Citrus Sinensis ID: 045417

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180----
Protein Sequence
MGSRLLPYSAKHGTNPLSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPSGAGGNRSRRGAARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP
Secondary Structure (PSIPRED)
cccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHcccEEEEcccccccccccccccEEccccccccEEccccccccccccccHHHHHccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHHHEHHHHHHHHcccEEHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHccEEEEEccccccccccccEEEEEEcccccccEEEEcccccccccHHHHHHHHHcccccccccccccccc
Coil and Loop (DISEMBL)
mgsrllpysakhgtnPLSLLLLMLLVANAlplslaqrspespgsvdpysnmkfspsLAIIIVVLISALFFMGFFSIYIRhcsdssnsvirpsgaggnrsrrgaargldrevidtfptfvysdvktlkvgkgALECAVCLnefeddetlrlipkcdhvfhpecIDAWleshttcpvcrsnlasep
Flexible Loop (DISEMBL)
mgsrllpysakhgTNPLSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHcsdssnsvirpsgaggnrsrrgaargldrevidtfptfvysdvktlkVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP
Low Complexity Region (SEG)
MGSRLLPYSAKHGTnplsllllmllvanalplslAQRSPESPGSVDPYSNMKFSPslaiiivvlisalffMGFFSIYIRHCSDSSNSVIrpsgaggnrsrrgaargLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP
Disordered region (IsUnstruct)
*************TNPLSLLLLMLLVANALPLS*******************FSPSLAIIIVVLISALFFMGFFSIYIRHCS************************LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR*******
Disordered Region (DISOPRED)
***********HGTNPLSLLLLMLLV*****************************SLAIIIVVLISALFFMGFFSIYIRHCS****************************VIDTFPTFVYS************ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL****
Disordered Region (DISEMBL)
MGSRLLPYSAKHGTNPLSLLLLMLLVANALPLSL***********DPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIR*************ARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP
Disordered Region (DISPRO)
*****L**SA*HGTNPLSLLLLMLLVANALPLSLAQRSP***********MKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDS*********************GLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN*****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGSRLLPYSAKHGTNPLSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPSGAGGNRSRRGAARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP
Positional Conservation
no confident homologs detected

---

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	184	2.2.26 [Sep-21-2011]
Q8RXX9	398	E3 ubiquitin-protein liga	yes	no	0.875	0.404	0.605	6e-56
Q8LGA5	368	E3 ubiquitin-protein liga	no	no	0.75	0.375	0.635	3e-49
Q84W40	404	RING-H2 finger protein AT	no	no	0.722	0.329	0.610	7e-44
Q9SK92	381	E3 ubiquitin-protein liga	no	no	0.744	0.359	0.577	2e-39
O64763	378	E3 ubiquitin-protein liga	no	no	0.673	0.328	0.530	1e-34
Q8W571	323	RING-H2 finger protein AT	no	no	0.684	0.390	0.514	2e-34
Q9C7I1	327	RING-H2 finger protein AT	no	no	0.853	0.480	0.423	6e-31
Q9M0R5	345	Putative RING-H2 finger p	no	no	0.668	0.356	0.488	8e-31
O64762	302	RING-H2 finger protein AT	no	no	0.760	0.463	0.437	1e-29
Q9M0R6	302	Putative RING-H2 finger p	no	no	0.739	0.450	0.390	3e-27

>sp|Q8RXX9|ATL6_ARATH E3 ubiquitin-protein ligase ATL6 OS=Arabidopsis thaliana GN=ATL6 PE=1 SV=2

 Score =  216 bits (550), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 103/170 (60%), Positives = 130/170 (76%), Gaps = 9/170 (5%)

Query: 17  LSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSI 76
           L ++ L++L +  L  S +Q  P +     PY+  + SP++A+I+V+LI+ALFFMGFFSI
Sbjct: 13  LPIVFLLILSSADLAASQSQPGPTN----QPYNYGRLSPAMAVIVVILIAALFFMGFFSI 68

Query: 77  YIRHCSDSSNSVIRPSGAGGNRSR---RGAARGLDREVIDTFPTFVYSDVKTLKVGKGAL 133
           Y RHCS   ++ + P  AGG RSR     AARGLD  V++TFPTF+YSDVKT K+GKG L
Sbjct: 69  YFRHCSGVPDAGVSP--AGGARSRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGEL 126

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           ECA+CLNEFEDDETLRL+PKCDHVFHP CIDAWLE+H TCPVCR+NLA +
Sbjct: 127 ECAICLNEFEDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANLAEQ 176

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro. May be involved in the plant C/N response and the early steps of the plant defense signaling pathway.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8LGA5|ATL31_ARATH E3 ubiquitin-protein ligase ATL31 OS=Arabidopsis thaliana GN=ATL31 PE=1 SV=2

 Score =  194 bits (493), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 89/140 (63%), Positives = 114/140 (81%), Gaps = 2/140 (1%)

Query: 46  DPYS-NMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPSGAGGNR-SRRGA 103
           DPY+ +   SP++A+++VV+I+ALFFMGFF++YIRHC+ + +  + P+G    R +    
Sbjct: 33  DPYAYSGSLSPAMAVVVVVVIAALFFMGFFTVYIRHCTGAVDGSVTPAGGARRRVTNATV 92

Query: 104 ARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECI 163
           ARGLD E I+TFPTFVYS+VKT K+GKGALECA+CLNEFEDDETLRL+PKCDHVFHP CI
Sbjct: 93  ARGLDAETIETFPTFVYSEVKTQKIGKGALECAICLNEFEDDETLRLLPKCDHVFHPHCI 152

Query: 164 DAWLESHTTCPVCRSNLASE 183
            AWL+ H TCPVCR+NLA +
Sbjct: 153 GAWLQGHVTCPVCRTNLAEQ 172

E3 ubiquitin-protein ligase that is required for the plant C/N response during seedling growth transition. May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q84W40|ATL11_ARATH RING-H2 finger protein ATL11 OS=Arabidopsis thaliana GN=ATL11 PE=2 SV=2

 Score =  176 bits (446), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 83/136 (61%), Positives = 104/136 (76%), Gaps = 3/136 (2%)

Query: 52  KFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVI--RPSGAGGN-RSRRGAARGLD 108
           +F P++AI+++VL+S  FF+GFFS+YIR C +    +    P+ AG    + R  ARGLD
Sbjct: 58  RFDPTMAILMIVLVSVFFFLGFFSVYIRRCLERVMGMDYGNPNDAGNWLATNRQQARGLD 117

Query: 109 REVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 168
             +I+TFPTF YS VKTL++GK ALEC+VCLNEFEDDETLRLIPKC HVFHP CIDAWL 
Sbjct: 118 ASIIETFPTFQYSTVKTLRIGKEALECSVCLNEFEDDETLRLIPKCCHVFHPGCIDAWLR 177

Query: 169 SHTTCPVCRSNLASEP 184
           SHTTCP+CR++L   P
Sbjct: 178 SHTTCPLCRADLIPVP 193

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SK92|ATL15_ARATH E3 ubiquitin-protein ligase ATL15 OS=Arabidopsis thaliana GN=ATL15 PE=1 SV=1

 Score =  162 bits (409), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 82/142 (57%), Positives = 99/142 (69%), Gaps = 5/142 (3%)

Query: 46  DPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPSGAG-GN--RSRRG 102
           D      FSP+ AII++VL+S  F +G  S+Y+R C    +++   SG G GN    R+ 
Sbjct: 28  DDEGRTSFSPTTAIIMIVLVSVFFALGCISVYMRRCL--QHALGMDSGGGPGNWLNVRQT 85

Query: 103 AARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPEC 162
              GLD  VI+TFPTF YS VKTL++GK ALEC VCLNEFEDDETLRLIP+C HVFHP C
Sbjct: 86  TEPGLDASVIETFPTFPYSTVKTLRIGKEALECPVCLNEFEDDETLRLIPQCCHVFHPGC 145

Query: 163 IDAWLESHTTCPVCRSNLASEP 184
           IDAWL S TTCP+CR+NL   P
Sbjct: 146 IDAWLRSQTTCPLCRANLVPVP 167

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8, UBC10, UBC11, UBC28 and UBC29 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O64763|ATL9_ARATH E3 ubiquitin-protein ligase ATL9 OS=Arabidopsis thaliana GN=ATL9 PE=1 SV=1

 Score =  145 bits (367), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 69/130 (53%), Positives = 92/130 (70%), Gaps = 6/130 (4%)

Query: 57  LAIIIVVLISALFFMGFFSIYIRHCSD--SSNSVIRPSGAGGN----RSRRGAARGLDRE 110
           + ++I VL   +FFM F SI+ R  +   S +S+ R + A       R RR  ARGLD E
Sbjct: 51  VVVVITVLFLVIFFMVFGSIFCRRSNAQFSRSSIFRSTDADAESQVVRIRRLTARGLDAE 110

Query: 111 VIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH 170
            I+TFPTF+YS+VK +++GKG +ECAVCL EFEDDETLRL+P C HVFH +C+D WL  H
Sbjct: 111 AIETFPTFLYSEVKAVRIGKGGVECAVCLCEFEDDETLRLMPPCCHVFHADCVDVWLSEH 170

Query: 171 TTCPVCRSNL 180
           +TCP+CR++L
Sbjct: 171 STCPLCRADL 180

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro. May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8W571|ATL32_ARATH RING-H2 finger protein ATL32 OS=Arabidopsis thaliana GN=ATL32 PE=2 SV=3

 Score =  145 bits (365), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 69/134 (51%), Positives = 88/134 (65%), Gaps = 8/134 (5%)

Query: 54  SPSLAIIIVVLISALFFMGFFSIYIRHCS----DSSNSVIRPSGAGGNRSRRGAARGLDR 109
           +PS   +  VL++  F  G  S+YIRHC+    DSS    R     G+ SRRG   GLD 
Sbjct: 43  TPSKTTVFAVLVTLFFLTGLLSVYIRHCARSNPDSSTRYFRNRANDGS-SRRG---GLDN 98

Query: 110 EVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES 169
            V+++FP F YS VK  K+G   LECA+CLNE ED ET+RL+P C+H+FH +CID WL S
Sbjct: 99  AVVESFPVFAYSSVKESKIGSKDLECAICLNELEDHETVRLLPICNHLFHIDCIDTWLYS 158

Query: 170 HTTCPVCRSNLASE 183
           H TCPVCRSNL ++
Sbjct: 159 HATCPVCRSNLTAK 172

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C7I1|ATL34_ARATH RING-H2 finger protein ATL34 OS=Arabidopsis thaliana GN=ATL34 PE=2 SV=1

 Score =  133 bits (335), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 72/170 (42%), Positives = 104/170 (61%), Gaps = 13/170 (7%)

Query: 19  LLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFF-MGFFSIY 77
           LLLL+L V+        Q  P +  +  PY   + +   A+II +L+  L F M    + 
Sbjct: 17  LLLLVLQVS-------GQHQPRT--TAPPYIAQRPNQVPAVIIAMLMFTLLFSMLACCVC 67

Query: 78  IRHCSDSSNSVIRPSGAGGNRS---RRGAARGLDREVIDTFPTFVYSDVKTLKVGKGALE 134
            ++ + S +     +  GG+      R  +RGL ++VI++FP+F+YS VK LK+GKG +E
Sbjct: 68  YKYTNTSPHGTSSDTEEGGHGEVAFTRRTSRGLGKDVINSFPSFLYSQVKGLKIGKGGVE 127

Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           CA+CLNEFED+ETLRL+P C H FH  CID WL S +TCPVCR++L  +P
Sbjct: 128 CAICLNEFEDEETLRLMPPCSHAFHASCIDVWLSSRSTCPVCRASLPPKP 177

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M0R5|ATL36_ARATH Putative RING-H2 finger protein ATL36 OS=Arabidopsis thaliana GN=ATL36 PE=3 SV=1

 Score =  133 bits (334), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 62/127 (48%), Positives = 86/127 (67%), Gaps = 4/127 (3%)

Query: 58  AIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPSGAGGNRSRRGAARGLDREVIDTFPT 117
           +II +V+++    +G  S  + HC      +     AG +     A RGL++EVI++FPT
Sbjct: 50  SIIAIVVLAIFISLGMVSCCL-HCIFYREEI---GAAGQDVLHSRARRGLEKEVIESFPT 105

Query: 118 FVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177
           F+YS+VK LK+GKG +ECA+CL+EFED ETLR +P C H FH  CID WL S +TCPVCR
Sbjct: 106 FLYSEVKGLKIGKGGVECAICLSEFEDQETLRWMPPCSHTFHANCIDVWLSSWSTCPVCR 165

Query: 178 SNLASEP 184
           +NL+ +P
Sbjct: 166 ANLSLKP 172

Arabidopsis thaliana (taxid: 3702)

>sp|O64762|ATL38_ARATH RING-H2 finger protein ATL38 OS=Arabidopsis thaliana GN=ATL38 PE=2 SV=1

 Score =  129 bits (324), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/144 (43%), Positives = 90/144 (62%), Gaps = 4/144 (2%)

Query: 45  VDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDS--SNSVIRPSGAGGNRSRRG 102
           V P + +K S    ++I +++ A+F +G  S+  R  S    S   I P       SR  
Sbjct: 2   VQPGTEIKASDLTLLVITIILFAIFIVGLASVCFRWTSRQFYSQESINPFTDSDVESRTS 61

Query: 103 --AARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHP 160
             A RGLD  +I++FPTF+YS+VK  ++G G +ECAVC+ EFED ETLRL+P+C HVFH 
Sbjct: 62  ITAVRGLDEAIINSFPTFLYSEVKERRIGIGGVECAVCICEFEDHETLRLMPECCHVFHA 121

Query: 161 ECIDAWLESHTTCPVCRSNLASEP 184
           +C+  WL  H+TCP+CR +L  +P
Sbjct: 122 DCVSVWLSDHSTCPLCRVDLCLQP 145

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M0R6|ATL35_ARATH Putative RING-H2 finger protein ATL35 OS=Arabidopsis thaliana GN=ATL35 PE=3 SV=1

 Score =  121 bits (303), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 55/141 (39%), Positives = 86/141 (60%), Gaps = 5/141 (3%)

Query: 44  SVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPSGAGGNRSRRGA 103
           SVD      F P+  +I +++++    +   + ++      +           +R+RRG 
Sbjct: 37  SVDRNRKTNF-PTETVIAIIVLAIFISLSMVACFLHKTFYRAEVEAASQEVFHSRARRG- 94

Query: 104 ARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECI 163
              L++E++++FP F+YS+VK LK+GKG +ECA+CL+EF D ETLR +P C H FH  CI
Sbjct: 95  ---LEKELVESFPIFLYSEVKGLKIGKGGVECAICLSEFVDKETLRWMPPCSHTFHANCI 151

Query: 164 DAWLESHTTCPVCRSNLASEP 184
           D WL S +TCP CR+NL+ +P
Sbjct: 152 DVWLSSQSTCPACRANLSLKP 172

Arabidopsis thaliana (taxid: 3702)

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	184
28558782	379	RING/c3HC4/PHD zinc finger-like protein	0.804	0.390	0.68	1e-54
297829040	398	hypothetical protein ARALYDRAFT_477807 [	0.875	0.404	0.605	3e-54
6729030	392	putative RING-H2 zinc finger protein ATL	0.875	0.410	0.605	3e-54
18397153	398	E3 ubiquitin-protein ligase ATL6 [Arabid	0.875	0.404	0.605	3e-54
19347753	388	putative RING-H2 zinc finger protein ATL	0.875	0.414	0.605	3e-54
449442843	379	PREDICTED: E3 ubiquitin-protein ligase A	0.798	0.387	0.677	4e-54
225451024	420	PREDICTED: E3 ubiquitin-protein ligase A	0.885	0.388	0.627	2e-52
296088297	443	unnamed protein product [Vitis vinifera]	0.885	0.367	0.627	2e-52
224130990	374	predicted protein [Populus trichocarpa]	0.869	0.427	0.625	5e-52
4928403	398	RING-H2 zinc finger protein ATL6 [Arabid	0.875	0.404	0.588	2e-51

>gi|28558782|gb|AAO45753.1| RING/c3HC4/PHD zinc finger-like protein [Cucumis melo subsp. melo]

 Score =  217 bits (553), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 102/150 (68%), Positives = 119/150 (79%), Gaps = 2/150 (1%)

Query: 35  AQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPSGA 94
           AQ  P      DPY   + S S+A+IIV+LI+ALFFM FFS+YIRHC+DS ++ +RP  A
Sbjct: 26  AQFQPAPDPRSDPY-QYRLSGSMAVIIVILIAALFFMAFFSVYIRHCNDSPSNTVRPITA 84

Query: 95  GGNRSRRGAARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKC 154
              RSRR A RGLD  VI+TFPT +YSDVK  K+GK ALECAVCLNEFEDDETLRLIPKC
Sbjct: 85  AAGRSRR-ATRGLDPAVIETFPTLIYSDVKEHKIGKSALECAVCLNEFEDDETLRLIPKC 143

Query: 155 DHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           DHVFHPECIDAWL SH+TCPVCR+NL+ +P
Sbjct: 144 DHVFHPECIDAWLASHSTCPVCRANLSPQP 173

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297829040|ref|XP_002882402.1| hypothetical protein ARALYDRAFT_477807 [Arabidopsis lyrata subsp. lyrata] gi|297328242|gb|EFH58661.1| hypothetical protein ARALYDRAFT_477807 [Arabidopsis lyrata subsp. lyrata]

 Score =  216 bits (551), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 103/170 (60%), Positives = 130/170 (76%), Gaps = 9/170 (5%)

Query: 17  LSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSI 76
           L ++ L++L +  L  S +Q  P +     PY+  + SP++A+I+V+LI+ALFFMGFFSI
Sbjct: 13  LPIVFLLILSSADLAASQSQPGPAN----QPYNYGRLSPAMAVIVVILIAALFFMGFFSI 68

Query: 77  YIRHCSDSSNSVIRPSGAGGNRSR---RGAARGLDREVIDTFPTFVYSDVKTLKVGKGAL 133
           Y RHCS   ++ + P  AGG RSR     AARGLD  V++TFPTF+YSDVKT K+GKG L
Sbjct: 69  YFRHCSGVPDAGVSP--AGGARSRATVNAAARGLDASVVETFPTFLYSDVKTQKLGKGEL 126

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           ECA+CLNEFEDDETLRL+PKCDHVFHP CIDAWLE+H TCPVCR+NLA +
Sbjct: 127 ECAICLNEFEDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANLAEQ 176

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6729030|gb|AAF27026.1|AC009177_16 putative RING-H2 zinc finger protein ATL6 [Arabidopsis thaliana]

 Score =  216 bits (551), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 103/170 (60%), Positives = 130/170 (76%), Gaps = 9/170 (5%)

Query: 17  LSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSI 76
           L ++ L++L +  L  S +Q  P +     PY+  + SP++A+I+V+LI+ALFFMGFFSI
Sbjct: 7   LPIVFLLILSSADLAASQSQPGPTN----QPYNYGRLSPAMAVIVVILIAALFFMGFFSI 62

Query: 77  YIRHCSDSSNSVIRPSGAGGNRSR---RGAARGLDREVIDTFPTFVYSDVKTLKVGKGAL 133
           Y RHCS   ++ + P  AGG RSR     AARGLD  V++TFPTF+YSDVKT K+GKG L
Sbjct: 63  YFRHCSGVPDAGVSP--AGGARSRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGEL 120

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           ECA+CLNEFEDDETLRL+PKCDHVFHP CIDAWLE+H TCPVCR+NLA +
Sbjct: 121 ECAICLNEFEDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANLAEQ 170

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18397153|ref|NP_566249.1| E3 ubiquitin-protein ligase ATL6 [Arabidopsis thaliana] gi|68565231|sp|Q8RXX9.2|ATL6_ARATH RecName: Full=E3 ubiquitin-protein ligase ATL6; AltName: Full=RING-H2 finger protein ATL6; Flags: Precursor gi|70905101|gb|AAZ14076.1| At3g05200 [Arabidopsis thaliana] gi|332640683|gb|AEE74204.1| E3 ubiquitin-protein ligase ATL6 [Arabidopsis thaliana]

 Score =  216 bits (550), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 103/170 (60%), Positives = 130/170 (76%), Gaps = 9/170 (5%)

Query: 17  LSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSI 76
           L ++ L++L +  L  S +Q  P +     PY+  + SP++A+I+V+LI+ALFFMGFFSI
Sbjct: 13  LPIVFLLILSSADLAASQSQPGPTN----QPYNYGRLSPAMAVIVVILIAALFFMGFFSI 68

Query: 77  YIRHCSDSSNSVIRPSGAGGNRSR---RGAARGLDREVIDTFPTFVYSDVKTLKVGKGAL 133
           Y RHCS   ++ + P  AGG RSR     AARGLD  V++TFPTF+YSDVKT K+GKG L
Sbjct: 69  YFRHCSGVPDAGVSP--AGGARSRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGEL 126

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           ECA+CLNEFEDDETLRL+PKCDHVFHP CIDAWLE+H TCPVCR+NLA +
Sbjct: 127 ECAICLNEFEDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANLAEQ 176

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|19347753|gb|AAL86301.1| putative RING-H2 zinc finger protein ATL6 [Arabidopsis thaliana]

 Score =  216 bits (550), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 103/170 (60%), Positives = 130/170 (76%), Gaps = 9/170 (5%)

Query: 17  LSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSI 76
           L ++ L++L +  L  S +Q  P +     PY+  + SP++A+I+V+LI+ALFFMGFFSI
Sbjct: 13  LPIVFLLILSSADLAASQSQPGPTN----QPYNYGRLSPAMAVIVVILIAALFFMGFFSI 68

Query: 77  YIRHCSDSSNSVIRPSGAGGNRSR---RGAARGLDREVIDTFPTFVYSDVKTLKVGKGAL 133
           Y RHCS   ++ + P  AGG RSR     AARGLD  V++TFPTF+YSDVKT K+GKG L
Sbjct: 69  YFRHCSGVPDAGVSP--AGGARSRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGEL 126

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           ECA+CLNEFEDDETLRL+PKCDHVFHP CIDAWLE+H TCPVCR+NLA +
Sbjct: 127 ECAICLNEFEDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANLAEQ 176

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442843|ref|XP_004139190.1| PREDICTED: E3 ubiquitin-protein ligase ATL6-like [Cucumis sativus] gi|449518671|ref|XP_004166360.1| PREDICTED: E3 ubiquitin-protein ligase ATL6-like [Cucumis sativus]

 Score =  216 bits (549), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 101/149 (67%), Positives = 117/149 (78%), Gaps = 2/149 (1%)

Query: 35  AQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSSNSVIRPSGA 94
           AQ  P      DPY   + S S+A+IIV+LI+ALFFM FFS+YIRHC+DS ++ IRP   
Sbjct: 26  AQSQPSPDPRSDPY-QYRLSGSMAVIIVILIAALFFMAFFSVYIRHCNDSQSNTIRPITV 84

Query: 95  GGNRSRRGAARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKC 154
              RSRR A RGLD  VI+TFPT +YSDVK  K+GK ALECAVCLNEFEDDETLRLIPKC
Sbjct: 85  AAGRSRR-ATRGLDPAVIETFPTLIYSDVKEHKIGKSALECAVCLNEFEDDETLRLIPKC 143

Query: 155 DHVFHPECIDAWLESHTTCPVCRSNLASE 183
           DHVFHPECIDAWL SH+TCPVCR+NL+ +
Sbjct: 144 DHVFHPECIDAWLASHSTCPVCRANLSPQ 172

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451024|ref|XP_002284899.1| PREDICTED: E3 ubiquitin-protein ligase ATL6 isoform 1 [Vitis vinifera] gi|147843962|emb|CAN83712.1| hypothetical protein VITISV_011102 [Vitis vinifera]

 Score =  210 bits (534), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 111/177 (62%), Positives = 133/177 (75%), Gaps = 14/177 (7%)

Query: 10  AKHGTNPLSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALF 69
           ++HGT      + + ++   LP + AQ    S  S DPY   +FS S+AIIIV+L++ALF
Sbjct: 27  SQHGT------VSLWILLLLLPFAGAQ----SDTSNDPYQQQRFSSSMAIIIVILVAALF 76

Query: 70  FMGFFSIYIRHCSDSSN--SVIRPSGAGGNRSRRGAARGLDREVIDTFPTFVYSDVKTLK 127
            MGFFS+YIRHCSDS N  S+   +GA   RSRRG  RGLD+ V++TFPTF YS VK LK
Sbjct: 77  LMGFFSVYIRHCSDSRNGGSIRAAAGAALGRSRRGT-RGLDQAVLETFPTFEYSVVKGLK 135

Query: 128 VGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           +GKG LECAVCLNEFED+ETLRLIPKCDHVFHPECIDAWL SH TCPVCR+NL +EP
Sbjct: 136 IGKGVLECAVCLNEFEDNETLRLIPKCDHVFHPECIDAWLASHVTCPVCRANL-TEP 191

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296088297|emb|CBI36742.3| unnamed protein product [Vitis vinifera]

 Score =  210 bits (534), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 111/177 (62%), Positives = 133/177 (75%), Gaps = 14/177 (7%)

Query: 10  AKHGTNPLSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALF 69
           ++HGT      + + ++   LP + AQ    S  S DPY   +FS S+AIIIV+L++ALF
Sbjct: 55  SQHGT------VSLWILLLLLPFAGAQ----SDTSNDPYQQQRFSSSMAIIIVILVAALF 104

Query: 70  FMGFFSIYIRHCSDSSN--SVIRPSGAGGNRSRRGAARGLDREVIDTFPTFVYSDVKTLK 127
            MGFFS+YIRHCSDS N  S+   +GA   RSRRG  RGLD+ V++TFPTF YS VK LK
Sbjct: 105 LMGFFSVYIRHCSDSRNGGSIRAAAGAALGRSRRGT-RGLDQAVLETFPTFEYSVVKGLK 163

Query: 128 VGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           +GKG LECAVCLNEFED+ETLRLIPKCDHVFHPECIDAWL SH TCPVCR+NL +EP
Sbjct: 164 IGKGVLECAVCLNEFEDNETLRLIPKCDHVFHPECIDAWLASHVTCPVCRANL-TEP 219

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130990|ref|XP_002328426.1| predicted protein [Populus trichocarpa] gi|222838141|gb|EEE76506.1| predicted protein [Populus trichocarpa]

 Score =  209 bits (531), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 102/163 (62%), Positives = 126/163 (77%), Gaps = 3/163 (1%)

Query: 19  LLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSIYI 78
           L LL+L + +     ++Q +  + G   PY+  + +PS+AIIIVVLI+ LF MGFFSIYI
Sbjct: 3   LPLLVLFILSTPHGVVSQTTNTNDG--QPYNYARVTPSMAIIIVVLIAVLFIMGFFSIYI 60

Query: 79  RHCSDSS-NSVIRPSGAGGNRSRRGAARGLDREVIDTFPTFVYSDVKTLKVGKGALECAV 137
           RHC++++ N  IRP G GG   R  A+RGLD  VI+TFPT +YS VK LK+GKGALECAV
Sbjct: 61  RHCNEANGNGSIRPLGMGGLSRRVAASRGLDPAVIETFPTLIYSVVKGLKIGKGALECAV 120

Query: 138 CLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
           CLNEFE+DETLRLIP CDHVFHP+CI AWLESHTTCPVCR++L
Sbjct: 121 CLNEFEEDETLRLIPNCDHVFHPDCIGAWLESHTTCPVCRADL 163

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4928403|gb|AAD33584.1|AF132016_1 RING-H2 zinc finger protein ATL6 [Arabidopsis thaliana]

 Score =  207 bits (527), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 100/170 (58%), Positives = 127/170 (74%), Gaps = 9/170 (5%)

Query: 17  LSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGFFSI 76
           L ++ L++L +  L  S +Q  P +     PY+  + SP++A+I+ +LI+ALFF GFFSI
Sbjct: 13  LPIVFLLILSSADLAASQSQPGPTN----QPYNYGRLSPAMAVIVEILIAALFFRGFFSI 68

Query: 77  YIRHCSDSSNSVIRPSGAGGNRSR---RGAARGLDREVIDTFPTFVYSDVKTLKVGKGAL 133
             RHCS   ++ + P  AGG RSR     AARGLD  V++TFPTF+YSDVKT K+GKG L
Sbjct: 69  NFRHCSGVPDAGVSP--AGGVRSRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGEL 126

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           ECA+CLNEFEDDETLRL+PKCDHVFHP CIDAWLE+H TCPVCR+NLA +
Sbjct: 127 ECAICLNEFEDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANLAEQ 176

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	184
TAIR|locus:2096309	398	ATL6 "Arabidopsis toxicos en l	0.793	0.366	0.533	5.3e-40
TAIR|locus:2146330	368	CNI1 "carbon/nitrogen insensit	0.75	0.375	0.55	3.7e-39
TAIR|locus:2207026	404	AT1G72200 [Arabidopsis thalian	0.722	0.329	0.507	8.5e-33
TAIR|locus:2009527	381	ATL15 "Arabidopsis toxicos en	0.755	0.364	0.485	4.2e-31
TAIR|locus:2140069	323	AT4G40070 [Arabidopsis thalian	0.608	0.346	0.491	6.4e-28
TAIR|locus:2122363	345	AT4G09120 [Arabidopsis thalian	0.423	0.226	0.641	4.5e-27
TAIR|locus:2044757	378	ATL9 "Arabidopsis toxicos en l	0.402	0.195	0.662	5.7e-27
TAIR|locus:2206722	327	AT1G35330 [Arabidopsis thalian	0.423	0.238	0.628	1.2e-26
TAIR|locus:2122358	302	AT4G09110 [Arabidopsis thalian	0.423	0.258	0.576	5.9e-25
TAIR|locus:2122378	357	AT4G09130 [Arabidopsis thalian	0.407	0.210	0.586	2.6e-24

TAIR|locus:2096309 ATL6 "Arabidopsis toxicos en levadura 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 426 (155.0 bits), Expect = 5.3e-40, P = 5.3e-40
 Identities = 79/148 (53%), Positives = 94/148 (63%)

Query:    38 SPESPGSVD-PYSNMKFSPXXXXXXXXXXXXXXXMGFFSIYIRHCSDSSNSVIX-XXXXX 95
             S   PG  + PY+  + SP               MGFFSIY RHCS   ++ +       
Sbjct:    29 SQSQPGPTNQPYNYGRLSPAMAVIVVILIAALFFMGFFSIYFRHCSGVPDAGVSPAGGAR 88

Query:    96 XXXXXXXXXXXLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCD 155
                        LD  V++TFPTF+YSDVKT K+GKG LECA+CLNEFEDDETLRL+PKCD
Sbjct:    89 SRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGELECAICLNEFEDDETLRLLPKCD 148

Query:   156 HVFHPECIDAWLESHTTCPVCRSNLASE 183
             HVFHP CIDAWLE+H TCPVCR+NLA +
Sbjct:   149 HVFHPHCIDAWLEAHVTCPVCRANLAEQ 176

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0010200 "response to chitin" evidence=IEP;RCA

GO:0009814 "defense response, incompatible interaction" evidence=IEP

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP

GO:0002679 "respiratory burst involved in defense response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2146330 CNI1 "carbon/nitrogen insensitive 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 418 (152.2 bits), Expect = 3.7e-39, P = 3.7e-39
 Identities = 77/140 (55%), Positives = 91/140 (65%)

Query:    46 DPYS-NMKFSPXXXXXXXXXXXXXXXMGFFSIYIRHCSDS-SNSVIXXXXXXXXXXXXXX 103
             DPY+ +   SP               MGFF++YIRHC+ +   SV               
Sbjct:    33 DPYAYSGSLSPAMAVVVVVVIAALFFMGFFTVYIRHCTGAVDGSVTPAGGARRRVTNATV 92

Query:   104 XXXLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECI 163
                LD E I+TFPTFVYS+VKT K+GKGALECA+CLNEFEDDETLRL+PKCDHVFHP CI
Sbjct:    93 ARGLDAETIETFPTFVYSEVKTQKIGKGALECAICLNEFEDDETLRLLPKCDHVFHPHCI 152

Query:   164 DAWLESHTTCPVCRSNLASE 183
              AWL+ H TCPVCR+NLA +
Sbjct:   153 GAWLQGHVTCPVCRTNLAEQ 172

GO:0005576 "extracellular region" evidence=ISM

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

GO:0009737 "response to abscisic acid stimulus" evidence=IEP;RCA

GO:0010200 "response to chitin" evidence=IEP;RCA

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

GO:0016020 "membrane" evidence=IDA

GO:0043562 "cellular response to nitrogen levels" evidence=IMP

GO:0009814 "defense response, incompatible interaction" evidence=IEP

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP

GO:0002679 "respiratory burst involved in defense response" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

GO:0009414 "response to water deprivation" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009723 "response to ethylene stimulus" evidence=RCA

GO:0009733 "response to auxin stimulus" evidence=RCA

GO:0009738 "abscisic acid mediated signaling pathway" evidence=RCA

GO:0009753 "response to jasmonic acid stimulus" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=RCA

TAIR|locus:2207026 AT1G72200 [Arabidopsis thaliana (taxid:3702)]

 Score = 358 (131.1 bits), Expect = 8.5e-33, P = 8.5e-33
 Identities = 69/136 (50%), Positives = 82/136 (60%)

Query:    52 KFSPXXXXXXXXXXXXXXXMGFFSIYIRHCSDSSNSVIXXXXXXXX---XXXXXXXXXLD 108
             +F P               +GFFS+YIR C +    +                     LD
Sbjct:    58 RFDPTMAILMIVLVSVFFFLGFFSVYIRRCLERVMGMDYGNPNDAGNWLATNRQQARGLD 117

Query:   109 REVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 168
               +I+TFPTF YS VKTL++GK ALEC+VCLNEFEDDETLRLIPKC HVFHP CIDAWL 
Sbjct:   118 ASIIETFPTFQYSTVKTLRIGKEALECSVCLNEFEDDETLRLIPKCCHVFHPGCIDAWLR 177

Query:   169 SHTTCPVCRSNLASEP 184
             SHTTCP+CR++L   P
Sbjct:   178 SHTTCPLCRADLIPVP 193

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

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2009527 ATL15 "Arabidopsis toxicos en levadura 15" [Arabidopsis thaliana (taxid:3702)]

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 68/140 (48%), Positives = 79/140 (56%)

Query:    46 DPYSNMKFSPXXXXXXXXXXXXXXXMGFFSIYIRHCSDSSNSVIXXXXXXXXXXXXXXXX 105
             D      FSP               +G  S+Y+R C   +  +                 
Sbjct:    28 DDEGRTSFSPTTAIIMIVLVSVFFALGCISVYMRRCLQHALGMDSGGGPGNWLNVRQTTE 87

Query:   106 -XLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECID 164
               LD  VI+TFPTF YS VKTL++GK ALEC VCLNEFEDDETLRLIP+C HVFHP CID
Sbjct:    88 PGLDASVIETFPTFPYSTVKTLRIGKEALECPVCLNEFEDDETLRLIPQCCHVFHPGCID 147

Query:   165 AWLESHTTCPVCRSNLASEP 184
             AWL S TTCP+CR+NL   P
Sbjct:   148 AWLRSQTTCPLCRANLVPVP 167

GO:0005576 "extracellular region" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0009416 "response to light stimulus" evidence=IEP

GO:0033591 "response to L-ascorbic acid" evidence=IEP

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2140069 AT4G40070 [Arabidopsis thaliana (taxid:3702)]

 Score = 312 (114.9 bits), Expect = 6.4e-28, P = 6.4e-28
 Identities = 55/112 (49%), Positives = 70/112 (62%)

Query:    72 GFFSIYIRHCSDSSNSVIXXXXXXXXXXXXXXXXXLDREVIDTFPTFVYSDVKTLKVGKG 131
             G  S+YIRHC+ S+                     LD  V+++FP F YS VK  K+G  
Sbjct:    61 GLLSVYIRHCARSNPDSSTRYFRNRANDGSSRRGGLDNAVVESFPVFAYSSVKESKIGSK 120

Query:   132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
              LECA+CLNE ED ET+RL+P C+H+FH +CID WL SH TCPVCRSNL ++
Sbjct:   121 DLECAICLNELEDHETVRLLPICNHLFHIDCIDTWLYSHATCPVCRSNLTAK 172

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2122363 AT4G09120 [Arabidopsis thaliana (taxid:3702)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 50/78 (64%), Positives = 65/78 (83%)

Query:   107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 166
             L++EVI++FPTF+YS+VK LK+GKG +ECA+CL+EFED ETLR +P C H FH  CID W
Sbjct:    95 LEKEVIESFPTFLYSEVKGLKIGKGGVECAICLSEFEDQETLRWMPPCSHTFHANCIDVW 154

Query:   167 LESHTTCPVCRSNLASEP 184
             L S +TCPVCR+NL+ +P
Sbjct:   155 LSSWSTCPVCRANLSLKP 172

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

TAIR|locus:2044757 ATL9 "Arabidopsis toxicos en levadura 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 49/74 (66%), Positives = 63/74 (85%)

Query:   107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 166
             LD E I+TFPTF+YS+VK +++GKG +ECAVCL EFEDDETLRL+P C HVFH +C+D W
Sbjct:   107 LDAEAIETFPTFLYSEVKAVRIGKGGVECAVCLCEFEDDETLRLMPPCCHVFHADCVDVW 166

Query:   167 LESHTTCPVCRSNL 180
             L  H+TCP+CR++L
Sbjct:   167 LSEHSTCPLCRADL 180

GO:0005576 "extracellular region" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0010200 "response to chitin" evidence=IEP

GO:0050832 "defense response to fungus" evidence=IMP

GO:0048765 "root hair cell differentiation" evidence=RCA

TAIR|locus:2206722 AT1G35330 [Arabidopsis thaliana (taxid:3702)]

 Score = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 49/78 (62%), Positives = 64/78 (82%)

Query:   107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 166
             L ++VI++FP+F+YS VK LK+GKG +ECA+CLNEFED+ETLRL+P C H FH  CID W
Sbjct:   100 LGKDVINSFPSFLYSQVKGLKIGKGGVECAICLNEFEDEETLRLMPPCSHAFHASCIDVW 159

Query:   167 LESHTTCPVCRSNLASEP 184
             L S +TCPVCR++L  +P
Sbjct:   160 LSSRSTCPVCRASLPPKP 177

GO:0005576 "extracellular region" evidence=ISM

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

TAIR|locus:2122358 AT4G09110 [Arabidopsis thaliana (taxid:3702)]

 Score = 284 (105.0 bits), Expect = 5.9e-25, P = 5.9e-25
 Identities = 45/78 (57%), Positives = 62/78 (79%)

Query:   107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 166
             L++E++++FP F+YS+VK LK+GKG +ECA+CL+EF D ETLR +P C H FH  CID W
Sbjct:    95 LEKELVESFPIFLYSEVKGLKIGKGGVECAICLSEFVDKETLRWMPPCSHTFHANCIDVW 154

Query:   167 LESHTTCPVCRSNLASEP 184
             L S +TCP CR+NL+ +P
Sbjct:   155 LSSQSTCPACRANLSLKP 172

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

GO:0010043 "response to zinc ion" evidence=RCA

TAIR|locus:2122378 AT4G09130 [Arabidopsis thaliana (taxid:3702)]

 Score = 278 (102.9 bits), Expect = 2.6e-24, P = 2.6e-24
 Identities = 44/75 (58%), Positives = 59/75 (78%)

Query:   107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW 166
             +D++VI++FP F+YS+VK  K+G G +ECA+CL EFED+E LR +P C H FH  CID W
Sbjct:    92 IDKDVIESFPAFLYSEVKAFKIGNGGVECAICLCEFEDEEPLRWMPPCSHTFHANCIDEW 151

Query:   167 LESHTTCPVCRSNLA 181
             L S +TCPVCR+NL+
Sbjct:   152 LSSRSTCPVCRANLS 166

GO:0005576 "extracellular region" evidence=ISM

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	184
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	3e-16
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-12
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-11
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	5e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-07
smart00184	40	smart00184, RING, Ring finger	2e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-06
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	1e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	3e-04
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	4e-04
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	0.004
pfam12906	47	pfam12906, RINGv, RING-variant domain	0.004

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

 Score = 68.6 bits (168), Expect = 3e-16
 Identities = 25/45 (55%), Positives = 33/45 (73%), Gaps = 1/45 (2%)

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178
           EC +CL+EFE  E + ++P C HVFH EC+D WL S  TCP+CR+
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRA 45

Length = 46

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

 Score = 64.2 bits (156), Expect = 1e-12
 Identities = 35/169 (20%), Positives = 69/169 (40%), Gaps = 9/169 (5%)

Query: 14  TNPLSLLLLMLLVANALPLSLAQRSPESPGSVDPYSNMKFSPSLAIIIVVLISALFFMGF 73
           T  +++    L      P   A  + +  G +      +F  S    +V     +     
Sbjct: 210 TTSINVTWDGLGNTYQAPSQSA-EAQDETGDMFWPRLSRFVGSRGFRVVF--PRIPSQEL 266

Query: 74  FSIYIRHCSDSSNSVIRPSGAGGNRSRRGAARGLDREVIDTFPTFV-YSDVKTLKVGKGA 132
             +++     S  ++I       +     ++  +              S  + ++  KG 
Sbjct: 267 RFLFLTQSKGSRFNIILEIQINFDVGFYSSSEAIPTTTTKGS--LKPLSIERAVEADKG- 323

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNL 180
           +ECA+C++ F  ++ LR++P CDH FH  C+D WL  ++  CPVCR+ +
Sbjct: 324 VECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

>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 = 57.8 bits (140), Expect = 3e-12
 Identities = 21/48 (43%), Positives = 29/48 (60%), Gaps = 4/48 (8%)

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNL 180
           EC +CL EF +     ++  C HVF   CID WL+S   TCP+CR+ +
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 56.7 bits (137), Expect = 2e-11
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 9/52 (17%)

Query: 135 CAVCLNEFED---------DETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177
           CA+C N F+          D+   +  +C H FH  CI  WL++  TCP+CR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 56.3 bits (136), Expect = 5e-10
 Identities = 21/48 (43%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 134 ECAVCLNEFEDDET----LRLIPKCDHVFHPECIDAWLESHTTCPVCR 177
           ECA+C+ +  D E       ++  C+HVF  ECID W +   TCPVCR
Sbjct: 176 ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

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

 Score = 46.0 bits (109), Expect = 1e-07
 Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178
           LEC +CL+   D   L     C HVF  ECI  +L+  + CP+CR+
Sbjct: 3   LECPICLDLLRDPVVL---TPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 45.2 bits (107), Expect = 2e-07
 Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVC 176
           C +CL E+  D    ++P C H F   CI  WLES   TCP+C
Sbjct: 1   CPICLEEYLKD--PVILP-CGHTFCRSCIRKWLESGNNTCPIC 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|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 47.7 bits (113), Expect = 1e-06
 Identities = 23/86 (26%), Positives = 37/86 (43%), Gaps = 14/86 (16%)

Query: 105 RGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNE-FEDD-----ETLRLIPK---CD 155
           R   +++   +PT         ++      C +C++E F  D       L + PK   C 
Sbjct: 265 RRATKDLNAMYPT-----ATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG 319

Query: 156 HVFHPECIDAWLESHTTCPVCRSNLA 181
           H+ H  C+  WLE   TCP+CR  + 
Sbjct: 320 HILHLHCLKNWLERQQTCPICRRPVI 345

Length = 491

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

 Score = 43.7 bits (103), Expect = 2e-06
 Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 12/55 (21%)

Query: 135 CAVCLNEFED------------DETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177
           CA+C N                DE   +   C+H FH  CI  WL++   CP+ R
Sbjct: 23  CAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 41.7 bits (98), Expect = 5e-06
 Identities = 19/43 (44%), Positives = 29/43 (67%), Gaps = 4/43 (9%)

Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVC 176
           C +CL E +D   + ++P C H+F  +CI +WLES + TCP+C
Sbjct: 1   CPICLEEPKD--PVTILP-CGHLFCSKCILSWLESGNVTCPLC 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|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 5/46 (10%)

Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTT---CPVCR 177
           C  C  +F  D+   +  KC H FH  CI  WL + T+   CP+CR
Sbjct: 35  CPQC--KFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 40.4 bits (94), Expect = 3e-04
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 5/57 (8%)

Query: 131  GALECAVCLNEFED-DETL--RLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLAS 182
            G  ECA+C +  +  D +L  +    C + FH  C+  W  S   + CP+CRS +  
Sbjct: 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524

Length = 1525

>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional

 Score = 39.3 bits (91), Expect = 4e-04
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 14/70 (20%)

Query: 120 YSDVKTLKVGKGALECAVCL-----NEFEDDETLRLIPKCDHVFHPECIDAWLESH---- 170
           Y DV   +V K   EC +C         E+D    L+  C+H+F   CI+ W  +     
Sbjct: 161 YEDV--YRVSKEK-ECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETG 217

Query: 171 --TTCPVCRS 178
               CP+CR+
Sbjct: 218 ASDNCPICRT 227

Length = 242

>gnl|CDD|204746 pfam11793, FANCL_C, FANCL C-terminal domain

 Score = 34.3 bits (79), Expect = 0.004
 Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 15/67 (22%)

Query: 131 GALECAVCLNEFEDDETLRLI----PKCDHVFHPECIDAWLESHT-----------TCPV 175
             +EC +C     D   +  I    PKC   FH  C+  WL +             TCP 
Sbjct: 1   FEIECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPY 60

Query: 176 CRSNLAS 182
           C++ ++ 
Sbjct: 61  CKAKISV 67

This domain is found at the C-terminus of the Fancl protein in humans which is the putative E3 ubiquitin ligase subunit of the FA complex (Fanconi anaemia). Eight subunits of the Fanconi anaemia gene products form a multisubunit nuclear complex which is required for mono-ubiquitination of a downstream FA protein, FANCD2. Length = 70

>gnl|CDD|221845 pfam12906, RINGv, RING-variant domain

 Score = 33.9 bits (78), Expect = 0.004
 Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 5/47 (10%)

Query: 135 CAVCLNEFEDDETLRLIPKC---DHVFHPECIDAWLESH--TTCPVC 176
           C +CL   E+DE L    +C       H  C++ WL++   TTC +C
Sbjct: 1   CRICLEGEEEDEPLIRPCRCRGSLKYVHQSCLERWLKTSGNTTCEIC 47

Length = 47

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	184
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.85
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.67
PHA02929	238	N1R/p28-like protein; Provisional	99.53
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.52
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.45
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.32
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.24
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.21
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.19
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.18
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.15
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.13
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.13
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.05
PHA02926	242	zinc finger-like protein; Provisional	99.04
PF14634	44	zf-RING_5: zinc-RING finger domain	99.03
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	99.0
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.99
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.96
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.91
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.85
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.84
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.81
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.8
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.79
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.65
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.61
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.51
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.5
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.45
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.39
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.38
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.3
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.3
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.28
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.25
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.16
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.11
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.1
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.87
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.86
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.85
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.79
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.72
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.64
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.62
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.5
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.49
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.38
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.33
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.32
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.32
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.22
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	97.1
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	97.03
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.99
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.95
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.92
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.71
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.66
PHA02862	156	5L protein; Provisional	96.59
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.58
KOG2660	331	consensus Locus-specific chromosome binding protei	96.57
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.54
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.39
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.37
PHA03096	284	p28-like protein; Provisional	96.37
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.19
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.11
COG5152	259	Uncharacterized conserved protein, contains RING a	96.05
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.04
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.96
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.6
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.48
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.48
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.47
PF04641	260	Rtf2: Rtf2 RING-finger	95.19
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	94.79
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.73
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.68
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.63
KOG1940	276	consensus Zn-finger protein [General function pred	94.39
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.31
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	94.06
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.5
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.3
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	92.77
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	92.75
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.72
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	92.48
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.71
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	91.03
KOG1609	323	consensus Protein involved in mRNA turnover and st	90.57
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	90.34
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	90.25
KOG3002	299	consensus Zn finger protein [General function pred	90.24
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	89.75
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	89.66
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	89.52
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	89.09
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	87.49
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	86.07
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	86.0
KOG3899	381	consensus Uncharacterized conserved protein [Funct	85.96
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	85.75
KOG3053	293	consensus Uncharacterized conserved protein [Funct	85.51
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	85.35
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	85.34
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	84.71
PF01708	91	Gemini_mov: Geminivirus putative movement protein	84.29
KOG0825	1134	consensus PHD Zn-finger protein [General function	84.14
KOG0269	839	consensus WD40 repeat-containing protein [Function	82.1
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	81.9
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	81.33
PF11023	114	DUF2614: Protein of unknown function (DUF2614); In	80.2

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

Probab=99.85  E-value=1.5e-21  Score=164.48  Aligned_cols=76  Identities=32%  Similarity=0.840  Sum_probs=65.8

Q ss_pred             ccCCCCHHHHhhCCceeecccccccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCC-CccccCCCC
Q 045417          103 AARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTT-CPVCRSNLA  181 (184)
Q Consensus       103 ~~~gl~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~-CP~CR~~l~  181 (184)
                      +.+++.+..++++|...|...+.....   ..|+||||+|++||++|.|| |+|.||..|||.||.++.+ ||+||+++-
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~---~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDAT---DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCCC---ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            567788999999999999886554322   69999999999999999999 9999999999999977754 999999775


Q ss_pred             C
Q 045417          182 S  182 (184)
Q Consensus       182 ~  182 (184)
                      .
T Consensus       279 ~  279 (348)
T KOG4628|consen  279 T  279 (348)
T ss_pred             C
Confidence            4

>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=99.67  E-value=1.6e-17  Score=101.05  Aligned_cols=44  Identities=55%  Similarity=1.302  Sum_probs=40.3

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR  177 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR  177 (184)
                      ++|+||+++|.+++.+..++ |||.||.+||.+|++++.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            37999999999999999998 999999999999999999999998

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.53  E-value=7.7e-15  Score=118.94  Aligned_cols=77  Identities=31%  Similarity=0.676  Sum_probs=58.9

Q ss_pred             cCCCCHHHHhhCCceeecccccccCCCCCcccCccccccCCCC----ceeecCCCCCcccHHHHHHHHhcCCCCccccCC
Q 045417          104 ARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDE----TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN  179 (184)
Q Consensus       104 ~~gl~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~----~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  179 (184)
                      ..+..++.++++|.+.....+. .....+.+|+||++++.+++    .+.+++.|+|.||.+||.+|++.+.+||+||..
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~-~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~  225 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKL-YNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTP  225 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhh-hcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCE
Confidence            4566888999999886543222 12235679999999987654    234555699999999999999999999999987


Q ss_pred             CC
Q 045417          180 LA  181 (184)
Q Consensus       180 l~  181 (184)
                      +.
T Consensus       226 ~~  227 (238)
T PHA02929        226 FI  227 (238)
T ss_pred             ee
Confidence            64

>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=99.52  E-value=6.2e-15  Score=99.23  Aligned_cols=52  Identities=35%  Similarity=0.807  Sum_probs=38.6

Q ss_pred             cccCCCCCcccCccccccCCC----------CceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 045417          125 TLKVGKGALECAVCLNEFEDD----------ETLRLIPKCDHVFHPECIDAWLESHTTCPVCR  177 (184)
Q Consensus       125 ~~~~~~~~~eCaICL~~f~~~----------~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR  177 (184)
                      ..+....++.|+||++++.+.          -.+.+. .|||.||.+||.+||+.+.+||+||
T Consensus        12 ~~~~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~-~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   12 LWSWDIADDNCAICREPLEDPCPECQAPQDECPIVWG-PCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             EEEESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEE-TTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             EEeecCcCCcccccChhhhChhhhhcCCccccceEec-ccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            333344555799999999432          233344 4999999999999999999999998

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 ....

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

Probab=99.45  E-value=4e-14  Score=116.52  Aligned_cols=52  Identities=42%  Similarity=1.124  Sum_probs=47.5

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  182 (184)
                      ..+.||+||+++|-.+|+++.+| |+|.||..|++.|+. -+..||+||.++.|
T Consensus       321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            35689999999999999999999 999999999999997 56689999999986

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

Probab=99.32  E-value=6.6e-13  Score=112.01  Aligned_cols=69  Identities=29%  Similarity=0.815  Sum_probs=51.2

Q ss_pred             CCHHHHhhCCceeecccccccCCCCCcccCcccccc-CCC---------CceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417          107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEF-EDD---------ETLRLIPKCDHVFHPECIDAWLESHTTCPVC  176 (184)
Q Consensus       107 l~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f-~~~---------~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C  176 (184)
                      ..++..+.+|+.+.+     +..+++..|.||+|++ ..+         .+-+.|| |||++|-+|+..|++++++||+|
T Consensus       267 ~~kdl~~~~~t~t~e-----ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPIC  340 (491)
T COG5243         267 ATKDLNAMYPTATEE-----QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPIC  340 (491)
T ss_pred             HhhHHHhhcchhhhh-----hhcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcc
Confidence            334445555554333     2356788999999994 433         1345677 99999999999999999999999


Q ss_pred             cCCCC
Q 045417          177 RSNLA  181 (184)
Q Consensus       177 R~~l~  181 (184)
                      |.++.
T Consensus       341 r~p~i  345 (491)
T COG5243         341 RRPVI  345 (491)
T ss_pred             cCccc
Confidence            99864

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

Probab=99.24  E-value=5.1e-12  Score=103.60  Aligned_cols=51  Identities=27%  Similarity=0.815  Sum_probs=44.2

Q ss_pred             CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417          129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  183 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  183 (184)
                      ......|.+|||..++....   | |||+||+.||.+|...+..||+||....|+
T Consensus       236 ~~a~~kC~LCLe~~~~pSaT---p-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSAT---P-CGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCCCCceEEEecCCCCCCcC---c-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            34567899999998876554   5 999999999999999999999999988765

>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=99.21  E-value=1.4e-11  Score=73.78  Aligned_cols=44  Identities=55%  Similarity=1.321  Sum_probs=36.7

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNL  180 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l  180 (184)
                      +|+||++.+  .+.+.+.+ |||.||.+|++.|++. +..||+||..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998  34455554 9999999999999987 77899999864

>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=99.19  E-value=1.6e-11  Score=76.54  Aligned_cols=46  Identities=35%  Similarity=0.962  Sum_probs=38.6

Q ss_pred             CcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      +.+|.||++...+   +.++| |||. |+..|+..|++++..||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4589999998654   56667 9999 999999999999999999999885

...

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.18  E-value=2.3e-11  Score=95.38  Aligned_cols=49  Identities=33%  Similarity=0.941  Sum_probs=39.4

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----------------CCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----------------HTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----------------~~~CP~CR~~l~~  182 (184)
                      .++.+|+||++.+++.  + +++ |||+||+.||..|+..                +.+||+||.++..
T Consensus        16 ~~~~~CpICld~~~dP--V-vT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         16 GGDFDCNICLDQVRDP--V-VTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CCccCCccCCCcCCCc--E-EcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            3568999999998764  2 334 9999999999999842                3479999998864

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

Probab=99.15  E-value=2.3e-11  Score=93.43  Aligned_cols=51  Identities=31%  Similarity=0.886  Sum_probs=43.5

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .+-..|+|||+.+.+...+-  .+|||+||.+||..-++....||+||+.|+.
T Consensus       129 ~~~~~CPiCl~~~sek~~vs--TkCGHvFC~~Cik~alk~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVS--TKCGHVFCSQCIKDALKNTNKCPTCRKKITH  179 (187)
T ss_pred             ccccCCCceecchhhccccc--cccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence            45579999999998765543  3799999999999999999999999987764

>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=99.13  E-value=4e-11  Score=70.91  Aligned_cols=39  Identities=46%  Similarity=1.215  Sum_probs=32.5

Q ss_pred             cCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417          135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVC  176 (184)
Q Consensus       135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C  176 (184)
                      |+||++++.+  .+..++ |||.|+.+||..|++++.+||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999886  445555 99999999999999999999998

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

Probab=99.13  E-value=3.6e-11  Score=82.31  Aligned_cols=52  Identities=31%  Similarity=0.738  Sum_probs=39.9

Q ss_pred             CCcccCccccccCC--------CCc-eeecCCCCCcccHHHHHHHHhc---CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFED--------DET-LRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~--------~~~-~r~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~  182 (184)
                      +++.|.||...|+.        |+. -.+...|+|.||.+||.+|+.+   +..||+||++...
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            46789999999972        232 2234469999999999999974   4689999997643

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

Probab=99.05  E-value=1.1e-10  Score=93.15  Aligned_cols=50  Identities=30%  Similarity=0.856  Sum_probs=39.7

Q ss_pred             CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc---CCCCccccCCCCC
Q 045417          129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLAS  182 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~  182 (184)
                      ..+..+|.||||.-++.  |..  -|||+||+-||.+||..   .+.||+||..|..
T Consensus        44 ~~~~FdCNICLd~akdP--VvT--lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP--VVT--LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CCCceeeeeeccccCCC--EEe--ecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            45778999999986653  433  29999999999999954   3468999998864

>PHA02926 zinc finger-like protein; Provisional

Probab=99.04  E-value=1.5e-10  Score=92.14  Aligned_cols=51  Identities=27%  Similarity=0.847  Sum_probs=39.1

Q ss_pred             CCcccCccccccCCC-----CceeecCCCCCcccHHHHHHHHhcC------CCCccccCCCC
Q 045417          131 GALECAVCLNEFEDD-----ETLRLIPKCDHVFHPECIDAWLESH------TTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~-----~~~r~lp~C~H~FH~~CI~~Wl~~~------~~CP~CR~~l~  181 (184)
                      .+.+|+||+|..-+.     ..--+|+.|+|.||..||..|.+.+      .+||+||....
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            457999999987432     1234677799999999999998653      35999998653

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.03  E-value=2.1e-10  Score=69.56  Aligned_cols=44  Identities=27%  Similarity=0.937  Sum_probs=38.2

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS  178 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  178 (184)
                      +|.||+++|.+....++++ |||+|+..|++.+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            5999999996666777776 9999999999999866778999985

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

Probab=99.00  E-value=2.3e-10  Score=76.72  Aligned_cols=50  Identities=30%  Similarity=0.711  Sum_probs=38.3

Q ss_pred             CcccCccccccCC-----------CC-ceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          132 ALECAVCLNEFED-----------DE-TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       132 ~~eCaICL~~f~~-----------~~-~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      -+.|+||...+.+           ++ ....--.|+|.||.+||..||..+..||++|+...
T Consensus        20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            4578888777742           33 33333459999999999999999999999998653

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

Probab=98.99  E-value=1.6e-10  Score=104.38  Aligned_cols=51  Identities=35%  Similarity=0.958  Sum_probs=44.3

Q ss_pred             CCCcccCccccccCCCCc--eeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDET--LRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~--~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ..+..|+||+|++..++.  .+.++ |+|+||..|+..|++++++||+||..+.
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            356799999999998765  66777 9999999999999999999999998443

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

Probab=98.96  E-value=4.1e-10  Score=67.00  Aligned_cols=39  Identities=46%  Similarity=1.261  Sum_probs=33.3

Q ss_pred             cCccccccCCCCceeecCCCCCcccHHHHHHHHh--cCCCCccc
Q 045417          135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE--SHTTCPVC  176 (184)
Q Consensus       135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~--~~~~CP~C  176 (184)
                      |+||++.+.+..  ++++ |||.|+.+||..|++  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999988654  5565 999999999999998  56679998

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>smart00184 RING Ring finger

Probab=98.91  E-value=1.2e-09  Score=63.01  Aligned_cols=38  Identities=42%  Similarity=1.236  Sum_probs=31.5

Q ss_pred             cCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccc
Q 045417          135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVC  176 (184)
Q Consensus       135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~C  176 (184)
                      |+||++..   .....++ |+|.||..|++.|++ .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999883   3455666 999999999999998 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)

>smart00504 Ubox Modified RING finger domain

Probab=98.85  E-value=3.6e-09  Score=68.48  Aligned_cols=46  Identities=28%  Similarity=0.632  Sum_probs=39.5

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ..|+||.+.+.++  + +++ |||+|+..||..|++++.+||+|+..+..
T Consensus         2 ~~Cpi~~~~~~~P--v-~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDP--V-ILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCC--E-ECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            4799999999875  3 345 99999999999999988999999988743

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

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

Probab=98.84  E-value=4.6e-10  Score=74.67  Aligned_cols=52  Identities=31%  Similarity=0.749  Sum_probs=39.4

Q ss_pred             CCCcccCccccccCC--------CC-ceeecCCCCCcccHHHHHHHHh---cCCCCccccCCCC
Q 045417          130 KGALECAVCLNEFED--------DE-TLRLIPKCDHVFHPECIDAWLE---SHTTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~--------~~-~~r~lp~C~H~FH~~CI~~Wl~---~~~~CP~CR~~l~  181 (184)
                      ..+..|-||..+|+.        || .-.++-.|.|.||.+||.+|+.   ++..||+||++..
T Consensus        18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            345589999999973        33 2234446999999999999995   4567999998754

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

Probab=98.81  E-value=2.1e-09  Score=64.62  Aligned_cols=38  Identities=37%  Similarity=1.035  Sum_probs=28.4

Q ss_pred             cCccccccCCCCceeecCCCCCcccHHHHHHHHhcC----CCCccc
Q 045417          135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH----TTCPVC  176 (184)
Q Consensus       135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~----~~CP~C  176 (184)
                      |+||++.|.++..+   + |||.|+..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~Pv~l---~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSL---P-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE----S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCcccc---C-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999976443   4 99999999999999653    469988

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

Probab=98.80  E-value=1e-09  Score=89.41  Aligned_cols=53  Identities=30%  Similarity=0.707  Sum_probs=43.4

Q ss_pred             CCCCcccCccccccCCCC-------ceeecCCCCCcccHHHHHHHH--hcCCCCccccCCCCC
Q 045417          129 GKGALECAVCLNEFEDDE-------TLRLIPKCDHVFHPECIDAWL--ESHTTCPVCRSNLAS  182 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~-------~~r~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~l~~  182 (184)
                      ..++.-|+||-..+...+       .+..|. |+|+||..||.-|-  .++++||.|++.+..
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            346778999999887654       566776 99999999999995  577899999987654

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

Probab=98.79  E-value=1.3e-09  Score=76.57  Aligned_cols=67  Identities=25%  Similarity=0.528  Sum_probs=46.6

Q ss_pred             CCceeecccccccCCCCCcccCccccccC-------------CCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          115 FPTFVYSDVKTLKVGKGALECAVCLNEFE-------------DDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       115 ~p~~~~~~~~~~~~~~~~~eCaICL~~f~-------------~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      |...+++.+.--.-+-..+.|+||...+.             .++.+..-..|+|.||.+||..||+++..||+|.++-.
T Consensus        29 F~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~  108 (114)
T KOG2930|consen   29 FELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV  108 (114)
T ss_pred             eEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence            33344554443333445668999887663             23444444469999999999999999999999987643

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.65  E-value=2.2e-08  Score=86.91  Aligned_cols=49  Identities=31%  Similarity=0.754  Sum_probs=41.5

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +....|+||++.|.+..   +++ |||.||..||..|+..+..||+||..+..
T Consensus        24 e~~l~C~IC~d~~~~Pv---itp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        24 DTSLRCHICKDFFDVPV---LTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             ccccCCCcCchhhhCcc---CCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            36679999999997653   345 99999999999999988899999997653

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

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

Probab=98.61  E-value=1.9e-08  Score=81.83  Aligned_cols=50  Identities=30%  Similarity=0.787  Sum_probs=40.6

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHH-HHhcCCC-CccccCCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDA-WLESHTT-CPVCRSNLASE  183 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~-Wl~~~~~-CP~CR~~l~~~  183 (184)
                      ..+.+|+||+++.......   + |||+||..||-. |-+++.. ||+||+.+.++
T Consensus       213 ~~d~kC~lC~e~~~~ps~t---~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCT---P-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ccccceeeeecccCCcccc---c-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            3578999999997764433   4 999999999999 9766665 99999988765

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

Probab=98.51  E-value=3.8e-08  Score=86.10  Aligned_cols=52  Identities=27%  Similarity=0.876  Sum_probs=39.1

Q ss_pred             CCcccCccccccCC---CC-------ce---eecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFED---DE-------TL---RLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~---~~-------~~---r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  182 (184)
                      ...+|+||+.+.+-   +.       .+   .++..|+|+||..|+..|.. .+-.||+||.+|.+
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            44589999998852   11       11   12334999999999999998 45589999999875

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

Probab=98.50  E-value=9.5e-08  Score=59.26  Aligned_cols=42  Identities=31%  Similarity=1.017  Sum_probs=31.8

Q ss_pred             ccCccccccCCCCceeecCCCC-----CcccHHHHHHHHhc--CCCCcccc
Q 045417          134 ECAVCLNEFEDDETLRLIPKCD-----HVFHPECIDAWLES--HTTCPVCR  177 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR  177 (184)
                      .|.||+++.++++.+ ..| |.     |.+|..|++.|+..  +.+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l-~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPL-VSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCee-Eec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            389999944444444 566 75     89999999999944  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

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

Probab=98.45  E-value=3.5e-08  Score=65.75  Aligned_cols=50  Identities=34%  Similarity=0.795  Sum_probs=23.6

Q ss_pred             CcccCccccccC-CCCc-eeec--CCCCCcccHHHHHHHHhc----C-------CCCccccCCCC
Q 045417          132 ALECAVCLNEFE-DDET-LRLI--PKCDHVFHPECIDAWLES----H-------TTCPVCRSNLA  181 (184)
Q Consensus       132 ~~eCaICL~~f~-~~~~-~r~l--p~C~H~FH~~CI~~Wl~~----~-------~~CP~CR~~l~  181 (184)
                      +.+|.||.+.+. +++. ..+.  +.|++.||..|+.+||..    +       .+||.|+++|.
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            358999999876 3322 2232  369999999999999942    1       25999998764

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

Probab=98.39  E-value=1.9e-07  Score=82.19  Aligned_cols=47  Identities=30%  Similarity=0.819  Sum_probs=37.1

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-----CCCCccccCCCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSNLAS  182 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~~  182 (184)
                      +..|+|||++....  ++  ..|||+||..||-+++..     ...||+||..+.+
T Consensus       186 ~~~CPICL~~~~~p--~~--t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP--VR--TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcc--cc--cccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            67999999986543  22  259999999999998843     3579999988765

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

Probab=98.38  E-value=2.9e-07  Score=55.45  Aligned_cols=38  Identities=32%  Similarity=0.928  Sum_probs=22.2

Q ss_pred             cCccccccCCCC-ceeecCCCCCcccHHHHHHHHhcC----CCCc
Q 045417          135 CAVCLNEFEDDE-TLRLIPKCDHVFHPECIDAWLESH----TTCP  174 (184)
Q Consensus       135 CaICL~~f~~~~-~~r~lp~C~H~FH~~CI~~Wl~~~----~~CP  174 (184)
                      |+||.| |.+++ .-.+|+ |||+|+.+|++.+++++    .+||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 76544 446787 99999999999999743    3576

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

Probab=98.30  E-value=1.6e-07  Score=87.61  Aligned_cols=52  Identities=31%  Similarity=0.860  Sum_probs=39.2

Q ss_pred             CCCcccCccccccCCCC---ceeecCCCCCcccHHHHHHHHhc--CCCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDE---TLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~---~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~  181 (184)
                      .+..|||||..-...-|   .-...+.|.|.||..|+..|+++  +.+||+||.+++
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            46679999998876211   11223459999999999999964  568999998875

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

Probab=98.30  E-value=2.7e-07  Score=80.07  Aligned_cols=49  Identities=35%  Similarity=0.870  Sum_probs=38.5

Q ss_pred             CCcccCccccccCCCCc-eeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~-~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +...|+||||.+++... ++.. -|.|.||..|+..|.  ..+||+||....|
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~-~c~Hsfh~~cl~~w~--~~scpvcR~~q~p  223 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTI-LCNHSFHCSCLMKWW--DSSCPVCRYCQSP  223 (493)
T ss_pred             cCCCcchhHhhcCccccceeee-ecccccchHHHhhcc--cCcChhhhhhcCc
Confidence            45689999999987653 2333 399999999999994  4689999976654

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

Probab=98.28  E-value=3.3e-07  Score=74.63  Aligned_cols=45  Identities=38%  Similarity=0.941  Sum_probs=39.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS  178 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  178 (184)
                      .+...|+||++.|.+.   .+++ |+|.|+..|+..++.....||.||.
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence            3677999999999987   6666 9999999999999885567999993

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

Probab=98.25  E-value=5.1e-07  Score=76.44  Aligned_cols=48  Identities=29%  Similarity=0.812  Sum_probs=40.9

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      +++.||.||+++-.+   +.+|| |.|. .|..|-+.---++..||+||+++.
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchH
Confidence            457799999998664   56778 9998 999999998777889999999875

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

Probab=98.16  E-value=9.1e-07  Score=73.15  Aligned_cols=46  Identities=30%  Similarity=0.681  Sum_probs=39.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  180 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  180 (184)
                      .-+.|-||-+.|..    +.+..|||-||.-||...|..+..||+||.+-
T Consensus        24 s~lrC~IC~~~i~i----p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          24 SMLRCRICDCRISI----PCETTCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             hHHHhhhhhheeec----ceecccccchhHHHHHHHhcCCCCCccccccH
Confidence            55689999998774    33346999999999999999999999999863

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

Probab=98.11  E-value=1.5e-06  Score=58.22  Aligned_cols=48  Identities=25%  Similarity=0.516  Sum_probs=36.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      +...|+|+.+-|.+...   ++ +||.|...||..|+++ +.+||+|+..+..
T Consensus         3 ~~f~CpIt~~lM~dPVi---~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVI---LP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGGB-TTTSSB-SSEEE---ET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             cccCCcCcCcHhhCcee---CC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            45689999999997543   35 9999999999999988 8899999988764

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 Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=98.10  E-value=7.5e-07  Score=75.01  Aligned_cols=49  Identities=29%  Similarity=0.782  Sum_probs=41.5

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ++-..|-||.+-|..+-   +.| |+|.||.-||..+|..+..||.|+.++.+
T Consensus        21 D~lLRC~IC~eyf~ip~---itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIPM---ITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTE   69 (442)
T ss_pred             HHHHHHhHHHHHhcCce---ecc-ccchHHHHHHHHHhccCCCCCceecccch
Confidence            35678999999998642   235 99999999999999999999999987754

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

Probab=97.87  E-value=6.4e-06  Score=70.37  Aligned_cols=50  Identities=28%  Similarity=0.897  Sum_probs=39.5

Q ss_pred             CCcccCccccccCCCC----ceeecCCCCCcccHHHHHHHH--hc-----CCCCccccCCC
Q 045417          131 GALECAVCLNEFEDDE----TLRLIPKCDHVFHPECIDAWL--ES-----HTTCPVCRSNL  180 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~----~~r~lp~C~H~FH~~CI~~Wl--~~-----~~~CP~CR~~l  180 (184)
                      .+.+|.||++...+..    ....+|+|.|.|+.+||+.|-  .+     .+.||.||...
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            4668999999987544    234568899999999999997  33     46899999754

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

Probab=97.86  E-value=1.2e-05  Score=64.47  Aligned_cols=51  Identities=25%  Similarity=0.640  Sum_probs=43.6

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--------CCCCccccCCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPVCRSNLASE  183 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~~l~~~  183 (184)
                      -...|..|-..+..+|++|+  .|-|+||++|+++|-.+        .-.||-|-.+|.|.
T Consensus        49 Y~pNC~LC~t~La~gdt~RL--vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTRL--VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCCCCceeCCccccCcceee--hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            44589999999999999998  49999999999999643        23799999988764

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

Probab=97.85  E-value=3e-06  Score=77.90  Aligned_cols=50  Identities=28%  Similarity=0.575  Sum_probs=41.8

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ....|++|+..+.++.....-+ |+|.||..||+.|-+...+||+||....
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence            3447999999998876655554 9999999999999999999999998653

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

Probab=97.79  E-value=4.6e-06  Score=54.07  Aligned_cols=44  Identities=32%  Similarity=0.890  Sum_probs=23.1

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  180 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  180 (184)
                      ...|++|.+-++++..+   ..|.|+|+..||..-+.+  .||+|+.+-
T Consensus         7 lLrCs~C~~~l~~pv~l---~~CeH~fCs~Ci~~~~~~--~CPvC~~Pa   50 (65)
T PF14835_consen    7 LLRCSICFDILKEPVCL---GGCEHIFCSSCIRDCIGS--ECPVCHTPA   50 (65)
T ss_dssp             TTS-SSS-S--SS-B------SSS--B-TTTGGGGTTT--B-SSS--B-
T ss_pred             hcCCcHHHHHhcCCcee---ccCccHHHHHHhHHhcCC--CCCCcCChH
Confidence            45799999998865433   359999999999886553  499998754

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

Probab=97.72  E-value=3.3e-06  Score=71.45  Aligned_cols=49  Identities=31%  Similarity=0.637  Sum_probs=39.6

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  182 (184)
                      .+..|+|||+-++.   .+..+.|.|-||.+||..-++ .+.+||.||+.+..
T Consensus        42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            56789999998775   333457999999999999985 46789999998764

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

Probab=97.64  E-value=1.3e-05  Score=50.14  Aligned_cols=44  Identities=27%  Similarity=0.665  Sum_probs=32.4

Q ss_pred             cccCccccccCCCCceeecCCCCCc-ccHHHH-HHHHhcCCCCccccCCC
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHV-FHPECI-DAWLESHTTCPVCRSNL  180 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI-~~Wl~~~~~CP~CR~~l  180 (184)
                      .||.||+|.-.+  .+..  .|||. .+.+|- ..|-..+..||+||+++
T Consensus         8 dECTICye~pvd--sVlY--tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPVD--SVLY--TCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcch--HHHH--HcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            699999987443  2322  39997 888885 44545788999999875

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

Probab=97.62  E-value=1.8e-05  Score=65.83  Aligned_cols=50  Identities=30%  Similarity=0.818  Sum_probs=41.6

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-----------------------cCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-----------------------SHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-----------------------~~~~CP~CR~~l~  181 (184)
                      ....|.|||--|.+++...+.+ |.|.||..|+..+|.                       .+..||+||..|.
T Consensus       114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            4568999999999999888877 999999999988762                       1235999998775

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

Probab=97.50  E-value=3.7e-05  Score=70.76  Aligned_cols=48  Identities=31%  Similarity=0.834  Sum_probs=37.6

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHH-hcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~  182 (184)
                      +-..|++|-+.+.+  .+.  ++|+|+||.+||..-+ .++..||.|.+...+
T Consensus       642 ~~LkCs~Cn~R~Kd--~vI--~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKD--AVI--TKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             hceeCCCccCchhh--HHH--HhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            45689999977664  332  3699999999999999 467789999886643

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

Probab=97.49  E-value=5.7e-05  Score=65.95  Aligned_cols=49  Identities=33%  Similarity=0.779  Sum_probs=42.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .+..|++|...+.++-..  . .|||.|+..|+..|+..+..||.||..+..
T Consensus        20 ~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~   68 (391)
T KOG0297|consen   20 ENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQ   68 (391)
T ss_pred             ccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccch
Confidence            567899999999876553  2 499999999999999999999999887754

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

Probab=97.38  E-value=5.5e-05  Score=65.20  Aligned_cols=44  Identities=32%  Similarity=0.958  Sum_probs=35.5

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccCCCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA  181 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~  181 (184)
                      -|-||-|.=   ..+++.| |||..|..|+..|-.+  ..+||.||.++-
T Consensus       371 LCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  371 LCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            499998763   3477777 9999999999999733  468999998763

>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=97.33  E-value=7.3e-05  Score=55.50  Aligned_cols=36  Identities=17%  Similarity=0.691  Sum_probs=29.5

Q ss_pred             CCcccCccccccCCCCceeecCCCC------CcccHHHHHHHH
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCD------HVFHPECIDAWL  167 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~------H~FH~~CI~~Wl  167 (184)
                      ...||+||++.+.+++.+..++ ||      |.||.+|+..|-
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence            3569999999999855565555 65      999999999994

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.

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

Probab=97.32  E-value=6.8e-05  Score=64.48  Aligned_cols=47  Identities=36%  Similarity=0.911  Sum_probs=38.7

Q ss_pred             CCcccCccccccCC-CCceeecCCCCCcccHHHHHHHHhcC--CCCccccC
Q 045417          131 GALECAVCLNEFED-DETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~-~~~~r~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~  178 (184)
                      -+..|-.|-+.+-. ++.+.-|| |.|+||..|+.+.|.++  .+||-||+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            35579999998854 45777888 99999999999999665  47999994

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

Probab=97.32  E-value=7.8e-05  Score=47.59  Aligned_cols=42  Identities=36%  Similarity=0.773  Sum_probs=27.3

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCcc
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPV  175 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~  175 (184)
                      -...|+|.+..|+++  ++-. .|+|+|-.+.|.+|+++  ...||+
T Consensus        10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            456899999999965  4433 49999999999999943  446998

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

Probab=97.22  E-value=0.00029  Score=61.50  Aligned_cols=49  Identities=37%  Similarity=0.865  Sum_probs=41.6

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ..+.+|.||..-+.+....   | |||.|+..||+.-+.....||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~pv~t---p-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVT---P-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCccc---c-ccccccHHHHHHHhccCCCCccccccccc
Confidence            5788999999888765433   6 99999999999988888889999998764

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

Probab=97.10  E-value=0.00013  Score=55.70  Aligned_cols=30  Identities=30%  Similarity=0.822  Sum_probs=27.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccH
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHP  160 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~  160 (184)
                      ++..||.||||+++.++++..|| |-.+||.
T Consensus       175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            35679999999999999999999 9999995

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

Probab=97.03  E-value=0.001  Score=56.12  Aligned_cols=46  Identities=26%  Similarity=0.501  Sum_probs=37.7

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS  178 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  178 (184)
                      .+...|+||+.....+-.+.+   -|-+||..||-.++.++..||+=-.
T Consensus       298 ~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~  343 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGY  343 (357)
T ss_pred             CccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCC
Confidence            355689999999887655544   7999999999999999999998433

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

Probab=96.99  E-value=0.00044  Score=67.80  Aligned_cols=52  Identities=25%  Similarity=0.694  Sum_probs=40.6

Q ss_pred             CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC----------CCCccccCCCC
Q 045417          129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH----------TTCPVCRSNLA  181 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~----------~~CP~CR~~l~  181 (184)
                      .+.++.|-||+.+--.......|. |+|+||.+|...-|+++          -+||+|+..+.
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            456778999998876666666665 99999999998777654          27999998764

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

Probab=96.95  E-value=0.00064  Score=41.59  Aligned_cols=41  Identities=34%  Similarity=1.023  Sum_probs=26.8

Q ss_pred             cCccccccCCCCceeecC-CCCC---cccHHHHHHHHh--cCCCCccc
Q 045417          135 CAVCLNEFEDDETLRLIP-KCDH---VFHPECIDAWLE--SHTTCPVC  176 (184)
Q Consensus       135 CaICL~~f~~~~~~r~lp-~C~H---~FH~~CI~~Wl~--~~~~CP~C  176 (184)
                      |-||+++-.+++.+.. | .|.=   ..|.+|+..|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~~li~-pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLIS-PCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE--SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCceec-ccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            6799999877664433 3 3433   689999999995  45679987

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

Probab=96.92  E-value=0.00031  Score=65.46  Aligned_cols=50  Identities=32%  Similarity=0.783  Sum_probs=39.5

Q ss_pred             CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-------CCCCccccC
Q 045417          129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-------HTTCPVCRS  178 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-------~~~CP~CR~  178 (184)
                      ..+.+||.||.+.+..-+.+---..|-|+||..||..|-++       ...||.|+.
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            45778999999999877665444458899999999999743       236999984

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

Probab=96.71  E-value=0.0015  Score=53.85  Aligned_cols=53  Identities=28%  Similarity=0.526  Sum_probs=39.7

Q ss_pred             ccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccCCCC
Q 045417          126 LKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA  181 (184)
Q Consensus       126 ~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~  181 (184)
                      ......+.+|++|-+.-..+..  .. +|+|+||.-||..-+..  ..+||.|-.++.
T Consensus       233 ss~~t~~~~C~~Cg~~PtiP~~--~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  233 SSTGTSDTECPVCGEPPTIPHV--IG-KCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cccccCCceeeccCCCCCCCee--ec-cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            3445678899999987554332  33 49999999999887643  468999988776

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

Probab=96.66  E-value=0.0018  Score=39.70  Aligned_cols=45  Identities=24%  Similarity=0.624  Sum_probs=22.9

Q ss_pred             cCccccccCCCCc-eeecCCCCCcccHHHHHHHHh-cCCCCccccCCC
Q 045417          135 CAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNL  180 (184)
Q Consensus       135 CaICL~~f~~~~~-~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l  180 (184)
                      |++|.+++...+. ..-- .|++.++..|...-++ ....||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7899999955443 2222 5899999999888886 478899999864

>PHA02862 5L protein; Provisional

Probab=96.59  E-value=0.0012  Score=49.57  Aligned_cols=47  Identities=17%  Similarity=0.561  Sum_probs=31.7

Q ss_pred             cccCccccccCCCCceeecC--CCCCcccHHHHHHHHh--cCCCCccccCCCC
Q 045417          133 LECAVCLNEFEDDETLRLIP--KCDHVFHPECIDAWLE--SHTTCPVCRSNLA  181 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp--~C~H~FH~~CI~~Wl~--~~~~CP~CR~~l~  181 (184)
                      ..|-||+++-+++  .+-..  +-...-|.+|+.+|++  ++.+|++|+.+..
T Consensus         3 diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            4799999985433  22110  0025689999999995  4557999998653

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.58  E-value=0.0022  Score=48.95  Aligned_cols=46  Identities=22%  Similarity=0.773  Sum_probs=33.0

Q ss_pred             CCcccCccccccCCCCceeecC-CCCC---cccHHHHHHHHhc--CCCCccccCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIP-KCDH---VFHPECIDAWLES--HTTCPVCRSNL  180 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp-~C~H---~FH~~CI~~Wl~~--~~~CP~CR~~l  180 (184)
                      .+.+|-||.++-.  +..  -| .|..   ..|.+|++.|+..  ..+|++|+.+.
T Consensus         7 ~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y   58 (162)
T PHA02825          7 MDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY   58 (162)
T ss_pred             CCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence            5669999998843  222  23 3555   5699999999954  45799998764

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

Probab=96.57  E-value=0.00065  Score=57.31  Aligned_cols=50  Identities=28%  Similarity=0.652  Sum_probs=42.5

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .....|.+|-.-|-+..++.   .|-|-||..||...|....+||.|...+..
T Consensus        13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            45679999999998866653   499999999999999999999999876654

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

Probab=96.54  E-value=0.001  Score=59.40  Aligned_cols=49  Identities=39%  Similarity=0.855  Sum_probs=37.7

Q ss_pred             CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-----cCCCCccccCCCC
Q 045417          129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-----SHTTCPVCRSNLA  181 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~l~  181 (184)
                      ..+..+|.+|-++-++....    .|.|.||.-||.++..     .+.+||+|-..|.
T Consensus       533 nk~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             ccCceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            34677999999886543222    5999999999999984     3578999987654

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

Probab=96.39  E-value=0.0023  Score=55.50  Aligned_cols=47  Identities=23%  Similarity=0.774  Sum_probs=38.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--------CCCCccccC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~  178 (184)
                      ...+|.||+++....+....+| |+|+||..|...++..        .-.||-+.-
T Consensus       183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            5568999999998888999998 9999999999999832        336876643

>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=96.37  E-value=0.0016  Score=45.96  Aligned_cols=32  Identities=31%  Similarity=0.813  Sum_probs=25.9

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHH
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECID  164 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~  164 (184)
                      ++..|++|-..+..+ ...+.| |||+||..|++
T Consensus        77 ~~~~C~vC~k~l~~~-~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGNS-VFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCCc-eEEEeC-CCeEEeccccc
Confidence            455799999999874 455567 99999999975

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

>PHA03096 p28-like protein; Provisional

Probab=96.37  E-value=0.0019  Score=54.14  Aligned_cols=46  Identities=24%  Similarity=0.562  Sum_probs=33.9

Q ss_pred             cccCccccccCCCC----ceeecCCCCCcccHHHHHHHHhc---CCCCccccC
Q 045417          133 LECAVCLNEFEDDE----TLRLIPKCDHVFHPECIDAWLES---HTTCPVCRS  178 (184)
Q Consensus       133 ~eCaICL~~f~~~~----~~r~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~  178 (184)
                      -+|.||++......    .--.|+.|.|.|+..||..|-..   ..+||.||.
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            48999999886532    33467889999999999999743   234555543

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

Probab=96.19  E-value=0.0026  Score=54.30  Aligned_cols=44  Identities=34%  Similarity=0.731  Sum_probs=31.5

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      -.+.|.||+++..+   ...+| |||+-+  |..--. ...+||+||+.+.
T Consensus       304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~-~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSK-HLPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCccc---eeeec-CCcEEE--chHHHh-hCCCCchhHHHHH
Confidence            45689999999886   44456 999966  655542 2345999998753

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.11  E-value=0.006  Score=49.77  Aligned_cols=52  Identities=17%  Similarity=0.369  Sum_probs=46.0

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ...-|+||.+.+.....+..|.+|||+|..+|++..+.....||+|-.++..
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd  271 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD  271 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence            4567999999999888888888899999999999999999999999877653

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

Probab=96.05  E-value=0.0036  Score=49.52  Aligned_cols=44  Identities=23%  Similarity=0.611  Sum_probs=37.3

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN  179 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  179 (184)
                      ...|-||-++|+.+...    .|||.||..|...-.+....|-+|-+.
T Consensus       196 PF~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         196 PFLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             ceeehhchhhccchhhh----hcchhHHHHHHHHHhccCCcceecchh
Confidence            45799999999976443    599999999999988888999999664

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

Probab=96.04  E-value=0.00037  Score=59.94  Aligned_cols=51  Identities=22%  Similarity=0.642  Sum_probs=43.2

Q ss_pred             CCcccCccccccCCC-CceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDD-ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~-~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      -...|+||.+.+... +.+.-+- |||.+|.+|+..||.....||.||++|..
T Consensus       195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            445799999999876 5665554 99999999999999998999999998753

>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=95.96  E-value=0.0052  Score=36.85  Aligned_cols=41  Identities=20%  Similarity=0.686  Sum_probs=24.2

Q ss_pred             cCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC--CCccc
Q 045417          135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--TCPVC  176 (184)
Q Consensus       135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~--~CP~C  176 (184)
                      |.+|.+-...|...... .|+=.+|..|++.+++.+.  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            67787777777665432 4888999999999997665  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.60  E-value=0.0054  Score=57.51  Aligned_cols=42  Identities=26%  Similarity=0.762  Sum_probs=33.3

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  180 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  180 (184)
                      ..|..|-..++-+-.-.+   |||.||.+|+.   .+...||-|+.++
T Consensus       841 skCs~C~~~LdlP~VhF~---CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFL---CGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeecccCCccccceeeee---cccHHHHHhhc---cCcccCCccchhh
Confidence            479999998887654433   99999999999   4556799998743

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

Probab=95.48  E-value=0.011  Score=46.02  Aligned_cols=30  Identities=33%  Similarity=0.966  Sum_probs=24.6

Q ss_pred             CCCCcccHHHHHHHHhc-----C------CCCccccCCCCC
Q 045417          153 KCDHVFHPECIDAWLES-----H------TTCPVCRSNLAS  182 (184)
Q Consensus       153 ~C~H~FH~~CI~~Wl~~-----~------~~CP~CR~~l~~  182 (184)
                      .||.-||.-|+..||+.     +      ..||+|-.++..
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            49999999999999952     2      269999988764

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

Probab=95.48  E-value=0.012  Score=50.36  Aligned_cols=50  Identities=20%  Similarity=0.437  Sum_probs=39.4

Q ss_pred             CCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          128 VGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       128 ~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ...++..|+||...-   ..-...| |+|.=|..||.+-+.+.+.|=.|+..+.
T Consensus       418 p~sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             CCcccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence            345777899998652   2223345 9999999999999999999999988664

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

Probab=95.47  E-value=0.0094  Score=49.97  Aligned_cols=45  Identities=36%  Similarity=0.852  Sum_probs=35.0

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHHHHHH-hcCCCCccc-cCCC
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVC-RSNL  180 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~C-R~~l  180 (184)
                      +.|+.|..-....-  +. +.|+|.|+.+||..-| .+...||.| |+++
T Consensus       275 LkCplc~~Llrnp~--kT-~cC~~~fc~eci~~al~dsDf~CpnC~rkdv  321 (427)
T COG5222         275 LKCPLCHCLLRNPM--KT-PCCGHTFCDECIGTALLDSDFKCPNCSRKDV  321 (427)
T ss_pred             ccCcchhhhhhCcc--cC-ccccchHHHHHHhhhhhhccccCCCcccccc
Confidence            67999987766543  33 5699999999999776 677889999 4444

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.19  E-value=0.027  Score=46.61  Aligned_cols=52  Identities=23%  Similarity=0.592  Sum_probs=41.2

Q ss_pred             CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ..+...|+|...+|........+-.|||+|-..+|.+- .....||+|-.++.
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT  161 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence            35677899999999766655555559999999999997 33567999987754

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

Probab=94.79  E-value=0.015  Score=48.53  Aligned_cols=46  Identities=24%  Similarity=0.507  Sum_probs=38.4

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ...|-||...|..+...    +|+|.||..|-..=++....|.+|-+...
T Consensus       241 Pf~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             Cccccccccccccchhh----cCCceeehhhhccccccCCcceecccccc
Confidence            34599999999976443    69999999999988888899999977653

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.73  E-value=0.016  Score=36.43  Aligned_cols=33  Identities=21%  Similarity=0.622  Sum_probs=25.9

Q ss_pred             ceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          147 TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       147 ~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +-.++| |+|+.+..|.+.+  +-+-||.|-+++..
T Consensus        19 ~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~   51 (55)
T PF14447_consen   19 KGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF   51 (55)
T ss_pred             cccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence            345566 9999999998876  45679999887764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.68  E-value=0.024  Score=48.32  Aligned_cols=52  Identities=15%  Similarity=0.395  Sum_probs=35.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  182 (184)
                      +++-|+.|+|+++..|+-..-..||-..|.-|...--+ -+..||-||+....
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            44569999999988776554335997766666444322 25689999986654

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

Probab=94.63  E-value=0.0061  Score=50.85  Aligned_cols=41  Identities=27%  Similarity=0.758  Sum_probs=30.0

Q ss_pred             CcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNL  180 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l  180 (184)
                      ..-|+||++.-.+   ...|+ |||. -|.+|=...    ..||+||+-+
T Consensus       300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHH
Confidence            4579999987443   55676 9996 677785443    3799999754

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

Probab=94.39  E-value=0.024  Score=47.21  Aligned_cols=47  Identities=21%  Similarity=0.639  Sum_probs=38.4

Q ss_pred             CCcccCccccccCCCCc-eeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417          131 GALECAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLESHTTCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~-~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  178 (184)
                      ....|+||.+.+-.... +..++ |||.-|..|+.+....+-+||+|.+
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             ccCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            44469999999876653 44555 9999999999999887789999987

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

Probab=94.31  E-value=0.057  Score=46.25  Aligned_cols=64  Identities=20%  Similarity=0.477  Sum_probs=42.4

Q ss_pred             HHhhCCceeecccccccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHH--HhcCCCCccccCCC
Q 045417          111 VIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW--LESHTTCPVCRSNL  180 (184)
Q Consensus       111 ~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~W--l~~~~~CP~CR~~l  180 (184)
                      .+..-|..+-+.  ..+.+++...|.||-+...-   .-++| |+|..|.-|--.-  |-.+..||+||.+-
T Consensus        42 nlsaEPnlttsS--addtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          42 NLSAEPNLTTSS--ADDTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccCCcccccc--ccccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            344445544333  22334466689999987553   44567 9999998886543  45678999999764

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=94.06  E-value=0.075  Score=33.39  Aligned_cols=41  Identities=24%  Similarity=0.710  Sum_probs=32.9

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCcc
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPV  175 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~  175 (184)
                      ....|.+|-+.|.+++.+.+-|.||=.+|.+|-+.    ...|-.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~   44 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN   44 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence            34589999999998888888899999999999554    345544

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

Probab=93.50  E-value=0.062  Score=46.45  Aligned_cols=26  Identities=35%  Similarity=1.086  Sum_probs=19.9

Q ss_pred             CCCcccHHHHHHHHhc-------------CCCCccccCC
Q 045417          154 CDHVFHPECIDAWLES-------------HTTCPVCRSN  179 (184)
Q Consensus       154 C~H~FH~~CI~~Wl~~-------------~~~CP~CR~~  179 (184)
                      |.-.+|.+|+-+|+.+             +..||+||+.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~  349 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAK  349 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccc
Confidence            4456789999888843             3479999986

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

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

Probab=93.30  E-value=0.024  Score=55.47  Aligned_cols=45  Identities=29%  Similarity=0.841  Sum_probs=37.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  178 (184)
                      +...|.||++.+.....+.   .|||.++..|+..|+..+..||.|+.
T Consensus      1152 ~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             cccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhh
Confidence            3347999999988433333   49999999999999999999999974

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

Probab=92.77  E-value=0.065  Score=50.11  Aligned_cols=41  Identities=27%  Similarity=0.598  Sum_probs=29.2

Q ss_pred             ccCccccccCCCC---------ceeecCCCCCcccHHHHHHHHhcCCCCcc
Q 045417          134 ECAVCLNEFEDDE---------TLRLIPKCDHVFHPECIDAWLESHTTCPV  175 (184)
Q Consensus       134 eCaICL~~f~~~~---------~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~  175 (184)
                      +|+||++.+..-.         ...-. .|+|+-|.+|..+|+.....||.
T Consensus      1020 ~~~~~~~~~~~C~~C~l~V~gss~~Cg-~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1020 QCAICKGFTFQCAICHLAVRGSSNFCG-TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eccccccceeeeeeEeeEeeccchhhc-cccccccHHHHHHHHhcCCcCCC
Confidence            5666666654321         11123 39999999999999999999984

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

Probab=92.75  E-value=0.042  Score=46.35  Aligned_cols=42  Identities=36%  Similarity=0.791  Sum_probs=28.5

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  180 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  180 (184)
                      .|--|=-.+.  ..-|+.| |+|+||.+|-..  ...+.||.|-..|
T Consensus        92 fCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            4655643332  3447788 999999999654  3456899996544

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

Probab=92.72  E-value=0.044  Score=51.18  Aligned_cols=44  Identities=27%  Similarity=0.753  Sum_probs=33.0

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccCCCC
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA  181 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~  181 (184)
                      .+|.||++    .+.....+ |+|.|+.+|+..-+..  ...||+||..+.
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence            69999999    23343444 9999999999988743  336999997653

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

Probab=92.48  E-value=0.056  Score=51.19  Aligned_cols=35  Identities=23%  Similarity=0.576  Sum_probs=27.5

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHH
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL  167 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl  167 (184)
                      .+.+|.+|...+... .-.+.| |||.||++||..-.
T Consensus       816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            567899999888764 344556 99999999997664

>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=91.71  E-value=0.22  Score=38.16  Aligned_cols=35  Identities=26%  Similarity=0.665  Sum_probs=21.5

Q ss_pred             CcccCccccccCCCCce---------eecCCCCCc-ccHHHHHHHH
Q 045417          132 ALECAVCLNEFEDDETL---------RLIPKCDHV-FHPECIDAWL  167 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~---------r~lp~C~H~-FH~~CI~~Wl  167 (184)
                      +..|+||||---....+         |--- |+-. -|..|+|++-
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFK   46 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHH
Confidence            45899999875432211         1111 5533 5889999985

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.

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

Probab=91.03  E-value=0.084  Score=32.19  Aligned_cols=43  Identities=26%  Similarity=0.736  Sum_probs=24.9

Q ss_pred             ccCccccccCCCCceeecCCCC-CcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCD-HVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .|--|+-+  +...+    +|+ |..+-.|+...+.+...||+|..+|..
T Consensus         4 nCKsCWf~--~k~Li----~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen    4 NCKSCWFA--NKGLI----KCSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             ---SS-S----SSEE----E-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             cChhhhhc--CCCee----eecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            45556643  22223    365 999999999999999999999988764

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.

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

Probab=90.57  E-value=0.15  Score=42.59  Aligned_cols=48  Identities=29%  Similarity=0.816  Sum_probs=34.7

Q ss_pred             CcccCccccccCCCCc-eeecCCCC-----CcccHHHHHHHHh--cCCCCccccCCC
Q 045417          132 ALECAVCLNEFEDDET-LRLIPKCD-----HVFHPECIDAWLE--SHTTCPVCRSNL  180 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~-~r~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~CR~~l  180 (184)
                      +..|-||.++...... .-..| |.     +..|..|++.|+.  +...|.+|....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~  133 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF  133 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence            4689999998765432 22333 54     5679999999996  566799997754

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

Probab=90.34  E-value=0.23  Score=47.01  Aligned_cols=52  Identities=27%  Similarity=0.646  Sum_probs=38.9

Q ss_pred             CCCcccCccccccCCCCceeecCCCC---CcccHHHHHHHHh--cCCCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCD---HVFHPECIDAWLE--SHTTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~---H~FH~~CI~~Wl~--~~~~CP~CR~~l~  181 (184)
                      +++..|-||..+=..++.+---.+|.   .-.|.+|+.+|+.  ....|-+|+.+..
T Consensus        10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~   66 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK   66 (1175)
T ss_pred             ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence            45578999999887777775533454   3489999999995  3456999987653

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

Probab=90.25  E-value=0.093  Score=48.27  Aligned_cols=44  Identities=25%  Similarity=0.626  Sum_probs=33.5

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS  178 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  178 (184)
                      ...|.||+..|......-+...|||..|.+|+..-.  +.+|| |+.
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~   54 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR   54 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence            457999999987665554445799999999998764  46788 654

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

Probab=90.24  E-value=0.21  Score=42.22  Aligned_cols=45  Identities=24%  Similarity=0.591  Sum_probs=33.8

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      +-.+|+||.+.+..+.--  - .=||+-|..|=.   +....||.||.++.
T Consensus        47 ~lleCPvC~~~l~~Pi~Q--C-~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPPIFQ--C-DNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhccCchhhccCccccee--c-CCCcEehhhhhh---hhcccCCccccccc
Confidence            566999999999876432  1 246999988865   34678999998875

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

Probab=89.75  E-value=0.3  Score=42.50  Aligned_cols=47  Identities=19%  Similarity=0.535  Sum_probs=38.6

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC---CCccccC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT---TCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~---~CP~CR~  178 (184)
                      +...|||=.+.-.+++.-..|. |||+...+-+..-.++..   .||+|=.
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            5668999988888777777776 999999999999876544   6999943

>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane

Probab=89.66  E-value=0.94  Score=33.30  Aligned_cols=29  Identities=21%  Similarity=0.257  Sum_probs=17.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 045417           55 PSLAIIIVVLISALFFMGFFSIYIRHCSD   83 (184)
Q Consensus        55 ~~~~iii~vli~~l~~l~~~~i~~r~~~~   83 (184)
                      .+.+|+++++.+++.+++++++++|+.+.
T Consensus        65 ~i~~Ii~gv~aGvIg~Illi~y~irR~~K   93 (122)
T PF01102_consen   65 AIIGIIFGVMAGVIGIILLISYCIRRLRK   93 (122)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred             ceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence            46677777777766666665555555433

Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.

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

Probab=89.52  E-value=0.56  Score=29.61  Aligned_cols=46  Identities=26%  Similarity=0.776  Sum_probs=35.3

Q ss_pred             ccCccccccCCCC-ceeecCCCCC--cccHHHHHHHHhcCCCCccccCCCCCCC
Q 045417          134 ECAVCLNEFEDDE-TLRLIPKCDH--VFHPECIDAWLESHTTCPVCRSNLASEP  184 (184)
Q Consensus       134 eCaICL~~f~~~~-~~r~lp~C~H--~FH~~CI~~Wl~~~~~CP~CR~~l~~~p  184 (184)
                      .|--|-.++..+. ..++   |.+  -|+.+|.+.-|  +..||.|-.+++..|
T Consensus         7 nCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP   55 (57)
T PF06906_consen    7 NCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVRRP   55 (57)
T ss_pred             CccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence            5777877777655 3333   664  59999999987  578999999998876

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

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

Probab=89.09  E-value=0.25  Score=39.63  Aligned_cols=39  Identities=33%  Similarity=0.847  Sum_probs=28.3

Q ss_pred             cCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417          135 CAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       135 CaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      |-.|-+.   +..+-++| |.|. +|..|=+.    -..||+|+....
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence            6666654   55688888 9986 88888543    356999987653

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

Probab=87.49  E-value=0.25  Score=43.23  Aligned_cols=37  Identities=27%  Similarity=0.703  Sum_probs=27.7

Q ss_pred             CCcccCccccccCCC-CceeecCCCCCcccHHHHHHHHh
Q 045417          131 GALECAVCLNEFEDD-ETLRLIPKCDHVFHPECIDAWLE  168 (184)
Q Consensus       131 ~~~eCaICL~~f~~~-~~~r~lp~C~H~FH~~CI~~Wl~  168 (184)
                      ...+|.||..+.... +... ...|+|.|+.+|+...+.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence            456899999555544 4444 346999999999998875

>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []

Probab=86.07  E-value=2.4  Score=24.62  Aligned_cols=24  Identities=21%  Similarity=0.373  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 045417           56 SLAIIIVVLISALFFMGFFSIYIR   79 (184)
Q Consensus        56 ~~~iii~vli~~l~~l~~~~i~~r   79 (184)
                      .++|+.++++.+.++++.+.+|.-
T Consensus         5 ~IaIIv~V~vg~~iiii~~~~YaC   28 (38)
T PF02439_consen    5 TIAIIVAVVVGMAIIIICMFYYAC   28 (38)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHH
Confidence            455565655555555444444443

This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=86.00  E-value=0.61  Score=37.13  Aligned_cols=41  Identities=34%  Similarity=0.887  Sum_probs=29.8

Q ss_pred             CCcccCccccc-----cCCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 045417          131 GALECAVCLNE-----FEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR  177 (184)
Q Consensus       131 ~~~eCaICL~~-----f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR  177 (184)
                      -+..|.+|-++     |+. +.+...++|+-+||..|...     ..||-|.
T Consensus       151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~  196 (202)
T PF13901_consen  151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA  196 (202)
T ss_pred             CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence            35678888753     333 35556678999999999772     6799994

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.96  E-value=0.44  Score=40.06  Aligned_cols=27  Identities=26%  Similarity=0.824  Sum_probs=21.6

Q ss_pred             CCCcccHHHHHHHHh-------------cCCCCccccCCC
Q 045417          154 CDHVFHPECIDAWLE-------------SHTTCPVCRSNL  180 (184)
Q Consensus       154 C~H~FH~~CI~~Wl~-------------~~~~CP~CR~~l  180 (184)
                      |.-.+|..|+.+|+.             ++.+||+||++.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f  364 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF  364 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence            667889999999874             345899999864

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

Probab=85.75  E-value=0.39  Score=43.83  Aligned_cols=47  Identities=30%  Similarity=0.887  Sum_probs=37.3

Q ss_pred             cCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          127 KVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       127 ~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ...+....|.||++++    ..+..+ |.   |..|...|+..+..||+|+..+.
T Consensus       474 ~l~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~  520 (543)
T KOG0802|consen  474 QLREPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMK  520 (543)
T ss_pred             hhhcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhh
Confidence            3344667999999998    344444 77   99999999999999999987654

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.51  E-value=0.38  Score=39.62  Aligned_cols=49  Identities=24%  Similarity=0.732  Sum_probs=32.8

Q ss_pred             CCcccCccccccCCCCce-eecCCCC-----CcccHHHHHHHHhc--------CCCCccccCCC
Q 045417          131 GALECAVCLNEFEDDETL-RLIPKCD-----HVFHPECIDAWLES--------HTTCPVCRSNL  180 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~-r~lp~C~-----H~FH~~CI~~Wl~~--------~~~CP~CR~~l  180 (184)
                      .+..|=||+..=+++..- -+-| |.     |=.|..|+..|+..        ..+||-|+.+.
T Consensus        19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            445799999875553322 1222 43     77999999999932        23699998764

>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=85.35  E-value=0.34  Score=39.61  Aligned_cols=47  Identities=26%  Similarity=0.647  Sum_probs=35.0

Q ss_pred             CCcccCcccccc--CCCCceeecCCCCCcccHHHHHHHHhc-CCCCc--ccc
Q 045417          131 GALECAVCLNEF--EDDETLRLIPKCDHVFHPECIDAWLES-HTTCP--VCR  177 (184)
Q Consensus       131 ~~~eCaICL~~f--~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP--~CR  177 (184)
                      .+..|+||..+.  .++..+-+-|.|-|..|..|+|.-+.. ...||  -|-
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~   60 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG   60 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence            345899999875  334455556679999999999999965 45799  663

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

Probab=85.34  E-value=0.73  Score=34.31  Aligned_cols=50  Identities=20%  Similarity=0.527  Sum_probs=34.9

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh---cCCCCccccCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE---SHTTCPVCRSNL  180 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~---~~~~CP~CR~~l  180 (184)
                      .-.||-||.|.-.+..-+.--.-||-..+.-|...-++   -+..||+|+...
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF  131 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF  131 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence            45699999998765432222123998899888766553   467899998765

>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3

Probab=84.71  E-value=1  Score=25.03  Aligned_cols=38  Identities=32%  Similarity=0.678  Sum_probs=26.8

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      .|+.|-+.+.+++....  .=+..||.+|        ..|..|+..|.
T Consensus         1 ~C~~C~~~i~~~~~~~~--~~~~~~H~~C--------f~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLR--ALGKVWHPEC--------FKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEE--eCCccccccC--------CCCcccCCcCc
Confidence            37888888877633322  2468899888        67888887765

Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.

>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus []

Probab=84.29  E-value=2  Score=29.70  Aligned_cols=37  Identities=11%  Similarity=0.201  Sum_probs=25.7

Q ss_pred             CCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 045417           47 PYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSD   83 (184)
Q Consensus        47 ~~~~~~~~~~~~iii~vli~~l~~l~~~~i~~r~~~~   83 (184)
                      +++...|+....+++++++++.++.....++.|-|..
T Consensus        28 ~ss~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkDlIl   64 (91)
T PF01708_consen   28 SSSGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKDLIL   64 (91)
T ss_pred             CCCCCcceeEeeeeehHHHHHHHHHHHHHHHHHHHhh
Confidence            4566778877777777777777776666666666554

; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane

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

Probab=84.14  E-value=0.73  Score=43.62  Aligned_cols=50  Identities=18%  Similarity=0.317  Sum_probs=35.1

Q ss_pred             CCcccCccccccCCCC---ceeecCCCCCcccHHHHHHHHh------cCCCCccccCCC
Q 045417          131 GALECAVCLNEFEDDE---TLRLIPKCDHVFHPECIDAWLE------SHTTCPVCRSNL  180 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~---~~r~lp~C~H~FH~~CI~~Wl~------~~~~CP~CR~~l  180 (184)
                      +...|.+|..++.+++   ..-.+..|+|.||..||..|..      .+-.|+.|...|
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci  153 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV  153 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence            4557888888887632   1222235999999999999983      244689997765

>KOG0269 consensus WD40 repeat-containing protein [Function unknown]

Probab=82.10  E-value=1.2  Score=41.91  Aligned_cols=40  Identities=20%  Similarity=0.435  Sum_probs=30.6

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCcc
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPV  175 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~  175 (184)
                      .|.+|-..+..  .....+.|||.-|.+|+..|+..+..||.
T Consensus       781 ~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  781 KCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             Cceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence            68888766542  22334579999999999999998888876

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

Probab=81.90  E-value=0.39  Score=44.70  Aligned_cols=46  Identities=35%  Similarity=0.916  Sum_probs=34.9

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc---CCCCccccCCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLA  181 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~  181 (184)
                      ..||+||++.+.+.    .+.+|.|.|+.-|+..-+..   ...||+|+..+.
T Consensus        21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            45999999998876    22269999999998765533   457999997654

>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=81.33  E-value=1.2  Score=27.37  Aligned_cols=38  Identities=29%  Similarity=0.630  Sum_probs=21.1

Q ss_pred             cCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      |+-|-..+.+++.+..  .-+..||.+|        .+|-.|++.|..
T Consensus         1 C~~C~~~I~~~~~~~~--~~~~~~H~~C--------f~C~~C~~~l~~   38 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIK--AMGKFWHPEC--------FKCSKCGKPLND   38 (58)
T ss_dssp             BTTTSSBESSSSEEEE--ETTEEEETTT--------SBETTTTCBTTT
T ss_pred             CCCCCCCccCcEEEEE--eCCcEEEccc--------cccCCCCCccCC
Confidence            5556666665444422  1456667666        456666666554

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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....

>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins

Probab=80.20  E-value=8.4  Score=27.86  Aligned_cols=18  Identities=28%  Similarity=0.648  Sum_probs=12.2

Q ss_pred             HhcCCCCccccCCCCCCC
Q 045417          167 LESHTTCPVCRSNLASEP  184 (184)
Q Consensus       167 l~~~~~CP~CR~~l~~~p  184 (184)
                      +.+...|+.|+++++.+|
T Consensus        82 LGr~D~CM~C~~pLTLd~   99 (114)
T PF11023_consen   82 LGRVDACMHCKEPLTLDP   99 (114)
T ss_pred             hchhhccCcCCCcCccCc
Confidence            344456888888887654

; GO: 0005887 integral to plasma membrane

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	184
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		8e-13
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		3e-09
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-09
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		1e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		2e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		5e-05
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		4e-04

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 28/46 (60%), Positives = 34/46 (73%)
Query: 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177
            +ECAVCL E ED E  R +P+C H FH EC+D WL SH+TCP+CR
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Ring Finger Protein 126 Length = 78

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/56 (48%), Positives = 37/56 (66%), Gaps = 2/56 (3%)
Query: 128 VGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           VG G LEC VC  ++   E++R +P C+H+FH  CI  WLE H +CPVCR +L  +
Sbjct: 12  VGSG-LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ 65

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 35/45 (77%), Gaps = 1/45 (2%)
Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN 179
           C VC+ +FE  + LR++P C+H FH +C+D WL+++ TCP+CR++
Sbjct: 26  CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRAD 69

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 34/50 (68%), Gaps = 1/50 (2%)
Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           +C +CL+  E+ E +R +P C H+FH  C+D WL ++  CP+CR ++ ++
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVC 176
           CAVCL +F+  + L + P C H FH +C+  WLE    CP+C
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3 Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4710b Length = 91

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 109 REVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 168
           +E ID  P  + ++     VG+  + C +C +E+   +    +P C H FH  C+  WL+
Sbjct: 19  KESIDALPEILVTEDHG-AVGQ-EMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQ 75
Query: 169 SHTTCPVCR 177
              TCPVCR
Sbjct: 76  KSGTCPVCR 84

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177
           EC +C++   D     LI  C H F  +CID W + H  CP+CR
Sbjct: 17  ECCICMDGRAD-----LILPCAHSFCQKCIDKWSDRHRNCPICR 55

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	184
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-32
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-31
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-30
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-26
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-25
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	3e-22
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-20
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-19
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-17
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	6e-16
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-14
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-13
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	5e-13
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	6e-13
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-12
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-10
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	6e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	7e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-07
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	1e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	3e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	4e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	5e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	7e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	7e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	8e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	1e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	1e-04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-04
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	4e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	5e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	7e-04

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

 Score =  109 bits (275), Expect = 3e-32
 Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 4/76 (5%)

Query: 109 REVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 168
                  P++ ++             C VC+ +FE  + LR++P C+H FH +C+D WL+
Sbjct: 3   SGSSGQLPSYRFNPNNH---QSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLK 58

Query: 169 SHTTCPVCRSNLASEP 184
           ++ TCP+CR++     
Sbjct: 59  ANRTCPICRADSGPSS 74

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

 Score =  106 bits (267), Expect = 3e-31
 Identities = 28/52 (53%), Positives = 35/52 (67%)

Query: 129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
               +ECAVCL E ED E  R +P+C H FH EC+D WL SH+TCP+CR  +
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 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 =  106 bits (267), Expect = 1e-30
 Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 3/84 (3%)

Query: 97  NRSRRGAARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDH 156
           + S   A     +E ID  P  + +  +        + C +C +E+   +    +P C H
Sbjct: 7   HHSHMVANPPASKESIDALPEILVT--EDHGAVGQEMCCPICCSEYVKGDVATELP-CHH 63

Query: 157 VFHPECIDAWLESHTTCPVCRSNL 180
            FH  C+  WL+   TCPVCR   
Sbjct: 64  YFHKPCVSIWLQKSGTCPVCRCMF 87

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 94.4 bits (235), Expect = 3e-26
 Identities = 19/51 (37%), Positives = 34/51 (66%), Gaps = 1/51 (1%)

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           +C +CL+  E+ E +R +P C H+FH  C+D WL ++  CP+CR ++ ++ 
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQL 65

>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 = 92.9 bits (231), Expect = 2e-25
 Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 1/60 (1%)

Query: 125 TLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           T +     LEC VC  ++   E++R +P C+H+FH  CI  WLE H +CPVCR +L  + 
Sbjct: 8   TEEHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66

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

 Score = 84.4 bits (209), Expect = 3e-22
 Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
            CAVCL +F+  + L + P C H FH +C+  WLE    CP+C   +
Sbjct: 17  LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV 62

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

 Score = 79.6 bits (196), Expect = 2e-20
 Identities = 12/46 (26%), Positives = 26/46 (56%)

Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
           C  C  E + ++ + +  +C+H FH  C+  W++ +  CP+C+ + 
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

>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 = 76.9 bits (190), Expect = 1e-19
 Identities = 11/48 (22%), Positives = 20/48 (41%)

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181
            C +CL +      +  +  C H+ H  C +  L+    CP+C    +
Sbjct: 7   GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 72.0 bits (177), Expect = 2e-17
 Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 5/64 (7%)

Query: 120 YSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN 179
                 +K      EC +C+    D     ++P C H F  +CID W + H  CP+CR  
Sbjct: 3   SGSSGRVKQLTDEEECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQ 57

Query: 180 LASE 183
           +   
Sbjct: 58  MTGA 61

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

 Score = 67.8 bits (166), Expect = 6e-16
 Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182
            C +CL +  +         C H F   CI  W+  + TCP+C+  + S
Sbjct: 7   RCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

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

 Score = 64.2 bits (156), Expect = 1e-14
 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 3/56 (5%)

Query: 131 GALECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           G + C +C++ + +      +    +C HVF  +C+   L++  TCP CR  +  +
Sbjct: 14  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 69

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

 Score = 60.9 bits (148), Expect = 2e-13
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 3/53 (5%)

Query: 131 GALECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHTTCPVCRSNL 180
             + C +C++ + +      +    +C HVF  +C+   L++  TCP CR  +
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 61.8 bits (149), Expect = 3e-13
 Identities = 12/43 (27%), Positives = 17/43 (39%)

Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177
           C         +E       C+H FH  CI  WL++   CP+  
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>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 = 60.2 bits (146), Expect = 5e-13
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 3/53 (5%)

Query: 131 GALECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHTTCPVCRSNL 180
           G + C +C++ + +      +    +C HVF  +C+   L++  TCP CR  +
Sbjct: 9   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

>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 = 61.1 bits (148), Expect = 6e-13
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 4/49 (8%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNL 180
             C +C+ +  D    RL P C  +    CI  WL E    CP CR+ L
Sbjct: 23  FRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus} Length = 117

 Score = 60.2 bits (145), Expect = 2e-12
 Identities = 12/43 (27%), Positives = 17/43 (39%)

Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177
           C         +E       C+H FH  CI  WL++   CP+  
Sbjct: 65  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 54.0 bits (130), Expect = 1e-10
 Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 3/48 (6%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
           + C++C     D  T   I +C H F   CI         CP C   +
Sbjct: 16  ILCSICKGYLIDATT---ITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

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

 Score = 51.8 bits (124), Expect = 1e-09
 Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 4/47 (8%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN 179
             C +C   F++        KC H F   C      +   C +C   
Sbjct: 16  FRCFICRQAFQNPVVT----KCRHYFCESCALEHFRATPRCYICDQP 58

>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 = 52.1 bits (125), Expect = 2e-09
 Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182
           L C +C   F D  T   I +C H F   CI  +LE+   CP+C   +  
Sbjct: 16  LMCVLCGGYFIDATT---IIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62

>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 = 50.7 bits (121), Expect = 2e-09
 Identities = 10/55 (18%), Positives = 18/55 (32%), Gaps = 5/55 (9%)

Query: 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLASE 183
               C +C +     ++      C    H  C+  + +S+    CP C      E
Sbjct: 14  AVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE 65

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

 Score = 52.1 bits (124), Expect = 3e-09
 Identities = 15/60 (25%), Positives = 30/60 (50%), Gaps = 3/60 (5%)

Query: 128 VGKGALECAVCLNEFEDDETLRLIP---KCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           +G G + C +C++ + +      +    +C HVF  +C+   L++  TCP CR  +  + 
Sbjct: 3   MGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 62

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

 Score = 46.3 bits (109), Expect = 4e-07
 Identities = 14/51 (27%), Positives = 28/51 (54%), Gaps = 3/51 (5%)

Query: 133 LECAVCLNEFED---DETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
           + C +C++ + +   +  L +  +C HVF  +C+   L++  TCP CR  +
Sbjct: 73  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123

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

 Score = 50.6 bits (121), Expect = 3e-09
 Identities = 14/48 (29%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
            ECA+CL       +L     C HVF   C+         C +CR  +
Sbjct: 16  PECAICLQTCVHPVSL----PCKHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 51.6 bits (123), Expect = 5e-09
 Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 4/52 (7%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           L+C +C   F +  TL     C H F   CI+ W++    CP+CR ++ S+ 
Sbjct: 65  LQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRKDIKSKT 112

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

 Score = 53.3 bits (127), Expect = 6e-09
 Identities = 17/87 (19%), Positives = 30/87 (34%), Gaps = 16/87 (18%)

Query: 112 IDTFP-TFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLI----PKCDHVFHPECIDAW 166
           +  FP        K  +     L C +C     D   + L+     KC    H  C++ W
Sbjct: 287 LCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEW 346

Query: 167 LES-----------HTTCPVCRSNLAS 182
            ++              CP C++ L++
Sbjct: 347 FKTLMDGKTFLEVSFGQCPFCKAKLST 373

>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 = 49.8 bits (118), Expect = 1e-08
 Identities = 12/64 (18%), Positives = 22/64 (34%), Gaps = 19/64 (29%)

Query: 134 ECAVCLNEFED--------------DETLRLIPKCDHVFHPECIDAWLES-----HTTCP 174
           +C +C+ +                    +  + KC H FH  C+ A   +        CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 175 VCRS 178
            C++
Sbjct: 87  SCKT 90

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

 Score = 47.5 bits (113), Expect = 7e-08
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
           L C +C   F       +IP+C H +   CI  +L   T CP C   +
Sbjct: 23  LRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

>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 = 49.8 bits (118), Expect = 1e-07
 Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 5/52 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASE 183
             C +C    +D   +++ P C H+    C+ +W ES    CP CR  +   
Sbjct: 333 QLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 380

>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 = 45.9 bits (109), Expect = 2e-07
 Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 5/54 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--TCPVCRSNLASEP 184
           L C +C +   D     +IP C + +  ECI   L      TCP C  N  S  
Sbjct: 16  LLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 66

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

 Score = 43.9 bits (104), Expect = 1e-06
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 3/48 (6%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT---TCPVCR 177
           LEC +C+  F +++    +  C H    +C++  L S      CP C 
Sbjct: 16  LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

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

 Score = 43.2 bits (102), Expect = 2e-06
 Identities = 20/54 (37%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECI-DAWLESHT-TCPVCRSNLASEP 184
           L C +C +   D     +IP C + +  ECI  A LES   TCP C  N  S  
Sbjct: 14  LLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 64

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

 Score = 44.7 bits (105), Expect = 3e-06
 Identities = 10/56 (17%), Positives = 18/56 (32%), Gaps = 5/56 (8%)

Query: 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLASE 183
                C +C +     ++      C    H  C+  + +S+    CP C      E
Sbjct: 178 DAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE 230

>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 = 43.8 bits (103), Expect = 4e-06
 Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 4/53 (7%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASEP 184
           L C +CL+  ++  T     +C H F  +CI   L S    CP CR  L S+ 
Sbjct: 55  LMCPICLDMLKNTMT---TKECLHRFCADCIITALRSGNKECPTCRKKLVSKR 104

>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 = 43.0 bits (101), Expect = 4e-06
 Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 5/46 (10%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178
           L C+ C N   +      +  C+H+F   C+   +   T CPVC +
Sbjct: 23  LRCSRCTNILREPVC---LGGCEHIFCSNCVSDCIG--TGCPVCYT 63

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

 Score = 41.7 bits (98), Expect = 5e-06
 Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 5/52 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASE 183
            +C  C       +      +C H F   C+ A L S +  C  C+ ++  +
Sbjct: 16  YKCEKCHLVLCSPKQT----ECGHRFCESCMAALLSSSSPKCTACQESIVKD 63

>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 = 42.6 bits (100), Expect = 7e-06
 Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 5/53 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASEP 184
            +C  C        T      C H    +C+D    +   +CP CR +L    
Sbjct: 53  FQCICCQELVFRPITT----VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSY 101

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

 Score = 40.5 bits (94), Expect = 2e-05
 Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 1/53 (1%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTT-CPVCRSNLASEP 184
           +EC +C+   E D+       C +     C           CP CR     +P
Sbjct: 12  VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP 64

>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 = 39.8 bits (93), Expect = 7e-05
 Identities = 13/53 (24%), Positives = 17/53 (32%), Gaps = 5/53 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASEP 184
            EC +CL    +     +   C H F   CI   +      CPV    L    
Sbjct: 19  YECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>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 = 39.5 bits (92), Expect = 8e-05
 Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNL 180
           + C +C +   D     +   C H+F   CI   L+   + CP CR   
Sbjct: 24  ISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 38.7 bits (90), Expect = 1e-04
 Identities = 11/54 (20%), Positives = 23/54 (42%), Gaps = 9/54 (16%)

Query: 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--------TCPVC 176
           G+  C +CL E+  ++   +  +C  +F   C+  ++E           +CP  
Sbjct: 4   GSSGCKLCLGEYPVEQMTTI-AQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

>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 = 39.6 bits (92), Expect = 1e-04
 Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 5/53 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLASEP 184
             C  C        T     +C H    +C+    ++   +CP CR +L    
Sbjct: 79  FMCVCCQELVYQPVTT----ECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNY 127

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 80

 Score = 38.0 bits (88), Expect = 1e-04
 Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 5/48 (10%)

Query: 135 CAVCLNEFEDDETLRLIPKCD---HVFHPECIDAWLES--HTTCPVCR 177
           C +C  E +D+  L     C    H  H  C+  W++S     C +C+
Sbjct: 18  CRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65

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

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 5/53 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASEP 184
            +C +C+    +  TL     C+H     C  + +E +   CP CR  ++S  
Sbjct: 16  CQCGICMEILVEPVTLP----CNHTLCKPCFQSTVEKASLCCPFCRRRVSSWT 64

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

 Score = 38.5 bits (89), Expect = 4e-04
 Identities = 13/53 (24%), Positives = 17/53 (32%), Gaps = 5/53 (9%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLASEP 184
            EC +CL    +     +   C H F   CI   +      CPV    L    
Sbjct: 19  YECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>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 Length = 61

 Score = 36.2 bits (84), Expect = 4e-04
 Identities = 8/52 (15%), Positives = 18/52 (34%), Gaps = 3/52 (5%)

Query: 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
            + CA+              PK   +F    ++ +++     P+    L+ E
Sbjct: 3   HMLCAISGKVPRRPVLS---PKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE 51

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

 Score = 35.8 bits (83), Expect = 5e-04
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 7/46 (15%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178
           L C  C  E +  + L     C H     C++A   S   CP+C++
Sbjct: 7   LRCQQCQAEAKCPKLL----PCLHTLCSGCLEA---SGMQCPICQA 45

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

 Score = 35.8 bits (83), Expect = 7e-04
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 7/48 (14%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES---HTTCPVCR 177
           + C +CL+  +   T+     C H F  +CI    E+      CP+C+
Sbjct: 21  VICPICLDILQKPVTI----DCGHNFCLKCITQIGETSCGFFKCPLCK 64

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	184
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.8
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.74
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.7
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.67
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.67
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.67
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.65
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.6
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.59
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.58
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.56
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.56
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.54
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.53
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.51
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.5
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.49
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.48
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.46
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.46
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.4
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.4
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.4
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.39
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.39
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.38
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.36
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.35
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.34
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.34
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.32
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.31
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.29
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.29
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.28
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.28
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.27
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.27
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.26
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.2
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.19
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.18
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.17
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.16
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.16
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.15
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.14
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.09
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.09
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.06
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.96
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.96
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.95
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.95
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.94
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.88
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.85
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.85
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.84
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.8
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.69
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.68
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.51
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.48
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.47
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.42
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.34
3nw0_A	238	Non-structural maintenance of chromosomes element	98.22
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	97.3
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.37
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.62
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	93.48
1we9_A	64	PHD finger family protein; structural genomics, PH	92.51
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	91.73
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	91.37
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	89.67
2yt5_A	66	Metal-response element-binding transcription facto	89.66
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	89.49
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	89.47
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	89.44
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	89.34
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	88.86
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	88.4
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	88.31
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	87.84
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	87.76
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	87.54
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	87.33
2jwa_A	44	Receptor tyrosine-protein kinase ERBB-2; transmemb	87.21
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	86.77
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	86.41
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	86.4
2klu_A	70	T-cell surface glycoprotein CD4; cell membrane, di	86.08
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	85.85
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	85.77
1wem_A	76	Death associated transcription factor 1; structura	85.24
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	84.71
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	84.17
2co8_A	82	NEDD9 interacting protein with calponin homology a	82.28
4gne_A	107	Histone-lysine N-methyltransferase NSD3; zinc fing	82.16
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	82.16
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	81.72
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	80.17

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

Probab=99.80  E-value=1.1e-19  Score=126.15  Aligned_cols=80  Identities=28%  Similarity=0.672  Sum_probs=69.0

Q ss_pred             cccccCCCCHHHHhhCCceeecccccccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCC
Q 045417          100 RRGAARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN  179 (184)
Q Consensus       100 ~~~~~~gl~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  179 (184)
                      ......+++++.++.+|.+.+.....  ...++.+|+||+++|..++.++.++ |||.||..||+.|++.+.+||+||+.
T Consensus        10 ~~~~~~~~s~~~i~~lp~~~~~~~~~--~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~   86 (91)
T 2l0b_A           10 HMVANPPASKESIDALPEILVTEDHG--AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCM   86 (91)
T ss_dssp             CSSCCCCCCHHHHHTSCEEECCTTCS--SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCB
T ss_pred             CCcCCCCCCHHHHHhCCCeeeccccc--ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCcc
Confidence            34467899999999999998875432  2346678999999999999999998 99999999999999999999999999


Q ss_pred             CCC
Q 045417          180 LAS  182 (184)
Q Consensus       180 l~~  182 (184)
                      +.+
T Consensus        87 ~~~   89 (91)
T 2l0b_A           87 FPP   89 (91)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            875

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

Probab=99.74  E-value=7.3e-19  Score=117.49  Aligned_cols=68  Identities=32%  Similarity=0.914  Sum_probs=57.6

Q ss_pred             HhhCCceeecccccccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417          112 IDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  183 (184)
Q Consensus       112 i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  183 (184)
                      ++.+|.+.+...+   ...++.+|+||+++|..++.++.++ |+|.||.+||+.|++.+.+||+||+++.+.
T Consensus         6 i~~lp~~~~~~~~---~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            6 SGQLPSYRFNPNN---HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSCCCEEBCSSS---CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             HhhCCcEEecCcc---ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            4567887776533   2346679999999999999999998 999999999999999999999999998764

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

Probab=99.70  E-value=7.3e-18  Score=105.80  Aligned_cols=51  Identities=55%  Similarity=1.249  Sum_probs=47.0

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ++.+|+||+++|.+++....++.|||.||.+||+.|++++.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            566999999999999988888779999999999999999999999999875

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

Probab=99.67  E-value=3.2e-17  Score=111.34  Aligned_cols=52  Identities=25%  Similarity=0.790  Sum_probs=43.2

Q ss_pred             CCcccCccccccCC-----------CCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFED-----------DETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~-----------~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ++.+|+||+++|++           ++.++.++.|+|.||.+||++|++++.+||+||+++..
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            45578888888854           45566666799999999999999999999999998864

>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=99.67  E-value=5.6e-17  Score=106.39  Aligned_cols=54  Identities=35%  Similarity=1.002  Sum_probs=48.2

Q ss_pred             CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417          129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  183 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  183 (184)
                      ..+..+|+||++.|..++.++.++ |||.||..||..|++.+.+||+||+.+...
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            346678999999999888888887 999999999999999999999999988653

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

Probab=99.67  E-value=5e-17  Score=108.04  Aligned_cols=52  Identities=37%  Similarity=0.914  Sum_probs=47.6

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ..+.+|+||+++|.+++.++.++ |+|.||.+||+.|++.+.+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQ   64 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSS
T ss_pred             CCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCccccc
Confidence            45679999999999999898888 99999999999999999999999998864

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

Probab=99.65  E-value=8.2e-17  Score=108.05  Aligned_cols=53  Identities=45%  Similarity=1.131  Sum_probs=48.0

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  183 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  183 (184)
                      .+..+|+||+++|.+++.++.++ |+|.||.+||..|++.+.+||+||+.+..+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ   65 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCS
T ss_pred             CCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCc
Confidence            45679999999999998888887 999999999999999999999999988653

>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=99.60  E-value=3.4e-16  Score=111.64  Aligned_cols=65  Identities=26%  Similarity=0.499  Sum_probs=49.8

Q ss_pred             CceeecccccccCCCCCcccCccccccCCCC---------------ceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417          116 PTFVYSDVKTLKVGKGALECAVCLNEFEDDE---------------TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  180 (184)
Q Consensus       116 p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~---------------~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  180 (184)
                      ....+..+.....+.++..|+||+++|++.-               .++.++ |+|.||.+||+.||+.+.+||+||+++
T Consensus        21 ~ik~~~~v~~w~~d~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~   99 (106)
T 3dpl_R           21 EVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREW   99 (106)
T ss_dssp             EEEEEEEEEEEEESSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             eEEEEEEeeEeecCCCCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcc
Confidence            3344444444444556789999999998641               355666 999999999999999999999999986


Q ss_pred             C
Q 045417          181 A  181 (184)
Q Consensus       181 ~  181 (184)
                      .
T Consensus       100 ~  100 (106)
T 3dpl_R          100 E  100 (106)
T ss_dssp             C
T ss_pred             e
Confidence            4

>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=99.59  E-value=7.6e-16  Score=96.39  Aligned_cols=50  Identities=26%  Similarity=0.828  Sum_probs=43.3

Q ss_pred             CCcccCccccccCCCC-ceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDE-TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~-~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      +..+|+||++++.+++ ....++ |+|.||.+||+.|++.+.+||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            5668999999997654 466666 9999999999999998899999999875

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

Probab=99.58  E-value=1.1e-15  Score=99.68  Aligned_cols=52  Identities=27%  Similarity=0.813  Sum_probs=44.2

Q ss_pred             CCCcccCccccccCCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .+..+|+||++.|.+.    ..+.+++ |||.||.+||+.|++++.+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            4667999999999764    3345666 99999999999999999999999999875

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

Probab=99.56  E-value=1.1e-15  Score=100.52  Aligned_cols=53  Identities=26%  Similarity=0.805  Sum_probs=44.7

Q ss_pred             CCCcccCccccccCCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417          130 KGALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  183 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  183 (184)
                      .++.+|+||++++.+.    +....++ |||.||.+||+.|++++.+||+||+.+..+
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   64 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChh
Confidence            3567999999999753    4456666 999999999999999999999999988753

>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=99.56  E-value=2.6e-15  Score=107.66  Aligned_cols=51  Identities=25%  Similarity=0.664  Sum_probs=41.2

Q ss_pred             CCcccCccccccCCCC---------------ceeecCCCCCcccHHHHHHHH-----hcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDE---------------TLRLIPKCDHVFHPECIDAWL-----ESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~---------------~~r~lp~C~H~FH~~CI~~Wl-----~~~~~CP~CR~~l~~  182 (184)
                      .+.+|+||+++|.+++               .+++++ |+|.||.+||+.|+     ..+.+||+||+.+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            3458999999997653               334665 99999999999999     456799999998753

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

Probab=99.54  E-value=2e-15  Score=97.07  Aligned_cols=52  Identities=25%  Similarity=0.772  Sum_probs=43.9

Q ss_pred             CCcccCccccccCCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417          131 GALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  183 (184)
Q Consensus       131 ~~~eCaICL~~f~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  183 (184)
                      ++.+|+||++++.+.    +.+..++ |||.||.+||+.|++++.+||+||+.+..+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            456899999999753    3445666 999999999999999999999999998753

>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=99.53  E-value=4.3e-16  Score=112.83  Aligned_cols=68  Identities=26%  Similarity=0.496  Sum_probs=9.3

Q ss_pred             CCceeecccccccCCCCCcccCccccccCCC-------------C-ceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417          115 FPTFVYSDVKTLKVGKGALECAVCLNEFEDD-------------E-TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL  180 (184)
Q Consensus       115 ~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~-------------~-~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l  180 (184)
                      +....++.+.....+.++..|+||+++|++.             + ...+++.|+|.||.+||+.||+.+.+||+||+++
T Consensus        31 ~~ikkw~ava~w~wd~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~  110 (117)
T 4a0k_B           31 FEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW  110 (117)
T ss_dssp             EEEEEEEEEEEEEECCCC--------------------------------------------------------------
T ss_pred             eEEEEEEEEEEEeecCCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCee
Confidence            3344455555445555678999999999752             2 2223234999999999999999999999999986


Q ss_pred             CC
Q 045417          181 AS  182 (184)
Q Consensus       181 ~~  182 (184)
                      ..
T Consensus       111 ~~  112 (117)
T 4a0k_B          111 EF  112 (117)
T ss_dssp             --
T ss_pred             ee
Confidence            43

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

Probab=99.51  E-value=8.1e-15  Score=99.37  Aligned_cols=51  Identities=27%  Similarity=0.799  Sum_probs=43.1

Q ss_pred             CCCcccCccccccCCCCceeecCCCC-----CcccHHHHHHHHhcC--CCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCD-----HVFHPECIDAWLESH--TTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~-----H~FH~~CI~~Wl~~~--~~CP~CR~~l~~  182 (184)
                      .++.+|.||+++|++++.+ ++| |+     |.||.+||+.|+..+  .+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            4567899999999888776 467 86     999999999999754  589999998764

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

Probab=99.50  E-value=5.3e-15  Score=97.09  Aligned_cols=48  Identities=35%  Similarity=1.032  Sum_probs=42.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .+..+|+||++.+.+    ..++ |||.||..||..|+.++.+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTC
T ss_pred             CCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccC
Confidence            456799999999886    4566 99999999999999999999999998764

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

Probab=99.49  E-value=2.3e-14  Score=94.76  Aligned_cols=50  Identities=22%  Similarity=0.513  Sum_probs=42.4

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .+..+|+||++.+.+.  +.+++ |||.||..||..|++.+.+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A           13 TPYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             CGGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             CCCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            4567999999999863  33345 99999999999999989999999998864

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

Probab=99.48  E-value=1.8e-14  Score=93.92  Aligned_cols=48  Identities=31%  Similarity=0.816  Sum_probs=41.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      .+.+|+||++.+.++  ...++ |||.||.+||..|++++.+||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~--~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            4 VAERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCeeCCccccCC--cEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            566899999998753  45666 9999999999999999999999999875

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

Probab=99.46  E-value=2.4e-14  Score=94.39  Aligned_cols=48  Identities=29%  Similarity=0.638  Sum_probs=41.3

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      .+..+|+||++.+.+.   ..++ |||.||..||..|+..+.+||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             SSCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             CCCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            3567899999998764   3446 9999999999999999999999999875

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

Probab=99.46  E-value=6.1e-14  Score=95.63  Aligned_cols=52  Identities=27%  Similarity=0.786  Sum_probs=44.0

Q ss_pred             CCCcccCccccccCCCCc-eeecCCCCCcccHHHHHHHHhcC---CCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLESH---TTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~-~r~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~l~~  182 (184)
                      .+..+|+||++.|.+++. .+.++ |||.||.+||..|++.+   .+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             cCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            466799999999998764 56666 99999999999999875   789999997653

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

Probab=99.40  E-value=2.6e-13  Score=91.50  Aligned_cols=48  Identities=19%  Similarity=0.598  Sum_probs=41.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ....+|+||++.|.+.  + +++ |||.||..||..|++.+.+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~p--~-~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP--V-VTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE--E-ECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe--e-Ecc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3567899999999763  2 455 9999999999999998999999999874

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

Probab=99.40  E-value=3.1e-13  Score=87.64  Aligned_cols=50  Identities=22%  Similarity=0.599  Sum_probs=41.8

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHH-hcCCCCccccCCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNLASE  183 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~~  183 (184)
                      .+..+|+||++.+.+...   ++ |||.||..||..|+ ..+.+||+||+.+..+
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPKQ---TE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCEECTTTCCEESSCCC---CS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CcCCCCCCCChHhcCeeE---CC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            356799999999987544   35 99999999999999 4567899999998753

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

Probab=99.40  E-value=1.1e-13  Score=100.86  Aligned_cols=53  Identities=26%  Similarity=0.805  Sum_probs=44.9

Q ss_pred             CCCcccCccccccCCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417          130 KGALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  183 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  183 (184)
                      .+..+|+||++.|.++    +....++ |||.||.+||+.|++++.+||+||+.+..+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            3567999999999764    4446666 999999999999999999999999988754

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

Probab=99.39  E-value=2.3e-13  Score=90.72  Aligned_cols=49  Identities=18%  Similarity=0.578  Sum_probs=42.5

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC--CCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~~  182 (184)
                      ...+|+||.+.+..++...   .|+|.||.+||+.||+++  .+||+||+++..
T Consensus        14 ~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            5569999999999877654   599999999999999887  889999998753

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

Probab=99.39  E-value=2.4e-13  Score=89.64  Aligned_cols=50  Identities=26%  Similarity=0.692  Sum_probs=41.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh---cCCCCccccCCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE---SHTTCPVCRSNLASE  183 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~---~~~~CP~CR~~l~~~  183 (184)
                      .+..+|+||++.+.+.   ..++ |||.||.+||..|++   .+.+||+||+.+..+
T Consensus        18 ~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           18 QEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCBCTTTCSBCSSE---EECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             ccCCEeccCCcccCCe---EEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            3567999999998853   3345 999999999999996   456899999998764

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

Probab=99.38  E-value=1.2e-13  Score=102.38  Aligned_cols=48  Identities=31%  Similarity=0.925  Sum_probs=41.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ++..|+||++.|.++   .++| |||.||..||..|+..+.+||+||+++..
T Consensus        52 ~~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           52 NELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HHSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             ccCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            345799999999763   3456 99999999999999999999999998864

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

Probab=99.36  E-value=5.2e-13  Score=86.32  Aligned_cols=51  Identities=20%  Similarity=0.542  Sum_probs=40.6

Q ss_pred             CCcccCcccc-ccCCCCcee-ecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          131 GALECAVCLN-EFEDDETLR-LIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~-~f~~~~~~r-~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      ++.+|+||++ .+.+..... .++ |||.||..||+.|+.+ +.+||+||+.+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            3568999999 777765433 344 9999999999999754 4679999998864

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

Probab=99.35  E-value=4.6e-13  Score=88.96  Aligned_cols=49  Identities=33%  Similarity=0.689  Sum_probs=40.3

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC--CCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~  181 (184)
                      .+..+|+||++.|.+...   ++.|||.||..||..|++.+  .+||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           13 PDELLCLICKDIMTDAVV---IPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             CGGGSCSSSCCCCTTCEE---CSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCCcCCChHHhCCeE---cCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            356799999999986433   44599999999999999765  68999999754

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

Probab=99.34  E-value=3.3e-13  Score=98.27  Aligned_cols=53  Identities=28%  Similarity=0.839  Sum_probs=44.2

Q ss_pred             CCCCcccCccccccCCC----CceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          129 GKGALECAVCLNEFEDD----ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~----~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ..+..+|+||++.|++.    .....++ |||.||..||++|++.+.+||+||+++..
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~  125 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH  125 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCCh
Confidence            34677999999999753    3335555 99999999999999999999999998865

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

Probab=99.34  E-value=1.1e-12  Score=88.56  Aligned_cols=48  Identities=31%  Similarity=0.718  Sum_probs=41.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc------CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES------HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~  182 (184)
                      +..+|+||++.+.+..   +++ |||.||..||..|+..      ...||+||..+..
T Consensus        18 ~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           18 EEVTCPICLELLKEPV---SAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             TTTSCTTTCSCCSSCE---ECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             cCCCCcCCChhhCcce---eCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            5679999999998653   456 9999999999999977      6789999998864

>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=99.32  E-value=5.1e-13  Score=93.84  Aligned_cols=49  Identities=27%  Similarity=0.729  Sum_probs=40.8

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  182 (184)
                      +..+|+||++.|.+  .+..++ |||.||..||..|++.+ .+||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~--p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           21 EVFRCFICMEKLRD--ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHTBCTTTCSBCSS--EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCccCCccccC--ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            45689999999985  343355 99999999999999877 699999998753

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

Probab=99.31  E-value=9.3e-13  Score=92.04  Aligned_cols=49  Identities=27%  Similarity=0.720  Sum_probs=41.2

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +..+|+||++.|.+.  +.+++ |||.||..||..|+..+.+||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNIA--MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCCc--CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            456899999999863  33335 99999999999999998999999998763

>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=99.29  E-value=2e-12  Score=91.83  Aligned_cols=49  Identities=33%  Similarity=0.729  Sum_probs=42.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +...|+||++.|.+  .+.+++ |||.||..||..|+..+.+||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           14 PHLMCVLCGGYFID--ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GGTBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             CcCCCccCChHHhC--cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            56799999999975  344445 99999999999999999999999998864

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

Probab=99.29  E-value=2.4e-12  Score=80.97  Aligned_cols=43  Identities=37%  Similarity=0.938  Sum_probs=35.6

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHH---hcCCCCccc
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL---ESHTTCPVC  176 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl---~~~~~CP~C  176 (184)
                      .+..+|+||++.+.+..   +++ |||.||.+||..|+   ..+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEPV---IIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSCC---CCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCccE---eCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            35679999999998753   345 99999999999995   456789998

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

Probab=99.28  E-value=1e-12  Score=87.85  Aligned_cols=49  Identities=22%  Similarity=0.658  Sum_probs=41.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-------CCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-------HTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-------~~~CP~CR~~l~~  182 (184)
                      .+..+|+||++.|.+...   ++ |||.||..||..|++.       ..+||+||..+..
T Consensus        10 ~~~~~C~IC~~~~~~p~~---l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           10 QEEVTCPICLELLTEPLS---LD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCEETTTTEECSSCCC---CS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             ccCCCCcCCCcccCCeeE---CC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            366799999999987433   45 9999999999999976       6689999998864

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

Probab=99.28  E-value=2.4e-12  Score=85.94  Aligned_cols=49  Identities=22%  Similarity=0.639  Sum_probs=41.3

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      .+...|+||++.|.+.  + .++ |||.||..||..|+.. +.+||+||+.+..
T Consensus         6 ~~~~~C~IC~~~~~~P--v-~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            6 PEYFRCPISLELMKDP--V-IVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSSE--E-EET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cccCCCCCccccccCC--E-EcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            3567999999999864  3 235 9999999999999986 7889999998764

>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=99.27  E-value=6.6e-12  Score=95.50  Aligned_cols=76  Identities=28%  Similarity=0.529  Sum_probs=52.0

Q ss_pred             cCCCCHHHHhhCCceeecccccc----cCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccC
Q 045417          104 ARGLDREVIDTFPTFVYSDVKTL----KVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRS  178 (184)
Q Consensus       104 ~~gl~~~~i~~~p~~~~~~~~~~----~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~  178 (184)
                      ..++....+...+.....+....    +...+...|+||++.|.+  .+.+++ |||.||..||+.|+.. +.+||+||.
T Consensus        22 ~~~l~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~   98 (165)
T 2ckl_B           22 TWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKN--TMTTKE-CLHRFCADCIITALRSGNKECPTCRK   98 (165)
T ss_dssp             CCCCCHHHHHCCCCCCCCSCCEEC----CCHHHHBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTCC
T ss_pred             cccCCHHHHhcCchhhhccccccccchhhCCCCCCCcccChHhhC--cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCCC
Confidence            45556666665554333322111    112245689999999986  344445 9999999999999987 788999999


Q ss_pred             CCCC
Q 045417          179 NLAS  182 (184)
Q Consensus       179 ~l~~  182 (184)
                      .+..
T Consensus        99 ~~~~  102 (165)
T 2ckl_B           99 KLVS  102 (165)
T ss_dssp             BCCS
T ss_pred             cCCC
Confidence            8853

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

Probab=99.27  E-value=3.9e-12  Score=85.76  Aligned_cols=48  Identities=27%  Similarity=0.727  Sum_probs=40.8

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc------CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES------HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR~~l~~  182 (184)
                      +..+|+||++.+.+..   .++ |||.||..||..|+..      ...||+||..+..
T Consensus        18 ~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           18 EEVTCPICLELLTQPL---SLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCTTTCSCCSSCB---CCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             CCCCCCCCCcccCCce---eCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            5679999999998643   345 9999999999999977      7889999998764

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

Probab=99.26  E-value=4.7e-12  Score=81.17  Aligned_cols=43  Identities=30%  Similarity=0.749  Sum_probs=35.8

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh---cCCCCccc
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE---SHTTCPVC  176 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~---~~~~CP~C  176 (184)
                      .+..+|+||++.+.+..   .++ |||.||..||..|++   .+.+||+|
T Consensus        18 ~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQKPV---TID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSSCE---ECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCCeE---EeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            46679999999998642   345 999999999999997   45689998

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

Probab=99.20  E-value=1.2e-11  Score=85.09  Aligned_cols=49  Identities=33%  Similarity=0.701  Sum_probs=40.0

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC--CCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~  181 (184)
                      .+...|+||++.|.+..   .++.|||.||..||..|+..+  .+||+||..+.
T Consensus        11 ~~~~~C~IC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMTDAV---VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECSSCE---ECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhcCce---ECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            36679999999998653   334499999999999999643  58999999873

>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=99.19  E-value=7e-12  Score=91.06  Aligned_cols=48  Identities=23%  Similarity=0.621  Sum_probs=39.9

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC-CCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  182 (184)
                      +...|+||++.|.+..   .++ |||.||..||..|+..+. +||+||..+..
T Consensus        51 ~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRPI---TTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSEE---ECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCcE---Eee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4568999999998642   345 999999999999997554 89999998865

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

Probab=99.18  E-value=2.4e-11  Score=81.73  Aligned_cols=53  Identities=21%  Similarity=0.500  Sum_probs=41.3

Q ss_pred             CCCcccCccccccCCCCcee-ecCCCCCcccHHHHHHHHh-cCCCCccccCCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLR-LIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASE  183 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r-~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~  183 (184)
                      .++.+|+||++.+...+... -++ |||.||..|+..|+. .+..||+||+.+...
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             ccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            46679999999997544332 233 999999999999984 456899999988754

>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=99.17  E-value=2.1e-11  Score=86.62  Aligned_cols=48  Identities=29%  Similarity=0.831  Sum_probs=39.8

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC---CCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT---TCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~---~CP~CR~~l~~  182 (184)
                      +..+|+||++.+.+...   ++ |||.||..||..|+..+.   +||+||..+..
T Consensus        20 ~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           20 KILECPICLELIKEPVS---TK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHTSCSSSCCCCSSCCB---CT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCCCcccChhhcCeEE---CC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            35589999999986533   45 999999999999998654   89999998764

>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=99.16  E-value=1.1e-11  Score=93.32  Aligned_cols=49  Identities=22%  Similarity=0.611  Sum_probs=40.8

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC-CCccccCCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLASE  183 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~~  183 (184)
                      +...|+||++.|.+...   ++ |||.||..||..|+.... +||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~pv~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVT---TE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSEEE---CT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCCEE---cC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            45689999999986433   45 999999999999998654 899999998754

>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=99.16  E-value=9.5e-12  Score=89.71  Aligned_cols=49  Identities=29%  Similarity=0.651  Sum_probs=40.8

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC-CCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~l~~  182 (184)
                      .+..+|+||++.+.+.  + .++ |||.||..||..|++.+. +||+||..+..
T Consensus        16 ~~~~~C~IC~~~~~~p--~-~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           16 ESKYECPICLMALREA--V-QTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             CGGGBCTTTCSBCSSE--E-ECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCcCChhhcCe--E-ECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            3567999999999865  2 345 999999999999997665 99999998764

>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=99.15  E-value=1.9e-11  Score=79.11  Aligned_cols=48  Identities=19%  Similarity=0.428  Sum_probs=39.8

Q ss_pred             CCcccCccccccCCCCcee-ecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLR-LIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r-~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ++.+|.||++.+.+.  +. .+| |||. |+.+|++.|.+.+..||+||+++.
T Consensus         7 ~~~~C~IC~~~~~~~--~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKNG--CIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSCE--EEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCCE--EEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            456899999987653  22 237 9999 899999999998899999999875

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

Probab=99.14  E-value=1.4e-11  Score=77.51  Aligned_cols=47  Identities=28%  Similarity=0.659  Sum_probs=39.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE  183 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~  183 (184)
                      .+...|+||++.|.+.   ++++ |||.||..||..|   ..+||+||+.+..+
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            4667899999999875   4456 9999999999885   66899999988754

>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=99.09  E-value=3.5e-11  Score=89.61  Aligned_cols=48  Identities=21%  Similarity=0.542  Sum_probs=40.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC-CCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT-TCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~l~  181 (184)
                      .+...|+||++.+.++  +. ++ |||.||..||..|++... +||+||.++.
T Consensus        29 ~~~~~C~IC~~~~~~p--v~-~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP--FQ-AQ-CGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             CGGGBCTTTCSBCSSE--EE-CT-TSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             CcCcCCCCCChhhcCc--EE-CC-CCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            4677999999999876  32 45 999999999999998665 8999999764

>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=99.09  E-value=6.5e-11  Score=101.27  Aligned_cols=48  Identities=27%  Similarity=0.837  Sum_probs=40.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~  182 (184)
                      ...+|+||++.+.+   ...+| |||.||..|+..|+. .+.+||+||+.+..
T Consensus       331 ~~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          331 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            45699999999865   34556 999999999999998 68899999998753

>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=99.09  E-value=2.3e-11  Score=87.26  Aligned_cols=48  Identities=27%  Similarity=0.630  Sum_probs=39.9

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      +...|+||++.+.+...   ++ |||.||..||..|+.. +.+||+||..+..
T Consensus        22 ~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           22 KSISCQICEHILADPVE---TS-CKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HHTBCTTTCSBCSSEEE---CT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCcHhcCcEE---cC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            34589999999986432   45 9999999999999986 7789999998763

>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=99.07  E-value=5e-11  Score=76.80  Aligned_cols=49  Identities=16%  Similarity=0.423  Sum_probs=39.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ...+|.||++...+.. +..+| |||. |+.+|+..|.+.+..||+||+++.
T Consensus         6 ~~~~C~IC~~~~~~~~-~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGN-IIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBSCEE-EEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             cCCCCcccCCcCCCeE-EEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            4568999999866432 22346 9998 999999999988889999999875

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

Probab=99.07  E-value=1.1e-11  Score=88.78  Aligned_cols=47  Identities=23%  Similarity=0.778  Sum_probs=39.3

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~  181 (184)
                      ++.+|+||++.|.+..   .++ |||.||..||..|+.. +.+||+||..+.
T Consensus        14 ~~~~C~iC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           14 SECQCGICMEILVEPV---TLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHBCTTTCSBCSSCE---ECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCccCCcccCcee---EcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            4568999999998643   335 9999999999999966 678999999874

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

Probab=99.06  E-value=2.8e-11  Score=101.49  Aligned_cols=53  Identities=25%  Similarity=0.671  Sum_probs=41.2

Q ss_pred             CCCCcccCccccccCCCCcee----ecCCCCCcccHHHHHHHHhcC-----------CCCccccCCCC
Q 045417          129 GKGALECAVCLNEFEDDETLR----LIPKCDHVFHPECIDAWLESH-----------TTCPVCRSNLA  181 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r----~lp~C~H~FH~~CI~~Wl~~~-----------~~CP~CR~~l~  181 (184)
                      .++..+|+||++.+.++..+-    ..++|+|.||..|+.+||++.           .+||+||+++.
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            356789999999998743331    223699999999999999642           46999999875

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

Probab=98.96  E-value=2.9e-10  Score=77.50  Aligned_cols=48  Identities=19%  Similarity=0.174  Sum_probs=41.6

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +...|+||++-|.+...   ++ |||.|+..||..|+.++.+||+||..+..
T Consensus        13 ~~~~CpI~~~~m~dPV~---~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDPVR---LP-SGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             TTTBCTTTCSBCSSEEE---CT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             hheECcccCchhcCCeE---CC-CCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            56789999999997533   35 99999999999999988999999998753

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

Probab=98.96  E-value=1.5e-10  Score=76.86  Aligned_cols=43  Identities=23%  Similarity=0.746  Sum_probs=36.2

Q ss_pred             CCcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ++.+|+||++.+.+   ...+| |||. ||..|+..|    ..||+||+.+.
T Consensus        23 ~~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             cCCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            34589999998775   34556 9999 999999999    78999999875

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

Probab=98.95  E-value=3.4e-10  Score=79.50  Aligned_cols=48  Identities=17%  Similarity=0.191  Sum_probs=41.9

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +...|+||++-|.++..   ++ |||.|+..||..|+.++.+||+||..+..
T Consensus        28 ~~~~CpI~~~~m~dPV~---~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           28 DEFRDPLMDTLMTDPVR---LP-SGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             TTTBCTTTCSBCSSEEE---ET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             HhhCCcCccCcccCCeE---CC-CCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            56789999999997543   35 99999999999999988999999998764

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

Probab=98.95  E-value=1.4e-10  Score=83.35  Aligned_cols=47  Identities=30%  Similarity=0.706  Sum_probs=38.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +...|+||++.|.+.  +.+.+ |||.||..||..|+.  ..||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           21 KLLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             HTTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hCCCCCCCChHhhCc--cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            456899999999864  32225 999999999999987  789999998753

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

Probab=98.94  E-value=4.2e-10  Score=78.76  Aligned_cols=48  Identities=21%  Similarity=0.167  Sum_probs=41.6

Q ss_pred             CCcccCccccccCCCCceeecCCCC-CcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCD-HVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +...|+||++-|.++..   ++ || |.|+..||..|+..+.+||+||..+..
T Consensus        21 ~~~~CpI~~~~m~dPV~---~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDPVV---LP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSSEEE---CT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HhcCCcCccccccCCeE---CC-CCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            56789999999997543   35 99 999999999999988999999998764

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

Probab=98.88  E-value=7.3e-10  Score=84.43  Aligned_cols=49  Identities=29%  Similarity=0.656  Sum_probs=40.8

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  182 (184)
                      .+...|+||++.+.++  + .++ |||.||..||..|++.. .+||+||..+..
T Consensus        16 ~~~~~C~IC~~~~~~p--v-~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           16 ESKYECPICLMALREA--V-QTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             CGGGBCTTTCSBCSSE--E-ECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCChhhcCc--E-ECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            3677999999999875  3 345 99999999999999764 499999998764

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

Probab=98.85  E-value=9e-10  Score=76.11  Aligned_cols=48  Identities=25%  Similarity=0.763  Sum_probs=40.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--------CCCCcc--ccCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPV--CRSN  179 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~~CP~--CR~~  179 (184)
                      +..+|+||++++..++.+.+.+ |||.||.+|+..++..        ..+||.  ||..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            5668999999998877777666 9999999999999853        247999  9987

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

Probab=98.85  E-value=2.5e-09  Score=69.86  Aligned_cols=45  Identities=29%  Similarity=0.785  Sum_probs=36.8

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .+..+|.||++...+   +.++| |||. |+..|+..    ...||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            356789999998654   55677 9999 99999984    4789999998864

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

Probab=98.84  E-value=3.3e-09  Score=67.68  Aligned_cols=50  Identities=22%  Similarity=0.630  Sum_probs=37.6

Q ss_pred             CCCcccCccccccCCCCceeecC-CCCC---cccHHHHHHHHh--cCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIP-KCDH---VFHPECIDAWLE--SHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp-~C~H---~FH~~CI~~Wl~--~~~~CP~CR~~l~~  182 (184)
                      ++...|.||+++.  ++.+ ++| .|.|   .||.+|++.|+.  .+.+||+||..+..
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCC--CCce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            3566899999983  3344 466 3445   899999999995  36789999998753

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

Probab=98.80  E-value=1.7e-09  Score=71.74  Aligned_cols=44  Identities=23%  Similarity=0.712  Sum_probs=35.2

Q ss_pred             CCcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +..+|+||++.+.+   ..++| |||. ||..|+..    ...||+||..+..
T Consensus        24 ~~~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecC
Confidence            34589999999765   33456 9999 99999964    3789999998764

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

Probab=98.69  E-value=3.4e-09  Score=71.20  Aligned_cols=43  Identities=35%  Similarity=0.785  Sum_probs=35.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      +..+|.||++.+.+   ...+| |||. |+..|+..|    ..||+||..+.
T Consensus        17 ~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           17 EAMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HHTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            34589999998764   45567 9999 999999987    48999999875

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

Probab=98.69  E-value=6e-09  Score=72.11  Aligned_cols=46  Identities=22%  Similarity=0.608  Sum_probs=37.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC------CCCcc--ccCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH------TTCPV--CRSN  179 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~------~~CP~--CR~~  179 (184)
                      ....|+||++.|.++  +.. +.|||.|+..||..|+..+      .+||+  |+..
T Consensus         6 ~~~~CPI~~~~~~dP--V~~-~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKEEMKKP--VKN-KVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCSBCSSE--EEE-SSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCchhcCC--EEc-CCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            567899999999964  333 3499999999999999754      48999  9865

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

Probab=98.68  E-value=5.7e-09  Score=84.55  Aligned_cols=48  Identities=19%  Similarity=0.243  Sum_probs=40.0

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      +...|+||++-|.++..   ++ |||.|+..||..|+.. +.+||+||.++..
T Consensus       207 ~~~~c~i~~~~~~dPv~---~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          207 DYLCGKISFELMREPCI---TP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             STTBCTTTCSBCSSEEE---CS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cccCCcCcCCHhcCCeE---CC-CCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            56789999999997543   35 9999999999999975 4459999998863

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

Probab=98.51  E-value=4.4e-08  Score=75.58  Aligned_cols=49  Identities=18%  Similarity=0.221  Sum_probs=40.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC-CCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~  182 (184)
                      .+...|+||++-|.++..   ++ |||.|+..||..|+..+ .+||+||..+..
T Consensus       104 p~~f~CPI~~elm~DPV~---~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFELMREPCI---TP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCSBCSSEEE---CT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccccCCCCeE---CC-CCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            366789999999997433   35 99999999999999764 479999998753

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.48  E-value=3e-08  Score=83.87  Aligned_cols=43  Identities=30%  Similarity=0.833  Sum_probs=36.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ++..|+||++.+.+   ...+| |||. ||..|+..|    ..||+||..+.
T Consensus       294 ~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             CCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            45689999999875   34456 9999 999999998    78999999875

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

Probab=98.47  E-value=5.4e-08  Score=62.13  Aligned_cols=47  Identities=15%  Similarity=0.326  Sum_probs=39.7

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ..|+||++.+++.  +. ++.+||+|...||.+|++++.+||+.+..+..
T Consensus         4 ~~CpIs~~~m~dP--V~-~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            4 MLCAISGKVPRRP--VL-SPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             CCCTTTCSCCSSE--EE-ETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             EEecCCCCCCCCC--EE-eCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            5799999999964  33 32499999999999999888899999998753

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

Probab=98.42  E-value=7.5e-08  Score=78.15  Aligned_cols=48  Identities=29%  Similarity=0.647  Sum_probs=39.0

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC--CCCcc--ccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH--TTCPV--CRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~--~~CP~--CR~~l~  181 (184)
                      ....|+||++.|.++  |+.. .|||.|+..||..|+..+  .+||+  ||+.+.
T Consensus       180 ~el~CPIcl~~f~DP--Vts~-~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          180 IELTCPITCKPYEAP--LISR-KCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             CCSBCTTTSSBCSSE--EEES-SSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             eeeECcCccCcccCC--eeeC-CCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            556899999999865  4433 499999999999999764  47999  998654

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

Probab=98.34  E-value=3.8e-07  Score=63.31  Aligned_cols=45  Identities=29%  Similarity=0.600  Sum_probs=37.4

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLA  181 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~  181 (184)
                      -|.+|--.+.  ...|+.| |+|+|+.+|+..|.+ +.++||.|+.++.
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            4777877665  5678888 999999999999985 4688999999875

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

Probab=98.22  E-value=9.4e-07  Score=71.02  Aligned_cols=48  Identities=19%  Similarity=0.589  Sum_probs=40.3

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC--CCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--TCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~--~CP~CR~~l~  181 (184)
                      ...+|+||.+-...|..+   +.|+|.||.+|++.|++++.  +||.|+....
T Consensus       179 ~i~~C~iC~~iv~~g~~C---~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             TCCBCTTTCSBCSSCEEC---SSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCCcCcchhhHHhCCccc---CccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            467899999999987555   34999999999999997654  8999998764

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=97.30  E-value=0.00021  Score=46.00  Aligned_cols=51  Identities=22%  Similarity=0.443  Sum_probs=38.8

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccCCCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSNLASEP  184 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~l~~~p  184 (184)
                      ..+.+|.||.+.    ..+..-..|...||..|++..|..    .-.||.|+++..+.|
T Consensus        10 ~~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~p~P   64 (66)
T 2lri_C           10 APGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVTPAP   64 (66)
T ss_dssp             CTTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCCCCC
T ss_pred             CCCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCCccCC
Confidence            355689999743    345555579999999999988854    347999998887766

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

Probab=95.37  E-value=0.011  Score=40.41  Aligned_cols=35  Identities=20%  Similarity=0.505  Sum_probs=26.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHH
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW  166 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~W  166 (184)
                      ++..|.||++++..+....-+. |+|.|+..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            3468999998754444444455 9999999999983

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

Probab=93.48  E-value=0.04  Score=34.45  Aligned_cols=46  Identities=26%  Similarity=0.627  Sum_probs=33.4

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh----cCCCCccccCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE----SHTTCPVCRSN  179 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~----~~~~CP~CR~~  179 (184)
                      ..+..|.||.+.    ..+..-..|...||..|++.-+.    ..-.||.|++.
T Consensus         9 ~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            356689999863    34545556889999999998653    34479999764

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=92.51  E-value=0.026  Score=35.47  Aligned_cols=50  Identities=22%  Similarity=0.550  Sum_probs=35.8

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-----cCCCCccccCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-----SHTTCPVCRSN  179 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~  179 (184)
                      .++..|+||...+.++.....-..|..=||..|+..--.     ....||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            356689999999876555555456888899999864321     34579999764

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

Probab=91.73  E-value=0.046  Score=34.18  Aligned_cols=47  Identities=23%  Similarity=0.508  Sum_probs=32.9

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSNL  180 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~l  180 (184)
                      ..+..|.||.+.   + .+..-..|...||..|+..-+..    .-.||.|+...
T Consensus         7 ~~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC---C-CEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            356679999852   3 34444568899999999865532    34699997654

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=91.37  E-value=0.042  Score=35.59  Aligned_cols=51  Identities=18%  Similarity=0.419  Sum_probs=36.0

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh----cCCCCccccCCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE----SHTTCPVCRSNLA  181 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~----~~~~CP~CR~~l~  181 (184)
                      .+...|.||..... ++.+..-..|.--||..|+..-..    ..-.||.|+..+.
T Consensus        16 ~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            34557999987754 444555557888999999976543    2457999976544

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=89.67  E-value=0.49  Score=34.64  Aligned_cols=46  Identities=22%  Similarity=0.423  Sum_probs=33.7

Q ss_pred             CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-----------cCCCCccccC
Q 045417          129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-----------SHTTCPVCRS  178 (184)
Q Consensus       129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-----------~~~~CP~CR~  178 (184)
                      +..+..|.+|-+.    ..+.....|..+||..||+.=+.           ..-.||.|+.
T Consensus        60 Dg~~d~C~vC~~G----G~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           60 DGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             TSCBCSCSSSCCC----SSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCCeecccCCC----CcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            3456789999964    34555557999999999996552           2457999974

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=89.66  E-value=0.061  Score=33.88  Aligned_cols=51  Identities=18%  Similarity=0.508  Sum_probs=35.9

Q ss_pred             CCcccCccccccC-CCCceeecCCCCCcccHHHHHHHH-------hcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFE-DDETLRLIPKCDHVFHPECIDAWL-------ESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~-~~~~~r~lp~C~H~FH~~CI~~Wl-------~~~~~CP~CR~~l~  181 (184)
                      ++..|.||..... +++.+..-..|.-.||..|+..=+       ...-.||.|+....
T Consensus         5 ~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~~   63 (66)
T 2yt5_A            5 SSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATT   63 (66)
T ss_dssp             CCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTTS
T ss_pred             CCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCccc
Confidence            5568999998653 334555656799999999987643       23457999976543

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=89.49  E-value=0.13  Score=33.16  Aligned_cols=49  Identities=18%  Similarity=0.507  Sum_probs=34.8

Q ss_pred             CCCcccCcccccc-CCCCceeecCCCCCcccHHHHHHHH--hcCCCCccccC
Q 045417          130 KGALECAVCLNEF-EDDETLRLIPKCDHVFHPECIDAWL--ESHTTCPVCRS  178 (184)
Q Consensus       130 ~~~~eCaICL~~f-~~~~~~r~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~  178 (184)
                      .++..|.||.+.- .+++.+..-..|.-.||..|+..-.  +..-.||.|+.
T Consensus        14 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~   65 (71)
T 2ku3_A           14 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   65 (71)
T ss_dssp             CSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcC
Confidence            3566899998764 3445666666799999999997543  23346988865

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=89.47  E-value=0.19  Score=29.87  Aligned_cols=44  Identities=34%  Similarity=0.758  Sum_probs=30.5

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRS  178 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~  178 (184)
                      .|.||...-.. +.+..-..|...||..|++.=+.+    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            58899876433 344455579999999999764432    346999975

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=89.44  E-value=0.097  Score=35.17  Aligned_cols=49  Identities=18%  Similarity=0.510  Sum_probs=34.6

Q ss_pred             CCcccCcccccc-CCCCceeecCCCCCcccHHHHHHHH--hcCCCCccccCC
Q 045417          131 GALECAVCLNEF-EDDETLRLIPKCDHVFHPECIDAWL--ESHTTCPVCRSN  179 (184)
Q Consensus       131 ~~~eCaICL~~f-~~~~~~r~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~  179 (184)
                      ++..|.||.+.- .+++.+.....|.-.||..|+..-+  ...-.||.|+..
T Consensus        24 ~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~   75 (88)
T 2l43_A           24 EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQS   75 (88)
T ss_dssp             CCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHH
T ss_pred             CCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCc
Confidence            566899999763 3344566666788999999997543  234479999654

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=89.34  E-value=0.35  Score=31.54  Aligned_cols=50  Identities=18%  Similarity=0.428  Sum_probs=34.2

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHH-----hcCCCCccccCCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-----ESHTTCPVCRSNL  180 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-----~~~~~CP~CR~~l  180 (184)
                      .....| ||...++++.....-..|..=||..|+.---     .....||.|+..-
T Consensus        10 ~~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           10 LVPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CCccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            345567 9999886555555555688889999985321     1345799998754

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=88.86  E-value=0.11  Score=36.32  Aligned_cols=45  Identities=29%  Similarity=0.697  Sum_probs=31.9

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRS  178 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~  178 (184)
                      .|.||.+.-.+++.+..-..|...||..|+++-|..    .-.||.||.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            578888653344455555679999999999876643    347999975

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=88.40  E-value=0.048  Score=33.39  Aligned_cols=44  Identities=30%  Similarity=0.710  Sum_probs=31.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~  178 (184)
                      .+..|.||.+.   + .+..-..|...||..|++.-+..    .-.||.|++
T Consensus         8 ~~~~C~vC~~~---g-~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            8 HEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SCCSCSSSCCS---S-CCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCccCCCC---C-eEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            55689999974   3 34444568999999999865532    346998864

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=88.31  E-value=0.14  Score=35.63  Aligned_cols=46  Identities=24%  Similarity=0.536  Sum_probs=30.4

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh----cCCCCccc
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE----SHTTCPVC  176 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~----~~~~CP~C  176 (184)
                      .++..|.||.+.=+..+ +..-..|+..||..|++..+.    ..-.||-|
T Consensus         5 ~~~~~C~~C~~~g~~~~-ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C   54 (111)
T 2ysm_A            5 SSGANCAVCDSPGDLLD-QFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPEC   54 (111)
T ss_dssp             CCCSCBTTTCCCCCTTT-SEECSSSCCEECTTTTTCCCCTTTSTTCCCTTT
T ss_pred             CCCCCCcCCCCCCCCcC-CeECCCCCCCcChHHhCCccccccccCccCCcC
Confidence            46678999987633222 334356999999999988763    22345554

>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=87.84  E-value=0.5  Score=31.49  Aligned_cols=32  Identities=28%  Similarity=0.698  Sum_probs=23.0

Q ss_pred             CCcccCccccccCCCC--ceeecCCCCCcccHHHHHHH
Q 045417          131 GALECAVCLNEFEDDE--TLRLIPKCDHVFHPECIDAW  166 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~--~~r~lp~C~H~FH~~CI~~W  166 (184)
                      .+..|.||-. +..++  ..|+   |+-+||..|+.+-
T Consensus        14 ~D~~C~VC~~-~t~~~l~pCRv---C~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCEV-WTAESLFPCRV---CTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTCC-CCSSCCSSCSS---SSSCCCHHHHHHH
T ss_pred             CCcccCcccc-ccccceecccc---ccccccHhhcccc
Confidence            5668999973 33333  3343   9999999999996

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=87.76  E-value=0.24  Score=33.30  Aligned_cols=46  Identities=26%  Similarity=0.629  Sum_probs=33.3

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSN  179 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~  179 (184)
                      ..+..|.+|.+.   ++ +.....|.-.||..|+++=+..    .-.||.|+..
T Consensus        23 ~n~~~C~vC~~~---g~-LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           23 DSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCcCcCcCCC---CC-EEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            456689999964   33 4455568889999999776643    3469999754

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=87.54  E-value=0.74  Score=33.13  Aligned_cols=45  Identities=22%  Similarity=0.444  Sum_probs=32.4

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHH-----------hcCCCCccccC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-----------ESHTTCPVCRS  178 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-----------~~~~~CP~CR~  178 (184)
                      ..+..|.||-+.    ..+..-..|-.+||.+||+.-+           ...-.|+.|+.
T Consensus        55 g~~~~C~vC~dG----G~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           55 GMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             SCBSSCTTTCCC----SEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCCcCeecCCC----CeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            355679999964    4455556788999999999742           12357999964

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=87.33  E-value=0.072  Score=33.75  Aligned_cols=45  Identities=29%  Similarity=0.581  Sum_probs=32.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh----cCCCCccccCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE----SHTTCPVCRSN  179 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~----~~~~CP~CR~~  179 (184)
                      ++..|.||.+.   + .+..-..|...||..|+..-+.    ..-.||.|+..
T Consensus         7 ~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~   55 (66)
T 1xwh_A            7 NEDECAVCRDG---G-ELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQA   55 (66)
T ss_dssp             CCCSBSSSSCC---S-SCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHT
T ss_pred             CCCCCccCCCC---C-CEEEcCCCChhhcccccCCCcCcCCCCCeECccccCc
Confidence            56689999864   3 3445556889999999986543    23469999653

>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A

Probab=87.21  E-value=2.3  Score=24.70  Aligned_cols=27  Identities=15%  Similarity=0.360  Sum_probs=13.1

Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 045417           53 FSPSLAIIIVVLISALFFMGFFSIYIRH   80 (184)
Q Consensus        53 ~~~~~~iii~vli~~l~~l~~~~i~~r~   80 (184)
                      ...+.+++++++ .++++.+.+.+|+|+
T Consensus        11 ~~~Ia~~vVGvl-l~vi~~l~~~~~~RR   37 (44)
T 2jwa_A           11 LTSIISAVVGIL-LVVVLGVVFGILIKR   37 (44)
T ss_dssp             HHHHHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHH-HHHHHHHHHHhheeh
Confidence            344555566633 333344444555554

>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module, epigenetic regulation, LI binding protein complex; 1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B

Probab=86.77  E-value=0.16  Score=32.59  Aligned_cols=45  Identities=33%  Similarity=0.725  Sum_probs=30.0

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-----CCCCccccCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSN  179 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-----~~~CP~CR~~  179 (184)
                      .|.||...- +++.+..-..|...||..|+++=|.+     .-.||.|+.+
T Consensus        20 ~C~~C~~~~-~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~~   69 (70)
T 3asl_A           20 ACHLCGGRQ-DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND   69 (70)
T ss_dssp             SBTTTCCCS-CGGGEEECTTTCCEEEGGGSSSCCSSCCSSSCCCCTTTSCC
T ss_pred             CCcCCCCcC-CCCCEEEcCCCCCceecccCCCCcCCCCCCCCcCCcCccCc
Confidence            456777542 33455555579999999999854432     4479999753

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=86.41  E-value=0.28  Score=33.51  Aligned_cols=47  Identities=19%  Similarity=0.432  Sum_probs=32.4

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh---cCCCCccccC
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE---SHTTCPVCRS  178 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~---~~~~CP~CR~  178 (184)
                      .+...| ||-....++. +.....|.--||..|+..=..   ....||.|+.
T Consensus        26 ~d~vrC-iC~~~~~~~~-mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           26 TDVTRC-ICGFTHDDGY-MICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CCBCCC-TTSCCSCSSC-EEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCCEEe-ECCCccCCCc-EEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            345678 8987766554 444456999999999865332   2347999974

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=86.40  E-value=0.61  Score=29.38  Aligned_cols=48  Identities=29%  Similarity=0.614  Sum_probs=33.3

Q ss_pred             CCcccCccccccCCCCceeecC-CCCCcccHHHHHHH------Hh----cCCCCccccC
Q 045417          131 GALECAVCLNEFEDDETLRLIP-KCDHVFHPECIDAW------LE----SHTTCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp-~C~H~FH~~CI~~W------l~----~~~~CP~CR~  178 (184)
                      ....|.+|...+.+++..+... .|.-=||..|+.--      +.    .+-.||.|++
T Consensus         7 ~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvglt~~~~~~l~~e~~~~w~C~~C~~   65 (65)
T 2vpb_A            7 PVYPCGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTCMA   65 (65)
T ss_dssp             --CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHTCCHHHHHHHHHCTTEEECCHHHHC
T ss_pred             CcCcCccCCCccCCCCCeEecccCccccCchhccCCCHHHHHHhhccCCCcEECcCccC
Confidence            4557999999998877776666 68888999997322      11    1346888853

>2klu_A T-cell surface glycoprotein CD4; cell membrane, disulfide bond, HOST- virus interaction, immune response, immunoglobulin domain, lipoprotein; NMR {Homo sapiens}

Probab=86.08  E-value=1.7  Score=27.46  Aligned_cols=27  Identities=15%  Similarity=0.290  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCC
Q 045417           59 IIIVVLISALFFMGFFSIYIRHCSDSS   85 (184)
Q Consensus        59 iii~vli~~l~~l~~~~i~~r~~~~~~   85 (184)
                      |+++..+.++++.++.+++.-+|..++
T Consensus        12 ivlGg~~~lll~~glcI~ccvkcrhRr   38 (70)
T 2klu_A           12 IVLGGVAGLLLFIGLGIFFSVRSRHRR   38 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCS
T ss_pred             HHHhHHHHHHHHHHHHHHHhhHHHHHH
Confidence            777777777777777766444454443

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

Probab=85.85  E-value=0.12  Score=32.05  Aligned_cols=44  Identities=30%  Similarity=0.710  Sum_probs=31.3

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~  178 (184)
                      .+..|.||...   + .+..-..|.-.||..|+++=+..    .-.||.|+.
T Consensus         4 ~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~   51 (60)
T 2puy_A            4 HEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   51 (60)
T ss_dssp             CCSSCTTTCCC---S-SCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHH
T ss_pred             CCCCCcCCCCC---C-cEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccC
Confidence            45689999874   3 34444569999999999865532    346999865

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*

Probab=85.77  E-value=0.19  Score=37.54  Aligned_cols=47  Identities=21%  Similarity=0.571  Sum_probs=33.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHH-----hcCCCCccccC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-----ESHTTCPVCRS  178 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-----~~~~~CP~CR~  178 (184)
                      +...| +|.....++........|..-||..|+..--     ...-.||.|+.
T Consensus         7 ~~~~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~   58 (174)
T 2ri7_A            7 TKLYC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQS   58 (174)
T ss_dssp             CCEET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHH
T ss_pred             CCcEe-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcc
Confidence            55679 9999876555555555788899999985321     23557999975

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=85.24  E-value=0.3  Score=31.58  Aligned_cols=51  Identities=22%  Similarity=0.525  Sum_probs=33.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHH---------HhcCCCCccccCCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW---------LESHTTCPVCRSNLASE  183 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~W---------l~~~~~CP~CR~~l~~~  183 (184)
                      ....| ||......+. ...-..|..=||..|+..-         -.....||.|+..-.+.
T Consensus        15 ~~~~C-~C~~~~~~~~-MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~~p~   74 (76)
T 1wem_A           15 NALYC-ICRQPHNNRF-MICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGPS   74 (76)
T ss_dssp             TCCCS-TTCCCCCSSC-EEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSCSS
T ss_pred             CCCEE-ECCCccCCCC-EEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCccCcC
Confidence            44567 8998876433 3343468888999998421         12467899998765544

>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=84.71  E-value=0.72  Score=29.23  Aligned_cols=40  Identities=23%  Similarity=0.444  Sum_probs=30.2

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ...|+.|-+.+.+++.+..   -+..||.+|        .+|-.|+..|..
T Consensus         9 ~~~C~~C~~~I~~~~~v~a---~~~~~H~~C--------F~C~~C~~~L~~   48 (76)
T 2cu8_A            9 ASKCPKCDKTVYFAEKVSS---LGKDWHKFC--------LKCERCSKTLTP   48 (76)
T ss_dssp             CCBCTTTCCBCCTTTEEEE---TTEEEETTT--------CBCSSSCCBCCT
T ss_pred             CCCCcCCCCEeECCeEEEE---CCeEeeCCC--------CCCCCCCCccCC
Confidence            3479999999887776654   567889887        568888887764

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=84.17  E-value=1.8  Score=29.99  Aligned_cols=33  Identities=27%  Similarity=0.589  Sum_probs=23.9

Q ss_pred             CcccCcccccc-----CCCCceeecCCCCCcccHHHHH
Q 045417          132 ALECAVCLNEF-----EDDETLRLIPKCDHVFHPECID  164 (184)
Q Consensus       132 ~~eCaICL~~f-----~~~~~~r~lp~C~H~FH~~CI~  164 (184)
                      ...|.+|+..=     .+++.+..-..|+..||..|+.
T Consensus         5 ~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            5 IPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             CccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            44799998763     2234555555799999999995

>2co8_A NEDD9 interacting protein with calponin homology and LIM domains; zinc finger protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.28  E-value=1.6  Score=28.15  Aligned_cols=41  Identities=29%  Similarity=0.555  Sum_probs=29.6

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ....|+-|-+.+.+.+.+..   -+..||.+|        .+|-.|+..|..
T Consensus        14 ~~~~C~~C~~~I~~~e~v~a---~~~~wH~~C--------F~C~~C~~~L~~   54 (82)
T 2co8_A           14 AGDLCALCGEHLYVLERLCV---NGHFFHRSC--------FRCHTCEATLWP   54 (82)
T ss_dssp             SSCBCSSSCCBCCTTTBCCB---TTBCCBTTT--------CBCSSSCCBCCT
T ss_pred             CCCCCcccCCCcccceEEEE---CCCeeCCCc--------CEEcCCCCCcCC
Confidence            34579999999877776643   567899888        567777766653

>4gne_A Histone-lysine N-methyltransferase NSD3; zinc finger, transcription, nuclear protein, transf nuclear protein complex; 1.47A {Homo sapiens} PDB: 4gnd_A 4gnf_A 4gng_A*

Probab=82.16  E-value=1.2  Score=30.93  Aligned_cols=44  Identities=20%  Similarity=0.488  Sum_probs=29.5

Q ss_pred             CCCcccCccccccCCCCceeecC--CCCCcccHHHHHHHHhc----CCCCccccCC
Q 045417          130 KGALECAVCLNEFEDDETLRLIP--KCDHVFHPECIDAWLES----HTTCPVCRSN  179 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp--~C~H~FH~~CI~~Wl~~----~~~CP~CR~~  179 (184)
                      .++..|.+|.+    +..+..-.  .|...||..|+.  |..    .-.||-|+..
T Consensus        13 ~~~~~C~~C~~----~G~ll~CD~~~Cp~~fH~~Cl~--L~~~P~g~W~Cp~c~C~   62 (107)
T 4gne_A           13 MHEDYCFQCGD----GGELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECPWHQCD   62 (107)
T ss_dssp             SSCSSCTTTCC----CSEEEECCSTTCCCEECTGGGT--CSSCCSSCCCCGGGBCT
T ss_pred             CCCCCCCcCCC----CCcEeEECCCCCCcccccccCc--CCcCCCCCEECCCCCCC
Confidence            46678999983    23444443  488999999998  543    2358877544

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=82.16  E-value=0.18  Score=33.77  Aligned_cols=47  Identities=21%  Similarity=0.513  Sum_probs=33.7

Q ss_pred             CcccCccccccCC-CCceeecCCCCCcccHHHHHHHHh--------cCCCCccccC
Q 045417          132 ALECAVCLNEFED-DETLRLIPKCDHVFHPECIDAWLE--------SHTTCPVCRS  178 (184)
Q Consensus       132 ~~eCaICL~~f~~-~~~~r~lp~C~H~FH~~CI~~Wl~--------~~~~CP~CR~  178 (184)
                      +..|.||...-.. ++.+.....|...||..|++.=|.        ..-.|+.|+.
T Consensus        16 ~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~   71 (88)
T 1wev_A           16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTR   71 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHH
T ss_pred             CCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccc
Confidence            4579999976432 345666667999999999986543        2347999864

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=81.72  E-value=0.51  Score=28.22  Aligned_cols=44  Identities=20%  Similarity=0.414  Sum_probs=30.7

Q ss_pred             ccCccccccCCCCceeecC-CCCCcccHHHHHHH----HhcCCCCcccc
Q 045417          134 ECAVCLNEFEDDETLRLIP-KCDHVFHPECIDAW----LESHTTCPVCR  177 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp-~C~H~FH~~CI~~W----l~~~~~CP~CR  177 (184)
                      .|.+|...+.+++....-. .|.-=||..|+.--    ...+..||.|+
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            4789999887666555555 58877999997432    13566799985

>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=80.17  E-value=3.8  Score=27.01  Aligned_cols=40  Identities=23%  Similarity=0.458  Sum_probs=31.1

Q ss_pred             CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc
Q 045417          130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES  169 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~  169 (184)
                      .....|.+|.+.+++..-+.--..=+|.||-.|-...+++
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            3567899999999987766433335699999999999864

---

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	184
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-21
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	3e-15
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	4e-14
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	6e-13
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	3e-11
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-10
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-09
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	8e-09
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	9e-09
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	5e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-05
d1we9a_	64	g.50.1.2 (A:) PHD finger protein At5g26210 {Thale	0.003

>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 = 81.1 bits (200), Expect = 1e-21
 Identities = 28/48 (58%), Positives = 35/48 (72%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
           +ECAVCL E ED E  R +P+C H FH EC+D WL SH+TCP+CR  +
Sbjct: 6   VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 65.0 bits (158), Expect = 3e-15
 Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182
           A  C +CL +  +         C H F   CI  W+  + TCP+C+  + S
Sbjct: 5   AERCPICLEDPSNYSM---ALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 62.8 bits (152), Expect = 4e-14
 Identities = 15/59 (25%), Positives = 20/59 (33%), Gaps = 14/59 (23%)

Query: 134 ECAVCLNEFEDDETLRLIP--------------KCDHVFHPECIDAWLESHTTCPVCRS 178
            CA+C N   D                       C+H FH  CI  WL++   CP+   
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 81

>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 = 58.6 bits (141), Expect = 6e-13
 Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 1/52 (1%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLASE 183
           +EC +C+   E D+       C +     C        +  CP CR     +
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>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 = 55.4 bits (133), Expect = 2e-11
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 5/49 (10%)

Query: 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS 182
           C +C    +D   +++ P C H+    C+ +W ES    CP CR  +  
Sbjct: 26  CKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKG 70

>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 = 54.4 bits (130), Expect = 3e-11
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 2/50 (4%)

Query: 133 LECAVCLNEFEDDETLR-LIPKCDHVFHPECIDAWLE-SHTTCPVCRSNL 180
             C  C      + +L+ ++  C H     C+D         CP C + L
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 52.2 bits (125), Expect = 2e-10
 Identities = 12/52 (23%), Positives = 19/52 (36%), Gaps = 7/52 (13%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184
           L C  C  E +  + L     C H     C++A       CP+C++      
Sbjct: 7   LRCQQCQAEAKCPKLL----PCLHTLCSGCLEAS---GMQCPICQAPWPLGA 51

>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 = 49.5 bits (117), Expect = 2e-09
 Identities = 10/49 (20%), Positives = 15/49 (30%), Gaps = 3/49 (6%)

Query: 133 LECAVCLNEFEDDETLRLIPK-CDHVFHPECIDAWLESH--TTCPVCRS 178
             C +C  E  ++              H  C+  WL     T C +C  
Sbjct: 7   PVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 49.3 bits (116), Expect = 8e-09
 Identities = 10/50 (20%), Positives = 19/50 (38%), Gaps = 5/50 (10%)

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRS 178
              +  ++      +  + KC H FH  C+ A   +        CP C++
Sbjct: 41  YSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

>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 = 48.9 bits (116), Expect = 9e-09
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 7/54 (12%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH---TTCPVCRSNLASE 183
           LEC +CL   ++  +     KCDH+F   C+   L      + CP+C++++   
Sbjct: 22  LECPICLELIKEPVST----KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR 71

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 5e-07
 Identities = 11/56 (19%), Positives = 23/56 (41%), Gaps = 9/56 (16%)

Query: 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--------TCPVCR 177
            G+  C +CL E+  ++   +  +C  +F   C+  ++E           +CP   
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTI-AQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 43.0 bits (101), Expect = 1e-06
 Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 5/50 (10%)

Query: 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH-TTCPVCRSNL 180
           ++ C +C +   D     +   C H+F   CI   L+   + CP CR   
Sbjct: 23  SISCQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.5 bits (99), Expect = 2e-06
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 5/49 (10%)

Query: 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180
            L C+ C N   +   L     C+H+F   C+   +   T CPVC +  
Sbjct: 22  LLRCSRCTNILREPVCL---GGCEHIFCSNCVSDCI--GTGCPVCYTPA 65

>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 = 37.8 bits (87), Expect = 3e-05
 Identities = 8/51 (15%), Positives = 18/51 (35%), Gaps = 3/51 (5%)

Query: 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183
           + CA+              PK   +F    ++ +++     P+    L+ E
Sbjct: 1   MLCAISGKVPRRPVL---SPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE 48

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 32.7 bits (74), Expect = 0.003
 Identities = 11/51 (21%), Positives = 17/51 (33%), Gaps = 5/51 (9%)

Query: 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSN 179
           +C  C   +  DE       C+  FH +C+              CP C + 
Sbjct: 8   QCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK 58

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	184
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.81
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.64
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.63
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.55
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.52
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.49
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.37
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.32
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.3
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.27
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.26
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.12
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.96
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.96
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.82
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.77
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	94.96
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	93.97
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	92.77
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	92.23
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	91.47
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	90.23
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	89.72
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	88.98
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	87.96
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	87.39
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	85.75
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	83.85
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	83.37
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	82.2
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	81.09

>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=99.81  E-value=5.5e-21  Score=119.50  Aligned_cols=51  Identities=55%  Similarity=1.249  Sum_probs=47.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      ++.+|+||+++|++++.++.++.|+|.||.+||+.|++++.+||+||++|.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            556899999999999999888779999999999999999999999999875

>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=99.64  E-value=5.5e-17  Score=110.33  Aligned_cols=62  Identities=27%  Similarity=0.537  Sum_probs=47.2

Q ss_pred             ecccccccCCCCCcccCccccccCCCC---------------ceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          120 YSDVKTLKVGKGALECAVCLNEFEDDE---------------TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       120 ~~~~~~~~~~~~~~eCaICL~~f~~~~---------------~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      ++.+.....+.++.+|+||++++.+..               .+..++ |||+||.+||+.||+.+.+||+||++...
T Consensus         9 ~~av~~w~~d~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1           9 WNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             EEEEEEEEESSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             EEEEEEEeecCCCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            344333333446678999999987532               245565 99999999999999999999999998753

>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=99.64  E-value=4e-17  Score=100.47  Aligned_cols=51  Identities=22%  Similarity=0.509  Sum_probs=41.7

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCCC
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLASE  183 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~  183 (184)
                      .||+||+++|+.++....+..|||.||.+||+.|+++ +.+||+||+++.++
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~d   52 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   52 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSCC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCCC
Confidence            3899999999877654433349999999999999975 45799999998753

>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=99.63  E-value=7.6e-17  Score=104.54  Aligned_cols=48  Identities=31%  Similarity=0.822  Sum_probs=42.0

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~  181 (184)
                      .+.+|+||++.|.+  .++.++ |||.||.+||..|++.+.+||+||+++.
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            55689999999975  355666 9999999999999999999999999875

>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=99.55  E-value=1.3e-15  Score=107.85  Aligned_cols=51  Identities=25%  Similarity=0.617  Sum_probs=39.4

Q ss_pred             CCcccCccccccCCC---------------CceeecCCCCCcccHHHHHHHHhc-----CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDD---------------ETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~---------------~~~r~lp~C~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~~  182 (184)
                      .+.+|+||++++.+.               ..+++++ |+|+||.+||+.|++.     +.+||+||+.+..
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            345899999998542               2345565 9999999999999964     3479999987643

>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=99.52  E-value=3.7e-15  Score=95.58  Aligned_cols=51  Identities=22%  Similarity=0.513  Sum_probs=39.6

Q ss_pred             CCcccCccccccCCC-C-ceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDD-E-TLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~-~-~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      ++.+|+||++++..+ + .+.+++ |||.||.+||..|+++ +.+||+||+.+..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            456899999986433 3 334454 9999999999999965 5579999998854

>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=99.49  E-value=1.2e-14  Score=96.66  Aligned_cols=48  Identities=29%  Similarity=0.851  Sum_probs=40.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      ....|+||++.+.+   .++++ |||.||.+||..|+.. +.+||+||.+|..
T Consensus        22 ~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          22 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             CTTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            34579999998875   56677 9999999999999975 5689999998864

>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=99.37  E-value=5.3e-14  Score=87.46  Aligned_cols=46  Identities=15%  Similarity=0.311  Sum_probs=39.7

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      .|+||++.++++  +.. +.|||+||.+||.+|++++.+||+||+++..
T Consensus         2 ~C~Ic~~~~~~P--v~~-~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           2 LCAISGKVPRRP--VLS-PKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCTTTCSCCSSE--EEE-TTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCccCCchHHhc--Ccc-CCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            599999999864  333 4699999999999999999999999998864

>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=99.32  E-value=1.5e-13  Score=85.33  Aligned_cols=47  Identities=28%  Similarity=0.684  Sum_probs=39.0

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP  184 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~p  184 (184)
                      ...+|+||++.|.+.   +++| |||.||..||+.|   +.+||+||+++...+
T Consensus         5 ~~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            456999999999864   4556 9999999999876   668999999987653

>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=99.30  E-value=8e-13  Score=83.02  Aligned_cols=53  Identities=19%  Similarity=0.462  Sum_probs=39.1

Q ss_pred             CCCcccCccccccCCCCcee-ecCCCCCcccHHHHHHHHh--cCCCCccccCCCCC
Q 045417          130 KGALECAVCLNEFEDDETLR-LIPKCDHVFHPECIDAWLE--SHTTCPVCRSNLAS  182 (184)
Q Consensus       130 ~~~~eCaICL~~f~~~~~~r-~lp~C~H~FH~~CI~~Wl~--~~~~CP~CR~~l~~  182 (184)
                      ++...|.||++++.+..... ....|+|.||..||..|+.  ++.+||+||+...-
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            35678999999987643321 1113569999999999994  45689999998753

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.27  E-value=1.2e-12  Score=88.00  Aligned_cols=47  Identities=28%  Similarity=0.631  Sum_probs=38.7

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      ...|+||++.+.+.   .+++ |||.||..||..|++. +.+||+||.++.+
T Consensus        23 ~l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CcCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            35899999999763   3455 9999999999999964 4689999998753

>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=99.26  E-value=1.8e-12  Score=89.85  Aligned_cols=48  Identities=29%  Similarity=0.816  Sum_probs=39.5

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC---CCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH---TTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~l~~  182 (184)
                      +..+|+||++.|.++.   .++ |||.||..||..|++++   .+||+||..+..
T Consensus        20 ~~l~CpIC~~~~~~pv---~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          20 KILECPICLELIKEPV---STK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HHTSCSSSCCCCSSCC---BCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCcCCCccCchhCCeE---EcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            4468999999998653   345 99999999999999765   379999998864

>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=99.12  E-value=5.9e-12  Score=86.29  Aligned_cols=47  Identities=30%  Similarity=0.710  Sum_probs=38.0

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +..+|+||++.|.++  +.+. .|||.||.+||..|+.  ..||+||..+..
T Consensus        21 ~~l~C~IC~~~~~~p--v~~~-~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          21 KLLRCSRCTNILREP--VCLG-GCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             HTTSCSSSCSCCSSC--BCCC-SSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hcCCCccCCchhhcC--ceeC-CCCCchhHHHHHHHHh--ccccccCCcCch
Confidence            456899999999865  3333 4999999999999985  459999987754

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.96  E-value=1.3e-10  Score=76.69  Aligned_cols=48  Identities=19%  Similarity=0.277  Sum_probs=40.2

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      ++..|+||++-|.++  + +++ |||.|+..||..|+.+ +.+||+||..+..
T Consensus         6 ~~l~CpIc~~l~~dP--v-~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           6 DYLCGKISFELMREP--C-ITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             STTBCTTTCSBCSSE--E-ECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             ccccCcCcCchhhhh--c-ccC-CcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            667899999999875  3 345 9999999999999964 5679999998753

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.96  E-value=2e-10  Score=75.36  Aligned_cols=48  Identities=23%  Similarity=0.657  Sum_probs=40.6

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~  182 (184)
                      ++..|+||++-|.+.  + +++ |||.|+..||..|++. +.+||.|+..+..
T Consensus         7 ~~l~CpIc~~~m~dP--V-~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           7 EYFRCPISLELMKDP--V-IVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSCTTTSCCCSSE--E-EET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             ccCCCcCcCchhhCc--e-Ecc-CCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            677999999999875  3 345 9999999999999976 4579999998764

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=1.5e-09  Score=74.23  Aligned_cols=49  Identities=20%  Similarity=0.171  Sum_probs=41.3

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS  182 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~  182 (184)
                      +++.|+||++-|.++.   +++.|+|.|+..||..||+++.+||+||.++..
T Consensus        21 ~~f~CPI~~~lm~dPV---~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          21 DEFLDPIMSTLMCDPV---VLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSSEE---ECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HHhCCcCchhHHHHHH---hcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            5679999999999754   335355689999999999999999999998864

>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=98.77  E-value=1.3e-09  Score=73.68  Aligned_cols=46  Identities=24%  Similarity=0.713  Sum_probs=37.4

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--------CCCCcccc
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPVCR  177 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR  177 (184)
                      +..+|+||++++..++..++++ |+|.||.+|+..|++.        .-+||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            5679999999998777777765 9999999999999942        12599864

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=94.96  E-value=0.0027  Score=38.65  Aligned_cols=51  Identities=22%  Similarity=0.526  Sum_probs=37.5

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHH---H--hcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW---L--ESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~W---l--~~~~~CP~CR~~l~  181 (184)
                      +...|.+|.+...+++.+..-..|+.-||..|+..=   .  ..+..||.|+..-.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~~   60 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSG   60 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTC
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcCC
Confidence            456899999988777765556679999999998532   1  13457999976543

>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=93.97  E-value=0.013  Score=33.73  Aligned_cols=44  Identities=34%  Similarity=0.758  Sum_probs=32.2

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRS  178 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~  178 (184)
                      .|.||...-.+ +.+..-..|...||..|++.-+..    .-.||.||.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            58899766443 445555679999999999987643    336999975

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.77  E-value=0.012  Score=35.35  Aligned_cols=46  Identities=24%  Similarity=0.515  Sum_probs=32.3

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSNL  180 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~l  180 (184)
                      .+..|.+|.+   . ..+..-..|.-.||..|++..+..    .-.||.|+..-
T Consensus         8 ~~~~C~~C~~---~-g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           8 HMEFCRVCKD---G-GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCC---C-SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CcCCCcCCCC---C-CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            3446999974   2 345555568899999999866643    34799998654

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.23  E-value=0.029  Score=34.48  Aligned_cols=45  Identities=27%  Similarity=0.618  Sum_probs=31.1

Q ss_pred             CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccCCC
Q 045417          132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSNL  180 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~l  180 (184)
                      ...|.+|.+   .++ +..-..|...||..|+...+..    .-.||.|+..-
T Consensus         7 c~~C~~C~~---~~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           7 ATICRVCQK---PGD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSCCSSSCS---SSC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCC---cCE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            345666653   344 5555679999999999988743    34699997643

>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=91.47  E-value=0.063  Score=34.06  Aligned_cols=34  Identities=24%  Similarity=0.595  Sum_probs=24.9

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHH
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW  166 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~W  166 (184)
                      .+..|.|| +.|...+.. -..-|+-+||..|+..-
T Consensus        14 ~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          14 NDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             cCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            56689999 666655533 11238999999999987

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {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 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.23  E-value=0.22  Score=30.94  Aligned_cols=47  Identities=19%  Similarity=0.505  Sum_probs=33.1

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHH--HH-Hh--cCCCCccccCCCC
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECID--AW-LE--SHTTCPVCRSNLA  181 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~--~W-l~--~~~~CP~CR~~l~  181 (184)
                      -| ||...+.+++....-..|.--||..|+.  .. ..  .+..||.|+....
T Consensus        14 ~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~g   65 (79)
T d1wepa_          14 YC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             Ee-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcC
Confidence            45 9998877666555666799899999984  22 22  2367999987543

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=89.72  E-value=0.061  Score=33.58  Aligned_cols=50  Identities=26%  Similarity=0.526  Sum_probs=32.4

Q ss_pred             CCcccCccccccCCCCceeec-CCCCCcccHHHHHH----HH-----hcCCCCccccCCCC
Q 045417          131 GALECAVCLNEFEDDETLRLI-PKCDHVFHPECIDA----WL-----ESHTTCPVCRSNLA  181 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~l-p~C~H~FH~~CI~~----Wl-----~~~~~CP~CR~~l~  181 (184)
                      +...| ||.....++..+... ..|..=||..|+.-    .-     ..+..||.|+..-.
T Consensus        15 ~~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~~   74 (78)
T d1wewa_          15 IKVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSG   74 (78)
T ss_dssp             CCCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCS
T ss_pred             CccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcCC
Confidence            34578 999887765554432 24888899999842    10     11357999976543

>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=88.98  E-value=0.026  Score=36.14  Aligned_cols=47  Identities=21%  Similarity=0.520  Sum_probs=32.1

Q ss_pred             CcccCccccccCC-CCceeecCCCCCcccHHHHHHHH-----h---cCCCCccccC
Q 045417          132 ALECAVCLNEFED-DETLRLIPKCDHVFHPECIDAWL-----E---SHTTCPVCRS  178 (184)
Q Consensus       132 ~~eCaICL~~f~~-~~~~r~lp~C~H~FH~~CI~~Wl-----~---~~~~CP~CR~  178 (184)
                      ...|.||...... +..+..-..|+..||..|+...+     .   ....||.|..
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~   71 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTR   71 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHH
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCc
Confidence            4579999875543 33455556799999999987443     1   1457999964

>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=87.96  E-value=0.13  Score=30.48  Aligned_cols=44  Identities=32%  Similarity=0.795  Sum_probs=31.7

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHH-hcCCCCccc
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVC  176 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~C  176 (184)
                      +...|--|..++.+. .+..-++|++.|+.+| |.++ ++-.+||-|
T Consensus        14 ~~~~C~gC~~~l~~~-~~y~C~~C~~~FC~dC-D~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQ-HVYVCAVCQNVFCVDC-DVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTS-EEECCTTTTCCBCHHH-HHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCCC-ceEECcCCCCcccccc-chhhhhhhcCCCCC
Confidence            455899999998754 3455678999999999 3333 344579987

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.39  E-value=0.18  Score=30.90  Aligned_cols=46  Identities=26%  Similarity=0.555  Sum_probs=27.3

Q ss_pred             CcccCccccccCCCCceeec-CCCCC-cccHHHHHHHHh----cCCCCccccCCCC
Q 045417          132 ALECAVCLNEFEDDETLRLI-PKCDH-VFHPECIDAWLE----SHTTCPVCRSNLA  181 (184)
Q Consensus       132 ~~eCaICL~~f~~~~~~r~l-p~C~H-~FH~~CI~~Wl~----~~~~CP~CR~~l~  181 (184)
                      ..-| ||.+.. +++.+... ..|.+ -||..|+.  |.    .+-.||.|+..=.
T Consensus        16 ~~~C-iC~~~~-~~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~~g   67 (71)
T d1wesa_          16 PTYC-LCNQVS-YGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGDSG   67 (71)
T ss_dssp             CCCS-TTCCCC-CSSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSCCS
T ss_pred             CCEE-EeCCCC-CCCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccccC
Confidence            3456 998763 33433331 23544 49999985  32    2447999987543

>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=85.75  E-value=0.75  Score=28.03  Aligned_cols=39  Identities=23%  Similarity=0.468  Sum_probs=30.5

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES  169 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~  169 (184)
                      ....|.+|.+.+++..-+.--..=+|.|+-.|-...+++
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            457899999999987766433335699999999999864

>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=83.85  E-value=0.46  Score=28.87  Aligned_cols=48  Identities=23%  Similarity=0.569  Sum_probs=31.1

Q ss_pred             CCcccCccccccCCCCceeecCCCCCcccHHHHH------HH---HhcCCCCccccCCC
Q 045417          131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECID------AW---LESHTTCPVCRSNL  180 (184)
Q Consensus       131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~------~W---l~~~~~CP~CR~~l  180 (184)
                      +...| ||.....++. +..-..|.--||..|+.      ..   ......||.|+..-
T Consensus        15 ~~~~C-iC~~~~~~~~-mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~   71 (76)
T d1wema_          15 NALYC-ICRQPHNNRF-MICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             TCCCS-TTCCCCCSSC-EEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CcCEE-ECCCccCCCe-EEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcC
Confidence            44568 8987765443 44445688889999982      11   12356899997543

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.37  E-value=0.14  Score=26.30  Aligned_cols=29  Identities=21%  Similarity=0.474  Sum_probs=24.4

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHH
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECI  163 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI  163 (184)
                      ..|+-|...+...|.++.-  =+++||.+|+
T Consensus         3 g~Ca~C~~~I~~~e~VmRA--~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRA--QGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEE--TTEEECGGGC
T ss_pred             cccccccCcCChhHhheec--ccceeeeccC
Confidence            3699999999999988773  5789999984

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=82.20  E-value=0.089  Score=32.15  Aligned_cols=47  Identities=23%  Similarity=0.400  Sum_probs=33.3

Q ss_pred             cccCccccccCCCCceeecCCCCCcccHHHHHHHH----hcCCCCccccCCC
Q 045417          133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL----ESHTTCPVCRSNL  180 (184)
Q Consensus       133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl----~~~~~CP~CR~~l  180 (184)
                      ..| ||....++++.+..-..|..-||..|+..-.    .....||.|+..-
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~~   67 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELS   67 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHHC
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCcC
Confidence            457 8887777776666666799999999975422    2345799997643

>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=81.09  E-value=0.087  Score=30.30  Aligned_cols=44  Identities=18%  Similarity=0.463  Sum_probs=29.1

Q ss_pred             ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 045417          134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR  177 (184)
Q Consensus       134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR  177 (184)
                      .|.+|-..|..-..-..-..||.+|+.+|....-+....|..|.
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~   45 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQ   45 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHh
Confidence            58889988875443333446999999999766555555677774