Psyllid ID: psy10659

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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
Protein Sequence
MSATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccHHHHHHcccccccccHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHccccccHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHcccHHccccccccHHHHHHHcccEcccccHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHccccHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
msatstpsrslkrqhsppdndllcpICFELIREAhitrcghtfcFSCISKCVelqikcpkcsaslpdmnsvfpNFLLNELVQKHkiksaqdsdglRDFVAsesqnlslpdvNLMLEVLNQRKHLLEAESSVAQYKLLYEL
Flexible Loop (DISEMBL)
msatstpsrslkrqhsppdndlLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQDSDGLRDFVASEsqnlslpdVNLMLEVLNQRKHlleaessvaqYKLLYEL
Low Complexity Region (SEG)
MSATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL
Disordered region (IsUnstruct)
********************DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKH***********************LPDVNLMLEVLNQRKHLLE****VAQYKL****
Disordered Region (DISOPRED)
*********************LLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELV***********************NLSLPDVNLMLEVLNQ*************YKLLYEL
Disordered Region (DISEMBL)
*****************PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL
Disordered Region (DISPRO)
*****************PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL
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	140	2.2.26 [Sep-21-2011]
Q8NHY2	731	E3 ubiquitin-protein liga	yes	N/A	0.864	0.165	0.419	3e-27
Q9R1A8	733	E3 ubiquitin-protein liga	yes	N/A	0.864	0.165	0.419	7e-27
P43254	675	E3 ubiquitin-protein liga	yes	N/A	0.857	0.177	0.357	1e-15
P93471	672	E3 ubiquitin-protein liga	N/A	N/A	0.457	0.095	0.461	5e-12
Q9UPQ4	493	Tripartite motif-containi	no	N/A	0.478	0.135	0.419	3e-09
Q5RBG2	492	Tripartite motif-containi	no	N/A	0.478	0.136	0.419	3e-09
Q5RKG6	501	Tripartite motif-containi	no	N/A	0.514	0.143	0.380	1e-07
Q8C006	501	Tripartite motif-containi	no	N/A	0.514	0.143	0.380	2e-07
Q91431	610	Nuclear factor 7, ovary O	N/A	N/A	0.414	0.095	0.4	6e-07
Q92021	609	Nuclear factor 7, brain O	N/A	N/A	0.414	0.095	0.4	7e-07

>sp|Q8NHY2|RFWD2_HUMAN E3 ubiquitin-protein ligase RFWD2 OS=Homo sapiens GN=RFWD2 PE=1 SV=1

 Score =  120 bits (301), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 57/136 (41%), Positives = 89/136 (65%), Gaps = 15/136 (11%)

Query: 20  NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
           ND +CPICF++I EA++T+CGH+FC+ CI + +E   +CPKC+  + +++ ++PNFL+NE
Sbjct: 132 NDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDHLYPNFLVNE 191

Query: 80  LVQKHKIK----------SAQDSDGLR-----DFVASESQNLSLPDVNLMLEVLNQRKHL 124
           L+ K K +          S   ++G R     D++ ++  NL L +VNLMLE+L Q+K  
Sbjct: 192 LILKQKQRFEEKRFKLDHSVSSTNGHRWQIFQDWLGTDQDNLDLANVNLMLELLVQKKKQ 251

Query: 125 LEAESSVAQYKLLYEL 140
           LEAES  AQ ++L E 
Sbjct: 252 LEAESHAAQLQILMEF 267

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. Involved in JUN ubiquitination and degradation. Directly involved in p53 (TP53) ubiquitination and degradation, thereby abolishing p53-dependent transcription and apoptosis. Ubiquitinates p53 independently of MDM2 or RCHY1. Probably mediates E3 ubiquitin ligase activity by functioning as the essential RING domain subunit of larger E3 complexes. In contrast, it does not constitute the catalytic RING subunit in the DCX DET1-COP1 complex that negatively regulates JUN, the ubiquitin ligase activity being mediated by RBX1.
Homo sapiens (taxid: 9606)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9R1A8|RFWD2_MOUSE E3 ubiquitin-protein ligase RFWD2 OS=Mus musculus GN=Rfwd2 PE=1 SV=2

 Score =  119 bits (297), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 57/136 (41%), Positives = 88/136 (64%), Gaps = 15/136 (11%)

Query: 20  NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
           ND +CPICF++I EA++T+CGH+FC+ CI + +E   +CPKC+  + +++ ++PNFL+NE
Sbjct: 134 NDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDHLYPNFLVNE 193

Query: 80  LVQKHKIK----------SAQDSDGLR-----DFVASESQNLSLPDVNLMLEVLNQRKHL 124
           L+ K K +          S   ++G R     D + ++  NL L +VNLMLE+L Q+K  
Sbjct: 194 LILKQKQRFEEKRFKLDHSVSSTNGHRWQIFQDLLGTDQDNLDLANVNLMLELLVQKKKQ 253

Query: 125 LEAESSVAQYKLLYEL 140
           LEAES  AQ ++L E 
Sbjct: 254 LEAESHAAQLQILMEF 269

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. Involved in JUN ubiquitination and degradation. Directly involved in p53 (TP53) ubiquitination and degradation, thereby abolishing p53-dependent transcription and apoptosis. Ubiquitinates p53 independently of MDM2 or RCHY1. Probably mediates E3 ubiquitin ligase activity by functioning as the essential RING domain subunit of larger E3 complexes. In contrast, it does not constitute the catalytic RING subunit in the DCX DET1-COP1 complex that negatively regulates JUN, the ubiquitin ligase activity being mediated by RBX1.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P43254|COP1_ARATH E3 ubiquitin-protein ligase COP1 OS=Arabidopsis thaliana GN=COP1 PE=1 SV=2

 Score = 82.0 bits (201), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 45/126 (35%), Positives = 77/126 (61%), Gaps = 6/126 (4%)

Query: 19  DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
           D DLLCPIC ++I++A +T CGH+FC+ CI   +  +  CP CS  L + N ++PNFLL+
Sbjct: 47  DKDLLCPICMQIIKDAFLTACGHSFCYMCIITHLRNKSDCPCCSQHLTN-NQLYPNFLLD 105

Query: 79  ELVQK----HKIKSAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQY 134
           +L++K    H  K+A   D  R+ +     ++S+ +V+ +L +L +RK  +E E +    
Sbjct: 106 KLLKKTSARHVSKTASPLDQFREAL-QRGCDVSIKEVDNLLTLLAERKRKMEQEEAERNM 164

Query: 135 KLLYEL 140
           ++L + 
Sbjct: 165 QILLDF 170

E3 ubiquitin-protein ligase that acts as a repressor of photomorphogenesis and as an activator of etiolation in darkness. 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. Represses photomorphogenesis in darkness by mediating ubiquitination and subsequent proteasomal degradation of light-induced transcription factors such as HY5, HYH and LAF1. Down-regulates MYB21, probably via ubiquitination process. Light stimuli abrogate the repression of photomorphogenesis, possibly due to its localization to the cytoplasm. Could play a role in switching between skotomorphogenetic and photomorphogenetic pathways.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P93471|COP1_PEA E3 ubiquitin-protein ligase COP1 OS=Pisum sativum GN=COP1 PE=2 SV=1

 Score = 69.7 bits (169), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 45/65 (69%), Gaps = 1/65 (1%)

Query: 19  DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
           D D LCPIC ++I++A +T CGH+FC+ CI   +  +  CP C   L + N +FPNFLL+
Sbjct: 42  DKDFLCPICMQIIKDAFLTACGHSFCYMCIITHLRNKSDCPCCGHYLTNSN-LFPNFLLD 100

Query: 79  ELVQK 83
           +L++K
Sbjct: 101 KLLKK 105

E3 ubiquitin-protein ligase that acts as a repressor of photomorphogenesis and as an activator of etiolation in darkness. 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. Represses photomorphogenesis in darkness by mediating ubiquitination and subsequent proteasomal degradation of light-induced transcription factors. Light stimuli abrogate the repression of photomorphogenesis, possibly due to its localization to the cytoplasm. Could play a role in switching between skotomorphogenetic and photomorphogenetic pathways.

Pisum sativum (taxid: 3888)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9UPQ4|TRI35_HUMAN Tripartite motif-containing protein 35 OS=Homo sapiens GN=TRIM35 PE=1 SV=2

 Score = 60.5 bits (145), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 34/81 (41%), Positives = 46/81 (56%), Gaps = 14/81 (17%)

Query: 7  PSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK--CPKCS-- 62
          PSRS K        +LLC +C++  R+A   RCGH FC  C+S+C E+Q+   CP C   
Sbjct: 11 PSRSFK-------EELLCAVCYDPFRDAVTLRCGHNFCRGCVSRCWEVQVSPTCPVCKDR 63

Query: 63 ASLPDMNSVFPNFLLNELVQK 83
          AS  D+ +   N  LN LV+K
Sbjct: 64 ASPADLRT---NHTLNNLVEK 81

May play a role as a tumor suppressor. Implicated in the cell death mechanism.

Homo sapiens (taxid: 9606)

>sp|Q5RBG2|TRI35_PONAB Tripartite motif-containing protein 35 OS=Pongo abelii GN=TRIM35 PE=2 SV=1

 Score = 60.5 bits (145), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 34/81 (41%), Positives = 46/81 (56%), Gaps = 14/81 (17%)

Query: 7  PSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK--CPKCS-- 62
          PSRS K        +LLC +C++  R+A   RCGH FC  C+S+C E+Q+   CP C   
Sbjct: 11 PSRSFK-------EELLCAVCYDPFRDAVTLRCGHNFCRGCVSRCWEVQVSPTCPVCKDR 63

Query: 63 ASLPDMNSVFPNFLLNELVQK 83
          AS  D+ +   N  LN LV+K
Sbjct: 64 ASPADLRT---NHTLNNLVEK 81

May play a role as a tumor suppressor. Implicated in the cell death mechanism.

Pongo abelii (taxid: 9601)

>sp|Q5RKG6|TRI35_RAT Tripartite motif-containing protein 35 OS=Rattus norvegicus GN=Trim35 PE=2 SV=1

 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 32/84 (38%), Positives = 44/84 (52%), Gaps = 12/84 (14%)

Query: 2  SATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQI--KCP 59
          S +  PSRS K        +LLC +C++  R+A   RCGH FC  C+S C E+Q    CP
Sbjct: 6  SVSPGPSRSFK-------EELLCAVCYDPFRDAVTLRCGHNFCRRCVSGCWEVQTTPSCP 58

Query: 60 KCSA-SLPDMNSVFPNFLLNELVQ 82
           C   ++P    +  N  LN LV+
Sbjct: 59 VCKERAVP--GELRTNHTLNNLVE 80

May play a role as a tumor suppressor. Implicated in the cell death mechanism.

Rattus norvegicus (taxid: 10116)

>sp|Q8C006|TRI35_MOUSE Tripartite motif-containing protein 35 OS=Mus musculus GN=Trim35 PE=2 SV=2

 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 32/84 (38%), Positives = 44/84 (52%), Gaps = 12/84 (14%)

Query: 2  SATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQI--KCP 59
          S +  PSRS K +       LLC +C++  R+A   RCGH FC  C+S C E+Q    CP
Sbjct: 6  SVSPGPSRSFKEE-------LLCAVCYDPFRDAVTLRCGHNFCRRCVSGCWEVQTTPSCP 58

Query: 60 KCSA-SLPDMNSVFPNFLLNELVQ 82
           C   ++P    +  N  LN LV+
Sbjct: 59 VCKERAVP--GELRTNHTLNNLVE 80

May play a role as a tumor suppressor. Implicated in the cell death mechanism.

Mus musculus (taxid: 10090)

>sp|Q91431|NF7O_XENLA Nuclear factor 7, ovary OS=Xenopus laevis PE=2 SV=1

 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 21  DLLCPICFELIREAHITRCGHTFCFSCISKCVELQ--IKCPKCSASLPDMNSVFPNFLLN 78
           +L CP+C EL ++  +  CGH FC SCI K  E Q    CP+C  S+ D        L N
Sbjct: 143 ELTCPLCVELFKDPVMVACGHNFCRSCIDKVWEGQSSFACPECKESITDRKYTINRVLAN 202

Transcription factor that determines dorsal-ventral body axis.

Xenopus laevis (taxid: 8355)

>sp|Q92021|NF7B_XENLA Nuclear factor 7, brain OS=Xenopus laevis PE=1 SV=1

 Score = 52.8 bits (125), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 21  DLLCPICFELIREAHITRCGHTFCFSCISKCVELQ--IKCPKCSASLPDMNSVFPNFLLN 78
           +L CP+C EL ++  +  CGH FC SCI K  E Q    CP+C  S+ D        L N
Sbjct: 142 ELTCPLCVELFKDPVMVACGHNFCRSCIDKAWEGQSSFACPECRESITDRKYTINRVLAN 201

Transcription factor that determines dorsal-ventral body axis.

Xenopus laevis (taxid: 8355)

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	140
307211652	688	E3 ubiquitin-protein ligase RFWD2 [Harpe	0.857	0.174	0.569	6e-37
242021289	642	RING finger and WD repeat domain protein	0.985	0.214	0.527	6e-37
91077676	662	PREDICTED: similar to E3 ubiquitin-ligas	0.892	0.188	0.516	7e-36
340725942	676	PREDICTED: e3 ubiquitin-protein ligase R	0.864	0.178	0.534	6e-35
345496707	675	PREDICTED: E3 ubiquitin-protein ligase R	0.864	0.179	0.520	7e-35
170033008	685	E3 ubiquitin-ligase protein COP1 [Culex	0.864	0.176	0.557	2e-34
312384230	1283	hypothetical protein AND_02381 [Anophele	0.864	0.094	0.454	8e-33
347970796	817	AGAP013233-PA [Anopheles gambiae str. PE	0.864	0.148	0.433	3e-30
432914419	705	PREDICTED: E3 ubiquitin-protein ligase R	0.864	0.171	0.462	2e-27
260828987	584	hypothetical protein BRAFLDRAFT_93483 [B	0.985	0.236	0.401	3e-27

>gi|307211652|gb|EFN87676.1| E3 ubiquitin-protein ligase RFWD2 [Harpegnathos saltator]

 Score =  158 bits (400), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 82/144 (56%), Positives = 100/144 (69%), Gaps = 24/144 (16%)

Query: 20  NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
           ND LCPICF+LI EAHITRCGHTFC+SCI K +E + +CPKCS +L   + +FPNFLL+E
Sbjct: 43  NDYLCPICFDLIDEAHITRCGHTFCYSCIVKSLETKDRCPKCSFTLSKQD-IFPNFLLHE 101

Query: 80  LVQKHKIKS---------AQDS--------------DGLRDFVASESQNLSLPDVNLMLE 116
           L+ K+KI+S         A D               DGLR+ VA+ES NL+LPDVN+MLE
Sbjct: 102 LILKYKIRSKGLSQIGSYATDGRRKSAGTDSLSSACDGLRNIVAAESANLTLPDVNVMLE 161

Query: 117 VLNQRKHLLEAESSVAQYKLLYEL 140
           VL QRKHLLEAE+  AQ KLL+E 
Sbjct: 162 VLTQRKHLLEAETCTAQNKLLHEF 185

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242021289|ref|XP_002431077.1| RING finger and WD repeat domain protein, putative [Pediculus humanus corporis] gi|212516326|gb|EEB18339.1| RING finger and WD repeat domain protein, putative [Pediculus humanus corporis]

 Score =  158 bits (400), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 86/163 (52%), Positives = 106/163 (65%), Gaps = 25/163 (15%)

Query: 2   SATSTPSRSLKRQHSPPDN-----------DLLCPICFELIREAHITRCGHTFCFSCISK 50
            + S  S+S K+ H    N           D LCPICFELI EAHITRCGHT+C+SCI+K
Sbjct: 16  GSASHRSQSFKQSHQSSLNGVNESNEEVSSDYLCPICFELIEEAHITRCGHTYCYSCITK 75

Query: 51  CVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIK-SAQD------------SDGLRD 97
            +  + +CP+C  S   +  +FPNFLLN+LV KHK K  AQ+            ++GLRD
Sbjct: 76  ALVEKPQCPRCGVSTR-VTDIFPNFLLNDLVSKHKTKLFAQELSQALNSQERVHTNGLRD 134

Query: 98  FVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL 140
           FV S SQNLSLPDVN+MLEVLNQRK +LEAE+  AQ +LLYE 
Sbjct: 135 FVTSGSQNLSLPDVNVMLEVLNQRKCILEAETCTAQNELLYEF 177

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91077676|ref|XP_974586.1| PREDICTED: similar to E3 ubiquitin-ligase protein COP1 [Tribolium castaneum] gi|270001535|gb|EEZ97982.1| hypothetical protein TcasGA2_TC000377 [Tribolium castaneum]

 Score =  155 bits (391), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 77/149 (51%), Positives = 96/149 (64%), Gaps = 24/149 (16%)

Query: 9   RSLKRQHSPPDN--------DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPK 60
           R+ KRQ S            D  CP+CF LI EA+IT+CGHTFC++CI K +E   +CPK
Sbjct: 28  RTPKRQRSTAGGGSFEEKTTDFSCPVCFNLIEEAYITKCGHTFCYTCILKSIEALKRCPK 87

Query: 61  CSASLPDMNSVFPNFLLNELVQKHKIK----------------SAQDSDGLRDFVASESQ 104
           C+A +   + +FPNFLLNEL++KHK +                    +DGLRDFVA+ESQ
Sbjct: 88  CNAPVTGEDMIFPNFLLNELIRKHKTRLNNFEALGLNRDSSGEFGTSADGLRDFVATESQ 147

Query: 105 NLSLPDVNLMLEVLNQRKHLLEAESSVAQ 133
           NL+LPDVN+MLEVL QRK LLEAES  AQ
Sbjct: 148 NLTLPDVNVMLEVLTQRKQLLEAESCAAQ 176

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340725942|ref|XP_003401323.1| PREDICTED: e3 ubiquitin-protein ligase RFWD2-like [Bombus terrestris]

 Score =  152 bits (383), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 78/146 (53%), Positives = 96/146 (65%), Gaps = 25/146 (17%)

Query: 19  DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
           +ND LCPIC E+I EAHITRCGHTFC+ CI K +E   +CPKCS +L   + +FPNFLL+
Sbjct: 67  NNDYLCPICLEVIDEAHITRCGHTFCYRCIIKSLEANGRCPKCSYALTQQD-IFPNFLLH 125

Query: 79  ELVQKHKIK----------SAQDS--------------DGLRDFVASESQNLSLPDVNLM 114
           EL+ K+K +           A D               DGLRD +A+ES NL+LPDVN+M
Sbjct: 126 ELISKYKTRIKGLAELGSSYAADGRHRVVGTDLPVPPHDGLRDIIAAESANLTLPDVNVM 185

Query: 115 LEVLNQRKHLLEAESSVAQYKLLYEL 140
           LEVL QRKHLLEAE+  AQ KLL+E 
Sbjct: 186 LEVLTQRKHLLEAETCTAQNKLLHEF 211

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345496707|ref|XP_003427793.1| PREDICTED: E3 ubiquitin-protein ligase RFWD2-like [Nasonia vitripennis]

 Score =  151 bits (382), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 77/148 (52%), Positives = 96/148 (64%), Gaps = 27/148 (18%)

Query: 19  DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
           ++D LCPICFE I EAH+TRCGHTFC+ CI + +E   +CPKC+ +L   + +FPNFLLN
Sbjct: 41  NSDYLCPICFETIEEAHVTRCGHTFCYKCIIRSLESLGRCPKCNINLTQQD-IFPNFLLN 99

Query: 79  ELVQKHKIK--------------------------SAQDSDGLRDFVASESQNLSLPDVN 112
           EL+ K+K +                          S   SDGLR+F+AS+S +LSLPDVN
Sbjct: 100 ELIAKYKTRAKGIGALDRTLALDNKGKGTFIPMDSSVGISDGLRNFIASDSTSLSLPDVN 159

Query: 113 LMLEVLNQRKHLLEAESSVAQYKLLYEL 140
            MLEVL QRKHLLEAES  AQ +LLYE 
Sbjct: 160 AMLEVLTQRKHLLEAESCAAQNRLLYEF 187

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170033008|ref|XP_001844371.1| E3 ubiquitin-ligase protein COP1 [Culex quinquefasciatus] gi|167873485|gb|EDS36868.1| E3 ubiquitin-ligase protein COP1 [Culex quinquefasciatus]

 Score =  150 bits (379), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 73/131 (55%), Positives = 94/131 (71%), Gaps = 10/131 (7%)

Query: 20  NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
           ND LCPICF++I EAHIT+CGHTFC  CI K +E+  KCPKC+ +L   +S+ PN+LLN+
Sbjct: 56  NDFLCPICFDVITEAHITKCGHTFCHHCIIKSIEVTKKCPKCNYTLTSHDSIVPNYLLND 115

Query: 80  LVQKHKIK----------SAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAES 129
           L+ K K+K          S   +D L+ F+ASES+ LSL DVN+MLE+LNQRK LLEAES
Sbjct: 116 LITKFKLKKKGTDSSNTASGDSADTLKHFLASESKKLSLSDVNVMLEILNQRKLLLEAES 175

Query: 130 SVAQYKLLYEL 140
             AQ +LL+E 
Sbjct: 176 CAAQNRLLHEF 186

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312384230|gb|EFR29000.1| hypothetical protein AND_02381 [Anopheles darlingi]

 Score =  144 bits (364), Expect = 8e-33,   Method: Composition-based stats.
 Identities = 70/154 (45%), Positives = 94/154 (61%), Gaps = 33/154 (21%)

Query: 20  NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
           +D LCPICF++I EAHITRCGHTFC  CIS+ +++  KCPKC++ L   + + PNF+LNE
Sbjct: 78  SDFLCPICFDIINEAHITRCGHTFCHQCISRSIDVTKKCPKCNSPLATQDHILPNFVLNE 137

Query: 80  LVQKHKIKS---------------------------------AQDSDGLRDFVASESQNL 106
           L+ KH++K                                  + + D LR F+A+ES+ L
Sbjct: 138 LITKHRLKMGMFGGGGGLQRNRSQPGMVSPKAGQPGLGDAIGSGEGDTLRHFLATESKKL 197

Query: 107 SLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL 140
           SL DVN+MLE+L QRK LLEAES  AQ +LL+E 
Sbjct: 198 SLSDVNVMLEILTQRKTLLEAESCAAQNRLLHEF 231

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|347970796|ref|XP_003436639.1| AGAP013233-PA [Anopheles gambiae str. PEST] gi|333466835|gb|EGK96393.1| AGAP013233-PA [Anopheles gambiae str. PEST]

 Score =  136 bits (342), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 69/159 (43%), Positives = 92/159 (57%), Gaps = 38/159 (23%)

Query: 20  NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
           ND LCPICF++I EA+ITRCGHTFC  CI++ +++  KCPKC+  L     + PNFLLNE
Sbjct: 61  NDFLCPICFDIINEAYITRCGHTFCHQCIARSIDVAKKCPKCNYPLASHEHIVPNFLLNE 120

Query: 80  LVQKHKIK--------------------------------------SAQDSDGLRDFVAS 101
           L+ KH++K                                      +  + D L+ F+A+
Sbjct: 121 LITKHRLKGGGGGGGGGLLHRHKSSQPGDNSPQFHTGGACGGGDANAGGEGDTLKHFLAT 180

Query: 102 ESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL 140
           ES+ LSL DVN+MLE+L QRK LLEAES  AQ +LL+E 
Sbjct: 181 ESKKLSLSDVNVMLEILTQRKTLLEAESCAAQNRLLHEF 219

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|432914419|ref|XP_004079103.1| PREDICTED: E3 ubiquitin-protein ligase RFWD2-like [Oryzias latipes]

 Score =  127 bits (318), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 61/132 (46%), Positives = 90/132 (68%), Gaps = 11/132 (8%)

Query: 20  NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
           ND +CPICFE+I EAH+T+CGH+FC+ CI + +E   +CPKC+  + +++ +FPNFL+NE
Sbjct: 107 NDFVCPICFEMIEEAHMTKCGHSFCYKCIRQSLEDSNRCPKCNYIVDNVDQLFPNFLVNE 166

Query: 80  LVQKHKIKSAQDS------DGLR-----DFVASESQNLSLPDVNLMLEVLNQRKHLLEAE 128
           L+ KHK +S +        +G R     D ++ + +NL L +VNLMLE+L Q+K  LEAE
Sbjct: 167 LILKHKQRSEEKRLKLDHPNGSRWQVFQDVLSPDQENLDLANVNLMLELLVQKKKQLEAE 226

Query: 129 SSVAQYKLLYEL 140
           S  AQ ++L E 
Sbjct: 227 SQAAQRQILMEF 238

Source: Oryzias latipes

Species: Oryzias latipes

Genus: Oryzias

Family: Adrianichthyidae

Order: Beloniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|260828987|ref|XP_002609444.1| hypothetical protein BRAFLDRAFT_93483 [Branchiostoma floridae] gi|229294800|gb|EEN65454.1| hypothetical protein BRAFLDRAFT_93483 [Branchiostoma floridae]

 Score =  126 bits (317), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 65/162 (40%), Positives = 97/162 (59%), Gaps = 24/162 (14%)

Query: 3   ATSTPSRSLKRQHSPP------------DNDLLCPICFELIREAHITRCGHTFCFSCISK 50
           A  TP+R   ++  PP            +ND +CPICF++I EAH+T+CGH+FCF CI +
Sbjct: 2   AGRTPTRRRLKRPQPPIYNGIINTDEDKNNDFVCPICFDMIEEAHMTKCGHSFCFKCIQQ 61

Query: 51  CVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQDS-------DGLR-----DF 98
            +E   +CPKC+  +   + +FPNFLLNEL+ KH+ +  +         +G++     + 
Sbjct: 62  SLEESNRCPKCNFVIEKTDQIFPNFLLNELILKHRQRLEERKRVKLDQPNGMKLTEFQEL 121

Query: 99  VASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYEL 140
           ++ E  NL + DVNLMLEVL Q+K  LEA+S  AQ ++L E 
Sbjct: 122 LSHEDDNLDITDVNLMLEVLYQKKTRLEADSIAAQNQILKEF 163

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

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	140
UNIPROTKB|F1S705	425	RFWD2 "Uncharacterized protein	0.921	0.303	0.402	4e-25
UNIPROTKB|F1NQ64	717	RFWD2 "Uncharacterized protein	0.957	0.186	0.393	1e-24
ZFIN|ZDB-GENE-070410-134	694	rfwd2 "ring finger and WD repe	0.857	0.172	0.419	1.6e-24
UNIPROTKB|E2RRJ5	733	RFWD2 "Uncharacterized protein	0.857	0.163	0.422	2.3e-24
UNIPROTKB|Q8NHY2	731	RFWD2 "E3 ubiquitin-protein li	0.921	0.176	0.402	2.9e-24
MGI|MGI:1347046	733	Rfwd2 "ring finger and WD repe	0.921	0.175	0.402	2.9e-24
UNIPROTKB|F1MHX1	735	RFWD2 "Uncharacterized protein	0.921	0.175	0.402	3.8e-24
UNIPROTKB|E9PJB5	189	RFWD2 "E3 ubiquitin-protein li	0.785	0.582	0.4	7.2e-20
UNIPROTKB|H0Y339	566	RFWD2 "E3 ubiquitin-protein li	0.757	0.187	0.396	8.3e-18
TAIR|locus:2059359	675	COP1 "CONSTITUTIVE PHOTOMORPHO	0.85	0.176	0.36	2.5e-17

UNIPROTKB|F1S705 RFWD2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 286 (105.7 bits), Expect = 4.0e-25, P = 4.0e-25
 Identities = 58/144 (40%), Positives = 90/144 (62%)

Query:    11 LKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
             L   +    ND +CPICF++I EA++T+CGH+FC+ CI + +E   +CPKC+  + +++ 
Sbjct:   122 LINSYEDKSNDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDH 181

Query:    71 VFPNFLLNELVQKHKIK----------SAQDSDGLR-----DFVASESQNLSLPDVNLML 115
             ++PNFL+NEL+ K K +          S   ++G R     D + ++  NL L +VNLML
Sbjct:   182 LYPNFLVNELILKQKQRFEEKRFKLDHSVSSTNGHRWQIFQDLLGTDQDNLDLANVNLML 241

Query:   116 EVLNQRKHLLEAESSVAQYKLLYE 139
             E+L Q+K  LEAES  AQ ++L E
Sbjct:   242 ELLVQKKKQLEAESHAAQLQILME 265

GO:0005925 "focal adhesion" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1NQ64 RFWD2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 291 (107.5 bits), Expect = 1.0e-24, P = 1.0e-24
 Identities = 59/150 (39%), Positives = 94/150 (62%)

Query:     6 TP-SRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSAS 64
             TP    L   +    ND +CPICF++I EA++T+CGH+FC+ CI + +E   +CPKC+  
Sbjct:   103 TPLCNGLLNSYEDKSNDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYV 162

Query:    65 LPDMNSVFPNFLLNELVQKHKIKSAQ----------DSDG-----LRDFVASESQNLSLP 109
             + +++ ++PNFL+NEL+ K K +S +           ++G     ++D + ++  NL L 
Sbjct:   163 VDNIDHLYPNFLVNELILKQKQRSEEKRFKLDHSVSSTNGHRWQIIQDLLGTDQDNLDLA 222

Query:   110 DVNLMLEVLNQRKHLLEAESSVAQYKLLYE 139
             +VNLMLE+L Q+K  LEAES  AQ ++L E
Sbjct:   223 NVNLMLELLVQKKKQLEAESHAAQLQILME 252

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

ZFIN|ZDB-GENE-070410-134 rfwd2 "ring finger and WD repeat domain 2" [Danio rerio (taxid:7955)]

 Score = 289 (106.8 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 55/131 (41%), Positives = 87/131 (66%)

Query:    20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
             ND +CPICFE+I EAH+T+CGH+FC+ CI + +E   +CPKC+  + +++ ++PNFL+NE
Sbjct:    94 NDFVCPICFEMIEEAHMTKCGHSFCYKCIRQSLEDSNRCPKCNYIIDNVDQLYPNFLVNE 153

Query:    80 LVQKHKIKSAQDS------DGLR-----DFVASESQNLSLPDVNLMLEVLNQRKHLLEAE 128
             L+ K K +S +        +G +     D + ++ +N+ L +VN +LE L Q+K  LEAE
Sbjct:   154 LILKQKQRSEEKRLKRDHPNGTKWQVFQDVLGADQENMDLANVNYILEYLLQKKKQLEAE 213

Query:   129 SSVAQYKLLYE 139
             S  AQ ++L E
Sbjct:   214 SQAAQRQILME 224

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|E2RRJ5 RFWD2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 288 (106.4 bits), Expect = 2.3e-24, P = 2.3e-24
 Identities = 57/135 (42%), Positives = 89/135 (65%)

Query:    20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
             ND +CPICF++I EA++T+CGH+FC+ CI + +E   +CPKC+  + +++ ++PNFL+NE
Sbjct:   134 NDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDHLYPNFLVNE 193

Query:    80 LVQKHKIK----------SAQDSDG-----LRDFVASESQNLSLPDVNLMLEVLNQRKHL 124
             L+ K K +          S   ++G     L+D + ++  NL L +VNLMLE+L Q+K  
Sbjct:   194 LILKQKQRFEEKRFKLDHSVSSTNGHRWQILQDLLGTDQDNLDLANVNLMLELLVQKKKQ 253

Query:   125 LEAESSVAQYKLLYE 139
             LEAES  AQ ++L E
Sbjct:   254 LEAESHAAQLQILME 268

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q8NHY2 RFWD2 "E3 ubiquitin-protein ligase RFWD2" [Homo sapiens (taxid:9606)]

 Score = 287 (106.1 bits), Expect = 2.9e-24, P = 2.9e-24
 Identities = 58/144 (40%), Positives = 91/144 (63%)

Query:    11 LKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
             L   +    ND +CPICF++I EA++T+CGH+FC+ CI + +E   +CPKC+  + +++ 
Sbjct:   123 LINSYEDKSNDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDH 182

Query:    71 VFPNFLLNELVQKHKIK----------SAQDSDGLR-----DFVASESQNLSLPDVNLML 115
             ++PNFL+NEL+ K K +          S   ++G R     D++ ++  NL L +VNLML
Sbjct:   183 LYPNFLVNELILKQKQRFEEKRFKLDHSVSSTNGHRWQIFQDWLGTDQDNLDLANVNLML 242

Query:   116 EVLNQRKHLLEAESSVAQYKLLYE 139
             E+L Q+K  LEAES  AQ ++L E
Sbjct:   243 ELLVQKKKQLEAESHAAQLQILME 266

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006977 "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005813 "centrosome" evidence=IDA

GO:0005925 "focal adhesion" evidence=IDA

MGI|MGI:1347046 Rfwd2 "ring finger and WD repeat domain 2" [Mus musculus (taxid:10090)]

 Score = 287 (106.1 bits), Expect = 2.9e-24, P = 2.9e-24
 Identities = 58/144 (40%), Positives = 90/144 (62%)

Query:    11 LKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
             L   +    ND +CPICF++I EA++T+CGH+FC+ CI + +E   +CPKC+  + +++ 
Sbjct:   125 LLNSYEDKSNDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDH 184

Query:    71 VFPNFLLNELVQKHKIK----------SAQDSDGLR-----DFVASESQNLSLPDVNLML 115
             ++PNFL+NEL+ K K +          S   ++G R     D + ++  NL L +VNLML
Sbjct:   185 LYPNFLVNELILKQKQRFEEKRFKLDHSVSSTNGHRWQIFQDLLGTDQDNLDLANVNLML 244

Query:   116 EVLNQRKHLLEAESSVAQYKLLYE 139
             E+L Q+K  LEAES  AQ ++L E
Sbjct:   245 ELLVQKKKQLEAESHAAQLQILME 268

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1MHX1 RFWD2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 286 (105.7 bits), Expect = 3.8e-24, P = 3.8e-24
 Identities = 58/144 (40%), Positives = 90/144 (62%)

Query:    11 LKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
             L   +    ND +CPICF++I EA++T+CGH+FC+ CI + +E   +CPKC+  + +++ 
Sbjct:   127 LINSYEDKSNDFVCPICFDMIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDH 186

Query:    71 VFPNFLLNELVQKHKIK----------SAQDSDGLR-----DFVASESQNLSLPDVNLML 115
             ++PNFL+NEL+ K K +          S   ++G R     D + ++  NL L +VNLML
Sbjct:   187 LYPNFLVNELILKQKQRFEEKRFKLDHSVSSTNGHRWQIFQDLLGTDQDNLDLANVNLML 246

Query:   116 EVLNQRKHLLEAESSVAQYKLLYE 139
             E+L Q+K  LEAES  AQ ++L E
Sbjct:   247 ELLVQKKKQLEAESHAAQLQILME 270

GO:0005925 "focal adhesion" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E9PJB5 RFWD2 "E3 ubiquitin-protein ligase RFWD2" [Homo sapiens (taxid:9606)]

 Score = 236 (88.1 bits), Expect = 7.2e-20, P = 7.2e-20
 Identities = 50/125 (40%), Positives = 80/125 (64%)

Query:    30 LIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIK-- 87
             +I EA++T+CGH+FC+ CI + +E   +CPKC+  + +++ ++PNFL+NEL+ K K +  
Sbjct:     1 MIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDHLYPNFLVNELILKQKQRFE 60

Query:    88 --------SAQDSDGLR-----DFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQY 134
                     S   ++G R     D++ ++  NL L +VNLMLE+L Q+K  LEAES  AQ 
Sbjct:    61 EKRFKLDHSVSSTNGHRWQIFQDWLGTDQDNLDLANVNLMLELLVQKKKQLEAESHAAQL 120

Query:   135 KLLYE 139
             ++L E
Sbjct:   121 QILME 125

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005813 "centrosome" evidence=IDA

GO:0005925 "focal adhesion" evidence=IDA

UNIPROTKB|H0Y339 RFWD2 "E3 ubiquitin-protein ligase RFWD2" [Homo sapiens (taxid:9606)]

 Score = 225 (84.3 bits), Expect = 8.3e-18, P = 8.3e-18
 Identities = 48/121 (39%), Positives = 77/121 (63%)

Query:    34 AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIK------ 87
             A++T+CGH+FC+ CI + +E   +CPKC+  + +++ ++PNFL+NEL+ K K +      
Sbjct:     1 AYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDHLYPNFLVNELILKQKQRFEEKRF 60

Query:    88 ----SAQDSDGLR-----DFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLY 138
                 S   ++G R     D++ ++  NL L +VNLMLE+L Q+K  LEAES  AQ ++L 
Sbjct:    61 KLDHSVSSTNGHRWQIFQDWLGTDQDNLDLANVNLMLELLVQKKKQLEAESHAAQLQILM 120

Query:   139 E 139
             E
Sbjct:   121 E 121

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005813 "centrosome" evidence=IDA

GO:0005925 "focal adhesion" evidence=IDA

TAIR|locus:2059359 COP1 "CONSTITUTIVE PHOTOMORPHOGENIC 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 45/125 (36%), Positives = 77/125 (61%)

Query:    19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
             D DLLCPIC ++I++A +T CGH+FC+ CI   +  +  CP CS  L + N ++PNFLL+
Sbjct:    47 DKDLLCPICMQIIKDAFLTACGHSFCYMCIITHLRNKSDCPCCSQHLTN-NQLYPNFLLD 105

Query:    79 ELVQK----HKIKSAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQY 134
             +L++K    H  K+A   D  R+ +     ++S+ +V+ +L +L +RK  +E E +    
Sbjct:   106 KLLKKTSARHVSKTASPLDQFREAL-QRGCDVSIKEVDNLLTLLAERKRKMEQEEAERNM 164

Query:   135 KLLYE 139
             ++L +
Sbjct:   165 QILLD 169

GO:0005634 "nucleus" evidence=ISM;IDA;IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009640 "photomorphogenesis" evidence=IGI;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0000152 "nuclear ubiquitin ligase complex" evidence=TAS

GO:0009647 "skotomorphogenesis" evidence=TAS

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

GO:0010119 "regulation of stomatal movement" evidence=IGI;IMP

GO:0046283 "anthocyanin-containing compound metabolic process" evidence=IMP

GO:0080008 "Cul4-RING ubiquitin ligase complex" evidence=ISS

GO:0048573 "photoperiodism, flowering" evidence=IMP

GO:0006281 "DNA repair" evidence=RCA;IMP

GO:0009649 "entrainment of circadian clock" evidence=IMP

GO:0010100 "negative regulation of photomorphogenesis" evidence=RCA

GO:0048608 "reproductive structure development" evidence=RCA

GO:0009641 "shade avoidance" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	140
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	8e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-09
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	9e-08
smart00184	40	smart00184, RING, Ring finger	9e-08
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	1e-07
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	3e-07
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-07
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	2e-05
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-04
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	2e-04
COG5152	259	COG5152, COG5152, Uncharacterized conserved protei	2e-04
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	3e-04
smart00504	63	smart00504, Ubox, Modified RING finger domain	3e-04
PLN03208	193	PLN03208, PLN03208, E3 ubiquitin-protein ligase RM	8e-04

>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 55.0 bits (132), Expect = 8e-10
 Identities = 32/83 (38%), Positives = 42/83 (50%), Gaps = 7/83 (8%)

Query: 4  TSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSA 63
           +TP  SL     P D  L C IC +      +T C HTFC  CI +C+  Q KCP C A
Sbjct: 13 LTTPIPSLY----PLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRA 68

Query: 64 SLPDMNSVF-PNFLLNELVQKHK 85
             D  S    N+L++E+V+  K
Sbjct: 69 --EDQESKLRSNWLVSEIVESFK 89

All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 397

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

 Score = 49.4 bits (118), Expect = 3e-09
 Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 1/43 (2%)

Query: 20 NDLLCPICFELIREAHI-TRCGHTFCFSCISKCVELQIKCPKC 61
           +L CPIC +L+R+  + T CGH FC  CI + ++ + KCP C
Sbjct: 1  EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPIC 43

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 = 45.5 bits (108), Expect = 9e-08
 Identities = 19/44 (43%), Positives = 24/44 (54%), Gaps = 2/44 (4%)

Query: 24 CPICFELIRE-AHITRCGHTFCFSCISKCVEL-QIKCPKCSASL 65
          CPIC E  RE   +  CGH FC SCI K ++  +  CP C   +
Sbjct: 2  CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 45.2 bits (107), Expect = 9e-08
 Identities = 20/40 (50%), Positives = 24/40 (60%), Gaps = 2/40 (5%)

Query: 24 CPICFE-LIREAHITRCGHTFCFSCISKCVELQ-IKCPKC 61
          CPIC E  +++  I  CGHTFC SCI K +E     CP C
Sbjct: 1  CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s). Length = 40

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

 Score = 48.9 bits (116), Expect = 1e-07
 Identities = 23/79 (29%), Positives = 29/79 (36%), Gaps = 3/79 (3%)

Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFP-NFLL 77
          D+ L C IC   I     T CGHTFC  CI + +  Q  CP C        S    +   
Sbjct: 23 DSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCRE--DPCESRLRGSSGS 80

Query: 78 NELVQKHKIKSAQDSDGLR 96
           E+ + H          L 
Sbjct: 81 REINESHARNRDLLRKVLE 99

Length = 391

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

 Score = 44.3 bits (105), Expect = 3e-07
 Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 3/44 (6%)

Query: 24 CPICFELI---REAHITRCGHTFCFSCISKCVELQIKCPKCSAS 64
          CPIC +      E  +  CGH F   C+ K +     CP C A 
Sbjct: 3  CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 43.2 bits (102), Expect = 5e-07
 Identities = 17/40 (42%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 24 CPICFELIREAH-ITRCGHTFCFSCISKCVELQI-KCPKC 61
          CPIC E  ++   I  CGH FC  CI   +E     CP C
Sbjct: 1  CPICLEEPKDPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

>gnl|CDD|227547 COG5222, COG5222, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 42.4 bits (99), Expect = 2e-05
 Identities = 30/98 (30%), Positives = 43/98 (43%), Gaps = 2/98 (2%)

Query: 17  PPDNDLLCPICFELIREAHITR-CGHTFCFSCI-SKCVELQIKCPKCSASLPDMNSVFPN 74
           PP+  L CP+C  L+R    T  CGHTFC  CI +  ++   KCP CS     ++ + P+
Sbjct: 270 PPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPD 329

Query: 75  FLLNELVQKHKIKSAQDSDGLRDFVASESQNLSLPDVN 112
                 V+K   K  +      D     S+     D N
Sbjct: 330 IDKKLEVEKALKKQRKKVGTSDDNNTPMSEKRKREDPN 367

Length = 427

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

 Score = 37.0 bits (86), Expect = 2e-04
 Identities = 16/43 (37%), Positives = 18/43 (41%), Gaps = 2/43 (4%)

Query: 20 NDLLCPICFELIREAHITRCGHT-FCFSCISKCVELQIKCPKC 61
           D LC IC E  R      CGH   C  C  +    + KCP C
Sbjct: 1  EDDLCVICLERPRNVVFLPCGHLCLCEECAKRLRSKK-KCPIC 42

Length = 49

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

 Score = 39.1 bits (91), Expect = 2e-04
 Identities = 18/48 (37%), Positives = 21/48 (43%), Gaps = 2/48 (4%)

Query: 18  PDNDLLCPICFELIREAHITRCGHTFCFSCI--SKCVELQIKCPKCSA 63
           P  D  C +C E       T CGH FC SC+  S   +    CP C A
Sbjct: 212 PLADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRA 259

Length = 271

>gnl|CDD|227481 COG5152, COG5152, Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

 Score = 39.3 bits (91), Expect = 2e-04
 Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 2/68 (2%)

Query: 18  PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
                LC IC +      +T CGH+FC  C  +  +   +C  C  +      V  +   
Sbjct: 193 EKIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDL-- 250

Query: 78  NELVQKHK 85
            +++ K K
Sbjct: 251 QKMLNKRK 258

Length = 259

>gnl|CDD|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation motif

 Score = 36.5 bits (85), Expect = 3e-04
 Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 6/44 (13%)

Query: 22 LLCPICFELIREAH----ITRCGHTFCFSCISKCVE--LQIKCP 59
           +CPI  E++ +      +  CGH +    + K  +   + KCP
Sbjct: 11 FVCPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKCP 54

This zinc-finger is the dimerisation motif for LisH proteins, and is also a typical RING-type of plant ubiquitin ligases. Length = 55

>gnl|CDD|128780 smart00504, Ubox, Modified RING finger domain

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNEL 80
          + LCPI  E++++  I   G T+  S I K +      P     L     + PN  L   
Sbjct: 1  EFLCPISLEVMKDPVILPSGQTYERSAIEKWLLSHGTDPVTGQPLTH-EDLIPNLALKSA 59

Query: 81 VQK 83
          +Q+
Sbjct: 60 IQE 62

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination. Length = 63

>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional

 Score = 37.4 bits (86), Expect = 8e-04
 Identities = 14/30 (46%), Positives = 19/30 (63%)

Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISK 50
          D  C IC + +R+  +T CGH FC+ CI K
Sbjct: 18 DFDCNICLDQVRDPVVTLCGHLFCWPCIHK 47

Length = 193

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	140
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.66
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.62
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.61
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.6
KOG0287|consensus	442		99.56
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.55
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.5
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	99.47
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	99.45
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.44
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.44
KOG0320|consensus	187		99.43
KOG0823|consensus	230		99.43
KOG0317|consensus	293		99.42
PHA02929	238	N1R/p28-like protein; Provisional	99.39
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.35
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.26
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.25
PF14634	44	zf-RING_5: zinc-RING finger domain	99.24
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.19
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.17
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	99.16
PHA02926	242	zinc finger-like protein; Provisional	99.15
KOG2177|consensus	386		99.14
KOG0978|consensus	698		99.14
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	99.11
KOG2164|consensus	513		99.11
KOG4628|consensus	348		98.98
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.97
KOG0311|consensus	381		98.9
KOG1002|consensus	791		98.87
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.86
KOG2660|consensus	331		98.8
KOG0802|consensus	543		98.78
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.71
KOG0297|consensus	391		98.7
COG5152	259	Uncharacterized conserved protein, contains RING a	98.65
KOG4159|consensus	398		98.65
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.57
KOG0824|consensus	324		98.56
KOG1813|consensus	313		98.53
KOG2879|consensus	298		98.46
COG5222	427	Uncharacterized conserved protein, contains RING Z	98.44
KOG1734|consensus	328		98.25
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.22
KOG4172|consensus	62		98.12
KOG0804|consensus	493		98.05
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.05
KOG1645|consensus	463		98.04
KOG0828|consensus	636		97.98
KOG1039|consensus	344		97.93
KOG3039|consensus	303		97.93
KOG4265|consensus	349		97.93
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.9
KOG4692|consensus	489		97.89
KOG1785|consensus	563		97.87
KOG0827|consensus	465		97.82
KOG4367|consensus	699		97.77
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.74
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	97.72
KOG0825|consensus	1134		97.71
PF04641	260	Rtf2: Rtf2 RING-finger	97.71
KOG2930|consensus	114		97.65
KOG0826|consensus	357		97.57
KOG4739|consensus	233		97.55
KOG4185|consensus	296		97.49
KOG1493|consensus	84		97.41
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.36
KOG1814|consensus	445		97.26
KOG1001|consensus	674		97.2
KOG0298|consensus	1394		97.2
KOG3800|consensus	300		97.18
KOG4275|consensus	350		97.12
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	97.02
KOG1571|consensus	355		96.98
KOG3002|consensus	299		96.91
KOG1941|consensus	518		96.9
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.76
KOG2114|consensus	933		96.72
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.55
KOG2817|consensus	394		96.54
KOG3970|consensus	299		96.52
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.47
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.37
KOG4362|consensus	684		96.34
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.31
KOG1940|consensus	276		96.2
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	96.2
PHA03096	284	p28-like protein; Provisional	95.78
KOG3579|consensus	352		95.57
KOG1428|consensus	3738		95.55
KOG3268|consensus	234		95.51
KOG3161|consensus	861		95.43
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	95.43
KOG3039|consensus	303		95.4
KOG2932|consensus	389		95.32
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.21
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	94.58
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	94.38
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	94.26
KOG3113|consensus	293		94.18
KOG1952|consensus	950		94.14
PHA02862	156	5L protein; Provisional	94.1
KOG1812|consensus	384		94.08
KOG4445|consensus	368		94.06
COG5109	396	Uncharacterized conserved protein, contains RING Z	93.5
KOG1100|consensus	207		93.05
KOG1815|consensus	444		92.68
KOG2034|consensus	911		92.17
COG3813	84	Uncharacterized protein conserved in bacteria [Fun	92.13
KOG4718|consensus	235		91.61
PF04216	290	FdhE: Protein involved in formate dehydrogenase fo	91.55
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.4
TIGR01562	305	FdhE formate dehydrogenase accessory protein FdhE.	90.8
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	90.55
PF10235	90	Cript: Microtubule-associated protein CRIPT; Inter	90.49
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	90.48
KOG0825|consensus	1134		90.08
KOG2979|consensus	262		89.4
KOG1812|consensus	384		89.02
KOG3899|consensus	381		88.67
PRK03564	309	formate dehydrogenase accessory protein FdhE; Prov	88.56
KOG2042|consensus	943		88.37
KOG4642|consensus	284		87.08
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	87.01
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	86.57
PF14353	128	CpXC: CpXC protein	86.52
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	86.47
KOG0309|consensus	1081		86.33
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	86.33
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	86.21
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	86.06
KOG0827|consensus	465		85.81
PF13248	26	zf-ribbon_3: zinc-ribbon domain	82.9
KOG3053|consensus	293		82.73
PF01363	69	FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc f	82.34
PF10186	302	Atg14: UV radiation resistance protein and autopha	82.3
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	81.59
COG5627	275	MMS21 DNA repair protein MMS21 [DNA replication, r	81.53
smart00064	68	FYVE Protein present in Fab1, YOTB, Vac1, and EEA1	81.14
PF06844	68	DUF1244: Protein of unknown function (DUF1244); In	80.25

>smart00504 Ubox Modified RING finger domain

Probab=99.66  E-value=1.3e-16  Score=92.48  Aligned_cols=62  Identities=26%  Similarity=0.486  Sum_probs=56.7

Q ss_pred             CcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHH
Q psy10659         21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQK   83 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~   83 (140)
                      ++.||||.+.+.+|+.++|||+||..||..|+.....||.|+.+++..+ +.+|..+.+.++.
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~-l~~~~~l~~~i~~   62 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED-LIPNLALKSAIQE   62 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh-ceeCHHHHHHHHh
Confidence            4789999999999999999999999999999998889999999997777 8899888887764

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.62  E-value=5.6e-16  Score=117.87  Aligned_cols=75  Identities=35%  Similarity=0.685  Sum_probs=67.2

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCCCC
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQD   91 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (140)
                      ..++..+.|+||++.|.+|++++|||+||..||..|+.....||.|+..+.... +..|..+.++++.|....+..
T Consensus        21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~-Lr~N~~L~~iVe~~~~~R~~L   95 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESK-LRSNWLVSEIVESFKNLRPSL   95 (397)
T ss_pred             cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccccc-CccchHHHHHHHHHHHhhHHH
Confidence            467788999999999999999999999999999999988888999999988765 899999999999998765543

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

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

Probab=99.61  E-value=3.1e-16  Score=83.52  Aligned_cols=38  Identities=39%  Similarity=1.150  Sum_probs=30.6

Q ss_pred             cccccchhhhceecCCCCcccHhhHHHHhhcC----CCCCCC
Q psy10659         24 CPICFELIREAHITRCGHTFCFSCISKCVELQ----IKCPKC   61 (140)
Q Consensus        24 C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~----~~CP~C   61 (140)
                      ||||+++|.+|+.++|||+||..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999999999999999999999743    569987

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

Probab=99.60  E-value=1.1e-15  Score=91.17  Aligned_cols=70  Identities=27%  Similarity=0.438  Sum_probs=58.7

Q ss_pred             CCCcccccccchhhhceecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      .+.+.|||+.++|.+||.+++||+|++.+|..|+.. ...||.|+.++...+ +.+|..+...++.|.....
T Consensus         2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~-l~pn~~Lk~~I~~~~~~~~   72 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD-LIPNRALKSAIEEWCAENK   72 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG-SEE-HHHHHHHHHHHHHCT
T ss_pred             CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc-ceECHHHHHHHHHHHHHcc
Confidence            468999999999999999999999999999999987 889999999999877 9999999999999987653

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 ....

>KOG0287|consensus

Probab=99.56  E-value=8.5e-16  Score=112.82  Aligned_cols=72  Identities=33%  Similarity=0.701  Sum_probs=65.8

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      .+++.++|.||+++|..|+++||||+||.-||..++..+..||.|..++...+ ++.|..+.++++.+.....
T Consensus        19 ~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~-Lr~n~il~Eiv~S~~~~R~   90 (442)
T KOG0287|consen   19 TLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESD-LRNNRILDEIVKSLNFARN   90 (442)
T ss_pred             hhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhh-hhhhhHHHHHHHHHHHHHH
Confidence            45678999999999999999999999999999999999999999999999988 9999999999988766543

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.55  E-value=3.1e-15  Score=103.09  Aligned_cols=53  Identities=34%  Similarity=0.873  Sum_probs=46.0

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc----------------CCCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL----------------QIKCPKCSASLPDMN   69 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~----------------~~~CP~C~~~~~~~~   69 (140)
                      +..+++.|+||++.+.+|++++|||+||..||..|+..                ...||.|+..++...
T Consensus        14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            44567999999999999999999999999999999742                357999999987754

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

Probab=99.50  E-value=9.5e-15  Score=76.74  Aligned_cols=38  Identities=50%  Similarity=1.249  Sum_probs=33.8

Q ss_pred             cccccchhhhc-eecCCCCcccHhhHHHHhhcCCCCCCC
Q psy10659         24 CPICFELIREA-HITRCGHTFCFSCISKCVELQIKCPKC   61 (140)
Q Consensus        24 C~IC~~~~~~p-~~~~CgH~fC~~Ci~~~~~~~~~CP~C   61 (140)
                      |+||.+.+.+| +.++|||+||..|+.+|++....||.|
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            89999999999 578999999999999999988899987

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

Probab=99.47  E-value=2.3e-14  Score=103.52  Aligned_cols=73  Identities=29%  Similarity=0.422  Sum_probs=64.4

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQ   90 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (140)
                      .++..+.|.||.+.++.|+.++|||+||.-||..++..+..||+|+....... ++.+..+.++++.+......
T Consensus        21 ~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esr-lr~~s~~~ei~es~~~~r~~   93 (391)
T COG5432          21 GLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESR-LRGSSGSREINESHARNRDL   93 (391)
T ss_pred             cchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhhh-cccchhHHHHHHhhhhccHH
Confidence            45677999999999999999999999999999999999999999999888777 77788888888877766554

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

Probab=99.45  E-value=1.2e-14  Score=82.50  Aligned_cols=60  Identities=32%  Similarity=0.769  Sum_probs=34.5

Q ss_pred             CCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHH
Q psy10659         19 DNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELV   81 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~   81 (140)
                      ++.+.|++|.+++++||.+ .|.|+||..||...+.  ..||+|..+....+ +..|..+.+++
T Consensus         5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD-~~~NrqLd~~i   65 (65)
T PF14835_consen    5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD-IQINRQLDSMI   65 (65)
T ss_dssp             HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS-----HHHHHHH
T ss_pred             HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH-HHhhhhhhccC
Confidence            4578999999999999865 9999999999987553  45999999998888 99999988775

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

Probab=99.44  E-value=4.7e-14  Score=78.05  Aligned_cols=47  Identities=38%  Similarity=0.918  Sum_probs=41.5

Q ss_pred             CCcccccccchhhhceecCCCCc-ccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHITRCGHT-FCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      ++..|+||++...+++.+||||. ||..|+.+|+.....||+||+++.
T Consensus         1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            35789999999999999999999 999999999999999999998765

...

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=99.44  E-value=3.1e-14  Score=76.72  Aligned_cols=40  Identities=38%  Similarity=0.871  Sum_probs=34.8

Q ss_pred             ccccccchhhh---ceecCCCCcccHhhHHHHhhcCCCCCCCC
Q psy10659         23 LCPICFELIRE---AHITRCGHTFCFSCISKCVELQIKCPKCS   62 (140)
Q Consensus        23 ~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~   62 (140)
                      .|+||++.+..   .+.++|||.||.+|+..|++.+..||+||
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            69999999953   45679999999999999999999999996

...

>KOG0320|consensus

Probab=99.43  E-value=8.3e-14  Score=94.07  Aligned_cols=51  Identities=33%  Similarity=0.885  Sum_probs=45.0

Q ss_pred             CCCcccccccchhhhc--eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREA--HITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p--~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      +....||||++.+.+.  +.+.|||+||..||+..++....||+|++.++.+.
T Consensus       129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            4568999999999764  56899999999999999999999999999877665

>KOG0823|consensus

Probab=99.43  E-value=6.3e-14  Score=98.37  Aligned_cols=52  Identities=29%  Similarity=0.779  Sum_probs=46.0

Q ss_pred             CCCCcccccccchhhhceecCCCCcccHhhHHHHhhc---CCCCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL---QIKCPKCSASLPDMN   69 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~---~~~CP~C~~~~~~~~   69 (140)
                      ....+.|.||++.-++||++.|||.||+.||.+|+..   ...||+|+..++...
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            3567999999999999999999999999999999974   456899999887765

>KOG0317|consensus

Probab=99.42  E-value=9.8e-14  Score=100.14  Aligned_cols=52  Identities=31%  Similarity=0.790  Sum_probs=47.7

Q ss_pred             CCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      .+....|.+|++...+|..+||||.||..||..|......||+||..+...+
T Consensus       236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            3456899999999999999999999999999999999899999999888765

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.39  E-value=2.6e-13  Score=97.09  Aligned_cols=50  Identities=28%  Similarity=0.748  Sum_probs=42.7

Q ss_pred             CCCCcccccccchhhhc--------eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREA--------HITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p--------~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ..++..|+||++.+.++        +.++|||.||..||.+|+.....||+||..+..
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            35578999999987653        456899999999999999999999999988764

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.35  E-value=4.3e-13  Score=71.10  Aligned_cols=38  Identities=45%  Similarity=1.179  Sum_probs=35.2

Q ss_pred             cccccchhhhce-ecCCCCcccHhhHHHHhh--cCCCCCCC
Q psy10659         24 CPICFELIREAH-ITRCGHTFCFSCISKCVE--LQIKCPKC   61 (140)
Q Consensus        24 C~IC~~~~~~p~-~~~CgH~fC~~Ci~~~~~--~~~~CP~C   61 (140)
                      |+||++.+.+|+ .++|||.||..|+..|++  ....||.|
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            899999999999 789999999999999998  56789987

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 ....

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

Probab=99.26  E-value=3e-12  Score=68.14  Aligned_cols=35  Identities=43%  Similarity=1.088  Sum_probs=22.6

Q ss_pred             cccccchhhh----ceecCCCCcccHhhHHHHhhc----CCCCC
Q psy10659         24 CPICFELIRE----AHITRCGHTFCFSCISKCVEL----QIKCP   59 (140)
Q Consensus        24 C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~----~~~CP   59 (140)
                      ||||.+ +.+    |+.++|||+||.+|+.++...    ..+||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 887    899999999999999999973    34676

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

Probab=99.25  E-value=6.1e-12  Score=67.34  Aligned_cols=42  Identities=45%  Similarity=1.046  Sum_probs=37.0

Q ss_pred             ccccccchhhhceec-CCCCcccHhhHHHHhhc-CCCCCCCCCC
Q psy10659         23 LCPICFELIREAHIT-RCGHTFCFSCISKCVEL-QIKCPKCSAS   64 (140)
Q Consensus        23 ~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~-~~~CP~C~~~   64 (140)
                      .|+||.+.+.+++.+ +|||.||..|+..|+.. ...||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence            599999999777766 59999999999999986 7789999875

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.24  E-value=5.6e-12  Score=67.79  Aligned_cols=41  Identities=44%  Similarity=1.033  Sum_probs=35.5

Q ss_pred             ccccccchh---hhceecCCCCcccHhhHHHHhhcCCCCCCCCC
Q psy10659         23 LCPICFELI---REAHITRCGHTFCFSCISKCVELQIKCPKCSA   63 (140)
Q Consensus        23 ~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~   63 (140)
                      .|+||++.+   ..|+.++|||+||..|+..+......||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            499999999   34677899999999999999866788999984

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

Probab=99.19  E-value=1.3e-11  Score=73.39  Aligned_cols=40  Identities=38%  Similarity=0.870  Sum_probs=33.4

Q ss_pred             ccccccchhhhc------------e-ecCCCCcccHhhHHHHhhcCCCCCCCC
Q psy10659         23 LCPICFELIREA------------H-ITRCGHTFCFSCISKCVELQIKCPKCS   62 (140)
Q Consensus        23 ~C~IC~~~~~~p------------~-~~~CgH~fC~~Ci~~~~~~~~~CP~C~   62 (140)
                      .|+||++.+.++            + ..+|||.|+..||.+|++....||+||
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            499999999433            2 348999999999999999999999997

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 ....

>smart00184 RING Ring finger

Probab=99.17  E-value=2.3e-11  Score=62.97  Aligned_cols=38  Identities=47%  Similarity=1.152  Sum_probs=34.8

Q ss_pred             cccccchhhhceecCCCCcccHhhHHHHhh-cCCCCCCC
Q psy10659         24 CPICFELIREAHITRCGHTFCFSCISKCVE-LQIKCPKC   61 (140)
Q Consensus        24 C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~-~~~~CP~C   61 (140)
                      |+||++....++.++|||.||..|+..|+. ....||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            899999988899999999999999999998 66779987

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)

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=99.16  E-value=1.1e-10  Score=86.05  Aligned_cols=50  Identities=34%  Similarity=0.719  Sum_probs=39.0

Q ss_pred             CCcccccccch-hhhce---ec-CCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFEL-IREAH---IT-RCGHTFCFSCISKCVE-LQIKCPKCSASLPDMN   69 (140)
Q Consensus        20 ~~~~C~IC~~~-~~~p~---~~-~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~   69 (140)
                      ++..||+|... +.+|-   .+ +|||.||..|+..++. +...||.|+..+....
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            45789999993 44452   22 7999999999999775 4568999999887765

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).

>PHA02926 zinc finger-like protein; Provisional

Probab=99.15  E-value=2.1e-11  Score=85.42  Aligned_cols=51  Identities=25%  Similarity=0.746  Sum_probs=40.5

Q ss_pred             CCCCCcccccccchhhh---------ceecCCCCcccHhhHHHHhhcC------CCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIRE---------AHITRCGHTFCFSCISKCVELQ------IKCPKCSASLPD   67 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~---------p~~~~CgH~fC~~Ci~~~~~~~------~~CP~C~~~~~~   67 (140)
                      ....+..|+||++...+         ++..+|+|+||..||..|....      ..||+||..+..
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            45678999999997633         2445999999999999999742      459999998764

>KOG2177|consensus

Probab=99.14  E-value=4.7e-11  Score=87.82  Aligned_cols=71  Identities=35%  Similarity=0.784  Sum_probs=60.3

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQ   90 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (140)
                      ...+.+.|+||++.|.+|.+++|||+||..|+..++.....||.|+. ... . +.+|..+.++++.+......
T Consensus         9 ~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~~-~-~~~n~~l~~~~~~~~~~~~~   79 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP-PSR-N-LRPNVLLANLVERLRQLRLS   79 (386)
T ss_pred             hccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC-chh-c-cCccHHHHHHHHHHHhcCCc
Confidence            45678999999999999988899999999999999986678999996 333 3 77999999999998876544

>KOG0978|consensus

Probab=99.14  E-value=1.2e-11  Score=99.35  Aligned_cols=59  Identities=36%  Similarity=0.721  Sum_probs=51.5

Q ss_pred             hhhcCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCC
Q psy10659         11 LKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE-LQIKCPKCSASLPDMN   69 (140)
Q Consensus        11 ~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~   69 (140)
                      +..........+.||+|..-+++.+++.|||.||..|+...+. +..+||.|+..|..++
T Consensus       633 L~EElk~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  633 LAEELKEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             HHHHHHHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            3444445567899999999999999999999999999999987 5789999999999887

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

Probab=99.11  E-value=2.8e-11  Score=86.58  Aligned_cols=51  Identities=31%  Similarity=0.677  Sum_probs=45.1

Q ss_pred             CCCcccccccchhhhceecCCCCcccHhhHHH-HhhcCCC-CCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHITRCGHTFCFSCISK-CVELQIK-CPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~-~~~~~~~-CP~C~~~~~~~~   69 (140)
                      ..+..|+||++....|..++|||.||..||.. |-..... ||+||..+..++
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            55899999999999999999999999999999 8776665 999998776655

>KOG2164|consensus

Probab=99.11  E-value=3e-11  Score=93.29  Aligned_cols=49  Identities=35%  Similarity=0.799  Sum_probs=44.4

Q ss_pred             CcccccccchhhhceecCCCCcccHhhHHHHhhcC-----CCCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-----IKCPKCSASLPDMN   69 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-----~~CP~C~~~~~~~~   69 (140)
                      +..||||+....-|+.+.|||.||..||.+|+...     ..||+|+..+..++
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            78999999999999999999999999999999643     57999999988876

>KOG4628|consensus

Probab=98.98  E-value=2.5e-10  Score=85.42  Aligned_cols=47  Identities=28%  Similarity=0.629  Sum_probs=39.9

Q ss_pred             cccccccchhhhc---eecCCCCcccHhhHHHHhhcCC-CCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREA---HITRCGHTFCFSCISKCVELQI-KCPKCSASLPDM   68 (140)
Q Consensus        22 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~-~CP~C~~~~~~~   68 (140)
                      ..|.||++.|...   ..|||+|.||..||..|+.... .||+|+..+...
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~  280 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD  280 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence            5999999999854   4579999999999999998764 499999876543

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

Probab=98.97  E-value=2.9e-10  Score=84.95  Aligned_cols=47  Identities=28%  Similarity=0.725  Sum_probs=41.3

Q ss_pred             CCCcccccccchhh-h------------ceecCCCCcccHhhHHHHhhcCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIR-E------------AHITRCGHTFCFSCISKCVELQIKCPKCSASL   65 (140)
Q Consensus        19 ~~~~~C~IC~~~~~-~------------p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~   65 (140)
                      .++-.|.||.+.+. .            |..+||||.|+.+|++.|.+++.+||.||.++
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            56789999999853 2            36789999999999999999999999999984

>KOG0311|consensus

Probab=98.90  E-value=3.4e-10  Score=84.02  Aligned_cols=70  Identities=31%  Similarity=0.656  Sum_probs=58.8

Q ss_pred             CCCCcccccccchhhhceec-CCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhc
Q psy10659         18 PDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVE-LQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIK   87 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (140)
                      +.-++.|+||+++++..+++ .|+|.||..||..-++ +...||.||+.+..+..+.++.....++.++...
T Consensus        40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i~~s  111 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALISKIYPS  111 (381)
T ss_pred             hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHHHHhcc
Confidence            35678999999999999887 7999999999998887 5678999999998887788877777777665544

>KOG1002|consensus

Probab=98.87  E-value=3.2e-09  Score=82.68  Aligned_cols=107  Identities=20%  Similarity=0.432  Sum_probs=71.5

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc-----CCCCCCCCCCCCCCCCCccc--------hHHHHHHHH
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-----QIKCPKCSASLPDMNSVFPN--------FLLNELVQK   83 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-----~~~CP~C~~~~~~~~~~~~~--------~~~~~~~~~   83 (140)
                      +......|.+|.+.-.+++.++|.|.||..|+.+|..+     ..+||.|...++... ..+.        +....++..
T Consensus       532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl-se~alek~~l~~Fk~sSIlnR  610 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL-SEPALEKTDLKGFKASSILNR  610 (791)
T ss_pred             cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc-cchhhhhcchhhhhhHHHhhh
Confidence            34567899999999999999999999999999999863     478999988765432 1111        111122221


Q ss_pred             HH---hcCCCChHHHHHHhh------hcCCCcccccHHHHHHHHHHHHHH
Q psy10659         84 HK---IKSAQDSDGLRDFVA------SESQNLSLPDVNLMLEVLNQRKHL  124 (140)
Q Consensus        84 ~~---~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~l~~~~~~~~~  124 (140)
                      +.   -....+.+.+++.+-      ...+++.|++++++|+.+.++..+
T Consensus       611 inm~~~qsSTKIEAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~k  660 (791)
T KOG1002|consen  611 INMDDWQSSTKIEALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGK  660 (791)
T ss_pred             cchhhhcchhHHHHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhc
Confidence            11   112224444433222      234678899999999999988754

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

Probab=98.86  E-value=1.7e-09  Score=65.30  Aligned_cols=48  Identities=29%  Similarity=0.661  Sum_probs=37.8

Q ss_pred             CCCcccccccchhhh------------cee-cCCCCcccHhhHHHHhhc---CCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIRE------------AHI-TRCGHTFCFSCISKCVEL---QIKCPKCSASLP   66 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~------------p~~-~~CgH~fC~~Ci~~~~~~---~~~CP~C~~~~~   66 (140)
                      .++..|+||+..|..            |+. -.|+|.|+..||.+|+.+   +..||+||.+..
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            347788888888762            233 379999999999999974   478999998754

>KOG2660|consensus

Probab=98.80  E-value=2.6e-09  Score=78.75  Aligned_cols=86  Identities=26%  Similarity=0.480  Sum_probs=66.9

Q ss_pred             CCCCCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC---CCccchHHHHHHHHHHhcCC-
Q psy10659         15 HSPPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMN---SVFPNFLLNELVQKHKIKSA-   89 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~---~~~~~~~~~~~~~~~~~~~~-   89 (140)
                      ..++.....|.+|..+|.++-++ -|-|+||++||..++.....||.|+..+....   .+..+..++.++.++-.... 
T Consensus         9 ~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~e   88 (331)
T KOG2660|consen    9 LTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQE   88 (331)
T ss_pred             hhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHHH
Confidence            44667789999999999999765 79999999999999999999999998876542   46777888888877655432 


Q ss_pred             CChHHHHHHhh
Q psy10659         90 QDSDGLRDFVA  100 (140)
Q Consensus        90 ~~~~~~~~~~~  100 (140)
                      ....+++.|..
T Consensus        89 rE~k~~rdFy~   99 (331)
T KOG2660|consen   89 REMKRRRDFYK   99 (331)
T ss_pred             HHHHHHHHHHH
Confidence            24444555554

>KOG0802|consensus

Probab=98.78  E-value=2.1e-09  Score=85.97  Aligned_cols=49  Identities=39%  Similarity=0.735  Sum_probs=43.8

Q ss_pred             CCCcccccccchhhh-----ceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIRE-----AHITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ..+..|+||.+.+..     |..++|||.||..|+..|++....||.||..+..
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYD  342 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence            347899999999998     7889999999999999999999999999984433

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

Probab=98.71  E-value=8.4e-09  Score=75.39  Aligned_cols=48  Identities=27%  Similarity=0.747  Sum_probs=40.5

Q ss_pred             CCcccccccchhhhc---eecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREA---HITRCGHTFCFSCISKCVE-LQIKCPKCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~   67 (140)
                      ....|.||++.+.+-   +.+||.|.||..|+..|+. .+..||+||.++..
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            347999999988642   5689999999999999998 56789999987754

>KOG0297|consensus

Probab=98.70  E-value=1.6e-08  Score=77.93  Aligned_cols=81  Identities=33%  Similarity=0.650  Sum_probs=62.6

Q ss_pred             CCChhhhhcCCCCCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHH
Q psy10659          6 TPSRSLKRQHSPPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKH   84 (140)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~   84 (140)
                      .+...+.....++++++.|++|...+.+|+.+ .|||.||..|+..|...+..||.|+..+.....+.........+...
T Consensus         6 ~~~~~~~~~~~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l   85 (391)
T KOG0297|consen    6 TMGFDLKHLGRPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKL   85 (391)
T ss_pred             cccccccccCCCCcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhc
Confidence            34445555666688999999999999999985 99999999999999999999999988877766444344444444444


Q ss_pred             Hh
Q psy10659         85 KI   86 (140)
Q Consensus        85 ~~   86 (140)
                      ..
T Consensus        86 ~i   87 (391)
T KOG0297|consen   86 PI   87 (391)
T ss_pred             cc
Confidence            33

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

Probab=98.65  E-value=1.1e-08  Score=70.73  Aligned_cols=47  Identities=28%  Similarity=0.626  Sum_probs=42.8

Q ss_pred             CcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      .+.|.||...|..||++.|||.||..|...-.+....|-+|++...-
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G  242 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYG  242 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhcc
Confidence            47999999999999999999999999999888888999999986544

>KOG4159|consensus

Probab=98.65  E-value=2.2e-08  Score=76.71  Aligned_cols=72  Identities=25%  Similarity=0.643  Sum_probs=55.6

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC---CCc-cchHHHHHHHHHHhc
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN---SVF-PNFLLNELVQKHKIK   87 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~---~~~-~~~~~~~~~~~~~~~   87 (140)
                      ..+..++.|-||...+..|++++|||+||..||.+.+.....||.|+..+....   ... .|.....++..+...
T Consensus        79 ~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~  154 (398)
T KOG4159|consen   79 EEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVELPALEQALSLNRLLCKLITKFLEG  154 (398)
T ss_pred             ccccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhhh
Confidence            345778999999999999999999999999999998888889999999887532   111 244444666655544

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

Probab=98.57  E-value=2.6e-08  Score=56.22  Aligned_cols=41  Identities=29%  Similarity=0.631  Sum_probs=29.9

Q ss_pred             CCcccccccchhhhceec-CCCCcccHhhHHHHhh--cCCCCCC
Q psy10659         20 NDLLCPICFELIREAHIT-RCGHTFCFSCISKCVE--LQIKCPK   60 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~--~~~~CP~   60 (140)
                      -.+.|||.+..|.+||.. .|||+|.+..|.+|+.  ....||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            458999999999999985 9999999999999994  4567998

>KOG0824|consensus

Probab=98.56  E-value=2.9e-08  Score=72.53  Aligned_cols=49  Identities=22%  Similarity=0.502  Sum_probs=43.0

Q ss_pred             CcccccccchhhhceecCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMN   69 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~   69 (140)
                      .-.|+||+....-|+.++|+|.||.-||+...... ..|++||.++...-
T Consensus         7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             CCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            56899999999999999999999999999877654 56999999988754

>KOG1813|consensus

Probab=98.53  E-value=4.8e-08  Score=71.19  Aligned_cols=47  Identities=32%  Similarity=0.619  Sum_probs=43.0

Q ss_pred             CcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      .+.|-||...|..||++.|||.||..|...-++....|++|.+....
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             CccccccccccccchhhcCCceeehhhhccccccCCcceeccccccc
Confidence            36899999999999999999999999999988888999999987654

>KOG2879|consensus

Probab=98.46  E-value=1.2e-07  Score=68.50  Aligned_cols=51  Identities=31%  Similarity=0.813  Sum_probs=43.5

Q ss_pred             CCCCCCcccccccchhhhceec-CCCCcccHhhHHHHhh--cCCCCCCCCCCCC
Q psy10659         16 SPPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVE--LQIKCPKCSASLP   66 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~--~~~~CP~C~~~~~   66 (140)
                      +....+.+||+|.+....|... +|||.||.-|+..-..  ..+.||.|+.++.
T Consensus       234 s~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  234 STGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            3446789999999999999876 6999999999988765  4589999998765

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

Probab=98.44  E-value=2.7e-07  Score=67.63  Aligned_cols=65  Identities=35%  Similarity=0.680  Sum_probs=52.5

Q ss_pred             cccccccchhhhceec-CCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCCCCccchHHHHHHHHHHh
Q psy10659         22 LLCPICFELIREAHIT-RCGHTFCFSCISKCVE-LQIKCPKCSASLPDMNSVFPNFLLNELVQKHKI   86 (140)
Q Consensus        22 ~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~   86 (140)
                      +.||.|..++.+|+.+ .|||.||..||...+. ..+.||.|.+.--..+.+.++......|+.+..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE~~lk  341 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVEKALK  341 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHHHHHHHHHH
Confidence            9999999999999999 6999999999998775 678999998743334447777777766666655

>KOG1734|consensus

Probab=98.25  E-value=1.9e-07  Score=67.38  Aligned_cols=55  Identities=25%  Similarity=0.499  Sum_probs=43.2

Q ss_pred             CCCcccccccchhhhc----------eecCCCCcccHhhHHHHhh--cCCCCCCCCCCCCCCCCCccc
Q psy10659         19 DNDLLCPICFELIREA----------HITRCGHTFCFSCISKCVE--LQIKCPKCSASLPDMNSVFPN   74 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p----------~~~~CgH~fC~~Ci~~~~~--~~~~CP~C~~~~~~~~~~~~~   74 (140)
                      .++-.|.||...+...          ..++|+|+|+..||..|-.  .+.+||.|++.+..+. +..|
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r-mfsn  288 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR-MFSN  288 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh-hccC
Confidence            3578899999877533          3579999999999999975  4678999999887665 4444

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

Probab=98.22  E-value=7e-07  Score=52.83  Aligned_cols=46  Identities=24%  Similarity=0.455  Sum_probs=35.8

Q ss_pred             cccccccchhhhc---------------ee-cCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREA---------------HI-TRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        22 ~~C~IC~~~~~~p---------------~~-~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ..|.||+.-+.++               +. -.|.|.|+..||.+|+.+...||++++....
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            5677777765432               22 2599999999999999999999999987543

>KOG4172|consensus

Probab=98.12  E-value=5.9e-07  Score=49.33  Aligned_cols=46  Identities=30%  Similarity=0.762  Sum_probs=39.5

Q ss_pred             CcccccccchhhhceecCCCC-cccHhhHHHHhh-cCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGH-TFCFSCISKCVE-LQIKCPKCSASLP   66 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~-~~~~CP~C~~~~~   66 (140)
                      ..+|.||.+-..+.|...||| -.|..|-.+.++ .+..||.||.++.
T Consensus         7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            478999999988888889999 579999988887 5788999998754

>KOG0804|consensus

Probab=98.05  E-value=1.8e-06  Score=66.36  Aligned_cols=48  Identities=27%  Similarity=0.625  Sum_probs=38.8

Q ss_pred             CCCCCcccccccchhhhce----ecCCCCcccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAH----ITRCGHTFCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      ...+.-+||||++-+..-+    .+.|.|+|+..|+..|.  ...||+||....
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            3457789999999987654    45899999999999997  567888886554

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

Probab=98.05  E-value=5.8e-07  Score=52.93  Aligned_cols=46  Identities=28%  Similarity=0.761  Sum_probs=23.1

Q ss_pred             Ccccccccchhh-h---cee----cCCCCcccHhhHHHHhhc---C--------CCCCCCCCCCC
Q psy10659         21 DLLCPICFELIR-E---AHI----TRCGHTFCFSCISKCVEL---Q--------IKCPKCSASLP   66 (140)
Q Consensus        21 ~~~C~IC~~~~~-~---p~~----~~CgH~fC~~Ci~~~~~~---~--------~~CP~C~~~~~   66 (140)
                      +..|+||..... +   |..    ..|+..||..|+.+|+..   .        ..||.|+.+++
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            578999999765 2   332    269999999999999962   1        35999998764

>KOG1645|consensus

Probab=98.04  E-value=5.2e-06  Score=63.18  Aligned_cols=56  Identities=30%  Similarity=0.720  Sum_probs=42.4

Q ss_pred             CCcccccccchhhhc-----eecCCCCcccHhhHHHHhh--cCCCCCCCCCCCCCCCCCccchH
Q psy10659         20 NDLLCPICFELIREA-----HITRCGHTFCFSCISKCVE--LQIKCPKCSASLPDMNSVFPNFL   76 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~--~~~~CP~C~~~~~~~~~~~~~~~   76 (140)
                      ...+||||++.+.-|     +.+.|||.|-..||+.|+-  ....||.|......+. +++-+.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~-i~~e~a   65 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ-IRPEYA   65 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH-HHHHHH
Confidence            457899999999876     3468999999999999995  2367999976554444 444433

>KOG0828|consensus

Probab=97.98  E-value=3.2e-06  Score=65.78  Aligned_cols=50  Identities=28%  Similarity=0.636  Sum_probs=39.9

Q ss_pred             CCCCcccccccchhhh-----------------ceecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIRE-----------------AHITRCGHTFCFSCISKCVE-LQIKCPKCSASLPD   67 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~-----------------p~~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~   67 (140)
                      .+....|+||.....-                 -+.+||.|.|+..|+.+|.. .+..||+||.++..
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4567789999986631                 13469999999999999998 45689999988753

>KOG1039|consensus

Probab=97.93  E-value=5.5e-06  Score=62.58  Aligned_cols=50  Identities=32%  Similarity=0.761  Sum_probs=40.4

Q ss_pred             CCCcccccccchhhhce-----e---cCCCCcccHhhHHHHhh--c-----CCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAH-----I---TRCGHTFCFSCISKCVE--L-----QIKCPKCSASLPDM   68 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~-----~---~~CgH~fC~~Ci~~~~~--~-----~~~CP~C~~~~~~~   68 (140)
                      ..+..|.||.+...+..     .   .+|.|.||..||..|..  .     ...||.||......
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v  223 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV  223 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence            56889999999887655     2   47999999999999984  3     47899999876553

>KOG3039|consensus

Probab=97.93  E-value=8e-06  Score=58.44  Aligned_cols=51  Identities=18%  Similarity=0.454  Sum_probs=45.3

Q ss_pred             CCCcccccccchhhhce----ecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAH----ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      +..+.||+|.+.+.+.+    .-+|||+||..|++.+++....||+|..++...+
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            35689999999998763    3399999999999999999999999999998877

>KOG4265|consensus

Probab=97.93  E-value=5.2e-06  Score=62.21  Aligned_cols=49  Identities=22%  Similarity=0.614  Sum_probs=43.5

Q ss_pred             CCCcccccccchhhhceecCCCC-cccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHITRCGH-TFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      +...+|-||+...++-+++||.| -.|..|.+...-.+..||+||.++..
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            44689999999999999999999 57999999887778899999998765

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

Probab=97.90  E-value=9.3e-06  Score=44.40  Aligned_cols=40  Identities=18%  Similarity=0.590  Sum_probs=31.3

Q ss_pred             ccccccc--hhhhceecCCC-----CcccHhhHHHHhhc--CCCCCCCC
Q psy10659         23 LCPICFE--LIREAHITRCG-----HTFCFSCISKCVEL--QIKCPKCS   62 (140)
Q Consensus        23 ~C~IC~~--~~~~p~~~~Cg-----H~fC~~Ci~~~~~~--~~~CP~C~   62 (140)
                      .|.||++  .-.++...||.     |.++..|+.+|+..  ...||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889997  33456677885     78999999999964  45899995

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

>KOG4692|consensus

Probab=97.89  E-value=7.6e-06  Score=61.41  Aligned_cols=50  Identities=30%  Similarity=0.718  Sum_probs=44.7

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      +..++..||||..-..+.+..||+|.-|+.||.+.+-+.+.|-.|+..+.
T Consensus       418 p~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             CCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            33678899999998888999999999999999999999999999987654

>KOG1785|consensus

Probab=97.87  E-value=4.2e-06  Score=63.64  Aligned_cols=49  Identities=33%  Similarity=0.781  Sum_probs=41.3

Q ss_pred             ccccccchhhhceecCCCCcccHhhHHHHhhc--CCCCCCCCCCCCCCCCC
Q psy10659         23 LCPICFELIREAHITRCGHTFCFSCISKCVEL--QIKCPKCSASLPDMNSV   71 (140)
Q Consensus        23 ~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~--~~~CP~C~~~~~~~~~~   71 (140)
                      .|.||-+--++-.+-||||..|..|+..|...  ..+||.||..+.....+
T Consensus       371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v  421 (563)
T KOG1785|consen  371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV  421 (563)
T ss_pred             HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence            68999998887767799999999999999953  57899999988776533

>KOG0827|consensus

Probab=97.82  E-value=7e-06  Score=62.15  Aligned_cols=46  Identities=33%  Similarity=0.746  Sum_probs=34.2

Q ss_pred             cccccccchhhhce----ecCCCCcccHhhHHHHhhc---CCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREAH----ITRCGHTFCFSCISKCVEL---QIKCPKCSASLPD   67 (140)
Q Consensus        22 ~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~---~~~CP~C~~~~~~   67 (140)
                      ..|.||.+.+-.-.    +-.|||+|+..|+..|+.+   ...||.|+-.+..
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~   57 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE   57 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence            57999966554332    2259999999999999984   3689999944443

>KOG4367|consensus

Probab=97.77  E-value=1.1e-05  Score=62.18  Aligned_cols=36  Identities=31%  Similarity=0.782  Sum_probs=32.9

Q ss_pred             CCCCcccccccchhhhceecCCCCcccHhhHHHHhh
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE   53 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~   53 (140)
                      +++++.||||...|.+|++++|||+.|..|....+.
T Consensus         1 meeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    1 MEEELKCPVCGSFYREPIILPCSHNLCQACARNILV   36 (699)
T ss_pred             CcccccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence            367899999999999999999999999999987764

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

Probab=97.74  E-value=1.4e-05  Score=66.66  Aligned_cols=49  Identities=20%  Similarity=0.584  Sum_probs=38.8

Q ss_pred             CCCCcccccccchhhh-----cee--cCCCCcccHhhHHHHhhc--CCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIRE-----AHI--TRCGHTFCFSCISKCVEL--QIKCPKCSASLP   66 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~-----p~~--~~CgH~fC~~Ci~~~~~~--~~~CP~C~~~~~   66 (140)
                      .+..-+|+||..++.-     |-.  ..|.|.||..|+..|++.  ..+||+||..++
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            4566799999998872     222  269999999999999984  578999997654

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=97.72  E-value=1.7e-05  Score=43.89  Aligned_cols=48  Identities=23%  Similarity=0.519  Sum_probs=37.4

Q ss_pred             CCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      ....|-.|...-...++++|||..|..|+.-  ++-..||.|.+++...+
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            4456777777777788999999999999763  34578999999887543

>KOG0825|consensus

Probab=97.71  E-value=9.1e-06  Score=66.40  Aligned_cols=51  Identities=18%  Similarity=0.472  Sum_probs=42.4

Q ss_pred             CCCcccccccchhhhcee---cCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHI---TRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      ...-.||+|+..+.+...   .+|+|.||..|+..|-+-..+||+|+..+....
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence            345688999988877643   379999999999999999999999999877643

>PF04641 Rtf2: Rtf2 RING-finger

Probab=97.71  E-value=3.9e-05  Score=56.24  Aligned_cols=53  Identities=17%  Similarity=0.469  Sum_probs=42.6

Q ss_pred             CCCCcccccccchhhhc---eec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREA---HIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSV   71 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~   71 (140)
                      ....+.|||....|..-   +.+ +|||+|+..++.+.- ....||+|+.++...+.+
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI  166 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDII  166 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEE
Confidence            45679999999999542   333 999999999999984 456799999999987733

>KOG2930|consensus

Probab=97.65  E-value=2.7e-05  Score=48.41  Aligned_cols=44  Identities=30%  Similarity=0.609  Sum_probs=34.9

Q ss_pred             Ccccccccchhhhc---------------ee--cCCCCcccHhhHHHHhhcCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREA---------------HI--TRCGHTFCFSCISKCVELQIKCPKCSAS   64 (140)
Q Consensus        21 ~~~C~IC~~~~~~p---------------~~--~~CgH~fC~~Ci~~~~~~~~~CP~C~~~   64 (140)
                      -..|.||+.-+-++               .+  -.|.|.|+..||.+|+++...||+|.+.
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            35799998855432               11  1599999999999999999999999875

>KOG0826|consensus

Probab=97.57  E-value=6.9e-05  Score=55.72  Aligned_cols=47  Identities=23%  Similarity=0.588  Sum_probs=40.9

Q ss_pred             CCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASL   65 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~   65 (140)
                      .+.-.||+|+..-.+|..+ .-|-+||..|+..+......||+-+.+.
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            4567999999999999766 6799999999999999999999876653

>KOG4739|consensus

Probab=97.55  E-value=0.00011  Score=52.53  Aligned_cols=45  Identities=29%  Similarity=0.770  Sum_probs=32.1

Q ss_pred             cccccccchhh-hce-ecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIR-EAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        22 ~~C~IC~~~~~-~p~-~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      ..|..|..--. +|. .+.|+|+||..|...-.  ...||.|++++...
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i   50 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRII   50 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCC--ccccccccceeeee
Confidence            56777777544 344 45999999999976322  23899999986653

>KOG4185|consensus

Probab=97.49  E-value=0.00012  Score=54.55  Aligned_cols=64  Identities=31%  Similarity=0.560  Sum_probs=48.5

Q ss_pred             Ccccccccchhh------hceecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCC----CCccchHHHHHHHHH
Q psy10659         21 DLLCPICFELIR------EAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMN----SVFPNFLLNELVQKH   84 (140)
Q Consensus        21 ~~~C~IC~~~~~------~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~----~~~~~~~~~~~~~~~   84 (140)
                      .+.|-||-+.|.      .|..+.|||+||..|+...+.. ...||.||.+.....    .+..|+.+...+...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~   77 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM   77 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence            467999999886      3667789999999999988864 456899999843221    456677777777665

>KOG1493|consensus

Probab=97.41  E-value=3.8e-05  Score=45.17  Aligned_cols=44  Identities=30%  Similarity=0.574  Sum_probs=33.8

Q ss_pred             ccccccchhhh------------ceec-CCCCcccHhhHHHHhhc---CCCCCCCCCCCC
Q psy10659         23 LCPICFELIRE------------AHIT-RCGHTFCFSCISKCVEL---QIKCPKCSASLP   66 (140)
Q Consensus        23 ~C~IC~~~~~~------------p~~~-~CgH~fC~~Ci~~~~~~---~~~CP~C~~~~~   66 (140)
                      .|.||+-.|..            |.++ .|.|.|+..||.+|+..   +..||+||....
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            78888877752            2222 69999999999999963   467999998654

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

Probab=97.36  E-value=0.00015  Score=39.18  Aligned_cols=42  Identities=31%  Similarity=0.796  Sum_probs=21.7

Q ss_pred             cccccchhhhc--eec--CCCCcccHhhHHHHhh-cCCCCCCCCCCC
Q psy10659         24 CPICFELIREA--HIT--RCGHTFCFSCISKCVE-LQIKCPKCSASL   65 (140)
Q Consensus        24 C~IC~~~~~~p--~~~--~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~   65 (140)
                      ||+|-+.+...  ...  +||+.+|..|+..... ....||.||++.
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            78888877322  223  6999999999999886 578999999864

>KOG1814|consensus

Probab=97.26  E-value=0.0003  Score=53.87  Aligned_cols=45  Identities=31%  Similarity=0.717  Sum_probs=35.1

Q ss_pred             CCCcccccccchhhhc---eecCCCCcccHhhHHHHhhc--------CCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREA---HITRCGHTFCFSCISKCVEL--------QIKCPKCSA   63 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~--------~~~CP~C~~   63 (140)
                      ...+.|.||.+.....   +.+||+|+||..|+..|...        ...||.++-
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            3467999999988653   35799999999999999852        256887654

>KOG1001|consensus

Probab=97.20  E-value=0.00018  Score=59.18  Aligned_cols=47  Identities=36%  Similarity=0.938  Sum_probs=39.9

Q ss_pred             cccccccchhhhceecCCCCcccHhhHHHHhhc--CCCCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREAHITRCGHTFCFSCISKCVEL--QIKCPKCSASLPDMN   69 (140)
Q Consensus        22 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~--~~~CP~C~~~~~~~~   69 (140)
                      ..|+||.+ ...++.++|||.||..|+...+..  ...||.|+..+....
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            89999999 777888999999999999999864  346999998766544

>KOG0298|consensus

Probab=97.20  E-value=0.00027  Score=60.78  Aligned_cols=92  Identities=21%  Similarity=0.457  Sum_probs=61.0

Q ss_pred             CCCCCcccccccchhh-hceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCCCChHHH
Q psy10659         17 PPDNDLLCPICFELIR-EAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQDSDGL   95 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (140)
                      .+.....|+||++.+. ...+..|||.+|..|...|+..+..||.|......-. ...... ...+...+....      
T Consensus      1149 ~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~~dfg-~kI~~v-~~~il~iK~k~~------ 1220 (1394)
T KOG0298|consen 1149 NLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKSIKGDFG-TKIDSV-VIAILYIKFKNE------ 1220 (1394)
T ss_pred             HhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhhhhhhhc-cCchhH-HHHHHHHhccCc------
Confidence            3456779999999999 4567799999999999999999999999985333211 111111 111111111111      


Q ss_pred             HHHhhhcCCCcccccHHHHHHHHHHHH
Q psy10659         96 RDFVASESQNLSLPDVNLMLEVLNQRK  122 (140)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~l~~~~~~~  122 (140)
                            ..+.+.+++++..+++++...
T Consensus      1221 ------qekvIvfsqws~~ldV~e~~~ 1241 (1394)
T KOG0298|consen 1221 ------QEKVIVFSQWSVVLDVKELRY 1241 (1394)
T ss_pred             ------CceEEEEEehHHHHHHHHHHH
Confidence                  135678888998888886544

>KOG3800|consensus

Probab=97.18  E-value=0.00035  Score=51.24  Aligned_cols=47  Identities=32%  Similarity=0.766  Sum_probs=36.7

Q ss_pred             ccccccc-hhhhce----ecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCC
Q psy10659         23 LCPICFE-LIREAH----ITRCGHTFCFSCISKCVE-LQIKCPKCSASLPDMN   69 (140)
Q Consensus        23 ~C~IC~~-~~~~p~----~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~   69 (140)
                      .||+|.. .+.+|-    +-+|||..|.+|+...+. +...||.|.+.+...+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n   54 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN   54 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence            5999987 445552    128999999999999886 5678999998776654

>KOG4275|consensus

Probab=97.12  E-value=5.4e-05  Score=55.52  Aligned_cols=41  Identities=32%  Similarity=0.836  Sum_probs=34.6

Q ss_pred             CcccccccchhhhceecCCCC-cccHhhHHHHhhcCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGH-TFCFSCISKCVELQIKCPKCSASL   65 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~CP~C~~~~   65 (140)
                      +..|.||.+...+-+.++||| +-|..|-...    ..||+||+.+
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence            678999999999999999999 6788886543    3799999754

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

Probab=97.02  E-value=0.00063  Score=44.42  Aligned_cols=50  Identities=26%  Similarity=0.602  Sum_probs=42.6

Q ss_pred             CCcccccccchhhhceecC----CCCcccHhhHHHHhhc---CCCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHITR----CGHTFCFSCISKCVEL---QIKCPKCSASLPDMN   69 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~----CgH~fC~~Ci~~~~~~---~~~CP~C~~~~~~~~   69 (140)
                      ...+|.||.+.-.++..+.    ||-..|..|....|+.   .+.||.|+.++....
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            4579999999999988773    9999999999888873   578999999887654

>KOG1571|consensus

Probab=96.98  E-value=0.00031  Score=52.95  Aligned_cols=47  Identities=26%  Similarity=0.602  Sum_probs=36.3

Q ss_pred             CCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ..-..-|.||.+...+.+.+||||.-|  |..-.. ....||+||..+..
T Consensus       302 ~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIRL  348 (355)
T ss_pred             cCCCCceEEecCCccceeeecCCcEEE--chHHHh-hCCCCchhHHHHHH
Confidence            345578999999999999999999977  766543 34559999986543

>KOG3002|consensus

Probab=96.91  E-value=0.00094  Score=49.88  Aligned_cols=65  Identities=22%  Similarity=0.509  Sum_probs=49.8

Q ss_pred             CCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         18 PDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ..+.+.||||.+.+..|+.- .=||.-|..|-.   +....||.|+.++..    .....+..+++.......
T Consensus        45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~----~R~~amEkV~e~~~vpC~  110 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIGN----IRCRAMEKVAEAVLVPCK  110 (299)
T ss_pred             chhhccCchhhccCcccceecCCCcEehhhhhh---hhcccCCcccccccc----HHHHHHHHHHHhceeccc
Confidence            45679999999999988653 679999999975   346789999988873    356777777766655433

>KOG1941|consensus

Probab=96.90  E-value=0.0003  Score=53.67  Aligned_cols=45  Identities=29%  Similarity=0.696  Sum_probs=36.4

Q ss_pred             CCcccccccchhhh-c---eecCCCCcccHhhHHHHhhc--CCCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE-A---HITRCGHTFCFSCISKCVEL--QIKCPKCSAS   64 (140)
Q Consensus        20 ~~~~C~IC~~~~~~-p---~~~~CgH~fC~~Ci~~~~~~--~~~CP~C~~~   64 (140)
                      -.+.|..|.+.+.- |   -.+||.|+|+..|+.+++..  ...||.||+-
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            45899999998853 2   24699999999999999974  4679999943

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

Probab=96.76  E-value=0.00037  Score=43.93  Aligned_cols=33  Identities=24%  Similarity=0.599  Sum_probs=27.3

Q ss_pred             CCCCCcccccccchhhhcee--cCCCCcccHhhHH
Q psy10659         17 PPDNDLLCPICFELIREAHI--TRCGHTFCFSCIS   49 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~--~~CgH~fC~~Ci~   49 (140)
                      .+++...|++|...+.+...  .||||.||..|+.
T Consensus        74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   74 VITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             EECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            35678889999999987643  4999999999975

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

>KOG2114|consensus

Probab=96.72  E-value=0.002  Score=53.50  Aligned_cols=41  Identities=27%  Similarity=0.680  Sum_probs=35.5

Q ss_pred             CCcccccccchhhhcee-cCCCCcccHhhHHHHhhcCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHI-TRCGHTFCFSCISKCVELQIKCPKCSA   63 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~CP~C~~   63 (140)
                      ....|..|...+.-|++ ..|||+||.+|+.   .+...||.|+.
T Consensus       839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~  880 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLP  880 (933)
T ss_pred             eeeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccch
Confidence            34699999999999965 5999999999998   56788999975

>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=96.55  E-value=0.014  Score=39.38  Aligned_cols=103  Identities=21%  Similarity=0.403  Sum_probs=60.4

Q ss_pred             CCcccccccchhhhceecC------------CCCcc-cHhhHHHHhhc-------------------------------C
Q psy10659         20 NDLLCPICFELIREAHITR------------CGHTF-CFSCISKCVEL-------------------------------Q   55 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~------------CgH~f-C~~Ci~~~~~~-------------------------------~   55 (140)
                      ++.+||||++...+.|.|-            |+.+| +..|+.++.+.                               .
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            4689999999999998773            44433 35788888641                               1


Q ss_pred             CCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCCC-------ChHHHHHHhhhcCCCcccccHHHHHHHHHHHHHHHHHH
Q psy10659         56 IKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQ-------DSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAE  128 (140)
Q Consensus        56 ~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~e~~  128 (140)
                      ..||+||-.+....   +-...+..+...+.....       ...++++....+.-......++...+   ..++++|++
T Consensus        81 L~CPLCRG~V~GWt---vve~AR~~LN~K~RsC~~e~C~F~GtY~eLrKHar~~HP~~rP~~vDP~rq---~~W~~le~~  154 (162)
T PF07800_consen   81 LACPLCRGEVKGWT---VVEPARRFLNAKKRSCSQESCSFSGTYSELRKHARSEHPSARPSEVDPQRQ---RDWERLERE  154 (162)
T ss_pred             ccCccccCceeceE---EchHHHHHhccCCccCcccccccccCHHHHHHHHHhhCCCCCCccCCHHHH---HHHHHHHHh
Confidence            36999998887754   112233332222222111       56667777765555555555554433   334555544

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.

>KOG2817|consensus

Probab=96.54  E-value=0.0018  Score=49.57  Aligned_cols=48  Identities=21%  Similarity=0.500  Sum_probs=37.3

Q ss_pred             CCcccccccchhh---hceecCCCCcccHhhHHHHhhcC---CCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIR---EAHITRCGHTFCFSCISKCVELQ---IKCPKCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~---~~CP~C~~~~~~   67 (140)
                      ..|.|||=.+.-.   .|+.+.|||+.+..-+.+..++.   ++||.|......
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~  386 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLA  386 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCH
Confidence            3578998766543   47889999999999999988753   689999765443

>KOG3970|consensus

Probab=96.52  E-value=0.0046  Score=44.04  Aligned_cols=51  Identities=22%  Similarity=0.474  Sum_probs=40.0

Q ss_pred             CCCcccccccchhhh--ceecCCCCcccHhhHHHHhhc--------CCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIRE--AHITRCGHTFCFSCISKCVEL--------QIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~--p~~~~CgH~fC~~Ci~~~~~~--------~~~CP~C~~~~~~~~   69 (140)
                      +-.-.|.+|...+..  .+.+.|-|.|+..|+.+|...        ...||.|...+....
T Consensus        48 DY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             CCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            344679999998864  467799999999999999852        467999998776543

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

Probab=96.47  E-value=0.0026  Score=48.02  Aligned_cols=48  Identities=25%  Similarity=0.639  Sum_probs=39.3

Q ss_pred             CCCCcccccccchhhhceecCCCCcccHhhHHHHh--hcCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCV--ELQIKCPKCSASL   65 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~--~~~~~CP~C~~~~   65 (140)
                      -++...|-||-.-+.--..+||+|..|+-|..+..  -....||+|+..-
T Consensus        58 DEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          58 DEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            35567899999988777788999999999987654  3678899999753

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.37  E-value=0.0052  Score=46.35  Aligned_cols=53  Identities=26%  Similarity=0.668  Sum_probs=39.2

Q ss_pred             CCCCCcccccccchhhhc--ee--cCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREA--HI--TRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMN   69 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p--~~--~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~   69 (140)
                      ..+++..||+|.+.+...  -.  -+||...|..|+....+. ...||.||+.....+
T Consensus        10 sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          10 SEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             cccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            344556699999977532  22  379999999998876653 578999999877655

>KOG4362|consensus

Probab=96.34  E-value=0.00052  Score=55.96  Aligned_cols=64  Identities=25%  Similarity=0.572  Sum_probs=47.1

Q ss_pred             CCCCcccccccchhhhceecCCCCcccHhhHHHHhhc---CCCCCCCCCCCCCCCCCccchHHHHHHH
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL---QIKCPKCSASLPDMNSVFPNFLLNELVQ   82 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~---~~~CP~C~~~~~~~~~~~~~~~~~~~~~   82 (140)
                      +--.++|+||...+..|+.+.|.|.||..|+...+..   ...||+|+..+.... .+.......+++
T Consensus        18 ~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s-~~Es~r~sq~vq   84 (684)
T KOG4362|consen   18 MQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS-LRESPRFSQLSK   84 (684)
T ss_pred             HhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh-ccccchHHHHHH
Confidence            3457899999999999999999999999999776653   457999997655443 333333444444

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

Probab=96.31  E-value=0.0038  Score=33.05  Aligned_cols=38  Identities=26%  Similarity=0.724  Sum_probs=23.1

Q ss_pred             cccccchhhhceec---CCCCcccHhhHHHHhhcCC--CCCCC
Q psy10659         24 CPICFELIREAHIT---RCGHTFCFSCISKCVELQI--KCPKC   61 (140)
Q Consensus        24 C~IC~~~~~~p~~~---~CgH~fC~~Ci~~~~~~~~--~CP~C   61 (140)
                      |.+|.++....+.=   .|+-.++..|+..|++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            67788877766553   4999999999999998654  79987

; PDB: 3NW0_A 2CT0_A.

>KOG1940|consensus

Probab=96.20  E-value=0.0032  Score=46.38  Aligned_cols=43  Identities=33%  Similarity=0.797  Sum_probs=36.5

Q ss_pred             Ccccccccchhh----hceecCCCCcccHhhHHHHhhcCCCCCCCCC
Q psy10659         21 DLLCPICFELIR----EAHITRCGHTFCFSCISKCVELQIKCPKCSA   63 (140)
Q Consensus        21 ~~~C~IC~~~~~----~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~   63 (140)
                      ...||||.+.+.    .|..++|||..+..|+.........||.|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            455999999775    3556799999999999999887799999987

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

Probab=96.20  E-value=0.0035  Score=45.03  Aligned_cols=48  Identities=27%  Similarity=0.632  Sum_probs=35.6

Q ss_pred             CCcccccccch-hhhc-ee-c--C-CCCcccHhhHHHHhhc-CCCCC--CCCCCCCC
Q psy10659         20 NDLLCPICFEL-IREA-HI-T--R-CGHTFCFSCISKCVEL-QIKCP--KCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~-~~~p-~~-~--~-CgH~fC~~Ci~~~~~~-~~~CP--~C~~~~~~   67 (140)
                      .+-.||||... +-+| +. +  | |-|..|.+|+.+.+.. ...||  .|++-+..
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK   65 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRK   65 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHH
Confidence            46799999873 3445 22 2  4 9999999999999875 46799  78875544

>PHA03096 p28-like protein; Provisional

Probab=95.78  E-value=0.0061  Score=45.26  Aligned_cols=42  Identities=24%  Similarity=0.460  Sum_probs=30.4

Q ss_pred             cccccccchhhhc--------eecCCCCcccHhhHHHHhhc---CCCCCCCCC
Q psy10659         22 LLCPICFELIREA--------HITRCGHTFCFSCISKCVEL---QIKCPKCSA   63 (140)
Q Consensus        22 ~~C~IC~~~~~~p--------~~~~CgH~fC~~Ci~~~~~~---~~~CP~C~~   63 (140)
                      -.|.||++.....        ....|.|.||..|+..|...   ...||.|+.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            6799999965432        12379999999999999863   345666654

>KOG3579|consensus

Probab=95.57  E-value=0.012  Score=43.39  Aligned_cols=38  Identities=32%  Similarity=0.960  Sum_probs=32.8

Q ss_pred             CCCCCcccccccchhhhceecCC----CCcccHhhHHHHhhc
Q psy10659         17 PPDNDLLCPICFELIREAHITRC----GHTFCFSCISKCVEL   54 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~C----gH~fC~~Ci~~~~~~   54 (140)
                      .....+.|.+|.+-+.+.....|    .|.||..|-.+.++.
T Consensus       264 A~~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~  305 (352)
T KOG3579|consen  264 APSAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ  305 (352)
T ss_pred             CCCCceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence            34566999999999999988776    899999999999874

>KOG1428|consensus

Probab=95.55  E-value=0.023  Score=50.51  Aligned_cols=51  Identities=29%  Similarity=0.681  Sum_probs=38.3

Q ss_pred             CCCCCcccccccchhh--hc-eecCCCCcccHhhHHHHhhcC----------CCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIR--EA-HITRCGHTFCFSCISKCVELQ----------IKCPKCSASLPD   67 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~--~p-~~~~CgH~fC~~Ci~~~~~~~----------~~CP~C~~~~~~   67 (140)
                      ..+.+..|-||+..--  .| +.+.|+|.|+..|....+++.          ..||.|..++..
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            4466789999998543  23 568999999999998877632          369999876544

>KOG3268|consensus

Probab=95.51  E-value=0.01  Score=40.79  Aligned_cols=32  Identities=25%  Similarity=0.598  Sum_probs=26.3

Q ss_pred             cCCCCcccHhhHHHHhhcC-----------CCCCCCCCCCCCC
Q psy10659         37 TRCGHTFCFSCISKCVELQ-----------IKCPKCSASLPDM   68 (140)
Q Consensus        37 ~~CgH~fC~~Ci~~~~~~~-----------~~CP~C~~~~~~~   68 (140)
                      ..||..|+.-|+..|+++-           ..||.|..++..+
T Consensus       188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            4799999999999999741           4699999887654

>KOG3161|consensus

Probab=95.43  E-value=0.0067  Score=49.27  Aligned_cols=38  Identities=39%  Similarity=0.847  Sum_probs=30.7

Q ss_pred             CCcccccccchhh----hceecCCCCcccHhhHHHHhhcCCCCC
Q psy10659         20 NDLLCPICFELIR----EAHITRCGHTFCFSCISKCVELQIKCP   59 (140)
Q Consensus        20 ~~~~C~IC~~~~~----~p~~~~CgH~fC~~Ci~~~~~~~~~CP   59 (140)
                      +.+.|+||+..|.    .|+.+.|||+.|..|++....  ..||
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp   51 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP   51 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence            3588999988885    478899999999999987654  4565

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

Probab=95.43  E-value=0.011  Score=32.34  Aligned_cols=42  Identities=36%  Similarity=0.764  Sum_probs=22.4

Q ss_pred             cccccccchhhhceec-CCCCcccHhhHHHHhh-----cCCCCCCCCCC
Q psy10659         22 LLCPICFELIREAHIT-RCGHTFCFSCISKCVE-----LQIKCPKCSAS   64 (140)
Q Consensus        22 ~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~-----~~~~CP~C~~~   64 (140)
                      +.|||....+..|+.. .|.|.-|.+= ..|+.     ..-.||.|+++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            7899999999999976 8999977653 33443     23579999863

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

>KOG3039|consensus

Probab=95.40  E-value=0.011  Score=42.75  Aligned_cols=37  Identities=19%  Similarity=0.158  Sum_probs=32.7

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhh
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE   53 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~   53 (140)
                      .+.+-.-|.+|+..+.+||+++=||.||..||.+++-
T Consensus        39 siK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~il   75 (303)
T KOG3039|consen   39 SIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYIL   75 (303)
T ss_pred             ccCCcceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence            4455667899999999999999999999999999873

>KOG2932|consensus

Probab=95.32  E-value=0.0071  Score=45.04  Aligned_cols=44  Identities=25%  Similarity=0.638  Sum_probs=29.6

Q ss_pred             cccccccchhhhc-eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREA-HITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        22 ~~C~IC~~~~~~p-~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      -.|.-|--.+..- ..++|.|+||.+|...  ...+.||.|...+..
T Consensus        91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vqr  135 (389)
T KOG2932|consen   91 HFCDRCDFPIAIYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQR  135 (389)
T ss_pred             EeecccCCcceeeecccccchhhhhhhhhc--CccccCcCcccHHHH
Confidence            3566665544332 3569999999999763  335789999766543

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.21  E-value=0.026  Score=38.18  Aligned_cols=48  Identities=17%  Similarity=0.334  Sum_probs=35.1

Q ss_pred             CCCcccccccchhhhceecCCCC-----cccHhhHHHHhhc--CCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHITRCGH-----TFCFSCISKCVEL--QIKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH-----~fC~~Ci~~~~~~--~~~CP~C~~~~~~   67 (140)
                      ..+..|-||++... +...||..     ..|.+|+.+|+..  ...|+.|+.++..
T Consensus         6 ~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          6 LMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            35679999998754 33446544     3489999999974  4679999987643

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

Probab=94.58  E-value=0.026  Score=30.36  Aligned_cols=38  Identities=32%  Similarity=0.648  Sum_probs=23.8

Q ss_pred             cccccchhhh--ceecCCCC-----cccHhhHHHHhh--cCCCCCCC
Q psy10659         24 CPICFELIRE--AHITRCGH-----TFCFSCISKCVE--LQIKCPKC   61 (140)
Q Consensus        24 C~IC~~~~~~--p~~~~CgH-----~fC~~Ci~~~~~--~~~~CP~C   61 (140)
                      |-||++.-.+  |.+.||+-     ..|..|+.+|+.  +...|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            6788886543  45666643     568999999997  45678877

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

Probab=94.38  E-value=0.012  Score=31.46  Aligned_cols=32  Identities=28%  Similarity=0.928  Sum_probs=22.9

Q ss_pred             ecCC-CCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         36 ITRC-GHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        36 ~~~C-gH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      .+.| .|-.|..|+...+..+..||+|+.++..
T Consensus        15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen   15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             EEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             eeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            4455 6889999999999999999999988754

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

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

Probab=94.26  E-value=0.026  Score=37.14  Aligned_cols=42  Identities=24%  Similarity=0.486  Sum_probs=31.0

Q ss_pred             Ccccccccchhhh--ce-ecCCC------CcccHhhHHHHhhcCCCCCCCC
Q psy10659         21 DLLCPICFELIRE--AH-ITRCG------HTFCFSCISKCVELQIKCPKCS   62 (140)
Q Consensus        21 ~~~C~IC~~~~~~--p~-~~~Cg------H~fC~~Ci~~~~~~~~~CP~C~   62 (140)
                      ..+|.||++.+.+  .+ .++||      |.||..|+.+|.+....=|.=|
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR   76 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNR   76 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence            6899999998877  43 34665      6899999999965555445444

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

>KOG3113|consensus

Probab=94.18  E-value=0.044  Score=39.81  Aligned_cols=53  Identities=17%  Similarity=0.393  Sum_probs=42.1

Q ss_pred             CCcccccccchhhhce----ecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccc
Q psy10659         20 NDLLCPICFELIREAH----ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPN   74 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~   74 (140)
                      ..+.|||-.-.|....    ..+|||+|-..-+.+.-  ...|++|+..+...+.+..|
T Consensus       110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~dvIvlN  166 (293)
T KOG3113|consen  110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDDVIVLN  166 (293)
T ss_pred             ceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCcccccCeEeeC
Confidence            4589999888887653    34899999999988754  67899999999988855555

>KOG1952|consensus

Probab=94.14  E-value=0.024  Score=47.47  Aligned_cols=46  Identities=30%  Similarity=0.704  Sum_probs=36.3

Q ss_pred             CCCcccccccchhh--hceec--CCCCcccHhhHHHHhhc-------CCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIR--EAHIT--RCGHTFCFSCISKCVEL-------QIKCPKCSAS   64 (140)
Q Consensus        19 ~~~~~C~IC~~~~~--~p~~~--~CgH~fC~~Ci~~~~~~-------~~~CP~C~~~   64 (140)
                      .+..+|.||.+.+.  .|+..  .|-|+|+..||..|.+.       .-.||.|...
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            45689999999875  45543  79999999999999863       2469999843

>PHA02862 5L protein; Provisional

Probab=94.10  E-value=0.038  Score=36.79  Aligned_cols=46  Identities=20%  Similarity=0.475  Sum_probs=34.0

Q ss_pred             cccccccchhhhceecCCCC-----cccHhhHHHHhhc--CCCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREAHITRCGH-----TFCFSCISKCVEL--QIKCPKCSASLPDM   68 (140)
Q Consensus        22 ~~C~IC~~~~~~p~~~~CgH-----~fC~~Ci~~~~~~--~~~CP~C~~~~~~~   68 (140)
                      ..|-||++.-.+. ..||..     -.|..|+.+|+..  ...||.|+.++..+
T Consensus         3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            4689999976544 356543     5689999999974  46799999876543

>KOG1812|consensus

Probab=94.08  E-value=0.046  Score=42.43  Aligned_cols=48  Identities=38%  Similarity=0.888  Sum_probs=32.6

Q ss_pred             CCcccccccchhhhc----eecCCCCcccHhhHHHHhhc------CCCCCC--CCCCCCC
Q psy10659         20 NDLLCPICFELIREA----HITRCGHTFCFSCISKCVEL------QIKCPK--CSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~------~~~CP~--C~~~~~~   67 (140)
                      ....|.||......+    ....|+|.||..|+.+++..      ...||.  |...++.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~  204 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTL  204 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCH
Confidence            367999999433322    24579999999999999862      356764  4444433

>KOG4445|consensus

Probab=94.06  E-value=0.01  Score=44.08  Aligned_cols=48  Identities=23%  Similarity=0.609  Sum_probs=36.7

Q ss_pred             CCcccccccchhhh-c--eecCCCCcccHhhHHHHhhc-----------------------CCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE-A--HITRCGHTFCFSCISKCVEL-----------------------QIKCPKCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~~-p--~~~~CgH~fC~~Ci~~~~~~-----------------------~~~CP~C~~~~~~   67 (140)
                      ..-.|.||+-=|.+ |  ..++|.|-|+..|+.+|+..                       ...||+||..+..
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            35689999987754 4  35699999999999988731                       1359999988765

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

Probab=93.50  E-value=0.056  Score=40.52  Aligned_cols=46  Identities=26%  Similarity=0.556  Sum_probs=35.6

Q ss_pred             CCcccccccchhh---hceecCCCCcccHhhHHHHhhc---CCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIR---EAHITRCGHTFCFSCISKCVEL---QIKCPKCSASL   65 (140)
Q Consensus        20 ~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~---~~~CP~C~~~~   65 (140)
                      ..+.||+=.+.-.   .|+.+.|||+.-...+....+.   .++||.|...-
T Consensus       335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~  386 (396)
T COG5109         335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS  386 (396)
T ss_pred             ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence            3578998666553   4688999999999999988764   37899996543

>KOG1100|consensus

Probab=93.05  E-value=0.039  Score=39.22  Aligned_cols=40  Identities=25%  Similarity=0.536  Sum_probs=31.1

Q ss_pred             cccccchhhhceecCCCC-cccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         24 CPICFELIREAHITRCGH-TFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        24 C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      |-.|...-..-..+||.| .+|..|-..    ...||+|+.+...
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcCCceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence            888988777766779999 889999543    4669999876544

>KOG1815|consensus

Probab=92.68  E-value=0.072  Score=42.11  Aligned_cols=36  Identities=31%  Similarity=0.647  Sum_probs=30.6

Q ss_pred             CCCcccccccchhhh-ceecCCCCcccHhhHHHHhhc
Q psy10659         19 DNDLLCPICFELIRE-AHITRCGHTFCFSCISKCVEL   54 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~-p~~~~CgH~fC~~Ci~~~~~~   54 (140)
                      .....|.||.+.+.. ...+.|||.||..|+..++..
T Consensus        68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~  104 (444)
T KOG1815|consen   68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGT  104 (444)
T ss_pred             CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhh
Confidence            456899999998886 556699999999999999863

>KOG2034|consensus

Probab=92.17  E-value=0.073  Score=44.89  Aligned_cols=36  Identities=22%  Similarity=0.431  Sum_probs=28.8

Q ss_pred             CCCCcccccccchh-hhcee-cCCCCcccHhhHHHHhh
Q psy10659         18 PDNDLLCPICFELI-REAHI-TRCGHTFCFSCISKCVE   53 (140)
Q Consensus        18 ~~~~~~C~IC~~~~-~~p~~-~~CgH~fC~~Ci~~~~~   53 (140)
                      ++....|.+|...+ ..|.. .+|||.|+.+|+.+...
T Consensus       814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            46678999999865 45654 59999999999987763

>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.13  E-value=0.18  Score=29.52  Aligned_cols=35  Identities=26%  Similarity=0.560  Sum_probs=26.6

Q ss_pred             CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccch
Q psy10659         38 RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNF   75 (140)
Q Consensus        38 ~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~   75 (140)
                      .-.|+||..|.+..+  ...||.|+-.+.... +++..
T Consensus        26 tfEcTFCadCae~~l--~g~CPnCGGelv~RP-~RPaa   60 (84)
T COG3813          26 TFECTFCADCAENRL--HGLCPNCGGELVARP-IRPAA   60 (84)
T ss_pred             EEeeehhHhHHHHhh--cCcCCCCCchhhcCc-CChHH
Confidence            456789999998765  678999998877655 55543

>KOG4718|consensus

Probab=91.61  E-value=0.11  Score=36.85  Aligned_cols=46  Identities=22%  Similarity=0.504  Sum_probs=38.6

Q ss_pred             CCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASL   65 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~   65 (140)
                      ..-.|.+|..+....+.- +||-.++..|+..++.....||.|+--.
T Consensus       180 nlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w  226 (235)
T KOG4718|consen  180 NLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW  226 (235)
T ss_pred             HHHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence            446899999988876654 8999999999999999999999997533

>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []

Probab=91.55  E-value=0.033  Score=41.50  Aligned_cols=46  Identities=22%  Similarity=0.386  Sum_probs=24.8

Q ss_pred             CCCcccccccchhhhceecC-----CCCcccHhhHHHHhhcCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHITR-----CGHTFCFSCISKCVELQIKCPKCSAS   64 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~-----CgH~fC~~Ci~~~~~~~~~CP~C~~~   64 (140)
                      ...-.||||.....-.++..     =.|.+|..|-.+|.-....||.|+..
T Consensus       170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~  220 (290)
T PF04216_consen  170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT  220 (290)
T ss_dssp             TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred             ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence            34579999999776544432     35789999999998888899999874

The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.

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

Probab=91.40  E-value=0.13  Score=39.47  Aligned_cols=31  Identities=26%  Similarity=0.791  Sum_probs=24.1

Q ss_pred             CCCcccHhhHHHHhhc-------------CCCCCCCCCCCCCCC
Q psy10659         39 CGHTFCFSCISKCVEL-------------QIKCPKCSASLPDMN   69 (140)
Q Consensus        39 CgH~fC~~Ci~~~~~~-------------~~~CP~C~~~~~~~~   69 (140)
                      |.-.+|.+|+-+|+..             +..||.||+.+.-.+
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD  354 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD  354 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence            5667799999999842             357999999887654

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

>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE

Probab=90.80  E-value=0.079  Score=39.83  Aligned_cols=45  Identities=22%  Similarity=0.478  Sum_probs=34.4

Q ss_pred             CCcccccccchhhhceec------CCCCcccHhhHHHHhhcCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHIT------RCGHTFCFSCISKCVELQIKCPKCSAS   64 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~------~CgH~fC~~Ci~~~~~~~~~CP~C~~~   64 (140)
                      ..-.||+|.....-.++.      .=.+.+|..|-.+|--....||.|+..
T Consensus       183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~  233 (305)
T TIGR01562       183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES  233 (305)
T ss_pred             CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence            356999999977544322      123678999999999888999999974

The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).

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

Probab=90.55  E-value=0.024  Score=33.05  Aligned_cols=41  Identities=27%  Similarity=0.662  Sum_probs=22.4

Q ss_pred             CcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      ++.||.|...+.-.-    ||.+|..|-..+ .....||.|..++.
T Consensus         1 e~~CP~C~~~L~~~~----~~~~C~~C~~~~-~~~a~CPdC~~~Le   41 (70)
T PF07191_consen    1 ENTCPKCQQELEWQG----GHYHCEACQKDY-KKEAFCPDCGQPLE   41 (70)
T ss_dssp             --B-SSS-SBEEEET----TEEEETTT--EE-EEEEE-TTT-SB-E
T ss_pred             CCcCCCCCCccEEeC----CEEECccccccc-eecccCCCcccHHH
Confidence            367999998754221    888888887653 34567999988764

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

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

Probab=90.49  E-value=0.13  Score=31.52  Aligned_cols=38  Identities=26%  Similarity=0.688  Sum_probs=30.1

Q ss_pred             CcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      .-.|.||......+     ||.||..|...    ...|.+|++.+..
T Consensus        44 ~~~C~~CK~~v~q~-----g~~YCq~CAYk----kGiCamCGKki~d   81 (90)
T PF10235_consen   44 SSKCKICKTKVHQP-----GAKYCQTCAYK----KGICAMCGKKILD   81 (90)
T ss_pred             CccccccccccccC-----CCccChhhhcc----cCcccccCCeecc
Confidence            45899998877765     88999999553    6789999998744

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

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=90.48  E-value=0.041  Score=24.99  Aligned_cols=11  Identities=27%  Similarity=0.703  Sum_probs=5.5

Q ss_pred             cCCCCCCCCCC
Q psy10659         54 LQIKCPKCSAS   64 (140)
Q Consensus        54 ~~~~CP~C~~~   64 (140)
                      ....||.|+.+
T Consensus        12 ~~~fC~~CG~~   22 (23)
T PF13240_consen   12 DAKFCPNCGTP   22 (23)
T ss_pred             cCcchhhhCCc
Confidence            34445555543

>KOG0825|consensus

Probab=90.08  E-value=0.18  Score=42.29  Aligned_cols=50  Identities=14%  Similarity=0.284  Sum_probs=36.3

Q ss_pred             CCCCcccccccchhhhce----ecC---CCCcccHhhHHHHhhc------CCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREAH----ITR---CGHTFCFSCISKCVEL------QIKCPKCSASLPD   67 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~----~~~---CgH~fC~~Ci~~~~~~------~~~CP~C~~~~~~   67 (140)
                      ..+...|++|...+.+|+    ..+   |+|.||..||..|..+      .-.|++|..-+..
T Consensus        93 ~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s  155 (1134)
T KOG0825|consen   93 TAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS  155 (1134)
T ss_pred             cccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence            345678888888888753    224   9999999999999863      2457777765544

>KOG2979|consensus

Probab=89.40  E-value=0.2  Score=36.58  Aligned_cols=44  Identities=25%  Similarity=0.408  Sum_probs=37.0

Q ss_pred             Ccccccccchhhhceec-CCCCcccHhhHHHHhhc--CCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHIT-RCGHTFCFSCISKCVEL--QIKCPKCSAS   64 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~--~~~CP~C~~~   64 (140)
                      .++|||-...+.+|+.. .|||+|=.+-|..++..  ...||+=+..
T Consensus       176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~  222 (262)
T KOG2979|consen  176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE  222 (262)
T ss_pred             cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence            57999999999999865 89999999999999975  5679976554

>KOG1812|consensus

Probab=89.02  E-value=0.18  Score=39.14  Aligned_cols=42  Identities=31%  Similarity=0.685  Sum_probs=31.3

Q ss_pred             Ccccccccchhhh-----ceecCCCCcccHhhHHHHhhcCCCCCCCC
Q psy10659         21 DLLCPICFELIRE-----AHITRCGHTFCFSCISKCVELQIKCPKCS   62 (140)
Q Consensus        21 ~~~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~   62 (140)
                      -..||.|...+..     .++-.|||-||+.|...|......|..|-
T Consensus       306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~  352 (384)
T KOG1812|consen  306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECC  352 (384)
T ss_pred             cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCcc
Confidence            4689999887642     23336999999999999987777665553

>KOG3899|consensus

Probab=88.67  E-value=0.26  Score=36.73  Aligned_cols=31  Identities=23%  Similarity=0.629  Sum_probs=24.8

Q ss_pred             CCCcccHhhHHHHhh-------------cCCCCCCCCCCCCCCC
Q psy10659         39 CGHTFCFSCISKCVE-------------LQIKCPKCSASLPDMN   69 (140)
Q Consensus        39 CgH~fC~~Ci~~~~~-------------~~~~CP~C~~~~~~~~   69 (140)
                      |...+|.+|+-+|+.             ++-.||.||+.+.-.+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d  368 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD  368 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence            677889999999884             2457999999887655

>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional

Probab=88.56  E-value=0.19  Score=37.87  Aligned_cols=44  Identities=20%  Similarity=0.529  Sum_probs=34.4

Q ss_pred             CCcccccccchhhhcee-c----CCCCcccHhhHHHHhhcCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHI-T----RCGHTFCFSCISKCVELQIKCPKCSA   63 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~-~----~CgH~fC~~Ci~~~~~~~~~CP~C~~   63 (140)
                      ..-.||+|.....-.++ .    .=.+.+|..|-.+|--....||.|+.
T Consensus       186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~  234 (309)
T PRK03564        186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ  234 (309)
T ss_pred             CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence            56899999997654432 1    23467899999999988899999996

>KOG2042|consensus

Probab=88.37  E-value=0.95  Score=38.96  Aligned_cols=72  Identities=17%  Similarity=0.110  Sum_probs=64.0

Q ss_pred             CCCCCcccccccchhhhceecC-CCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         17 PPDNDLLCPICFELIREAHITR-CGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~-CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      +..+++.=|+-...+.+||.+| -|++.++.=|.+++-...+=|.||.+++... +.+|..+...+..|.....
T Consensus       866 dvpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~d~-v~pn~eLK~kI~~~~~ek~  938 (943)
T KOG2042|consen  866 DVPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTEDM-VSPNEELKAKIRCWIKEKR  938 (943)
T ss_pred             cCchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCchhh-cCCCHHHHHHHHHHHHHhh
Confidence            5677888899999999999997 9999999999999998889999999999988 8999999998888876543

>KOG4642|consensus

Probab=87.08  E-value=1.1  Score=32.73  Aligned_cols=75  Identities=23%  Similarity=0.266  Sum_probs=62.8

Q ss_pred             cCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         14 QHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ...++.+.+.|.|-++++.+|+++|-|-++=..=|.+.+... ..=|+-|.+++... +.+|..+...|+.|.....
T Consensus       204 k~rEvpd~lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lte~q-~ipN~alkevIa~fl~~n~  279 (284)
T KOG4642|consen  204 KKREVPDYLCGKITLELMREPVITPSGITYDRADIEEHLQRVGHFDPVTRWPLTEYQ-LIPNLALKEVIAAFLKENE  279 (284)
T ss_pred             ccccccchhhhhhhHHhhcCCccCccccchhHHHHHHHHHHhccCCchhcccCCHHh-hccchHHHHHHHHHHHhcc
Confidence            334566788889999999999999999999999999998753 44578888888877 8999999999999887654

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

Probab=87.01  E-value=0.76  Score=27.34  Aligned_cols=48  Identities=21%  Similarity=0.559  Sum_probs=20.0

Q ss_pred             Ccccccccchhh-----hceec--CCCCcccHhhHHHHhh-cCCCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIR-----EAHIT--RCGHTFCFSCISKCVE-LQIKCPKCSASLPDM   68 (140)
Q Consensus        21 ~~~C~IC~~~~~-----~p~~~--~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~   68 (140)
                      ...|.||.+...     ++.+.  .|+--.|+.|.+--.+ +...||.|+......
T Consensus         9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~   64 (80)
T PF14569_consen    9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRH   64 (80)
T ss_dssp             S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----
T ss_pred             CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccc
Confidence            568999999774     23333  6898999999975444 668899999876653

>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=86.57  E-value=0.53  Score=25.77  Aligned_cols=25  Identities=32%  Similarity=0.844  Sum_probs=14.5

Q ss_pred             CCCCcccHhhHHHHhhcCCCCCCCC
Q psy10659         38 RCGHTFCFSCISKCVELQIKCPKCS   62 (140)
Q Consensus        38 ~CgH~fC~~Ci~~~~~~~~~CP~C~   62 (140)
                      .|++.||.+|=.-.-+.-..||.|.
T Consensus        26 ~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen   26 KCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             TTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CCCCccccCcChhhhccccCCcCCC
Confidence            6999999999553334556799884

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.

>PF14353 CpXC: CpXC protein

Probab=86.52  E-value=0.54  Score=30.60  Aligned_cols=47  Identities=17%  Similarity=0.227  Sum_probs=30.5

Q ss_pred             cccccccchhhhceecCCCCcccHhhHHHHhhcC---CCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKCSASLPDM   68 (140)
Q Consensus        22 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---~~CP~C~~~~~~~   68 (140)
                      ++||-|...+...+.+.-.-..=..=....+.+.   ..||.|+..+...
T Consensus         2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~   51 (128)
T PF14353_consen    2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLE   51 (128)
T ss_pred             cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecC
Confidence            6799998888766554433333344455555443   5799999987553

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=86.47  E-value=0.52  Score=26.08  Aligned_cols=31  Identities=23%  Similarity=0.649  Sum_probs=24.5

Q ss_pred             CCcccccccchh--hhceec--CCCCcccHhhHHH
Q psy10659         20 NDLLCPICFELI--REAHIT--RCGHTFCFSCISK   50 (140)
Q Consensus        20 ~~~~C~IC~~~~--~~p~~~--~CgH~fC~~Ci~~   50 (140)
                      ..-.|++|...|  .+.++.  .||-.+++.|+..
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            346899999999  455554  7999999999764

>KOG0309|consensus

Probab=86.33  E-value=0.41  Score=40.11  Aligned_cols=43  Identities=28%  Similarity=0.651  Sum_probs=31.0

Q ss_pred             Ccccccccchhhhc--eecCCCCcccHhhHHHHhhcCCCCCC-CCC
Q psy10659         21 DLLCPICFELIREA--HITRCGHTFCFSCISKCVELQIKCPK-CSA   63 (140)
Q Consensus        21 ~~~C~IC~~~~~~p--~~~~CgH~fC~~Ci~~~~~~~~~CP~-C~~   63 (140)
                      .+.|.||.-....-  +...|||+.+.+|...|++..-.||. |+.
T Consensus      1028 ~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd~CpsGCGC 1073 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGDVCPSGCGC 1073 (1081)
T ss_pred             eeeeeeEeeEeeccchhhccccccccHHHHHHHHhcCCcCCCCCCc
Confidence            45566666544433  23479999999999999998888883 443

>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=86.33  E-value=0.23  Score=23.22  Aligned_cols=8  Identities=38%  Similarity=0.957  Sum_probs=3.8

Q ss_pred             cccccchh
Q psy10659         24 CPICFELI   31 (140)
Q Consensus        24 C~IC~~~~   31 (140)
                      ||-|....
T Consensus         3 CP~C~~~V   10 (26)
T PF10571_consen    3 CPECGAEV   10 (26)
T ss_pred             CCCCcCCc
Confidence            45454444

Several members are annotated as putative helicases.

>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=86.21  E-value=0.42  Score=26.27  Aligned_cols=37  Identities=24%  Similarity=0.622  Sum_probs=22.7

Q ss_pred             CCcccccccchhhhceecCCCCcccHhhHHHHhh--cCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVE--LQIKCPKCSA   63 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~--~~~~CP~C~~   63 (140)
                      +.+.||.|...+...       .+...|......  ....||+|..
T Consensus         1 ~~f~CP~C~~~~~~~-------~L~~H~~~~H~~~~~~v~CPiC~~   39 (54)
T PF05605_consen    1 DSFTCPYCGKGFSES-------SLVEHCEDEHRSESKNVVCPICSS   39 (54)
T ss_pred             CCcCCCCCCCccCHH-------HHHHHHHhHCcCCCCCccCCCchh
Confidence            468899999955432       234444444433  2467999975

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.

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

Probab=86.06  E-value=1.1  Score=24.99  Aligned_cols=44  Identities=25%  Similarity=0.521  Sum_probs=28.9

Q ss_pred             ccccccchhhhc----eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         23 LCPICFELIREA----HITRCGHTFCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        23 ~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      .|-.|-..+...    .+-+=..+||..|....+  ...||.|+-.+..+
T Consensus         7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R   54 (57)
T PF06906_consen    7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRR   54 (57)
T ss_pred             CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence            455565555322    222344589999999877  67899998766543

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

>KOG0827|consensus

Probab=85.81  E-value=0.09  Score=40.50  Aligned_cols=48  Identities=29%  Similarity=0.569  Sum_probs=40.1

Q ss_pred             cccccccchhhhc----eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREA----HITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        22 ~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      -.|.||...++.-    -.+.|||.+...|+..|+.....||.|+..+....
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~  248 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNG  248 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence            4688999888754    24589999999999999999999999998876644

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=82.90  E-value=0.22  Score=23.16  Aligned_cols=9  Identities=44%  Similarity=1.069  Sum_probs=4.4

Q ss_pred             CCCCCCCCC
Q psy10659         56 IKCPKCSAS   64 (140)
Q Consensus        56 ~~CP~C~~~   64 (140)
                      ..||.|+.+
T Consensus        17 ~fC~~CG~~   25 (26)
T PF13248_consen   17 KFCPNCGAK   25 (26)
T ss_pred             ccChhhCCC
Confidence            445555543

>KOG3053|consensus

Probab=82.73  E-value=0.71  Score=33.80  Aligned_cols=52  Identities=21%  Similarity=0.564  Sum_probs=36.9

Q ss_pred             CCCCCCCcccccccchhhhce----ecCC-----CCcccHhhHHHHhhc--------CCCCCCCCCCCC
Q psy10659         15 HSPPDNDLLCPICFELIREAH----ITRC-----GHTFCFSCISKCVEL--------QIKCPKCSASLP   66 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~----~~~C-----gH~fC~~Ci~~~~~~--------~~~CP~C~~~~~   66 (140)
                      .+..+.+-.|=||+..-++..    +-||     .|=.|..|+..|+..        ...||.|+....
T Consensus        14 ~~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   14 SDNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             CCccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            345667789999999776542    2255     345789999999952        246999987643

>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=82.34  E-value=0.32  Score=27.99  Aligned_cols=31  Identities=32%  Similarity=0.622  Sum_probs=15.8

Q ss_pred             CCcccccccchhhhc---e-ecCCCCcccHhhHHH
Q psy10659         20 NDLLCPICFELIREA---H-ITRCGHTFCFSCISK   50 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p---~-~~~CgH~fC~~Ci~~   50 (140)
                      +...|.+|...|.--   . --.||++||..|...
T Consensus         8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~   42 (69)
T PF01363_consen    8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ   42 (69)
T ss_dssp             G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred             CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence            457899999988421   1 137999999999754

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 FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=82.30  E-value=6.8  Score=28.81  Aligned_cols=21  Identities=29%  Similarity=0.915  Sum_probs=16.4

Q ss_pred             ccccccchhhhceecCCCCcccHhhHHHH
Q psy10659         23 LCPICFELIREAHITRCGHTFCFSCISKC   51 (140)
Q Consensus        23 ~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~   51 (140)
                      .|+||.        .+-.+.+|..|+..-
T Consensus         1 ~C~iC~--------~~~~~~~C~~C~~~~   21 (302)
T PF10186_consen    1 QCPICH--------NSRRRFYCANCVNNR   21 (302)
T ss_pred             CCCCCC--------CCCCCeECHHHHHHH
Confidence            499998        456677999998874

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

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

Probab=81.59  E-value=0.98  Score=38.31  Aligned_cols=51  Identities=18%  Similarity=0.354  Sum_probs=38.3

Q ss_pred             CCCcccccccchh--hhceecCCCCc-----ccHhhHHHHhh--cCCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELI--REAHITRCGHT-----FCFSCISKCVE--LQIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~--~~p~~~~CgH~-----fC~~Ci~~~~~--~~~~CP~C~~~~~~~~   69 (140)
                      +++..|.||+..-  .+|..-||..+     .|.+|+.+|+.  +..+|-.|..++.-++
T Consensus        10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            4668999998744  45666677653     68899999997  4578999998775543

>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]

Probab=81.53  E-value=2.6  Score=30.59  Aligned_cols=40  Identities=23%  Similarity=0.424  Sum_probs=33.5

Q ss_pred             Ccccccccchhhhcee-cCCCCcccHhhHHHHhh--cCCCCCC
Q psy10659         21 DLLCPICFELIREAHI-TRCGHTFCFSCISKCVE--LQIKCPK   60 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~--~~~~CP~   60 (140)
                      +.+|||-+..+.-|+. ..|.|.|=.+-|..++.  ....||.
T Consensus       189 ~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~~trvcp~  231 (275)
T COG5627         189 SNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVECTRVCPR  231 (275)
T ss_pred             cccCCcccCcchhHHHHhhhcccccHHHHHHHhcCCceeecch
Confidence            5799999998888875 58999999999999997  4466774

>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1

Probab=81.14  E-value=1.3  Score=25.32  Aligned_cols=32  Identities=31%  Similarity=0.539  Sum_probs=23.8

Q ss_pred             Ccccccccchhhhc----eecCCCCcccHhhHHHHh
Q psy10659         21 DLLCPICFELIREA----HITRCGHTFCFSCISKCV   52 (140)
Q Consensus        21 ~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~   52 (140)
                      ...|..|...|.--    .-..||.+||..|.....
T Consensus        10 ~~~C~~C~~~F~~~~rk~hCr~CG~i~C~~C~~~~~   45 (68)
T smart00064       10 VSNCMGCGKEFNLTKRRHHCRNCGRIFCSKCSSKKA   45 (68)
T ss_pred             CCcCcccCccccCcccccccccCCCCcChHHcCCee
Confidence            46899998877532    224799999999987654

The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the

>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length

Probab=80.25  E-value=1.1  Score=25.82  Aligned_cols=12  Identities=42%  Similarity=0.918  Sum_probs=8.8

Q ss_pred             cccHhhHHHHhh
Q psy10659         42 TFCFSCISKCVE   53 (140)
Q Consensus        42 ~fC~~Ci~~~~~   53 (140)
                      .||+.|+..|..
T Consensus        11 gFCRNCLskWy~   22 (68)
T PF06844_consen   11 GFCRNCLSKWYR   22 (68)
T ss_dssp             S--HHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            499999999985

The function of this family is unknown.; PDB: 2O35_A 3FYB_B.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	140
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		7e-05
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		1e-04
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		1e-04
2y43_A	99	Rad18 Ubiquitin Ligase Ring Domain Structure Length		1e-04
2eci_A	86	Solution Structure Of The Ring Domain Of The Human		3e-04
3hct_A	118	Crystal Structure Of Traf6 In Complex With Ubc13 In		5e-04
2ckl_B	165	Ring1b-Bmi1 E3 Catalytic Domain Structure Length =		6e-04

>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 19  DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
           +N+L C IC E   EA    C H+FC  CI++ ++ +I+CP C     D+ S   + +L+
Sbjct: 51  ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR---KDIKSKTYSLVLD 107
Query: 79  ELVQK 83
             + K
Sbjct: 108 NXINK 112

>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HETERODIMER Length = 149

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 19  DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
           +N+L C IC E   EA    C H+FC  CI++ ++ +I+CP C     D+ S   + +L+
Sbjct: 62  ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR---KDIKSKTYSLVLD 118
Query: 79  ELVQK 83
             + K
Sbjct: 119 NCINK 123

>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 19  DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
           +N+L C IC E   EA    C H+FC  CI++ ++ +I+CP C     D+ S   + +L+
Sbjct: 51  ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR---KDIKSKTYSLVLD 107
Query: 79  ELVQK 83
             + K
Sbjct: 108 NCINK 112

>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure Length = 99

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 42/84 (50%), Gaps = 14/84 (16%)
Query: 10 SLKRQHSPP--------DNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPK 60
          SL     PP        D+ L C ICFE    A I  +C H +C  CI K +  + +CP 
Sbjct: 3  SLAESRWPPGLAVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPT 62
Query: 61 CSASL--PDMNSVFPNFLLNELVQ 82
          C  ++  PD+ +   N +L+ELV+
Sbjct: 63 CCVTVTEPDLKN---NRILDELVK 83

>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf Receptor-Associated Factor 6 Protein Length = 86

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 38/67 (56%), Gaps = 3/67 (4%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV-ELQIKCPKCSASLPDMNSVFP-N 74
          P ++   CPIC   +REA  T CGH FC +CI K + +   KCP  +  L + N +FP N
Sbjct: 21 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE-NQLFPDN 79
Query: 75 FLLNELV 81
          F   E++
Sbjct: 80 FAKREIL 86

>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1 Space Group Length = 118

Iteration: 1
 Score = 40.0 bits (92), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 38/67 (56%), Gaps = 3/67 (4%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV-ELQIKCPKCSASLPDMNSVFP-N 74
          P ++   CPIC   +REA  T CGH FC +CI K + +   KCP  +  L + N +FP N
Sbjct: 14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE-NQLFPDN 72
Query: 75 FLLNELV 81
          F   E++
Sbjct: 73 FAKREIL 79

>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure Length = 165

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 20  NDLLCPICFELIREAHITR-CGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLL 77
           ++L+CPIC ++++    T+ C H FC  CI   +    K CP C   L    S+ P+   
Sbjct: 53  SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNF 112
Query: 78  NELVQK 83
           + L+ K
Sbjct: 113 DALISK 118

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	140
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-16
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	8e-15
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-14
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-13
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-13
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-13
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-13
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-13
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-13
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	7e-13
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	8e-13
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-12
1z6u_A	150	NP95-like ring finger protein isoform B; structura	5e-12
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-11
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-11
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-11
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	3e-11
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	9e-11
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	1e-10
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-10
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-10
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	3e-10
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	7e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-09
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-09
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	5e-09
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	5e-09
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-09
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	9e-09
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	9e-09
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-08
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	4e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-05
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	2e-07
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	4e-07
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	7e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-06
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-06
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-06
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	2e-06
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	4e-06
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	4e-06
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	5e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	3e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	5e-05
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	7e-05
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-04
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	4e-04
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	5e-04
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	6e-04

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

 Score = 67.9 bits (166), Expect = 5e-16
 Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 2/68 (2%)

Query: 19 DNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
          D+ L C ICFE    A  I +C H +C  CI K +  + +CP C  ++ + + +  N +L
Sbjct: 20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD-LKNNRIL 78

Query: 78 NELVQKHK 85
          +ELV+   
Sbjct: 79 DELVKSLN 86

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

 Score = 66.2 bits (161), Expect = 8e-15
 Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 2/67 (2%)

Query: 21  DLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLLN 78
           +L+CPIC ++++       C H FC  CI   +    K CP C   L    S+ P+   +
Sbjct: 54  ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 113

Query: 79  ELVQKHK 85
            L+ K  
Sbjct: 114 ALISKIY 120

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

 Score = 64.7 bits (157), Expect = 2e-14
 Identities = 25/108 (23%), Positives = 46/108 (42%), Gaps = 5/108 (4%)

Query: 2   SATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKC 61
              +     L   +   +N+L C IC E   EA    C H+FC  CI++ ++ +I+CP C
Sbjct: 45  KMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPIC 104

Query: 62  SASLPDMN-SVFPNFLLNELVQKHKIKSAQDSDGLRDFVASESQNLSL 108
              +     S+  +  +N++V     +  +     R  +  E +   L
Sbjct: 105 RKDIKSKTYSLVLDNCINKMVNNLSSEVKER----RIVLIRERKAKRL 148

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

 Score = 61.8 bits (150), Expect = 5e-14
 Identities = 13/54 (24%), Positives = 20/54 (37%)

Query: 14 QHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPD 67
            +P      C IC +         C H FC+ C+     L  +C  C   +P+
Sbjct: 8  NTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE 61

>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 = 60.6 bits (147), Expect = 1e-13
 Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 8/66 (12%)

Query: 18 PDNDLLCPICFELIRE-------AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
          P   + CPIC +   E          T CGH FC  C+   ++    CP C   + +   
Sbjct: 7  PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI-NHKR 65

Query: 71 VFPNFL 76
            P ++
Sbjct: 66 YHPIYI 71

>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 = 61.0 bits (148), Expect = 2e-13
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 4/69 (5%)

Query: 19 DNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVF---PN 74
          +  L+C +C     +A  I  C H+FC +CI + +E    CP C   +     +     +
Sbjct: 13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSD 72

Query: 75 FLLNELVQK 83
            L ++V K
Sbjct: 73 KTLQDIVYK 81

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

 Score = 60.2 bits (146), Expect = 2e-13
 Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 16 SPPDNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
          S     +LC IC   + +A  IT C HTFC SCI +      +CPKC+  +     
Sbjct: 10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP 65

>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 = 61.4 bits (149), Expect = 2e-13
 Identities = 25/73 (34%), Positives = 36/73 (49%), Gaps = 2/73 (2%)

Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV-ELQIKCPKCSASLPDMNSVFPN 74
           P ++   CPIC   +REA  T CGH FC +CI K + +   KCP  +  L   N +FP+
Sbjct: 13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL-LENQLFPD 71

Query: 75 FLLNELVQKHKIK 87
                +    +K
Sbjct: 72 NFAKREILSLMVK 84

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

 Score = 60.2 bits (146), Expect = 3e-13
 Identities = 17/68 (25%), Positives = 26/68 (38%), Gaps = 4/68 (5%)

Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVF-PNFLL 77
          +    C IC +  +   +T+C H FC SC  +      +C  C         +F P   L
Sbjct: 13 EIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQ---PTGGIFNPAKEL 69

Query: 78 NELVQKHK 85
             +QK  
Sbjct: 70 MAKLQKSG 77

>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 = 60.8 bits (147), Expect = 5e-13
 Identities = 17/79 (21%), Positives = 28/79 (35%), Gaps = 1/79 (1%)

Query: 6   TPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQI-KCPKCSAS 64
                 +   S  +    C  C EL+     T C H  C  C+ +    Q+  CP C   
Sbjct: 37  ASGSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYD 96

Query: 65  LPDMNSVFPNFLLNELVQK 83
           L    ++  N  L  ++ +
Sbjct: 97  LGRSYAMQVNQPLQTVLNQ 115

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

 Score = 58.6 bits (142), Expect = 7e-13
 Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 8/63 (12%)

Query: 21 DLLCPICFELIRE-------AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFP 73
           + CPIC +   E          T CGH FC  C+   ++    CP C   + +     P
Sbjct: 3  MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI-NHKRYHP 61

Query: 74 NFL 76
           ++
Sbjct: 62 IYI 64

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

 Score = 58.6 bits (142), Expect = 8e-13
 Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 2/58 (3%)

Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQI-KCPKCSASLPDMNSVF 72
             ++   C  C  ++     T CGH FC SC++  +     KC  C  S+   + VF
Sbjct: 10 KTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESI-VKDKVF 66

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

 Score = 58.7 bits (142), Expect = 1e-12
 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 19 DNDLLCPICFELIREAHI-TRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFL 76
               C IC E +R+A +   C    CFSCI + +  Q  +CP C A L  +  +     
Sbjct: 20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ-LRELVNCRW 78

Query: 77 LNELVQKHK 85
            E+ Q+  
Sbjct: 79 AEEVTQQLD 87

>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 = 58.5 bits (141), Expect = 5e-12
 Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 1/65 (1%)

Query: 20  NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLLN 78
              +C  C EL+ +   T C H  C  C+ +  + Q+  CP C   L     + PN +L 
Sbjct: 77  QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQ 136

Query: 79  ELVQK 83
            L+  
Sbjct: 137 TLLDL 141

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

 Score = 56.3 bits (136), Expect = 1e-11
 Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 3/77 (3%)

Query: 17 PPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIK--CPKCSASLPDMNSVFP 73
          P  ++LLC IC +++ +A +   CG+++C  CI   +    +  CP C  +    +++  
Sbjct: 9  PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIA 68

Query: 74 NFLLNELVQKHKIKSAQ 90
          N  L + V   K ++  
Sbjct: 69 NKFLRQAVNNFKNETGY 85

>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 = 56.1 bits (135), Expect = 2e-11
 Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 4/68 (5%)

Query: 19 DNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
          +  L C  C  ++RE   +  C H FC +C+S C  +   CP C      +  +  N  L
Sbjct: 20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDC--IGTGCPVCYTPAW-IQDLKINRQL 76

Query: 78 NELVQKHK 85
          + ++Q   
Sbjct: 77 DSMIQLCS 84

>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 = 55.7 bits (134), Expect = 3e-11
 Identities = 21/75 (28%), Positives = 29/75 (38%), Gaps = 7/75 (9%)

Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFP-- 73
          P  ++  C IC E++ E     C HT C  C    VE   + CP C   +          
Sbjct: 11 PSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRR 70

Query: 74 ----NFLLNELVQKH 84
              N  L  ++QKH
Sbjct: 71 NSLVNVELWTIIQKH 85

>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 = 56.3 bits (135), Expect = 3e-11
 Identities = 21/104 (20%), Positives = 37/104 (35%), Gaps = 18/104 (17%)

Query: 2   SATSTPSRSLKRQHS---------PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV 52
           +A+ TP  SL+               +   LC  C  ++R     +CGH +C  C++  +
Sbjct: 3   AASVTPPGSLELLQPGFSKTLLGTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASIL 62

Query: 53  -ELQIKCPKC--------SASLPDMNSVFPNFLLNELVQKHKIK 87
                 C  C          S+ + +S FP+      V+     
Sbjct: 63  SSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVESLPAV 106

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 112

 Score = 55.5 bits (134), Expect = 3e-11
 Identities = 26/77 (33%), Positives = 39/77 (50%), Gaps = 5/77 (6%)

Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKCSASLPDMNSVFPNFLL 77
           L CPIC ELI+E   T+C H FC  C+ K +  +    +CP C   +    S+  +   
Sbjct: 21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT-KRSLQESTRF 79

Query: 78 NELVQK-HKIKSAQDSD 93
          ++LV++  KI  A   D
Sbjct: 80 SQLVEELLKIICAFQLD 96

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

 Score = 53.4 bits (128), Expect = 9e-11
 Identities = 16/55 (29%), Positives = 22/55 (40%), Gaps = 7/55 (12%)

Query: 18 PDNDLLCPICFELIRE-------AHITRCGHTFCFSCISKCVELQIKCPKCSASL 65
          P   + CPIC +   E          T CGH FC  C+   ++    CP C   +
Sbjct: 12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 53.5 bits (129), Expect = 1e-10
 Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 7/69 (10%)

Query: 20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK------CPKCSASLPDMNSVFP 73
           ++ CPIC EL++E     C H+FC +CI+   E          CP C    P  N   P
Sbjct: 18 EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK-P 76

Query: 74 NFLLNELVQ 82
          N  +  +V+
Sbjct: 77 NLHVANIVE 85

>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 = 54.2 bits (130), Expect = 1e-10
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 1/73 (1%)

Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPN 74
          +     + C IC  ++ +   T C H FC  CI +C+++    CP C       +   P 
Sbjct: 18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPV 77

Query: 75 FLLNELVQKHKIK 87
               ++    +K
Sbjct: 78 KSFLNILNSLMVK 90

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

 Score = 55.1 bits (132), Expect = 2e-10
 Identities = 25/73 (34%), Positives = 35/73 (47%), Gaps = 2/73 (2%)

Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPN 74
           P ++   CPIC   +REA  T CGH FC +CI K +     KCP  +  L   N +FP+
Sbjct: 13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL-LENQLFPD 71

Query: 75 FLLNELVQKHKIK 87
                +    +K
Sbjct: 72 NFAKREILSLMVK 84

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

 Score = 51.9 bits (125), Expect = 3e-10
 Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 15/87 (17%)

Query: 3  ATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK----- 57
           +S  S +++        ++ CPIC EL+ E     CGH+ C +CI+   +  +      
Sbjct: 1  GSSGSSGNVQ-------EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGK 53

Query: 58 --CPKCSASLPDMNSVFPNFLLNELVQ 82
            CP C  S    + +  N  L  +V+
Sbjct: 54 SSCPVCGISYSFEH-LQANQHLANIVE 79

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 51.5 bits (124), Expect = 7e-10
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK------CPKCSASLPDMNSVFPN 74
          ++ CPIC EL+ +     CGH+FC +C++   +  +       CP C  S    N   PN
Sbjct: 19 EVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR-PN 77

Query: 75 FLLNELVQ 82
            +  +V+
Sbjct: 78 RHVANIVE 85

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 53.2 bits (127), Expect = 2e-09
 Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 1/72 (1%)

Query: 4   TSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCS 62
                   +          LC IC E  ++  I  CGH  C SC++   E + + CP C 
Sbjct: 315 IKVTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 374

Query: 63  ASLPDMNSVFPN 74
             +     +  +
Sbjct: 375 CEIKGTEPIVVD 386

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

 Score = 49.3 bits (118), Expect = 3e-09
 Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 10/70 (14%)

Query: 3  ATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCP 59
          A+      L+ +       ++CPIC +++++     CGH FC  CI++  E      KCP
Sbjct: 9  ASGQFVNKLQEE-------VICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCP 61

Query: 60 KCSASLPDMN 69
           C  S+    
Sbjct: 62 LCKTSVRKNA 71

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 48.5 bits (116), Expect = 5e-09
 Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKC 61
           +++CPIC +++++     CGH FC  CI++  E      KCP C
Sbjct: 19 EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 48.5 bits (116), Expect = 5e-09
 Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 3/45 (6%)

Query: 22 LLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLP 66
          L C  C    +   +  C HT C  C+       ++CP C A  P
Sbjct: 7  LRCQQCQAEAKCPKLLPCLHTLCSGCLEA---SGMQCPICQAPWP 48

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

 Score = 49.0 bits (117), Expect = 5e-09
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 3/53 (5%)

Query: 17 PPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQ--IKCPKCSASLP 66
          P  ++LLC IC +++ +A +   CG+++C  CI   +       CP C  +  
Sbjct: 11 PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV 63

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

 Score = 48.2 bits (115), Expect = 9e-09
 Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 1/52 (1%)

Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
           ++  C IC +  R   I  C H+FC  CI K  +    CP C   +   N 
Sbjct: 13 TDEEECCICMDG-RADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANE 63

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 47.7 bits (114), Expect = 9e-09
 Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 10/63 (15%)

Query: 2  SATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKC 58
          S +S    +L+        +  C +C E ++E  I  CGH FC +CI++  E       C
Sbjct: 3  SGSSGALENLQ-------VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPC 55

Query: 59 PKC 61
          P C
Sbjct: 56 PVC 58

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

 Score = 47.0 bits (112), Expect = 2e-08
 Identities = 17/70 (24%), Positives = 24/70 (34%), Gaps = 4/70 (5%)

Query: 18 PDNDLLCPICFELIRE-AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFL 76
                CPIC E     +    C H FC+ CI++ +     CP C      + SV     
Sbjct: 2  ATVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKV---PVESVVHTIE 58

Query: 77 LNELVQKHKI 86
           +       I
Sbjct: 59 SDSEFGDQLI 68

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

 Score = 47.0 bits (112), Expect = 3e-08
 Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 9/71 (12%)

Query: 22 LLCPICFELIREAHITR----CGHTFCFSCISKCVELQ---IKCPKCSA--SLPDMNSVF 72
          L CPIC E   E  +      CGHT C  C+ K +      ++CP CS    +  +  + 
Sbjct: 16 LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLT 75

Query: 73 PNFLLNELVQK 83
           N  + +    
Sbjct: 76 DNLTVLKSGPS 86

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2 Length = 78

 Score = 46.8 bits (112), Expect = 4e-08
 Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 3/74 (4%)

Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPNF 75
           P+    CPI  EL+++  I   G T+  S I K ++     CPK   +L     + PN+
Sbjct: 5  FPE-YFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG-LTPNY 62

Query: 76 LLNELVQKHKIKSA 89
          +L  L+      + 
Sbjct: 63 VLKSLIALWCESNG 76

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

 Score = 47.9 bits (113), Expect = 4e-08
 Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 7/58 (12%)

Query: 16 SPPDNDLLCPICFELIREAH-------ITRCGHTFCFSCISKCVELQIKCPKCSASLP 66
          +     + CPIC +   E          T CGH FC  C+   ++    CP C   + 
Sbjct: 2  AMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59

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

 Score = 39.4 bits (91), Expect = 6e-05
 Identities = 16/76 (21%), Positives = 26/76 (34%), Gaps = 8/76 (10%)

Query: 8   SRSLKRQHSPPDNDLLCPICFELIRE-------AHITRCGHTFCFSCISKCVELQIKCPK 60
           +             + CPIC +   E          T CGH FC  C+   ++    CP 
Sbjct: 59  NHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPT 118

Query: 61  CSASLPDMNSVFPNFL 76
           C   + +     P ++
Sbjct: 119 CRKKI-NHKRYHPIYI 133

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 94

 Score = 45.3 bits (107), Expect = 2e-07
 Identities = 17/82 (20%), Positives = 33/82 (40%), Gaps = 9/82 (10%)

Query: 21 DLLCPICFELIREAHI-TRCGHTFCFSCI------SKCVELQIKCPK--CSASLPDMNSV 71
             CPI  E +++      CGHT+    I       +  + +  CP+  CS +    + +
Sbjct: 7  GFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDL 66

Query: 72 FPNFLLNELVQKHKIKSAQDSD 93
            +  L   ++ H  K  + S+
Sbjct: 67 IQDEALRRAIENHNKKRHRHSE 88

>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 Length = 93

 Score = 44.4 bits (104), Expect = 4e-07
 Identities = 19/84 (22%), Positives = 30/84 (35%), Gaps = 9/84 (10%)

Query: 8  SRSLKRQHSPPDNDLLCPICFELIREAHITRC----GHTFCFSCISKCVELQ-----IKC 58
          S             L C IC E + + H  +C     H FCF C  + ++ Q     + C
Sbjct: 2  SSGSSGSPMANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYC 61

Query: 59 PKCSASLPDMNSVFPNFLLNELVQ 82
          P         ++V   F+  E+  
Sbjct: 62 PSGEKCPLVGSNVPWAFMQGEIAT 85

>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} Length = 267

 Score = 45.7 bits (107), Expect = 7e-07
 Identities = 18/78 (23%), Positives = 32/78 (41%), Gaps = 6/78 (7%)

Query: 21  DLLCPICFELIREAHI-TRCGHTFCFSCISKCVEL--QIKCPK--CSASLPDMNSVFPNF 75
           +L CPI  +      I  +C H F    I   ++      CP+  CS  +  M     + 
Sbjct: 181 ELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS-MRDFVRDP 239

Query: 76  LLNELVQKHKIKSAQDSD 93
           ++    +  K+K +Q+ D
Sbjct: 240 IMELRCKIAKMKESQEQD 257

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

 Score = 42.6 bits (100), Expect = 1e-06
 Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 3/63 (4%)

Query: 8  SRSLKRQHSPPDNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQ--IKCPKCSAS 64
          S     + + PD   +C IC  L+ +      CG      C++K  +     +CP C+  
Sbjct: 2  SSGSSGRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61

Query: 65 LPD 67
           P 
Sbjct: 62 WPH 64

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 41.9 bits (99), Expect = 1e-06
 Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 4/52 (7%)

Query: 18 PDNDLLCPICFELIRE----AHITRCGHTFCFSCISKCVELQIKCPKCSASL 65
                CPIC E I      AH+  CGH    +C  + ++   +CP CS   
Sbjct: 2  SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 42.7 bits (101), Expect = 2e-06
 Identities = 16/63 (25%), Positives = 23/63 (36%), Gaps = 3/63 (4%)

Query: 7  PSRSLKRQHSPPDNDLLCPIC---FELIREAHITRCGHTFCFSCISKCVELQIKCPKCSA 63
          P   +   H     ++ CPIC   +     A    C H F   C+S  ++    CP C  
Sbjct: 26 PEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRC 85

Query: 64 SLP 66
            P
Sbjct: 86 MFP 88

>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 Length = 281

 Score = 44.9 bits (106), Expect = 2e-06
 Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 3/73 (4%)

Query: 12  KRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKC-PKCSASLPDMNS 70
           +++   PD  L   I FEL+RE  IT  G T+    I + ++      P   + L     
Sbjct: 200 RKKRDIPD-YLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPL-TQEQ 257

Query: 71  VFPNFLLNELVQK 83
           + PN  + E++  
Sbjct: 258 LIPNLAMKEVIDA 270

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus} Length = 85

 Score = 41.6 bits (98), Expect = 4e-06
 Identities = 13/66 (19%), Positives = 22/66 (33%), Gaps = 2/66 (3%)

Query: 18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
          PD +   P+   L+ +      G     S I + +      P     L   + + P   L
Sbjct: 12 PD-EFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLT-ESMLEPVPEL 69

Query: 78 NELVQK 83
           E +Q 
Sbjct: 70 KEQIQA 75

>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 Length = 100

 Score = 42.0 bits (99), Expect = 4e-06
 Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 2/67 (2%)

Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFL 76
           PD +   P+   L+ +      G     S I + +      P    +L   + + P   
Sbjct: 26 APD-EFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTL-TESMLEPVPE 83

Query: 77 LNELVQK 83
          L E +Q 
Sbjct: 84 LKEQIQA 90

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

 Score = 41.4 bits (97), Expect = 5e-06
 Identities = 17/87 (19%), Positives = 30/87 (34%), Gaps = 16/87 (18%)

Query: 24 CPICFELIREAHITR---CGHTFCFSC--------ISKCVELQIKCP--KCSASLPDMNS 70
          C +C        +T    C   FC  C        I + +E  I CP   C        +
Sbjct: 8  CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN 67

Query: 71 VFPNFLLNELVQKH---KIKSAQDSDG 94
               +  E++Q++   + + +  S G
Sbjct: 68 EIECMVAAEIMQRYKKLQFERSGPSSG 94

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

 Score = 40.2 bits (93), Expect = 2e-05
 Identities = 15/79 (18%), Positives = 24/79 (30%), Gaps = 25/79 (31%)

Query: 8  SRSLKRQHSPPDNDLLCPICFELIREA------------------HITRCGHTFCFSCIS 49
           +  +     P+ D  C IC E +  A                   +T+C H F   C+ 
Sbjct: 14 RKYTEELKVAPEED--CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLL 71

Query: 50 KCVELQ-----IKCPKCSA 63
                     ++CP C  
Sbjct: 72 AMYCNGNKDGSLQCPSCKT 90

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

 Score = 38.8 bits (90), Expect = 3e-05
 Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 6/52 (11%)

Query: 20 NDLLCPICFELI-----REAHITRCGHTFCFSCISKCVEL-QIKCPKCSASL 65
          +D  CP C          +  +  CGHT C SC+          CP+C   L
Sbjct: 2  DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

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

 Score = 38.5 bits (89), Expect = 5e-05
 Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 5/65 (7%)

Query: 13 RQHSPPDNDLLCPICFELIREAHIT----RCGHTFCFSCISKCV-ELQIKCPKCSASLPD 67
          R     ++ + CP+C E +    I      CG+  C  C  +   +    CP C    P+
Sbjct: 3  RSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE 62

Query: 68 MNSVF 72
            +V+
Sbjct: 63 DPAVY 67

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A Length = 968

 Score = 40.5 bits (94), Expect = 7e-05
 Identities = 11/64 (17%), Positives = 22/64 (34%), Gaps = 2/64 (3%)

Query: 21  DLLCPICFELIREAHITRC-GHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
           + L P+ + ++++  I          S I   +      P     L  +  V PN  L +
Sbjct: 891 EFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPL-KLEDVTPNEELRQ 949

Query: 80  LVQK 83
            +  
Sbjct: 950 KILC 953

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

 Score = 37.4 bits (87), Expect = 1e-04
 Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 19 DNDLLCPIC---FELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
           + L CP+C   + L        C H F  SCI   +E    CP C  SL   N+
Sbjct: 13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT 67

>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 Length = 98

 Score = 36.3 bits (84), Expect = 4e-04
 Identities = 19/81 (23%), Positives = 32/81 (39%), Gaps = 7/81 (8%)

Query: 17 PPDNDLLCPICFELIREAHITRCGH-TFCFSCISKCVELQIKCPKCSASLPDMNSVFPNF 75
            D + L PI   L+ +  +      T   S I++ +      P   + L  M+ + PN 
Sbjct: 19 ACD-EFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLT-MDQIRPNT 76

Query: 76 LLNELVQ----KHKIKSAQDS 92
           L E +Q    + K +S   S
Sbjct: 77 ELKEKIQRWLAERKQQSGPSS 97

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

 Score = 35.5 bits (82), Expect = 5e-04
 Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 19 DNDLLCPIC---FELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
          +   LC +C   F+   E  I  C H F   C+ K +E++  CP C+  +  +  
Sbjct: 13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ 67

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

 Score = 35.6 bits (82), Expect = 6e-04
 Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 4/45 (8%)

Query: 21 DLLCPICFELIREAHITR----CGHTFCFSCISKCVELQIKCPKC 61
             C  C    ++         C H+F   C+S  V+   +CP C
Sbjct: 26 MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLC 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	140
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.82
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.82
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.8
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.8
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.8
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.77
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.76
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.75
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.75
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.74
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.74
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.73
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.73
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.73
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.72
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.72
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.72
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.71
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.71
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.71
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.71
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.71
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.71
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.71
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.7
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.69
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.68
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.67
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.67
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.67
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.66
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.64
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.64
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.62
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.62
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.62
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.6
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.6
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.6
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.59
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.59
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.57
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.57
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.57
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.57
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.57
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.56
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.54
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.53
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.53
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.51
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.5
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.46
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.43
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.42
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.41
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.37
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.36
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.34
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.33
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.32
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.24
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.22
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.22
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.22
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.19
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	99.13
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.05
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.64
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.58
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.49
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	98.31
3nw0_A	238	Non-structural maintenance of chromosomes element	97.67
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.59
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	96.04
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	96.0
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	95.78
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.38
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	92.36
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	91.43
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	89.53
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	89.0
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	88.87
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	88.81
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	87.61
1weu_A	91	Inhibitor of growth family, member 4; structural g	87.37
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	87.27
1z60_A	59	TFIIH basal transcription factor complex P44 subun	87.24
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	87.11
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	87.09
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	86.9
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	86.73
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	86.51
2fiy_A	309	Protein FDHE homolog; FDHE protein, structural gen	86.02
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	85.9
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	85.47
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	84.91
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	84.14
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	83.99
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	83.0
1wg2_A	64	Zinc finger (AN1-like) family protein; riken struc	82.97
1dvp_A	220	HRS, hepatocyte growth factor-regulated tyrosine k	82.87
3zyq_A	226	Hepatocyte growth factor-regulated tyrosine kinas	82.7
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	82.57
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	81.56
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	80.61
2d8v_A	67	Zinc finger FYVE domain-containing protein 19; zfy	80.08

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

Probab=99.82  E-value=1.1e-20  Score=113.24  Aligned_cols=73  Identities=26%  Similarity=0.479  Sum_probs=65.6

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      .++.+++.|+||++.+.+|+.++|||+||..||..|+.. ...||.|+..+...+ +.+|..+.++++.+....+
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~-l~~n~~l~~~i~~~~~~~~   76 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG-LTPNYVLKSLIALWCESNG   76 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC-CEECTTTHHHHHHHHHHSC
T ss_pred             cCCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhh-CccCHHHHHHHHHHHHHcC
Confidence            356789999999999999999999999999999999986 788999999998776 8899999999999877543

>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=99.82  E-value=2.7e-20  Score=116.17  Aligned_cols=74  Identities=19%  Similarity=0.152  Sum_probs=67.6

Q ss_pred             CCCCCCCcccccccchhhhceecCCC-CcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         15 HSPPDNDLLCPICFELIREAHITRCG-HTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~~Cg-H~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ...+.+++.||||+++|.+||+++|| |+||..||..|+.....||+|+.++...+ +.+|..+.++++.|.....
T Consensus        16 ~~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~-L~pn~~Lk~~I~~~~~~~~   90 (98)
T 1wgm_A           16 YADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ-IRPNTELKEKIQRWLAERK   90 (98)
T ss_dssp             CCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT-SEECHHHHHHHHHHHHHST
T ss_pred             hhcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhh-ceEcHHHHHHHHHHHHHcc
Confidence            34567899999999999999999999 99999999999998889999999998876 9999999999999987654

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

Probab=99.80  E-value=5e-20  Score=113.68  Aligned_cols=75  Identities=25%  Similarity=0.639  Sum_probs=64.8

Q ss_pred             cCCCCCCCcccccccchhhhceecC-CCCcccHhhHHHHhhc--CCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcC
Q psy10659         14 QHSPPDNDLLCPICFELIREAHITR-CGHTFCFSCISKCVEL--QIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKS   88 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~~~-CgH~fC~~Ci~~~~~~--~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (140)
                      ....+.+++.|+||++.|.+|+.++ |||+||..||..|+..  ...||.||..+...+.+.+|..+.++++.+....
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~~~~   83 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNFKNET   83 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHHHHHH
T ss_pred             ccccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHHHHHH
Confidence            3456778999999999999999999 9999999999999964  3689999999855555899999999999987653

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

Probab=99.80  E-value=7.7e-20  Score=114.52  Aligned_cols=73  Identities=16%  Similarity=0.086  Sum_probs=67.0

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ..+.+.+.||||+++|.+||+++|||+||..||..|+.....||.|+.++...+ +.+|..+.++++.|.....
T Consensus        24 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~-L~pn~~Lk~~I~~~~~~~~   96 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESM-LEPVPELKEQIQAWMREKQ   96 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTS-SEECHHHHHHHHHHHHTTT
T ss_pred             ccCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhh-ceECHHHHHHHHHHHHHhh
Confidence            356788999999999999999999999999999999998899999999998876 9999999999999987654

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

Probab=99.80  E-value=5.3e-20  Score=112.12  Aligned_cols=71  Identities=17%  Similarity=0.078  Sum_probs=65.1

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhc
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIK   87 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (140)
                      ..+.+.+.||||+++|.+||+++|||+||..||..|+.....||.|+.++...+ +.+|..+.++++.|...
T Consensus         9 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~-l~pn~~L~~~i~~~~~~   79 (85)
T 2kr4_A            9 SDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESM-LEPVPELKEQIQAWMRE   79 (85)
T ss_dssp             TTCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGG-CEECHHHHHHHHHHHHH
T ss_pred             hcCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHh-cchHHHHHHHHHHHHHH
Confidence            356789999999999999999999999999999999998899999999998776 99999999999998654

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

Probab=99.77  E-value=9.7e-20  Score=113.88  Aligned_cols=72  Identities=32%  Similarity=0.697  Sum_probs=64.0

Q ss_pred             CCCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         17 PPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      .+.+.+.|+||++.+.+|+.+ +|||+||..|+..|+.....||.||..+...+ +.+|..+.++++.++....
T Consensus        18 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~-l~~n~~l~~~i~~~~~~~~   90 (99)
T 2y43_A           18 TIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD-LKNNRILDELVKSLNFARN   90 (99)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG-CEECHHHHHHHHHHHHHHH
T ss_pred             hCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhh-CCcCHHHHHHHHHHHHHHH
Confidence            445679999999999999988 99999999999999998899999999988766 8899999999998876543

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

Probab=99.76  E-value=2e-19  Score=116.80  Aligned_cols=71  Identities=23%  Similarity=0.456  Sum_probs=62.1

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCCCCccchHHHHHHHHHHhc
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFLLNELVQKHKIK   87 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (140)
                      .+.+.+.|+||++.+.+|+.++|||+||..||..|+... ..||.||..+.....+.+|..+.++++.+...
T Consensus        48 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p~  119 (124)
T 3fl2_A           48 KVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFPG  119 (124)
T ss_dssp             HHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHSTT
T ss_pred             hCccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHccc
Confidence            445678999999999999999999999999999999854 58999999998844589999999999887654

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

Probab=99.75  E-value=2.3e-18  Score=101.74  Aligned_cols=68  Identities=28%  Similarity=0.659  Sum_probs=54.9

Q ss_pred             CCCCCCCChhhhhcCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhh---cCCCCCCCCCCCCCCC
Q psy10659          1 MSATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE---LQIKCPKCSASLPDMN   69 (140)
Q Consensus         1 ms~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~---~~~~CP~C~~~~~~~~   69 (140)
                      ||+++++.. .......+.+.+.|+||++.+.+|+.++|||+||..|+..|+.   ....||+||..+...+
T Consensus         1 ~Ss~~~~~~-~~~~~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A            1 GSSGSSGMA-SGQFVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCCCCC-CCCCCCCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CCCcccccc-cHHHHHhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            455544432 3345567788999999999999999999999999999999996   4568999999887654

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

Probab=99.75  E-value=1.4e-19  Score=113.43  Aligned_cols=75  Identities=27%  Similarity=0.531  Sum_probs=63.8

Q ss_pred             cCCCCCCCcccccccchhhhcee-cCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         14 QHSPPDNDLLCPICFELIREAHI-TRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ....+.+++.|+||++.+.+|+. ++|||+||..||..|+... ..||.||.++...+ +..+..+..+++.+.....
T Consensus        15 ~~~~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~-l~~~~~~~~i~~~~~~l~~   91 (100)
T 3lrq_A           15 SVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE-LVNCRWAEEVTQQLDTLQL   91 (100)
T ss_dssp             HHHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG-CEECTTHHHHHHHHHHHCC
T ss_pred             ccccCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH-hHhhHHHHHHHHHHHHHHH
Confidence            33456678999999999999999 8999999999999999876 79999999998766 8888888888777665543

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

Probab=99.74  E-value=3e-19  Score=108.27  Aligned_cols=65  Identities=32%  Similarity=0.711  Sum_probs=55.5

Q ss_pred             cCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc------CCCCCCCCCCCCCCCCCccchHHHH
Q psy10659         14 QHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL------QIKCPKCSASLPDMNSVFPNFLLNE   79 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~------~~~CP~C~~~~~~~~~~~~~~~~~~   79 (140)
                      ....+.+.+.|+||++.+.+|+.++|||+||..|+..|+..      ...||.||..+...+ +.+|..+.+
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~-~~~n~~l~~   82 (85)
T 2ecw_A           12 VLEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN-LKPNLHVAN   82 (85)
T ss_dssp             CCCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC-CEECSCCCS
T ss_pred             HHHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh-CCcCHHHHH
Confidence            34567788999999999999999999999999999999986      678999999988765 777765543

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

Probab=99.74  E-value=2e-18  Score=102.41  Aligned_cols=60  Identities=25%  Similarity=0.659  Sum_probs=50.8

Q ss_pred             CCCCCCCcccccccchhhhceecC-CCCcccHhhHHHHhhcC--CCCCCCCCCCCCCCCCccc
Q psy10659         15 HSPPDNDLLCPICFELIREAHITR-CGHTFCFSCISKCVELQ--IKCPKCSASLPDMNSVFPN   74 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~~-CgH~fC~~Ci~~~~~~~--~~CP~C~~~~~~~~~~~~~   74 (140)
                      ...+.+++.|+||++.+.+|+.++ |||+||..||..|+...  ..||+||..+...+.+..|
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n   71 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSGP   71 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTTTTCT
T ss_pred             cccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccccccC
Confidence            446678899999999999999999 99999999999999854  7899999987665544444

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

Probab=99.73  E-value=1.8e-18  Score=104.26  Aligned_cols=60  Identities=23%  Similarity=0.443  Sum_probs=51.7

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHH
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL   77 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~   77 (140)
                      .+..+.+.|+||++.+.+|+.++|||+||..|+..|+.....||+||..+. .. +.+|..+
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~-~~-~~~~~~l   69 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG-GI-FNPAKEL   69 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC-SC-CEECHHH
T ss_pred             ccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc-cc-CCcHHHH
Confidence            455678999999999999999999999999999999998899999999886 23 5666444

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

Probab=99.73  E-value=4.3e-19  Score=107.58  Aligned_cols=64  Identities=30%  Similarity=0.691  Sum_probs=55.1

Q ss_pred             cCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc------CCCCCCCCCCCCCCCCCccchHHH
Q psy10659         14 QHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL------QIKCPKCSASLPDMNSVFPNFLLN   78 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~------~~~CP~C~~~~~~~~~~~~~~~~~   78 (140)
                      ....+.+.+.|+||++.+.+|+.++|||+||..|+..|+..      ...||.||..+...+ +.+|..+.
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~-~~~n~~l~   81 (85)
T 2ecv_A           12 ILVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN-IRPNRHVA   81 (85)
T ss_dssp             CCCCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS-CCCSCCCC
T ss_pred             HHHHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh-cCccHHHH
Confidence            34567788999999999999999999999999999999976      788999999988765 77776543

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

Probab=99.73  E-value=4.2e-18  Score=97.90  Aligned_cols=60  Identities=30%  Similarity=0.737  Sum_probs=48.8

Q ss_pred             CCCCCCCChhhhhcCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhh---cCCCCCCC
Q psy10659          1 MSATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE---LQIKCPKC   61 (140)
Q Consensus         1 ms~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~---~~~~CP~C   61 (140)
                      ||+.+.... .......+.+++.|+||++.+.+|+.++|||+||..||..|+.   ....||+|
T Consensus         1 ~s~~~~~~~-~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A            1 GSSGSSGMA-SGQFVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCSSSSCC-CCCCCCCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CCccccccc-hHHHHHhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            565554432 2334556788999999999999999999999999999999997   45689998

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

Probab=99.72  E-value=4e-18  Score=100.59  Aligned_cols=56  Identities=32%  Similarity=0.655  Sum_probs=50.7

Q ss_pred             cCCCCCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         14 QHSPPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      ....+++.+.|+||++.+.+|+.+ +|||+||..||..|+.....||+||..+...+
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             hHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            345677899999999999999987 99999999999999998899999999988766

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

Probab=99.72  E-value=2e-18  Score=117.14  Aligned_cols=73  Identities=27%  Similarity=0.672  Sum_probs=61.0

Q ss_pred             CCCCcccccccchhhhceec-CCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCCC
Q psy10659         18 PDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQ   90 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (140)
                      +.+.+.|+||++.+.+|+.+ +|||+||..||..|+.. ...||.||..+...+.+.+|..+..++..+......
T Consensus        51 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~~~~~  125 (165)
T 2ckl_B           51 LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPSRDE  125 (165)
T ss_dssp             CHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC-----
T ss_pred             CCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHcchhH
Confidence            34567999999999999987 99999999999999986 788999999997666688999999999998775544

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

Probab=99.72  E-value=1.7e-19  Score=108.22  Aligned_cols=62  Identities=31%  Similarity=0.671  Sum_probs=53.5

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc-------CCCCCCCCCCCCCCCCCccchHHH
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-------QIKCPKCSASLPDMNSVFPNFLLN   78 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-------~~~CP~C~~~~~~~~~~~~~~~~~   78 (140)
                      ..+.+.+.|+||++.+.+|+.++|||+||..|+..|+..       ...||.||..+...+ +.+|..+.
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~-l~~n~~l~   75 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH-LQANQHLA   75 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG-GGTCSSSC
T ss_pred             hhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh-CCcCHHHH
Confidence            456788999999999999999999999999999999975       578999999988765 66776544

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

Probab=99.71  E-value=5.7e-18  Score=104.91  Aligned_cols=71  Identities=24%  Similarity=0.537  Sum_probs=61.7

Q ss_pred             CCCCcccccccchhhhceecC-CCCcccHhhHHHHhhc------CCCCCC--CCCC-CCCCCCCccchHHHHHHHHHHhc
Q psy10659         18 PDNDLLCPICFELIREAHITR-CGHTFCFSCISKCVEL------QIKCPK--CSAS-LPDMNSVFPNFLLNELVQKHKIK   87 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~-CgH~fC~~Ci~~~~~~------~~~CP~--C~~~-~~~~~~~~~~~~~~~~~~~~~~~   87 (140)
                      ..+.+.||||+++|.+||+++ |||+||..||..|+..      ...||+  |+.. +...+ +.+|..+..+++.+...
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~-L~pn~~L~~~I~~~~~~   82 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSD-LIQDEALRRAIENHNKK   82 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGG-EEECHHHHHHHHHHHTT
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhh-CcCCHHHHHHHHHHHHH
Confidence            356899999999999999996 9999999999999974      358999  8876 66666 99999999999999876


Q ss_pred             CC
Q psy10659         88 SA   89 (140)
Q Consensus        88 ~~   89 (140)
                      ..
T Consensus        83 ~~   84 (94)
T 2yu4_A           83 RH   84 (94)
T ss_dssp             CC
T ss_pred             hc
Confidence            54

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

Probab=99.71  E-value=5.2e-18  Score=112.02  Aligned_cols=65  Identities=31%  Similarity=0.674  Sum_probs=53.9

Q ss_pred             CCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHH
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHK   85 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~   85 (140)
                      +++++.|+||++.+.+|++++|||+||..||..|+.....||.||.++...   ..+..+...+..+.
T Consensus        50 ~~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~---~~~~~~~~~i~~~~  114 (138)
T 4ayc_A           50 LENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK---TYSLVLDNCINKMV  114 (138)
T ss_dssp             HHHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE---EECHHHHHHHHHHH
T ss_pred             ccccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC---CCccchhHHHHHHH
Confidence            345689999999999999999999999999999999999999999988653   34555655555543

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

Probab=99.71  E-value=4.5e-18  Score=107.84  Aligned_cols=70  Identities=24%  Similarity=0.535  Sum_probs=61.4

Q ss_pred             CCCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC---CCccchHHHHHHHHHHh
Q psy10659         17 PPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMN---SVFPNFLLNELVQKHKI   86 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~---~~~~~~~~~~~~~~~~~   86 (140)
                      .+.+++.|+||++.+.+|+.+ +|||+||..||..|+.....||.|+..+....   .+.+|..+.++++.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~~   84 (108)
T 2ckl_A           11 ELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVP   84 (108)
T ss_dssp             HHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHST
T ss_pred             ccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHHhh
Confidence            345789999999999999997 99999999999999998899999999988752   36788999988887755

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

Probab=99.71  E-value=6.5e-19  Score=112.25  Aligned_cols=75  Identities=28%  Similarity=0.599  Sum_probs=60.8

Q ss_pred             hhhcCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcC---CCCCCCCCCCCCCCCCccchHHHHHHHHHHh
Q psy10659         11 LKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKCSASLPDMNSVFPNFLLNELVQKHKI   86 (140)
Q Consensus        11 ~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~   86 (140)
                      +......+.+.+.|+||++.+.+|+.++|||+||..|+..|+...   ..||.||..+.... +.+|..+..+++.+..
T Consensus        11 ~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~-~~~~~~l~~~~~~~~~   88 (112)
T 1jm7_A           11 VQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS-LQESTRFSQLVEELLK   88 (112)
T ss_dssp             HHHHHHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT-CBCCCSSSHHHHHHHH
T ss_pred             HHHHHHhccCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh-cCccHHHHHHHHHHHH
Confidence            333333455678999999999999999999999999999999854   48999999988776 7777777777766654

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

Probab=99.71  E-value=9e-18  Score=97.40  Aligned_cols=56  Identities=25%  Similarity=0.584  Sum_probs=49.3

Q ss_pred             cCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCC
Q psy10659         14 QHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE-LQIKCPKCSASLPDMN   69 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~   69 (140)
                      ....+.+.+.|+||++.+.+|+.++|||+||..|+..|+. ....||.||..+...+
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A            8 FVKTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             SCCSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             hhhcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            3456678899999999999999999999999999999995 5678999999887654

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

Probab=99.71  E-value=1.7e-18  Score=111.38  Aligned_cols=70  Identities=26%  Similarity=0.519  Sum_probs=61.8

Q ss_pred             CCCCCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhc
Q psy10659         15 HSPPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIK   87 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (140)
                      ...+.+.+.|+||++.+.+|+.+ +|||+||..||..|+.  ..||.|+..+...+ +.+|..+.++++.+...
T Consensus        16 ~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~-~~~n~~l~~l~~~~~~~   86 (117)
T 1jm7_B           16 LDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD-LKINRQLDSMIQLCSKL   86 (117)
T ss_dssp             HHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS-CCCCHHHHHHHHHHHHH
T ss_pred             HHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcccc-ccccHHHHHHHHHHHHH
Confidence            34556789999999999999999 9999999999999987  78999999987666 89999999999887653

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

Probab=99.71  E-value=1e-17  Score=112.02  Aligned_cols=69  Identities=26%  Similarity=0.594  Sum_probs=61.5

Q ss_pred             CCCcccccccchhhhceecCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCCCCccchHHHHHHHHHHhc
Q psy10659         19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFLLNELVQKHKIK   87 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (140)
                      .+.+.|+||++.+.+|+.++|||+||..||..|+... ..||.||..+.....+.+|..+.++++.+...
T Consensus        76 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p~  145 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFFPG  145 (150)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHSTT
T ss_pred             ccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhhH
Confidence            4578999999999999999999999999999999865 48999999999874489999999999988653

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

Probab=99.70  E-value=1.4e-17  Score=121.03  Aligned_cols=73  Identities=23%  Similarity=0.301  Sum_probs=65.0

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      .++.+.+.||||+++|.+||+++|||+||..||..|+.. ...||+|+.++...+ +.+|..+.++++.|....+
T Consensus       203 ~~~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~-l~~n~~l~~~i~~~~~~~~  276 (281)
T 2c2l_A          203 RDIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ-LIPNLAMKEVIDAFISENG  276 (281)
T ss_dssp             CCCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG-CEECHHHHHHHHHHHTTCS
T ss_pred             CCCCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhc-CcccHHHHHHHHHHHHHCC
Confidence            356688999999999999999999999999999999985 445999999998776 9999999999999987654

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

Probab=99.69  E-value=2.1e-17  Score=112.97  Aligned_cols=74  Identities=23%  Similarity=0.287  Sum_probs=66.1

Q ss_pred             CCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         15 HSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ...+.+.+.||||+++|.+||+++|||+||..||..|+... ..||+|+.++...+ +.+|..+.++++.+....+
T Consensus       100 ~~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~-L~pN~~Lk~~Ie~~~~~~~  174 (179)
T 2f42_A          100 KREIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQ-LIPNLAMKEVIDAFIQENG  174 (179)
T ss_dssp             CCCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG-CEECHHHHHHHHHHHHHCT
T ss_pred             ccCCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhh-CcchHHHHHHHHHHHHHCC
Confidence            45678899999999999999999999999999999999753 46999999998776 9999999999999987654

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

Probab=99.68  E-value=3.4e-17  Score=96.10  Aligned_cols=56  Identities=30%  Similarity=0.788  Sum_probs=49.3

Q ss_pred             CCCCCcccccccchhhhc-------eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCcc
Q psy10659         17 PPDNDLLCPICFELIREA-------HITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFP   73 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p-------~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~   73 (140)
                      ..++++.|+||++.+.+|       +.++|||+||..|+..|+.....||+||..+...+ +.+
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~-~~~   68 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR-YHP   68 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS-CCC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhh-eee
Confidence            345689999999999998       78899999999999999998899999999988766 444

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

Probab=99.67  E-value=1.2e-17  Score=106.93  Aligned_cols=69  Identities=30%  Similarity=0.633  Sum_probs=57.0

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCC------CCCCccchHHHHHHHHHH
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPD------MNSVFPNFLLNELVQKHK   85 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~------~~~~~~~~~~~~~~~~~~   85 (140)
                      ...+++.|+||++.+.+|+.++|||+||..||..|+.. ...||.||..+..      ...+.+|..+..++..+.
T Consensus        11 ~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~   86 (115)
T 3l11_A           11 PSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHY   86 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHS
T ss_pred             CCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCccccccccccchhhHHHHHHHHHHC
Confidence            44568999999999999999999999999999999975 6789999998764      123567777777777664

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

Probab=99.67  E-value=5e-17  Score=94.78  Aligned_cols=51  Identities=31%  Similarity=0.830  Sum_probs=46.2

Q ss_pred             CCCCCcccccccchhhhc-------eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREA-------HITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p-------~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ...+...|+||++.+.+|       +.++|||.||..||..|+.....||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            456789999999999988       788999999999999999988999999998764

>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=99.67  E-value=2.2e-17  Score=106.31  Aligned_cols=75  Identities=32%  Similarity=0.635  Sum_probs=65.1

Q ss_pred             cCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         14 QHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ....+.+.+.|+||++.+.+|+.++|||+||..||..|+... ..||.||..+.... +.++..+...+..+.....
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~-~~~~~~l~~~i~~l~v~C~   86 (118)
T 3hct_A           11 FDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ-LFPDNFAKREILSLMVKCP   86 (118)
T ss_dssp             BSSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG-CEECHHHHHHHHTSEEECS
T ss_pred             hccCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh-cccCHHHHHHHccceeECC
Confidence            456788899999999999999999999999999999999865 49999999988766 7788888888887776653

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

Probab=99.66  E-value=2.4e-17  Score=96.97  Aligned_cols=51  Identities=25%  Similarity=0.668  Sum_probs=46.6

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ...+.+.|+||++.+.+|+.++|||+||..||..|+.....||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             cCCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            445778999999999999999999999999999999988999999998764

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

Probab=99.64  E-value=1.1e-16  Score=92.02  Aligned_cols=50  Identities=30%  Similarity=0.767  Sum_probs=45.8

Q ss_pred             CCcccccccchhhhc-------eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREA-------HITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p-------~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      +++.|+||++.+.+|       +.++|||.||..|+..|+.....||.||..+...+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            568999999999987       77899999999999999998999999999988765

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

Probab=99.64  E-value=1.6e-16  Score=96.87  Aligned_cols=55  Identities=33%  Similarity=0.728  Sum_probs=48.3

Q ss_pred             CCCCCCCcccccccchhhh----ceecCCCCcccHhhHHHHhhcC---CCCCCCCCCCCCCC
Q psy10659         15 HSPPDNDLLCPICFELIRE----AHITRCGHTFCFSCISKCVELQ---IKCPKCSASLPDMN   69 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~---~~CP~C~~~~~~~~   69 (140)
                      ...+.+.+.|+||++.+.+    |+.++|||+||..|+..|+...   ..||.||..+...+
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            4466788999999999998    9999999999999999999865   78999999876643

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

Probab=99.62  E-value=2.5e-16  Score=94.06  Aligned_cols=53  Identities=34%  Similarity=0.592  Sum_probs=46.5

Q ss_pred             CCCCCcccccccchhhhc---eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREA---HITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      ...+...|+||++.|.++   +.++|||.||..||..|+.....||+||..+...+
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             TSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             cCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            456789999999999866   44699999999999999998899999999988765

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

Probab=99.62  E-value=4e-16  Score=90.08  Aligned_cols=54  Identities=31%  Similarity=0.655  Sum_probs=45.4

Q ss_pred             CCcccccccc-hhhhc----eecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCCCCccc
Q psy10659         20 NDLLCPICFE-LIREA----HITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPN   74 (140)
Q Consensus        20 ~~~~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~~~~~~   74 (140)
                      +++.|+||++ .+.+|    +.++|||+||..|+..|+.. ...||.||..+...+ +.++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~-~~~~   61 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN-FRVQ   61 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC-CEEE
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccccc-ceee
Confidence            5689999999 99998    46799999999999999764 577999999988766 5443

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

Probab=99.62  E-value=2.7e-16  Score=88.66  Aligned_cols=47  Identities=34%  Similarity=0.887  Sum_probs=41.6

Q ss_pred             CCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhh---cCCCCCCC
Q psy10659         15 HSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE---LQIKCPKC   61 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~---~~~~CP~C   61 (140)
                      ...+.+.+.|+||++.+.+|+.++|||+||..||..|+.   ....||+|
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            9 LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            346678899999999999999999999999999999954   46789988

>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=99.60  E-value=9.3e-17  Score=106.35  Aligned_cols=73  Identities=21%  Similarity=0.481  Sum_probs=58.2

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCC--------CCccchHHHHHHHHHHh
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMN--------SVFPNFLLNELVQKHKI   86 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~--------~~~~~~~~~~~~~~~~~   86 (140)
                      ..+++.+.|+||++.+.+|+.++|||+||..||..|+... ..||.||.++....        .+.++..+...+..+..
T Consensus        26 ~~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~~~~~~d~~~~~~i~~L~v  105 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVESLPA  105 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCCTTTTEECGGGCEECHHHHHHHHTSEE
T ss_pred             ccCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcccccccccccchhhhcccHHHHHHHccccc
Confidence            4678899999999999999999999999999999999855 48999998754321        24567677777766655


Q ss_pred             cC
Q psy10659         87 KS   88 (140)
Q Consensus        87 ~~   88 (140)
                      ..
T Consensus       106 ~C  107 (141)
T 3knv_A          106 VC  107 (141)
T ss_dssp             EC
T ss_pred             cc
Confidence            54

>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=99.60  E-value=4e-16  Score=99.99  Aligned_cols=70  Identities=23%  Similarity=0.524  Sum_probs=57.2

Q ss_pred             CCCcccccccchhhhceecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcC
Q psy10659         19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKS   88 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (140)
                      .+.+.|+||++.+.+|+.++|||+||..||..|+.. ...||.||..+...+...++..+.+++..+...-
T Consensus        21 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i~~l~v~C   91 (116)
T 1rmd_A           21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNSLMVKC   91 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHHHCEEEC
T ss_pred             cCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHHHHhcCCC
Confidence            457899999999999999999999999999999986 6789999999887663345566666666555543

>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=99.60  E-value=4.8e-16  Score=105.84  Aligned_cols=74  Identities=32%  Similarity=0.642  Sum_probs=64.0

Q ss_pred             cCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcC-CCCCCCCCCCCCCCCCccchHHHHHHHHHHhcC
Q psy10659         14 QHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFLLNELVQKHKIKS   88 (140)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (140)
                      ....+++.+.|+||++++.+|+.++|||+||..||..|+... ..||.||..+...+ +.++..+...+..+...-
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~-~~~~~~~~~~i~~l~v~C   85 (170)
T 3hcs_A           11 FDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ-LFPDNFAKREILSLMVKC   85 (170)
T ss_dssp             ESSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG-CEECHHHHHHHHTSEEEC
T ss_pred             hccCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh-hhhhHHHHHHHhhcccCC
Confidence            566888999999999999999999999999999999999754 59999999988766 778888888877766554

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

Probab=99.59  E-value=7.1e-16  Score=86.08  Aligned_cols=49  Identities=24%  Similarity=0.702  Sum_probs=43.3

Q ss_pred             CCCCcccccccchhhh---ceecC-CCCcccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIRE---AHITR-CGHTFCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      +++...|+||++.+.+   ++.++ |||.||..|+..|+.....||+||..+.
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            4678899999999987   66776 9999999999999999999999998763

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

Probab=99.59  E-value=1.6e-16  Score=93.04  Aligned_cols=56  Identities=27%  Similarity=0.625  Sum_probs=49.3

Q ss_pred             hcCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         13 RQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        13 ~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      .......+...|+||++.+.+ +.++|||.||..|+..|+.....||+||..+...+
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A            7 GRVKQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             hhhhcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            334566788999999999998 88999999999999999998899999999887654

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

Probab=99.57  E-value=2.1e-15  Score=88.00  Aligned_cols=53  Identities=23%  Similarity=0.614  Sum_probs=45.1

Q ss_pred             CCCCCCcccccccchhh---hceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         16 SPPDNDLLCPICFELIR---EAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      ....+...|+||++.+.   .++.++|||.||..|+..|+.....||+||..+...
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            34556789999999885   346789999999999999999888999999987753

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

Probab=99.57  E-value=9.6e-16  Score=94.25  Aligned_cols=51  Identities=27%  Similarity=0.620  Sum_probs=44.7

Q ss_pred             CCCCCcccccccchhhh---ceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIRE---AHITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ...++..|+||++.+..   ++.++|||.||..||..|+.....||+||..+..
T Consensus        36 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           36 AVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             ccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            34567899999999876   6778999999999999999988999999987754

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

Probab=99.57  E-value=1.7e-15  Score=89.58  Aligned_cols=55  Identities=24%  Similarity=0.567  Sum_probs=47.0

Q ss_pred             CCCCCCCcccccccchhhhceec---CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         15 HSPPDNDLLCPICFELIREAHIT---RCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~---~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      ..+..++..|+||++.+.++..+   +|||.||..||..|+.....||+||..+....
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A            9 VKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCC
T ss_pred             cccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccccc
Confidence            34567789999999999877543   99999999999999998889999999887644

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

Probab=99.57  E-value=1.7e-15  Score=84.46  Aligned_cols=47  Identities=34%  Similarity=0.770  Sum_probs=42.0

Q ss_pred             CCcccccccchhhh----ceecCCCCcccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE----AHITRCGHTFCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        20 ~~~~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      +...|+||++.+.+    ++.++|||.||..|+..|+.....||+||..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            56889999999965    677899999999999999998899999998764

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

Probab=99.57  E-value=1.5e-15  Score=90.01  Aligned_cols=52  Identities=23%  Similarity=0.573  Sum_probs=45.4

Q ss_pred             CCCCCcccccccchhhhc---eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREA---HITRCGHTFCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      ...+...|+||++.+..+   +.++|||.||..||..|+.....||+||..+...
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            345678999999999877   6679999999999999999889999999987653

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

Probab=99.56  E-value=1.5e-15  Score=88.37  Aligned_cols=49  Identities=29%  Similarity=0.723  Sum_probs=44.0

Q ss_pred             CCCcccccccchhhhc-eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREA-HITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p-~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ++...|+||++.+.+| +.++|||.||..|+..|+.....||.||..+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            3567899999999997 678999999999999999988999999998764

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

Probab=99.54  E-value=2e-15  Score=84.73  Aligned_cols=49  Identities=27%  Similarity=0.553  Sum_probs=42.8

Q ss_pred             CCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      ..+.+.|+||++.+.+|+.++|||+||..|+..   ....||+||..+....
T Consensus         3 e~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~---~~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA---SGMQCPICQAPWPLGA   51 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS---SSSSCSSCCSSSSCCS
T ss_pred             cccCCCceEeCCccCCeEEcCCCCcccHHHHcc---CCCCCCcCCcEeecCC
Confidence            457899999999999999999999999999877   3678999999877543

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

Probab=99.53  E-value=3.9e-15  Score=96.98  Aligned_cols=51  Identities=29%  Similarity=0.780  Sum_probs=47.1

Q ss_pred             CCCcccccccchhhhc-------eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREA-------HITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p-------~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      .+.+.|+||++.+.+|       +.++|||+||..||.+|+.....||.||..+....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            4679999999999999       88999999999999999999999999999988765

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

Probab=99.53  E-value=2.9e-15  Score=107.22  Aligned_cols=68  Identities=21%  Similarity=0.402  Sum_probs=59.5

Q ss_pred             CCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcC--CCCCC--CCCCCCCCCCCccchHHHHHHHHHHh
Q psy10659         18 PDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQ--IKCPK--CSASLPDMNSVFPNFLLNELVQKHKI   86 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~--~~CP~--C~~~~~~~~~~~~~~~~~~~~~~~~~   86 (140)
                      ....+.||||+++|.+||+. .|||+||+.||..|+...  ..||+  |+..+...+ +.+|..+..+++.++.
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d-L~pN~~L~~lve~~k~  250 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD-FVRDPIMELRCKIAKM  250 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG-EEECHHHHHHHHHHHH
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh-CCcCHHHHHHHHHHHH
Confidence            35678999999999999985 999999999999999753  57999  999888777 9999999999877654

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

Probab=99.51  E-value=2e-14  Score=85.87  Aligned_cols=53  Identities=23%  Similarity=0.645  Sum_probs=43.2

Q ss_pred             CCCCCcccccccchhh--hceecC--CCCcccHhhHHHHhh-cCCCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIR--EAHITR--CGHTFCFSCISKCVE-LQIKCPKCSASLPDMN   69 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~--~p~~~~--CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~   69 (140)
                      .+++++.||||++.+.  ++..++  |||+||..|+..++. ....||.||+++....
T Consensus         7 ~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             ccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            3567899999999884  445555  999999999999985 4578999999887655

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

Probab=99.50  E-value=1.6e-14  Score=92.10  Aligned_cols=51  Identities=25%  Similarity=0.611  Sum_probs=42.6

Q ss_pred             CCCcccccccchhhhce------------------ecCCCCcccHhhHHHHhh-----cCCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAH------------------ITRCGHTFCFSCISKCVE-----LQIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~------------------~~~CgH~fC~~Ci~~~~~-----~~~~CP~C~~~~~~~~   69 (140)
                      ..+..|+||++.|.++.                  .++|||.||..||..|+.     ....||+||..+....
T Consensus        23 ~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T 1v87_A           23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             CCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCC
Confidence            34569999999997764                  679999999999999994     4678999999887654

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

Probab=99.46  E-value=4.4e-14  Score=84.98  Aligned_cols=48  Identities=25%  Similarity=0.540  Sum_probs=40.7

Q ss_pred             CCcccccccchhhh--------------ceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE--------------AHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~~--------------p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ++..|+||++.+.+              ++.+ +|||.||..||.+|+..+..||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            46779999999876              3444 599999999999999999999999988754

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

Probab=99.43  E-value=2.9e-15  Score=88.68  Aligned_cols=47  Identities=28%  Similarity=0.624  Sum_probs=42.4

Q ss_pred             CCCCCcccccccchhhhceecCCCCc-ccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHT-FCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      .+.+++.|+||++.+.+|+.++|||. ||..|+..|    ..||+||..+..
T Consensus        20 ~~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           20 RLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            44567899999999999999999999 999999988    889999998765

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

Probab=99.42  E-value=5.2e-14  Score=91.60  Aligned_cols=55  Identities=29%  Similarity=0.752  Sum_probs=48.2

Q ss_pred             CCCCcccccccchhhhc-------eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCcc
Q psy10659         18 PDNDLLCPICFELIREA-------HITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFP   73 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p-------~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~   73 (140)
                      .++...|+||++.+.++       +.++|||+||..|+.+|+.....||+||..+...+ +.+
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~-~~~  130 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR-YHP  130 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG-EEE
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc-cee
Confidence            35678999999999987       77899999999999999999999999999887655 443

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

Probab=99.41  E-value=2.4e-14  Score=84.93  Aligned_cols=48  Identities=27%  Similarity=0.591  Sum_probs=41.8

Q ss_pred             CCCCCcccccccchhhhceecCCCCc-ccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHT-FCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      .+.+...|+||++.+.+|+.++|||. ||..|+..    ...||+||..+...
T Consensus        21 ~~~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           21 RLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHHHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             cCCCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            34567899999999999999999999 99999964    47899999988764

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

Probab=99.37  E-value=2.1e-13  Score=78.39  Aligned_cols=49  Identities=27%  Similarity=0.574  Sum_probs=44.0

Q ss_pred             CCCcccccccchhhhceec--CCCCc-ccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHIT--RCGHT-FCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~--~CgH~-fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      .++..|+||++...+++.+  ||||. ||..|+..|......||+||.++..
T Consensus         6 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            3567899999999999977  99999 8999999999988899999998753

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=99.36  E-value=4.7e-13  Score=84.32  Aligned_cols=47  Identities=28%  Similarity=0.513  Sum_probs=41.0

Q ss_pred             CCcccccccchhhhc------------------eecCCCCcccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREA------------------HITRCGHTFCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p------------------~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      ++..|+||++.|.++                  +.++|||.||..||..|+..+..||+||..+.
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            467899999998865                  33699999999999999999999999998764

>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=99.34  E-value=2.2e-13  Score=77.55  Aligned_cols=53  Identities=17%  Similarity=0.201  Sum_probs=47.3

Q ss_pred             Ccccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccc
Q psy10659         21 DLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPN   74 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~   74 (140)
                      .+.|||+++.+.+||.+ ++||+|++.||.+|+..+..||+.+.++...+ +.++
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~-Lip~   56 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE-IVEI   56 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG-CEEC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhh-cEEC
Confidence            47899999999999999 99999999999999987778999999998776 5554

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

Probab=99.33  E-value=6e-13  Score=100.43  Aligned_cols=50  Identities=32%  Similarity=0.699  Sum_probs=45.1

Q ss_pred             CCcccccccchhhhceecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVE-LQIKCPKCSASLPDMN   69 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~   69 (140)
                      ....|+||++.+.+|+.++|||.||..|+..|+. ....||.||..+....
T Consensus       331 ~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~  381 (389)
T 2y1n_A          331 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE  381 (389)
T ss_dssp             SSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEE
T ss_pred             CCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCce
Confidence            3479999999999999999999999999999998 6789999999887643

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

Probab=99.32  E-value=4.4e-13  Score=76.79  Aligned_cols=49  Identities=27%  Similarity=0.605  Sum_probs=43.5

Q ss_pred             CCCcccccccchhhhceec--CCCCc-ccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHIT--RCGHT-FCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~--~CgH~-fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      +....|+||++...+++.+  ||||. ||..|+..|......||+||.++..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            3457899999999999877  99998 9999999999888899999998754

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

Probab=99.24  E-value=1.8e-13  Score=81.93  Aligned_cols=54  Identities=28%  Similarity=0.671  Sum_probs=44.4

Q ss_pred             hhhcCCCCCCCcccccccchhhhceecCCCCc-ccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         11 LKRQHSPPDNDLLCPICFELIREAHITRCGHT-FCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        11 ~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      +......+.+...|+||++.+.+++.+||||. ||..|+..|    ..||+||..+...
T Consensus         8 l~~~~~~l~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A            8 LQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HHHHHHHHHHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             HHHHHHcCCCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            33334445567899999999999999999999 999999876    3899999987653

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

Probab=99.22  E-value=7e-12  Score=72.82  Aligned_cols=47  Identities=23%  Similarity=0.559  Sum_probs=41.1

Q ss_pred             CCCCcccccccchhhhceecCCCCc-ccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREAHITRCGHT-FCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      ..+...|+||++...+++.+||||. ||..|+..    ...||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           12 EENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            3457899999999999999999999 99999984    57899999987653

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

Probab=99.22  E-value=8.5e-12  Score=74.65  Aligned_cols=53  Identities=21%  Similarity=0.411  Sum_probs=43.3

Q ss_pred             CCCCCcccccccchhh--hceecCCC-----CcccHhhHHHHhhcC--CCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIR--EAHITRCG-----HTFCFSCISKCVELQ--IKCPKCSASLPDMN   69 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~--~p~~~~Cg-----H~fC~~Ci~~~~~~~--~~CP~C~~~~~~~~   69 (140)
                      ...+...|+||++.+.  +++++||+     |.||..||.+|+..+  ..||+|+..+....
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           11 TPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CCTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            3456789999998874  56778996     999999999999754  58999999887644

>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=99.22  E-value=1.9e-12  Score=79.79  Aligned_cols=45  Identities=31%  Similarity=0.789  Sum_probs=38.0

Q ss_pred             CCcccccccchhhhceec---CCCCcccHhhHHHHhhc--------CCCCCC--CCCC
Q psy10659         20 NDLLCPICFELIREAHIT---RCGHTFCFSCISKCVEL--------QIKCPK--CSAS   64 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~---~CgH~fC~~Ci~~~~~~--------~~~CP~--C~~~   64 (140)
                      +.+.|+||++.+..|..+   +|||.||..|+..|+..        ...||.  |+..
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            568999999999888654   79999999999999862        247999  9876

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

Probab=99.19  E-value=2.2e-12  Score=82.47  Aligned_cols=48  Identities=27%  Similarity=0.468  Sum_probs=0.9

Q ss_pred             CCcccccccchhhhce------------------ecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAH------------------ITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~------------------~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ++..|+||++.|.++.                  .++|||.||..||..|+.....||+||..+..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            3468999999997642                  24899999999999999999999999987543

>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=99.13  E-value=2.5e-12  Score=96.25  Aligned_cols=47  Identities=23%  Similarity=0.641  Sum_probs=42.3

Q ss_pred             CCCCCcccccccchhhhceecCCCCc-ccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHT-FCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      .+.+++.|+||++.+.+|+.++|||. ||..|+..|    ..||.||.++..
T Consensus       291 ~l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          291 RLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HHHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             hCcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            44577999999999999999999999 999999977    789999998764

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

Probab=99.05  E-value=3.1e-10  Score=66.67  Aligned_cols=49  Identities=27%  Similarity=0.739  Sum_probs=41.0

Q ss_pred             CCCcccccccchhhhcee-cCCCCcccHhhHHHHhhcC--CCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHI-TRCGHTFCFSCISKCVELQ--IKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~--~~CP~C~~~~~~   67 (140)
                      +....|.||.+.+..-.. ..|+|.|+..||..|++..  ..||+|+.....
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            455799999999975443 3899999999999999876  889999987654

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

Probab=98.64  E-value=3.5e-08  Score=55.60  Aligned_cols=49  Identities=22%  Similarity=0.503  Sum_probs=39.8

Q ss_pred             CCCcccccccchhhhceecCCC--C---cccHhhHHHHhh--cCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHITRCG--H---TFCFSCISKCVE--LQIKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~Cg--H---~fC~~Ci~~~~~--~~~~CP~C~~~~~~   67 (140)
                      ++...|.||++...++..+||.  +   .|+..|+.+|+.  ++..||+|+..+..
T Consensus         4 ~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            4567899999987777777864  4   899999999996  36789999987653

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

Probab=98.58  E-value=3.5e-08  Score=60.39  Aligned_cols=46  Identities=26%  Similarity=0.638  Sum_probs=38.1

Q ss_pred             ccccccchhhhce-ecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCCC
Q psy10659         23 LCPICFELIREAH-ITRCGHTFCFSCISKCVE-LQIKCPKCSASLPDM   68 (140)
Q Consensus        23 ~C~IC~~~~~~p~-~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~   68 (140)
                      .|++|.-.+..-. .+||+|+||.+|+..|.+ +...||.|+.++...
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            5888988777654 569999999999999985 568899999987653

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

Probab=98.49  E-value=3.3e-08  Score=73.30  Aligned_cols=50  Identities=24%  Similarity=0.550  Sum_probs=39.7

Q ss_pred             CCCCcccccccchhhh----ce----ecCCCCcccHhhHHHHhhcC-----------CCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIRE----AH----ITRCGHTFCFSCISKCVELQ-----------IKCPKCSASLPD   67 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~----p~----~~~CgH~fC~~Ci~~~~~~~-----------~~CP~C~~~~~~   67 (140)
                      .+....|+||...+.+    |.    ..+|||.||..|+.+|+++.           ..||.|+.+++.
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            4567899999998876    31    23799999999999999742           469999997764

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

Probab=98.31  E-value=6.4e-07  Score=74.16  Aligned_cols=74  Identities=16%  Similarity=0.146  Sum_probs=67.1

Q ss_pred             CCCCCCCcccccccchhhhceecCCC-CcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         15 HSPPDNDLLCPICFELIREAHITRCG-HTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~~Cg-H~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ..++++.+.|||-.+++.+||+++-| ++|=+..|.+|+....+||.-|.+++... +.||..+...++.|.....
T Consensus       885 ~~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~-liPN~~Lk~~I~~w~~~~~  959 (968)
T 3m62_A          885 YGDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLED-VTPNEELRQKILCFKKQKK  959 (968)
T ss_dssp             HCCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG-CEECHHHHHHHHHHHHHHH
T ss_pred             ccCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCccc-ccccHHHHHHHHHHHHHHH
Confidence            35778899999999999999999998 69999999999998899999999998877 8999999999999976543

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

Probab=97.67  E-value=3.6e-05  Score=54.68  Aligned_cols=48  Identities=25%  Similarity=0.719  Sum_probs=39.3

Q ss_pred             CCcccccccchhhhceec-CCCCcccHhhHHHHhhcC--CCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQ--IKCPKCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~--~~CP~C~~~~~~   67 (140)
                      ....|.||.++......- .|+|.||..|+..|++..  ..||.|+.....
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            467899999988865543 499999999999999754  589999987544

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

Probab=97.59  E-value=2.7e-05  Score=47.90  Aligned_cols=33  Identities=21%  Similarity=0.603  Sum_probs=28.0

Q ss_pred             CCcccccccch-hhhcee--cCCCCcccHhhHHHHh
Q psy10659         20 NDLLCPICFEL-IREAHI--TRCGHTFCFSCISKCV   52 (140)
Q Consensus        20 ~~~~C~IC~~~-~~~p~~--~~CgH~fC~~Ci~~~~   52 (140)
                      +++.|+||.+. +.+|+.  +.|+|+||..|+..+.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATH   37 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHS
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHh
Confidence            46899999975 677887  8999999999999843

>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=96.04  E-value=0.0063  Score=35.52  Aligned_cols=36  Identities=33%  Similarity=0.961  Sum_probs=31.0

Q ss_pred             CCCcccccccchhhhceecCC----CCcccHhhHHHHhhc
Q psy10659         19 DNDLLCPICFELIREAHITRC----GHTFCFSCISKCVEL   54 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~C----gH~fC~~Ci~~~~~~   54 (140)
                      ...+.|.+|.+-+.+.....|    +|.||..|-..+++.
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            467999999999998876655    899999999999863

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.0064  Score=45.62  Aligned_cols=63  Identities=21%  Similarity=0.503  Sum_probs=48.3

Q ss_pred             Ccccccccchhhhceec-CCCCcccHhh--HHHHhh--cCCCCCCCCCCCCCCCCCccchHHHHHHHHH
Q psy10659         21 DLLCPICFELIREAHIT-RCGHTFCFSC--ISKCVE--LQIKCPKCSASLPDMNSVFPNFLLNELVQKH   84 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~-~CgH~fC~~C--i~~~~~--~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~   84 (140)
                      .+.||+-...+..|+.. .|.|.-|.+-  +.....  ..-.||+|.+.+...+ +..+..+..++...
T Consensus       249 SL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~d-L~ID~~~~~IL~~~  316 (371)
T 3i2d_A          249 SLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALEN-LAISEFVDDILQNC  316 (371)
T ss_dssp             ESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGG-EEEBHHHHHHHTTS
T ss_pred             eecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHH-eeEcHHHHHHHHhc
Confidence            47999999999999875 8999966654  333332  3467999999888877 88898887776554

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=95.78  E-value=0.0091  Score=44.65  Aligned_cols=63  Identities=21%  Similarity=0.400  Sum_probs=48.2

Q ss_pred             Ccccccccchhhhceec-CCCCcccHhh--HHHHhh--cCCCCCCCCCCCCCCCCCccchHHHHHHHHH
Q psy10659         21 DLLCPICFELIREAHIT-RCGHTFCFSC--ISKCVE--LQIKCPKCSASLPDMNSVFPNFLLNELVQKH   84 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~-~CgH~fC~~C--i~~~~~--~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~   84 (140)
                      .+.||+-...+..|+.. .|.|.-|.+-  +.....  ..-.||+|++.+...+ +..+..+.+++...
T Consensus       215 SL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~d-L~ID~~~~~IL~~~  282 (360)
T 4fo9_A          215 SLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYES-LILDGLFMEILNDC  282 (360)
T ss_dssp             ESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGG-EEEBHHHHHHHTTC
T ss_pred             eeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHH-eEEcHHHHHHHHhC
Confidence            46899999999999875 8999966543  333333  3467999999988877 88898888887653

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=92.36  E-value=0.076  Score=31.27  Aligned_cols=31  Identities=23%  Similarity=0.546  Sum_probs=23.0

Q ss_pred             CCcccccccchhhhc----eecCCCCcccHhhHHH
Q psy10659         20 NDLLCPICFELIREA----HITRCGHTFCFSCISK   50 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~   50 (140)
                      +...|.+|...|.--    .--.||++||..|...
T Consensus        20 ~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   54 (84)
T 1z2q_A           20 DAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRH   54 (84)
T ss_dssp             TCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCC
T ss_pred             CCCCCcCcCCccccchhcccccCCCcEEChHHhCC
Confidence            456899999988632    1237999999999653

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

Probab=91.43  E-value=0.36  Score=28.68  Aligned_cols=48  Identities=23%  Similarity=0.578  Sum_probs=36.2

Q ss_pred             CCcccccccchhhh-----ceec--CCCCcccHhhHHHHhh-cCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE-----AHIT--RCGHTFCFSCISKCVE-LQIKCPKCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~~-----p~~~--~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~   67 (140)
                      ....|.||.+..-.     +.+.  .|+--.|+.|+.--.+ ....||.|+..+..
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr   70 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCcccc
Confidence            35789999997642     3332  6898999999975443 67889999998764

>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM domain 3, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=89.53  E-value=0.45  Score=27.83  Aligned_cols=44  Identities=20%  Similarity=0.321  Sum_probs=34.1

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      .......|.-|...+...++..-+..|+..|        +.|-.|+..+...
T Consensus        21 ~~~~~~~C~~C~~~I~~~~~~a~~~~~H~~C--------F~C~~C~~~L~~~   64 (89)
T 1x64_A           21 SAQRMPLCDKCGSGIVGAVVKARDKYRHPEC--------FVCADCNLNLKQK   64 (89)
T ss_dssp             CCCSCCBCTTTCCBCCSCCEESSSCEECTTT--------CCCSSSCCCTTTS
T ss_pred             CCCcCCCcccCCCEecccEEEECCceECccC--------CEecCCCCCCCCC
Confidence            4455678999999887766667888888887        5688999888654

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=89.00  E-value=0.058  Score=30.96  Aligned_cols=51  Identities=22%  Similarity=0.523  Sum_probs=34.5

Q ss_pred             CCCCCCcccccccchhhhc-eec--CCCCcccHhhHHHHhh----cCCCCCCCCCCCC
Q psy10659         16 SPPDNDLLCPICFELIREA-HIT--RCGHTFCFSCISKCVE----LQIKCPKCSASLP   66 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p-~~~--~CgH~fC~~Ci~~~~~----~~~~CP~C~~~~~   66 (140)
                      ++-.+...|++|....... .+.  .|..-|+..|+..-..    ....||.|...+.
T Consensus        13 ~~~~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           13 EWGNQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             SSSCEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             ccCCCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            3345667899999876442 332  7889999999864332    2457999976543

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=88.87  E-value=0.35  Score=30.16  Aligned_cols=48  Identities=13%  Similarity=0.140  Sum_probs=37.5

Q ss_pred             cccccccchhhh---ceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIRE---AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        22 ~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      +.|..|...+.+   .....=|..||..|..+.+.....|..|..++....
T Consensus        33 F~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~~   83 (122)
T 1m3v_A           33 LKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGGD   83 (122)
T ss_dssp             HCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCCEE
T ss_pred             CCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCchh
Confidence            789999998862   345577889999999887755558999999887644

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=88.81  E-value=0.69  Score=27.19  Aligned_cols=36  Identities=22%  Similarity=0.532  Sum_probs=26.6

Q ss_pred             CCCCCCCcccccccchhhhceec---CCCCcccHhhHHHH
Q psy10659         15 HSPPDNDLLCPICFELIREAHIT---RCGHTFCFSCISKC   51 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~---~CgH~fC~~Ci~~~   51 (140)
                      .+.+..+..|.||.-.- ....+   -|+.+|+..|+.+.
T Consensus         9 ~e~~~~D~~C~VC~~~t-~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A            9 REPVVNDEMCDVCEVWT-AESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCCSCCCTTTCCCC-SSCCSSCSSSSSCCCHHHHHHH
T ss_pred             ccCCCCCcccCcccccc-ccceeccccccccccHhhcccc
Confidence            34566889999997533 33344   58999999999986

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=87.61  E-value=0.3  Score=28.52  Aligned_cols=31  Identities=32%  Similarity=0.746  Sum_probs=22.9

Q ss_pred             CCcccccccchhhhc----eecCCCCcccHhhHHH
Q psy10659         20 NDLLCPICFELIREA----HITRCGHTFCFSCISK   50 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~   50 (140)
                      +...|.+|...|.--    .--.||.+||..|...
T Consensus        18 ~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   52 (82)
T 2yw8_A           18 EATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSN   52 (82)
T ss_dssp             CCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCE
T ss_pred             cCCcccCcCCcccCccccccCCCCCCEEChHHhCC
Confidence            446899999988632    1237999999999653

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=87.37  E-value=0.69  Score=27.64  Aligned_cols=46  Identities=26%  Similarity=0.720  Sum_probs=30.3

Q ss_pred             CCCCCcccccccchhhhceec--C--CC-CcccHhhHHHHhh----cCCCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHIT--R--CG-HTFCFSCISKCVE----LQIKCPKCSASL   65 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~--~--Cg-H~fC~~Ci~~~~~----~~~~CP~C~~~~   65 (140)
                      +..+...| ||.......++.  .  |. .-||..|+.  +.    ....||.|+...
T Consensus        32 d~~e~~yC-iC~~~~~g~MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~~   86 (91)
T 1weu_A           32 DPNEPTYC-LCHQVSYGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   86 (91)
T ss_dssp             CSCCCBCS-TTCCBCCSCCCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCCC
T ss_pred             CCCCCcEE-ECCCCCCCCEeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCcC
Confidence            44567888 999865543322  3  55 569999986  32    346799997643

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=87.27  E-value=0.61  Score=26.46  Aligned_cols=48  Identities=25%  Similarity=0.676  Sum_probs=31.9

Q ss_pred             CCCCCCCcccccccchhhhceec--C--CC-CcccHhhHHHHhh----cCCCCCCCCCCC
Q psy10659         15 HSPPDNDLLCPICFELIREAHIT--R--CG-HTFCFSCISKCVE----LQIKCPKCSASL   65 (140)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~--~--Cg-H~fC~~Ci~~~~~----~~~~CP~C~~~~   65 (140)
                      ..+..+...| ||.......++.  .  |. .-||..|+.  +.    ....||.|...-
T Consensus        10 ~~d~~~~~~C-~C~~~~~g~MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~~   66 (71)
T 1wen_A           10 PVDPNEPTYC-LCHQVSYGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   66 (71)
T ss_dssp             CCCTTSCCCS-TTCCCSCSSEECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSCS
T ss_pred             ccCCCCCCEE-ECCCCCCCCEeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCccc
Confidence            3345667889 899865444333  4  65 589999987  32    346799997643

>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=87.24  E-value=0.35  Score=26.52  Aligned_cols=40  Identities=25%  Similarity=0.663  Sum_probs=29.2

Q ss_pred             cccccccchhhhce-e--cCCCCcccHhhHHHHhhcCCCCCCC
Q psy10659         22 LLCPICFELIREAH-I--TRCGHTFCFSCISKCVELQIKCPKC   61 (140)
Q Consensus        22 ~~C~IC~~~~~~p~-~--~~CgH~fC~~Ci~~~~~~~~~CP~C   61 (140)
                      ..|--|...+.+.. .  ..|++.||.+|=.-.-+.-..||.|
T Consensus        16 ~~C~~C~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           16 RFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CcccccCcccCCCccEECCccCcCcccchhHHHHhhccCCcCC
Confidence            45888998886544 2  3799999999955333455779988

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=87.11  E-value=0.71  Score=25.78  Aligned_cols=44  Identities=18%  Similarity=0.494  Sum_probs=31.7

Q ss_pred             CCCcccccccchhhhceec--CCCCcccHhhHHHHhhc----CCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHIT--RCGHTFCFSCISKCVEL----QIKCPKCSAS   64 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~--~CgH~fC~~Ci~~~~~~----~~~CP~C~~~   64 (140)
                      .....|.||.+.-  .++.  .|...||..|+...+..    .-.||.|...
T Consensus        10 ~~~~~C~vC~~~~--~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           10 APGARCGVCGDGT--DVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CTTCCCTTTSCCT--TCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCCcCCCCCCC--eEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            3456799998632  2333  79999999999876653    3479999754

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=87.09  E-value=0.2  Score=31.76  Aligned_cols=30  Identities=30%  Similarity=0.652  Sum_probs=22.2

Q ss_pred             Ccccccccchhhhc----eecCCCCcccHhhHHH
Q psy10659         21 DLLCPICFELIREA----HITRCGHTFCFSCISK   50 (140)
Q Consensus        21 ~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~   50 (140)
                      ...|.+|...|.--    .--.||++||..|...
T Consensus        69 ~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~  102 (125)
T 1joc_A           69 VQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK  102 (125)
T ss_dssp             CCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             CCCCcCcCCccccccccccCCCCCeEEChHHhCC
Confidence            45899999988632    1237999999999543

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=86.90  E-value=0.37  Score=28.64  Aligned_cols=30  Identities=27%  Similarity=0.580  Sum_probs=22.2

Q ss_pred             Ccccccccchhhhc----eecCCCCcccHhhHHH
Q psy10659         21 DLLCPICFELIREA----HITRCGHTFCFSCISK   50 (140)
Q Consensus        21 ~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~   50 (140)
                      ...|.+|...|.--    .--.||++||..|...
T Consensus        20 ~~~C~~C~~~F~~~~RrhhCr~CG~v~C~~Cs~~   53 (90)
T 3t7l_A           20 APNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNR   53 (90)
T ss_dssp             CCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             CCcCcCCCCcccchhhCccccCCCCEECCcccCC
Confidence            46799999877521    2237999999999654

>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein VPS27; endosome maturation, intracellular trafficking; 1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1

Probab=86.73  E-value=0.34  Score=27.60  Aligned_cols=28  Identities=32%  Similarity=0.583  Sum_probs=21.1

Q ss_pred             cccccccchhhhc----eecCCCCcccHhhHH
Q psy10659         22 LLCPICFELIREA----HITRCGHTFCFSCIS   49 (140)
Q Consensus        22 ~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~   49 (140)
                      ..|.+|...|.--    .--.||.+||..|..
T Consensus        12 ~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~   43 (73)
T 1vfy_A           12 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSS   43 (73)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSC
T ss_pred             CcccCCCCccCCccccccCCCCCEEEcccccC
Confidence            4899999987632    123799999999954

>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM domain protein CLP-36, contractIle protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=86.51  E-value=0.53  Score=26.85  Aligned_cols=40  Identities=18%  Similarity=0.326  Sum_probs=30.5

Q ss_pred             CCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      .....|.-|...+...++..-+..|+..|        +.|-.|+..+.
T Consensus        13 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~C--------F~C~~C~~~L~   52 (79)
T 1x62_A           13 QKLPMCDKCGTGIVGVFVKLRDRHRHPEC--------YVCTDCGTNLK   52 (79)
T ss_dssp             CCCCCCSSSCCCCCSSCEECSSCEECTTT--------TSCSSSCCCHH
T ss_pred             CCCCccccCCCCccCcEEEECcceeCcCc--------CeeCCCCCCCC
Confidence            34678999999887766667788888887        45888887764

>2fiy_A Protein FDHE homolog; FDHE protein, structural genomics, P protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: e.59.1.1

Probab=86.02  E-value=0.091  Score=38.57  Aligned_cols=46  Identities=28%  Similarity=0.560  Sum_probs=36.1

Q ss_pred             CCCcccccccchhhhceec----CCC--CcccHhhHHHHhhcCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHIT----RCG--HTFCFSCISKCVELQIKCPKCSAS   64 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~----~Cg--H~fC~~Ci~~~~~~~~~CP~C~~~   64 (140)
                      ...-.||+|.....-.++.    .=|  +.+|..|-..|.-....||.|+..
T Consensus       180 ~~~~~CPvCGs~P~~s~l~~~g~~~G~R~l~Cs~C~t~W~~~R~~C~~Cg~~  231 (309)
T 2fiy_A          180 ESRTLCPACGSPPMAGMIRQGGKETGLRYLSCSLCACEWHYVRIKCSHCEES  231 (309)
T ss_dssp             TTCSSCTTTCCCEEEEEEEC----CCEEEEEETTTCCEEECCTTSCSSSCCC
T ss_pred             ccCCCCCCCCCcCceeEEeecCCCCCcEEEEeCCCCCEEeecCcCCcCCCCC
Confidence            5678999999977654432    233  688999999998888899999986

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=85.90  E-value=0.36  Score=28.25  Aligned_cols=30  Identities=30%  Similarity=0.595  Sum_probs=22.1

Q ss_pred             CCcccccccchhhhc----eecCCCCcccHhhHH
Q psy10659         20 NDLLCPICFELIREA----HITRCGHTFCFSCIS   49 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~   49 (140)
                      +...|.+|...|.--    .--.||.+||..|..
T Consensus        13 ~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~   46 (84)
T 1x4u_A           13 NFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCS   46 (84)
T ss_dssp             CCSSCSSSCCCCCSSSCCEECSSSCCEECTTTSC
T ss_pred             CCCcCcCcCCccccchhhhhhcCCCcEEChhhcC
Confidence            346899999988532    123799999999954

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=85.47  E-value=0.31  Score=30.71  Aligned_cols=45  Identities=20%  Similarity=0.458  Sum_probs=26.6

Q ss_pred             CCCCcccccccchhhhc----eecCCCCcccHhhHHHHhhcCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREA----HITRCGHTFCFSCISKCVELQIKCPKCS   62 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~CP~C~   62 (140)
                      ..+...|..|...|.--    .--.||.+||..|..........|-.|-
T Consensus        16 d~~~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~vRVC~~C~   64 (120)
T 1y02_A           16 TGLEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQ   64 (120)
T ss_dssp             ----CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHH
T ss_pred             ccccCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCCceECHHHH
Confidence            34456899999987532    2247999999999665444344455553

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

Probab=84.91  E-value=0.45  Score=26.09  Aligned_cols=45  Identities=22%  Similarity=0.595  Sum_probs=31.8

Q ss_pred             CCCCCcccccccchhhhceec--CCCCcccHhhHHHHhh----cCCCCCCCCC
Q psy10659         17 PPDNDLLCPICFELIREAHIT--RCGHTFCFSCISKCVE----LQIKCPKCSA   63 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~--~CgH~fC~~Ci~~~~~----~~~~CP~C~~   63 (140)
                      +...+..|.+|...  ..++.  .|...||..|+..-+.    ..-.||.|..
T Consensus         7 ~~~~~~~C~vC~~~--g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            7 ETDHQDYCEVCQQG--GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SSCCCSSCTTTSCC--SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             cCCCCCCCccCCCC--CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            44567899999973  23333  7999999999986543    2346999864

>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1

Probab=84.14  E-value=0.52  Score=27.91  Aligned_cols=31  Identities=26%  Similarity=0.508  Sum_probs=22.9

Q ss_pred             CCcccccccchhhhc----eecCCCCcccHhhHHH
Q psy10659         20 NDLLCPICFELIREA----HITRCGHTFCFSCISK   50 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~   50 (140)
                      +...|.+|...|.--    .--.||.+||..|...
T Consensus         8 ~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   42 (88)
T 1wfk_A            8 MESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSF   42 (88)
T ss_dssp             CCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCE
T ss_pred             cCCCCcCcCCcccCccccccCCCCCCEEChhHcCC
Confidence            456899999987632    1237999999999653

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=83.99  E-value=0.14  Score=28.18  Aligned_cols=34  Identities=26%  Similarity=0.696  Sum_probs=24.5

Q ss_pred             Ccccccccchhhhc-----eecC---CCCcccHhhHHHHhhc
Q psy10659         21 DLLCPICFELIREA-----HITR---CGHTFCFSCISKCVEL   54 (140)
Q Consensus        21 ~~~C~IC~~~~~~p-----~~~~---CgH~fC~~Ci~~~~~~   54 (140)
                      .-.||-|...+...     ++-.   |++.||..|...|...
T Consensus         6 ~k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~~~   47 (60)
T 1wd2_A            6 TKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPH   47 (60)
T ss_dssp             CCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGG
T ss_pred             ceECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCcccC
Confidence            45789888877643     2323   8999999998887653

>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding protein 1; B-tandem zipper, protein binding; 1.30A {Mus musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 2dfy_X 2xjz_I 2xjy_B

Probab=83.00  E-value=0.58  Score=31.45  Aligned_cols=48  Identities=21%  Similarity=0.452  Sum_probs=33.5

Q ss_pred             CCcccccccchhhh---ceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE---AHITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        20 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      +=|.|..|...+..   +....=|..||..|..+.+.....|+.|++.+..
T Consensus        31 ~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~   81 (188)
T 1rut_X           31 RCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPA   81 (188)
T ss_dssp             GGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECT
T ss_pred             cCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCcccc
Confidence            34788888888875   4555678889999887765332368888776654

>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=82.97  E-value=0.84  Score=25.38  Aligned_cols=27  Identities=30%  Similarity=0.570  Sum_probs=20.4

Q ss_pred             CCcccccccchhhh-ceecCCCCcccHh
Q psy10659         20 NDLLCPICFELIRE-AHITRCGHTFCFS   46 (140)
Q Consensus        20 ~~~~C~IC~~~~~~-p~~~~CgH~fC~~   46 (140)
                      ....|..|...+.- +..-.||.+||..
T Consensus        14 ~~~rC~~C~kkvgl~~f~CrCg~~FC~~   41 (64)
T 1wg2_A           14 PNNRCFSCNKKVGVMGFKCKCGSTFCGS   41 (64)
T ss_dssp             CSCSCTTTCCCCTTSCEECTTSCEECSS
T ss_pred             cCCcChhhCCcccccCeEeecCCEeccc
Confidence            45799999986543 4445899999985

>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1

Probab=82.87  E-value=0.4  Score=33.22  Aligned_cols=30  Identities=27%  Similarity=0.676  Sum_probs=22.4

Q ss_pred             CCcccccccchhhhc----eecCCCCcccHhhHH
Q psy10659         20 NDLLCPICFELIREA----HITRCGHTFCFSCIS   49 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~   49 (140)
                      ++..|.+|...|.--    .--.||++||..|..
T Consensus       160 ~~~~C~~C~~~F~~~~rrhhCr~CG~v~C~~Cs~  193 (220)
T 1dvp_A          160 DGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTA  193 (220)
T ss_dssp             CCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSC
T ss_pred             CCCccCCCCCccCCcccccccCCcCCEEChHHhC
Confidence            357999999987622    123799999999954

>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*

Probab=82.70  E-value=0.58  Score=32.60  Aligned_cols=31  Identities=32%  Similarity=0.622  Sum_probs=22.8

Q ss_pred             CCcccccccchhhhc----eecCCCCcccHhhHHH
Q psy10659         20 NDLLCPICFELIREA----HITRCGHTFCFSCISK   50 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~   50 (140)
                      +...|.+|...|.--    .--.||++||..|-..
T Consensus       163 ~~~~C~~C~~~F~~~~RrhHCR~CG~v~C~~Cs~~  197 (226)
T 3zyq_A          163 DAEECHRCRVQFGVMTRKHHCRACGQIFCGKCSSK  197 (226)
T ss_dssp             CCSBCTTTCCBCBTTBCCEECTTTCCEECTTTCCE
T ss_pred             cCCCCcCcCCCCCccccccccCCCcCEeChhhcCC
Confidence            346899999877622    2247999999999653

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

Probab=82.57  E-value=0.11  Score=30.25  Aligned_cols=33  Identities=30%  Similarity=0.652  Sum_probs=23.3

Q ss_pred             Cccccc--ccchhhh-----ceec------CCCCcccHhhHHHHhh
Q psy10659         21 DLLCPI--CFELIRE-----AHIT------RCGHTFCFSCISKCVE   53 (140)
Q Consensus        21 ~~~C~I--C~~~~~~-----p~~~------~CgH~fC~~Ci~~~~~   53 (140)
                      ..-||-  |...+..     .+.=      .||+.||..|...|-.
T Consensus        25 ~~~CP~p~C~~~v~~~~~~~~v~C~~~~~~~C~~~FC~~C~~~wH~   70 (80)
T 2jmo_A           25 GVLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEAYHE   70 (80)
T ss_dssp             SCCCCSSSCCCCCCCCSCTTSBCTTSSSTTCCSCCEETTTTEECCS
T ss_pred             cEECCCCCCCcccEECCCCCcCCCCCCCCCCCCCeeccccCccccC
Confidence            667886  7765531     2333      5999999999988764

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}

Probab=81.56  E-value=1.1  Score=27.78  Aligned_cols=47  Identities=15%  Similarity=0.387  Sum_probs=35.6

Q ss_pred             CCcccccccchhhh-ceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE-AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDM   68 (140)
Q Consensus        20 ~~~~C~IC~~~~~~-p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~   68 (140)
                      +-+.|..|...+.. +....=|..||..|....  ....|+.|+.++...
T Consensus        29 ~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~--~~~~C~~C~~~I~~~   76 (126)
T 2xqn_T           29 KHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKN--HAVVCQGCHNAIDPE   76 (126)
T ss_dssp             GGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHH--SCCBCTTTCSBCCTT
T ss_pred             CCCCcCCCCCCCCcCEEEeECCEEechHHhCcC--cCccCcccCCcCCcC
Confidence            34789999988865 344567889999998754  367899999988753

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

Probab=80.61  E-value=0.074  Score=31.16  Aligned_cols=11  Identities=27%  Similarity=1.135  Sum_probs=6.8

Q ss_pred             cccccccchhh
Q psy10659         22 LLCPICFELIR   32 (140)
Q Consensus        22 ~~C~IC~~~~~   32 (140)
                      ..||.|...+.
T Consensus         3 ~~CP~C~~~l~   13 (81)
T 2jrp_A            3 ITCPVCHHALE   13 (81)
T ss_dssp             CCCSSSCSCCE
T ss_pred             CCCCCCCCccc
Confidence            56777766554

>2d8v_A Zinc finger FYVE domain-containing protein 19; zfyve19, ZF- B_BOX, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.43.1.1

Probab=80.08  E-value=1.2  Score=24.91  Aligned_cols=35  Identities=23%  Similarity=0.485  Sum_probs=26.2

Q ss_pred             CCCCCcccccccchhhhceecCC-CCcccHhhHHHHh
Q psy10659         17 PPDNDLLCPICFELIREAHITRC-GHTFCFSCISKCV   52 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~C-gH~fC~~Ci~~~~   52 (140)
                      ..++..-|-||.+.-. -.-+.| |-.||..|+.+.-
T Consensus         4 ~~ee~pWC~ICneDAt-lrC~gCdgDLYC~rC~rE~H   39 (67)
T 2d8v_A            4 GSSGLPWCCICNEDAT-LRCAGCDGDLYCARCFREGH   39 (67)
T ss_dssp             SCCCCSSCTTTCSCCC-EEETTTTSEEECSSHHHHHT
T ss_pred             cCcCCCeeEEeCCCCe-EEecCCCCceehHHHHHHHc
Confidence            4456778999999733 223578 8899999998876

---

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	140
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	5e-13
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	5e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-10
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	8e-10
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	9e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	5e-09
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-08
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	6e-08
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-07
d1wgma_	98	g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Hu	7e-07
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	1e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	3e-04
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	6e-04
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	8e-04
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.004

>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 = 58.9 bits (142), Expect = 5e-13
 Identities = 27/97 (27%), Positives = 45/97 (46%), Gaps = 5/97 (5%)

Query: 1  MSATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IK 57
          M  ++     ++   +     L CPIC ELI+E   T+C H FC  C+ K +  +    +
Sbjct: 1  MDLSALRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQ 60

Query: 58 CPKCSASLPDMNSVFPNFLLNELVQK-HKIKSAQDSD 93
          CP C   +    S+  +   ++LV++  KI  A   D
Sbjct: 61 CPLCKNDIT-KRSLQESTRFSQLVEELLKIICAFQLD 96

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 55.5 bits (133), Expect = 5e-12
 Identities = 17/71 (23%), Positives = 28/71 (39%)

Query: 18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
                CPI  EL+++  I   G T+  S I K ++   K    S        + PN++L
Sbjct: 5  FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVL 64

Query: 78 NELVQKHKIKS 88
            L+      +
Sbjct: 65 KSLIALWCESN 75

>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 = 51.2 bits (122), Expect = 3e-10
 Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 1/66 (1%)

Query: 10 SLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ-IKCPKCSASLPDM 68
            +          LC IC E  ++  I  CGH  C SC++   E +   CP C   +   
Sbjct: 12 QYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 71

Query: 69 NSVFPN 74
            +  +
Sbjct: 72 EPIVVD 77

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

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]

 Score = 50.2 bits (119), Expect = 8e-10
 Identities = 16/68 (23%), Positives = 28/68 (41%)

Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNEL 80
           L   I FEL+RE  IT  G T+    I + ++        + S      + PN  + E+
Sbjct: 7  YLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEV 66

Query: 81 VQKHKIKS 88
          +     ++
Sbjct: 67 IDAFISEN 74

>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 = 49.9 bits (119), Expect = 9e-10
 Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 2/64 (3%)

Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQI-KCPKCSASLPDMNSVFP-NFL 76
             + C IC  ++ +   T C H FC  CI +C+++    CP C       +   P    
Sbjct: 21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSF 80

Query: 77 LNEL 80
          LN L
Sbjct: 81 LNIL 84

>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 = 47.2 bits (112), Expect = 5e-09
 Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 3/46 (6%)

Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLP 66
           L C  C    +   +  C HT C  C+       ++CP C A  P
Sbjct: 6  FLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWP 48

>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 = 46.5 bits (110), Expect = 1e-08
 Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 1/46 (2%)

Query: 24 CPICFELIRE-AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDM 68
          CPIC E     +    C H FC+ CI++ +     CP C   +  +
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV 53

>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 = 45.5 bits (107), Expect = 6e-08
 Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 4/68 (5%)

Query: 19 DNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
          +  L C  C  ++RE   +  C H FC +C+S C  +   CP C      +  +  N  L
Sbjct: 20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDC--IGTGCPVCYTPA-WIQDLKINRQL 76

Query: 78 NELVQKHK 85
          + ++Q   
Sbjct: 77 DSMIQLCS 84

>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 = 42.5 bits (100), Expect = 4e-07
 Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 4/51 (7%)

Query: 19 DNDLLCPICFELIREAH----ITRCGHTFCFSCISKCVELQIKCPKCSASL 65
          D+ + C +C   + +      + RCGH F   C+   +     CP C  ++
Sbjct: 3  DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]} Length = 98

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]

 Score = 42.9 bits (100), Expect = 7e-07
 Identities = 16/91 (17%), Positives = 33/91 (36%)

Query: 2  SATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKC 61
          S +S   +  +  ++   ++ L PI   L+ +  +                 L  +    
Sbjct: 3  SGSSGLQQQEEETYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPF 62

Query: 62 SASLPDMNSVFPNFLLNELVQKHKIKSAQDS 92
          + S   M+ + PN  L E +Q+   +  Q S
Sbjct: 63 NRSPLTMDQIRPNTELKEKIQRWLAERKQQS 93

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 38.6 bits (89), Expect = 1e-05
 Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 1/45 (2%)

Query: 22 LLCPICFELIREAHITR-CGHTFCFSCISKCVELQIKCPKCSASL 65
          +LC I  ++ R   ++      F  S + + V+     P  +  L
Sbjct: 1  MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 3e-04
 Identities = 17/75 (22%), Positives = 27/75 (36%), Gaps = 13/75 (17%)

Query: 24 CPICFELIREAHITR---CGHTFCFSCISKCVELQI--------KCP--KCSASLPDMNS 70
          C +C        +T    C   FC  C+ + VEL I         CP   C        +
Sbjct: 8  CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN 67

Query: 71 VFPNFLLNELVQKHK 85
               +  E++Q++K
Sbjct: 68 EIECMVAAEIMQRYK 82

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.9 bits (77), Expect = 6e-04
 Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 5/49 (10%)

Query: 24 CPICFELIREAH----ITRCGHTFCFSCISKCVELQ-IKCPKCSASLPD 67
          CP+C E +           CG+  C  C  +    +   CP C    P+
Sbjct: 3  CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE 51

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.6 bits (76), Expect = 8e-04
 Identities = 15/51 (29%), Positives = 18/51 (35%), Gaps = 6/51 (11%)

Query: 21 DLLCPICFELIREAH-----ITRCGHTFCFSCISKCVEL-QIKCPKCSASL 65
          D  CP C             +  CGHT C SC+          CP+C   L
Sbjct: 3  DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 31.8 bits (71), Expect = 0.004
 Identities = 9/50 (18%), Positives = 16/50 (32%), Gaps = 7/50 (14%)

Query: 19 DNDLLCPICFELIREAHITR-----CGHTFCFSCISKCVELQI--KCPKC 61
          ++  +C IC E +                   SC+S  + +     C  C
Sbjct: 4  EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQIC 53

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	140
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.83
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.82
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.79
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.79
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.74
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.73
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.68
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.66
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.61
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.61
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.6
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.6
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.51
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.44
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.35
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.21
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.78
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	96.36
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	94.36
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	93.62
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	91.95
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	91.15
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	88.48
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	87.33
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	86.9
d1wfla_	74	Zinc finger A20 domain containing protein 2 {Mouse	86.78
d1wfpa_	74	Zinc finger A20 and AN1 domains containing protein	86.74
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	86.7
d2fiya1	290	FdhE homolog PA4809 {Pseudomonas aeruginosa [TaxId	86.46
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	84.3
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	80.97
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	80.46
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	80.41
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	80.39

>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=99.83  E-value=4.3e-21  Score=114.27  Aligned_cols=72  Identities=24%  Similarity=0.324  Sum_probs=65.1

Q ss_pred             CCCCCcccccccchhhhceecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE-LQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      ++.+++.||||+++|.+||+++|||+||..||..|+. ....||.|+.++...+ +.+|..+.++++.|....+
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~-l~pN~~L~~~I~~~l~~~~   75 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ-LIPNLAMKEVIDAFISENG   75 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG-CEECHHHHHHHHHHHTTCS
T ss_pred             CCCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccccc-cccHHHHHHHHHHHHHHCC
Confidence            5678999999999999999999999999999999997 4568999999988776 8999999999999987655

>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=99.82  E-value=4.6e-21  Score=113.61  Aligned_cols=73  Identities=26%  Similarity=0.479  Sum_probs=65.5

Q ss_pred             CCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCC
Q psy10659         16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSA   89 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (140)
                      .++.+++.||||+++|.+||+++|||+||..||..|+.. ...||.|+.++...+ +.+|..+.++|+.|....+
T Consensus         3 peiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~-l~pN~~L~~~I~~~~~~~~   76 (78)
T d1t1ha_           3 PEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG-LTPNYVLKSLIALWCESNG   76 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC-CEECTTTHHHHHHHHHHSC
T ss_pred             CCCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCccc-ccchHHHHHHHHHHHHHhC
Confidence            357789999999999999999999999999999999975 467999999998877 8999999999999976543

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=8.1e-20  Score=112.48  Aligned_cols=77  Identities=19%  Similarity=0.159  Sum_probs=68.6

Q ss_pred             hcCCCCCCCcccccccchhhhceecCCC-CcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHhcCCC
Q psy10659         13 RQHSPPDNDLLCPICFELIREAHITRCG-HTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKIKSAQ   90 (140)
Q Consensus        13 ~~~~~~~~~~~C~IC~~~~~~p~~~~Cg-H~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (140)
                      ....++.++|.||||.++|.+||+++|| |+||..||..|+..+..||.|+.++...+ +.+|..+...|+.|......
T Consensus        14 ~~~~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~-L~pN~~Lr~~I~~~~~~~~~   91 (98)
T d1wgma_          14 ETYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ-IRPNTELKEKIQRWLAERKQ   91 (98)
T ss_dssp             CCCCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT-SEECHHHHHHHHHHHHHSTT
T ss_pred             hhhcCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccchh-hcchHHHHHHHHHHHHHHHH
Confidence            3455678899999999999999999876 58999999999998899999999998877 99999999999999877654

>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=99.79  E-value=2.6e-21  Score=120.45  Aligned_cols=75  Identities=28%  Similarity=0.609  Sum_probs=61.3

Q ss_pred             hhhhcCCCCCCCcccccccchhhhceecCCCCcccHhhHHHHhhcC---CCCCCCCCCCCCCCCCccchHHHHHHHHHH
Q psy10659         10 SLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKCSASLPDMNSVFPNFLLNELVQKHK   85 (140)
Q Consensus        10 ~~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~---~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~   85 (140)
                      .+......+.+.+.||||++.+.+|+.++|||+||..||..|+...   ..||.||..+...+ +.+|..+.++++.+.
T Consensus        10 ~~~~~~~~l~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~-l~~n~~l~~~ve~l~   87 (103)
T d1jm7a_          10 EVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS-LQESTRFSQLVEELL   87 (103)
T ss_dssp             HHHHHHHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT-CBCCCSSSHHHHHHH
T ss_pred             HHHHHHHhcccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh-CCcCHHHHHHHHHHH
Confidence            3333444556779999999999999999999999999999999643   57999999998766 888887777776653

>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=99.74  E-value=1.5e-19  Score=111.17  Aligned_cols=68  Identities=26%  Similarity=0.554  Sum_probs=59.1

Q ss_pred             CCCCCCcccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCCCCccchHHHHHHHHHHh
Q psy10659         16 SPPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELVQKHKI   86 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~~~~~   86 (140)
                      ..+.+.+.|+||++.|.+|+.+ +|||+||..||.+|+.  ..||.||.++...+ +.+|..+..+++.+..
T Consensus        17 ~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~-l~~n~~l~~lv~~~~~   85 (97)
T d1jm7b_          17 DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD-LKINRQLDSMIQLCSK   85 (97)
T ss_dssp             HHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS-CCCCHHHHHHHHHHHH
T ss_pred             HhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh--ccccccCCcCchhh-CcccHHHHHHHHHHHH
Confidence            4556789999999999999975 8999999999999984  45999999988776 8899999999887754

>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=99.73  E-value=1.8e-18  Score=103.56  Aligned_cols=61  Identities=25%  Similarity=0.592  Sum_probs=49.7

Q ss_pred             CCcccccccchhhhceecCCCCcccHhhHHHHhh-cCCCCCCCCCCCCCCCCCccchHHHHH
Q psy10659         20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVE-LQIKCPKCSASLPDMNSVFPNFLLNEL   80 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~-~~~~CP~C~~~~~~~~~~~~~~~~~~~   80 (140)
                      +.+.|+||++.+.+|++++|||+||..||.+|++ +...||.||.++...+...+...+.++
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P~~~~l~~   83 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNI   83 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHH
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCHHHHHHHH
Confidence            5679999999999999999999999999999997 456899999998876633344444333

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=2.2e-17  Score=97.60  Aligned_cols=53  Identities=30%  Similarity=0.687  Sum_probs=46.2

Q ss_pred             CCcccccccchhhhceecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCCCCc
Q psy10659         20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVF   72 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~~~~   72 (140)
                      +...|+||++.+.+|+.++|||.||..||..|+.. ...||+||..+.....+.
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i~   75 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV   75 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCSS
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCceee
Confidence            34579999999999999999999999999999974 578999999998766443

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.66  E-value=6.2e-18  Score=93.66  Aligned_cols=48  Identities=19%  Similarity=0.220  Sum_probs=44.4

Q ss_pred             cccccccchhhhceec-CCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        22 ~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      +.|+||++.+.+|+.+ .|||+||..||.+|+..+..||.||.++...+
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            5799999999999987 69999999999999998889999999988765

>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=99.61  E-value=5.7e-17  Score=89.47  Aligned_cols=48  Identities=27%  Similarity=0.583  Sum_probs=42.1

Q ss_pred             CCCcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~~~   69 (140)
                      .+.+.|+||++.+.+|+.++|||+||..|+.+|   ...||.||..+....
T Consensus         4 ~~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             cCCCCCcccCcccCCCEEecCCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            355899999999999999999999999998754   678999999987654

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=2.9e-16  Score=89.35  Aligned_cols=50  Identities=32%  Similarity=0.681  Sum_probs=41.3

Q ss_pred             CCcccccccchhhhc-----eecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIREA-----HITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMN   69 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~~~   69 (140)
                      ++..||||++.+..+     +.++|||+||..||..|+.. +..||.||+.+...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            578999999976432     45699999999999999964 567999999987765

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.60  E-value=2e-16  Score=87.00  Aligned_cols=48  Identities=25%  Similarity=0.755  Sum_probs=41.6

Q ss_pred             CCCCcccccccchhhhc---eec-CCCCcccHhhHHHHhhcCCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREA---HIT-RCGHTFCFSCISKCVELQIKCPKCSASL   65 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~CP~C~~~~   65 (140)
                      ++++..|+||++.|.+.   ..+ +|||.||..|+.+|+..+..||+||.++
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            56788999999999753   334 6999999999999999999999999875

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.60  E-value=1.4e-16  Score=91.56  Aligned_cols=47  Identities=30%  Similarity=0.800  Sum_probs=41.7

Q ss_pred             Ccccccccchhhhcee-cCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHI-TRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      ...|+||++.+.+++. ++|||+||..|+.+|++.+..||+||.++..
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            3569999999988755 7999999999999999999999999998754

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=5.1e-15  Score=80.41  Aligned_cols=46  Identities=26%  Similarity=0.681  Sum_probs=38.0

Q ss_pred             cccccccchhhhc----eecCCCCcccHhhHHHHhhc-CCCCCCCCCCCCC
Q psy10659         22 LLCPICFELIREA----HITRCGHTFCFSCISKCVEL-QIKCPKCSASLPD   67 (140)
Q Consensus        22 ~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~-~~~CP~C~~~~~~   67 (140)
                      +.||||++.|...    ..++|||.||..|+.+|+.. +..||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            4799999988543    34589999999999999985 5579999998754

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.44  E-value=5.7e-14  Score=88.14  Aligned_cols=51  Identities=25%  Similarity=0.626  Sum_probs=40.6

Q ss_pred             CCCcccccccchhhhc------------------eecCCCCcccHhhHHHHhhc-----CCCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREA------------------HITRCGHTFCFSCISKCVEL-----QIKCPKCSASLPDMN   69 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p------------------~~~~CgH~fC~~Ci~~~~~~-----~~~CP~C~~~~~~~~   69 (140)
                      ..+..|+||++.+..+                  ..++|||.||..||..|+..     ...||+||..+..+.
T Consensus        23 ~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T d1v87a_          23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             cccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCc
Confidence            4456899999988643                  34689999999999999974     347999999876654

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=3.2e-13  Score=80.96  Aligned_cols=47  Identities=28%  Similarity=0.496  Sum_probs=38.8

Q ss_pred             Ccccccccchhhhc------------------eecCCCCcccHhhHHHHhhcCCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREA------------------HITRCGHTFCFSCISKCVELQIKCPKCSASLPD   67 (140)
Q Consensus        21 ~~~C~IC~~~~~~p------------------~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~~   67 (140)
                      +..|+||++.+.++                  +.++|||.||..||.+|++.+..||+||+.+..
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            34599998877542                  345899999999999999999999999997653

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.21  E-value=5e-12  Score=70.29  Aligned_cols=49  Identities=20%  Similarity=0.440  Sum_probs=40.5

Q ss_pred             CCCcccccccchhhhceecCC-----CCcccHhhHHHHhh--cCCCCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHITRC-----GHTFCFSCISKCVE--LQIKCPKCSASLPD   67 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~~C-----gH~fC~~Ci~~~~~--~~~~CP~C~~~~~~   67 (140)
                      ++...|+||++.+.++...+|     +|.||..|+..|+.  ++..||+||+++..
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            466889999999888766654     59999999999995  45689999987653

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=1.8e-09  Score=64.77  Aligned_cols=45  Identities=29%  Similarity=0.702  Sum_probs=34.4

Q ss_pred             CCcccccccchhhh---ceecCCCCcccHhhHHHHhhc-----C---CCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE---AHITRCGHTFCFSCISKCVEL-----Q---IKCPKCSAS   64 (140)
Q Consensus        20 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~-----~---~~CP~C~~~   64 (140)
                      ....|+||++.+..   +..++|||.||..|+..|++.     .   ..||.|+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            35789999998753   334589999999999999952     1   369987643

>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=96.36  E-value=0.0018  Score=35.47  Aligned_cols=34  Identities=35%  Similarity=1.024  Sum_probs=29.6

Q ss_pred             CCcccccccchhhhceecCC----CCcccHhhHHHHhh
Q psy10659         20 NDLLCPICFELIREAHITRC----GHTFCFSCISKCVE   53 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~C----gH~fC~~Ci~~~~~   53 (140)
                      ..+.|.+|.+-+.+.....|    +|.||..|-..+++
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik   44 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIK   44 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHH
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHH
Confidence            35899999999998876655    89999999999986

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.36  E-value=0.018  Score=32.37  Aligned_cols=36  Identities=25%  Similarity=0.603  Sum_probs=28.7

Q ss_pred             CCCCCCcccccccchhhhceecC---CCCcccHhhHHHHh
Q psy10659         16 SPPDNDLLCPICFELIREAHITR---CGHTFCFSCISKCV   52 (140)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~p~~~~---CgH~fC~~Ci~~~~   52 (140)
                      +.+..+..|+|| ..|..-..+|   |+.+|+..|+.+.-
T Consensus        10 e~v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~g   48 (89)
T d1wila_          10 EPVVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRMG   48 (89)
T ss_dssp             CCCCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHHT
T ss_pred             cCCCcCcccccc-CcccccceecceeecchhhHHHHHHhc
Confidence            456778999999 7776666655   89999999999873

>d1dvpa2 g.50.1.1 (A:149-220) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Hrs
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=93.62  E-value=0.013  Score=32.27  Aligned_cols=41  Identities=22%  Similarity=0.460  Sum_probs=27.1

Q ss_pred             CCCCCCCChhhhhcCCCCCCCcccccccchhhhce----ecCCCCcccHhhHH
Q psy10659          1 MSATSTPSRSLKRQHSPPDNDLLCPICFELIREAH----ITRCGHTFCFSCIS   49 (140)
Q Consensus         1 ms~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~   49 (140)
                      |..+..++.+..        +..|.+|...|.--.    --.||++||..|..
T Consensus         1 m~~~~~~p~W~~--------~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~   45 (72)
T d1dvpa2           1 MFTADTAPNWAD--------GRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTA   45 (72)
T ss_dssp             CCCCSCCCCCCC--------CSBCTTTCCBCCSSSCCEECTTTCCEECSTTSC
T ss_pred             CCcCCCCCCCCc--------CCccccCCCcccCccccccccccCCeeChhhhC
Confidence            555555554432        346999999875321    23799999999964

>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=91.95  E-value=0.054  Score=28.37  Aligned_cols=42  Identities=24%  Similarity=0.686  Sum_probs=30.6

Q ss_pred             CCcccccccchhhhcee---cCCCCcccHhhHHHHhhcCCCCCCC
Q psy10659         20 NDLLCPICFELIREAHI---TRCGHTFCFSCISKCVELQIKCPKC   61 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~---~~CgH~fC~~Ci~~~~~~~~~CP~C   61 (140)
                      ....|--|...+.+...   ..|++.||.+|=.-.-+.-..||.|
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            35678889888876543   2799999999955333455779988

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=91.15  E-value=0.22  Score=27.89  Aligned_cols=50  Identities=24%  Similarity=0.596  Sum_probs=37.0

Q ss_pred             CCcccccccchhhh-----ceec--CCCCcccHhhHHHHh-hcCCCCCCCCCCCCCCC
Q psy10659         20 NDLLCPICFELIRE-----AHIT--RCGHTFCFSCISKCV-ELQIKCPKCSASLPDMN   69 (140)
Q Consensus        20 ~~~~C~IC~~~~~~-----p~~~--~CgH~fC~~Ci~~~~-~~~~~CP~C~~~~~~~~   69 (140)
                      ....|.||.+....     +.+.  .|+--.|+.|.+-=. ..+..||.|+..+....
T Consensus        15 ~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr~k   72 (93)
T d1weoa_          15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLR   72 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCCT
T ss_pred             ccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhhhc
Confidence            35789999997742     3332  689999999997444 36788999999876643

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.48  E-value=0.069  Score=26.88  Aligned_cols=41  Identities=22%  Similarity=0.643  Sum_probs=27.7

Q ss_pred             ccccccchhhhc-eec--CCCCcccHhhHHHHhhc----CCCCCCCCC
Q psy10659         23 LCPICFELIREA-HIT--RCGHTFCFSCISKCVEL----QIKCPKCSA   63 (140)
Q Consensus        23 ~C~IC~~~~~~p-~~~--~CgH~fC~~Ci~~~~~~----~~~CP~C~~   63 (140)
                      .|.||...-... ++.  .|...||..|+..-+..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            588887644322 222  79999999999865543    346998874

>d1vfya_ g.50.1.1 (A:) vps27p protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: vps27p protein
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.33  E-value=0.14  Score=27.37  Aligned_cols=28  Identities=32%  Similarity=0.583  Sum_probs=20.4

Q ss_pred             cccccccchhhhc---e-ecCCCCcccHhhHH
Q psy10659         22 LLCPICFELIREA---H-ITRCGHTFCFSCIS   49 (140)
Q Consensus        22 ~~C~IC~~~~~~p---~-~~~CgH~fC~~Ci~   49 (140)
                      ..|.+|...|.--   . --.||.+||..|..
T Consensus         6 ~~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~   37 (67)
T d1vfya_           6 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSS   37 (67)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSC
T ss_pred             cccccCCCcccCcccccccccCCCEecccccC
Confidence            4699999877521   1 12699999999954

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.90  E-value=0.014  Score=29.96  Aligned_cols=28  Identities=25%  Similarity=0.676  Sum_probs=19.1

Q ss_pred             ccccccchhhhc----eecCCCCcccHhhHHH
Q psy10659         23 LCPICFELIREA----HITRCGHTFCFSCISK   50 (140)
Q Consensus        23 ~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~   50 (140)
                      .|.+|...|.--    .--.||.+||..|...
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~   33 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQ   33 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCC
Confidence            477777766522    1237999999999643

>d1wfla_ g.80.1.1 (A:) Zinc finger A20 domain containing protein 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 domain containing protein 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.78  E-value=0.28  Score=26.75  Aligned_cols=28  Identities=25%  Similarity=0.497  Sum_probs=20.7

Q ss_pred             CCcccccccchhhh-ceecCCCCcccHhh
Q psy10659         20 NDLLCPICFELIRE-AHITRCGHTFCFSC   47 (140)
Q Consensus        20 ~~~~C~IC~~~~~~-p~~~~CgH~fC~~C   47 (140)
                      ...+|.+|..-+.- ++.-.||+.||...
T Consensus        24 k~~RC~~C~KKl~l~~~~CrCg~~FC~~H   52 (74)
T d1wfla_          24 KKNRCFMCRKKVGLTGFDCRCGNLFCGLH   52 (74)
T ss_dssp             CTTBCSSSCCBCGGGCEECTTSCEECSSS
T ss_pred             CCCcChhhCCcccceeeEccCCCEehhhc
Confidence            45699999976543 45558999999854

>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=86.74  E-value=0.24  Score=27.06  Aligned_cols=28  Identities=29%  Similarity=0.576  Sum_probs=21.1

Q ss_pred             CCcccccccchhhhc-eecCCCCcccHhh
Q psy10659         20 NDLLCPICFELIREA-HITRCGHTFCFSC   47 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p-~~~~CgH~fC~~C   47 (140)
                      ...+|.+|..-+.-. +.-.||+.||...
T Consensus        24 kk~RC~~C~KKl~l~~~~CrCg~~FC~~H   52 (74)
T d1wfpa_          24 TATRCLSCNKKVGVTGFKCRCGSTFCGTH   52 (74)
T ss_dssp             CCCBCSSSCCBCTTTCEECTTSCEECTTT
T ss_pred             CCCcChhcCCccCCCceecCCCChhhhcc
Confidence            468899999866543 3348999999865

>d1joca1 g.50.1.1 (A:1348-1411) Eea1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Eea1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.70  E-value=0.11  Score=27.60  Aligned_cols=29  Identities=24%  Similarity=0.546  Sum_probs=21.2

Q ss_pred             Ccccccccchhhhce----ecCCCCcccHhhHH
Q psy10659         21 DLLCPICFELIREAH----ITRCGHTFCFSCIS   49 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~   49 (140)
                      ...|.+|...|.--.    --.||++||..|..
T Consensus         8 ~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~   40 (64)
T d1joca1           8 VQNCMACGKGFSVTVRRHHCRQCGNIFCAECSA   40 (64)
T ss_dssp             CCBCTTTCCBCCSSSCCEECTTTCCEECGGGSC
T ss_pred             CCcCcCcCCcccCCccccchhhhCCeecccccC
Confidence            457999988775321    13799999999954

>d2fiya1 e.59.1.1 (A:19-308) FdhE homolog PA4809 {Pseudomonas aeruginosa [TaxId: 287]}

class: Multi-domain proteins (alpha and beta)
fold: FdhE-like
superfamily: FdhE-like
family: FdhE-like
domain: FdhE homolog PA4809
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=86.46  E-value=0.06  Score=37.46  Aligned_cols=47  Identities=26%  Similarity=0.503  Sum_probs=34.9

Q ss_pred             CCCCcccccccchhhhceecC----C--CCcccHhhHHHHhhcCCCCCCCCCC
Q psy10659         18 PDNDLLCPICFELIREAHITR----C--GHTFCFSCISKCVELQIKCPKCSAS   64 (140)
Q Consensus        18 ~~~~~~C~IC~~~~~~p~~~~----C--gH~fC~~Ci~~~~~~~~~CP~C~~~   64 (140)
                      ....-.||+|.....-.++..    =  .+.+|.-|-.+|--....||.|+..
T Consensus       161 ~~~~~~CPvCGs~P~~s~l~~~~~~~G~R~l~C~~C~teW~~~R~~C~~Cg~~  213 (290)
T d2fiya1         161 TESRTLCPACGSPPMAGMIRQGGKETGLRYLSCSLCACEWHYVRIKCSHCEES  213 (290)
T ss_dssp             CTTCSSCTTTCCCEEEEEEEC----CCEEEEEETTTCCEEECCTTSCSSSCCC
T ss_pred             cccCCcCCCCCCcchhheeeccCCCCCceEEECCCCCCccccccccCCCCCCC
Confidence            344568999999765444321    2  3678999999998888899999865

>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=84.30  E-value=0.022  Score=30.97  Aligned_cols=41  Identities=34%  Similarity=0.800  Sum_probs=27.0

Q ss_pred             CcccccccchhhhceecCCCCcccHhhHHHHhhcCCCCCCCCCCCC
Q psy10659         21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLP   66 (140)
Q Consensus        21 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~C~~~~~   66 (140)
                      ++.||.|...+..    .=||.+|..|-..+ .....||.|+.++.
T Consensus         2 ~~~CP~C~~eL~~----~~~~~~C~~C~~~~-~~~a~CPdC~~~Le   42 (71)
T d2jnea1           2 ELHCPQCQHVLDQ----DNGHARCRSCGEFI-EMKALCPDCHQPLQ   42 (71)
T ss_dssp             CCBCSSSCSBEEE----ETTEEEETTTCCEE-EEEEECTTTCSBCE
T ss_pred             CCcCCCccCcccc----cCCCEehhhhhhhh-eeEEeCCccccHHH
Confidence            4689999987653    12677777774432 22456999988764

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.97  E-value=0.52  Score=25.37  Aligned_cols=45  Identities=27%  Similarity=0.604  Sum_probs=29.9

Q ss_pred             CCCcccccccchhhhceec---CCCCcccHhhHH----HH-----hhcCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIREAHIT---RCGHTFCFSCIS----KC-----VELQIKCPKCSAS   64 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~p~~~---~CgH~fC~~Ci~----~~-----~~~~~~CP~C~~~   64 (140)
                      ++...| ||.....+...+   .|.--||..|+.    ..     ......||.|+..
T Consensus        14 ~~~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~   70 (76)
T d1wema_          14 PNALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             TTCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             CCcCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCc
Confidence            345778 898766554333   789999999982    11     1235789999643

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.46  E-value=0.19  Score=23.21  Aligned_cols=29  Identities=17%  Similarity=0.397  Sum_probs=24.4

Q ss_pred             CCcccccccchhhhceecCCCCcccHhhH
Q psy10659         20 NDLLCPICFELIREAHITRCGHTFCFSCI   48 (140)
Q Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci   48 (140)
                      ..-.|.+|...+.+.+.-..|-.|+..|+
T Consensus         7 tlEkC~~C~~~I~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           7 TLEKCATCSQPILDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             SCCBCTTTCCBCCSCCEEETTEEECTTTC
T ss_pred             HHHHHHHhchHHHHHHHHHhCCCCCCCCC
Confidence            34689999999999888889999988873

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.41  E-value=0.033  Score=31.56  Aligned_cols=46  Identities=20%  Similarity=0.550  Sum_probs=30.6

Q ss_pred             CCCcccccccchhhh---ceec--CCCCcccHhhHHHHh-----h---cCCCCCCCCCC
Q psy10659         19 DNDLLCPICFELIRE---AHIT--RCGHTFCFSCISKCV-----E---LQIKCPKCSAS   64 (140)
Q Consensus        19 ~~~~~C~IC~~~~~~---p~~~--~CgH~fC~~Ci~~~~-----~---~~~~CP~C~~~   64 (140)
                      +..+.|.||......   .++.  .|+..||..|+...+     .   ....||.|...
T Consensus        14 ~~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~   72 (88)
T d1weva_          14 EMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQ   72 (88)
T ss_dssp             HHCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHH
T ss_pred             cCcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCch
Confidence            346789999875432   2332  799999999975321     1   24579999653

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.39  E-value=0.19  Score=23.32  Aligned_cols=26  Identities=15%  Similarity=0.287  Sum_probs=23.3

Q ss_pred             cccccccchhhhceecCCCCcccHhh
Q psy10659         22 LLCPICFELIREAHITRCGHTFCFSC   47 (140)
Q Consensus        22 ~~C~IC~~~~~~p~~~~CgH~fC~~C   47 (140)
                      ..|.-|...+...++...|.+|+..|
T Consensus         9 pkC~~C~~~I~g~~v~Al~~~wHpeC   34 (35)
T d1x3ha1           9 PKCGGCNRPVLENYLSAMDTVWHPEC   34 (35)
T ss_dssp             CBCTTTCCBCCSSCEEETTEEECTTT
T ss_pred             hhhhhcCCcccchheeecCCccCccc
Confidence            57999999999999999999999887