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAH 166
             EKVA SLELPCK+ S GC  I+PYYSKLKHE+ C FRPY+CPYAGSEC+V GDIP+LVAH
Sbjct:   111 EKVAESLELPCKHMSLGCPEIFPYYSKLKHETVCNFRPYSCPYAGSECSVTGDIPFLVAH 170

Query:   167 LKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYI 226
             L+DDHKVDMH+G TFNHRYVK NP EVENATWMLTVF CFGQYFCLHFEAFQLGMAPVY+
Sbjct:   171 LRDDHKVDMHSGCTFNHRYVKSNPREVENATWMLTVFHCFGQYFCLHFEAFQLGMAPVYM 230

Query:   227 AFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
             AFLRFMGD+ E++NY+YSLEVGG GRK+ W+G PRS+RDSH+KVRD
Sbjct:   231 AFLRFMGDETEARNYNYSLEVGGYGRKLIWEGTPRSVRDSHRKVRD 276

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

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2095848 SINAT2 "seven in absentia of Arabidopsis 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1033 (368.7 bits), Expect = 2.5e-104, P = 2.5e-104
 Identities = 181/244 (74%), Positives = 205/244 (84%)

Query:    30 VSESSVNDPAQIAL-KPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH 88
             V+ +    P    + K  +  ++ V ELLECPVC N MYPPIHQC NGHTLCS CK RV 
Sbjct:    30 VNNNKPTKPGSAGIGKYGIHSNNGVYELLECPVCTNLMYPPIHQCPNGHTLCSNCKLRVQ 89

Query:    89 NRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCP 148
             N CPTCR+ELGNIRCLALEKVA SLE+PC+YQ+ GC  I+PYYSKLKHE  C FRPY CP
Sbjct:    90 NTCPTCRYELGNIRCLALEKVAESLEVPCRYQNLGCHDIFPYYSKLKHEQHCRFRPYTCP 149

Query:   149 YAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQ 208
             YAGSEC+V GDIP LV HLKDDHKVDMH+G TFNHRYVK NPHEVENATWMLTVF+CFG+
Sbjct:   150 YAGSECSVTGDIPTLVVHLKDDHKVDMHDGCTFNHRYVKSNPHEVENATWMLTVFNCFGR 209

Query:   209 YFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHK 268
              FCLHFEAFQLGMAPVY+AFLRFMGD+NE+K +SYSLEVG +GRK++WQG+PRSIRDSH+
Sbjct:   210 QFCLHFEAFQLGMAPVYMAFLRFMGDENEAKKFSYSLEVGAHGRKLTWQGIPRSIRDSHR 269

Query:   269 KVRD 272
             KVRD
Sbjct:   270 KVRD 273

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

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2137395 AT4G27880 [Arabidopsis thaliana (taxid:3702)]

 Score = 1032 (368.3 bits), Expect = 3.2e-104, P = 3.2e-104
 Identities = 180/229 (78%), Positives = 203/229 (88%)

Query:    45 PNLTV-SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRC 103
             P  T  ++SV ELLECPVC  +MYPPIHQC NGHTLCS CK RVHNRCPTCR ELG+IRC
Sbjct:    49 PTATAPATSVYELLECPVCTYSMYPPIHQCHNGHTLCSTCKVRVHNRCPTCRQELGDIRC 108

Query:   104 LALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYL 163
             LALEKVA SLELPCK+ + GC  I+PYYSKLKHES C FRPY+CPYAGSEC ++GDIP+L
Sbjct:   109 LALEKVAESLELPCKFYNLGCPEIFPYYSKLKHESLCNFRPYSCPYAGSECGIVGDIPFL 168

Query:   164 VAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAP 223
             VAHL+DDHKVDMH GSTFNHRYVK NP EVENATWMLTVF CFGQYFCLHFEAFQLGM P
Sbjct:   169 VAHLRDDHKVDMHAGSTFNHRYVKSNPREVENATWMLTVFHCFGQYFCLHFEAFQLGMGP 228

Query:   224 VYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
             VY+AFLRFMGD+ ++++YSYSLEVGG+GRK++W+G PRSIRDSH+KVRD
Sbjct:   229 VYMAFLRFMGDEEDARSYSYSLEVGGSGRKLTWEGTPRSIRDSHRKVRD 277

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

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

TAIR|locus:2064642 AT2G41980 [Arabidopsis thaliana (taxid:3702)]

 Score = 1021 (364.5 bits), Expect = 4.7e-103, P = 4.7e-103
 Identities = 177/223 (79%), Positives = 197/223 (88%)

Query:    50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKV 109
             S+ V ELLECPVC N MYPPIHQC NGHTLCS CK RV N CPTCR+ELGNIRCLALEKV
Sbjct:    48 SNGVYELLECPVCTNLMYPPIHQCPNGHTLCSSCKLRVQNTCPTCRYELGNIRCLALEKV 107

Query:   110 AASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKD 169
             A SLE+PC+YQ+ GC  I+PYYSKLKHE  C FR Y+CPYAGSEC+V GDIP LV HLKD
Sbjct:   108 AESLEVPCRYQNLGCQDIFPYYSKLKHEQHCRFRSYSCPYAGSECSVTGDIPTLVDHLKD 167

Query:   170 DHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFL 229
             DHKVDMH+G TFNHRYVK NPHEVENATWMLTVF+CFG+ FCLHFEAFQLGMAPVY+AFL
Sbjct:   168 DHKVDMHDGCTFNHRYVKSNPHEVENATWMLTVFNCFGRQFCLHFEAFQLGMAPVYMAFL 227

Query:   230 RFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
             RFMGD+NE+K +SYSLEVG + RK++WQG+PRSIRDSH+KVRD
Sbjct:   228 RFMGDENEAKKFSYSLEVGAHSRKLTWQGIPRSIRDSHRKVRD 270

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

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2091581 SINA2 "AT3G13672" [Arabidopsis thaliana (taxid:3702)]

 Score = 465 (168.7 bits), Expect = 5.3e-49, Sum P(2) = 5.3e-49
 Identities = 77/130 (59%), Positives = 106/130 (81%)

Query:   143 RPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTV 202
             +PYNCP++G++C V GDI  L+ HL++DH V+M +G +F+HRYV  +P  + +ATWMLT+
Sbjct:    49 KPYNCPHSGAKCDVTGDIQRLLLHLRNDHNVEMSDGRSFSHRYVHHDPKHLHHATWMLTL 108

Query:   203 FSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRS 262
               C G+ FCL+FEAF L   P+Y+AF++FMGD+ E+ ++SYSL+VGGNGRK++WQGVPRS
Sbjct:   109 LDCCGRKFCLYFEAFHLRKTPMYMAFMQFMGDEEEAMSFSYSLQVGGNGRKLTWQGVPRS 168

Query:   263 IRDSHKKVRD 272
             IRDSHK VRD
Sbjct:   169 IRDSHKTVRD 178

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

ZFIN|ZDB-GENE-010319-31 siah1 "seven in absentia homolog 1 (Drosophila)" [Danio rerio (taxid:7955)]

 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 88/233 (37%), Positives = 132/233 (56%)

Query:    38 PAQ-IALKPNLTVSSS-VRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCR 95
             P+Q +      T S+S +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR
Sbjct:    18 PSQRVPTLSGTTASNSDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCR 76

Query:    96 HELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECT 155
               LG+IR LA+EKVA S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C 
Sbjct:    77 GPLGSIRNLAMEKVANSVLFPCKYASSGCEVTLPHTDKAEHEELCEFRPYSCPCPGASCK 136

Query:   156 VMGDIPYLVAHLKDDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLH 213
               G +  ++ HL   HK +    G          N P  V+   W++ + SCFG +F L 
Sbjct:   137 WQGSLDAVMPHLLHQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLV 192

Query:   214 FEAFQ-LGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
              E  +       + A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct:   193 LEKQEKYDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0007275 "multicellular organismal development" evidence=IEA

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

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

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

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

GO:0005829 "cytosol" evidence=ISS

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0051402 "neuron apoptotic process" evidence=ISS

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

MGI|MGI:108064 Siah1a "seven in absentia 1A" [Mus musculus (taxid:10090)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 85/227 (37%), Positives = 128/227 (56%)

Query:    42 ALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNI 101
             AL      ++ +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR  LG+I
Sbjct:    24 ALTGTTASNNDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCRGPLGSI 82

Query:   102 RCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIP 161
             R LA+EKVA S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G + 
Sbjct:    83 RNLAMEKVANSVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLD 142

Query:   162 YLVAHLKDDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ- 218
              ++ HL   HK +    G          N P  V+   W++ + SCFG +F L  E  + 
Sbjct:   143 AVMPHLMHQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEK 198

Query:   219 LGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
                   + A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct:   199 YDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0005769 "early endosome" evidence=ISO

GO:0005829 "cytosol" evidence=ISO

GO:0005886 "plasma membrane" evidence=ISO

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0007141 "male meiosis I" evidence=IMP

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IMP

GO:0008022 "protein C-terminus binding" evidence=ISO

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

GO:0009791 "post-embryonic development" evidence=IMP

GO:0016567 "protein ubiquitination" evidence=TAS

GO:0016874 "ligase activity" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0030163 "protein catabolic process" evidence=ISO

GO:0030877 "beta-catenin destruction complex" evidence=ISO

GO:0031648 "protein destabilization" evidence=ISO

GO:0040014 "regulation of multicellular organism growth" evidence=IMP

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

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0043065 "positive regulation of apoptotic process" evidence=ISO

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051402 "neuron apoptotic process" evidence=ISO

GO:2001244 "positive regulation of intrinsic apoptotic signaling pathway" evidence=ISO

RGD|620449 Siah1a "seven in absentia 1A" [Rattus norvegicus (taxid:10116)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 85/227 (37%), Positives = 128/227 (56%)

Query:    42 ALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNI 101
             AL      ++ +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR  LG+I
Sbjct:    24 ALTGTTASNNDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCRGPLGSI 82

Query:   102 RCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIP 161
             R LA+EKVA S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G + 
Sbjct:    83 RNLAMEKVANSVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLD 142

Query:   162 YLVAHLKDDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ- 218
              ++ HL   HK +    G          N P  V+   W++ + SCFG +F L  E  + 
Sbjct:   143 AVMPHLMHQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEK 198

Query:   219 LGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
                   + A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct:   199 YDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005769 "early endosome" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0007049 "cell cycle" evidence=IEA

GO:0007141 "male meiosis I" evidence=ISO

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IEA;ISO

GO:0008022 "protein C-terminus binding" evidence=ISO;IPI

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

GO:0009791 "post-embryonic development" evidence=ISO

GO:0030154 "cell differentiation" evidence=IEA

GO:0030163 "protein catabolic process" evidence=ISO

GO:0030877 "beta-catenin destruction complex" evidence=ISO;ISS

GO:0031648 "protein destabilization" evidence=IMP

GO:0040014 "regulation of multicellular organism growth" evidence=ISO

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

GO:0042803 "protein homodimerization activity" evidence=ISO

GO:0043065 "positive regulation of apoptotic process" evidence=IEA;ISO

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO;ISS

GO:0051402 "neuron apoptotic process" evidence=IMP

GO:2001244 "positive regulation of intrinsic apoptotic signaling pathway" evidence=IEA;ISO

UNIPROTKB|Q920M9 Siah1 "E3 ubiquitin-protein ligase SIAH1" [Rattus norvegicus (taxid:10116)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 85/227 (37%), Positives = 128/227 (56%)

Query:    42 ALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNI 101
             AL      ++ +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR  LG+I
Sbjct:    24 ALTGTTASNNDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCRGPLGSI 82

Query:   102 RCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIP 161
             R LA+EKVA S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G + 
Sbjct:    83 RNLAMEKVANSVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLD 142

Query:   162 YLVAHLKDDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ- 218
              ++ HL   HK +    G          N P  V+   W++ + SCFG +F L  E  + 
Sbjct:   143 AVMPHLMHQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEK 198

Query:   219 LGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
                   + A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct:   199 YDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|F1P2G0 SIAH1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 85/227 (37%), Positives = 127/227 (55%)

Query:    42 ALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNI 101
             AL      ++ +  L ECPVC + + PPI QC +GH +CS C+P++   CPTCR  LG+I
Sbjct:    24 ALTGTTASNNDLASLFECPVCFDYVLPPILQCQSGHLVCSNCRPKL-TCCPTCRGPLGSI 82

Query:   102 RCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIP 161
             R LA+EKVA S+  PCKY S GC    P+  K  HE  C FRPY+CP  G+ C   G + 
Sbjct:    83 RNLAMEKVANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLD 142

Query:   162 YLVAHLKDDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ- 218
              ++ HL   HK +    G          N P  V+   W++ + SCFG +F L  E  + 
Sbjct:   143 AVMPHLMHQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEK 198

Query:   219 LGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
                   + A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct:   199 YDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 245

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

GO:0005634 "nucleus" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0030877 "beta-catenin destruction complex" evidence=IEA

GO:0043065 "positive regulation of apoptotic process" evidence=IEA

GO:2001244 "positive regulation of intrinsic apoptotic signaling pathway" 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)
Q84JL3	SINA3_ARATH	6, ., 3, ., 2, ., -	0.8008	0.8308	0.6932	yes	no
Q8S3N1	SINA5_ARATH	6, ., 3, ., 2, ., -	0.7561	0.875	0.7702	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	272
pfam03145	198	pfam03145, Sina, Seven in absentia protein family	3e-74
cd03829	127	cd03829, Sina, Seven in absentia (Sina) protein fa	3e-47
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-04
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	0.002

>gnl|CDD|190542 pfam03145, Sina, Seven in absentia protein family

 Score =  224 bits (573), Expect = 3e-74
 Identities = 73/172 (42%), Positives = 105/172 (61%)

Query: 101 IRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDI 160
           IR LA+EKVA+ +  PCK+ + GC    P   K  HE +C ++PY CP  G++C   GD 
Sbjct: 1   IRNLAVEKVASKVLFPCKHAALGCPVRLPLQLKDWHEERCEYKPYFCPMPGAKCKWQGDE 60

Query: 161 PYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLG 220
             L+ HL  DHKV    G  F+  Y+    + V   TW++  FSCFG++F L+ E + LG
Sbjct: 61  DDLMPHLTADHKVITTEGGEFDIVYLAAAVNLVGAPTWVMVQFSCFGRHFNLYLEKYDLG 120

Query: 221 MAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
              +Y A ++ +G+  E++N++Y LE+GGN RK++WQ  PRSIRD HK   D
Sbjct: 121 GTQMYFAVIQLIGERKEAENFAYELELGGNRRKLTWQAFPRSIRDDHKFAID 172

The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non- neuronal cell type. The Sina protein contains an N-terminal RING finger domain pfam00097. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that thus Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is described in pfam00097, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana. Length = 198

>gnl|CDD|239753 cd03829, Sina, Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins

 Score =  153 bits (389), Expect = 3e-47
 Identities = 31/101 (30%), Positives = 56/101 (55%), Gaps = 4/101 (3%)

Query: 173 VDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQL-GMAPVYIAFLRF 231
           V    G   +  ++  + +    AT  + + SCFG +F L  E  +L      + AF++ 
Sbjct: 1   VTTLQGE--DIVFLATDINLPG-ATDWVMMQSCFGHHFMLVLEKQELYEGHQQFFAFVQL 57

Query: 232 MGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           +G + +++N++Y LE+ GN R+++W+  PRSIR+ H  V D
Sbjct: 58  IGTEKQAENFTYRLELNGNRRRLTWEATPRSIREGHASVID 98

Sina, Siah and SINAT5 are RING-containing proteins that function as E3 ubiquitin ligases, acting either as single proteins or as a part of multiprotein complexes. Sina is expressed in many cells in the developing eye but is essential specifically for R7 photoreceptor cell development. Sina cooperates with Phyllopod (Phyl), Ebi and the E2 ubiquitin-conjugating enzyme Ubcd1 to catalyze the ubiquitination and subsequent degradation of Tramtrack (Ttk88); Ttk88 is a transcriptional repressor that blocks photoreceptor differentiation. Similarly, the mammalian homologue Siah1 cooperates with SIP (Siah-interacting protein), Ebi and the adaptor protein Skp1, to target beta-catenin for ubiquitination and degradation via a p53-dependent mechanism. SINAT5 targets NAC1 for ubiquitin-mediated degradation resulting in the downregulation of auxin, a hormone that controls many aspects of plant development. Other targets of Sina family proteins include c-Myb, synaptophysin, group 1 glutamate receptors, promyelocytic leukemia protein, alpha-synuclein, synphilin-1 and alpha-ketoglutarate dehydrogenase, among others. Sina proteins also bind proteins that are not targets for ubiquitination such as Phyl, adenomatous polyposis coli, VAV, BAG-1 and Dab-1. Siah binds to a consensus motif, PXAXVXP, which is present in Siah-binding proteins. Siah is a dimeric protein consisting of an N-terminal RING domain, two zinc finger motifs and a C-terminal substrate-binding domain (SBD); this SBD contains an eight-stranded antiparallel beta-sandwich fold similar to the MATH (meprin and TRAF-C homology) domain. Length = 127

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

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 3/45 (6%)

Query: 55 ELLECPVCLNAMYPPIHQCSNGHTLCSGCKPR---VHNRCPTCRH 96
          E LECP+CL+ +  P+     GH  C  C  R     ++CP CR 
Sbjct: 1  EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 34.7 bits (80), Expect = 0.002
 Identities = 15/45 (33%), Positives = 18/45 (40%), Gaps = 4/45 (8%)

Query: 58 ECPVCLNAMYPPIHQCSNGHTLCSGC----KPRVHNRCPTCRHEL 98
          ECP+CL     P+     GH  C  C         N CP CR  +
Sbjct: 1  ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	272
KOG3002	299	consensus Zn finger protein [General function pred	100.0
PF03145	198	Sina: Seven in absentia protein family; InterPro:	100.0
cd03829	127	Sina Seven in absentia (Sina) protein family, C-te	99.95
KOG0297	391	consensus TNF receptor-associated factor [Signal t	99.4
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.66
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.63
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.6
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.59
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.54
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.51
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.51
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.42
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.35
PF02176	60	zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A	98.27
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.25
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.21
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.2
PHA02929	238	N1R/p28-like protein; Provisional	98.09
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.04
PF14634	44	zf-RING_5: zinc-RING finger domain	98.03
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	97.95
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.94
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	97.86
PHA02926	242	zinc finger-like protein; Provisional	97.79
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.6
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.52
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.52
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.51
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.49
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.41
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.32
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.28
PLN03086	567	PRLI-interacting factor K; Provisional	97.0
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.96
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.96
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	96.89
COG5152	259	Uncharacterized conserved protein, contains RING a	96.43
KOG2660	331	consensus Locus-specific chromosome binding protei	96.19
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	96.18
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.12
PLN03086	567	PRLI-interacting factor K; Provisional	95.98
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.97
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	95.95
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.95
PF02176	60	zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A	95.74
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	95.61
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	95.35
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.28
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	95.0
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.9
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	94.74
KOG4739	233	consensus Uncharacterized protein involved in syna	94.71
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	94.64
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.45
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.9
KOG1002	791	consensus Nucleotide excision repair protein RAD16	93.51
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	93.5
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	92.98
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	92.85
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	92.38
COG5236	493	Uncharacterized conserved protein, contains RING Z	91.32
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	91.03
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	90.79
COG5219	1525	Uncharacterized conserved protein, contains RING Z	90.66
KOG4367	699	consensus Predicted Zn-finger protein [Function un	89.96
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	89.38
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	88.87
KOG3039	303	consensus Uncharacterized conserved protein [Funct	88.49
KOG0825	1134	consensus PHD Zn-finger protein [General function	87.87
PF13909	24	zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W	87.76
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	87.27
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	87.19
PF04641	260	Rtf2: Rtf2 RING-finger	86.98
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	86.65
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	85.41
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	85.27
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	84.27
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	83.87
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	83.56
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	83.05
PF13913	25	zf-C2HC_2: zinc-finger of a C2HC-type	82.59
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	80.59
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	80.33

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

Probab=100.00  E-value=2.8e-46  Score=338.05  Aligned_cols=223  Identities=45%  Similarity=0.862  Sum_probs=209.5

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCcccccCCCCCCcccCCCcccchhHHHHhhhcCCCcccccCCCCcee
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIY  128 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~  128 (272)
                      ......++|+||||++.+.+||+||.+||+.|++|..++.+.||.||.+++++|+++||++++++.++|+|...||++.+
T Consensus        41 ~~~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~~~~  120 (299)
T KOG3002|consen   41 VTLLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCTKSF  120 (299)
T ss_pred             ccccchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHHHhceecccccccCCceee
Confidence            44556789999999999999999999999999999988889999999999999999999999999999999999999999


Q ss_pred             ccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhcCCCCCcCCceEEEEEeecCCcccccceeEEEEEeecCe
Q 046177          129 PYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQ  208 (272)
Q Consensus       129 ~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~~~~~g~~~~~~~~~s~~~~v~~~~~~l~v~~~~~~  208 (272)
                      +|.+..+||+.|.|+|+.||.++..|+|.|..+++..|+...|+.++..+..++++|..+++..+...+|++.+..++++
T Consensus       121 ~Y~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~~hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  200 (299)
T KOG3002|consen  121 PYGEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLNDTHKSDIITLTGFDFVFVATDENLLGAATWTLKTSVCFGR  200 (299)
T ss_pred             ccccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHhhChhhhhhccccceecccCCccccccchhheeeeecCcE
Confidence            99999999999999999999998889999999999999999999988888888889999988888888998877779999


Q ss_pred             eEEEEEeeeeeCCc-cEEEEEEEEeCCccCCCCcEEEEEEecCCceEEEEeeccchhccccccc
Q 046177          209 YFCLHFEAFQLGMA-PVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVR  271 (272)
Q Consensus       209 ~F~l~~~~~~~~~~-~~~~a~v~~iG~~~~a~~f~Y~l~~~~~~r~l~~~s~~~si~~~~~~~~  271 (272)
                      .|++++..+..+.. ++|+++++++|.+++|++|+|+|++.+++++|+||+.|+|+++++.+++
T Consensus       201 ~~~~~~~~q~~~~~~~~y~tv~~i~~~~~e~~~fsy~L~~~~~~~klt~~s~~~s~~~kvs~~~  264 (299)
T KOG3002|consen  201 EFGLLFEVQCFREPHGVYVTVNRIAPSAPEAGEFSYSLALGGSGRKLTWQSPPRSIIQKVSKVR  264 (299)
T ss_pred             EEeeeeeehhhcCCCceEEEeehhccCCCcccccceeeecCCCCceEeecCCcceeecccceec
Confidence            99999999887554 8999999999999999999999999999999999999999999998765

>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila

Probab=100.00  E-value=1.3e-38  Score=274.94  Aligned_cols=171  Identities=42%  Similarity=0.850  Sum_probs=127.7

Q ss_pred             ccchhHHHHhhhcCCCcccccCCCCceeccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhcCCCCCcCCce
Q 046177          101 IRCLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGST  180 (272)
Q Consensus       101 ~r~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~~~~~g~~  180 (272)
                      +||++||++++++++||+|+..||++.+++.++.+||++|+|+|+.||.++.+|+|.|+.++|..|+..+|.+.+..+..
T Consensus         1 iR~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~~~~~~~~~   80 (198)
T PF03145_consen    1 IRNRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKHSWNVTDNGT   80 (198)
T ss_dssp             --------------EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHTTTSEEEESS
T ss_pred             CCcHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHCCCccccCcc
Confidence            48999999999999999999999999999999999999999999999997667999999999999999999998877677


Q ss_pred             EEEEEeecCCcccccceeEEEEEeecCeeEEEEEeeeeeCCccEEEEEEEEeCCccCCCCcEEEEEEecCCceEEEEeec
Q 046177          181 FNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVP  260 (272)
Q Consensus       181 ~~~~~~~s~~~~v~~~~~~l~v~~~~~~~F~l~~~~~~~~~~~~~~a~v~~iG~~~~a~~f~Y~l~~~~~~r~l~~~s~~  260 (272)
                      +.++|..++.......+|+++.++|+|++|+|+++.+......+|+++||++|++++|++|+|+|++.+++|||+||++|
T Consensus        81 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~F~l~~~~~~~~~~~v~~~~v~~~G~~~~a~~f~Yel~~~~~~rkl~~~~~p  160 (198)
T PF03145_consen   81 FSISFLHSDINSVESPDWVLVQFSCFGKLFLLYVQKFELEGNAVYFAVVCYIGPAEEASNFSYELEVRSNGRKLTWQSFP  160 (198)
T ss_dssp             -EEEEEECTTT-SSSEEEEEEE-EETTEEEEEEEEEEEEETEEEEEEEEEESS-HHHHTTEEEEEEEEETTEEEEEEE--
T ss_pred             ceEEEeeecccccCCceEEEeecccCCccEEEEEEEEccCCceEEEEEEEEccCchhhhceEEEEEEecCCcEEEEEEcC
Confidence            77888887776556678988666999999999998887655679999999999999999999999999999999999999


Q ss_pred             cchhccccccc
Q 046177          261 RSIRDSHKKVR  271 (272)
Q Consensus       261 ~si~~~~~~~~  271 (272)
                      +||+++++.++
T Consensus       161 ~si~~~~~~~~  171 (198)
T PF03145_consen  161 RSIREDIDDAI  171 (198)
T ss_dssp             EETTT-SHHHH
T ss_pred             cchhhhHHhhc
Confidence            99999998764

The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.

>cd03829 Sina Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins

Probab=99.95  E-value=1.9e-29  Score=196.39  Aligned_cols=96  Identities=31%  Similarity=0.626  Sum_probs=89.4

Q ss_pred             CCcCCceEEEEEeecCCcccccceeEEEEEeecCeeEEEEEeeeee-CCccEEEEEEEEeCCccCCCCcEEEEEEecCCc
Q 046177          174 DMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQL-GMAPVYIAFLRFMGDDNESKNYSYSLEVGGNGR  252 (272)
Q Consensus       174 ~~~~g~~~~~~~~~s~~~~v~~~~~~l~v~~~~~~~F~l~~~~~~~-~~~~~~~a~v~~iG~~~~a~~f~Y~l~~~~~~r  252 (272)
                      ++++|+  +++|++++++.++ +.|.+++++|||++|||+++++++ +.+++|+|++|+||+.++|++|+|+||+.+|+|
T Consensus         2 ~~~~G~--di~fl~t~~~~~~-a~~w~mv~sCfG~~F~L~~Ek~~l~~~~~~y~A~~~~iG~~~eA~nf~Y~Lel~~n~R   78 (127)
T cd03829           2 TTLQGE--DIVFLATDINLPG-ATDWVMMQSCFGHHFMLVLEKQELYEGHQQFFAFVQLIGTEKQAENFTYRLELNGNRR   78 (127)
T ss_pred             ccccCc--cEEEEecCCCCcc-ceeeeehhhhcCceEEEEEehhhhcCCcHHHHHHHHHHcCHhHHhcceEEEEEcCCCc
Confidence            567898  6799999999887 666677999999999999999999 778999999999999999999999999999999


Q ss_pred             eEEEEeeccchhcccccccC
Q 046177          253 KMSWQGVPRSIRDSHKKVRD  272 (272)
Q Consensus       253 ~l~~~s~~~si~~~~~~~~~  272 (272)
                      ||+||++||||||+|++|+|
T Consensus        79 kL~we~~PRSIrds~~~~~~   98 (127)
T cd03829          79 RLTWEATPRSIREGHASVID   98 (127)
T ss_pred             EEEeecCCccHHHhhHHHhh
Confidence            99999999999999999985

Sina, Siah and SINAT5 are RING-containing proteins that function as E3 ubiquitin ligases, acting either as single proteins or as a part of multiprotein complexes. Sina is expressed in many cells in the developing eye but is essential specifically for R7 photoreceptor cell development. Sina cooperates with Phyllopod (Phyl), Ebi and the E2 ubiquitin-conjugating enzyme Ubcd1 to catalyze the ubiquitination and subsequent degradation of Tramtrack (Ttk88); Ttk88 is a transcriptional repressor that blocks photoreceptor differentiation. Similarly, the mammalian homologue Siah1 cooperates with SIP (Siah-interacting protein), Ebi and the adaptor protein Skp1, to target beta-catenin for ubiquitination and degradation via a p53-dependent mechanism. SINAT5 targets NAC1 for ubiquitin-medi

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

Probab=99.40  E-value=4.3e-13  Score=126.90  Aligned_cols=118  Identities=31%  Similarity=0.638  Sum_probs=103.5

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCcc----cchhHHHHhhhcCCCcccccCC
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGNI----RCLALEKVAASLELPCKYQSYG  123 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~~----r~~~le~~~~~l~v~C~~~~~G  123 (272)
                      ..+.+++.||+|..++.+|+..-.|||.||..|+..+   ...||.|+..+...    ....+.+.+.++.+.|.+...|
T Consensus        16 ~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~G   95 (391)
T KOG0297|consen   16 RPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASRG   95 (391)
T ss_pred             CCCcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCCC
Confidence            3478889999999999999743479999999999998   36899999887642    2467889999999999999999


Q ss_pred             CCceeccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhcCCC
Q 046177          124 CMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKV  173 (272)
Q Consensus       124 C~~~~~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~  173 (272)
                      |.|.+.+..+..|+..|  .+.+||+   +|+..+.++++.+|++.....
T Consensus        96 C~~~~~l~~~~~Hl~~c--~~~~C~~---~C~~~~~~~d~~~hl~~~C~~  140 (391)
T KOG0297|consen   96 CRADLELEALQGHLSTC--DPLKCPH---RCGVQVPRDDLEDHLEAECPR  140 (391)
T ss_pred             ccccccHHHHHhHhccC--CcccCcc---ccccccchHHHHHHHhccccc
Confidence            99999999999999999  9999998   399999999999999776553

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.66  E-value=1.1e-08  Score=96.44  Aligned_cols=78  Identities=23%  Similarity=0.473  Sum_probs=57.3

Q ss_pred             CCCCccccccCCCcccccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc---ccchhHH
Q 046177           34 SVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN---IRCLALE  107 (272)
Q Consensus        34 ~~~~~~~~~~~~~~~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~---~r~~~le  107 (272)
                      ++.|++.-... .+...+.+.+.+.|+||.+++..|+.+ .|||.||..|+..+   ...||.|+..+..   .+|..++
T Consensus         5 di~D~tDw~~t-~~~~l~~Le~~l~C~IC~d~~~~Pvit-pCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~   82 (397)
T TIGR00599         5 DITDSSDWLTT-PIPSLYPLDTSLRCHICKDFFDVPVLT-SCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVS   82 (397)
T ss_pred             cCCCchhhccC-CcccccccccccCCCcCchhhhCccCC-CCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHH
Confidence            33444443333 233457888999999999999999865 89999999999876   3579999998764   4567676


Q ss_pred             HHhhhc
Q 046177          108 KVAASL  113 (272)
Q Consensus       108 ~~~~~l  113 (272)
                      ++++.+
T Consensus        83 ~iVe~~   88 (397)
T TIGR00599        83 EIVESF   88 (397)
T ss_pred             HHHHHH
Confidence            666543

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

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

Probab=98.63  E-value=8.5e-09  Score=72.16  Aligned_cols=58  Identities=24%  Similarity=0.602  Sum_probs=30.7

Q ss_pred             CCCCeeeeccccccCcCCcccccCCceeccCccccc-CCCCCCcccCCC--c-ccchhHHHH
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV-HNRCPTCRHELG--N-IRCLALEKV  109 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~-~~~CP~Cr~~~~--~-~r~~~le~~  109 (272)
                      .+++.|.|++|.++|+.|+..-.|.|+||+.|+..- ...||.|..|.-  . ..|+.++.+
T Consensus         3 ~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~   64 (65)
T PF14835_consen    3 RLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSM   64 (65)
T ss_dssp             HHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHH
T ss_pred             HHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhcc
Confidence            456778999999999999865579999999998774 467999999863  2 345555544

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

Probab=98.60  E-value=1.1e-08  Score=66.45  Aligned_cols=35  Identities=37%  Similarity=1.090  Sum_probs=26.9

Q ss_pred             eccccccCcCCcccccCCceeccCcccccC-------CCCCCc
Q 046177           59 CPVCLNAMYPPIHQCSNGHTLCSGCKPRVH-------NRCPTC   94 (272)
Q Consensus        59 CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~-------~~CP~C   94 (272)
                      ||||+++|++|+.. .|||+||..|+.++.       ..||.|
T Consensus         1 CpiC~~~~~~Pv~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCcccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999865 899999999999871       358876

>smart00504 Ubox Modified RING finger domain

Probab=98.59  E-value=2.8e-08  Score=69.66  Aligned_cols=56  Identities=25%  Similarity=0.380  Sum_probs=46.3

Q ss_pred             eeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc---ccchhHHHHhhh
Q 046177           56 LLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN---IRCLALEKVAAS  112 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~~~~  112 (272)
                      .|.||||.++|.+|+.. .|||+||..|+.++   ...||.|+.+++.   .+|..+.+.++.
T Consensus         1 ~~~Cpi~~~~~~~Pv~~-~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~~   62 (63)
T smart00504        1 EFLCPISLEVMKDPVIL-PSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQE   62 (63)
T ss_pred             CcCCcCCCCcCCCCEEC-CCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHHh
Confidence            36899999999999865 79999999999987   4689999999853   567777776653

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

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.54  E-value=2.9e-08  Score=84.58  Aligned_cols=47  Identities=23%  Similarity=0.721  Sum_probs=39.8

Q ss_pred             CCCeeeeccccccCcCCcccccCCceeccCcccccC-------------------CCCCCcccCCCc
Q 046177           53 VRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH-------------------NRCPTCRHELGN  100 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~-------------------~~CP~Cr~~~~~  100 (272)
                      ..+.+.|+||++.+++|+.+ .|||.||..|+.+|.                   ..||.||.++..
T Consensus        15 ~~~~~~CpICld~~~dPVvT-~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         15 SGGDFDCNICLDQVRDPVVT-LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CCCccCCccCCCcCCCcEEc-CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            34568999999999999865 899999999998761                   479999998863

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

Probab=98.51  E-value=1.1e-08  Score=92.99  Aligned_cols=67  Identities=25%  Similarity=0.584  Sum_probs=54.1

Q ss_pred             CcccccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc---ccchhHHHHhhhc
Q 046177           46 NLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN---IRCLALEKVAASL  113 (272)
Q Consensus        46 ~~~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~~~~l  113 (272)
                      .+.....+.+.|.|.||+++|+.|+.+ +|||.||+-|+.+.   ++.||.|+.++..   ..|+.++.++.++
T Consensus        13 sipslk~lD~lLRC~IC~eyf~ip~it-pCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   13 SIPSLKTLDDLLRCGICFEYFNIPMIT-PCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSL   85 (442)
T ss_pred             cCchhhhhHHHHHHhHHHHHhcCceec-cccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence            355677888999999999999999877 79999999999886   5899999998764   3355666655544

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

Probab=98.51  E-value=5.2e-08  Score=84.58  Aligned_cols=48  Identities=25%  Similarity=0.663  Sum_probs=42.1

Q ss_pred             CCCCeeeeccccccCcCCcccccCCceeccCccccc------CCCCCCcccCCCc
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV------HNRCPTCRHELGN  100 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~------~~~CP~Cr~~~~~  100 (272)
                      .....|+|.||++..++||+++ |||+||-.|+.+|      ...||+|+..++.
T Consensus        43 ~~~~~FdCNICLd~akdPVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   43 RDGGFFDCNICLDLAKDPVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CCCCceeeeeeccccCCCEEee-cccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            4567899999999999999884 9999999999999      3679999998764

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

Probab=98.42  E-value=6.2e-08  Score=61.75  Aligned_cols=36  Identities=33%  Similarity=1.077  Sum_probs=29.5

Q ss_pred             eccccccCcCCcccccCCceeccCccccc---CCCCCCc
Q 046177           59 CPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTC   94 (272)
Q Consensus        59 CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~C   94 (272)
                      |+||++.+.+|+..-.|||+||..|+.++   ..+||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999999999655589999999999987   4678876

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

Probab=98.35  E-value=1.1e-07  Score=63.91  Aligned_cols=43  Identities=30%  Similarity=0.832  Sum_probs=36.7

Q ss_pred             eeeeccccccCcCCcccccCCce-eccCccccc---CCCCCCcccCCC
Q 046177           56 LLECPVCLNAMYPPIHQCSNGHT-LCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      +..|+||++...++++. +|||. +|..|..++   ...||.||+++.
T Consensus         2 ~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRDVVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSSEEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCceEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            56899999999998877 89999 999999998   479999999875

...

>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A

Probab=98.27  E-value=3.5e-07  Score=63.59  Aligned_cols=53  Identities=26%  Similarity=0.423  Sum_probs=38.2

Q ss_pred             hcCCCcccccCCCCceeccCcHHhhhh-cCCCccccCCCCCCCCccccChhHHHHH
Q 046177          112 SLELPCKYQSYGCMGIYPYYSKLKHES-QCIFRPYNCPYAGSECTVMGDIPYLVAH  166 (272)
Q Consensus       112 ~l~v~C~~~~~GC~~~~~~~~~~~He~-~C~~~~~~CP~~~~~C~~~g~~~~l~~H  166 (272)
                      ...+.|+|  .||...++..++.+|.+ +|+++++.||+...||++.+.+.+|.+|
T Consensus         7 ~~~v~C~~--~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H   60 (60)
T PF02176_consen    7 FRPVPCPN--GCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH   60 (60)
T ss_dssp             TSEEE-TT----S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred             CCEeeCCC--CCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence            45688987  46778899999999999 9999999999977789999999999987

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

Probab=98.25  E-value=3.9e-07  Score=66.27  Aligned_cols=59  Identities=24%  Similarity=0.305  Sum_probs=44.9

Q ss_pred             CCeeeeccccccCcCCcccccCCceeccCcccccC----CCCCCcccCCCc---ccchhHHHHhhhc
Q 046177           54 RELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH----NRCPTCRHELGN---IRCLALEKVAASL  113 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~~~---~r~~~le~~~~~l  113 (272)
                      ++.|.|||+.++|.+||.. .+||+|++.++.+|.    ..||.++.++..   .+|.+|.+.++.+
T Consensus         2 P~~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~   67 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEW   67 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHH
T ss_pred             CcccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHH
Confidence            5789999999999999866 799999999999982    679999998875   6788888877654

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 ....

>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=98.21  E-value=2.8e-07  Score=60.20  Aligned_cols=38  Identities=34%  Similarity=0.876  Sum_probs=31.3

Q ss_pred             eeccccccCc--CCcccccCCceeccCccccc---CCCCCCcc
Q 046177           58 ECPVCLNAMY--PPIHQCSNGHTLCSGCKPRV---HNRCPTCR   95 (272)
Q Consensus        58 ~CpiC~~~l~--~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr   95 (272)
                      .|+||++.+.  ..++...|||.||.+|+.+|   ..+||.||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            5999999994  34556679999999999998   47999997

...

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

Probab=98.20  E-value=5.1e-07  Score=75.43  Aligned_cols=46  Identities=33%  Similarity=0.881  Sum_probs=37.1

Q ss_pred             CCeeeeccccccCcCCc-ccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           54 RELLECPVCLNAMYPPI-HQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv-~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      ...+.||||++....-+ +...|||+||+.|+...   ...||+|+..+.
T Consensus       129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt  178 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT  178 (187)
T ss_pred             ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence            46699999999986543 34479999999999886   378999998664

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.09  E-value=9.9e-07  Score=78.03  Aligned_cols=48  Identities=27%  Similarity=0.638  Sum_probs=38.1

Q ss_pred             CCCeeeeccccccCcCC-c------ccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           53 VRELLECPVCLNAMYPP-I------HQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~P-v------~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ..+...|+||++.+..+ +      ....|||.||..|+.+|   ...||.||.++..
T Consensus       171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~  228 (238)
T PHA02929        171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS  228 (238)
T ss_pred             CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence            34568999999987653 1      23479999999999998   4789999998764

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

Probab=98.04  E-value=1.2e-06  Score=78.48  Aligned_cols=47  Identities=26%  Similarity=0.632  Sum_probs=40.7

Q ss_pred             CCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           53 VRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      .+....|.+|++....|-.+ +|||+||-+|+..|   +..||.||..+..
T Consensus       236 ~~a~~kC~LCLe~~~~pSaT-pCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSAT-PCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             CCCCCceEEEecCCCCCCcC-cCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            45668999999999999644 79999999999999   5789999998764

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.03  E-value=1.2e-06  Score=57.36  Aligned_cols=38  Identities=32%  Similarity=0.905  Sum_probs=30.9

Q ss_pred             eeccccccC---cCCcccccCCceeccCcccccC---CCCCCccc
Q 046177           58 ECPVCLNAM---YPPIHQCSNGHTLCSGCKPRVH---NRCPTCRH   96 (272)
Q Consensus        58 ~CpiC~~~l---~~Pv~qC~cGH~~C~~C~~~~~---~~CP~Cr~   96 (272)
                      +|++|++.+   ..|++. +|||+||..|+.++.   ..||.|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~-~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLT-SCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEc-ccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            499999999   244444 899999999999874   58999974

>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=97.95  E-value=2.9e-06  Score=54.33  Aligned_cols=36  Identities=33%  Similarity=0.988  Sum_probs=30.3

Q ss_pred             eccccccCcCCcccccCCceeccCccccc-----CCCCCCc
Q 046177           59 CPVCLNAMYPPIHQCSNGHTLCSGCKPRV-----HNRCPTC   94 (272)
Q Consensus        59 CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~-----~~~CP~C   94 (272)
                      |+||.+.+..|+..-+|||.||..|+.++     ...||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999999999834489999999999887     2568876

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 ....

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

Probab=97.94  E-value=1.9e-06  Score=77.05  Aligned_cols=52  Identities=29%  Similarity=0.650  Sum_probs=44.4

Q ss_pred             cccccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           47 LTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        47 ~~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      +.+...+...+.|-||.+.++.|+.+ +|||.||+-|+.+.   ++.||.||.+..
T Consensus        16 IPSL~~LDs~lrC~IC~~~i~ip~~T-tCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          16 IPSLKGLDSMLRCRICDCRISIPCET-TCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             CcchhcchhHHHhhhhhheeecceec-ccccchhHHHHHHHhcCCCCCccccccHH
Confidence            34466778889999999999999866 89999999999886   478999998764

>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=97.86  E-value=4.1e-06  Score=53.63  Aligned_cols=41  Identities=37%  Similarity=0.983  Sum_probs=33.3

Q ss_pred             eeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCC
Q 046177           58 ECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHEL   98 (272)
Q Consensus        58 ~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~   98 (272)
                      .|+||.+.+..|+..-.|||.||..|+.++    ...||.|+..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999999778655459999999999876    25799998753

>PHA02926 zinc finger-like protein; Provisional

Probab=97.79  E-value=4.1e-06  Score=72.56  Aligned_cols=48  Identities=31%  Similarity=0.742  Sum_probs=37.2

Q ss_pred             CCCCeeeeccccccCcC---------CcccccCCceeccCcccccC---------CCCCCcccCCCc
Q 046177           52 SVRELLECPVCLNAMYP---------PIHQCSNGHTLCSGCKPRVH---------NRCPTCRHELGN  100 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~---------Pv~qC~cGH~~C~~C~~~~~---------~~CP~Cr~~~~~  100 (272)
                      ...++.+|+||++....         ++.. .|+|.||..|+.+|.         ..||.||..+..
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~-~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLD-SCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccC-CCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            44567899999998643         2433 799999999999993         239999998764

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

Probab=97.60  E-value=1.1e-05  Score=52.55  Aligned_cols=27  Identities=30%  Similarity=0.955  Sum_probs=18.0

Q ss_pred             eccccccCcC----CcccccCCceeccCccccc
Q 046177           59 CPVCLNAMYP----PIHQCSNGHTLCSGCKPRV   87 (272)
Q Consensus        59 CpiC~~~l~~----Pv~qC~cGH~~C~~C~~~~   87 (272)
                      ||||.+ +..    |+.. .|||+||..|+.++
T Consensus         1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l   31 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKL   31 (43)
T ss_dssp             -TTT-----TTSS-EEE--SSS-EEEHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHH
Confidence            899999 777    8766 69999999999987

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.52  E-value=4.7e-05  Score=69.54  Aligned_cols=46  Identities=30%  Similarity=0.685  Sum_probs=34.1

Q ss_pred             Ceeeeccccc--cCcCCc--ccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           55 ELLECPVCLN--AMYPPI--HQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~--~l~~Pv--~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      +...||+|..  ++.+-+  +.-.|||.||.+|+..+    ...||.|+.++..
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk   55 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK   55 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence            3468999999  444431  22269999999999985    3579999988753

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).

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

Probab=97.52  E-value=2.5e-05  Score=74.89  Aligned_cols=44  Identities=30%  Similarity=0.799  Sum_probs=37.4

Q ss_pred             eeeeccccccCcCCcccccCCceeccCccccc--------CCCCCCcccCCCc
Q 046177           56 LLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV--------HNRCPTCRHELGN  100 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~--------~~~CP~Cr~~~~~  100 (272)
                      ...||||++...-|+.+ .|||+||..|+-..        -..||+|+..+..
T Consensus       186 ~~~CPICL~~~~~p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCccccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            78899999999988766 79999999998763        2579999998764

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

Probab=97.51  E-value=3.1e-05  Score=68.60  Aligned_cols=45  Identities=27%  Similarity=0.540  Sum_probs=38.6

Q ss_pred             CCeeeeccccccCcCCcccccCCceeccCcccc-c---C-CCCCCcccCCC
Q 046177           54 RELLECPVCLNAMYPPIHQCSNGHTLCSGCKPR-V---H-NRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~-~---~-~~CP~Cr~~~~   99 (272)
                      ..++.|++|.+....|... .|||+||-.|+.. |   + ..||.||.-..
T Consensus       213 ~~d~kC~lC~e~~~~ps~t-~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCT-PCGHLFCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             ccccceeeeecccCCcccc-cccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence            6789999999999999866 7999999999888 6   2 45999998654

>smart00184 RING Ring finger

Probab=97.49  E-value=2.8e-05  Score=47.86  Aligned_cols=35  Identities=40%  Similarity=1.108  Sum_probs=29.2

Q ss_pred             eccccccCcCCcccccCCceeccCccccc----CCCCCCc
Q 046177           59 CPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTC   94 (272)
Q Consensus        59 CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~C   94 (272)
                      |+||.+....++.. .|||.||..|+.++    ...||.|
T Consensus         1 C~iC~~~~~~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence            79999998888766 79999999999876    2568876

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)

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

Probab=97.41  E-value=2.9e-05  Score=68.86  Aligned_cols=67  Identities=28%  Similarity=0.585  Sum_probs=50.0

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCcccccC---CCCCCcccCCCc-ccchhHHHHhhhcCCCc
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH---NRCPTCRHELGN-IRCLALEKVAASLELPC  117 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~---~~CP~Cr~~~~~-~r~~~le~~~~~l~v~C  117 (272)
                      ...+.+.+.||||++.+..|... .|||.||..|+..+.   ..||.||..... .+|..+.+++..+....
T Consensus         7 ~~~~~~~~~C~iC~~~~~~p~~l-~C~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~~~~~   77 (386)
T KOG2177|consen    7 LEVLQEELTCPICLEYFREPVLL-PCGHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERLRQLR   77 (386)
T ss_pred             hhhccccccChhhHHHhhcCccc-cccchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHHHhcC
Confidence            45567889999999999999544 699999999998864   689999951111 35666777766665443

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

Probab=97.32  E-value=1.2e-05  Score=73.85  Aligned_cols=50  Identities=28%  Similarity=0.638  Sum_probs=42.4

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      ..+...+.||||+.+|+..+.+=.|+|.||..|+-+.    .+.||+||+.+..
T Consensus        38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            4566788999999999988766569999999998875    4789999998765

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

Probab=97.28  E-value=6.7e-05  Score=71.09  Aligned_cols=64  Identities=36%  Similarity=0.729  Sum_probs=50.5

Q ss_pred             CCccccccCCCcccccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           36 NDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        36 ~~~~~~~~~~~~~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      .+.+...+....+....+...|.|.||...+.+|+.+ +|||.+|..|+.+.   ...||.||.++..
T Consensus        64 e~~~~~~~~~~~s~~~~~~sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   64 ETMADSTPKALLSGPEEIRSEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             hhhhhhhhhhhhccCccccchhhhhhhHhhcCCCccc-cccccccHHHHHHHhccCCCCccccccccc
Confidence            3333345555555566778999999999999999977 99999999997775   3689999998863

>PLN03086 PRLI-interacting factor K; Provisional

Probab=97.00  E-value=0.00086  Score=66.20  Aligned_cols=106  Identities=21%  Similarity=0.432  Sum_probs=59.8

Q ss_pred             CCCCeeeeccccccCcCCcc-----cccCCceeccC--ccccc-------CCCCCCcccCCCcccchhHHHHhh--hcCC
Q 046177           52 SVRELLECPVCLNAMYPPIH-----QCSNGHTLCSG--CKPRV-------HNRCPTCRHELGNIRCLALEKVAA--SLEL  115 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~-----qC~cGH~~C~~--C~~~~-------~~~CP~Cr~~~~~~r~~~le~~~~--~l~v  115 (272)
                      ...+...|+-|......--+     .|...-+.|..  |...+       ...|+.|...+..   ..+++-..  ..++
T Consensus       403 ~~~~~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~---s~LekH~~~~Hkpv  479 (567)
T PLN03086        403 MDVDTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQ---GEMEKHMKVFHEPL  479 (567)
T ss_pred             CCCCeEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccch---HHHHHHHHhcCCCc
Confidence            34566789999887643211     24333334432  43332       2468888776642   22222222  3456


Q ss_pred             CcccccCCCCceeccCcHHhhhh-cCCCccccCCCCCCCCccccC-----------hhHHHHHhhh
Q 046177          116 PCKYQSYGCMGIYPYYSKLKHES-QCIFRPYNCPYAGSECTVMGD-----------IPYLVAHLKD  169 (272)
Q Consensus       116 ~C~~~~~GC~~~~~~~~~~~He~-~C~~~~~~CP~~~~~C~~~g~-----------~~~l~~Hl~~  169 (272)
                      .|+     |+..+...++..|.. .|+.+++.|++    |+....           ...|..|...
T Consensus       480 ~Cp-----Cg~~~~R~~L~~H~~thCp~Kpi~C~f----C~~~v~~g~~~~d~~d~~s~Lt~HE~~  536 (567)
T PLN03086        480 QCP-----CGVVLEKEQMVQHQASTCPLRLITCRF----CGDMVQAGGSAMDVRDRLRGMSEHESI  536 (567)
T ss_pred             cCC-----CCCCcchhHHHhhhhccCCCCceeCCC----CCCccccCccccchhhhhhhHHHHHHh
Confidence            675     666666677777765 68778888876    666553           2356677655

>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=96.96  E-value=0.00096  Score=55.08  Aligned_cols=28  Identities=21%  Similarity=0.488  Sum_probs=23.5

Q ss_pred             cccCCCCCCCCccccChhHHHHHhhhcCCC
Q 046177          144 PYNCPYAGSECTVMGDIPYLVAHLKDDHKV  173 (272)
Q Consensus       144 ~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~  173 (272)
                      +-.|+.-  +|.|.|+..+|..|.+.+|..
T Consensus       107 ~RsC~~e--~C~F~GtY~eLrKHar~~HP~  134 (162)
T PF07800_consen  107 KRSCSQE--SCSFSGTYSELRKHARSEHPS  134 (162)
T ss_pred             CccCccc--ccccccCHHHHHHHHHhhCCC
Confidence            3466663  599999999999999999984

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.

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

Probab=96.96  E-value=0.00016  Score=72.38  Aligned_cols=50  Identities=28%  Similarity=0.717  Sum_probs=41.7

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      ..+....|.||+|..=.++-|.. .|||.||..|+.+.    ..+||.|..+|+.
T Consensus       637 lk~yK~~LkCs~Cn~R~Kd~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  637 LKEYKELLKCSVCNTRWKDAVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             HHHHHhceeCCCccCchhhHHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            34567889999999777777765 79999999998875    4789999999874

>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=96.89  E-value=0.00036  Score=50.66  Aligned_cols=38  Identities=29%  Similarity=0.703  Sum_probs=29.6

Q ss_pred             eeccccccCcCCc------------ccccCCceeccCccccc---CCCCCCcc
Q 046177           58 ECPVCLNAMYPPI------------HQCSNGHTLCSGCKPRV---HNRCPTCR   95 (272)
Q Consensus        58 ~CpiC~~~l~~Pv------------~qC~cGH~~C~~C~~~~---~~~CP~Cr   95 (272)
                      .|+||++.|.+|.            ..-.|||.|-..|+.+|   ...||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            3999999995442            22259999999999998   47899997

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 ....

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

Probab=96.43  E-value=0.00093  Score=57.05  Aligned_cols=56  Identities=23%  Similarity=0.486  Sum_probs=42.2

Q ss_pred             eeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc--ccchhHHHHhhh
Q 046177           56 LLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN--IRCLALEKVAAS  112 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~--~r~~~le~~~~~  112 (272)
                      -|.|.||..-+..||.+ .|||.||+.|..+-   ...|-.|....-.  .-...+++++.+
T Consensus       196 PF~C~iCKkdy~spvvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~kmL~~  256 (259)
T COG5152         196 PFLCGICKKDYESPVVT-ECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKMLNK  256 (259)
T ss_pred             ceeehhchhhccchhhh-hcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHHHhh
Confidence            37899999999999866 89999999997653   3679889776432  234456666654

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

Probab=96.19  E-value=0.00099  Score=60.95  Aligned_cols=51  Identities=20%  Similarity=0.481  Sum_probs=42.2

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ..++.....|.+|..+|.++-..-.|=|+||++|+-+.   ...||.|...+..
T Consensus         9 ~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen    9 LTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             hhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            35667889999999999999555469999999998875   4789999887653

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

Probab=96.18  E-value=0.0016  Score=48.52  Aligned_cols=41  Identities=24%  Similarity=0.536  Sum_probs=30.8

Q ss_pred             eccccccCcC-CcccccCCceeccCccccc------CCCCCCcccCCC
Q 046177           59 CPVCLNAMYP-PIHQCSNGHTLCSGCKPRV------HNRCPTCRHELG   99 (272)
Q Consensus        59 CpiC~~~l~~-Pv~qC~cGH~~C~~C~~~~------~~~CP~Cr~~~~   99 (272)
                      ||.|..+-.+ |+....|+|.|=..|+.+|      ++.||+||++..
T Consensus        35 Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   35 CPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            5555554433 5556689999999999998      378999999764

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

Probab=96.12  E-value=0.0039  Score=56.35  Aligned_cols=46  Identities=22%  Similarity=0.608  Sum_probs=38.3

Q ss_pred             eeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCcccc
Q 046177           57 LECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGNIRC  103 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~~r~  103 (272)
                      +.|-||...+..||.+ .|||.||..|..+-   ...|++|.+++-..-|
T Consensus       242 f~c~icr~~f~~pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~  290 (313)
T KOG1813|consen  242 FKCFICRKYFYRPVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFN  290 (313)
T ss_pred             ccccccccccccchhh-cCCceeehhhhccccccCCcceecccccccccc
Confidence            6799999999999976 89999999997664   2689999998754333

>PLN03086 PRLI-interacting factor K; Provisional

Probab=95.98  E-value=0.02  Score=56.73  Aligned_cols=39  Identities=26%  Similarity=0.458  Sum_probs=18.4

Q ss_pred             CCceeccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhh
Q 046177          124 CMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLK  168 (272)
Q Consensus       124 C~~~~~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~  168 (272)
                      |...+...++.+|+..| +.++.||     |+....+.+|..|+.
T Consensus       459 Cgk~f~~s~LekH~~~~-Hkpv~Cp-----Cg~~~~R~~L~~H~~  497 (567)
T PLN03086        459 CGQAFQQGEMEKHMKVF-HEPLQCP-----CGVVLEKEQMVQHQA  497 (567)
T ss_pred             CCCccchHHHHHHHHhc-CCCccCC-----CCCCcchhHHHhhhh
Confidence            44444444455555554 3455554     333334445555543

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

Probab=95.97  E-value=0.0021  Score=42.72  Aligned_cols=40  Identities=30%  Similarity=0.840  Sum_probs=20.4

Q ss_pred             eccccccCcC---CcccccCCceeccCccccc----CCCCCCcccCC
Q 046177           59 CPVCLNAMYP---PIHQCSNGHTLCSGCKPRV----HNRCPTCRHEL   98 (272)
Q Consensus        59 CpiC~~~l~~---Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~   98 (272)
                      ||+|.+.+..   -++-|.||..+|..|..++    .+.||.||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7889888832   2456999999999997776    37899999864

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

Probab=95.95  E-value=0.00076  Score=45.73  Aligned_cols=42  Identities=31%  Similarity=0.794  Sum_probs=33.7

Q ss_pred             eeeccccccCcCCcccccCCce-eccCccccc----CCCCCCcccCCC
Q 046177           57 LECPVCLNAMYPPIHQCSNGHT-LCSGCKPRV----HNRCPTCRHELG   99 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~----~~~CP~Cr~~~~   99 (272)
                      -+|-||++-..+-|.. .|||. .|..|-.++    +..||.||.++.
T Consensus         8 dECTICye~pvdsVlY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLY-TCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcchHHHH-HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            4799999987777654 59996 899996664    478999999874

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

Probab=95.95  E-value=0.005  Score=55.10  Aligned_cols=47  Identities=28%  Similarity=0.497  Sum_probs=37.4

Q ss_pred             CCCeeeeccccccCcCCcccccCCceeccCccccc-----CCCCCCcccCCC
Q 046177           53 VRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV-----HNRCPTCRHELG   99 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~-----~~~CP~Cr~~~~   99 (272)
                      -...-+||+|.+....|...-.|||++|..|+..-     ...||.|.++..
T Consensus       236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            34667999999999999533249999999998874     258999988764

>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A

Probab=95.74  E-value=0.0044  Score=42.67  Aligned_cols=37  Identities=35%  Similarity=0.635  Sum_probs=28.3

Q ss_pred             hhhcCCCccccCCCCCCCCccccChhHHHHHhhhcCCCC
Q 046177          136 HESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVD  174 (272)
Q Consensus       136 He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~~  174 (272)
                      |+..|+++++.||+.+  |.....+.+|.+|+.+.-...
T Consensus         1 H~~~C~~~~v~C~~~c--c~~~i~r~~l~~H~~~~C~~~   37 (60)
T PF02176_consen    1 HEEECPFRPVPCPNGC--CNEMIPRKELDDHLENECPKR   37 (60)
T ss_dssp             HHTTSTTSEEE-TT----S-BEEECCCHHHHHHTTSTTS
T ss_pred             CcccCCCCEeeCCCCC--cccceeHHHHHHHHHccCCCC
Confidence            8889999999999843  667788999999999766543

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

Probab=95.61  E-value=0.0053  Score=55.65  Aligned_cols=44  Identities=25%  Similarity=0.557  Sum_probs=37.2

Q ss_pred             eeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           56 LLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      .-+|+||+.-..-|+.. .|+|.||.-|+...    +..|++||.++..
T Consensus         7 ~~eC~IC~nt~n~Pv~l-~C~HkFCyiCiKGsy~ndk~~CavCR~pids   54 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVNL-YCFHKFCYICIKGSYKNDKKTCAVCRFPIDS   54 (324)
T ss_pred             CCcceeeeccCCcCccc-cccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence            34799999999999755 79999999998875    3579999999863

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

Probab=95.35  E-value=0.0036  Score=62.08  Aligned_cols=44  Identities=30%  Similarity=0.618  Sum_probs=37.0

Q ss_pred             CCeeeeccccccCcC-----CcccccCCceeccCccccc---CCCCCCcccCC
Q 046177           54 RELLECPVCLNAMYP-----PIHQCSNGHTLCSGCKPRV---HNRCPTCRHEL   98 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~-----Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~   98 (272)
                      .....|+||.+.|..     |... .|||+|+..|+.+|   ++.||.||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            346689999999977     5445 79999999999999   58999999944

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

Probab=95.28  E-value=0.0069  Score=54.84  Aligned_cols=40  Identities=33%  Similarity=0.884  Sum_probs=34.9

Q ss_pred             eeeccccccCcCCcccccCCceeccCccccc----CCCCCCccc
Q 046177           57 LECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRH   96 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~   96 (272)
                      |.||.|..+++.|+.+-.|||.||..|+...    ...||.|..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            8999999999999877339999999999864    378999976

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

Probab=95.00  E-value=0.0059  Score=42.16  Aligned_cols=35  Identities=23%  Similarity=0.370  Sum_probs=24.2

Q ss_pred             CCCeeeeccccccCcCCcccccCCceeccCccccc
Q 046177           53 VRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV   87 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~   87 (272)
                      ....+.|||...++.+||..-.|||+|.+..+..+
T Consensus         8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~   42 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQY   42 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHH
T ss_pred             cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHH
Confidence            34568999999999999866569999988887776

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.90  E-value=0.0066  Score=55.86  Aligned_cols=48  Identities=31%  Similarity=0.794  Sum_probs=38.3

Q ss_pred             cCCCCeeeeccccccCcC---CcccccCCceeccCccccc----CCCCCCcccCCC
Q 046177           51 SSVRELLECPVCLNAMYP---PIHQCSNGHTLCSGCKPRV----HNRCPTCRHELG   99 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~---Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~   99 (272)
                      ++.++++ ||.|.+.|..   -.+-|+||-.+|.-|+..+    .+.||.||....
T Consensus        10 sedeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~   64 (480)
T COG5175          10 SEDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD   64 (480)
T ss_pred             ccccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence            4445555 9999999853   3678999999999998876    489999998654

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

Probab=94.74  E-value=0.012  Score=53.58  Aligned_cols=43  Identities=26%  Similarity=0.756  Sum_probs=35.1

Q ss_pred             eeeccccccCcCC--cccccCCceeccCccccc----CCCCCCcccCCC
Q 046177           57 LECPVCLNAMYPP--IHQCSNGHTLCSGCKPRV----HNRCPTCRHELG   99 (272)
Q Consensus        57 l~CpiC~~~l~~P--v~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~   99 (272)
                      .+|.||.+-+..-  +..-+|.|.|=..|+++|    +.+||+||.++.
T Consensus       324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            7999999877422  333479999999999999    479999999875

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

Probab=94.71  E-value=0.017  Score=50.95  Aligned_cols=44  Identities=20%  Similarity=0.616  Sum_probs=34.9

Q ss_pred             eeeeccccccC-cCCcccccCCceeccCcccccCC-CCCCcccCCC
Q 046177           56 LLECPVCLNAM-YPPIHQCSNGHTLCSGCKPRVHN-RCPTCRHELG   99 (272)
Q Consensus        56 ~l~CpiC~~~l-~~Pv~qC~cGH~~C~~C~~~~~~-~CP~Cr~~~~   99 (272)
                      -..|..|..-- .+|.+...|+|+||..|.....+ .||.|+.++.
T Consensus         3 ~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~ir   48 (233)
T KOG4739|consen    3 FVHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSIR   48 (233)
T ss_pred             eEEeccccccCCCCceeeeechhhhhhhhcccCCccccccccceee
Confidence            45788887644 56777778999999999877654 9999999864

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

Probab=94.64  E-value=0.01  Score=55.08  Aligned_cols=45  Identities=33%  Similarity=0.759  Sum_probs=38.1

Q ss_pred             CCeeeeccccccCcCCcccccCCce-eccCccccc---CCCCCCcccCCC
Q 046177           54 RELLECPVCLNAMYPPIHQCSNGHT-LCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      +.--+|-||+.-.++-+.. +|.|+ .|+.|...+   .+.||+||+++.
T Consensus       288 ~~gkeCVIClse~rdt~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcceEEe-cchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            3457899999999998766 89997 999998877   378999999885

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

Probab=94.45  E-value=0.0061  Score=55.01  Aligned_cols=42  Identities=31%  Similarity=0.771  Sum_probs=36.4

Q ss_pred             CeeeeccccccCcCCcccccCCce-eccCcccccCCCCCCcccCC
Q 046177           55 ELLECPVCLNAMYPPIHQCSNGHT-LCSGCKPRVHNRCPTCRHEL   98 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~~~~CP~Cr~~~   98 (272)
                      ....|.||++...+=++. .|||. .|..|-.++ +.||+||+.+
T Consensus       299 ~~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkrm-~eCPICRqyi  341 (350)
T KOG4275|consen  299 TRRLCAICMDAPRDCVFL-ECGHMVTCTKCGKRM-NECPICRQYI  341 (350)
T ss_pred             HHHHHHHHhcCCcceEEe-ecCcEEeehhhcccc-ccCchHHHHH
Confidence            367899999999998887 89995 799998887 6999999865

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.90  E-value=0.06  Score=36.72  Aligned_cols=43  Identities=26%  Similarity=0.515  Sum_probs=31.9

Q ss_pred             eeeeccccccCcCCcccccCCceeccCcccccC-CCCCCcccCCC
Q 046177           56 LLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH-NRCPTCRHELG   99 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~-~~CP~Cr~~~~   99 (272)
                      ...|-.|...-...++. +|||++|..|+.-.. +-||.|..++.
T Consensus         7 ~~~~~~~~~~~~~~~~~-pCgH~I~~~~f~~~rYngCPfC~~~~~   50 (55)
T PF14447_consen    7 EQPCVFCGFVGTKGTVL-PCGHLICDNCFPGERYNGCPFCGTPFE   50 (55)
T ss_pred             ceeEEEccccccccccc-cccceeeccccChhhccCCCCCCCccc
Confidence            34566666665545444 799999999988764 78999999875

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

Probab=93.51  E-value=0.023  Score=55.22  Aligned_cols=50  Identities=24%  Similarity=0.533  Sum_probs=41.3

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCccccc--------CCCCCCcccCCC
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV--------HNRCPTCRHELG   99 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~--------~~~CP~Cr~~~~   99 (272)
                      +.++......|.+|.++..++|.. .|.|.||+-|+...        .-.||.|...++
T Consensus       529 ~~~enk~~~~C~lc~d~aed~i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  529 LPDENKGEVECGLCHDPAEDYIES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             CCccccCceeecccCChhhhhHhh-hhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            345566788999999999999855 89999999999664        358999988775

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

Probab=93.50  E-value=0.018  Score=41.42  Aligned_cols=44  Identities=25%  Similarity=0.568  Sum_probs=19.4

Q ss_pred             eeeeccccccCc----CCccccc---CCceeccCccccc--------------CCCCCCcccCCC
Q 046177           56 LLECPVCLNAMY----PPIHQCS---NGHTLCSGCKPRV--------------HNRCPTCRHELG   99 (272)
Q Consensus        56 ~l~CpiC~~~l~----~Pv~qC~---cGH~~C~~C~~~~--------------~~~CP~Cr~~~~   99 (272)
                      .+.|+||+..+.    .|...|.   |+..|=..|+.+|              .+.||.|+.++.
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            468999999764    3666673   7777767788887              145999988774

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

Probab=92.98  E-value=0.039  Score=44.39  Aligned_cols=45  Identities=24%  Similarity=0.748  Sum_probs=36.6

Q ss_pred             CeeeeccccccCcCCcc----cccCCceeccCccccc------CCCCCCcccCCCc
Q 046177           55 ELLECPVCLNAMYPPIH----QCSNGHTLCSGCKPRV------HNRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~----qC~cGH~~C~~C~~~~------~~~CP~Cr~~~~~  100 (272)
                      ..++|.||.+.-.++.+    .| ||-..|..|...+      .+.||.|+..+..
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneC-CgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNEC-CGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             CceeccCcccccchhhcCCcccc-cchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            88999999998766544    34 9999999997764      3789999998754

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

Probab=92.85  E-value=0.025  Score=53.23  Aligned_cols=42  Identities=29%  Similarity=0.674  Sum_probs=34.6

Q ss_pred             eeccccccCcCCcccccCCceeccCcccccC-----CCCCCcccCCCc
Q 046177           58 ECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH-----NRCPTCRHELGN  100 (272)
Q Consensus        58 ~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~-----~~CP~Cr~~~~~  100 (272)
                      .|-||-+-=++--.. +|||+.|..|+..|+     +.||.||..+..
T Consensus       371 LCKICaendKdvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAENDKDVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhccCCCcccc-cccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            499999977765334 799999999999993     689999998753

>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=92.38  E-value=0.16  Score=34.30  Aligned_cols=49  Identities=24%  Similarity=0.502  Sum_probs=33.3

Q ss_pred             CCcccccCCCCceeccCcHHhhhhc--CC-CccccCCCCCCCCccccChhHHHHHhhhcCC
Q 046177          115 LPCKYQSYGCMGIYPYYSKLKHESQ--CI-FRPYNCPYAGSECTVMGDIPYLVAHLKDDHK  172 (272)
Q Consensus       115 v~C~~~~~GC~~~~~~~~~~~He~~--C~-~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~  172 (272)
                      ++|||    |...+....|..|...  .. -..+.||.    |..... .+|..|+...|+
T Consensus         3 f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPi----C~~~~~-~~l~~Hl~~~H~   54 (54)
T PF05605_consen    3 FTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPI----CSSRVT-DNLIRHLNSQHR   54 (54)
T ss_pred             cCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCC----chhhhh-hHHHHHHHHhcC
Confidence            56777    7776666677777543  11 23688997    765433 589999998884

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.

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

Probab=91.32  E-value=0.064  Score=49.70  Aligned_cols=49  Identities=27%  Similarity=0.695  Sum_probs=37.4

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCccccc-----CCCCCCcccCC
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV-----HNRCPTCRHEL   98 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~-----~~~CP~Cr~~~   98 (272)
                      ..+..++...|.||-+-+.---.. +|+|..|.-|.-++     ...||.||...
T Consensus        54 addtDEen~~C~ICA~~~TYs~~~-PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          54 ADDTDEENMNCQICAGSTTYSARY-PCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccccccceeEEecCCceEEEec-cCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            345567888999999877533223 69999999998776     47899999864

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

Probab=91.03  E-value=0.055  Score=50.34  Aligned_cols=46  Identities=26%  Similarity=0.663  Sum_probs=34.0

Q ss_pred             CCCCeeeeccccccCcCCcccccCCceeccC-cccccCCCCCCcccCCC
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHTLCSG-CKPRVHNRCPTCRHELG   99 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~-C~~~~~~~CP~Cr~~~~   99 (272)
                      +++....|.||.+-.++.++. +|||+-|.. |... ..+||.||+.+.
T Consensus       301 ~~~~p~lcVVcl~e~~~~~fv-pcGh~ccct~cs~~-l~~CPvCR~rI~  347 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKSAVFV-PCGHVCCCTLCSKH-LPQCPVCRQRIR  347 (355)
T ss_pred             ccCCCCceEEecCCccceeee-cCCcEEEchHHHhh-CCCCchhHHHHH
Confidence            334556799999999998887 899997622 3333 368999998764

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

Probab=90.79  E-value=0.098  Score=48.94  Aligned_cols=47  Identities=21%  Similarity=0.542  Sum_probs=37.7

Q ss_pred             CCeeeeccccccCcCCc-----c--cccCCceeccCcccccC----------CCCCCcccCCCc
Q 046177           54 RELLECPVCLNAMYPPI-----H--QCSNGHTLCSGCKPRVH----------NRCPTCRHELGN  100 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv-----~--qC~cGH~~C~~C~~~~~----------~~CP~Cr~~~~~  100 (272)
                      ...-.|.||.+....+.     +  .-.|-|.||..|+.+|.          ..||.||.....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            45678999999987765     3  12589999999999993          679999997653

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

Probab=90.66  E-value=0.044  Score=56.61  Aligned_cols=46  Identities=24%  Similarity=0.655  Sum_probs=37.1

Q ss_pred             CCeeeeccccccCc-----CCccccc-CCceeccCccccc-----CCCCCCcccCCC
Q 046177           54 RELLECPVCLNAMY-----PPIHQCS-NGHTLCSGCKPRV-----HNRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~-----~Pv~qC~-cGH~~C~~C~~~~-----~~~CP~Cr~~~~   99 (272)
                      .-.-+|+||+.++.     -|-..|. |.|-|=.+|+-+|     ...||.||..++
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            44558999999986     4655676 8899999999998     478999998765

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

Probab=89.96  E-value=0.079  Score=50.47  Aligned_cols=33  Identities=36%  Similarity=0.759  Sum_probs=29.3

Q ss_pred             CCeeeeccccccCcCCcccccCCceeccCccccc
Q 046177           54 RELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV   87 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~   87 (272)
                      ++.|.||||...+++||.. +|||..|..|....
T Consensus         2 eeelkc~vc~~f~~epiil-~c~h~lc~~ca~~~   34 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIIL-PCSHNLCQACARNI   34 (699)
T ss_pred             cccccCceehhhccCceEe-ecccHHHHHHHHhh
Confidence            5789999999999999877 89999999997654

>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=89.38  E-value=0.2  Score=33.75  Aligned_cols=37  Identities=22%  Similarity=0.601  Sum_probs=20.0

Q ss_pred             eccccccCcCC--------ccccc-CCceeccCcccc---cCCCCCCcc
Q 046177           59 CPVCLNAMYPP--------IHQCS-NGHTLCSGCKPR---VHNRCPTCR   95 (272)
Q Consensus        59 CpiC~~~l~~P--------v~qC~-cGH~~C~~C~~~---~~~~CP~Cr   95 (272)
                      |--|...+..+        .++|+ |++.||..|-.=   ....||-|.
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence            55666666553        67887 999999999433   246899884

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.

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

Probab=88.87  E-value=0.18  Score=47.20  Aligned_cols=44  Identities=27%  Similarity=0.651  Sum_probs=34.7

Q ss_pred             CCeeeeccccccC-cCC------------cccccCCceeccCccccc---CCCCCCcccCC
Q 046177           54 RELLECPVCLNAM-YPP------------IHQCSNGHTLCSGCKPRV---HNRCPTCRHEL   98 (272)
Q Consensus        54 ~~~l~CpiC~~~l-~~P------------v~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~   98 (272)
                      .++-.|.||.+-| .+|            -.. +|||++=-.|...|   ++.||.||.++
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCcc
Confidence            3556899999974 443            223 69999999999988   58999999994

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.49  E-value=0.23  Score=44.13  Aligned_cols=46  Identities=17%  Similarity=0.334  Sum_probs=37.5

Q ss_pred             CeeeeccccccCcCCc---ccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           55 ELLECPVCLNAMYPPI---HQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv---~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ..+.||+|.+.|...+   +.=++||+||..|.+++   ...||+|..++..
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd  271 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD  271 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence            6799999999998753   22269999999999997   3689999888763

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

Probab=87.87  E-value=0.076  Score=53.93  Aligned_cols=42  Identities=29%  Similarity=0.708  Sum_probs=30.3

Q ss_pred             eeccccccCcCCccc--ccCCceeccCccccc---CCCCCCcccCCC
Q 046177           58 ECPVCLNAMYPPIHQ--CSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        58 ~CpiC~~~l~~Pv~q--C~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      .||+|..-..+-...  -.|+|.||..|+..|   .+.||+||..+.
T Consensus       125 ~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  125 QCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence            467776554433211  149999999999998   479999999875

>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A

Probab=87.76  E-value=0.33  Score=26.87  Aligned_cols=24  Identities=38%  Similarity=0.732  Sum_probs=18.2

Q ss_pred             ccCCCCCCCCccccChhHHHHHhhhcCC
Q 046177          145 YNCPYAGSECTVMGDIPYLVAHLKDDHK  172 (272)
Q Consensus       145 ~~CP~~~~~C~~~g~~~~l~~Hl~~~H~  172 (272)
                      +.|+.    |+|......|..|++..|.
T Consensus         1 y~C~~----C~y~t~~~~l~~H~~~~H~   24 (24)
T PF13909_consen    1 YKCPH----CSYSTSKSNLKRHLKRHHP   24 (24)
T ss_dssp             EE-SS----SS-EESHHHHHHHHHHHHS
T ss_pred             CCCCC----CCCcCCHHHHHHHHHhhCc
Confidence            46776    9999988899999998773

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

Probab=87.27  E-value=0.19  Score=36.03  Aligned_cols=38  Identities=29%  Similarity=0.728  Sum_probs=23.4

Q ss_pred             eeeccccccCcCCcccccCCceeccCccccc--CCCCCCcccCCC
Q 046177           57 LECPVCLNAMYPPIHQCSNGHTLCSGCKPRV--HNRCPTCRHELG   99 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~--~~~CP~Cr~~~~   99 (272)
                      +.||.|...|..     ..|+..|..|-...  ...||.|..++.
T Consensus         2 ~~CP~C~~~L~~-----~~~~~~C~~C~~~~~~~a~CPdC~~~Le   41 (70)
T PF07191_consen    2 NTCPKCQQELEW-----QGGHYHCEACQKDYKKEAFCPDCGQPLE   41 (70)
T ss_dssp             -B-SSS-SBEEE-----ETTEEEETTT--EEEEEEE-TTT-SB-E
T ss_pred             CcCCCCCCccEE-----eCCEEECccccccceecccCCCcccHHH
Confidence            689999998643     24899999997765  368999998874

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

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

Probab=87.19  E-value=0.24  Score=46.98  Aligned_cols=103  Identities=19%  Similarity=0.374  Sum_probs=62.0

Q ss_pred             CCCeeeeccccccCcCC---cccccCCceeccCccccc-----------CCCCCCcccC--CCc--------------cc
Q 046177           53 VRELLECPVCLNAMYPP---IHQCSNGHTLCSGCKPRV-----------HNRCPTCRHE--LGN--------------IR  102 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~P---v~qC~cGH~~C~~C~~~~-----------~~~CP~Cr~~--~~~--------------~r  102 (272)
                      +..++.|.||++-....   +++ +|+|+||.+|....           .-+||.+.-.  ...              ..
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe  259 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYE  259 (445)
T ss_pred             HhhcccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHH
Confidence            46789999999987653   345 79999999997663           2468865432  111              01


Q ss_pred             chhHHHHhhhcC--CCcccccCCCCceeccCcHHhhhhcCC---Ccccc-CCC---CCCCCccccC
Q 046177          103 CLALEKVAASLE--LPCKYQSYGCMGIYPYYSKLKHESQCI---FRPYN-CPY---AGSECTVMGD  159 (272)
Q Consensus       103 ~~~le~~~~~l~--v~C~~~~~GC~~~~~~~~~~~He~~C~---~~~~~-CP~---~~~~C~~~g~  159 (272)
                      ...+++.+..+.  +.||++  -|+... ..+...-+..|.   |+-+. |-.   .++.|++.+.
T Consensus       260 ~l~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~  322 (445)
T KOG1814|consen  260 KLMLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAE  322 (445)
T ss_pred             HHHHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCccHHHHHHHHhhcCCCcccCchH
Confidence            123445555555  899985  466554 445555555554   43321 321   1256888764

>PF04641 Rtf2: Rtf2 RING-finger

Probab=86.98  E-value=0.47  Score=42.65  Aligned_cols=50  Identities=14%  Similarity=0.343  Sum_probs=39.9

Q ss_pred             cCCCCeeeeccccccCcC--C-cccccCCceeccCcccccC--CCCCCcccCCCc
Q 046177           51 SSVRELLECPVCLNAMYP--P-IHQCSNGHTLCSGCKPRVH--NRCPTCRHELGN  100 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~--P-v~qC~cGH~~C~~C~~~~~--~~CP~Cr~~~~~  100 (272)
                      +.....|.|||....|..  + ++.=+|||+|+..++..+.  ..||.|..++..
T Consensus       108 ~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  108 DNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTE  162 (260)
T ss_pred             ccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCcccc
Confidence            345788999999999954  2 4444699999999999985  479999999863

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

Probab=86.65  E-value=0.24  Score=47.46  Aligned_cols=48  Identities=29%  Similarity=0.593  Sum_probs=37.8

Q ss_pred             CCCCeeeeccccccCcCCc---ccccCCceeccCcccccC-CCCCCcccCCC
Q 046177           52 SVRELLECPVCLNAMYPPI---HQCSNGHTLCSGCKPRVH-NRCPTCRHELG   99 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv---~qC~cGH~~C~~C~~~~~-~~CP~Cr~~~~   99 (272)
                      .+.++-.||||++=|-+-+   ..-.|.|.|=.+|..+|. .+||.||--..
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhcC
Confidence            4456779999999987653   444599999999999994 78999986443

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

Probab=85.41  E-value=0.23  Score=46.27  Aligned_cols=45  Identities=24%  Similarity=0.554  Sum_probs=35.7

Q ss_pred             CCeeeeccccccCcCCcccccCCceeccCcccccC---CCCCCcccCCC
Q 046177           54 RELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH---NRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~---~~CP~Cr~~~~   99 (272)
                      .++-.||||+--....+++ +|+|.-|+.|+.+..   +.|=.|+..+.
T Consensus       420 sEd~lCpICyA~pi~Avf~-PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFA-PCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             cccccCcceecccchhhcc-CCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            3556799999888888888 899999999999873   46767766553

>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=85.27  E-value=0.42  Score=27.56  Aligned_cols=22  Identities=23%  Similarity=0.546  Sum_probs=12.7

Q ss_pred             eeccccccCcCCccccc-CCcee
Q 046177           58 ECPVCLNAMYPPIHQCS-NGHTL   79 (272)
Q Consensus        58 ~CpiC~~~l~~Pv~qC~-cGH~~   79 (272)
                      .||.|...+..-...|+ |||.|
T Consensus         2 ~CP~C~~~V~~~~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVPESAKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCchhhcCcCCCCCCCC
Confidence            46777766644444555 66654

Several members are annotated as putative helicases.

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

Probab=84.27  E-value=0.73  Score=43.16  Aligned_cols=44  Identities=18%  Similarity=0.523  Sum_probs=34.9

Q ss_pred             eeeccccccCcCC--cccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           57 LECPVCLNAMYPP--IHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        57 l~CpiC~~~l~~P--v~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      ..|.||++-+.+=  +..=+|+|.|=..|+..|    ...||.|++.+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            6999999988643  333379999999999999    2459999997643

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

Probab=83.87  E-value=0.69  Score=42.07  Aligned_cols=57  Identities=26%  Similarity=0.594  Sum_probs=39.6

Q ss_pred             eeeeccccccCc------CCcccccCCceeccCcccccC----CCCCCcccCC--Cc------ccchhHHHHhhhc
Q 046177           56 LLECPVCLNAMY------PPIHQCSNGHTLCSGCKPRVH----NRCPTCRHEL--GN------IRCLALEKVAASL  113 (272)
Q Consensus        56 ~l~CpiC~~~l~------~Pv~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~--~~------~r~~~le~~~~~l  113 (272)
                      .+.|-||.+.+.      .|... .|||.+|..|..++.    ..||.||.+.  ..      ..|.++-..+...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~   77 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM   77 (296)
T ss_pred             CCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence            467888888764      35323 499999999999872    5699999984  22      3456655555543

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

Probab=83.56  E-value=0.29  Score=35.92  Aligned_cols=43  Identities=23%  Similarity=0.482  Sum_probs=30.8

Q ss_pred             eeeccccccCcCCccccc---------------CCceeccCccccc---CCCCCCcccCCC
Q 046177           57 LECPVCLNAMYPPIHQCS---------------NGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC~---------------cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      -.|.||...+..+-.+|+               |.|.|=..|+.+|   ++.||++++...
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            357777777666544443               5577777888888   588999998764

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

Probab=83.05  E-value=0.35  Score=45.85  Aligned_cols=42  Identities=26%  Similarity=0.644  Sum_probs=34.0

Q ss_pred             eeeccccccCcCCcccc----cCCceeccCccccc-----CCCCCCcccCC
Q 046177           57 LECPVCLNAMYPPIHQC----SNGHTLCSGCKPRV-----HNRCPTCRHEL   98 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC----~cGH~~C~~C~~~~-----~~~CP~Cr~~~   98 (272)
                      -.||||++-..-|.-.|    .|||.|=++|+++|     ...||.|...-
T Consensus         5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            47999999887774333    59999999999999     36899997754

>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type

Probab=82.59  E-value=0.88  Score=25.83  Aligned_cols=23  Identities=30%  Similarity=0.553  Sum_probs=15.4

Q ss_pred             CCcccccCCCCceeccCcHHhhhhcCC
Q 046177          115 LPCKYQSYGCMGIYPYYSKLKHESQCI  141 (272)
Q Consensus       115 v~C~~~~~GC~~~~~~~~~~~He~~C~  141 (272)
                      ++|++    |...+....+..|+..|.
T Consensus         3 ~~C~~----CgR~F~~~~l~~H~~~C~   25 (25)
T PF13913_consen    3 VPCPI----CGRKFNPDRLEKHEKICK   25 (25)
T ss_pred             CcCCC----CCCEECHHHHHHHHHhcC
Confidence            45665    777777777777777663

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

Probab=80.59  E-value=0.72  Score=41.89  Aligned_cols=42  Identities=33%  Similarity=0.812  Sum_probs=30.7

Q ss_pred             eecccccc-CcCC-c--ccccCCceeccCccccc----CCCCCCcccCCC
Q 046177           58 ECPVCLNA-MYPP-I--HQCSNGHTLCSGCKPRV----HNRCPTCRHELG   99 (272)
Q Consensus        58 ~CpiC~~~-l~~P-v--~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~   99 (272)
                      .||+|.-- +..| +  +.-.|||..|.+|..++    ...||.|...+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            48888753 3444 2  22269999999999987    478999987653

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

Probab=80.33  E-value=0.34  Score=48.40  Aligned_cols=40  Identities=35%  Similarity=0.797  Sum_probs=31.8

Q ss_pred             CCCCeeeeccccccC----cCCcccccCCceeccCccccc-CCCCC
Q 046177           52 SVRELLECPVCLNAM----YPPIHQCSNGHTLCSGCKPRV-HNRCP   92 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l----~~Pv~qC~cGH~~C~~C~~~~-~~~CP   92 (272)
                      .+.+.|.|+||++.+    ..|+.. .|||+.|+.|.+.+ ..+||
T Consensus         7 ~w~~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn~scp   51 (861)
T KOG3161|consen    7 KWVLLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYNASCP   51 (861)
T ss_pred             hhHHHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhhccCC
Confidence            456788999997655    467755 69999999999987 46898

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	272
2a25_A	193	Crystal Structure Of Siah1 Sbd Bound To The Peptide		8e-19
2an6_A	191	Protein-Peptide Complex Length = 191		3e-18
1k2f_A	190	Siah, Seven In Absentia Homolog Length = 190		3e-18

>pdb|2A25|A Chain A, Crystal Structure Of Siah1 Sbd Bound To The Peptide Ekpaavvapittg From Sip Length = 193

Iteration: 1
 Score = 90.5 bits (223), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 83/160 (51%), Gaps = 7/160 (4%)
Query: 109 VAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLK 168
           VA S+  PCKY S GC    P+  K  HE  C FRPY+CP  G+ C   G +  ++ HL 
Sbjct: 1   VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLM 60
Query: 169 DDHK-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ-LGMAPVY 225
             HK +    G          N P  V+   W++ + SCFG +F L  E  +       +
Sbjct: 61  HQHKSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEKYDGHQQF 116
Query: 226 IAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
            A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct: 117 FAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 156

>pdb|2AN6|A Chain A, Protein-Peptide Complex Length = 191

Iteration: 1
 Score = 89.0 bits (219), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 51/157 (32%), Positives = 82/157 (52%), Gaps = 7/157 (4%)
Query: 112 SLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDH 171
           S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G +  ++ HL   H
Sbjct: 2   SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 61
Query: 172 K-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ-LGMAPVYIAF 228
           K +    G          N P  V+   W++ + SCFG +F L  E  +       + A 
Sbjct: 62  KSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEKYDGHQQFFAI 117
Query: 229 LRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
           ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct: 118 VQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 154

>pdb|1K2F|A Chain A, Siah, Seven In Absentia Homolog Length = 190

Iteration: 1
 Score = 88.6 bits (218), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 51/157 (32%), Positives = 82/157 (52%), Gaps = 7/157 (4%)
Query: 112 SLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDH 171
           S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G +  ++ HL   H
Sbjct: 1   SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 60
Query: 172 K-VDMHNGSTFNHRYVKQN-PHEVENATWMLTVFSCFGQYFCLHFEAFQ-LGMAPVYIAF 228
           K +    G          N P  V+   W++ + SCFG +F L  E  +       + A 
Sbjct: 61  KSITTLQGEDIVFLATDINLPGAVD---WVM-MQSCFGFHFMLVLEKQEKYDGHQQFFAI 116
Query: 229 LRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRD 265
           ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +
Sbjct: 117 VQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHE 153

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	272
2a25_A	193	Ubiquitin ligase SIAH1; protein-peptide complex, l	2e-51
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	4e-08
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	6e-08
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	5e-07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	4e-06
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	4e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	8e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	1e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	4e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-04
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-04
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-04
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-04
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-04
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	3e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	6e-04

>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A {Homo sapiens} PDB: 2an6_A 1k2f_A Length = 193

 Score =  165 bits (419), Expect = 2e-51
 Identities = 50/166 (30%), Positives = 80/166 (48%), Gaps = 5/166 (3%)

Query: 109 VAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLK 168
           VA S+  PCKY S GC    P+  K  HE  C FRPY+CP  G+ C   G +  ++ HL 
Sbjct: 1   VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLM 60

Query: 169 DDHK-VDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQ-LGMAPVYI 226
             HK +    G          + +      W+  + SCFG +F L  E  +       + 
Sbjct: 61  HQHKSITTLQGEDIVFLAT--DINLPGAVDWV-MMQSCFGFHFMLVLEKQEKYDGHQQFF 117

Query: 227 AFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
           A ++ +G   +++N++Y LE+ G+ R+++W+  PRSI +       
Sbjct: 118 AIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIM 163

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

 Score = 49.8 bits (119), Expect = 4e-08
 Identities = 22/105 (20%), Positives = 35/105 (33%), Gaps = 10/105 (9%)

Query: 51  SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGC----KPRVHNRCPTCRHELGN---IRC 103
             +    ECP+CL A+   + Q   GH  C  C         ++CP     L        
Sbjct: 13  PPLESKYECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPD 71

Query: 104 LALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCP 148
              ++   SL + C  +  GC+          H++ C F      
Sbjct: 72  NFAKREILSLMVKCPNE--GCLHKMELRHLEDHQAHCEFALLEHH 114

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

 Score = 49.7 bits (118), Expect = 6e-08
 Identities = 23/117 (19%), Positives = 30/117 (25%), Gaps = 20/117 (17%)

Query: 49  VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGC----KPRVHNRCPTCRHELGNIRCL 104
           + + +     C  C N +  P  Q   GH  CS C           C  C HE      +
Sbjct: 24  LGTKLEAKYLCSACRNVLRRPF-QAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGI 82

Query: 105 ------------ALEKVAASLELPCKYQSYGCMGIYPYYSKLK-HESQCIFRPYNCP 148
                       A  +   SL   C     GC            HE +C        
Sbjct: 83  SILESSSAFPDNAARREVESLPAVCPSD--GCTWKGTLKEYESCHEGRCPLMLLEHH 137

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

 Score = 47.8 bits (113), Expect = 5e-07
 Identities = 26/125 (20%), Positives = 43/125 (34%), Gaps = 10/125 (8%)

Query: 51  SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHN----RCPTCRHELGNIRCLAL 106
             +    ECP+CL A+   + Q   GH  C  C  +       +CP     L   +    
Sbjct: 13  PPLESKYECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPD 71

Query: 107 EKVAASL-ELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVA 165
                 +  L  K  + GC+          H++ C F   +CP    +C       ++  
Sbjct: 72  NFAKREILSLMVKCPNEGCLHKMELRHLEDHQAHCEFALMDCP----QCQRPFQKFHINI 127

Query: 166 HLKDD 170
           H+  D
Sbjct: 128 HILKD 132

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

 Score = 43.7 bits (103), Expect = 3e-06
 Identities = 15/71 (21%), Positives = 24/71 (33%), Gaps = 7/71 (9%)

Query: 51  SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGC----KPRVHNRCPTCRHELGN---IRC 103
            S+ E+  C +C+  +             C  C          +CP CR  L     + C
Sbjct: 17  ESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNC 76

Query: 104 LALEKVAASLE 114
              E+V   L+
Sbjct: 77  RWAEEVTQQLD 87

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

 Score = 43.7 bits (103), Expect = 4e-06
 Identities = 11/57 (19%), Positives = 17/57 (29%), Gaps = 3/57 (5%)

Query: 51  SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGC---KPRVHNRCPTCRHELGNIRCL 104
           + +   L C +C              H+ C  C          CP C  ++   R L
Sbjct: 10  TELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPL 66

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

 Score = 42.8 bits (101), Expect = 4e-06
 Identities = 13/55 (23%), Positives = 19/55 (34%), Gaps = 3/55 (5%)

Query: 51  SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPR---VHNRCPTCRHELGNIR 102
           S +   + C +C   +          HT C  C  R     NRCP C   +   +
Sbjct: 10  SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ 64

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

 Score = 41.6 bits (98), Expect = 8e-06
 Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 3/45 (6%)

Query: 55 ELLECPVCLNAMYPP-IHQCSNGHTLCSGCKPRVHNRCPTCRHEL 98
          + L C  C      P +  C   HTLCSGC      +CP C+   
Sbjct: 5  QFLRCQQCQAEAKCPKLLPC--LHTLCSGCLEASGMQCPICQAPW 47

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

 Score = 42.6 bits (100), Expect = 1e-05
 Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 1/48 (2%)

Query: 51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGC-KPRVHNRCPTCRHE 97
            + +LL C  C N +  P+      H  CS C    +   CP C   
Sbjct: 17 DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTP 64

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

 Score = 42.0 bits (99), Expect = 1e-05
 Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 13/61 (21%)

Query: 48 TVSSSVRELLECPVCLN-----AMYPPIHQCSNGHTLCSGC------KPRVHNRCPTCRH 96
              ++RE+LECP+C+       + P +  C  GHT+C  C            RCP C  
Sbjct: 7  GNLDALREVLECPICMESFTEEQLRPKLLHC--GHTICRQCLEKLLASSINGVRCPFCSK 64

Query: 97 E 97
           
Sbjct: 65 I 65

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 21/79 (26%), Positives = 34/79 (43%), Gaps = 10/79 (12%)

Query: 44  KPNLTVSSSVRELLECPVCLNAMYPP--IHQCSNGHTLCSGCKPR---VHNRCPTCRHEL 98
            P L V  ++ +LL C +C         I QC   H  CS C  +      +CPTC   +
Sbjct: 10  PPGLAVMKTIDDLLRCGICFEYFNIAMIIPQC--SHNYCSLCIRKFLSYKTQCPTCCVTV 67

Query: 99  --GNIR-CLALEKVAASLE 114
              +++    L+++  SL 
Sbjct: 68  TEPDLKNNRILDELVKSLN 86

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

 Score = 41.9 bits (98), Expect = 3e-05
 Identities = 24/92 (26%), Positives = 37/92 (40%), Gaps = 11/92 (11%)

Query: 19  DPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIH-QCSNGH 77
           +   +  L   V  S  + PA  +  P     S V E  +C  C   ++ PI   C   H
Sbjct: 17  EDKSNAKLWNEVLASLKDRPA--SGSPFQLFLSKVEETFQCICCQELVFRPITTVC--QH 72

Query: 78  TLCSGC-----KPRVHNRCPTCRHELGNIRCL 104
            +C  C     + +V   CP CR++LG    +
Sbjct: 73  NVCKDCLDRSFRAQVF-SCPACRYDLGRSYAM 103

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 41.9 bits (98), Expect = 4e-05
 Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 10/91 (10%)

Query: 21  PESEDLV-EIVSESSVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPI-HQCSNGHT 78
           P+ + L+ E      + D     L         + +   C  C   +Y P+  +C   H 
Sbjct: 42  PQQQHLIREDCQNQKLWDEVLSHLVEGPNFLKKLEQSFMCVCCQELVYQPVTTEC--FHN 99

Query: 79  LCSGC-----KPRVHNRCPTCRHELGNIRCL 104
           +C  C     K +V + CP CRH+LG    +
Sbjct: 100 VCKDCLQRSFKAQVFS-CPACRHDLGQNYIM 129

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

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 5/52 (9%)

Query: 51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHEL 98
           +V +  +C  C   +  P  Q   GH  C  C   +      +C  C+  +
Sbjct: 10 KTVEDKYKCEKCHLVLCSPK-QTECGHRFCESCMAALLSSSSPKCTACQESI 60

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

 Score = 40.4 bits (94), Expect = 1e-04
 Identities = 15/86 (17%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 16  EVIDPPESEDLVEIVSESSVNDPAQIALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSN 75
           E I   ++++L +   E       +  +  ++  +  +   L+C +C       +   + 
Sbjct: 26  EAIIQAKNKELEQTKEEKEKMQAQKEEVLSHM--NDVLENELQCIICSEYFIEAV-TLNC 82

Query: 76  GHTLCSGCKPRV---HNRCPTCRHEL 98
            H+ CS C          CP CR ++
Sbjct: 83  AHSFCSYCINEWMKRKIECPICRKDI 108

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

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 9/53 (16%)

Query: 57  LECPVCLNAMYPPIHQCSN------GHTLCSGCKP---RVHNRCPTCRHELGN 100
           + CP+C++     +           GH  CS C     +  N CPTCR ++ +
Sbjct: 16  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 68

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

 Score = 38.3 bits (89), Expect = 2e-04
 Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 6/53 (11%)

Query: 50 SSSVRELLECPVCLNAMYPPIH-QCSNGHTLCSGCKPRV---HNRCPTCRHEL 98
          ++    + EC +CL     P+   C   H  C  C         RC  CR E+
Sbjct: 9  TAPSLTVPECAICLQTCVHPVSLPC--KHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 9/53 (16%)

Query: 55 ELLECPVCLNAMYPPIHQCSN------GHTLCSGCKP---RVHNRCPTCRHEL 98
           ++ CP+C++     +           GH  CS C     +  N CPTCR ++
Sbjct: 2  AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

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

 Score = 38.7 bits (90), Expect = 2e-04
 Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 7/49 (14%)

Query: 57  LECPVCLNAMYPPIH-QCSNGHTLCSGCKPRVHNR----CPTCRHELGN 100
            +C +C+  +  P+   C   HTLC  C      +    CP CR  + +
Sbjct: 16  CQCGICMEILVEPVTLPC--NHTLCKPCFQSTVEKASLCCPFCRRRVSS 62

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

 Score = 37.5 bits (87), Expect = 3e-04
 Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 9/60 (15%)

Query: 48 TVSSSVRELLECPVCLNAMYPPIHQCSN------GHTLCSGCKPRV---HNRCPTCRHEL 98
          T        + CP+C++     +           GH  CS C        N CPTCR ++
Sbjct: 2  TTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

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

 Score = 37.6 bits (87), Expect = 6e-04
 Identities = 19/98 (19%), Positives = 33/98 (33%), Gaps = 11/98 (11%)

Query: 51  SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELG----NIR 102
           +   + + C +C + +  P+ + S  H  C  C  R      + CP+CR+          
Sbjct: 18  AHFVKSISCQICEHILADPV-ETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76

Query: 103 CLALEKVAASLELPCKYQSYGCMGIYPYYSKLKHESQC 140
             +   +  SL + C  Q   C           H S  
Sbjct: 77  VKSFLNILNSLMVKCPAQ--DCNEEVSLEKYNHHVSSH 112

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	272
2a25_A	193	Ubiquitin ligase SIAH1; protein-peptide complex, l	100.0
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.88
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.72
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.67
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.65
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.16
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.12
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.06
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.05
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.0
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.98
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.96
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.96
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.95
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.95
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.95
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.94
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.94
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.91
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.91
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.9
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.89
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.89
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.88
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.86
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.85
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.81
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.8
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.77
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.77
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.76
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.76
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.74
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.74
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.74
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.7
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.67
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.67
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.63
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.61
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.61
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.58
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.57
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.57
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.57
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.57
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.56
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.54
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.52
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.52
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.41
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.39
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.33
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.3
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.29
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.21
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.13
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.11
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.01
2yre_A	100	F-box only protein 30; zinc binding, E3 ubiquitin	97.98
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.92
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	97.89
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	97.84
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	97.78
2yuc_A	76	TNF receptor-associated factor 4; ZF-TRAF, cystein	97.74
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.68
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.6
2yre_A	100	F-box only protein 30; zinc binding, E3 ubiquitin	97.5
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.22
2d9k_A	75	FLN29 gene product; zinc finger, ZF-TRAF, structur	96.77
2yuc_A	76	TNF receptor-associated factor 4; ZF-TRAF, cystein	96.73
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	96.67
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	96.66
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	96.26
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	95.87
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	93.38
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	92.7
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	91.89
2eod_A	66	TNF receptor-associated factor 4; zinc binding, NF	91.28
2d9k_A	75	FLN29 gene product; zinc finger, ZF-TRAF, structur	90.8
2yt9_A	95	Zinc finger-containing protein 1; C2H2, structural	89.66
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	88.7
1wjp_A	107	Zinc finger protein 295; ZF-C2H2 domain, zinc bind	88.44
2rpc_A	155	Zinc finger protein ZIC 3; ZF-C2H2, zinc finger pr	88.26
2dlq_A	124	GLI-kruppel family member HKR3; ZF-C2H2 domain, st	88.25
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	87.83
1z60_A	59	TFIIH basal transcription factor complex P44 subun	86.58
2ee8_A	106	Protein ODD-skipped-related 2; zinc binding, ZF-C2	86.55
2dmd_A	96	Zinc finger protein 64, isoforms 1 and 2; ZNF338,	85.95
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	84.48
1wff_A	85	Riken cDNA 2810002D23 protein; ZF-AN1 domain, zinc	83.45
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	83.37
3nw0_A	238	Non-structural maintenance of chromosomes element	83.17
2dlq_A	124	GLI-kruppel family member HKR3; ZF-C2H2 domain, st	82.77
2jne_A	101	Hypothetical protein YFGJ; zinc fingers, two zinc,	82.56
1wg2_A	64	Zinc finger (AN1-like) family protein; riken struc	82.5
2kmk_A	82	Zinc finger protein GFI-1; tandem repeat zinc fing	82.37

>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A {Homo sapiens} PDB: 2an6_A 1k2f_A

Probab=100.00  E-value=3.1e-36  Score=257.83  Aligned_cols=160  Identities=31%  Similarity=0.666  Sum_probs=102.5

Q ss_pred             HhhhcCCCcccccCCCCceeccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhcCCC-CCcCCceEEEEEee
Q 046177          109 VAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKV-DMHNGSTFNHRYVK  187 (272)
Q Consensus       109 ~~~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~-~~~~g~~~~~~~~~  187 (272)
                      +++++++||+|+.+||++.++|.++.+||+.|+|+|+.||.+|..|+|+|+.++|..|+..+|++ .+++|.++  .|.+
T Consensus         1 v~~s~~~pC~~~~~GC~~~~~y~~~~~He~~C~f~p~~Cp~~g~~C~~~G~~~~l~~H~~~~H~~~~~~~g~~i--~f~~   78 (193)
T 2a25_A            1 VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQHKSITTLQGEDI--VFLA   78 (193)
T ss_dssp             -----------------------------------CEECCCC--CCCCEECSTTHHHHHHHHCTTSCEEESSEE--EEEE
T ss_pred             CccceEecCCCCCCCCCcccccccccchhhcCCCCCccCCCCCCCCcCCCCHHHHHHHHHHHCCCcceecCceE--EEEe
Confidence            46789999999999999999999999999999999999999877899999999999999999997 56778876  4666


Q ss_pred             cCCcccccceeEEEEEeecCeeEEEEEeeeeeCC-ccEEEEEEEEeCCccCCCCcEEEEEEecCCceEEEEeeccchhcc
Q 046177          188 QNPHEVENATWMLTVFSCFGQYFCLHFEAFQLGM-APVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDS  266 (272)
Q Consensus       188 s~~~~v~~~~~~l~v~~~~~~~F~l~~~~~~~~~-~~~~~a~v~~iG~~~~a~~f~Y~l~~~~~~r~l~~~s~~~si~~~  266 (272)
                      ++++...+.+|++ +++|+|++|+|+++++.+++ .++++++|++||++++|++|+|+|++.+++|+|+||++|+||+|+
T Consensus        79 ~~~~l~~~~~~~~-v~~~~g~~Fll~~~~~~~~~g~~~~~~~V~~ig~~~ea~~f~Y~l~~~~~~r~L~~~~~~~s~~e~  157 (193)
T 2a25_A           79 TDINLPGAVDWVM-MQSCFGFHFMLVLEKQEKYDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEG  157 (193)
T ss_dssp             ECCC----CEEEE-EEEETTEEEEEEEEEC------CEEEEEEEESSCHHHHTTEEEEEEEEETTEEEEEEECCEETTTC
T ss_pred             cccccccceeEEE-EEEecCceEEEEEEEeccCCCCcEEEEEEEEeCCcchhcceEEEEEEEcCCCEEEEEEEEEehhhc
Confidence            6665444568974 88999999999999998755 367888899999999999999999999999999999999999999


Q ss_pred             ccccc
Q 046177          267 HKKVR  271 (272)
Q Consensus       267 ~~~~~  271 (272)
                      +++++
T Consensus       158 ~~~~~  162 (193)
T 2a25_A          158 IATAI  162 (193)
T ss_dssp             SHHHH
T ss_pred             ccccc
Confidence            88764

>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=99.88  E-value=1.9e-23  Score=174.54  Aligned_cols=124  Identities=22%  Similarity=0.428  Sum_probs=111.2

Q ss_pred             cCCCcccccCCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc---ccchhHHHHhhhcCC
Q 046177           43 LKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN---IRCLALEKVAASLEL  115 (272)
Q Consensus        43 ~~~~~~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~---~r~~~le~~~~~l~v  115 (272)
                      ++.+..+.+.+.+.|.||||++++.+|+ +++|||+||..|+.+|    ...||.||.++..   .++.++++++.++++
T Consensus         5 ~g~~~~~~~~~~~~~~C~IC~~~~~~pv-~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v   83 (170)
T 3hcs_A            5 QGYDVEFDPPLESKYECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMV   83 (170)
T ss_dssp             CCBCSEESSCCCGGGBCTTTCSBCSSEE-ECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTSEE
T ss_pred             CCCChhhccCCCCCCCCCCCChhhcCcE-ECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhhHHHHHHHhhccc
Confidence            3455668889999999999999999997 5699999999999998    2489999999875   578899999999999


Q ss_pred             CcccccCCCCceeccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhcCCC
Q 046177          116 PCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKV  173 (272)
Q Consensus       116 ~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~  173 (272)
                      +|+|  .||+|.+++.++.+|+++|+|+++.||    +|++.+.+.+|..|+......
T Consensus        84 ~C~n--~GC~~~~~~~~l~~H~~~C~~~~v~C~----~C~~~~~r~~l~~H~~~~C~~  135 (170)
T 3hcs_A           84 KCPN--EGCLHKMELRHLEDHQAHCEFALMDCP----QCQRPFQKFHINIHILKDCPR  135 (170)
T ss_dssp             ECCS--TTCCCEEEGGGHHHHHTTCTTSEEECT----TTCCEEEGGGHHHHHHHTCTT
T ss_pred             CCCC--CCCCceecHhHHHHHHhcCCceeeECC----CCChHHHHHHHHHHhhhhCCC
Confidence            9998  599999999999999999999999998    399999999999999866554

>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=99.72  E-value=2.7e-18  Score=135.07  Aligned_cols=98  Identities=21%  Similarity=0.455  Sum_probs=85.2

Q ss_pred             CCCcccccCCCCeeeeccccccCcCCcccccCCceeccCcccccC----CCCCCcccCCCc---ccchhHHHHhhhcCCC
Q 046177           44 KPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH----NRCPTCRHELGN---IRCLALEKVAASLELP  116 (272)
Q Consensus        44 ~~~~~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~~~---~r~~~le~~~~~l~v~  116 (272)
                      +....+.+.+.+.+.||||++++..|+.. .|||+||..|+.+|.    ..||.||.++..   .++..+++++.++++.
T Consensus         6 g~~~~~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~i~~l~v~   84 (118)
T 3hct_A            6 GYDVEFDPPLESKYECPICLMALREAVQT-PCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVK   84 (118)
T ss_dssp             CBCSCBSSCCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTSEEE
T ss_pred             CCChhhccCCCCCCCCCcCChhhcCeEEC-CcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccCHHHHHHHccceeE
Confidence            44455778899999999999999999754 899999999999882    489999999875   4788999999999999


Q ss_pred             cccccCCCCceeccCcHHhhhhcCCCcc
Q 046177          117 CKYQSYGCMGIYPYYSKLKHESQCIFRP  144 (272)
Q Consensus       117 C~~~~~GC~~~~~~~~~~~He~~C~~~~  144 (272)
                      |+|  .||+|.+++.++.+|+++|.+..
T Consensus        85 C~n--~gC~~~~~~~~l~~H~~~c~~~~  110 (118)
T 3hct_A           85 CPN--EGCLHKMELRHLEDHQAHCEFAL  110 (118)
T ss_dssp             CSS--TTCCCEEEGGGSGGGTSSSCC--
T ss_pred             CCC--CCCCCEEeeHHHHHHHHHchhhh
Confidence            997  79999999999999999998653

>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=99.67  E-value=7.2e-18  Score=137.01  Aligned_cols=90  Identities=26%  Similarity=0.434  Sum_probs=79.0

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCcccccC----CCCCCcccCCCc------------ccchhHHHHhhh
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH----NRCPTCRHELGN------------IRCLALEKVAAS  112 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~~~------------~r~~~le~~~~~  112 (272)
                      +.+.+.+.+.||||++++.+|+ +..|||+||..|+.+|.    ..||.||.++..            .++.++++.+.+
T Consensus        24 ~~~~l~~~~~C~IC~~~~~~pv-~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~~~~~~d~~~~~~i~~  102 (141)
T 3knv_A           24 LGTKLEAKYLCSACRNVLRRPF-QAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVES  102 (141)
T ss_dssp             TGGGCCGGGBCTTTCSBCSSEE-ECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCCTTTTEECGGGCEECHHHHHHHHT
T ss_pred             hhccCCcCcCCCCCChhhcCcE-ECCCCCccCHHHHHHHHhcCCCCCCCCCCcccccccccccchhhhcccHHHHHHHcc
Confidence            3478899999999999999997 55899999999999982    389999997521            377889999999


Q ss_pred             cCCCcccccCCCCceeccCcHHh-hhhcCC
Q 046177          113 LELPCKYQSYGCMGIYPYYSKLK-HESQCI  141 (272)
Q Consensus       113 l~v~C~~~~~GC~~~~~~~~~~~-He~~C~  141 (272)
                      ++++|+|  .||.|.+++.++++ |+..|+
T Consensus       103 L~v~Cpn--~GC~~~~~l~~l~~~H~~~~~  130 (141)
T 3knv_A          103 LPAVCPS--DGCTWKGTLKEYESCHEGRCP  130 (141)
T ss_dssp             SEEECCS--TTCCCEEEHHHHHHHTTTCCH
T ss_pred             cccccCC--CCCCCEeEHHHHHHHHHHHhH
Confidence            9999999  69999999999998 998886

>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=99.65  E-value=2.1e-17  Score=129.33  Aligned_cols=91  Identities=21%  Similarity=0.355  Sum_probs=79.4

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc----ccchhHHHHhhhcCCCccccc
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN----IRCLALEKVAASLELPCKYQS  121 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~----~r~~~le~~~~~l~v~C~~~~  121 (272)
                      .+++.+.+.||||++++.+|+.. .|||+||..|+.+|    ...||.||.++..    ..+..+.+++..+++.|+|. 
T Consensus        17 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i~~l~v~C~~~-   94 (116)
T 1rmd_A           17 PAHFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNSLMVKCPAQ-   94 (116)
T ss_dssp             CHHHHHHTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHHHCEEECCST-
T ss_pred             HHhccCCCCCCCCCcHhcCcEEc-CCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHHHHhcCCCCCC-
Confidence            34556788999999999999854 89999999999987    3589999999864    34678899999999999995 


Q ss_pred             CCCCceeccCcHHhhhhcCCCc
Q 046177          122 YGCMGIYPYYSKLKHESQCIFR  143 (272)
Q Consensus       122 ~GC~~~~~~~~~~~He~~C~~~  143 (272)
                       ||+|.+++.++.+|+++|.+.
T Consensus        95 -gC~~~~~~~~~~~H~~~C~~~  115 (116)
T 1rmd_A           95 -DCNEEVSLEKYNHHVSSHKES  115 (116)
T ss_dssp             -TCCCEEEHHHHHHHHHTSCCC
T ss_pred             -CCcchhhHhHHHHHHHHhhcc
Confidence             999999999999999999874

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

Probab=99.16  E-value=1.1e-11  Score=92.46  Aligned_cols=67  Identities=19%  Similarity=0.413  Sum_probs=55.3

Q ss_pred             cccCCCCeeeeccccccCcCCccccc-CCceeccCcccccC-----CCCCCcccCCC----cccchhHHHHhhhcCCC
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCS-NGHTLCSGCKPRVH-----NRCPTCRHELG----NIRCLALEKVAASLELP  116 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~-cGH~~C~~C~~~~~-----~~CP~Cr~~~~----~~r~~~le~~~~~l~v~  116 (272)
                      ..+.+.+.+.||||++++.+|+.. . |||+||..|+.+|.     ..||.||.++.    ..+|..++++++.+.-.
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~~~   82 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDAVVI-PCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNFKNE   82 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSCEEC-TTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHHHHH
T ss_pred             ccccCCcCCCCCCCChhhcCceEC-CCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHHHHH
Confidence            456778899999999999999865 7 99999999998872     58999999973    25788888888876543

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

Probab=99.12  E-value=1.5e-11  Score=88.96  Aligned_cols=63  Identities=24%  Similarity=0.406  Sum_probs=52.8

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc---ccchhHHHHhhhcC
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN---IRCLALEKVAASLE  114 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~---~r~~~le~~~~~l~  114 (272)
                      .++.+.+.||||++++.+|+.. .|||+||..|+.+|    ...||.||.++..   .+|..++++++.+.
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~-~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l~~~i~~~~   72 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHHH
T ss_pred             cCCcccCCCCCccccccCCEEc-CCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHHHHHHHHHH
Confidence            4567889999999999999865 89999999999987    3579999999864   56888888887653

>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=99.06  E-value=8.1e-11  Score=89.44  Aligned_cols=64  Identities=14%  Similarity=0.063  Sum_probs=54.9

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCC-ceeccCccccc---CCCCCCcccCCCc---ccchhHHHHhhhcC
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNG-HTLCSGCKPRV---HNRCPTCRHELGN---IRCLALEKVAASLE  114 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cG-H~~C~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~~~~l~  114 (272)
                      ...+++.|.||||+++|++||.. .|| |+||+.|+.+|   ...||.|+.++..   .+|..|.+++..+.
T Consensus        16 ~~~~p~~~~CpI~~~~m~dPV~~-~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~   86 (98)
T 1wgm_A           16 YADACDEFLDPIMSTLMCDPVVL-PSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             CCSCCTTTBCTTTCSBCSSEEEC-TTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHH
T ss_pred             hhcCcHhcCCcCccccccCCeEC-CCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHHHHHHHHHHH
Confidence            45678899999999999999865 799 99999999998   3689999999874   67888888887764

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

Probab=99.06  E-value=3.1e-11  Score=87.29  Aligned_cols=51  Identities=31%  Similarity=0.769  Sum_probs=43.9

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCccccc----------CCCCCCcccCCCc
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----------HNRCPTCRHELGN  100 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----------~~~CP~Cr~~~~~  100 (272)
                      +.+.+.+.+.|+||++.+.+|+.. .|||+||..|+.+|          ...||.||.++..
T Consensus         5 ~~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A            5 SSGNVQEEVTCPICLELLTEPLSL-DCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             SSCCCCCCCEETTTTEECSSCCCC-SSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             hHhhcccCCCCcCCCcccCCeeEC-CCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            457788899999999999999854 89999999999976          2479999998863

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

Probab=99.05  E-value=7.1e-11  Score=87.38  Aligned_cols=63  Identities=16%  Similarity=0.130  Sum_probs=54.2

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc---ccchhHHHHhhhc
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN---IRCLALEKVAASL  113 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~~~~l  113 (272)
                      ...+.+.|.||||.++|.+||.. .|||+||+.|+.+|   ...||.|+.++..   .+|.++.+++..+
T Consensus         8 ~~~~p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~~L~~~i~~~   76 (85)
T 2kr4_A            8 YSDAPDEFRDPLMDTLMTDPVRL-PSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVPELKEQIQAW   76 (85)
T ss_dssp             CTTCCTTTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHHH
T ss_pred             hhcCchheECcccCchhcCCeEC-CCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHHHHHHHHHHH
Confidence            45678899999999999999865 79999999999998   4789999999864   6788888888765

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

Probab=99.00  E-value=9.6e-11  Score=85.47  Aligned_cols=59  Identities=25%  Similarity=0.661  Sum_probs=47.4

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCccccc---------CCCCCCcccCCCc---ccchhHHH
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---------HNRCPTCRHELGN---IRCLALEK  108 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---------~~~CP~Cr~~~~~---~r~~~le~  108 (272)
                      ..+.+.+.+.|+||++.+..|+.. .|||.||..|+.+|         ...||.||..+..   .+|..+++
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~~   82 (85)
T 2ecv_A           12 ILVNVKEEVTCPICLELLTQPLSL-DCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRHVAN   82 (85)
T ss_dssp             CCCCCCCCCCCTTTCSCCSSCBCC-SSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCCCCC
T ss_pred             HHHHccCCCCCCCCCcccCCceeC-CCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHHHHH
Confidence            456778889999999999999865 89999999999886         3689999998863   34444443

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

Probab=98.98  E-value=4.8e-11  Score=90.32  Aligned_cols=66  Identities=24%  Similarity=0.529  Sum_probs=54.1

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc---ccchhHHHHhhhcC
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN---IRCLALEKVAASLE  114 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~~~~l~  114 (272)
                      ..+.+.+.+.|+||++.+.+|+..-.|||.||..|+.+|   ...||.||.++..   .+|..++++++.++
T Consensus        15 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~i~~~~   86 (99)
T 2y43_A           15 VMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELVKSLN   86 (99)
T ss_dssp             GGHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHHHHH
T ss_pred             HHHhCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCHHHHHHHHHHH
Confidence            345567789999999999999755369999999999988   3689999999874   56888888887654

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

Probab=98.96  E-value=1.7e-10  Score=88.04  Aligned_cols=64  Identities=16%  Similarity=0.124  Sum_probs=54.8

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc---ccchhHHHHhhhcC
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN---IRCLALEKVAASLE  114 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~~~~l~  114 (272)
                      ...+++.|.||||.++|.+||.. .|||+||+.|+.+|   ...||.|+.++..   .+|..+.+++..+.
T Consensus        23 ~~~~p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~   92 (100)
T 2kre_A           23 YSDAPDEFRDPLMDTLMTDPVRL-PSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVPELKEQIQAWM   92 (100)
T ss_dssp             CSSCSTTTBCTTTCSBCSSEEEE-TTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECHHHHHHHHHHH
T ss_pred             hccCcHhhCCcCccCcccCCeEC-CCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECHHHHHHHHHHH
Confidence            45678899999999999999866 79999999999998   3689999999864   67888888887664

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

Probab=98.96  E-value=1.2e-10  Score=91.03  Aligned_cols=65  Identities=22%  Similarity=0.417  Sum_probs=53.1

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCcccccC-CCCCCcccCCCc---ccchhHHHHhhhc
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH-NRCPTCRHELGN---IRCLALEKVAASL  113 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~-~~CP~Cr~~~~~---~r~~~le~~~~~l  113 (272)
                      ..+.+.+.+.||||++++..|+....|||+||..|+..|. ..||.||.++..   .+|..+.+++..+
T Consensus        15 ~~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~~~~~n~~l~~l~~~~   83 (117)
T 1jm7_B           15 ALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQLC   83 (117)
T ss_dssp             HHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCSSCCCCHHHHHHHHHH
T ss_pred             HHHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhcCCCcCCCCcCccccccccHHHHHHHHHH
Confidence            3456677899999999999998665799999999999984 589999999853   4677777777654

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

Probab=98.95  E-value=2.8e-10  Score=81.11  Aligned_cols=52  Identities=25%  Similarity=0.535  Sum_probs=44.8

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ..+++.+.+.|+||++.+.+|+..-.|||+||..|+.+|   ...||.||.++..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             hHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            456778899999999999999755479999999999988   4789999998864

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

Probab=98.95  E-value=2.6e-10  Score=79.83  Aligned_cols=52  Identities=19%  Similarity=0.597  Sum_probs=44.6

Q ss_pred             ccccCCCCeeeeccccccCcCCcccccCCceeccCcccccC----CCCCCcccCCCc
Q 046177           48 TVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH----NRCPTCRHELGN  100 (272)
Q Consensus        48 ~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~~~  100 (272)
                      .+.+.+.+.+.|+||++.+.+|+.. .|||+||..|+.+|.    ..||.||.++..
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A            7 GFVKTVEDKYKCEKCHLVLCSPKQT-ECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             CSCCSCCCCEECTTTCCEESSCCCC-SSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             hhhhcCCcCCCCCCCChHhcCeeEC-CCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            4566778899999999999999865 899999999999872    579999998753

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

Probab=98.95  E-value=4.1e-10  Score=82.00  Aligned_cols=61  Identities=21%  Similarity=0.407  Sum_probs=47.2

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc--ccchhHHHHhh
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN--IRCLALEKVAA  111 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~--~r~~~le~~~~  111 (272)
                      .++..+.+.|+||++.+..|+.. .|||+||..|+.+|   ...||.||.++..  ..+..+...+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~l~~~~~   74 (81)
T 2csy_A            9 SEEEEIPFRCFICRQAFQNPVVT-KCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKELMAKLQ   74 (81)
T ss_dssp             SSCCCCCSBCSSSCSBCCSEEEC-TTSCEEEHHHHHHHHHHCSBCSSSCCBCCSCCEECHHHHHHHS
T ss_pred             cccCCCCCCCcCCCchhcCeeEc-cCCCHhHHHHHHHHHHCCCcCCCcCccccccCCcHHHHHHHHH
Confidence            34566788999999999999854 89999999999988   4689999999863  33444444433

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

Probab=98.94  E-value=1.1e-10  Score=85.26  Aligned_cols=60  Identities=25%  Similarity=0.641  Sum_probs=47.2

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCccccc---------CCCCCCcccCCCc---ccchhHHHH
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---------HNRCPTCRHELGN---IRCLALEKV  109 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---------~~~CP~Cr~~~~~---~r~~~le~~  109 (272)
                      ..+++.+.+.|+||++.+..|+.. .|||.||..|+.+|         ...||.||.++..   .+|..++++
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~~~   83 (85)
T 2ecw_A           12 VLEMIKEEVTCPICLELLKEPVSA-DCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHVANI   83 (85)
T ss_dssp             CCCCCCTTTSCTTTCSCCSSCEEC-TTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSCCCSS
T ss_pred             HHHhCccCCCCcCCChhhCcceeC-CCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHHHHHh
Confidence            456677889999999999999854 89999999999876         3579999998863   345444443

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

Probab=98.94  E-value=5.1e-10  Score=76.07  Aligned_cols=47  Identities=30%  Similarity=0.537  Sum_probs=41.2

Q ss_pred             CCCeeeeccccccCcCCcccccCCceeccCcccccCCCCCCcccCCCc
Q 046177           53 VRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGN  100 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~~~CP~Cr~~~~~  100 (272)
                      ..+.+.|+||++.+..|+.. +|||+||..|+.++...||.||..+..
T Consensus         3 e~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLL-PCLHTLCSGCLEASGMQCPICQAPWPL   49 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCS-TTSCCSBTTTCSSSSSSCSSCCSSSSC
T ss_pred             cccCCCceEeCCccCCeEEc-CCCCcccHHHHccCCCCCCcCCcEeec
Confidence            35678999999999999765 799999999998887899999998753

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

Probab=98.91  E-value=4.7e-10  Score=79.77  Aligned_cols=51  Identities=25%  Similarity=0.780  Sum_probs=44.0

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCcccccC------CCCCCcccCCCc
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH------NRCPTCRHELGN  100 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~------~~CP~Cr~~~~~  100 (272)
                      ..+.+.+.+.|+||++.+..|+.. .|||.||..|+.+|.      ..||.||.++..
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           13 FVNKLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSEEEC-TTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             HHHhCccCCEeccCCcccCCeEEc-CCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            456778889999999999999866 899999999999884      279999998753

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

Probab=98.91  E-value=1.1e-10  Score=88.78  Aligned_cols=62  Identities=24%  Similarity=0.520  Sum_probs=48.6

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---C-CCCCCcccCCCc---ccchhHHHHhh
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---H-NRCPTCRHELGN---IRCLALEKVAA  111 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~-~~CP~Cr~~~~~---~r~~~le~~~~  111 (272)
                      .+.+.+.+.|+||++++..|+..-.|||+||..|+.+|   . ..||.||.++..   .+++.++.++.
T Consensus        16 ~~~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~i~~   84 (100)
T 3lrq_A           16 VESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEVTQ   84 (100)
T ss_dssp             HHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTHHHHHH
T ss_pred             cccCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHHHHHHH
Confidence            45667889999999999999862479999999999998   3 589999999864   34555544443

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

Probab=98.90  E-value=1.2e-10  Score=91.80  Aligned_cols=64  Identities=31%  Similarity=0.621  Sum_probs=52.9

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCcccccC----CCCCCcccCCCc----ccchhHHHHhhhcC
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH----NRCPTCRHELGN----IRCLALEKVAASLE  114 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~~~----~r~~~le~~~~~l~  114 (272)
                      .+.+.+.+.||||++++.+|+.. .|||+||..|+..|.    ..||.||.++..    .+|..+.+++..+.
T Consensus        46 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~  117 (124)
T 3fl2_A           46 LSKVEETFQCICCQELVFRPITT-VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLF  117 (124)
T ss_dssp             HHHHHHHTBCTTTSSBCSSEEEC-TTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHS
T ss_pred             HHhCccCCCCCcCChHHcCcEEe-eCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHc
Confidence            45567789999999999999865 899999999998872    489999999864    56788888887653

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

Probab=98.89  E-value=6.7e-10  Score=79.61  Aligned_cols=49  Identities=22%  Similarity=0.573  Sum_probs=42.4

Q ss_pred             ccCCCCeeeeccccccCcCCccccc-CCceeccCcccccC-----CCCCCcccCCC
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCS-NGHTLCSGCKPRVH-----NRCPTCRHELG   99 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~-cGH~~C~~C~~~~~-----~~CP~Cr~~~~   99 (272)
                      .+++.+.+.|+||++++.+|+.. . |||+||..|+.+|.     ..||.||.++.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAVVI-PCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCEEC-SSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             cccCCCCCCCcCCChHHhCCeEc-CCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            46677889999999999999865 7 99999999999982     48999999754

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

Probab=98.89  E-value=2.9e-10  Score=91.37  Aligned_cols=58  Identities=22%  Similarity=0.572  Sum_probs=45.2

Q ss_pred             CCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc-ccchhHHHHh
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN-IRCLALEKVA  110 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~-~r~~~le~~~  110 (272)
                      .+.+.+.||||++.+.+|+.. +|||.||..|+.+|   ...||.||.++.. ..+..+...+
T Consensus        49 ~~~~~~~C~iC~~~~~~~~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~i  110 (138)
T 4ayc_A           49 VLENELQCIICSEYFIEAVTL-NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCI  110 (138)
T ss_dssp             HHHHHSBCTTTCSBCSSEEEE-TTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEEECHHHHHHH
T ss_pred             hccccCCCcccCcccCCceEC-CCCCCccHHHHHHHHHcCCcCCCCCCcCCCCCCccchhHHH
Confidence            345678999999999999865 89999999999988   3789999999864 2333333333

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

Probab=98.88  E-value=2.6e-10  Score=87.64  Aligned_cols=65  Identities=18%  Similarity=0.369  Sum_probs=52.9

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc-------ccchhHHHHhhhcC
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN-------IRCLALEKVAASLE  114 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~-------~r~~~le~~~~~l~  114 (272)
                      .+++.+.+.|+||++.+.+|+....|||+||..|+.+|   ...||.||..+..       ..|..+.+++..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~   83 (108)
T 2ckl_A            9 ITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLV   83 (108)
T ss_dssp             HHHHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHS
T ss_pred             hhccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHHh
Confidence            35567889999999999999854479999999999988   3689999998764       35677777777653

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

Probab=98.86  E-value=2.6e-10  Score=93.20  Aligned_cols=65  Identities=26%  Similarity=0.602  Sum_probs=54.2

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCcccccC----CCCCCcccCCCc----ccchhHHHHhhhcC
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH----NRCPTCRHELGN----IRCLALEKVAASLE  114 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~~~----~r~~~le~~~~~l~  114 (272)
                      +.+.+.+.+.|+||++++.+|+.. .|||+||..|+.+|.    ..||.||.++..    .+|..+++++..+.
T Consensus        71 ~~~~l~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~  143 (150)
T 1z6u_A           71 FLKKLEQSFMCVCCQELVYQPVTT-ECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFF  143 (150)
T ss_dssp             HHHHHHHHTBCTTTSSBCSSEEEC-TTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHS
T ss_pred             HHHhCccCCEeecCChhhcCCEEc-CCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHh
Confidence            445567789999999999999865 899999999999882    379999999874    47888888887664

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

Probab=98.85  E-value=6.3e-10  Score=91.89  Aligned_cols=64  Identities=23%  Similarity=0.545  Sum_probs=53.1

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc----ccchhHHHHhhhcC
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN----IRCLALEKVAASLE  114 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~----~r~~~le~~~~~l~  114 (272)
                      +.+.+.+.||||++.+.+|+....|||+||..|+.+|    ...||.||.++..    .+|..+++++..+.
T Consensus        49 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~  120 (165)
T 2ckl_B           49 RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIY  120 (165)
T ss_dssp             -CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC
T ss_pred             hhCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHH
Confidence            4556788999999999999865589999999999998    3579999999853    46788888888775

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

Probab=98.81  E-value=1.5e-09  Score=77.00  Aligned_cols=48  Identities=27%  Similarity=0.657  Sum_probs=41.3

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      +...+.+.|+||++.+..|+.. .|||.||..|+.+|   ...||.||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           10 APSLTVPECAICLQTCVHPVSL-PCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             CSSSSCCBCSSSSSBCSSEEEE-TTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             ccCCCCCCCccCCcccCCCEEc-cCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            3446778999999999999865 89999999999987   368999999885

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

Probab=98.80  E-value=1.6e-09  Score=78.90  Aligned_cols=51  Identities=25%  Similarity=0.722  Sum_probs=40.7

Q ss_pred             ccCCCCeeeeccccccCc--CCc-ccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           50 SSSVRELLECPVCLNAMY--PPI-HQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~--~Pv-~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      .+++.+.+.||||++++.  ++. +.|.|||.||..|+.++    ...||.||.++..
T Consensus         5 ~~~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~   62 (78)
T 1e4u_A            5 PDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   62 (78)
T ss_dssp             SCCCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSS
T ss_pred             ccccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCC
Confidence            456778899999999984  343 34569999999999886    3689999998864

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

Probab=98.77  E-value=2.4e-09  Score=94.61  Aligned_cols=63  Identities=19%  Similarity=0.193  Sum_probs=53.6

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc---ccchhHHHHhhhcC
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN---IRCLALEKVAASLE  114 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~---~r~~~le~~~~~l~  114 (272)
                      .++++.+.||||.++|.+||.. +|||+||..|+.+|    ...||.|+.++..   .+|..+.+++..+.
T Consensus       203 ~~~~~~~~c~i~~~~~~dPv~~-~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i~~~~  272 (281)
T 2c2l_A          203 RDIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFI  272 (281)
T ss_dssp             CCCCSTTBCTTTCSBCSSEEEC-SSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHH
T ss_pred             CCCCcccCCcCcCCHhcCCeEC-CCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHHHHHH
Confidence            4567889999999999999865 79999999999987    2349999999874   67889999888764

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

Probab=98.77  E-value=3e-09  Score=73.53  Aligned_cols=45  Identities=29%  Similarity=0.852  Sum_probs=39.0

Q ss_pred             cccCCCCeeeeccccccCcCCcccccCCceeccCcccccC------CCCCCc
Q 046177           49 VSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH------NRCPTC   94 (272)
Q Consensus        49 ~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~------~~CP~C   94 (272)
                      +.+.+.+.+.|+||++.+.+|+.. .|||+||..|+.+|.      ..||.|
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           13 FVNKLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSCEEC-TTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHHhCccCCCCCcCCchhCCeEEe-CCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            456778899999999999999866 899999999999882      379987

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

Probab=98.76  E-value=2.3e-09  Score=83.18  Aligned_cols=48  Identities=25%  Similarity=0.617  Sum_probs=41.7

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCcccccC----CCCCCcccCCC
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH----NRCPTCRHELG   99 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~~   99 (272)
                      ..+.+.+.|+||++.+..|+.. .|||+||..|+.+|.    ..||.||..+.
T Consensus        10 ~~~~~~~~C~iC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           10 IPSLSECQCGICMEILVEPVTL-PCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             CCCHHHHBCTTTCSBCSSCEEC-TTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             cCCCCCCCCccCCcccCceeEc-CCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            4456789999999999999866 899999999999883    47999999875

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

Probab=98.76  E-value=1.7e-09  Score=81.35  Aligned_cols=63  Identities=25%  Similarity=0.440  Sum_probs=51.2

Q ss_pred             CCCCeeeeccccccCcCCcccccCCceeccCcccccC---------CCCCC--cccC-CCc---ccchhHHHHhhhcC
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH---------NRCPT--CRHE-LGN---IRCLALEKVAASLE  114 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~---------~~CP~--Cr~~-~~~---~r~~~le~~~~~l~  114 (272)
                      ...+.|.||||+++|.+||..-.|||+||+.|+.+|.         ..||.  |+.. +..   .+|..|.+++..++
T Consensus         3 ~~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~~   80 (94)
T 2yu4_A            3 SGSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHN   80 (94)
T ss_dssp             SCSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHHH
T ss_pred             CCCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHHH
Confidence            4567899999999999998652499999999999882         28999  9866 543   67889999888764

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

Probab=98.74  E-value=3.4e-09  Score=77.86  Aligned_cols=50  Identities=34%  Similarity=0.810  Sum_probs=42.7

Q ss_pred             ccCCCCeeeeccccccCcC----CcccccCCceeccCccccc---C---CCCCCcccCCCc
Q 046177           50 SSSVRELLECPVCLNAMYP----PIHQCSNGHTLCSGCKPRV---H---NRCPTCRHELGN  100 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~----Pv~qC~cGH~~C~~C~~~~---~---~~CP~Cr~~~~~  100 (272)
                      .+.+.+.+.|+||++.+..    |+.. .|||.||..|+.+|   .   ..||.||.++..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLL-HCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEEC-SSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             hhhccCCCCCccCCccccccCCCeEEC-CCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            4667788999999999998    8755 89999999999988   2   589999998753

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

Probab=98.74  E-value=2e-09  Score=75.36  Aligned_cols=50  Identities=28%  Similarity=0.729  Sum_probs=41.4

Q ss_pred             ccCCCCeeeeccccccCcCCc------ccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           50 SSSVRELLECPVCLNAMYPPI------HQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv------~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      .+.+.+.+.|+||++.+..|.      ..-.|||.||..|+.+|   ...||.||.++.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A            9 GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             CCCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             ccCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            455678899999999998871      24479999999999998   478999999875

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

Probab=98.74  E-value=6.6e-10  Score=85.50  Aligned_cols=49  Identities=27%  Similarity=0.870  Sum_probs=41.3

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCcccccC------CCCCCcccCCCc
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH------NRCPTCRHELGN  100 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~------~~CP~Cr~~~~~  100 (272)
                      +.+.+.+.|+||++.+..|+.. .|||.||..|+.+|.      ..||.||.++..
T Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           16 NAMQKILECPICLELIKEPVST-KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHHHHHTSCSSSCCCCSSCCBC-TTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             HhccCCCCCcccChhhcCeEEC-CCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            3455678999999999999865 899999999999872      379999998864

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

Probab=98.70  E-value=6e-09  Score=70.53  Aligned_cols=46  Identities=28%  Similarity=0.697  Sum_probs=38.7

Q ss_pred             ccccCCCCeeeeccccccCcCCcccccCCceeccCccccc------CCCCCCc
Q 046177           48 TVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV------HNRCPTC   94 (272)
Q Consensus        48 ~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~------~~~CP~C   94 (272)
                      ...+.+.+.+.|+||++.+.+|+.. .|||+||..|+.+|      ...||.|
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            7 GALENLQVEASCSVCLEYLKEPVII-ECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCSSCSCCCCBCSSSCCBCSSCCCC-SSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hHhhccccCCCCccCCcccCccEeC-CCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3456677889999999999999765 89999999999988      1568887

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

Probab=98.67  E-value=6e-09  Score=87.37  Aligned_cols=64  Identities=19%  Similarity=0.179  Sum_probs=54.5

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---C-CCCCCcccCCCc---ccchhHHHHhhhcC
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---H-NRCPTCRHELGN---IRCLALEKVAASLE  114 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~-~~CP~Cr~~~~~---~r~~~le~~~~~l~  114 (272)
                      ...+++.|.||||.++|.+||.. +|||+||..|+.+|   . ..||.|+.++..   .+|..+.+++..+.
T Consensus       100 ~~~ip~~f~CPI~~elm~DPV~~-~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~Ie~~~  170 (179)
T 2f42_A          100 KREIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEVIDAFI  170 (179)
T ss_dssp             CCCCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHHHHHHH
T ss_pred             ccCCcHhhcccCccccCCCCeEC-CCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHHHHHHH
Confidence            35678999999999999999866 79999999999997   2 359999999874   67888888887763

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

Probab=98.67  E-value=2.7e-09  Score=75.26  Aligned_cols=49  Identities=29%  Similarity=0.763  Sum_probs=40.7

Q ss_pred             CCCCeeeeccccccCcCCc------ccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           52 SVRELLECPVCLNAMYPPI------HQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv------~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ...+.+.|+||++.+..|+      ..-.|||.||..|+.+|   ...||.||.++..
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   63 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccCh
Confidence            4457789999999998872      34479999999999988   4789999998864

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

Probab=98.63  E-value=1.7e-08  Score=72.27  Aligned_cols=49  Identities=22%  Similarity=0.521  Sum_probs=40.0

Q ss_pred             CCCCeeeeccccccCcCC--cccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           52 SVRELLECPVCLNAMYPP--IHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~P--v~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ...+...|+||++.+..+  +..-.|||.||..|+.+|   ...||.||.++..
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            345678999999999877  333369999999999998   4789999998753

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

Probab=98.61  E-value=2.3e-08  Score=66.92  Aligned_cols=47  Identities=28%  Similarity=0.571  Sum_probs=37.8

Q ss_pred             CCCeeeeccccccCcC---CcccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           53 VRELLECPVCLNAMYP---PIHQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~---Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      +.+...|+||++.+..   ++..-.|||.||..|+.+|   ...||.||.++.
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            3566789999999977   5433239999999999998   478999998763

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

Probab=98.61  E-value=2.8e-08  Score=71.49  Aligned_cols=51  Identities=31%  Similarity=0.576  Sum_probs=41.0

Q ss_pred             ccCCCCeeeeccccccCcCCc--ccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           50 SSSVRELLECPVCLNAMYPPI--HQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv--~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      .+...+.+.|+||++.+..|.  ..-.|||.||..|+.+|   ...||.||..+..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   64 (78)
T 2ect_A            9 EEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTG   64 (78)
T ss_dssp             CTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCC
T ss_pred             cccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCC
Confidence            345567789999999998662  23379999999999988   4689999998864

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

Probab=98.58  E-value=9.1e-09  Score=72.52  Aligned_cols=49  Identities=22%  Similarity=0.651  Sum_probs=41.4

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      .+++.+.+.|+||++.+.+ +.. +|||.||..|+.+|   ...||.||.++..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~-~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (70)
T 2ecn_A            9 VKQLTDEEECCICMDGRAD-LIL-PCAHSFCQKCIDKWSDRHRNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCCCCCSSSCCSCCS-EEE-TTTEEECHHHHHHSSCCCSSCHHHHHCTTC
T ss_pred             hhcCCCCCCCeeCCcCccC-ccc-CCCCcccHHHHHHHHHCcCcCCCcCCcccC
Confidence            4566778999999999988 544 89999999999988   3689999998864

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

Probab=98.57  E-value=7.4e-09  Score=72.04  Aligned_cols=46  Identities=30%  Similarity=0.658  Sum_probs=37.9

Q ss_pred             Ceeeeccccc-cCcCCc---ccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           55 ELLECPVCLN-AMYPPI---HQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~-~l~~Pv---~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      +.+.||||++ .+..|.   ..-.|||+||..|+.+|    ...||.||.++..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            4578999999 898884   23379999999999988    2579999998863

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

Probab=98.57  E-value=2.4e-08  Score=69.84  Aligned_cols=46  Identities=24%  Similarity=0.522  Sum_probs=38.9

Q ss_pred             CeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           55 ELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      +...|+||++.+.+|+..-+|||.||..|+.+|   ...||.||.++..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            456899999999998444479999999999987   4789999998864

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

Probab=98.57  E-value=6.6e-09  Score=71.59  Aligned_cols=46  Identities=30%  Similarity=0.864  Sum_probs=38.3

Q ss_pred             CeeeeccccccCcCCc------ccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           55 ELLECPVCLNAMYPPI------HQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv------~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      +.+.|+||++.+..|.      ....|||.||..|+.+|   ...||.||.++..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   56 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   56 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCc
Confidence            4678999999998772      34479999999999988   4689999998864

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

Probab=98.57  E-value=4.3e-09  Score=75.51  Aligned_cols=48  Identities=23%  Similarity=0.605  Sum_probs=42.2

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCce-eccCcccccCCCCCCcccCCCc
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHT-LCSGCKPRVHNRCPTCRHELGN  100 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~~~~CP~Cr~~~~~  100 (272)
                      +.+.+.+.|+||++.+.+|++. +|||. ||..|+.+| ..||.||.++..
T Consensus        19 ~~~~~~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~-~~CP~Cr~~i~~   67 (74)
T 4ic3_A           19 RRLQEEKLCKICMDRNIAIVFV-PCGHLVTCKQCAEAV-DKCPMCYTVITF   67 (74)
T ss_dssp             HHHHHHTBCTTTSSSBCCEEEE-TTCCBCCCHHHHTTC-SBCTTTCCBCSE
T ss_pred             hcCccCCCCCCCCCCCCCEEEc-CCCChhHHHHhhhcC-ccCCCcCcCccC
Confidence            3455678999999999999877 89999 999999998 799999998864

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

Probab=98.56  E-value=2.9e-08  Score=70.64  Aligned_cols=51  Identities=22%  Similarity=0.450  Sum_probs=41.5

Q ss_pred             ccCCCCeeeeccccccCcCCc--ccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           50 SSSVRELLECPVCLNAMYPPI--HQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv--~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ..++.+...|+||++.+..|.  ....|||.||..|+.+|   ...||.||.++..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2ep4_A            9 VKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQ   64 (74)
T ss_dssp             CCCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSS
T ss_pred             cccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccc
Confidence            345667789999999998773  23379999999999998   4789999998864

>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=98.54  E-value=3.5e-08  Score=69.27  Aligned_cols=50  Identities=18%  Similarity=0.501  Sum_probs=39.5

Q ss_pred             cCCCCeeeeccccccCcC--CcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           51 SSVRELLECPVCLNAMYP--PIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~--Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ++..+...|+||++.+..  ++....|||.||..|+.+|   ...||.||..+..
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            445667899999998853  3334479999999999998   4789999998764

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

Probab=98.52  E-value=6.8e-09  Score=74.60  Aligned_cols=48  Identities=23%  Similarity=0.605  Sum_probs=41.7

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCce-eccCcccccCCCCCCcccCCCc
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHT-LCSGCKPRVHNRCPTCRHELGN  100 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~~~~CP~Cr~~~~~  100 (272)
                      +++.+.+.|+||++.+.+|++. +|||. ||..|+.++ ..||.||.++..
T Consensus        20 ~~~~~~~~C~IC~~~~~~~~~~-pCgH~~~C~~C~~~~-~~CP~Cr~~i~~   68 (75)
T 2ecg_A           20 RRLQEEKLCKICMDRNIAIVFV-PCGHLVTCKQCAEAV-DKCPMCYTVITF   68 (75)
T ss_dssp             HHHHHHHSCSSSCSSCCCBCCS-SSCCCCBCHHHHHHC-SBCTTTCCBCCC
T ss_pred             HcCCCCCCCCcCCCCCCCEEEe-cCCCHHHHHHHhhCC-CCCccCCceecC
Confidence            4456678999999999999876 89999 999999886 799999998864

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

Probab=98.52  E-value=3.3e-08  Score=66.08  Aligned_cols=44  Identities=27%  Similarity=0.588  Sum_probs=36.3

Q ss_pred             CeeeeccccccCcC----CcccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           55 ELLECPVCLNAMYP----PIHQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        55 ~~l~CpiC~~~l~~----Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      +...|+||++.+.+    ++ .-.|||.||..|+.+|   ...||.||.++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~-~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAH-VLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEE-ECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeE-ecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            45789999999865    44 3379999999999998   478999998874

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

Probab=98.41  E-value=1.7e-07  Score=66.08  Aligned_cols=47  Identities=32%  Similarity=0.649  Sum_probs=40.7

Q ss_pred             CCCCeeeeccccccCcCCcccccCCce-eccCcccccCCCCCCcccCCCc
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHT-LCSGCKPRVHNRCPTCRHELGN  100 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~~~~CP~Cr~~~~~  100 (272)
                      ...+...|+||++...++++. +|||. +|..|.... ..||.||.++..
T Consensus        11 ~~~~~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~~-~~CP~CR~~i~~   58 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVNWVLL-PCRHTCLCDGCVKYF-QQCPMCRQFVQE   58 (68)
T ss_dssp             SCCCSSCCSSSSSSCCCCEET-TTTBCCSCTTHHHHC-SSCTTTCCCCCC
T ss_pred             cCCCCCCCCCcCcCCCCEEEE-CCCChhhhHHHHhcC-CCCCCCCcchhc
Confidence            344677899999999999877 89999 999999876 699999998864

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

Probab=98.39  E-value=7.7e-08  Score=71.59  Aligned_cols=47  Identities=21%  Similarity=0.507  Sum_probs=38.6

Q ss_pred             CCCCeeeeccccccCcC---CcccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           52 SVRELLECPVCLNAMYP---PIHQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~---Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      ...+...|+||++.+..   ++ ...|||.||..|+.+|   ...||.||.++.
T Consensus        36 ~~~~~~~C~IC~~~~~~~~~~~-~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           36 AVGQEMCCPICCSEYVKGDVAT-ELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             SSSSCSEETTTTEECCTTCEEE-EETTTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             ccCCCCCCcccChhhcCCCcEE-ecCCCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            34567899999998876   44 3479999999999998   478999999875

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

Probab=98.33  E-value=6.5e-08  Score=75.94  Aligned_cols=46  Identities=30%  Similarity=0.839  Sum_probs=39.6

Q ss_pred             CCeeeeccccccCcCC-------cccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           54 RELLECPVCLNAMYPP-------IHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~P-------v~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      .+.+.|+||++.+.+|       +. ..|||+||..|+.+|   ...||.||..+..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVS-TECGHVFCSQCLRDSLKNANTCPTCRKKINH   60 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEE-ETTCCEEEHHHHHHHHTTCSBCTTTCCBCTT
T ss_pred             CCCCCCcccChhhhCccccccCeEe-cCCCChhhHHHHHHHHHhCCCCCCCCCcCcc
Confidence            4678999999999988       54 489999999999998   4689999998864

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.30  E-value=1e-07  Score=84.00  Aligned_cols=63  Identities=16%  Similarity=0.268  Sum_probs=50.5

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCcccccC-----CCCCC--cccCCCc---ccchhHHHHhhhc
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH-----NRCPT--CRHELGN---IRCLALEKVAASL  113 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~-----~~CP~--Cr~~~~~---~r~~~le~~~~~l  113 (272)
                      +.....+.||||+++|.+||..-.|||+||+.|+.++.     ..||.  |+..+..   .+|..|.+++...
T Consensus       176 ~~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~lve~~  248 (267)
T 3htk_C          176 EGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMELRCKIA  248 (267)
T ss_dssp             CSSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHHHHHHH
T ss_pred             cCCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHHHHHHH
Confidence            44578899999999999998533699999999999872     36999  9998754   5677887777654

>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=98.29  E-value=5.3e-08  Score=70.80  Aligned_cols=47  Identities=28%  Similarity=0.718  Sum_probs=41.0

Q ss_pred             CCCCeeeeccccccCcCCcccccCCce-eccCcccccCCCCCCcccCCCc
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHT-LCSGCKPRVHNRCPTCRHELGN  100 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~~~~CP~Cr~~~~~  100 (272)
                      .+.+...|+||++.+..|++. +|||. ||..|...+ ..||.||.++..
T Consensus        14 ~l~~~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~~-~~CP~Cr~~i~~   61 (79)
T 2yho_A           14 KLKEAMLCMVCCEEEINSTFC-PCGHTVCCESCAAQL-QSCPVCRSRVEH   61 (79)
T ss_dssp             HHHHHTBCTTTSSSBCCEEEE-TTCBCCBCHHHHTTC-SBCTTTCCBCCE
T ss_pred             cCCCCCEeEEeCcccCcEEEE-CCCCHHHHHHHHHhc-CcCCCCCchhhC
Confidence            345567899999999999877 89999 999999998 599999998864

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

Probab=98.21  E-value=3.6e-07  Score=70.40  Aligned_cols=45  Identities=18%  Similarity=0.452  Sum_probs=36.2

Q ss_pred             eeeeccccccCcCCcc-----------------cccCCceeccCcccccC--------CCCCCcccCCCc
Q 046177           56 LLECPVCLNAMYPPIH-----------------QCSNGHTLCSGCKPRVH--------NRCPTCRHELGN  100 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~-----------------qC~cGH~~C~~C~~~~~--------~~CP~Cr~~~~~  100 (272)
                      ...|+||++.|..|..                 .-.|||.||..|+.+|.        ..||+||..+..
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            4589999999977631                 33699999999999873        479999998754

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

Probab=98.13  E-value=6.3e-07  Score=65.16  Aligned_cols=45  Identities=22%  Similarity=0.498  Sum_probs=36.4

Q ss_pred             CeeeeccccccCcC--------------CcccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           55 ELLECPVCLNAMYP--------------PIHQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        55 ~~l~CpiC~~~l~~--------------Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      +...|+||++.+..              ++....|||.|+..|+.+|   ...||+||.++.
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   75 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWV   75 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCC
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcc
Confidence            45579999999976              3334359999999999998   368999999875

>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=98.11  E-value=6.1e-07  Score=82.53  Aligned_cols=48  Identities=27%  Similarity=0.743  Sum_probs=42.2

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCce-eccCcccccCCCCCCcccCCCc
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHT-LCSGCKPRVHNRCPTCRHELGN  100 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~-~C~~C~~~~~~~CP~Cr~~~~~  100 (272)
                      +.+.+.+.|+||++.+..|++. +|||. ||..|+..+ ..||.||.++..
T Consensus       290 ~~l~~~~~C~IC~~~~~~~v~l-pCgH~~fC~~C~~~~-~~CP~CR~~i~~  338 (345)
T 3t6p_A          290 RRLQEERTCKVCMDKEVSVVFI-PCGHLVVCQECAPSL-RKCPICRGIIKG  338 (345)
T ss_dssp             HHHHTTCBCTTTSSSBCCEEEE-TTCCEEECTTTGGGC-SBCTTTCCBCCE
T ss_pred             HhCcCCCCCCccCCcCCceEEc-CCCChhHhHHHHhcC-CcCCCCCCCccC
Confidence            3445678999999999999877 89999 999999998 799999998864

>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=98.04  E-value=1.1e-06  Score=81.86  Aligned_cols=47  Identities=23%  Similarity=0.549  Sum_probs=40.2

Q ss_pred             CCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           53 VRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      ......|+||.+.+..|+.. +|||.||..|+..|    ...||.||.++..
T Consensus       329 ~~~~~~C~ICle~~~~pv~l-pCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          329 GSTFQLCKICAENDKDVKIE-PCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             TTSSSBCTTTSSSBCCEEEE-TTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             cCCCCCCCccCcCCCCeEEe-CCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            34457999999999999865 89999999999887    3789999998864

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

Probab=98.01  E-value=1e-06  Score=68.94  Aligned_cols=48  Identities=29%  Similarity=0.770  Sum_probs=40.2

Q ss_pred             CCCeeeeccccccCcCCc------ccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           53 VRELLECPVCLNAMYPPI------HQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~Pv------~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      ..+.+.|+||++.+..|.      ....|||.||..|+.+|   ...||.||.++..
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~  125 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH  125 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCCh
Confidence            356788999999998761      35589999999999998   4799999998864

>2yre_A F-box only protein 30; zinc binding, E3 ubiquitin ligase, SCF, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.98  E-value=2.4e-06  Score=64.30  Aligned_cols=54  Identities=17%  Similarity=0.288  Sum_probs=48.8

Q ss_pred             CCCcccccCCCCceeccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhc
Q 046177          114 ELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDD  170 (272)
Q Consensus       114 ~v~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~  170 (272)
                      .+.|||   .|...+...++.+|...|+...+.|++..+||.+.+.+.+|.+|++.-
T Consensus        37 ~i~CP~---~Cga~i~rckL~EH~~~CP~a~v~C~~~~yGCp~~~~R~~L~~He~~C   90 (100)
T 2yre_A           37 LIGCPL---VCGAVFHSCKADEHRLLCPFERVPCLNSDFGCPFTMARNKVAEHLEMC   90 (100)
T ss_dssp             EEECTT---CCSCEEEHHHHHHHHHHCSSSEEECTTTTTTCCCEEESSTHHHHHHTC
T ss_pred             eeeCCc---ccCCeeehhhHHHHHhhcccccccccccCcCCceeecHHHHHHHHhhC
Confidence            578986   698899999999999999999999999989999999999999999853

>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=97.92  E-value=1.9e-06  Score=66.11  Aligned_cols=45  Identities=20%  Similarity=0.375  Sum_probs=36.8

Q ss_pred             CeeeeccccccCcCC-----------------cccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           55 ELLECPVCLNAMYPP-----------------IHQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        55 ~~l~CpiC~~~l~~P-----------------v~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      +.-.|+||++.+..+                 +..-.|||.|+..|+.+|   ...||+||.++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            445799999999866                 233469999999999998   478999999864

>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=97.89  E-value=1.9e-06  Score=59.79  Aligned_cols=46  Identities=22%  Similarity=0.563  Sum_probs=38.0

Q ss_pred             CeeeeccccccCcCCccc-ccCCce-eccCcccccC---CCCCCcccCCCc
Q 046177           55 ELLECPVCLNAMYPPIHQ-CSNGHT-LCSGCKPRVH---NRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~q-C~cGH~-~C~~C~~~~~---~~CP~Cr~~~~~  100 (272)
                      +...|+||++-..++++. -+|||. +|..|..++.   ..||.||.++..
T Consensus         7 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            456899999999999753 279999 8999999873   579999998853

>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=97.84  E-value=2.6e-06  Score=58.97  Aligned_cols=46  Identities=26%  Similarity=0.573  Sum_probs=37.2

Q ss_pred             CeeeeccccccCcCCcc-cccCCce-eccCcccccC---CCCCCcccCCCc
Q 046177           55 ELLECPVCLNAMYPPIH-QCSNGHT-LCSGCKPRVH---NRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~-qC~cGH~-~C~~C~~~~~---~~CP~Cr~~~~~  100 (272)
                      ....|+||++-..++++ .-+|||. +|..|..++.   ..||.||.++..
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            34579999999988853 2379998 9999998873   489999998853

>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=97.78  E-value=3.3e-06  Score=62.91  Aligned_cols=43  Identities=19%  Similarity=0.450  Sum_probs=34.1

Q ss_pred             CeeeeccccccCcCCccc--ccCCceeccCccccc-----------CCCCCC--cccC
Q 046177           55 ELLECPVCLNAMYPPIHQ--CSNGHTLCSGCKPRV-----------HNRCPT--CRHE   97 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~q--C~cGH~~C~~C~~~~-----------~~~CP~--Cr~~   97 (272)
                      +.+.|+||++.+..|...  -.|||.||..|+...           ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            567899999999888532  259999999998764           136998  8887

>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}

Probab=97.74  E-value=1.5e-05  Score=56.84  Aligned_cols=50  Identities=18%  Similarity=0.231  Sum_probs=44.9

Q ss_pred             cCCCcccccCCCCceeccCcHHhhhh-cCCCccccCCCCCCCCccccChhHHHHHhhh
Q 046177          113 LELPCKYQSYGCMGIYPYYSKLKHES-QCIFRPYNCPYAGSECTVMGDIPYLVAHLKD  169 (272)
Q Consensus       113 l~v~C~~~~~GC~~~~~~~~~~~He~-~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~  169 (272)
                      ..+.|++   ||...+...++.+|+. .|+++++.|++    |++...+.+|..|...
T Consensus        15 ~~v~C~~---~C~~~v~r~~l~~H~~~~C~~r~v~C~~----C~~~~~~~~l~~H~~~   65 (76)
T 2yuc_A           15 NVIPCPN---RCPMKLSRRDLPAHLQHDCPKRRLKCEF----CGCDFSGEAYESHEGM   65 (76)
T ss_dssp             SCCBCTT---CCSCBCCSSSSTTTTTTSCTTSCCCCSS----SCCCCCHHHHHHTTTS
T ss_pred             cccCCCc---cccHHhhHhHHHhhCHhhCCCcceECCC----CCCccCHHHHHHHHhH
Confidence            4678876   7999999999999998 99999999998    9999999999999843

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

Probab=97.68  E-value=8.4e-06  Score=56.14  Aligned_cols=45  Identities=9%  Similarity=0.082  Sum_probs=38.1

Q ss_pred             eeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           56 LLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      .|.|||+.++|.+|+..-.+||+|++.|+.+|   ...||..+.++..
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            47899999999999854269999999999998   3679999998863

>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=97.60  E-value=8.9e-06  Score=63.42  Aligned_cols=44  Identities=20%  Similarity=0.397  Sum_probs=0.4

Q ss_pred             eeeeccccccCcCC-----------------cccccCCceeccCccccc---CCCCCCcccCCC
Q 046177           56 LLECPVCLNAMYPP-----------------IHQCSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        56 ~l~CpiC~~~l~~P-----------------v~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      .-.|+||++.+..|                 +....|||.|+..|+.+|   ...||+||.++.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             C---------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            35799999999764                 222369999999999998   478999999864

>2yre_A F-box only protein 30; zinc binding, E3 ubiquitin ligase, SCF, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.50  E-value=2.2e-05  Score=59.04  Aligned_cols=57  Identities=21%  Similarity=0.372  Sum_probs=43.1

Q ss_pred             CCC-CcccCCCcccchhHH--HHhhhcCCCcccccCCCCceeccCcHHhhhhcCCCccccCC
Q 046177           90 RCP-TCRHELGNIRCLALE--KVAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCP  148 (272)
Q Consensus        90 ~CP-~Cr~~~~~~r~~~le--~~~~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP  148 (272)
                      .|| .|...+  .|...-+  .+.-...++|+|+.+||+..+...++.+|++.|+-..+.|.
T Consensus        39 ~CP~~Cga~i--~rckL~EH~~~CP~a~v~C~~~~yGCp~~~~R~~L~~He~~CPas~v~~~   98 (100)
T 2yre_A           39 GCPLVCGAVF--HSCKADEHRLLCPFERVPCLNSDFGCPFTMARNKVAEHLEMCPASVSGPS   98 (100)
T ss_dssp             ECTTCCSCEE--EHHHHHHHHHHCSSSEEECTTTTTTCCCEEESSTHHHHHHTCGGGCCCCC
T ss_pred             eCCcccCCee--ehhhHHHHHhhcccccccccccCcCCceeecHHHHHHHHhhCCceeEecC
Confidence            588 676633  2322222  23456679999999999999999999999999998888775

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

Probab=97.22  E-value=0.00013  Score=54.75  Aligned_cols=80  Identities=19%  Similarity=0.310  Sum_probs=53.6

Q ss_pred             eeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCcccchhHHHHhhhcCCCcccccCCCCceeccCcH
Q 046177           58 ECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYPYYSK  133 (272)
Q Consensus        58 ~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~  133 (272)
                      -|++|..++..=...=+|.|.||.+|...+    .+.||.|+.++.......+     .-                    
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~~~~-----~~--------------------   57 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTR-----GS--------------------   57 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEEEEG-----GG--------------------
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeEEecc-----CC--------------------
Confidence            488999888654323379999999999765    3689999999865322111     11                    


Q ss_pred             HhhhhcCCCccccCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 046177          134 LKHESQCIFRPYNCPYAGSECTVMG-DIPYLVAHLKDDHKV  173 (272)
Q Consensus       134 ~~He~~C~~~~~~CP~~~~~C~~~g-~~~~l~~Hl~~~H~~  173 (272)
                                .+-|+.. .+|.-.. +..+|..|....|..
T Consensus        58 ----------if~C~~~-~~CkrtyLs~rdlqaHI~~~H~~   87 (101)
T 3vk6_A           58 ----------LFMCSIV-QGCKRTYLSQRDLQAHINHRHMR   87 (101)
T ss_dssp             ----------CCCCCCC-CCCCCCCSSHHHHHHHHHHHTTT
T ss_pred             ----------EEECCCC-CCHHHHhcCHHHHHHHHHHHhhh
Confidence                      2234411 1466544 678999999999974

>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.77  E-value=0.00021  Score=50.69  Aligned_cols=50  Identities=20%  Similarity=0.154  Sum_probs=43.2

Q ss_pred             CCCcccccCCCCceeccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhcC
Q 046177          114 ELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDH  171 (272)
Q Consensus       114 ~v~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H  171 (272)
                      ++.|++    |...+...++..|+..|+.+++.|+.    |+....+.+|..|+....
T Consensus        17 ~~~C~~----C~~~~~~~~L~~H~~~c~~~~~~C~~----C~~~~~~~~l~~H~~~c~   66 (75)
T 2d9k_A           17 LAVCQH----CDLELSILKLKEHEDYCGARTELCGN----CGRNVLVKDLKTHPEVCG   66 (75)
T ss_dssp             CEECSS----SCCEECHHHHHHHHHHHHHCEEECSS----SCCEEETTGGGTHHHHBT
T ss_pred             ccCCcc----cChHhhHHHHHHHHhHcCCCceEccc----CCCcCcHHHHHHHHHHcc
Confidence            466765    89999999999999999999999997    888888899999987643

>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}

Probab=96.73  E-value=0.00095  Score=47.25  Aligned_cols=37  Identities=16%  Similarity=0.224  Sum_probs=32.3

Q ss_pred             HhhhcCCCcccccCCCCceeccCcHHhhhhcCCCccccCCC
Q 046177          109 VAASLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPY  149 (272)
Q Consensus       109 ~~~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP~  149 (272)
                      ......+.|++    |.+.+...++..|+++|+..++.||.
T Consensus        39 ~C~~r~v~C~~----C~~~~~~~~l~~H~~~Cp~~~v~C~~   75 (76)
T 2yuc_A           39 DCPKRRLKCEF----CGCDFSGEAYESHEGMCPQESSGPSS   75 (76)
T ss_dssp             SCTTSCCCCSS----SCCCCCHHHHHHTTTSCTTSSCCCSC
T ss_pred             hCCCcceECCC----CCCccCHHHHHHHHhHCCCCccCCCC
Confidence            34455688887    99999999999999999999999996

>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=96.67  E-value=0.001  Score=54.48  Aligned_cols=50  Identities=16%  Similarity=0.281  Sum_probs=44.1

Q ss_pred             hcCCCcccccCCCCceeccCcHHhhh-hcCCCccccCCCCCCCCccccChhHHHHHhhh
Q 046177          112 SLELPCKYQSYGCMGIYPYYSKLKHE-SQCIFRPYNCPYAGSECTVMGDIPYLVAHLKD  169 (272)
Q Consensus       112 ~l~v~C~~~~~GC~~~~~~~~~~~He-~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~  169 (272)
                      -..++|+    ||++.+...++..|+ ..|+++++.||+    |+......+|..|.+.
T Consensus       108 ~~~v~C~----~C~~~~~r~~l~~H~~~~C~~r~~~C~~----C~~~~~~~~l~~H~~~  158 (170)
T 3hcs_A          108 FALMDCP----QCQRPFQKFHINIHILKDCPRRQVSCDN----CAASMAFEDKEIHDQN  158 (170)
T ss_dssp             TSEEECT----TTCCEEEGGGHHHHHHHTCTTCEEECTT----TCCEEEGGGHHHHHTT
T ss_pred             ceeeECC----CCChHHHHHHHHHHhhhhCCCCCeECCC----CCCccCHHHHHhHHHh
Confidence            3446676    799999999999999 599999999997    9999999999999864

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

Probab=96.66  E-value=0.001  Score=48.01  Aligned_cols=47  Identities=19%  Similarity=0.361  Sum_probs=34.7

Q ss_pred             CCCeeeeccccccC--cCCccc-ccC---CceeccCcccccC-----CCCCCcccCCC
Q 046177           53 VRELLECPVCLNAM--YPPIHQ-CSN---GHTLCSGCKPRVH-----NRCPTCRHELG   99 (272)
Q Consensus        53 ~~~~l~CpiC~~~l--~~Pv~q-C~c---GH~~C~~C~~~~~-----~~CP~Cr~~~~   99 (272)
                      ..+...|.||++-+  ..++.. |.|   +|.|-..|+.+|.     ..||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~   69 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFI   69 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCC
T ss_pred             CCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeee
Confidence            34556899999766  345433 333   3999999999992     48999999875

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

Probab=96.26  E-value=0.0011  Score=60.45  Aligned_cols=46  Identities=24%  Similarity=0.587  Sum_probs=38.6

Q ss_pred             CCeeeeccccccCcC----Cccccc---CCceeccCcccccC--------------CCCCCcccCCC
Q 046177           54 RELLECPVCLNAMYP----PIHQCS---NGHTLCSGCKPRVH--------------NRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~----Pv~qC~---cGH~~C~~C~~~~~--------------~~CP~Cr~~~~   99 (272)
                      ...-+|+||+..+.+    |...|.   |||.|=..|+.+|-              +.||.||.+++
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            466789999999876    766774   99999999999981              46999999875

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

Probab=95.87  E-value=0.0063  Score=43.27  Aligned_cols=45  Identities=20%  Similarity=0.573  Sum_probs=36.4

Q ss_pred             CCeeeeccccccCcCCcccc-cCCceeccCccccc---C--CCCCCcccCCC
Q 046177           54 RELLECPVCLNAMYPPIHQC-SNGHTLCSGCKPRV---H--NRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv~qC-~cGH~~C~~C~~~~---~--~~CP~Cr~~~~   99 (272)
                      ...-.|.||++++.+- ..| .|+|.|=..|+.+|   .  .+||.|+.++.
T Consensus        13 ~~i~~C~IC~~~i~~g-~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQG-QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSS-EECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccC-CccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            3456799999999854 467 59999999999988   2  68999999875

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

Probab=94.06  E-value=0.013  Score=43.53  Aligned_cols=32  Identities=19%  Similarity=0.502  Sum_probs=27.0

Q ss_pred             Ceeeeccccc-cCcCCccccc-CCceeccCcccc
Q 046177           55 ELLECPVCLN-AMYPPIHQCS-NGHTLCSGCKPR   86 (272)
Q Consensus        55 ~~l~CpiC~~-~l~~Pv~qC~-cGH~~C~~C~~~   86 (272)
                      +.+.|++|.+ +..+|+..|. |+|.||..|+..
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHH
Confidence            4578999996 5788887665 999999999987

>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=93.38  E-value=0.023  Score=43.46  Aligned_cols=60  Identities=13%  Similarity=0.074  Sum_probs=40.2

Q ss_pred             hHHHHhhhcCCCcccccCCCCceeccCcH------HhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhcCCC
Q 046177          105 ALEKVAASLELPCKYQSYGCMGIYPYYSK------LKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKV  173 (272)
Q Consensus       105 ~le~~~~~l~v~C~~~~~GC~~~~~~~~~------~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~  173 (272)
                      -+.+.+..-...||.    |...+...++      ..-.   .-..+.||+.  +|+|.+...+|..|+++.+..
T Consensus        44 Ci~~~~~~~~~~CP~----Cr~~~~~~~~~~~~~l~~~i---~~l~v~C~n~--gC~~~~~~~~l~~H~~~c~~~  109 (118)
T 3hct_A           44 CIIKSIRDAGHKCPV----DNEILLENQLFPDNFAKREI---LSLMVKCPNE--GCLHKMELRHLEDHQAHCEFA  109 (118)
T ss_dssp             HHHHHHHHHCSBCTT----TCCBCCGGGCEECHHHHHHH---HTSEEECSST--TCCCEEEGGGSGGGTSSSCC-
T ss_pred             HHHHHHhhCCCCCCC----CCCCcCHHhcccCHHHHHHH---ccceeECCCC--CCCCEEeeHHHHHHHHHchhh
Confidence            355555555558886    7666655432      1222   2367889975  599999999999999887764

>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=92.70  E-value=0.088  Score=39.82  Aligned_cols=76  Identities=13%  Similarity=0.178  Sum_probs=47.8

Q ss_pred             CCCCCcccCCCc---cc------chhHHHHhhhcCCCcccccCCCCceeccCcHH----hhhhcCCCccccCCCCCCCCc
Q 046177           89 NRCPTCRHELGN---IR------CLALEKVAASLELPCKYQSYGCMGIYPYYSKL----KHESQCIFRPYNCPYAGSECT  155 (272)
Q Consensus        89 ~~CP~Cr~~~~~---~r------~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~----~He~~C~~~~~~CP~~~~~C~  155 (272)
                      ..||+|...+..   .+      ..-+.+.+......||.    |...+...++.    .-.+.=....+.||+.  ||+
T Consensus        24 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~----Cr~~~~~~~~~~~~~~l~~~i~~l~v~C~~~--gC~   97 (116)
T 1rmd_A           24 ISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPS----CRYPCFPTDLESPVKSFLNILNSLMVKCPAQ--DCN   97 (116)
T ss_dssp             TBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTT----TCCBCCGGGCBCCCHHHHHHHHHCEEECCST--TCC
T ss_pred             CCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCC----CCCCCCHhhccccHHHHHHHHHHhcCCCCCC--CCc
Confidence            468888776543   11      13455666554667886    77766554422    1111223346789986  599


Q ss_pred             cccChhHHHHHhhhc
Q 046177          156 VMGDIPYLVAHLKDD  170 (272)
Q Consensus       156 ~~g~~~~l~~Hl~~~  170 (272)
                      |.+...++..|+...
T Consensus        98 ~~~~~~~~~~H~~~C  112 (116)
T 1rmd_A           98 EEVSLEKYNHHVSSH  112 (116)
T ss_dssp             CEEEHHHHHHHHHTS
T ss_pred             chhhHhHHHHHHHHh
Confidence            999999999999753

>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=91.89  E-value=0.39  Score=34.38  Aligned_cols=73  Identities=22%  Similarity=0.390  Sum_probs=49.5

Q ss_pred             CCCeeeeccccccCcCC-ccccc--CCceeccCcccccCCCCCCcccCCCcccchhHHHHhhhcCCCcccccCCCCceec
Q 046177           53 VRELLECPVCLNAMYPP-IHQCS--NGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKVAASLELPCKYQSYGCMGIYP  129 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~P-v~qC~--cGH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~  129 (272)
                      ....|.|.+|.+-|.+- .+||+  -+|.||..|-...                  +++.-....|+||--         
T Consensus        12 ~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~s------------------Ik~q~~~~EvyCPSG---------   64 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRES------------------IKAQGATGEVYCPSG---------   64 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHH------------------HHHHHSSSCCCCTTS---------
T ss_pred             CCCeeEeecchhhhccCceeeCCCccCCeeeccccHHH------------------HHhcCCCCcEECCCC---------
Confidence            46778999999999877 56887  6899999995432                  233344566777641         


Q ss_pred             cCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHh
Q 046177          130 YYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHL  167 (272)
Q Consensus       130 ~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl  167 (272)
                                     .+||..|+.=.|...+.++..=|
T Consensus        65 ---------------~kCpL~gS~~PWAFmqgEIatIL   87 (93)
T 2cs3_A           65 ---------------EKCPLVGSNVPWAFMQGEIATIL   87 (93)
T ss_dssp             ---------------SCCBCSSSSSBCCCCHHHHHHHH
T ss_pred             ---------------CccccCCCcCchHHHhhHHHHHh
Confidence                           26677666666766666655433

>2eod_A TNF receptor-associated factor 4; zinc binding, NF-KB, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.28  E-value=0.13  Score=34.27  Aligned_cols=48  Identities=35%  Similarity=0.666  Sum_probs=35.6

Q ss_pred             CCcccccCCCCceeccCcHHhhhhcCCCccccCC-CCCCCCcccc-ChhHHHHHhhhc
Q 046177          115 LPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCP-YAGSECTVMG-DIPYLVAHLKDD  170 (272)
Q Consensus       115 v~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP-~~~~~C~~~g-~~~~l~~Hl~~~  170 (272)
                      +.|..    |...+....+..|+..+.-+|+.|+ .    |+... .+..|..|++..
T Consensus        11 ~~C~~----C~k~f~~~~L~~H~~~~~~~p~~C~~~----C~k~f~~~~~L~~H~~~h   60 (66)
T 2eod_A           11 QPCTY----CTKEFVFDTIQSHQYQCPRLPVACPNQ----CGVGTVAREDLPGHLKDS   60 (66)
T ss_dssp             EECSS----SCCEEEHHHHHHHHHHCSSSEEECTTC----CSCCEEETTTHHHHHHTT
T ss_pred             eeccc----cCCccCHHHHHHHHHHcCCcCccCCcc----cCcccccHHHHHHHHHhh
Confidence            45554    7777776678899888888899998 5    77654 456899998653

>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=90.80  E-value=0.083  Score=36.86  Aligned_cols=33  Identities=27%  Similarity=0.379  Sum_probs=29.6

Q ss_pred             CcHHhhhh-cCCCccccCCCCCCCCccccChhHHHHHh
Q 046177          131 YSKLKHES-QCIFRPYNCPYAGSECTVMGDIPYLVAHL  167 (272)
Q Consensus       131 ~~~~~He~-~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl  167 (272)
                      .+|..|+. .|+++++.|++    |+......+|..|.
T Consensus         3 ~~L~~H~~~~c~~r~~~C~~----C~~~~~~~~L~~H~   36 (75)
T 2d9k_A            3 SGSSGHEETECPLRLAVCQH----CDLELSILKLKEHE   36 (75)
T ss_dssp             CCCSCCCCCCCCCCCEECSS----SCCEECHHHHHHHH
T ss_pred             hHHHhhCcccCCCcccCCcc----cChHhhHHHHHHHH
Confidence            46778986 89999999997    99999999999998

>2yt9_A Zinc finger-containing protein 1; C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=89.66  E-value=0.26  Score=34.75  Aligned_cols=52  Identities=21%  Similarity=0.212  Sum_probs=35.8

Q ss_pred             CCCcccccCCCCceecc-CcHHhhhhcCCC---ccccCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 046177          114 ELPCKYQSYGCMGIYPY-YSKLKHESQCIF---RPYNCPYAGSECTVMG-DIPYLVAHLKDDHKV  173 (272)
Q Consensus       114 ~v~C~~~~~GC~~~~~~-~~~~~He~~C~~---~~~~CP~~~~~C~~~g-~~~~l~~Hl~~~H~~  173 (272)
                      .+.|+.    |...+.. ..+..|+..-.-   .++.|+.    |+... ....|..|++..|..
T Consensus        35 ~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~~~C~~----C~~~f~~~~~L~~H~~~~H~~   91 (95)
T 2yt9_A           35 PYSCPV----CGLRFKRKDRMSYHVRSHDGSVGKPYICQS----CGKGFSRPDHLNGHIKQVHSG   91 (95)
T ss_dssp             SEECSS----SCCEESCHHHHHHHHHHHCCCCCSSBCCSS----SCCCBSSHHHHHHHHHHTSCC
T ss_pred             CCcCCC----CCCccCCHHHHHHHHHHhcCCCCCceECCC----ccchhCCHHHHHHHHHHhcCC
Confidence            355664    7766654 356678764332   6889987    77766 567899999988863

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

Probab=88.70  E-value=0.19  Score=33.82  Aligned_cols=46  Identities=13%  Similarity=0.361  Sum_probs=31.3

Q ss_pred             CCeeeeccccccCcCCc-ccccCCc---eeccCccccc-----CCCCCCcccCCC
Q 046177           54 RELLECPVCLNAMYPPI-HQCSNGH---TLCSGCKPRV-----HNRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv-~qC~cGH---~~C~~C~~~~-----~~~CP~Cr~~~~   99 (272)
                      .+.-.|.||++-..+|+ .-|.|.+   .|=..|+.+|     ...||+|+.++.
T Consensus         4 ~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            34568999998766553 3355544   4545688888     367999998764

>1wjp_A Zinc finger protein 295; ZF-C2H2 domain, zinc binding, nucleic acid binding, KIAA1227 protein, structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=88.44  E-value=0.45  Score=34.56  Aligned_cols=52  Identities=23%  Similarity=0.361  Sum_probs=35.1

Q ss_pred             CCCcccccCCCCceecc-CcHHhhhhcCCCccccCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 046177          114 ELPCKYQSYGCMGIYPY-YSKLKHESQCIFRPYNCPYAGSECTVMG-DIPYLVAHLKDDHKV  173 (272)
Q Consensus       114 ~v~C~~~~~GC~~~~~~-~~~~~He~~C~~~~~~CP~~~~~C~~~g-~~~~l~~Hl~~~H~~  173 (272)
                      .+.|+.    |...+.. ..|..|+..-.-.++.|+.    |+... ....|..|++..|..
T Consensus        42 ~~~C~~----C~~~f~~~~~l~~H~~H~~~~~~~C~~----C~~~f~~~~~L~~H~~~~H~~   95 (107)
T 1wjp_A           42 AAVCPY----CSLRFFSPELKQEHESKCEYKKLTCLE----CMRTFKSSFSIWRHQVEVHNQ   95 (107)
T ss_dssp             SBCCTT----TCCCBSSHHHHHHHHHHCSTGGGEEGG----GTEECSSHHHHHHHHHHTSCC
T ss_pred             CccCCC----CCCccCCHHHHHHHHHcCCCCCccCcc----ccchhCCHHHHHHHHHHHcCC
Confidence            456654    6655543 3456777544557889986    77766 457899999877864

>2rpc_A Zinc finger protein ZIC 3; ZF-C2H2, zinc finger protein of the cerebellum 3, disease mutation, DNA-binding, metal-binding, nucleus, polymorphism; NMR {Homo sapiens}

Probab=88.26  E-value=1.3  Score=34.18  Aligned_cols=121  Identities=13%  Similarity=0.194  Sum_probs=70.1

Q ss_pred             cCCCcccccCCCCeeeeccccccCcCCcccccCCcee----------ccCcccccCCCCCCcccCCCcccch--hHHHHh
Q 046177           43 LKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTL----------CSGCKPRVHNRCPTCRHELGNIRCL--ALEKVA  110 (272)
Q Consensus        43 ~~~~~~~~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~----------C~~C~~~~~~~CP~Cr~~~~~~r~~--~le~~~  110 (272)
                      ........++....+.|++|...+......  -.|..          ...|  . ...|+.|...+.....+  -+..-.
T Consensus        12 ~~~~c~~~~~~~~~~~C~~C~~~f~~~~~L--~~H~~~~H~~~~~~~~~~~--~-~~~C~~C~~~f~~~~~l~~H~~~h~   86 (155)
T 2rpc_A           12 QELSCKWIDEAQLSRPKKSCDRTFSTMHEL--VTHVTMEHVGGPEQNNHVC--Y-WEECPREGKSFKAKYKLVNHIRVHT   86 (155)
T ss_dssp             CCBCCCBCCTTCCSSSCCCCCCCBSSHHHH--HHHHHTTTSCCTTCSSCCC--C-BTTCTTSSCCCSSHHHHHHHTHHHH
T ss_pred             CCeeEEeechhhcccccccCCcccCCHHHH--HHHHHhhcCCCcccCCccc--c-ccCCCCcccccCCHHHHHHHHHhcC
Confidence            333344445556778899999988765211  11211          0111  0 13699998877643221  122223


Q ss_pred             hhcCCCcccccCCCCceecc-CcHHhhhhcC-CCccccCCCCCCCCcccc-ChhHHHHHhhhcCC
Q 046177          111 ASLELPCKYQSYGCMGIYPY-YSKLKHESQC-IFRPYNCPYAGSECTVMG-DIPYLVAHLKDDHK  172 (272)
Q Consensus       111 ~~l~v~C~~~~~GC~~~~~~-~~~~~He~~C-~~~~~~CP~~~~~C~~~g-~~~~l~~Hl~~~H~  172 (272)
                      ..-.+.|+.  .+|...+.. ..|..|+..- .-.++.|+..  +|+... ....|..|++..+.
T Consensus        87 ~~~~~~C~~--~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~~--~C~k~f~~~~~L~~H~~~H~~  147 (155)
T 2rpc_A           87 GEKPFPCPF--PGCGKIFARSENLKIHKRTHTGEKPFKCEFE--GCDRRFANSSDRKKHMHVHTS  147 (155)
T ss_dssp             CCCSEECSC--TTTCCEESCHHHHHHHHTTTCSSCSBCCSST--TCCCCBSSHHHHHHSSTTTTS
T ss_pred             CCCcccCCc--CCCCCccCCHHHHHHHHHhhCCCCCccCCCC--CCCCccCCHHHHHHHHHHhcC
Confidence            344567764  368887765 4677898743 3467899863  377766 45688999875444

>2dlq_A GLI-kruppel family member HKR3; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=88.25  E-value=0.62  Score=34.30  Aligned_cols=107  Identities=18%  Similarity=0.260  Sum_probs=64.2

Q ss_pred             CeeeeccccccCcCCcccccCCceeccCcccccCCCCCCcccCCCcccchhHHHH-----hhhcCCCcccccCCCCceec
Q 046177           55 ELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGNIRCLALEKV-----AASLELPCKYQSYGCMGIYP  129 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~-----~~~l~v~C~~~~~GC~~~~~  129 (272)
                      ..+.|++|...+......  -.|.-  .-...-...|+.|...+....++..-..     .....+.|+.    |...+.
T Consensus         6 ~~~~C~~C~~~f~~~~~l--~~H~~--~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~C~~----C~~~f~   77 (124)
T 2dlq_A            6 SGVECPTCHKKFLSKYYL--KVHNR--KHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSV----CQETFR   77 (124)
T ss_dssp             SSCCCTTTCCCCSSHHHH--HHHHH--HHSSCCSCBCTTTCCBCSSHHHHHHHHHHCCCCSCCCCEECSS----SCCEES
T ss_pred             CCCCCCCCCCcCCCHHHH--HHHHH--hCCCCCCeECCCCCchhcCHHHHHHHHhhhhcCCCCCCeECCC----CCCccC
Confidence            457899998887665211  11221  0000112579999887754322211111     1233467775    888776


Q ss_pred             cC-cHHhhhhc-CCCccccCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 046177          130 YY-SKLKHESQ-CIFRPYNCPYAGSECTVMG-DIPYLVAHLKDDHKV  173 (272)
Q Consensus       130 ~~-~~~~He~~-C~~~~~~CP~~~~~C~~~g-~~~~l~~Hl~~~H~~  173 (272)
                      .. .+..|+.. -.-.++.|+.    |+... ....|..|+...|..
T Consensus        78 ~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~~H~~  120 (124)
T 2dlq_A           78 RRMELRLHMVSHTGEMPYKCSS----CSQQFMQKKDLQSHMIKLHSG  120 (124)
T ss_dssp             SHHHHHHHHHHHSSSCSEECSS----SCCEESSHHHHHHHHHHTSSC
T ss_pred             CHHHHHHHHHHcCCCCCccCCC----ccchhCCHHHHHHHHHHHCCC
Confidence            54 57788764 3457899987    77776 457899999988864

>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=87.83  E-value=0.15  Score=40.27  Aligned_cols=29  Identities=24%  Similarity=0.289  Sum_probs=23.3

Q ss_pred             CccccCCCCCCCCccccChhHHHH-HhhhcCC
Q 046177          142 FRPYNCPYAGSECTVMGDIPYLVA-HLKDDHK  172 (272)
Q Consensus       142 ~~~~~CP~~~~~C~~~g~~~~l~~-Hl~~~H~  172 (272)
                      -..+.||+.  ||+|.+...++.. |+...+.
T Consensus       102 ~L~v~Cpn~--GC~~~~~l~~l~~~H~~~~~~  131 (141)
T 3knv_A          102 SLPAVCPSD--GCTWKGTLKEYESCHEGRCPL  131 (141)
T ss_dssp             TSEEECCST--TCCCEEEHHHHHHHTTTCCHH
T ss_pred             ccccccCCC--CCCCEeEHHHHHHHHHHHhHH
Confidence            457799984  5999999999998 9876443

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=86.58  E-value=0.27  Score=33.15  Aligned_cols=37  Identities=24%  Similarity=0.661  Sum_probs=29.0

Q ss_pred             eeccccccCcCC-ccccc-CCceeccCccccc---CCCCCCc
Q 046177           58 ECPVCLNAMYPP-IHQCS-NGHTLCSGCKPRV---HNRCPTC   94 (272)
Q Consensus        58 ~CpiC~~~l~~P-v~qC~-cGH~~C~~C~~~~---~~~CP~C   94 (272)
                      .|-.|...+.+. +++|+ |++.||.+|-.-+   ...||-|
T Consensus        17 ~C~~C~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           17 FCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             EETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             cccccCcccCCCccEECCccCcCcccchhHHHHhhccCCcCC
Confidence            499999988655 48898 9999999994333   3689987

>2ee8_A Protein ODD-skipped-related 2; zinc binding, ZF-C2H2 domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: k.12.1.1

Probab=86.55  E-value=1.9  Score=30.85  Aligned_cols=52  Identities=15%  Similarity=0.232  Sum_probs=32.3

Q ss_pred             CCCcccccCCCCceecc-CcHHhhhhcC-CCccccCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 046177          114 ELPCKYQSYGCMGIYPY-YSKLKHESQC-IFRPYNCPYAGSECTVMG-DIPYLVAHLKDDHKV  173 (272)
Q Consensus       114 ~v~C~~~~~GC~~~~~~-~~~~~He~~C-~~~~~~CP~~~~~C~~~g-~~~~l~~Hl~~~H~~  173 (272)
                      .+.|+.    |...+.. ..+..|+..- .-.++.|+.    |+... ....|..|++..+..
T Consensus        45 ~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~L~~H~~~H~~~   99 (106)
T 2ee8_A           45 PYTCDI----CHKAFRRQDHLRDHRYIHSKEKPFKCQE----CGKGFCQSRTLAVHKTLHMQT   99 (106)
T ss_dssp             CCBCSS----SCCBCSCHHHHHHHGGGSCCCCTTSCSS----SCCCCSSHHHHHHHHHHTTSC
T ss_pred             CcCCCC----ccchhCCHHHHHHHHHHhCCCCCeECCC----cCCcccCHHHHHHHHHHhCCC
Confidence            355553    5555433 3456676532 346788987    77666 567899998765543

>2dmd_A Zinc finger protein 64, isoforms 1 and 2; ZNF338, nuclear protein, DNA- binding, transcription, C2H2-type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=85.95  E-value=0.74  Score=32.37  Aligned_cols=52  Identities=25%  Similarity=0.339  Sum_probs=34.9

Q ss_pred             CCCcccccCCCCceeccC-cHHhhhhcC-CCccccCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 046177          114 ELPCKYQSYGCMGIYPYY-SKLKHESQC-IFRPYNCPYAGSECTVMG-DIPYLVAHLKDDHKV  173 (272)
Q Consensus       114 ~v~C~~~~~GC~~~~~~~-~~~~He~~C-~~~~~~CP~~~~~C~~~g-~~~~l~~Hl~~~H~~  173 (272)
                      .+.|+.    |...+... .+..|+..- .-.++.|+.    |+... ....|..|++..|..
T Consensus        36 ~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~h~~~   90 (96)
T 2dmd_A           36 PYKCKT----CDYAAADSSSLNKHLRIHSDERPFKCQI----CPYASRNSSQLTVHLRSHTGD   90 (96)
T ss_dssp             SEECSS----SCCEESSHHHHHHHHHHSCCCCCEECSS----SSCEESSHHHHHHHHTTCCSC
T ss_pred             CEeCCC----CCCccCCHHHHHHHHHHhCCCCCccCCC----CCCccCCHHHHHHHHHHhcCC
Confidence            355654    77666443 566787643 346789987    77766 567899999876653

>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=84.48  E-value=0.72  Score=33.16  Aligned_cols=32  Identities=25%  Similarity=0.525  Sum_probs=24.3

Q ss_pred             eeeeccccccCc----CCccccc-CCceeccCccccc
Q 046177           56 LLECPVCLNAMY----PPIHQCS-NGHTLCSGCKPRV   87 (272)
Q Consensus        56 ~l~CpiC~~~l~----~Pv~qC~-cGH~~C~~C~~~~   87 (272)
                      ..-||-|..++.    .+..+|. ||+.||..|...|
T Consensus        25 ~~wCP~C~~~~~~~~~~~~v~C~~C~~~FC~~C~~~w   61 (86)
T 2ct7_A           25 FLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQW   61 (86)
T ss_dssp             EECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBC
T ss_pred             EeECcCCCchheecCCCCceEeCCCCCccccccCCch
Confidence            334999988653    2235897 9999999999888

>1wff_A Riken cDNA 2810002D23 protein; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.80.1.1

Probab=83.45  E-value=2.7  Score=30.31  Aligned_cols=42  Identities=14%  Similarity=0.362  Sum_probs=30.7

Q ss_pred             CCeeeeccccccCcC--CcccccCCceeccCcccccCCCCCCccc
Q 046177           54 RELLECPVCLNAMYP--PIHQCSNGHTLCSGCKPRVHNRCPTCRH   96 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~--Pv~qC~cGH~~C~~C~~~~~~~CP~Cr~   96 (272)
                      ...-.|..|..-+.-  | ++|.||..||..=+..-...|+..-.
T Consensus        23 ~~~~rC~~C~kkvgl~~~-f~CrCg~~FC~~HRy~e~H~C~fDyK   66 (85)
T 1wff_A           23 KIMKHCFLCGKKTGLATS-FECRCGNNFCASHRYAEAHGCNYDYK   66 (85)
T ss_dssp             CCCCBCSSSCCBCSSSSC-EECTTCCEECTTTCSTGGGTCCSCCS
T ss_pred             ccCccchhhCCeecccCC-eEcCCCCEecccCCCccCCCCcchhh
Confidence            344689999985543  6 59999999999887554457876533

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

Probab=83.37  E-value=1.2  Score=31.50  Aligned_cols=39  Identities=26%  Similarity=0.637  Sum_probs=29.5

Q ss_pred             eeeecc--ccccCc----CCcccc------cCCceeccCcccccCCCCCCccc
Q 046177           56 LLECPV--CLNAMY----PPIHQC------SNGHTLCSGCKPRVHNRCPTCRH   96 (272)
Q Consensus        56 ~l~Cpi--C~~~l~----~Pv~qC------~cGH~~C~~C~~~~~~~CP~Cr~   96 (272)
                      ..-||.  |...+.    .+..+|      .||+.||..|...|+.  -.|..
T Consensus        25 ~~~CP~p~C~~~v~~~~~~~~v~C~~~~~~~C~~~FC~~C~~~wH~--~~C~~   75 (80)
T 2jmo_A           25 GVLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEAYHE--GECSA   75 (80)
T ss_dssp             SCCCCSSSCCCCCCCCSCTTSBCTTSSSTTCCSCCEETTTTEECCS--SCSSS
T ss_pred             cEECCCCCCCcccEECCCCCcCCCCCCCCCCCCCeeccccCccccC--Ccccc
Confidence            556998  888764    234589      6999999999999964  55654

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

Probab=83.17  E-value=0.54  Score=40.51  Aligned_cols=45  Identities=20%  Similarity=0.546  Sum_probs=35.7

Q ss_pred             CeeeeccccccCcCCccccc-CCceeccCccccc-----CCCCCCcccCCCc
Q 046177           55 ELLECPVCLNAMYPPIHQCS-NGHTLCSGCKPRV-----HNRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~qC~-cGH~~C~~C~~~~-----~~~CP~Cr~~~~~  100 (272)
                      ....|.+|.+++..-+ .|+ |++.|=..|+.+|     ...||.|+.+...
T Consensus       179 ~i~~C~iC~~iv~~g~-~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQ-SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             TCCBCTTTCSBCSSCE-ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCCcCcchhhHHhCCc-ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            4678999999998654 786 8888888898876     2589999987653

>2dlq_A GLI-kruppel family member HKR3; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=82.77  E-value=2.1  Score=31.26  Aligned_cols=77  Identities=21%  Similarity=0.305  Sum_probs=50.1

Q ss_pred             CCCCCcccCCCcccchh--HHHHhhhcCCCcccccCCCCceecc-CcHHhhhhc----CCCccccCCCCCCCCcccc-Ch
Q 046177           89 NRCPTCRHELGNIRCLA--LEKVAASLELPCKYQSYGCMGIYPY-YSKLKHESQ----CIFRPYNCPYAGSECTVMG-DI  160 (272)
Q Consensus        89 ~~CP~Cr~~~~~~r~~~--le~~~~~l~v~C~~~~~GC~~~~~~-~~~~~He~~----C~~~~~~CP~~~~~C~~~g-~~  160 (272)
                      ..|+.|...+.....+.  +..-...-.+.|+.    |...+.. ..+..|+..    =.-.++.|+.    |+... ..
T Consensus         8 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~~~~~~~~~~~~C~~----C~~~f~~~   79 (124)
T 2dlq_A            8 VECPTCHKKFLSKYYLKVHNRKHTGEKPFECPK----CGKCYFRKENLLEHEARNCMNRSEQVFTCSV----CQETFRRR   79 (124)
T ss_dssp             CCCTTTCCCCSSHHHHHHHHHHHSSCCSCBCTT----TCCBCSSHHHHHHHHHHCCCCSCCCCEECSS----SCCEESSH
T ss_pred             CCCCCCCCcCCCHHHHHHHHHhCCCCCCeECCC----CCchhcCHHHHHHHHhhhhcCCCCCCeECCC----CCCccCCH
Confidence            47999988775432221  22223345677875    8877654 467789863    3456789987    87766 56


Q ss_pred             hHHHHHhhhcCCC
Q 046177          161 PYLVAHLKDDHKV  173 (272)
Q Consensus       161 ~~l~~Hl~~~H~~  173 (272)
                      ..|..|+...+..
T Consensus        80 ~~l~~H~~~h~~~   92 (124)
T 2dlq_A           80 MELRLHMVSHTGE   92 (124)
T ss_dssp             HHHHHHHHHHSSS
T ss_pred             HHHHHHHHHcCCC
Confidence            7899999876653

>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=82.56  E-value=0.36  Score=35.79  Aligned_cols=38  Identities=34%  Similarity=0.901  Sum_probs=29.3

Q ss_pred             eeeccccccCcCCcccccCCceeccCccccc--CCCCCCcccCCC
Q 046177           57 LECPVCLNAMYPPIHQCSNGHTLCSGCKPRV--HNRCPTCRHELG   99 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~--~~~CP~Cr~~~~   99 (272)
                      ..||+|...|..     .-|+..|..|-...  ...||.|.+++.
T Consensus        33 ~~CP~Cq~eL~~-----~g~~~hC~~C~~~f~~~a~CPdC~q~Le   72 (101)
T 2jne_A           33 LHCPQCQHVLDQ-----DNGHARCRSCGEFIEMKALCPDCHQPLQ   72 (101)
T ss_dssp             CBCSSSCSBEEE-----ETTEEEETTTCCEEEEEEECTTTCSBCE
T ss_pred             ccCccCCCccee-----cCCEEECccccchhhccccCcchhhHHH
Confidence            789999998752     24566699997765  368999999874

>1wg2_A Zinc finger (AN1-like) family protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.80.1.1

Probab=82.50  E-value=2.2  Score=29.07  Aligned_cols=44  Identities=18%  Similarity=0.303  Sum_probs=32.2

Q ss_pred             CeeeeccccccCcCCcccccCCceeccCcccccCCCCCCcccCC
Q 046177           55 ELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHEL   98 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~~~CP~Cr~~~   98 (272)
                      ..-.|..|..-+.-+.++|.||..||..=+..-...|+..-...
T Consensus        14 ~~~rC~~C~kkvgl~~f~CrCg~~FC~~HR~~e~H~C~fDyk~~   57 (64)
T 1wg2_A           14 PNNRCFSCNKKVGVMGFKCKCGSTFCGSHRYPEKHECSFDFKEV   57 (64)
T ss_dssp             CSCSCTTTCCCCTTSCEECTTSCEECSSSCSSTTTTCCCCCSCS
T ss_pred             cCCcChhhCCcccccCeEeecCCEecccCCCccccCCCcchhHH
Confidence            34579999997654457999999999988765555787664433

>2kmk_A Zinc finger protein GFI-1; tandem repeat zinc finger domain, protein-DNA complex, DNA-B metal-binding, nucleus; HET: DNA; NMR {Rattus norvegicus}

Probab=82.37  E-value=1.2  Score=29.98  Aligned_cols=74  Identities=20%  Similarity=0.363  Sum_probs=43.3

Q ss_pred             CCCCcccCCCcccch--hHHHHhhhcCCCcccccCCCCceeccC-cHHhhhhc-CCCccccCCCCCCCCcccc-ChhHHH
Q 046177           90 RCPTCRHELGNIRCL--ALEKVAASLELPCKYQSYGCMGIYPYY-SKLKHESQ-CIFRPYNCPYAGSECTVMG-DIPYLV  164 (272)
Q Consensus        90 ~CP~Cr~~~~~~r~~--~le~~~~~l~v~C~~~~~GC~~~~~~~-~~~~He~~-C~~~~~~CP~~~~~C~~~g-~~~~l~  164 (272)
                      .|+.|...+....++  -+..-...-.+.|+.    |...+... .+..|+.. -.-.++.|+.    |+... ....|.
T Consensus         3 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~   74 (82)
T 2kmk_A            3 DCKICGKSFKRSSTLSTHLLIHSDTRPYPCQY----CGKRFHQKSDMKKHTFIHTGEKPHKCQV----CGKAFSQSSNLI   74 (82)
T ss_dssp             ECSSSCCEESSHHHHHHHHHHHHTCCCEECSS----SCCEESSHHHHHHHHHHHHTCCCEECTT----TSCEESSHHHHH
T ss_pred             cCCCCcccccCchhHHHHHHHcCCCCCeeCCc----CChhhCCHHHHHHHHHHhcCCCCCcCCC----cchhhCChHHHH
Confidence            477776665432221  122222344566765    77766543 56677652 2346788986    77766 557889


Q ss_pred             HHhhhcC
Q 046177          165 AHLKDDH  171 (272)
Q Consensus       165 ~Hl~~~H  171 (272)
                      .|++..+
T Consensus        75 ~H~~~H~   81 (82)
T 2kmk_A           75 THSRKHT   81 (82)
T ss_dssp             HHHHHHC
T ss_pred             HHHHhhC
Confidence            9987643

---

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	272
d1k2fa_	190	b.8.1.2 (A:) SIAH, seven in absentia homolog {Mous	9e-54
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-07
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	7e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	8e-05
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	0.003
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	0.003
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	0.004

>d1k2fa_ b.8.1.2 (A:) SIAH, seven in absentia homolog {Mouse (Mus musculus) [TaxId: 10090]} Length = 190

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: SIAH, seven in absentia homolog
domain: SIAH, seven in absentia homolog
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  170 bits (432), Expect = 9e-54
 Identities = 47/162 (29%), Positives = 82/162 (50%), Gaps = 3/162 (1%)

Query: 112 SLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDH 171
           S+  PCKY S GC    P+  K +HE  C FRPY+CP  G+ C   G +  ++ HL   H
Sbjct: 1   SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 60

Query: 172 KVDMHNGSTFNHRYVKQNPHEVENATWMLTVFSCFGQYFCLHFEAFQLG-MAPVYIAFLR 230
           K  +      +  ++  + +      W++ + SCFG +F L  E  +       + A ++
Sbjct: 61  K-SITTLQGEDIVFLATDINLPGAVDWVM-MQSCFGFHFMLVLEKQEKYDGHQQFFAIVQ 118

Query: 231 FMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKVRD 272
            +G   +++N++Y LE+ G+ R+++W+  PRSI +       
Sbjct: 119 LIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIM 160

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.6 bits (108), Expect = 1e-07
 Identities = 14/44 (31%), Positives = 17/44 (38%), Gaps = 1/44 (2%)

Query: 55 ELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHEL 98
          + L C  C      P       HTLCSGC      +CP C+   
Sbjct: 5  QFLRCQQCQAEAKCPK-LLPCLHTLCSGCLEASGMQCPICQAPW 47

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 40.7 bits (95), Expect = 7e-06
 Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 3/48 (6%)

Query: 58  ECPVCLNAMYPPIHQCSNGHTLCSGCKP---RVHNRCPTCRHELGNIR 102
            CP+CL             H  C  C     R +  CP C+  + ++ 
Sbjct: 7   RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVV 54

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (96), Expect = 1e-05
 Identities = 15/57 (26%), Positives = 31/57 (54%), Gaps = 7/57 (12%)

Query: 48 TVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNR------CPTCRHEL 98
           V ++++++LECP+CL  +  P+      H  C  C  ++ N+      CP C++++
Sbjct: 13 NVINAMQKILECPICLELIKEPV-STKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (89), Expect = 8e-05
 Identities = 14/58 (24%), Positives = 20/58 (34%), Gaps = 1/58 (1%)

Query: 42 ALKPNLTVSSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGC-KPRVHNRCPTCRHEL 98
          A   +      + +LL C  C N +  P+      H  CS C    +   CP C    
Sbjct: 8  AWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPA 65

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.8 bits (77), Expect = 0.003
 Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 5/48 (10%)

Query: 55 ELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHEL 98
              C +C             GH +C+ C           CP CR E+
Sbjct: 22 TFQLCKICAENDKDVK-IEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 32.9 bits (75), Expect = 0.003
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 6/53 (11%)

Query: 52 SVRELLECPVCLNAMYPP--IHQCSN-GHTLCSGCKP---RVHNRCPTCRHEL 98
          ++ + +EC VCL  +            GH   + C       H+ CP CR  +
Sbjct: 1  AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.7 bits (77), Expect = 0.004
 Identities = 11/52 (21%), Positives = 21/52 (40%), Gaps = 5/52 (9%)

Query: 51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHEL 98
          +   + + C +C + +  P+      H  C  C  R      + CP+CR+  
Sbjct: 18 AHFVKSISCQICEHILADPVETSC-KHLFCRICILRCLKVMGSYCPSCRYPC 68

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	272
d1k2fa_	190	SIAH, seven in absentia homolog {Mouse (Mus muscul	100.0
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.19
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.16
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.12
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.11
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.09
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.02
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.9
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.78
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.75
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.71
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.71
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.67
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.5
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.0
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.93
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.7
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	96.93
d1wfpa_	74	Zinc finger A20 and AN1 domains containing protein	91.62
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	91.38
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	87.96
d1zfda_	32	SWI5 zinc-finger domains {Baker's yeast (Saccharom	87.76
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	87.71
d1wffa_	85	ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus	87.45
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	86.77
d1ubdc4	28	Ying-yang 1 (yy1, zinc finger domain) {Human (Homo	86.13
d1sp2a_	31	Transcription factor sp1 {Human (Homo sapiens) [Ta	84.6
d1a1ia1	29	ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}	84.2
d2glia3	30	Five-finger GLI1 {Human (Homo sapiens) [TaxId: 960	82.84
d1ubdc3	30	Ying-yang 1 (yy1, zinc finger domain) {Human (Homo	81.35
d1klra_	30	ZFY {Human (Homo sapiens) [TaxId: 9606]}	80.3

>d1k2fa_ b.8.1.2 (A:) SIAH, seven in absentia homolog {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: SIAH, seven in absentia homolog
domain: SIAH, seven in absentia homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1e-34  Score=245.89  Aligned_cols=158  Identities=30%  Similarity=0.621  Sum_probs=138.9

Q ss_pred             hcCCCcccccCCCCceeccCcHHhhhhcCCCccccCCCCCCCCccccChhHHHHHhhhcCCCCCcCCceEEEEEeecCCc
Q 046177          112 SLELPCKYQSYGCMGIYPYYSKLKHESQCIFRPYNCPYAGSECTVMGDIPYLVAHLKDDHKVDMHNGSTFNHRYVKQNPH  191 (272)
Q Consensus       112 ~l~v~C~~~~~GC~~~~~~~~~~~He~~C~~~~~~CP~~~~~C~~~g~~~~l~~Hl~~~H~~~~~~g~~~~~~~~~s~~~  191 (272)
                      ++.+||+|+..||++++++.++.+||+.|.|+|+.||.++.+|+|+|..++|..|++.+|+.... ...+++.|..+.+.
T Consensus         1 Sv~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~C~~~~~~C~~~G~~~~l~~Hl~~~H~~~~~-~~~~~~~~~~~~~~   79 (190)
T d1k2fa_           1 SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQHKSITT-LQGEDIVFLATDIN   79 (190)
T ss_dssp             CCCCCCTTGGGTCCCCCCGGGHHHHHHTCTTSCEECCSSSTTCCCEECHHHHHHHHHHSSCCCEE-EESSEEEEEECCTT
T ss_pred             CeeEecCCCCCCCCEeccccchhhHHhcCCCcccCCCCCCCCCccCCCHhHHHHHHHhcCCcccc-cCccceEEeeeccc
Confidence            46899999999999999999999999999999999999888899999999999999999985432 22334466666666


Q ss_pred             ccccceeEEEEEeecCeeEEEEEeeeeeC-CccEEEEEEEEeCCccCCCCcEEEEEEecCCceEEEEeeccchhcccccc
Q 046177          192 EVENATWMLTVFSCFGQYFCLHFEAFQLG-MAPVYIAFLRFMGDDNESKNYSYSLEVGGNGRKMSWQGVPRSIRDSHKKV  270 (272)
Q Consensus       192 ~v~~~~~~l~v~~~~~~~F~l~~~~~~~~-~~~~~~a~v~~iG~~~~a~~f~Y~l~~~~~~r~l~~~s~~~si~~~~~~~  270 (272)
                      ......|++ ++.|+|++|+++++++.++ ..++|+++|+++|++++|++|+|+|++.+++|+|+||++|+||+|+++++
T Consensus        80 ~~~~~~~v~-~~~~~g~~F~l~~~~~~~~~~~~~~~~~v~~~G~~~~a~~f~Yel~l~~~~r~l~~~~~~~si~e~~~~~  158 (190)
T d1k2fa_          80 LPGAVDWVM-MQSCFGFHFMLVLEKQEKYDGHQQFFAIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATA  158 (190)
T ss_dssp             CTTCCEEEE-EEEETTEEEEEEEEEEEETTTEEEEEEEEEESSCHHHHTTEEEEEEEEETTEEEEEEECCEETTTCSHHH
T ss_pred             cccceeEEE-EEecCCCEEEEEEEEEeccCCCCeEEEEEEEECCHHHhhCccEEEEecCCCceEEEeccccccccccccc
Confidence            555667875 8899999999999998874 44789999999999999999999999999999999999999999999876


Q ss_pred             c
Q 046177          271 R  271 (272)
Q Consensus       271 ~  271 (272)
                      +
T Consensus       159 ~  159 (190)
T d1k2fa_         159 I  159 (190)
T ss_dssp             H
T ss_pred             c
Confidence            5

>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=99.19  E-value=1.4e-12  Score=97.14  Aligned_cols=64  Identities=22%  Similarity=0.423  Sum_probs=52.8

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCcccccC-CCCCCcccCCCc---ccchhHHHHhhhc
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVH-NRCPTCRHELGN---IRCLALEKVAASL  113 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~-~~CP~Cr~~~~~---~r~~~le~~~~~l  113 (272)
                      .+++.+.|.||||+++|.+|+....|||+||..|+.+|. ..||.||.++..   .+|..++++++.+
T Consensus        16 l~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~~l~~n~~l~~lv~~~   83 (97)
T d1jm7b_          16 LDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQLC   83 (97)
T ss_dssp             HHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCSSCCCCHHHHHHHHHH
T ss_pred             HHhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcCchhhCcccHHHHHHHHHH
Confidence            456677889999999999998655799999999999984 679999998753   5688888887654

>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=99.16  E-value=5.9e-12  Score=90.38  Aligned_cols=62  Identities=19%  Similarity=0.198  Sum_probs=53.7

Q ss_pred             CCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc---ccchhHHHHhhhcC
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN---IRCLALEKVAASLE  114 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~---~r~~~le~~~~~l~  114 (272)
                      ++++.|.||||+++|.+|+.. .|||+||..|+.++    ...||.|+.++..   .+|.+|.++++++.
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~-~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~I~~~l   71 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFI   71 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEEC-SSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHH
T ss_pred             CCCccccCcCcCchhhhhccc-CCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHHHHHHH
Confidence            567899999999999999855 89999999999987    3579999999864   57899999998864

>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=99.12  E-value=3.5e-12  Score=92.95  Aligned_cols=61  Identities=20%  Similarity=0.453  Sum_probs=47.1

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc----ccchhHHHHhh
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN----IRCLALEKVAA  111 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~----~r~~~le~~~~  111 (272)
                      .+++.+.+.||||++++.+|+.+ .|||+||..|+.+|    ..+||.||.++..    .+.+++.++++
T Consensus        17 ~~d~~~~l~C~IC~~~~~~pv~~-~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P~~~~l~~l~   85 (86)
T d1rmda2          17 PAHFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILN   85 (86)
T ss_dssp             CHHHHHHTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHH
T ss_pred             hhhhccCcCCccCCcchhcceec-CCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCHHHHHHHHhc
Confidence            34555668999999999999865 89999999999987    2579999998864    23444544443

>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=99.11  E-value=7.7e-12  Score=89.30  Aligned_cols=61  Identities=25%  Similarity=0.434  Sum_probs=52.2

Q ss_pred             CCCCeeeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc---ccchhHHHHhhhc
Q 046177           52 SVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN---IRCLALEKVAASL  113 (272)
Q Consensus        52 ~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~---~r~~~le~~~~~l  113 (272)
                      ++++.|.||||+++|.+||.. .|||+||+.|+.+|    ...||.|+.++..   .+|.+|.++++++
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~-~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~~~I~~~   71 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALW   71 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHH
T ss_pred             CCCccCCCcCcCchhhCceEc-cCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHHHHHHHH
Confidence            577899999999999999855 89999999999987    2469999999864   5688888888765

>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=99.09  E-value=2.5e-11  Score=81.24  Aligned_cols=46  Identities=30%  Similarity=0.562  Sum_probs=41.2

Q ss_pred             CCeeeeccccccCcCCcccccCCceeccCcccccCCCCCCcccCCCc
Q 046177           54 RELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHELGN  100 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~~~CP~Cr~~~~~  100 (272)
                      .+.|.|+||++.+.+|+.. +|||+||..|+.++...||.||.++..
T Consensus         4 ~~~l~C~IC~~~~~~p~~l-pCgH~fC~~Ci~~~~~~CP~Cr~~~~~   49 (56)
T d1bora_           4 FQFLRCQQCQAEAKCPKLL-PCLHTLCSGCLEASGMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCS-TTSCCSBTTTCSSSSSSCSSCCSSSSC
T ss_pred             cCCCCCcccCcccCCCEEe-cCCCHHhHHHHHcCCCcCcCCCCcccC
Confidence            3568999999999999855 899999999999998899999998864

>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=99.02  E-value=7.6e-12  Score=94.05  Aligned_cols=69  Identities=22%  Similarity=0.738  Sum_probs=52.3

Q ss_pred             ccCCCCeeeeccccccCcCCcccccCCceeccCccccc---C---CCCCCcccCCCc---ccchhHHHHhhhc-CCCccc
Q 046177           50 SSSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---H---NRCPTCRHELGN---IRCLALEKVAASL-ELPCKY  119 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~---~~CP~Cr~~~~~---~r~~~le~~~~~l-~v~C~~  119 (272)
                      .+.+.+.|.||||++++.+|+.. .|||+||..|+.+|   .   ..||.||.++..   .+|..+.++++.+ ++.|++
T Consensus        15 ~~~l~~~l~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~ve~l~~~~~~~   93 (103)
T d1jm7a_          15 INAMQKILECPICLELIKEPVST-KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELLKIICAF   93 (103)
T ss_dssp             HHHHHHHTSCSSSCCCCSSCCBC-TTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHHHHHHHHH
T ss_pred             HHhcccCcCCCccCchhCCeEEc-CCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCHHHHHHHHHHHHHHccc
Confidence            44556778999999999999854 89999999999886   1   479999998853   4566666666655 355543

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.90  E-value=3.8e-10  Score=83.94  Aligned_cols=64  Identities=16%  Similarity=0.059  Sum_probs=53.0

Q ss_pred             cCCCCeeeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc---ccchhHHHHhhhcC
Q 046177           51 SSVRELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN---IRCLALEKVAASLE  114 (272)
Q Consensus        51 ~~~~~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~~~~l~  114 (272)
                      .+.++.|.||||.++|.+||....|||+||+.|+.+|   ...||.|+.++..   .+|.+|.+.++.+.
T Consensus        17 ~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr~~I~~~~   86 (98)
T d1wgma_          17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHH
T ss_pred             cCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHHHHHHHHH
Confidence            5677889999999999999866335569999999998   4789999999874   57888888887653

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.78  E-value=4.9e-10  Score=74.76  Aligned_cols=44  Identities=9%  Similarity=0.098  Sum_probs=38.6

Q ss_pred             eeeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           57 LECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      |.||||++++.+|+..-.|||+||..|+.+|   .+.||.||.++..
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            5799999999999865359999999999998   4789999998863

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=8.5e-10  Score=72.42  Aligned_cols=43  Identities=30%  Similarity=0.865  Sum_probs=35.4

Q ss_pred             eeeccccccCcCC---cccccCCceeccCcccccC----CCCCCcccCCC
Q 046177           57 LECPVCLNAMYPP---IHQCSNGHTLCSGCKPRVH----NRCPTCRHELG   99 (272)
Q Consensus        57 l~CpiC~~~l~~P---v~qC~cGH~~C~~C~~~~~----~~CP~Cr~~~~   99 (272)
                      ++||||++.+...   +..+.|||.||..|+.+|.    .+||+||.++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCC
Confidence            5899999988543   3456899999999999982    46999999875

>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=98.71  E-value=2.4e-09  Score=74.03  Aligned_cols=43  Identities=26%  Similarity=0.603  Sum_probs=37.5

Q ss_pred             eeccccccCcCCcccccCCceeccCccccc---CCCCCCcccCCCc
Q 046177           58 ECPVCLNAMYPPIHQCSNGHTLCSGCKPRV---HNRCPTCRHELGN  100 (272)
Q Consensus        58 ~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~---~~~CP~Cr~~~~~  100 (272)
                      .||||++.+..|++.-.|||.||..|+.+|   +.+||.||.++..
T Consensus         7 ~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            599999999888655579999999999998   5899999998754

>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=98.71  E-value=1.8e-09  Score=76.97  Aligned_cols=43  Identities=26%  Similarity=0.612  Sum_probs=37.9

Q ss_pred             eeeccccccCcCCcccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           57 LECPVCLNAMYPPIHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        57 l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      ..|+||++.+.+|+.. .|||.||..|+.+|    ...||.||..+..
T Consensus        24 ~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          24 QLCKICAENDKDVKIE-PCGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             TBCTTTSSSBCCEECS-SSCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCccCCCcCCCeEEe-CCCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            4699999999999866 79999999999988    2579999999865

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.67  E-value=5.8e-09  Score=69.14  Aligned_cols=46  Identities=28%  Similarity=0.614  Sum_probs=37.4

Q ss_pred             CCCeeeeccccccCcCC--cccc-cCCceeccCccccc---CCCCCCcccCC
Q 046177           53 VRELLECPVCLNAMYPP--IHQC-SNGHTLCSGCKPRV---HNRCPTCRHEL   98 (272)
Q Consensus        53 ~~~~l~CpiC~~~l~~P--v~qC-~cGH~~C~~C~~~~---~~~CP~Cr~~~   98 (272)
                      +++..+|+||++.+.+.  +.+. .|||.||..|+.+|   +..||.||.++
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            35567899999999754  4444 49999999999999   47899999876

>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=98.50  E-value=6.1e-09  Score=71.36  Aligned_cols=46  Identities=33%  Similarity=0.759  Sum_probs=35.5

Q ss_pred             CeeeeccccccCc-CC---cccccCCceeccCccccc----CCCCCCcccCCCc
Q 046177           55 ELLECPVCLNAMY-PP---IHQCSNGHTLCSGCKPRV----HNRCPTCRHELGN  100 (272)
Q Consensus        55 ~~l~CpiC~~~l~-~P---v~qC~cGH~~C~~C~~~~----~~~CP~Cr~~~~~  100 (272)
                      +...||||++.+. +|   ++...|||.||..|+.+|    ...||.||.++..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            4578999998653 22   234479999999999998    2579999998853

>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=98.00  E-value=9.6e-07  Score=66.39  Aligned_cols=44  Identities=18%  Similarity=0.478  Sum_probs=34.4

Q ss_pred             eeeccccccCcCC-----------------cccccCCceeccCcccccC--------CCCCCcccCCCc
Q 046177           57 LECPVCLNAMYPP-----------------IHQCSNGHTLCSGCKPRVH--------NRCPTCRHELGN  100 (272)
Q Consensus        57 l~CpiC~~~l~~P-----------------v~qC~cGH~~C~~C~~~~~--------~~CP~Cr~~~~~  100 (272)
                      -.|+||++.|..+                 +....|||.||..|+.+|.        .+||+||..+..
T Consensus        26 ~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          26 EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             ccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            4799999988653                 2234699999999999982        369999987753

>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=97.93  E-value=1.1e-06  Score=63.30  Aligned_cols=42  Identities=21%  Similarity=0.424  Sum_probs=33.7

Q ss_pred             eeccccccCcCCccc-----------------ccCCceeccCccccc---CCCCCCcccCCC
Q 046177           58 ECPVCLNAMYPPIHQ-----------------CSNGHTLCSGCKPRV---HNRCPTCRHELG   99 (272)
Q Consensus        58 ~CpiC~~~l~~Pv~q-----------------C~cGH~~C~~C~~~~---~~~CP~Cr~~~~   99 (272)
                      .|+||++.+..+-..                 -.|||.|+..|+.+|   .+.||+||.++.
T Consensus        23 ~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             cCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            599998887664221                 259999999999999   478999999875

>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=97.70  E-value=5.6e-06  Score=55.01  Aligned_cols=46  Identities=13%  Similarity=0.370  Sum_probs=36.1

Q ss_pred             CCeeeeccccccCcCCc-cccc---CCceeccCccccc-----CCCCCCcccCCC
Q 046177           54 RELLECPVCLNAMYPPI-HQCS---NGHTLCSGCKPRV-----HNRCPTCRHELG   99 (272)
Q Consensus        54 ~~~l~CpiC~~~l~~Pv-~qC~---cGH~~C~~C~~~~-----~~~CP~Cr~~~~   99 (272)
                      ++...|+||++.+..+. ..|.   |+|.|+..|+.+|     ..+||.||.++.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            46678999999887763 2233   5699999999998     258999999874

>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=96.93  E-value=9.5e-05  Score=53.03  Aligned_cols=33  Identities=15%  Similarity=0.306  Sum_probs=24.2

Q ss_pred             CeeeeccccccCcCC--cccccCCceeccCccccc
Q 046177           55 ELLECPVCLNAMYPP--IHQCSNGHTLCSGCKPRV   87 (272)
Q Consensus        55 ~~l~CpiC~~~l~~P--v~qC~cGH~~C~~C~~~~   87 (272)
                      ....|+||++.+...  +..-.|||.||..|+..+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~   38 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQY   38 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHH
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHH
Confidence            345899999987532  112259999999998875

>d1wfpa_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At1g12440 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At1g12440
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=91.62  E-value=0.23  Score=33.37  Aligned_cols=44  Identities=16%  Similarity=0.305  Sum_probs=33.7

Q ss_pred             CeeeeccccccCcCCcccccCCceeccCcccccCCCCCCcccCC
Q 046177           55 ELLECPVCLNAMYPPIHQCSNGHTLCSGCKPRVHNRCPTCRHEL   98 (272)
Q Consensus        55 ~~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~~~~CP~Cr~~~   98 (272)
                      ..-.|.+|..-+.-..++|.||+.||...+..-...|+..-...
T Consensus        24 kk~RC~~C~KKl~l~~~~CrCg~~FC~~HR~pe~H~C~fDyK~~   67 (74)
T d1wfpa_          24 TATRCLSCNKKVGVTGFKCRCGSTFCGTHRYPESHECQFDFKGV   67 (74)
T ss_dssp             CCCBCSSSCCBCTTTCEECTTSCEECTTTCSTTTSCCCSCTTSC
T ss_pred             CCCcChhcCCccCCCceecCCCChhhhccCCccCcCCCCcchhc
Confidence            45689999987766667999999999999876556787664433

>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=91.38  E-value=0.04  Score=35.52  Aligned_cols=40  Identities=23%  Similarity=0.563  Sum_probs=30.9

Q ss_pred             CeeeeccccccCcCC-ccccc-CCceeccCccccc---CCCCCCc
Q 046177           55 ELLECPVCLNAMYPP-IHQCS-NGHTLCSGCKPRV---HNRCPTC   94 (272)
Q Consensus        55 ~~l~CpiC~~~l~~P-v~qC~-cGH~~C~~C~~~~---~~~CP~C   94 (272)
                      ..-.|--|...+.+. +++|. |++.||..|-.-+   ...||-|
T Consensus        14 ~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            345799999888765 78998 9999999994333   3689987

>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=87.96  E-value=0.44  Score=31.51  Aligned_cols=31  Identities=26%  Similarity=0.656  Sum_probs=25.7

Q ss_pred             CeeeeccccccCcCC-ccccc--CCceeccCccc
Q 046177           55 ELLECPVCLNAMYPP-IHQCS--NGHTLCSGCKP   85 (272)
Q Consensus        55 ~~l~CpiC~~~l~~P-v~qC~--cGH~~C~~C~~   85 (272)
                      ..|.|.+|.+-|.+- ..||+  -+|.||..|-.
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr   40 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSR   40 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHH
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccH
Confidence            448999999999887 56887  68999999954

>d1zfda_ g.37.1.1 (A:) SWI5 zinc-finger domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: SWI5 zinc-finger domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.76  E-value=0.2  Score=28.04  Aligned_cols=25  Identities=36%  Similarity=0.599  Sum_probs=19.7

Q ss_pred             ccccCCCCCCCCccccC-hhHHHHHhhh
Q 046177          143 RPYNCPYAGSECTVMGD-IPYLVAHLKD  169 (272)
Q Consensus       143 ~~~~CP~~~~~C~~~g~-~~~l~~Hl~~  169 (272)
                      +|+.|+++|  |++... ...|..|.+.
T Consensus         2 rP~~C~~pg--C~k~F~r~~~L~~H~r~   27 (32)
T d1zfda_           2 RPYSCDHPG--CDKAFVRNHDLIRHKKS   27 (32)
T ss_dssp             CSBCCCCTT--CCCCBSSSHHHHHHHGG
T ss_pred             cCeECcCCC--CCCeeCCHHHHHHHhhh
Confidence            588999975  999885 4688999664

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=87.71  E-value=0.069  Score=35.52  Aligned_cols=39  Identities=33%  Similarity=0.854  Sum_probs=30.5

Q ss_pred             eeeeccccccCcCCcccccCCceeccCccccc--CCCCCCcccCCC
Q 046177           56 LLECPVCLNAMYPPIHQCSNGHTLCSGCKPRV--HNRCPTCRHELG   99 (272)
Q Consensus        56 ~l~CpiC~~~l~~Pv~qC~cGH~~C~~C~~~~--~~~CP~Cr~~~~   99 (272)
                      .+.||.|...|..     ..|+..|..|-...  ...||.|..++.
T Consensus         2 ~~~CP~C~~eL~~-----~~~~~~C~~C~~~~~~~a~CPdC~~~Le   42 (71)
T d2jnea1           2 ELHCPQCQHVLDQ-----DNGHARCRSCGEFIEMKALCPDCHQPLQ   42 (71)
T ss_dssp             CCBCSSSCSBEEE-----ETTEEEETTTCCEEEEEEECTTTCSBCE
T ss_pred             CCcCCCccCcccc-----cCCCEehhhhhhhheeEEeCCccccHHH
Confidence            3689999998643     36899999997765  368999999874

>d1wffa_ g.80.1.1 (A:) ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: ANUBL1 (AN1, ubiquitin-like, homolog)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.45  E-value=0.5  Score=32.47  Aligned_cols=40  Identities=15%  Similarity=0.380  Sum_probs=30.7

Q ss_pred             eeeeccccccCcC--CcccccCCceeccCcccccCCCCCCccc
Q 046177           56 LLECPVCLNAMYP--PIHQCSNGHTLCSGCKPRVHNRCPTCRH   96 (272)
Q Consensus        56 ~l~CpiC~~~l~~--Pv~qC~cGH~~C~~C~~~~~~~CP~Cr~   96 (272)
                      .-.|.+|..-+.-  + ++|.||+.||...+..-...|+..-.
T Consensus        25 ~~RC~~C~KKl~l~~~-~~CrCg~~FC~~HR~pe~H~CtfDyK   66 (85)
T d1wffa_          25 MKHCFLCGKKTGLATS-FECRCGNNFCASHRYAEAHGCNYDYK   66 (85)
T ss_dssp             CCBCSSSCCBCSSSSC-EECTTCCEECTTTCSTGGGTCCSCCS
T ss_pred             CCcChhcCCeecCCcC-eecCCCCEehhhcCCCcCcCCCcchH
Confidence            3479999987753  4 69999999999998765557876543

>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=86.77  E-value=0.23  Score=32.97  Aligned_cols=38  Identities=21%  Similarity=0.386  Sum_probs=28.3

Q ss_pred             ccCCCCeeeeccccccCc----CCcccc-cCCceeccCccccc
Q 046177           50 SSSVRELLECPVCLNAMY----PPIHQC-SNGHTLCSGCKPRV   87 (272)
Q Consensus        50 ~~~~~~~l~CpiC~~~l~----~Pv~qC-~cGH~~C~~C~~~~   87 (272)
                      +...+...-||-|..++.    .+.++| .||+.||..|...|
T Consensus        12 l~~~~~~k~CP~C~~~~~~~~~~~~~~C~~C~~~fC~~C~~~w   54 (73)
T d2ct7a1          12 LMRDPKFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQW   54 (73)
T ss_dssp             CCSCCCEECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBC
T ss_pred             HHHCCCCCCCCCCCCEeEECCCCCEEEcCCCCCeECcccCcch
Confidence            444556677999988653    345678 59999999998887

>d1ubdc4 g.37.1.1 (C:381-408) Ying-yang 1 (yy1, zinc finger domain) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Ying-yang 1 (yy1, zinc finger domain)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.13  E-value=0.16  Score=27.64  Aligned_cols=25  Identities=36%  Similarity=0.784  Sum_probs=18.2

Q ss_pred             ccccCCCCCCCCccccC-hhHHHHHhhh
Q 046177          143 RPYNCPYAGSECTVMGD-IPYLVAHLKD  169 (272)
Q Consensus       143 ~~~~CP~~~~~C~~~g~-~~~l~~Hl~~  169 (272)
                      +|+.|+.+|  |++... ...|..|.+.
T Consensus         1 rPf~C~~~g--C~K~F~~~~~L~~H~r~   26 (28)
T d1ubdc4           1 RPYVCPFDG--CNKKFAQSTNLKSHILT   26 (28)
T ss_dssp             CCCCCCSTT--CCCCCSSTTTTHHHHHH
T ss_pred             CCcCCCCCC--cCCcCCCHHHHHHHHhh
Confidence            478898865  888774 4678888753

>d1sp2a_ g.37.1.1 (A:) Transcription factor sp1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcription factor sp1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.60  E-value=0.38  Score=26.63  Aligned_cols=25  Identities=24%  Similarity=0.442  Sum_probs=19.2

Q ss_pred             ccccCCCCCCCCccccC-hhHHHHHhhh
Q 046177          143 RPYNCPYAGSECTVMGD-IPYLVAHLKD  169 (272)
Q Consensus       143 ~~~~CP~~~~~C~~~g~-~~~l~~Hl~~  169 (272)
                      +|+.||+.+  |+.... ...|..|++.
T Consensus         1 kpf~C~~~~--C~k~F~~~~~L~~H~r~   26 (31)
T d1sp2a_           1 RPFMCTWSY--CGKRFTRSDELQRHKRT   26 (31)
T ss_dssp             CCCBCCSTT--CCCBCSSHHHHHHHHTT
T ss_pred             CcCCCcCCC--CCcCcCChhHhhhhcCc
Confidence            578999865  998885 4688888764

>d1a1ia1 g.37.1.1 (A:103-131) ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ZIF268
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.20  E-value=0.3  Score=26.67  Aligned_cols=24  Identities=33%  Similarity=0.721  Sum_probs=18.4

Q ss_pred             ccccCCCCCCCCccccC-hhHHHHHhh
Q 046177          143 RPYNCPYAGSECTVMGD-IPYLVAHLK  168 (272)
Q Consensus       143 ~~~~CP~~~~~C~~~g~-~~~l~~Hl~  168 (272)
                      +|+.|+++|  |++... ...|..|.+
T Consensus         1 Kp~~C~~~g--C~k~F~~~~~L~~H~r   25 (29)
T d1a1ia1           1 RPYACPVES--CDRRFSRSADLTRHIR   25 (29)
T ss_dssp             CCEECCSTT--CCCEESSHHHHHHHTH
T ss_pred             CCeECCCCC--CCcEECchhHhhhhcC
Confidence            478999865  999884 467888865

>d2glia3 g.37.1.1 (A:168-197) Five-finger GLI1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Five-finger GLI1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.84  E-value=0.48  Score=25.98  Aligned_cols=24  Identities=29%  Similarity=0.742  Sum_probs=18.5

Q ss_pred             ccccCCCCCCCCccccC-hhHHHHHhh
Q 046177          143 RPYNCPYAGSECTVMGD-IPYLVAHLK  168 (272)
Q Consensus       143 ~~~~CP~~~~~C~~~g~-~~~l~~Hl~  168 (272)
                      +|+.|++.|  |+.... ...|..|++
T Consensus         1 kp~~C~~~g--Cgk~F~~~~~L~~H~r   25 (30)
T d2glia3           1 KPHKCTFEG--CRKSYSRLENLKTHLR   25 (30)
T ss_dssp             CCCCCCSTT--CCCCCSSHHHHHHHHH
T ss_pred             CCeeCCCCC--CCceECChhHhhhhcC
Confidence            478999865  999885 468888875

>d1ubdc3 g.37.1.1 (C:351-380) Ying-yang 1 (yy1, zinc finger domain) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Ying-yang 1 (yy1, zinc finger domain)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.35  E-value=0.5  Score=25.90  Aligned_cols=25  Identities=24%  Similarity=0.561  Sum_probs=19.2

Q ss_pred             ccccCCCCCCCCccccC-hhHHHHHhhh
Q 046177          143 RPYNCPYAGSECTVMGD-IPYLVAHLKD  169 (272)
Q Consensus       143 ~~~~CP~~~~~C~~~g~-~~~l~~Hl~~  169 (272)
                      +|+.|++.|  |+.... ...|..|++.
T Consensus         1 kp~~C~~~g--Cgk~F~~~~~L~~H~r~   26 (30)
T d1ubdc3           1 KPFQCTFEG--CGKRFSLDFNLRTHVRI   26 (30)
T ss_dssp             CCEECCSTT--CCCEESCHHHHHHHHHH
T ss_pred             CCccCCCCC--CCceECcHHHcCccccc
Confidence            578999865  999884 5688888763

>d1klra_ g.37.1.1 (A:) ZFY {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ZFY
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.30  E-value=0.56  Score=25.10  Aligned_cols=26  Identities=35%  Similarity=0.764  Sum_probs=20.2

Q ss_pred             cccCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 046177          144 PYNCPYAGSECTVMG-DIPYLVAHLKDDHKV  173 (272)
Q Consensus       144 ~~~CP~~~~~C~~~g-~~~~l~~Hl~~~H~~  173 (272)
                      |+.|++    |.+.. ....|..|+..+|.-
T Consensus         2 py~cqy----c~yrsadssnlkthiktkhsk   28 (30)
T d1klra_           2 TYQCQY----CEFRSADSSNLKTHIKTKHSK   28 (30)
T ss_dssp             CCCCSS----SSCCCSCSHHHHHHHHHHTSS
T ss_pred             Cccccc----cccccccchhhhhhhhccccc
Confidence            677877    66665 567899999999973