Citrus Sinensis ID: 025507

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-
Protein Sequence
MITCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG
Secondary Structure (PSIPRED)
cEEEcccccccccEEEcccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHcccccHHHHccEEEEEEcccccccccccEEcccccccccccEEEEccc
Secondary Structure Prediction (SSPRO)
ccccccccccccEEEEEcccccEEEccccccccHccccccccccccccHHHHHHHHHHHccccccccHHHccccHHHHHHHHHHcEccccccccccEccccccEEEcccccccEEccccccEEEEEEccccccEHccccccccccHHHHccccccEEEcccccHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHcccccHHHcccEEEEEEccccccccEEEEEEEEEccccccccccEccc
Coil and Loop (DISEMBL)
mitcrcqhyrrrcrirapccneifdcrhchneamnninvdqklrhdiprhevNQVICSLCGTEQKVQQVCVNCgvcmgeyfcescklfdddtskkqyhcdgcgicriggcdnffhcnkcrccysmllknshpcvegamhhdcpvccEYLFetrqdvivlpcghtIHKNCLKEMRehhqyacpicsksvcdMSKVWEKYDREiaatpmpeaylNKKVWILcndcgktsnVQFHVLAqkcpncksyntrltrg
Flexible Loop (DISEMBL)
mitcrcqhyrrrcrirapcCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVlaqkcpncksyntrltrg
Low Complexity Region (SEG)
MITcrcqhyrrrcrirAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHcdgcgicriggcdNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG
Disordered region (IsUnstruct)
**TCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSY*******
Disordered Region (DISOPRED)
MITCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLT**
Disordered Region (DISEMBL)
MITCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKS********
Disordered Region (DISPRO)
*ITCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQ*LRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTR****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MITCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	251	2.2.26 [Sep-21-2011]
Q96PM5	261	RING finger and CHY zinc	yes	no	0.932	0.896	0.455	5e-56
Q9CR50	261	RING finger and CHY zinc	yes	no	0.932	0.896	0.447	3e-55
O14099	425	Uncharacterized RING fing	yes	no	0.920	0.543	0.399	8e-46
Q8BGI1	148	RING finger protein 24 OS	no	no	0.294	0.5	0.328	0.0008

>sp|Q96PM5|ZN363_HUMAN RING finger and CHY zinc finger domain-containing protein 1 OS=Homo sapiens GN=RCHY1 PE=1 SV=1

 Score =  217 bits (553), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 112/246 (45%), Positives = 145/246 (58%), Gaps = 12/246 (4%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C+HY R C ++APCC++++ CR CH         D    H + R +V +V C  C   Q 
Sbjct: 20  CEHYDRGCLLKAPCCDKLYTCRLCH---------DNNEDHQLDRFKVKEVQCINCEKIQH 70

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
            QQ C  C    GEY+C+ C LFD D  KKQYHC+ CGICRIG  ++FFHC KC  C +M
Sbjct: 71  AQQTCEECSTLFGEYYCDICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLAM 128

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
            L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C 
Sbjct: 129 NLQGRHKCIENVSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCM 187

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
            S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+SYN
Sbjct: 188 HSALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESYN 247

Query: 246 TRLTRG 251
           T    G
Sbjct: 248 TAQAGG 253

Mediates E3-dependent ubiquitination and proteasomal degradation of target proteins, including p53/TP53, HDAC1 and CDKN1B. Preferentially acts on tetrameric p53/TP53. Contributes to the regulation of CDKN1B and p53/TP53 levels, and thereby contributes to the regulation of the cell cycle progression. Increases AR transcription factor activity.
Homo sapiens (taxid: 9606)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9CR50|ZN363_MOUSE RING finger and CHY zinc finger domain-containing protein 1 OS=Mus musculus GN=Rchy1 PE=1 SV=1

 Score =  215 bits (547), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 110/246 (44%), Positives = 143/246 (58%), Gaps = 12/246 (4%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C+HY R C ++APCC++++ CR CH         D    H + R +V +V C  C   Q 
Sbjct: 20  CEHYDRACLLKAPCCDKLYTCRLCH---------DTNEDHQLDRFKVKEVQCINCEKLQH 70

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
            QQ C +C    GEY+C  C LFD D  K+QYHC+ CGICRIG  ++FFHC KC  C + 
Sbjct: 71  AQQTCEDCSTLFGEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLTT 128

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
            L+  H C+E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C 
Sbjct: 129 NLRGKHKCIENVSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCM 187

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
            S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C SYN
Sbjct: 188 HSALDMTRYWRQLDTEVAQTPMPSEYQNVTVDILCNDCNGRSTVQFHILGMKCKLCDSYN 247

Query: 246 TRLTRG 251
           T    G
Sbjct: 248 TAQAGG 253

Mediates E3-dependent ubiquitination and proteasomal degradation of target proteins, including p53/TP53, HDAC1 and CDKN1B. Preferentially acts on tetrameric p53/TP53. Increases AR transcription factor activity (By similarity). Contributes to the regulation of CDKN1B and p53/TP53 levels, and thereby contributes to the regulation of the cell cycle progression.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O14099|YERG_SCHPO Uncharacterized RING finger protein C2F3.16 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC2F3.16 PE=4 SV=1

 Score =  183 bits (465), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 97/243 (39%), Positives = 138/243 (56%), Gaps = 12/243 (4%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C HY R C+++   C+E + CRHCHN+A +         H + R  V  ++C +C   Q 
Sbjct: 142 CSHYMRNCKVQCFDCHEWYTCRHCHNDACD---------HVLERPAVENMLCMICSKVQP 192

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGG--CDNFFHCNKCRCCY 123
             Q C  C  CMG Y+C  CKL+DDD +K  YHCD CGICRIG    D++FHC  C  C 
Sbjct: 193 AAQYCKYCKNCMGRYYCNKCKLWDDDPNKSSYHCDDCGICRIGRGLGDDYFHCKTCGLCL 252

Query: 124 SMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPI 183
            + + N+H C+E +   +CP+C EY+F +R+ VI L C H +H+ C +E    + Y CP 
Sbjct: 253 PISVFNTHRCIERSTDCNCPICGEYMFNSRERVIFLSCSHPLHQRCHEEYIRTN-YRCPT 311

Query: 184 CSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKS 243
           C K++ +++ ++   D EI   PMP  Y      I CNDC    + ++H L  KC +C S
Sbjct: 312 CYKTIINVNSLFRILDMEIERQPMPYPYNTWISTIRCNDCNSRCDTKYHFLGHKCNSCHS 371

Query: 244 YNT 246
           YNT
Sbjct: 372 YNT 374

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

>sp|Q8BGI1|RNF24_MOUSE RING finger protein 24 OS=Mus musculus GN=Rnf24 PE=2 SV=1

 Score = 44.3 bits (103), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 2/76 (2%)

Query: 135 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKV 194
           E  +H  C VC E  F+ R ++ + PC H  H+ CL +  E  +  CP+C+  V  ++++
Sbjct: 71  ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLVKWLEVRK-VCPLCNMPVLQLAQL 128

Query: 195 WEKYDREIAATPMPEA 210
             K DR     P+P A
Sbjct: 129 HSKQDRGPPQEPLPGA 144

May play a role in TRPCs intracellular trafficking.

Mus musculus (taxid: 10090)

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	251
224092372	300	predicted protein [Populus trichocarpa]	0.980	0.82	0.857	1e-122
225430120	315	PREDICTED: RING finger and CHY zinc fing	0.980	0.780	0.841	1e-120
296081945	294	unnamed protein product [Vitis vinifera]	0.980	0.836	0.841	1e-119
356563813	308	PREDICTED: RING finger and CHY zinc fing	0.972	0.792	0.831	1e-118
356552549	308	PREDICTED: RING finger and CHY zinc fing	0.972	0.792	0.840	1e-118
449437104	307	PREDICTED: RING finger and CHY zinc fing	0.980	0.801	0.833	1e-118
356515508	309	PREDICTED: RING finger and CHY zinc fing	0.980	0.796	0.821	1e-117
255635979	309	unknown [Glycine max]	0.980	0.796	0.817	1e-116
297808579	308	zinc finger family protein [Arabidopsis	0.980	0.798	0.808	1e-115
356552551	323	PREDICTED: RING finger and CHY zinc fing	0.972	0.755	0.791	1e-115

>gi|224092372|ref|XP_002309580.1| predicted protein [Populus trichocarpa] gi|118485648|gb|ABK94674.1| unknown [Populus trichocarpa] gi|222855556|gb|EEE93103.1| predicted protein [Populus trichocarpa]

 Score =  444 bits (1142), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 211/246 (85%), Positives = 228/246 (92%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C HYRRRCRIRAPCCNE+FDCRHCHNEA NNINVDQK RHD+PRHEV QVICSLCGTEQ+
Sbjct: 55  CLHYRRRCRIRAPCCNEVFDCRHCHNEAKNNINVDQKHRHDMPRHEVKQVICSLCGTEQE 114

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           VQQVC+NCGVCMG+YFCE+CKLFDDDTSKKQYHCDGCGICRIGG +NFFHC KC CCYS 
Sbjct: 115 VQQVCINCGVCMGKYFCETCKLFDDDTSKKQYHCDGCGICRIGGPENFFHCYKCGCCYSN 174

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
           LLKNSHPCVEGAMHHDCPVC E+LFE+R DV VLPCGHTIH++CLKEMR+H+QYACP+CS
Sbjct: 175 LLKNSHPCVEGAMHHDCPVCFEFLFESRYDVTVLPCGHTIHESCLKEMRDHYQYACPLCS 234

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK+D EIAATPMPE YLNK VWILCNDCGK+S VQFHV+AQKC NCKSYN
Sbjct: 235 KSVCDMSKVWEKFDMEIAATPMPEPYLNKMVWILCNDCGKSSEVQFHVVAQKCMNCKSYN 294

Query: 246 TRLTRG 251
           TR TR 
Sbjct: 295 TRQTRS 300

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430120|ref|XP_002284652.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1 [Vitis vinifera] gi|147785653|emb|CAN68688.1| hypothetical protein VITISV_029477 [Vitis vinifera]

 Score =  435 bits (1119), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 207/246 (84%), Positives = 223/246 (90%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C HYRRRCRIRAPCCNEIFDCRHCHNEA N+I VD+  RHDIPRH+V QVICSLC TEQ+
Sbjct: 70  CPHYRRRCRIRAPCCNEIFDCRHCHNEAKNSIKVDKAQRHDIPRHQVQQVICSLCNTEQE 129

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           V+QVC+NCGVCMG+YFCE+CKLFDDDTSKKQYHC+GCGICRIGG +NFFHC KCRCCYS+
Sbjct: 130 VRQVCINCGVCMGKYFCETCKLFDDDTSKKQYHCNGCGICRIGGRENFFHCYKCRCCYSV 189

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
           LLKNSHPCVEGAMHHDCPVC EYLFE+  DV V+PCGHTIH+NCLKEMREH QYACP+CS
Sbjct: 190 LLKNSHPCVEGAMHHDCPVCFEYLFESTDDVTVMPCGHTIHQNCLKEMREHLQYACPLCS 249

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK+D EIAA PMPE Y NK VWILCNDCGKTS V FHVLAQKC NCKSYN
Sbjct: 250 KSVCDMSKVWEKFDMEIAAIPMPEPYQNKMVWILCNDCGKTSKVHFHVLAQKCLNCKSYN 309

Query: 246 TRLTRG 251
           TR TRG
Sbjct: 310 TRQTRG 315

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081945|emb|CBI20950.3| unnamed protein product [Vitis vinifera]

 Score =  433 bits (1114), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 207/246 (84%), Positives = 223/246 (90%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C HYRRRCRIRAPCCNEIFDCRHCHNEA N+I VD+  RHDIPRH+V QVICSLC TEQ+
Sbjct: 49  CPHYRRRCRIRAPCCNEIFDCRHCHNEAKNSIKVDKAQRHDIPRHQVQQVICSLCNTEQE 108

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           V+QVC+NCGVCMG+YFCE+CKLFDDDTSKKQYHC+GCGICRIGG +NFFHC KCRCCYS+
Sbjct: 109 VRQVCINCGVCMGKYFCETCKLFDDDTSKKQYHCNGCGICRIGGRENFFHCYKCRCCYSV 168

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
           LLKNSHPCVEGAMHHDCPVC EYLFE+  DV V+PCGHTIH+NCLKEMREH QYACP+CS
Sbjct: 169 LLKNSHPCVEGAMHHDCPVCFEYLFESTDDVTVMPCGHTIHQNCLKEMREHLQYACPLCS 228

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK+D EIAA PMPE Y NK VWILCNDCGKTS V FHVLAQKC NCKSYN
Sbjct: 229 KSVCDMSKVWEKFDMEIAAIPMPEPYQNKMVWILCNDCGKTSKVHFHVLAQKCLNCKSYN 288

Query: 246 TRLTRG 251
           TR TRG
Sbjct: 289 TRQTRG 294

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356563813|ref|XP_003550153.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like [Glycine max]

 Score =  430 bits (1106), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 203/244 (83%), Positives = 220/244 (90%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           CQHYRRRCRIRAPCCNEIFDCRHCHNEA N+IN+DQK RHDIPRH+V QVICSLCGTEQ+
Sbjct: 65  CQHYRRRCRIRAPCCNEIFDCRHCHNEAKNDINIDQKHRHDIPRHQVKQVICSLCGTEQE 124

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           VQQ C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GG +NFFHC KC CCYS 
Sbjct: 125 VQQNCINCGVCMGKYFCGTCKLFDDDISKQQYHCSGCGICRTGGSENFFHCYKCGCCYST 184

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
           LLKNSHPCVEGAMHHDCPVC EYLFE+R DV V+PCGHTIHK+CL EMREH QY+CP+C 
Sbjct: 185 LLKNSHPCVEGAMHHDCPVCFEYLFESRNDVTVMPCGHTIHKSCLNEMREHFQYSCPLCL 244

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK+D EIAATPMPE Y NK VWILCNDCGKTS+VQFH +AQKCPNCKSYN
Sbjct: 245 KSVCDMSKVWEKFDIEIAATPMPEQYQNKMVWILCNDCGKTSHVQFHFVAQKCPNCKSYN 304

Query: 246 TRLT 249
           TR T
Sbjct: 305 TRQT 308

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552549|ref|XP_003544629.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like isoform 1 [Glycine max]

 Score =  429 bits (1103), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 205/244 (84%), Positives = 220/244 (90%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           CQHYRRRCRIRAPCCNEIFDCRHCHNEA N+IN+D KLRHDIPRHEV QVICSLCGTEQ+
Sbjct: 65  CQHYRRRCRIRAPCCNEIFDCRHCHNEAKNDINIDLKLRHDIPRHEVKQVICSLCGTEQE 124

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           VQQ C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GG +NFFHC KC CCYS 
Sbjct: 125 VQQNCINCGVCMGKYFCGTCKLFDDDISKQQYHCCGCGICRTGGSENFFHCYKCGCCYST 184

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
           LLKNSHPCVEGAMHHDCPVC EYLFE+R DV V+PCGHTIHK+CL EMREH QYACP+CS
Sbjct: 185 LLKNSHPCVEGAMHHDCPVCFEYLFESRNDVTVMPCGHTIHKSCLNEMREHFQYACPLCS 244

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK+D EIAAT MPE Y NK VWILCNDCGKTS+VQFH +AQKCPNCKSYN
Sbjct: 245 KSVCDMSKVWEKFDLEIAATRMPEQYQNKMVWILCNDCGKTSHVQFHFVAQKCPNCKSYN 304

Query: 246 TRLT 249
           TR T
Sbjct: 305 TRQT 308

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437104|ref|XP_004136332.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like [Cucumis sativus] gi|449505475|ref|XP_004162482.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like [Cucumis sativus]

 Score =  429 bits (1102), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 205/246 (83%), Positives = 224/246 (91%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C HYRRRCRIRAPCCNEIFDCRHCHNE  N+I VDQK RH+IPRHEVNQVICSLCGTEQ+
Sbjct: 62  CAHYRRRCRIRAPCCNEIFDCRHCHNEIKNSICVDQKERHEIPRHEVNQVICSLCGTEQE 121

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           V+Q C+NCGVC G+YFCESCKLFDDDTSKKQYHC+GCGICRIGG +NFFHC+KC CCYS+
Sbjct: 122 VRQDCINCGVCFGKYFCESCKLFDDDTSKKQYHCNGCGICRIGGRENFFHCHKCGCCYSI 181

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
           LLKNSHPCVEGAMHHDCPVC EYLF++  DV V+PCGHTIH+NCLKEMR+H QYACP+CS
Sbjct: 182 LLKNSHPCVEGAMHHDCPVCFEYLFDSTNDVTVMPCGHTIHQNCLKEMRDHFQYACPLCS 241

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK D EIAATP+PE Y NK VWILCNDCGKTS VQ+HV+AQKC NCKSYN
Sbjct: 242 KSVCDMSKVWEKIDMEIAATPIPEPYQNKMVWILCNDCGKTSKVQYHVVAQKCLNCKSYN 301

Query: 246 TRLTRG 251
           TR TRG
Sbjct: 302 TRQTRG 307

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515508|ref|XP_003526442.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like [Glycine max]

 Score =  425 bits (1093), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 202/246 (82%), Positives = 221/246 (89%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           CQHYRRRCRIRAPCC+EIFDCRHCHNEA NNIN+DQK RHDIPRH+V QVICSLC TEQ+
Sbjct: 64  CQHYRRRCRIRAPCCDEIFDCRHCHNEAKNNINIDQKHRHDIPRHQVKQVICSLCETEQE 123

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           VQQ C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GGC+NFFHC+KC CCYS 
Sbjct: 124 VQQNCINCGVCMGKYFCGTCKLFDDDVSKQQYHCSGCGICRTGGCENFFHCHKCGCCYST 183

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
            LKNSHPCVEGAMHHDCP+C EYLFE+  DV VL CGHTIHK+CLKEMREH QYACP+C 
Sbjct: 184 QLKNSHPCVEGAMHHDCPICFEYLFESVNDVTVLLCGHTIHKSCLKEMREHFQYACPLCL 243

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK+D EIAATPMPE Y NK VWILCNDCGK+S+VQFH++AQKC NCKSYN
Sbjct: 244 KSVCDMSKVWEKFDLEIAATPMPEPYQNKMVWILCNDCGKSSHVQFHLVAQKCLNCKSYN 303

Query: 246 TRLTRG 251
           TR TRG
Sbjct: 304 TRETRG 309

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255635979|gb|ACU18335.1| unknown [Glycine max]

 Score =  422 bits (1084), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 201/246 (81%), Positives = 220/246 (89%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           CQHYRRRCRIRAPCC+EIFDCRHCHNEA NNIN+DQK RHDIPRH+V QVICSLC TEQ+
Sbjct: 64  CQHYRRRCRIRAPCCDEIFDCRHCHNEAKNNINIDQKHRHDIPRHQVKQVICSLCETEQE 123

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           VQQ C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GGC+NFFHC+KC CCYS 
Sbjct: 124 VQQNCINCGVCMGKYFCGTCKLFDDDVSKQQYHCSGCGICRTGGCENFFHCHKCGCCYST 183

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
            LKNSHPCVE AMHHDCP+C EYLFE+  DV VL CGHTIHK+CLKEMREH QYACP+C 
Sbjct: 184 QLKNSHPCVERAMHHDCPICFEYLFESVNDVTVLLCGHTIHKSCLKEMREHFQYACPLCL 243

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK+D EIAATPMPE Y NK VWILCNDCGK+S+VQFH++AQKC NCKSYN
Sbjct: 244 KSVCDMSKVWEKFDLEIAATPMPEPYQNKMVWILCNDCGKSSHVQFHLVAQKCLNCKSYN 303

Query: 246 TRLTRG 251
           TR TRG
Sbjct: 304 TRETRG 309

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297808579|ref|XP_002872173.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297318010|gb|EFH48432.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  420 bits (1080), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 199/246 (80%), Positives = 221/246 (89%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C HYRRRC IRAPCCNEIF C HCHNEA NNINVDQK RHDIPRH+V QVIC LCGTEQ+
Sbjct: 63  CPHYRRRCCIRAPCCNEIFGCHHCHNEAKNNINVDQKQRHDIPRHQVEQVICLLCGTEQE 122

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
           V Q+C++CGVCMG+YFC+ CKLFDDDTSKKQYHCDGCGICRIGG +NFFHC KC CCYS+
Sbjct: 123 VGQICIHCGVCMGKYFCKVCKLFDDDTSKKQYHCDGCGICRIGGRENFFHCYKCGCCYSI 182

Query: 126 LLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
           LLKNSHPCVEGAMHHDCP+C E+LFE+R DV VLPCGHTIH+ CL+EMR+H+QYACP+CS
Sbjct: 183 LLKNSHPCVEGAMHHDCPICFEFLFESRNDVTVLPCGHTIHQKCLEEMRDHYQYACPLCS 242

Query: 186 KSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYN 245
           KSVCDMSKVWEK+D EIAATPMPE Y N+ V ILCNDCGK S V++HV+AQKCPNCKSYN
Sbjct: 243 KSVCDMSKVWEKFDMEIAATPMPEPYQNRMVQILCNDCGKKSEVKYHVVAQKCPNCKSYN 302

Query: 246 TRLTRG 251
           TR TRG
Sbjct: 303 TRQTRG 308

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552551|ref|XP_003544630.1| PREDICTED: RING finger and CHY zinc finger domain-containing protein 1-like isoform 2 [Glycine max]

 Score =  420 bits (1079), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 205/259 (79%), Positives = 220/259 (84%), Gaps = 15/259 (5%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEV------------- 52
           CQHYRRRCRIRAPCCNEIFDCRHCHNEA N+IN+D KLRHDIPRHEV             
Sbjct: 65  CQHYRRRCRIRAPCCNEIFDCRHCHNEAKNDINIDLKLRHDIPRHEVKQVCLFILTFPIG 124

Query: 53  --NQVICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGC 110
              QVICSLCGTEQ+VQQ C+NCGVCMG+YFC +CKLFDDD SK+QYHC GCGICR GG 
Sbjct: 125 ISTQVICSLCGTEQEVQQNCINCGVCMGKYFCGTCKLFDDDISKQQYHCCGCGICRTGGS 184

Query: 111 DNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCL 170
           +NFFHC KC CCYS LLKNSHPCVEGAMHHDCPVC EYLFE+R DV V+PCGHTIHK+CL
Sbjct: 185 ENFFHCYKCGCCYSTLLKNSHPCVEGAMHHDCPVCFEYLFESRNDVTVMPCGHTIHKSCL 244

Query: 171 KEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQ 230
            EMREH QYACP+CSKSVCDMSKVWEK+D EIAAT MPE Y NK VWILCNDCGKTS+VQ
Sbjct: 245 NEMREHFQYACPLCSKSVCDMSKVWEKFDLEIAATRMPEQYQNKMVWILCNDCGKTSHVQ 304

Query: 231 FHVLAQKCPNCKSYNTRLT 249
           FH +AQKCPNCKSYNTR T
Sbjct: 305 FHFVAQKCPNCKSYNTRQT 323

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	251
TAIR|locus:2172656	291	AT5G22920 [Arabidopsis thalian	0.936	0.807	0.622	3.5e-91
TAIR|locus:2179474	328	AT5G25560 [Arabidopsis thalian	0.796	0.609	0.74	7.5e-89
TAIR|locus:2180074	267	MIEL1 "MYB30-Interacting E3 Li	0.912	0.857	0.551	3.9e-76
TAIR|locus:2099212	287	AT3G62970 [Arabidopsis thalian	0.912	0.797	0.519	4.4e-68
UNIPROTKB|E7ETW5	239	RCHY1 "RING finger and CHY zin	0.888	0.933	0.425	5.6e-52
UNIPROTKB|Q96PM5	261	RCHY1 "RING finger and CHY zin	0.888	0.854	0.425	5.6e-52
UNIPROTKB|J9NZR5	259	RCHY1 "Uncharacterized protein	0.868	0.841	0.430	7.2e-52
UNIPROTKB|A4IFE2	261	RCHY1 "RCHY1 protein" [Bos tau	0.868	0.835	0.430	9.2e-52
RGD|1359180	261	Rchy1 "ring finger and CHY zin	0.888	0.854	0.421	1.9e-51
MGI|MGI:1915348	261	Rchy1 "ring finger and CHY zin	0.888	0.854	0.417	6.5e-51

TAIR|locus:2172656 AT5G22920 [Arabidopsis thaliana (taxid:3702)]

 Score = 909 (325.0 bits), Expect = 3.5e-91, P = 3.5e-91
 Identities = 147/236 (62%), Positives = 184/236 (77%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCC+EIFDCRHCHNEA ++++++Q  RH++PRHEV++VICSLC TEQ VQQ C NCGVC
Sbjct:    38 APCCDEIFDCRHCHNEAKDSLHIEQHHRHELPRHEVSKVICSLCETEQDVQQNCSNCGVC 97

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
             MG+YFC  CK FDDD SKKQYH             NFFHC +CRCCYS ++++ H CVEG
Sbjct:    98 MGKYFCSKCKFFDDDLSKKQYHCDECGICRTGGEENFFHCKRCRCCYSKIMEDKHQCVEG 157

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
             AMHH+CPVC EYLF++ +D+ VL CGHT+H  C K+M  H++Y CP+CSKS+CDMS +W+
Sbjct:   158 AMHHNCPVCFEYLFDSTRDITVLRCGHTMHLECTKDMGLHNRYTCPVCSKSICDMSNLWK 217

Query:   197 KYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLT-RG 251
             K D E+AA PMP+ Y NK VWILCNDCG  +NV+FH++A KC +C SYNTR T RG
Sbjct:   218 KLDEEVAAYPMPKMYENKMVWILCNDCGSNTNVRFHLIAHKCSSCGSYNTRQTQRG 273

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2179474 AT5G25560 [Arabidopsis thaliana (taxid:3702)]

 Score = 887 (317.3 bits), Expect = 7.5e-89, P = 7.5e-89
 Identities = 148/200 (74%), Positives = 167/200 (83%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCCNEIF C HCH EA NNINVDQK RHDIPRH+V QVIC LCGTEQ+V Q+C++CGVC
Sbjct:    74 APCCNEIFGCHHCHYEAKNNINVDQKQRHDIPRHQVEQVICLLCGTEQEVGQICIHCGVC 133

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
             MG+YFC+ CKL+DDDTSKKQYH             NFFHC KC CCYS+LLKN HPCVEG
Sbjct:   134 MGKYFCKVCKLYDDDTSKKQYHCDGCGICRIGGRENFFHCYKCGCCYSILLKNGHPCVEG 193

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
             AMHHDCP+C E+LFE+R DV VLPCGHTIH+ CL+EMR+H+QYACP+CSKSVCDMSKVWE
Sbjct:   194 AMHHDCPICFEFLFESRNDVTVLPCGHTIHQKCLEEMRDHYQYACPLCSKSVCDMSKVWE 253

Query:   197 KYDREIAATPMPEAYLNKKV 216
             K+D EIAATPMPE Y N+ V
Sbjct:   254 KFDMEIAATPMPEPYQNRMV 273

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2180074 MIEL1 "MYB30-Interacting E3 Ligase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 767 (275.1 bits), Expect = 3.9e-76, P = 3.9e-76
 Identities = 128/232 (55%), Positives = 162/232 (69%)

Query:    17 APCCNEIFDCRHCHNEAMNNI-NVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGV 75
             APCCNE+FDCRHCHNE+ + + N+    RHD+ R +V QVICS+C TEQ   QVC NCGV
Sbjct:    29 APCCNEVFDCRHCHNESTSTLRNIYD--RHDLVRQDVKQVICSVCDTEQPAAQVCSNCGV 86

Query:    76 CMGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVE 135
              MGEYFC  C  +DDDT K+Q+H             NFFHC KC  CY++ L+N+H CVE
Sbjct:    87 NMGEYFCSICIFYDDDTEKQQFHCDDCGICRVGGRENFFHCKKCGSCYAVGLRNNHRCVE 146

Query:   136 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVW 195
              +M H CP+C EYLF++ +D  V+ CGHT+H  C  EM +  ++ CPICS+SV DMSK W
Sbjct:   147 NSMRHHCPICYEYLFDSLKDTNVMKCGHTMHVECYNEMIKRDKFCCPICSRSVIDMSKTW 206

Query:   196 EKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTR 247
             ++ D EI AT MP  Y +KKVWILCNDC  T+ V FH++ QKC +C+SYNTR
Sbjct:   207 QRLDEEIEATAMPSDYRDKKVWILCNDCNDTTEVHFHIIGQKCGHCRSYNTR 258

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2099212 AT3G62970 [Arabidopsis thaliana (taxid:3702)]

 Score = 691 (248.3 bits), Expect = 4.4e-68, P = 4.4e-68
 Identities = 120/231 (51%), Positives = 152/231 (65%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCCN IF CRHCHN++ N++  D K RHD+ R  V QV+CS+C TEQ+V +VC NCGV 
Sbjct:    46 APCCNLIFSCRHCHNDSANSLP-DPKERHDLVRQNVKQVVCSICQTEQEVAKVCSNCGVN 104

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
             MGEYFC+ CK FDDD SK+Q+H              FFHC  C  CY M L++ H C+E 
Sbjct:   105 MGEYFCDICKFFDDDISKEQFHCDDCGICRVGGRDKFFHCQNCGACYGMGLRDKHSCIEN 164

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
             +  + CPVC EYLF++ +   V+ CGHT+H +C ++M   +QY CPIC+KS+ DMS  W 
Sbjct:   165 STKNSCPVCYEYLFDSVKAAHVMKCGHTMHMDCFEQMINENQYRCPICAKSMVDMSPSWH 224

Query:   197 KYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTR 247
               D EI+AT MP  Y   +V ILCNDC K S   FH+L  KC +C SYNTR
Sbjct:   225 LLDFEISATEMPVEY-KFEVSILCNDCNKGSKAMFHILGHKCSDCGSYNTR 274

GO:0005634 "nucleus" evidence=ISM

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

GO:0009616 "virus induced gene silencing" evidence=RCA

GO:0010050 "vegetative phase change" evidence=RCA

UNIPROTKB|E7ETW5 RCHY1 "RING finger and CHY zinc finger domain-containing protein 1" [Homo sapiens (taxid:9606)]

 Score = 539 (194.8 bits), Expect = 5.6e-52, P = 5.6e-52
 Identities = 100/235 (42%), Positives = 129/235 (54%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCC++++ CR CH+      N D    H + R +V +V C  C   Q  QQ C  C   
Sbjct:     9 APCCDKLYTCRLCHDN-----NED----HQLDRFKVKEVQCINCEKIQHAQQTCEECSTL 59

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
              GEY+C+ C LFD D  KKQYH             +FFHC KC  C +M L+  H C+E 
Sbjct:    60 FGEYYCDICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLAMNLQGRHKCIEN 117

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
                 +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C  S  DM++ W 
Sbjct:   118 VSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCMHSALDMTRYWR 176

Query:   197 KYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 251
             + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+SYNT    G
Sbjct:   177 QLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESYNTAQAGG 231

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|Q96PM5 RCHY1 "RING finger and CHY zinc finger domain-containing protein 1" [Homo sapiens (taxid:9606)]

 Score = 539 (194.8 bits), Expect = 5.6e-52, P = 5.6e-52
 Identities = 100/235 (42%), Positives = 129/235 (54%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCC++++ CR CH+      N D    H + R +V +V C  C   Q  QQ C  C   
Sbjct:    31 APCCDKLYTCRLCHDN-----NED----HQLDRFKVKEVQCINCEKIQHAQQTCEECSTL 81

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
              GEY+C+ C LFD D  KKQYH             +FFHC KC  C +M L+  H C+E 
Sbjct:    82 FGEYYCDICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLAMNLQGRHKCIEN 139

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
                 +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C  S  DM++ W 
Sbjct:   140 VSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCMHSALDMTRYWR 198

Query:   197 KYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 251
             + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+SYNT    G
Sbjct:   199 QLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESYNTAQAGG 253

GO:0005102 "receptor binding" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0008270 "zinc ion binding" evidence=IDA

GO:0002039 "p53 binding" evidence=IPI

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0051865 "protein autoubiquitination" evidence=IDA

GO:0000151 "ubiquitin ligase complex" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

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

GO:0042803 "protein homodimerization activity" evidence=IPI

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

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IDA

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

GO:0005737 "cytoplasm" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|J9NZR5 RCHY1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 538 (194.4 bits), Expect = 7.2e-52, P = 7.2e-52
 Identities = 99/230 (43%), Positives = 128/230 (55%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCC++++ CR CH+      N D    H + R +V +V C  C   Q  QQ C  C   
Sbjct:    31 APCCDKLYTCRLCHDN-----NED----HQLDRFKVKEVQCINCEKIQHAQQSCEECSTL 81

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
              GEY+C  C LFD D  KKQYH             +FFHC KC  C +M L+  H C+E 
Sbjct:    82 FGEYYCSICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLAMNLQGKHKCIEN 139

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
                 +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C  S  DM++ W 
Sbjct:   140 VSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCMHSALDMTRYWR 198

Query:   197 KYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNT 246
             + D E+A TPMP  Y N  V ILCNDC + S VQFH+L  KC  C+SYNT
Sbjct:   199 QLDDEVAQTPMPSEYQNMTVDILCNDCNRRSTVQFHILGMKCNICESYNT 248

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|A4IFE2 RCHY1 "RCHY1 protein" [Bos taurus (taxid:9913)]

 Score = 537 (194.1 bits), Expect = 9.2e-52, P = 9.2e-52
 Identities = 99/230 (43%), Positives = 128/230 (55%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCC++++ CR CH+      N D    H + R +V +V C  C   Q  QQ C  C   
Sbjct:    31 APCCDKLYTCRLCHDN-----NED----HQLDRFKVKEVQCINCEKIQHAQQTCEECSTL 81

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
              GEY+C  C LFD D  KKQYH             +FFHC KC  C +M L+  H C+E 
Sbjct:    82 FGEYYCSVCHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLAMNLQGKHKCIEN 139

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
                 +CP+C E +  +R    VLPCGH +H+ C ++M +   Y CP+C +S  DMS+ W 
Sbjct:   140 VSRQNCPICLEDIHTSRIAAQVLPCGHLLHRTCYEDMLKEG-YRCPLCMRSALDMSRSWR 198

Query:   197 KYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNT 246
             + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+SYNT
Sbjct:   199 QRDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCNICESYNT 248

GO:0051865 "protein autoubiquitination" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

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

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0002039 "p53 binding" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

RGD|1359180 Rchy1 "ring finger and CHY zinc finger domain containing 1, E3 ubiquitin protein ligase" [Rattus norvegicus (taxid:10116)]

 Score = 534 (193.0 bits), Expect = 1.9e-51, P = 1.9e-51
 Identities = 99/235 (42%), Positives = 126/235 (53%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCC++++ CR CH         D    H + R +V +V C  C   Q  QQ C +C   
Sbjct:    31 APCCDKLYTCRLCH---------DTHEDHQLDRFKVKEVQCINCEKLQHAQQTCEDCSTL 81

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
              GEY+C  C LFD D  KKQYH             +FFHC KC  C +M L+  H C+E 
Sbjct:    82 FGEYYCSICHLFDKD--KKQYHCESCGICRIGPKEDFFHCLKCNLCLAMTLRGKHKCIEN 139

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
                 +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C  S  DM++ W 
Sbjct:   140 VSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCMHSALDMTRYWR 198

Query:   197 KYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 251
             + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C SYNT    G
Sbjct:   199 QLDIEVAQTPMPSEYQNVTVDILCNDCNGRSTVQFHILGMKCKLCDSYNTAQAGG 253

GO:0000151 "ubiquitin ligase complex" evidence=IEA;ISO

GO:0002039 "p53 binding" evidence=IEA;ISO

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

GO:0005102 "receptor binding" evidence=IPI

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0008150 "biological_process" evidence=ND

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

GO:0016567 "protein ubiquitination" evidence=ISO

GO:0031398 "positive regulation of protein ubiquitination" evidence=IEA;ISO

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA;ISO

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

GO:0042803 "protein homodimerization activity" evidence=IEA;ISO

GO:0051865 "protein autoubiquitination" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

MGI|MGI:1915348 Rchy1 "ring finger and CHY zinc finger domain containing 1" [Mus musculus (taxid:10090)]

 Score = 529 (191.3 bits), Expect = 6.5e-51, P = 6.5e-51
 Identities = 98/235 (41%), Positives = 127/235 (54%)

Query:    17 APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
             APCC++++ CR CH+      N D    H + R +V +V C  C   Q  QQ C +C   
Sbjct:    31 APCCDKLYTCRLCHDT-----NED----HQLDRFKVKEVQCINCEKLQHAQQTCEDCSTL 81

Query:    77 MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
              GEY+C  C LFD D  K+QYH             +FFHC KC  C +  L+  H C+E 
Sbjct:    82 FGEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCIEN 139

Query:   137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE 196
                 +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C  S  DM++ W 
Sbjct:   140 VSRQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCMHSALDMTRYWR 198

Query:   197 KYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 251
             + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C SYNT    G
Sbjct:   199 QLDTEVAQTPMPSEYQNVTVDILCNDCNGRSTVQFHILGMKCKLCDSYNTAQAGG 253

GO:0000151 "ubiquitin ligase complex" evidence=ISO

GO:0002039 "p53 binding" evidence=ISO

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

GO:0005102 "receptor binding" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0008270 "zinc ion binding" evidence=ISO

GO:0016567 "protein ubiquitination" evidence=ISO

GO:0016874 "ligase activity" evidence=IEA

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

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO

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

GO:0042803 "protein homodimerization activity" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051865 "protein autoubiquitination" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9CR50	ZN363_MOUSE	6, ., 3, ., 2, ., -	0.4471	0.9322	0.8965	yes	no
Q96PM5	ZN363_HUMAN	6, ., 3, ., 2, ., -	0.4552	0.9322	0.8965	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	251
pfam05495	74	pfam05495, zf-CHY, CHY zinc finger	2e-16
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-05
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-04
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	0.001
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	0.002

>gnl|CDD|218608 pfam05495, zf-CHY, CHY zinc finger

 Score = 71.2 bits (175), Expect = 2e-16
 Identities = 38/85 (44%), Positives = 49/85 (57%), Gaps = 12/85 (14%)

Query: 6  CQHYRRR-CRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ 64
          C+HY R  C IRAPCCN+ + CR CH+E  +         H + R  V  V+C +C TEQ
Sbjct: 1  CKHYHRNLCAIRAPCCNKYYPCRLCHDELED---------HPLDRWNVKAVLCGVCRTEQ 51

Query: 65 KVQQVCVNCGVCMGEYFCESCKLFD 89
           VQ+   NCGV   +Y+C  CKLF 
Sbjct: 52 TVQE--YNCGVEFADYYCPICKLFF 74

This family of domains are likely to bind to zinc ions. They contain many conserved cysteine and histidine residues. We have named this domain after the N-terminal motif CXHY. This domain can be found in isolation in some proteins, but is also often associated with pfam00097. One of the proteins in this family is a mitochondrial intermembrane space protein called Hot13. This protein is involved in the assembly of small TIM complexes. Length = 74

>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 43.8 bits (103), Expect = 5e-05
 Identities = 23/62 (37%), Positives = 29/62 (46%), Gaps = 5/62 (8%)

Query: 133 CVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC-DM 191
           C++   H D       L  T +    LPCGH +H +CLK   E  Q  CPIC + V  D 
Sbjct: 293 CMDEMFHPDHEPLPRGLDMTPKR---LPCGHILHLHCLKNWLERQQ-TCPICRRPVIFDQ 348

Query: 192 SK 193
           S 
Sbjct: 349 SS 350

Length = 491

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

 Score = 41.5 bits (97), Expect = 2e-04
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 1/48 (2%)

Query: 141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 188
           +C +C    F     + VLPC H  H  C+ +    +   CP+C  ++
Sbjct: 325 ECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 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 = 35.9 bits (83), Expect = 0.001
 Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 3/48 (6%)

Query: 141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 188
           +CP+C E     R+ V++LPCGH   ++C+ +  +  +  CP+C   +
Sbjct: 1   ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKS 187
            +CP+C +  FE  ++V+VLPCGH  HK CL +        CP+C   
Sbjct: 1   DECPICLDE-FEPGEEVVVLPCGHVFHKECLDKWLRSS-NTCPLCRAP 46

Length = 46

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	251
KOG1940	276	consensus Zn-finger protein [General function pred	100.0
PF14599	61	zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.	99.93
PF05495	71	zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc	99.89
COG4357	105	Zinc finger domain containing protein (CHY type) [	99.43
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.32
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.24
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.05
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.99
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.96
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.9
PHA02929	238	N1R/p28-like protein; Provisional	98.86
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.85
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.79
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.79
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.77
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.74
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.73
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.67
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.67
PF14634	44	zf-RING_5: zinc-RING finger domain	98.64
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.63
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.58
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.45
PHA02926	242	zinc finger-like protein; Provisional	98.43
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.24
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.15
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.07
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.05
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.96
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.95
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	97.93
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.89
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	97.87
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.83
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.67
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.61
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.52
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.48
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.45
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.42
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.26
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.24
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.0
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.9
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.85
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	96.84
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	96.73
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	96.66
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	96.65
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.54
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.35
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.21
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	96.17
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.98
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	95.97
COG5219	1525	Uncharacterized conserved protein, contains RING Z	95.86
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.62
PRK14890	59	putative Zn-ribbon RNA-binding protein; Provisiona	95.49
KOG0825	1134	consensus PHD Zn-finger protein [General function	95.34
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	95.14
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	94.71
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	94.6
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.51
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.39
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.38
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.23
KOG0297	391	consensus TNF receptor-associated factor [Signal t	93.96
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	93.79
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	93.69
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	93.67
KOG4445	368	consensus Uncharacterized conserved protein, conta	93.65
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.26
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	93.01
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	92.98
KOG3002	299	consensus Zn finger protein [General function pred	92.45
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	92.34
PF12773	50	DZR: Double zinc ribbon	91.99
TIGR00100	115	hypA hydrogenase nickel insertion protein HypA. In	91.4
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	91.4
COG2888	61	Predicted Zn-ribbon RNA-binding protein with a fun	91.26
PF04641	260	Rtf2: Rtf2 RING-finger	91.24
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.05
COG5152	259	Uncharacterized conserved protein, contains RING a	90.95
PHA02862	156	5L protein; Provisional	90.24
PRK00564	117	hypA hydrogenase nickel incorporation protein; Pro	90.02
PRK03824	135	hypA hydrogenase nickel incorporation protein; Pro	89.91
PHA02825	162	LAP/PHD finger-like protein; Provisional	89.86
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	89.79
COG5236	493	Uncharacterized conserved protein, contains RING Z	89.78
PF13248	26	zf-ribbon_3: zinc-ribbon domain	89.5
PRK12380	113	hydrogenase nickel incorporation protein HybF; Pro	89.3
KOG2660	331	consensus Locus-specific chromosome binding protei	89.29
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	88.83
PRK03681	114	hypA hydrogenase nickel incorporation protein; Val	88.77
KOG1002	791	consensus Nucleotide excision repair protein RAD16	88.41
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	88.03
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	88.0
KOG3039	303	consensus Uncharacterized conserved protein [Funct	87.92
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	87.07
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	86.46
PF01155	113	HypA: Hydrogenase expression/synthesis hypA family	86.35
KOG4739	233	consensus Uncharacterized protein involved in syna	86.26
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	85.99
PRK04023	1121	DNA polymerase II large subunit; Validated	85.82
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	84.97
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	84.77
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	84.55
PRK00762	124	hypA hydrogenase nickel incorporation protein; Pro	84.11
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	83.56
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	83.54
PF09538	108	FYDLN_acid: Protein of unknown function (FYDLN_aci	83.25
COG0375	115	HybF Zn finger protein HypA/HybF (possibly regulat	82.53
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	82.11
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	81.81
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	81.8
KOG1001	674	consensus Helicase-like transcription factor HLTF/	81.58
PF12773	50	DZR: Double zinc ribbon	81.07
PRK14559	645	putative protein serine/threonine phosphatase; Pro	81.02
KOG3053	293	consensus Uncharacterized conserved protein [Funct	80.87
COG5222	427	Uncharacterized conserved protein, contains RING Z	80.3

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

Probab=100.00  E-value=2.8e-65  Score=461.04  Aligned_cols=237  Identities=53%  Similarity=1.090  Sum_probs=231.0

Q ss_pred             CccCCccccccceeecCcCCCeecCcchhhhhccCcCcCcCCCCCCCCcccceeecCCCCccccccccCcCCCCccceEe
Q 025507            2 ITCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYF   81 (251)
Q Consensus         2 ~~~gC~HY~r~c~i~~pcC~~~y~Cr~CHde~~~~~~~~~~~~H~~~r~~~~~v~C~~C~~~q~~~~~C~~Cg~~f~~y~   81 (251)
                      ..+||+||+|++++++|+|.+||+||+||+++         ++|+++|+.|.+|+|+.|+++|+++++|.+|+..+|+||
T Consensus        31 ~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s---------~~h~~~r~~v~~~~C~~C~~~q~~~~~c~~c~~~~g~~~  101 (276)
T KOG1940|consen   31 FPYGCPHYRRNCKSRAPCCDREITCRHCHNES---------EDHDLDRKTVYELLCMKCRKIQPVGQICSNCHVELGEYY  101 (276)
T ss_pred             cccCCchhhhccccccccccceeeeEEecChh---------hhcccchhhhhhhhhhhHHhhhhhhhccccchhhhhhhc
Confidence            35799999999999999999999999999997         599999999999999999999999999999999999999


Q ss_pred             cCccccccCCCCCCeeecCCCCcceecCCcceeeccCCCcceeccccccccccCCCCCCCCcchhhhcccCCceeEEcCC
Q 025507           82 CESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPC  161 (251)
Q Consensus        82 C~~C~~~d~~~~k~~~HC~~CgiCR~g~~~~~fHC~~C~~c~~~~l~~~H~C~e~~~~~~CpICle~lf~s~~~~~~lpC  161 (251)
                      |.+|+||||+++ .||||+.|||||+|++++||||++|+.|+++.+.++|+|+|++++.+||||.|++|++...+..|+|
T Consensus       102 c~~C~l~dd~~~-~~~hC~~C~icr~g~~~~~fhc~~c~~c~~~~~~~~H~c~e~~~~~ncPic~e~l~~s~~~~~~~~C  180 (276)
T KOG1940|consen  102 CLICKLFDDDPS-KQYHCDLCGICREGLGLDFFHCKKCKACLSAYLSNWHKCVERSSEFNCPICKEYLFLSFEDAGVLKC  180 (276)
T ss_pred             Cccccccccccc-ceeccccccccccccccchhHHhhhHhHHhhhcccccchhhhcccCCCchhHHHhccccccCCccCc
Confidence            999999999989 9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHhcCCCCCCCCCcCccchhHHHHHHHHHHhcCCCCHhhhcCceeEEcCCCCCCccccceeeeccCCCC
Q 025507          162 GHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNC  241 (251)
Q Consensus       162 gH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~ld~~i~~~p~P~e~~~~~~~IlCndC~~~s~~~~h~lg~kC~~C  241 (251)
                      ||.+|..|++++...+ |+||+|.+ +.||+.+|+.+|.+|+++|||++|++++++|+||||+..++++||||++||+.|
T Consensus       181 gH~~h~~cf~e~~~~~-y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y~~~~~~i~cndC~~~~~~k~~~l~~kc~~c  258 (276)
T KOG1940|consen  181 GHYMHSRCFEEMICEG-YTCPICSK-PGDMSHYFRKLDKELAGSPMPEEYKNKTQDILCNDCGSGTNVKYHILYHKCGKC  258 (276)
T ss_pred             ccchHHHHHHHHhccC-CCCCcccc-hHHHHHHHHHHHHHHhcCCCCchhhchhheeeccCCCCCCccceehhhhhCCCc
Confidence            9999999999998866 99999999 999999999999999999999999999999999999999999999999999999


Q ss_pred             CCccccccC
Q 025507          242 KSYNTRLTR  250 (251)
Q Consensus       242 ~SyNT~~~~  250 (251)
                      +|||||+++
T Consensus       259 ~~~~~r~~~  267 (276)
T KOG1940|consen  259 GSYNTRMIS  267 (276)
T ss_pred             ccceeeecc
Confidence            999999985

>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A

Probab=99.93  E-value=8.9e-28  Score=172.32  Aligned_cols=61  Identities=66%  Similarity=1.160  Sum_probs=22.5

Q ss_pred             ccchhHHHHHHHHHHhcCCCCHhhhcCceeEEcCCCCCCccccceeeeccCCCCCCccccc
Q 025507          188 VCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRL  248 (251)
Q Consensus       188 ~~~~~~~~~~ld~~i~~~p~P~e~~~~~~~IlCndC~~~s~~~~h~lg~kC~~C~SyNT~~  248 (251)
                      +.||+..|+.||++|+++|||++|++++++|+||||+++|+++||||||||++|+||||+|
T Consensus         1 v~dM~~~w~~LD~~i~~~pmP~~Y~~~~v~IlCNDC~~~s~v~fH~lg~KC~~C~SYNT~q   61 (61)
T PF14599_consen    1 VVDMSAYWRMLDAEIAATPMPEEYRNKKVWILCNDCNAKSEVPFHFLGHKCSHCGSYNTRQ   61 (61)
T ss_dssp             ---------------------------EEEEEESSS--EEEEE--TT----TTTS---EEE
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHhCCEEEEECCCCCCccceeeeHhhhcCCCCCCcccCC
Confidence            4689999999999999999999999999999999999999999999999999999999996

>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.89  E-value=2.1e-24  Score=159.56  Aligned_cols=70  Identities=46%  Similarity=1.125  Sum_probs=53.4

Q ss_pred             Ccccccc-ceeecCcCCCeecCcchhhhhccCcCcCcCCCCCCCCcccceeecCCCCccccccccCcCCCCccceEecCc
Q 025507            6 CQHYRRR-CRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYFCES   84 (251)
Q Consensus         6 C~HY~r~-c~i~~pcC~~~y~Cr~CHde~~~~~~~~~~~~H~~~r~~~~~v~C~~C~~~q~~~~~C~~Cg~~f~~y~C~~   84 (251)
                      |+||+|+ |+|+||||++|||||+||||+         ++|+++|.++++|+||.|+++|++++.  +|+   |.|+|++
T Consensus         1 C~HY~~~~~~~~~~cC~~~y~C~~CHde~---------~~H~~~~~~~~~v~Cg~C~~~~~~~~~--~c~---~~~~C~~   66 (71)
T PF05495_consen    1 CKHYHRSLCAIRFPCCGKYYPCRFCHDEL---------EDHPFDRWPVKRVICGKCRTEQPIDEY--SCG---ADYFCPI   66 (71)
T ss_dssp             -SS---S-EEEEETTTTEEESSHHHHHHC---------SSS---TTT--EEEETTT--EEES-SB--TT-----SEEETT
T ss_pred             CCCCCCCcEEEECCcccCeecHHHHHHHh---------ccCccccccccCeECCCCCCccChhhh--hcC---CCccCcC
Confidence            8999999 999999999999999999998         599999999999999999999999877  777   9999999


Q ss_pred             ccccc
Q 025507           85 CKLFD   89 (251)
Q Consensus        85 C~~~d   89 (251)
                      |++||
T Consensus        67 C~~~~   71 (71)
T PF05495_consen   67 CGLYF   71 (71)
T ss_dssp             TTEEE
T ss_pred             cCCCC
Confidence            99986

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. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.

>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]

Probab=99.43  E-value=2.1e-14  Score=110.88  Aligned_cols=68  Identities=25%  Similarity=0.668  Sum_probs=59.0

Q ss_pred             ccCCccccc---cceeecCcCCCeecCcchhhhhccCcCcCcCCCCCC-----CCcccceeecCCCCccccc-----ccc
Q 025507            3 TCRCQHYRR---RCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDI-----PRHEVNQVICSLCGTEQKV-----QQV   69 (251)
Q Consensus         3 ~~gC~HY~r---~c~i~~pcC~~~y~Cr~CHde~~~~~~~~~~~~H~~-----~r~~~~~v~C~~C~~~q~~-----~~~   69 (251)
                      +.||.||+.   +++|+|.+|++||+|.+||||+         ++||+     +....+.|+||+|.+++..     ...
T Consensus        12 etRC~Hyht~~Diialkc~~C~kyYaCy~CHdel---------~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~EY~~~~~   82 (105)
T COG4357          12 ETRCLHYHTPLDIIALKCKCCQKYYACYHCHDEL---------EDHPFEPWGLQEFNPKAIICGVCRKLLTRAEYGMCGS   82 (105)
T ss_pred             cceeeEecCccceEeeeechhhhhhhHHHHHhHH---------hcCCCccCChhhcCCccEEhhhhhhhhhHHHHhhcCC
Confidence            579999999   6999999999999999999999         58886     4445678999999999864     467


Q ss_pred             CcCCCCccce
Q 025507           70 CVNCGVCMGE   79 (251)
Q Consensus        70 C~~Cg~~f~~   79 (251)
                      ||+|..+||.
T Consensus        83 Cp~C~spFNp   92 (105)
T COG4357          83 CPYCQSPFNP   92 (105)
T ss_pred             CCCcCCCCCc
Confidence            9999999984

>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=99.32  E-value=4.4e-13  Score=89.58  Aligned_cols=44  Identities=39%  Similarity=1.081  Sum_probs=36.7

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCC
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS  185 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr  185 (251)
                      ++||||+|.+.. ++.++.|+|||.||.+||.+|++. +.+||+||
T Consensus         1 d~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred             CCCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence            479999997544 567888999999999999999996 58999997

...

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

Probab=99.24  E-value=5.8e-12  Score=95.98  Aligned_cols=51  Identities=20%  Similarity=0.466  Sum_probs=40.9

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC--CCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~--~~~CP~Cr~~~~  189 (251)
                      ++++.||.|..  ..+.-+++...|+|.||.+||.+||++.  +.+||+||.++.
T Consensus        30 ~fdg~Cp~Ck~--Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   30 PFDGCCPDCKF--PGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             ccccCCCCccC--CCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            55778999984  4444566777999999999999999863  568999998765

>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=99.05  E-value=1.2e-10  Score=86.31  Aligned_cols=47  Identities=28%  Similarity=0.786  Sum_probs=35.7

Q ss_pred             CCCCCcchhhhcccC---------CceeEEcCCCCcccHHHHHHHHhcCCCCCCCCC
Q 025507          138 MHHDCPVCCEYLFET---------RQDVIVLPCGHTIHKNCLKEMREHHQYACPICS  185 (251)
Q Consensus       138 ~~~~CpICle~lf~s---------~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr  185 (251)
                      .+++|+||++.|.+.         ...++.++|||.||..||.+||+. +.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence            356799999977332         234566799999999999999985 46999998

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 ....

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

Probab=98.99  E-value=2e-10  Score=107.59  Aligned_cols=50  Identities=28%  Similarity=0.824  Sum_probs=44.4

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..|+||||+ |..++.++.|||+|.||..||++||......||+|+.++..
T Consensus       230 ~~CaIClEd-Y~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLED-YEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecc-cccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            699999996 77788999999999999999999998655669999998764

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

Probab=98.96  E-value=7.3e-10  Score=71.88  Aligned_cols=45  Identities=33%  Similarity=1.041  Sum_probs=36.9

Q ss_pred             CCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCc
Q 025507          141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV  188 (251)
Q Consensus       141 ~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~  188 (251)
                      .|+||++.+   ..++.+++|||.||..|+..|++..+.+||+|+..+
T Consensus         1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999965   235566679999999999999986568899999764

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

Probab=98.90  E-value=8.8e-10  Score=71.89  Aligned_cols=39  Identities=41%  Similarity=1.110  Sum_probs=32.4

Q ss_pred             CcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCC
Q 025507          142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC  184 (251)
Q Consensus       142 CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~C  184 (251)
                      ||||++.+.+   ++++++|||+|+.+|+.+|++. +.+||+|
T Consensus         1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccC---cCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            7999985433   6678999999999999999996 6899997

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.86  E-value=1.8e-09  Score=96.77  Aligned_cols=54  Identities=19%  Similarity=0.609  Sum_probs=42.1

Q ss_pred             CCCCCCCcchhhhcccCCc----eeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          136 GAMHHDCPVCCEYLFETRQ----DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~----~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .+.+.+||||+|.+.+...    -.++++|||.||.+||.+|++. +.+||+||.++..
T Consensus       171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~~  228 (238)
T PHA02929        171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFIS  228 (238)
T ss_pred             CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEeeE
Confidence            4556899999997654321    1245689999999999999984 6899999988764

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

Probab=98.85  E-value=2.1e-09  Score=71.72  Aligned_cols=39  Identities=41%  Similarity=1.233  Sum_probs=28.7

Q ss_pred             CcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC---CCCCCCC
Q 025507          142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH---QYACPIC  184 (251)
Q Consensus       142 CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~---~~~CP~C  184 (251)
                      ||||++ +|.   +++.|+|||+|+..||..|++..   .+.||+|
T Consensus         1 CpiC~~-~~~---~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLD-LFK---DPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTS-B-S---SEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccch-hhC---CccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999 455   47789999999999999988753   2579987

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

Probab=98.79  E-value=2.7e-09  Score=73.10  Aligned_cols=47  Identities=34%  Similarity=0.982  Sum_probs=37.9

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..|+||++.    ...++++||||. |+..|+..|++ ...+||+||+++.+
T Consensus         2 ~~~C~iC~~~----~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFEN----PRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSS----BSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-SE
T ss_pred             cCCCccCCcc----CCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhcC
Confidence            3579999984    235778899999 99999999998 56899999998764

...

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

Probab=98.79  E-value=2e-09  Score=100.99  Aligned_cols=55  Identities=36%  Similarity=0.821  Sum_probs=46.5

Q ss_pred             CCCCCCCcchhhhcccCC---------ceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCc-cch
Q 025507          136 GAMHHDCPVCCEYLFETR---------QDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV-CDM  191 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~---------~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~-~~~  191 (251)
                      .+.+..|.||+|.|+.++         ..+..|||||.+|.+|++.|+++ +.+||+||.++ .|+
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~ifd~  348 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPVIFDQ  348 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcccccc
Confidence            567889999999988766         34578999999999999999995 58999999994 454

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

Probab=98.77  E-value=1.2e-09  Score=81.56  Aligned_cols=51  Identities=24%  Similarity=0.484  Sum_probs=39.6

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC--CCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~--~~~CP~Cr~~~~  189 (251)
                      ++++.||-|.  +..+.-++++-.|.|.||..||.+|+...  +..||+||.++.
T Consensus        29 ~Fdg~Cp~Ck--~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   29 PFDGCCPDCK--LPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccCCcCCCCc--CCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            5678899998  45555555555899999999999999753  456999998764

>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=98.74  E-value=6.4e-09  Score=68.00  Aligned_cols=40  Identities=43%  Similarity=1.116  Sum_probs=33.1

Q ss_pred             CcchhhhcccCCceeEEcCCCCcccHHHHHHHHh-cCCCCCCCC
Q 025507          142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE-HHQYACPIC  184 (251)
Q Consensus       142 CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~-~~~~~CP~C  184 (251)
                      ||||++.+.+   +..+++|||.|+..|+.+|++ .....||+|
T Consensus         1 C~iC~~~~~~---~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFED---PVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSS---EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccC---CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            7999985332   446899999999999999998 566889998

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 ....

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

Probab=98.73  E-value=6.9e-09  Score=78.06  Aligned_cols=50  Identities=20%  Similarity=0.458  Sum_probs=38.3

Q ss_pred             CCCCcchhhhcccCCc-eeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQ-DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~-~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .+.||-|+-.+..+.+ +++.-.|.|.||.+||..||.+ +..||++|+++.
T Consensus        31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~   81 (88)
T COG5194          31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWV   81 (88)
T ss_pred             cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeE
Confidence            5678888754433333 3444589999999999999995 689999998875

>smart00184 RING Ring finger

Probab=98.67  E-value=1.6e-08  Score=63.22  Aligned_cols=39  Identities=44%  Similarity=1.130  Sum_probs=32.9

Q ss_pred             CcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCC
Q 025507          142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC  184 (251)
Q Consensus       142 CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~C  184 (251)
                      |+||++.    ...++.++|||.||.+|++.|++....+||+|
T Consensus         1 C~iC~~~----~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEE----LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccC----CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899985    34677889999999999999998556789987

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)

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

Probab=98.67  E-value=1.3e-08  Score=93.50  Aligned_cols=56  Identities=27%  Similarity=0.655  Sum_probs=46.2

Q ss_pred             cCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          134 VEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       134 ~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +|.....+|+|||++ |...+.+++|||.|.||..|+++|+...+.+||+||.++..
T Consensus       318 ~ea~~GveCaICms~-fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         318 VEADKGVECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             HhcCCCceEEEEhhh-hcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            344556799999997 45566799999999999999999998556789999987653

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.64  E-value=2.6e-08  Score=66.65  Aligned_cols=44  Identities=32%  Similarity=0.839  Sum_probs=36.8

Q ss_pred             CCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCc
Q 025507          141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK  186 (251)
Q Consensus       141 ~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~  186 (251)
                      .|+||++.+ ++...+++++|||+|+.+|+..+. .....||+||+
T Consensus         1 ~C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKY-SEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccc-cCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            489999965 555568889999999999999998 34578999985

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

Probab=98.63  E-value=2e-08  Score=67.44  Aligned_cols=40  Identities=38%  Similarity=1.053  Sum_probs=24.5

Q ss_pred             CcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC---CCCCC
Q 025507          142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH---QYACP  182 (251)
Q Consensus       142 CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~---~~~CP  182 (251)
                      ||||+| +.+...++++|+|||+|..+|++.+++.+   .++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 55656678899999999999999998853   45677

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.58  E-value=5e-08  Score=84.87  Aligned_cols=56  Identities=25%  Similarity=0.623  Sum_probs=42.5

Q ss_pred             ccccCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc---------------CCCCCCCCCcCccc
Q 025507          131 HPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH---------------HQYACPICSKSVCD  190 (251)
Q Consensus       131 H~C~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~---------------~~~~CP~Cr~~~~~  190 (251)
                      -+-++...+..||||+|. +.   ++++++|||.|+..||..|+..               ...+||+||..+..
T Consensus        10 ~~~~~~~~~~~CpICld~-~~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         10 TTLVDSGGDFDCNICLDQ-VR---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             ceeccCCCccCCccCCCc-CC---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            344444567899999995 33   3567899999999999999852               23579999998863

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

Probab=98.45  E-value=9.1e-08  Score=91.72  Aligned_cols=80  Identities=28%  Similarity=0.681  Sum_probs=65.3

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccchhHHHHHHHHHHhcCCCCHhhhcCceeEE
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWIL  219 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~ld~~i~~~p~P~e~~~~~~~Il  219 (251)
                      -.||||||.|-.+...++...|.|+||-.|+..|..   .+||+||....                |.+.      ..-+
T Consensus       176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q~----------------p~~v------e~~~  230 (493)
T KOG0804|consen  176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQS----------------PSVV------ESSL  230 (493)
T ss_pred             CCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhhhcC----------------cchh------hhhh
Confidence            589999999999988889999999999999999954   68999994332                1111      2346


Q ss_pred             cCCCCCCccccceeeeccCC--CCCCcccc
Q 025507          220 CNDCGKTSNVQFHVLAQKCP--NCKSYNTR  247 (251)
Q Consensus       220 CndC~~~s~~~~h~lg~kC~--~C~SyNT~  247 (251)
                      |..|+...++   |+-+.|+  +||.|+-.
T Consensus       231 c~~c~~~~~L---wicliCg~vgcgrY~eg  257 (493)
T KOG0804|consen  231 CLACGCTEDL---WICLICGNVGCGRYKEG  257 (493)
T ss_pred             hhhhcccccE---EEEEEccceecccccch
Confidence            9999999888   9999998  59999864

>PHA02926 zinc finger-like protein; Provisional

Probab=98.43  E-value=1.4e-07  Score=83.52  Aligned_cols=56  Identities=20%  Similarity=0.536  Sum_probs=41.8

Q ss_pred             CCCCCCCCcchhhhcccC-----CceeEEcCCCCcccHHHHHHHHhcC-----CCCCCCCCcCccc
Q 025507          135 EGAMHHDCPVCCEYLFET-----RQDVIVLPCGHTIHKNCLKEMREHH-----QYACPICSKSVCD  190 (251)
Q Consensus       135 e~~~~~~CpICle~lf~s-----~~~~~~lpCgH~fH~~Ci~~wl~~~-----~~~CP~Cr~~~~~  190 (251)
                      ..+.+..|+||||.+++.     +...++.+|+|.||..||..|.+..     ..+||+||..+..
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            356688999999976542     1223455999999999999998742     2459999987753

>smart00504 Ubox Modified RING finger domain

Probab=98.24  E-value=1.3e-06  Score=61.64  Aligned_cols=45  Identities=18%  Similarity=0.438  Sum_probs=37.9

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ..||||++. ++.   +++++|||+|.++||.+|++. +.+||+|++++.
T Consensus         2 ~~Cpi~~~~-~~~---Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEV-MKD---PVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCc-CCC---CEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCC
Confidence            469999994 442   467899999999999999985 678999998874

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

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

Probab=98.15  E-value=6.7e-07  Score=88.74  Aligned_cols=54  Identities=31%  Similarity=0.660  Sum_probs=43.8

Q ss_pred             CCCCCCCCcchhhhcccCCc-eeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          135 EGAMHHDCPVCCEYLFETRQ-DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       135 e~~~~~~CpICle~lf~s~~-~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +...+..|+||+|.|..+.. .+..|||||.||.+|+..|++. ..+||+||..+.
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~  341 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLY  341 (543)
T ss_pred             hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhh
Confidence            34568899999998877432 2457899999999999999996 689999998443

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

Probab=98.07  E-value=2.4e-06  Score=73.42  Aligned_cols=48  Identities=25%  Similarity=0.754  Sum_probs=38.3

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      -..|||||+.. . .+.++...|||.|+.+||+..++. ...||+|++-+.
T Consensus       131 ~~~CPiCl~~~-s-ek~~vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt  178 (187)
T KOG0320|consen  131 TYKCPICLDSV-S-EKVPVSTKCGHVFCSQCIKDALKN-TNKCPTCRKKIT  178 (187)
T ss_pred             ccCCCceecch-h-hccccccccchhHHHHHHHHHHHh-CCCCCCcccccc
Confidence            37899999963 2 233356799999999999999985 579999998654

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

Probab=98.05  E-value=1.9e-06  Score=78.82  Aligned_cols=47  Identities=28%  Similarity=0.718  Sum_probs=38.6

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ...|.+|||.    +..+...||||.|+..||.+|... ..-||+||..+..
T Consensus       239 ~~kC~LCLe~----~~~pSaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~p  285 (293)
T KOG0317|consen  239 TRKCSLCLEN----RSNPSATPCGHIFCWSCILEWCSE-KAECPLCREKFQP  285 (293)
T ss_pred             CCceEEEecC----CCCCCcCcCcchHHHHHHHHHHcc-ccCCCcccccCCC
Confidence            3579999994    334568899999999999999985 4679999987754

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

Probab=97.96  E-value=1.4e-05  Score=69.10  Aligned_cols=44  Identities=39%  Similarity=1.050  Sum_probs=37.2

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK  186 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~  186 (251)
                      ....||||+++ |..+   ++|||||+|+..|+..++. ....||.||.
T Consensus        12 ~~~~C~iC~~~-~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen   12 EELTCPICLEY-FREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             ccccChhhHHH-hhcC---ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            46789999996 4433   7899999999999999887 5688999994

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

Probab=97.95  E-value=6.9e-06  Score=56.49  Aligned_cols=43  Identities=28%  Similarity=0.724  Sum_probs=33.5

Q ss_pred             CCcchhhhcccCCceeEEcCCC-----CcccHHHHHHHHhcC-CCCCCCCC
Q 025507          141 DCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICS  185 (251)
Q Consensus       141 ~CpICle~lf~s~~~~~~lpCg-----H~fH~~Ci~~wl~~~-~~~CP~Cr  185 (251)
                      .|-||++  +.+...+.+.||.     |.+|..|+.+|+... +.+||+|+
T Consensus         1 ~CrIC~~--~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD--EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC--CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            3789997  3344566788995     999999999999753 45799995

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=97.93  E-value=1e-05  Score=77.61  Aligned_cols=46  Identities=24%  Similarity=0.699  Sum_probs=38.3

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ...|+||++. +.   .+++++|||.|+..||..|+.. ...||+|+..+.
T Consensus        26 ~l~C~IC~d~-~~---~PvitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~   71 (397)
T TIGR00599        26 SLRCHICKDF-FD---VPVLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQ   71 (397)
T ss_pred             ccCCCcCchh-hh---CccCCCCCCchhHHHHHHHHhC-CCCCCCCCCccc
Confidence            5699999995 44   2457899999999999999985 468999998875

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

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

Probab=97.89  E-value=2.8e-06  Score=67.01  Aligned_cols=33  Identities=24%  Similarity=0.509  Sum_probs=28.2

Q ss_pred             eEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          156 VIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       156 ~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +..--|.|+||..||..||++ +..||++.++..
T Consensus        76 VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~eW~  108 (114)
T KOG2930|consen   76 VAWGVCNHAFHFHCISRWLKT-RNVCPLDNKEWV  108 (114)
T ss_pred             EEeeecchHHHHHHHHHHHhh-cCcCCCcCccee
Confidence            344589999999999999995 689999998765

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

Probab=97.87  E-value=8.6e-06  Score=72.48  Aligned_cols=50  Identities=28%  Similarity=0.650  Sum_probs=38.0

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC--CCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~--~~~CP~Cr~~~~~  190 (251)
                      ...-+|-||||. .  . ++++..|||.|+.-||-+||...  ...||+|+..+..
T Consensus        45 ~~~FdCNICLd~-a--k-dPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   45 GGFFDCNICLDL-A--K-DPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CCceeeeeeccc-c--C-CCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            445799999983 2  2 34555699999999999999863  3458999987763

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.83  E-value=1.6e-05  Score=73.88  Aligned_cols=51  Identities=24%  Similarity=0.576  Sum_probs=39.0

Q ss_pred             CCCCcchhhhcccCCcee-EEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDV-IVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~-~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +..||||+.+...++.-. ++-+|||.|+..|++.++..+...||+|++++.
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr   54 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR   54 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence            357999998655554422 233799999999999977666678999998775

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

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

Probab=97.67  E-value=9.2e-06  Score=59.82  Aligned_cols=51  Identities=27%  Similarity=0.653  Sum_probs=23.3

Q ss_pred             CCCCcchhhhcccCC-ceeEEc---CCCCcccHHHHHHHHhc--CC--------CCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETR-QDVIVL---PCGHTIHKNCLKEMREH--HQ--------YACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~-~~~~~l---pCgH~fH~~Ci~~wl~~--~~--------~~CP~Cr~~~~  189 (251)
                      +.+|+||.+++.+.+ .+.++-   .|+..||..||.+|+..  ++        -.||.|++++.
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            458999998765333 233332   69999999999999864  11        14999998774

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

Probab=97.61  E-value=0.0001  Score=54.41  Aligned_cols=48  Identities=25%  Similarity=0.551  Sum_probs=36.3

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..|||..+ ++.   +++++|+||+|-+.+|..|+.....+||+++..+..
T Consensus         4 ~f~CpIt~~-lM~---dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    4 EFLCPITGE-LMR---DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGB-TTTSS-B-S---SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             ccCCcCcCc-Hhh---CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            357999998 454   467889999999999999999757899999988764

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 ....

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

Probab=97.52  E-value=5.6e-05  Score=73.88  Aligned_cols=48  Identities=25%  Similarity=0.650  Sum_probs=36.3

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC----CCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH----QYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~----~~~CP~Cr~~~~  189 (251)
                      ++..|||||++ +.   -++.+.|||.|+..||..+|..+    --.||+|+..+.
T Consensus       185 t~~~CPICL~~-~~---~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~  236 (513)
T KOG2164|consen  185 TDMQCPICLEP-PS---VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTIT  236 (513)
T ss_pred             cCCcCCcccCC-CC---cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcc
Confidence            37899999985 22   23344599999999999977643    246999998775

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

Probab=97.48  E-value=4.5e-05  Score=74.35  Aligned_cols=51  Identities=25%  Similarity=0.717  Sum_probs=38.4

Q ss_pred             CCCCcchhhhccc----C---------CceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFE----T---------RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~----s---------~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ..+|+|||.++.-    +         .+..++.||.|.||..|++.|+......||+||.++.
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            3589999975411    0         1235566999999999999999855568999998765

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

Probab=97.45  E-value=9.5e-05  Score=69.34  Aligned_cols=46  Identities=30%  Similarity=0.823  Sum_probs=39.3

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..|-||.|+ |.   .+++.||||+|+.-||..+|.. +..||.|+.++..
T Consensus        24 LRC~IC~ey-f~---ip~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   24 LRCGICFEY-FN---IPMITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTE   69 (442)
T ss_pred             HHHhHHHHH-hc---CceeccccchHHHHHHHHHhcc-CCCCCceecccch
Confidence            479999996 54   4678899999999999999984 6899999988863

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

Probab=97.42  E-value=3e-05  Score=54.67  Aligned_cols=53  Identities=26%  Similarity=0.674  Sum_probs=40.4

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccchhHH
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDMSKV  194 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~  194 (251)
                      ...+|.||+|.    +.+.++.-|||. ++-+|-.+.++...-.||+||.++.++-..
T Consensus         6 ~~dECTICye~----pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkT   59 (62)
T KOG4172|consen    6 WSDECTICYEH----PVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKT   59 (62)
T ss_pred             cccceeeeccC----cchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHh
Confidence            34799999984    223455689998 899998887665678999999988775433

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

Probab=97.26  E-value=0.00013  Score=69.46  Aligned_cols=46  Identities=28%  Similarity=0.692  Sum_probs=37.6

Q ss_pred             CCCCcchhhhcccCCceeEEc-CCCCcccHHHHHHHHhcC--CCCCCCCC
Q 025507          139 HHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHH--QYACPICS  185 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~l-pCgH~fH~~Ci~~wl~~~--~~~CP~Cr  185 (251)
                      ...|.|| ++++.....+..+ .|||.||..|+.+|+...  +..||+|+
T Consensus         4 ~A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    4 MAECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             cceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            4579999 5578777777666 499999999999999863  35799999

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

Probab=97.24  E-value=0.00015  Score=65.84  Aligned_cols=47  Identities=28%  Similarity=0.582  Sum_probs=36.7

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHH-HHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKE-MREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~-wl~~~~~~CP~Cr~~~~  189 (251)
                      +..|+||+|.    ...+...+|||.|+..||.. |-......||+||.-+.
T Consensus       215 d~kC~lC~e~----~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         215 DYKCFLCLEE----PEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             ccceeeeecc----cCCcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence            5579999984    33466789999999999999 87644344999996554

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

Probab=97.00  E-value=0.00034  Score=50.91  Aligned_cols=55  Identities=24%  Similarity=0.619  Sum_probs=26.4

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc--chhHHHHHHHHH
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC--DMSKVWEKYDRE  201 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~--~~~~~~~~ld~~  201 (251)
                      ..|++|.+.|..   ++.+..|.|.|+..|+.+-+.   ..||+|+.+.-  |+. ..+.+|..
T Consensus         8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~-~NrqLd~~   64 (65)
T PF14835_consen    8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQ-INRQLDSM   64 (65)
T ss_dssp             TS-SSS-S--SS----B---SSS--B-TTTGGGGTT---TB-SSS--B-S-SS-----HHHHHH
T ss_pred             cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHH-hhhhhhcc
Confidence            479999986433   566779999999999998765   45999998873  432 23445544

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

Probab=96.90  E-value=0.00025  Score=66.99  Aligned_cols=80  Identities=20%  Similarity=0.474  Sum_probs=51.3

Q ss_pred             CCCCCCCcchhhhcccCC---ceeEE-cCCCCcccHHHHHHHHhcC------CCCCCCCCcCccch--hHHHHHHHHHHh
Q 025507          136 GAMHHDCPVCCEYLFETR---QDVIV-LPCGHTIHKNCLKEMREHH------QYACPICSKSVCDM--SKVWEKYDREIA  203 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~---~~~~~-lpCgH~fH~~Ci~~wl~~~------~~~CP~Cr~~~~~~--~~~~~~ld~~i~  203 (251)
                      ++.+..|.||||.+.+..   ....+ ++|.|.|+..||..|.+..      ...||+||......  +..|-.-.+  +
T Consensus       158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~Wv~t~~--~  235 (344)
T KOG1039|consen  158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFWVETKE--E  235 (344)
T ss_pred             ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccceeeeecc--c
Confidence            356789999999765533   11223 4699999999999998543      36799999776532  223432211  4


Q ss_pred             cCCCCHhhhcCcee
Q 025507          204 ATPMPEAYLNKKVW  217 (251)
Q Consensus       204 ~~p~P~e~~~~~~~  217 (251)
                      .++++++|...+..
T Consensus       236 k~~li~e~~~~~s~  249 (344)
T KOG1039|consen  236 KQKLIEEYEAEMSA  249 (344)
T ss_pred             ccccHHHHHHHhhc
Confidence            55566666655443

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

Probab=96.85  E-value=0.00074  Score=46.43  Aligned_cols=47  Identities=34%  Similarity=0.699  Sum_probs=25.0

Q ss_pred             CcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCc
Q 025507          142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV  188 (251)
Q Consensus       142 CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~  188 (251)
                      ||+|.|.|..++.....=+||+.+++.|+..-++..+.+||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            79999988444443333367999999999999875578999999864

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

Probab=96.84  E-value=0.0007  Score=62.53  Aligned_cols=46  Identities=26%  Similarity=0.618  Sum_probs=37.9

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ...|-||-+++ .   .+...+|||+|+.-||..+|. .+..||+||.+..
T Consensus        25 ~lrC~IC~~~i-~---ip~~TtCgHtFCslCIR~hL~-~qp~CP~Cr~~~~   70 (391)
T COG5432          25 MLRCRICDCRI-S---IPCETTCGHTFCSLCIRRHLG-TQPFCPVCREDPC   70 (391)
T ss_pred             HHHhhhhhhee-e---cceecccccchhHHHHHHHhc-CCCCCccccccHH
Confidence            35799999853 3   356779999999999999998 4689999997764

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

Probab=96.73  E-value=0.001  Score=62.72  Aligned_cols=49  Identities=31%  Similarity=0.811  Sum_probs=39.2

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ....+|.|||..    .++.++|||-|. ++..|.+...- ....|||||.++..
T Consensus       288 ~~gkeCVIClse----~rdt~vLPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSE----SRDTVVLPCRHLCLCSGCAKSLRY-QTNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecC----CcceEEecchhhehhHhHHHHHHH-hhcCCCccccchHh
Confidence            335699999974    446889999998 99999999753 34689999988764

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

Probab=96.66  E-value=0.00048  Score=62.92  Aligned_cols=52  Identities=23%  Similarity=0.557  Sum_probs=40.2

Q ss_pred             CCCCCcchhhhcccCC------ceeEEcCCCCcccHHHHHHHHh-cCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETR------QDVIVLPCGHTIHKNCLKEMRE-HHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~------~~~~~lpCgH~fH~~Ci~~wl~-~~~~~CP~Cr~~~~  189 (251)
                      .++.|+||...+..+.      +..-.|.|+|.||.-||.-|-- ....+||-|++.+.
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            4578999998765544      2445789999999999999943 35688999997654

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

Probab=96.65  E-value=0.00048  Score=64.91  Aligned_cols=48  Identities=23%  Similarity=0.568  Sum_probs=40.1

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +..|||||+-|..   ...+.-|+|.|+.+||..-++.++..||.||+.+.
T Consensus        43 ~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~   90 (381)
T KOG0311|consen   43 QVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV   90 (381)
T ss_pred             hhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence            5689999994433   34567899999999999988888899999999876

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

Probab=96.54  E-value=0.00072  Score=68.83  Aligned_cols=47  Identities=28%  Similarity=0.721  Sum_probs=40.5

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..||+|-.    ...+.++..|||.|+.+|+++.+.....+||.|..+|+.
T Consensus       644 LkCs~Cn~----R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  644 LKCSVCNT----RWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             eeCCCccC----chhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            57999985    445677889999999999999988778899999999974

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

Probab=96.35  E-value=0.0028  Score=44.95  Aligned_cols=44  Identities=27%  Similarity=0.619  Sum_probs=29.1

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-CCCCCCC
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPI  183 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-~~~~CP~  183 (251)
                      .....|||-+.. +.  +++....|||+|-++.|.+||+. ....||+
T Consensus         9 ~~~~~CPiT~~~-~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQP-FE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB--S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCCh-hh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            345789999985 43  36777899999999999999943 4567998

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

Probab=96.21  E-value=0.0013  Score=62.90  Aligned_cols=56  Identities=36%  Similarity=0.744  Sum_probs=45.7

Q ss_pred             ccccCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-CCCCCCCCCcC
Q 025507          131 HPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKS  187 (251)
Q Consensus       131 H~C~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-~~~~CP~Cr~~  187 (251)
                      |.|++ +++-.|-.|.|.+-..++....|||.|.||..|+.++|.. ...+||-||+-
T Consensus       358 ~~~~~-e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  358 HECVE-ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             HHHHH-HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            56664 4678999999987777777888999999999999998764 44679999943

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

Probab=96.17  E-value=0.0027  Score=58.80  Aligned_cols=50  Identities=18%  Similarity=0.429  Sum_probs=39.7

Q ss_pred             CCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          136 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +.+..+|+||+...    .-++.|+|+|.|+..||+--.+.+...||+||.++.
T Consensus         4 ~~~~~eC~IC~nt~----n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid   53 (324)
T KOG0824|consen    4 RTKKKECLICYNTG----NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID   53 (324)
T ss_pred             cccCCcceeeeccC----CcCccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence            34577999999742    234789999999999999855545677999999886

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

Probab=95.98  E-value=0.0056  Score=56.12  Aligned_cols=53  Identities=26%  Similarity=0.668  Sum_probs=41.1

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-CCCCCCCCCcCccchh
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKSVCDMS  192 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-~~~~CP~Cr~~~~~~~  192 (251)
                      +.+.+||+|.|+   +..|.+..+|||.++--|+..-... ..++||.|+.++..+.
T Consensus       237 t~~~~C~~Cg~~---PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq  290 (298)
T KOG2879|consen  237 TSDTECPVCGEP---PTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ  290 (298)
T ss_pred             cCCceeeccCCC---CCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence            456799999985   4456677799999999999984332 3589999998877653

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

Probab=95.97  E-value=0.0022  Score=61.57  Aligned_cols=54  Identities=30%  Similarity=0.765  Sum_probs=42.9

Q ss_pred             cccCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC-CCCCCCCCcCcc
Q 025507          132 PCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-QYACPICSKSVC  189 (251)
Q Consensus       132 ~C~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~-~~~CP~Cr~~~~  189 (251)
                      .|.-+++-..|-||-|    +.+++.+=||||.++..|+..|-.++ ...||.||-.+.
T Consensus       362 YceMgsTFeLCKICae----ndKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  362 YCEMGSTFELCKICAE----NDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHccchHHHHHHhhc----cCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            3555667788999998    45567788999999999999996443 578999996653

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

Probab=95.86  E-value=0.0042  Score=65.01  Aligned_cols=53  Identities=21%  Similarity=0.570  Sum_probs=37.7

Q ss_pred             CCCCCCcchhhhcc--cCCcee-EEcCCCCcccHHHHHHHHhc-CCCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLF--ETRQDV-IVLPCGHTIHKNCLKEMREH-HQYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf--~s~~~~-~~lpCgH~fH~~Ci~~wl~~-~~~~CP~Cr~~~~  189 (251)
                      +...+||||..-|.  +..-|. +-..|.|.||..|+-+|+++ ++.+||+||.++.
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            55789999986432  111111 12358899999999999876 4678999997764

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

Probab=95.62  E-value=0.0066  Score=41.30  Aligned_cols=41  Identities=29%  Similarity=0.752  Sum_probs=26.3

Q ss_pred             CcchhhhcccCCceeEEcCCC-----CcccHHHHHHHHhc-CCCCCCCC
Q 025507          142 CPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREH-HQYACPIC  184 (251)
Q Consensus       142 CpICle~lf~s~~~~~~lpCg-----H~fH~~Ci~~wl~~-~~~~CP~C  184 (251)
                      |-||++...++  +..+.||+     -..|.+||..|+.. ++.+|++|
T Consensus         1 CrIC~~~~~~~--~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEED--EPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSS--S-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCC--CceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            45888753332  35667885     46899999999875 45679987

>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional

Probab=95.49  E-value=0.012  Score=42.13  Aligned_cols=47  Identities=36%  Similarity=0.861  Sum_probs=33.6

Q ss_pred             cceeecCCCCcccc-----ccccCcCCCCccceEecCccccccCCCCCCeeecCCCCc
Q 025507           52 VNQVICSLCGTEQK-----VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI  104 (251)
Q Consensus        52 ~~~v~C~~C~~~q~-----~~~~C~~Cg~~f~~y~C~~C~~~d~~~~k~~~HC~~Cgi  104 (251)
                      .....|..|+.+..     +.-.|||||.. -=|-|.+|+-+.     ..|.|++||+
T Consensus         5 ~~~~~CtSCg~~i~~~~~~~~F~CPnCG~~-~I~RC~~CRk~~-----~~Y~CP~CGF   56 (59)
T PRK14890          5 MEPPKCTSCGIEIAPREKAVKFLCPNCGEV-IIYRCEKCRKQS-----NPYTCPKCGF   56 (59)
T ss_pred             ccCccccCCCCcccCCCccCEeeCCCCCCe-eEeechhHHhcC-----CceECCCCCC
Confidence            34567889987764     23479999985 124489998765     4799999985

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

Probab=95.34  E-value=0.006  Score=62.73  Aligned_cols=50  Identities=14%  Similarity=0.369  Sum_probs=39.5

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ....||+|+.. +.........+|+|.||.+||..|-+. ..+||++|+.|.
T Consensus       122 ~~~~CP~Ci~s-~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  122 VENQCPNCLKS-CNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhhHHHHH-HHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhh
Confidence            35689999974 443433445689999999999999874 479999999886

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

Probab=95.14  E-value=0.024  Score=54.64  Aligned_cols=50  Identities=24%  Similarity=0.737  Sum_probs=38.2

Q ss_pred             CCCCcchhhhcccCC-ceeEEcCCCCcccHHHHHHHHhc-CCCCCCCCCcCc
Q 025507          139 HHDCPVCCEYLFETR-QDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKSV  188 (251)
Q Consensus       139 ~~~CpICle~lf~s~-~~~~~lpCgH~fH~~Ci~~wl~~-~~~~CP~Cr~~~  188 (251)
                      ...|||||+..-.++ ...+.|.|||.|=..||+.||.. ...+||.|....
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            358999998765444 34567899999999999999952 235699999554

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

Probab=94.71  E-value=0.031  Score=61.02  Aligned_cols=74  Identities=27%  Similarity=0.577  Sum_probs=53.5

Q ss_pred             cCCcceeeccCCCcceeccccccccccCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc---------CC
Q 025507          108 GGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH---------HQ  178 (251)
Q Consensus       108 g~~~~~fHC~~C~~c~~~~l~~~H~C~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~---------~~  178 (251)
                      ||.+|-.||.-|-.|-.-..       ....++.|.||+-+ ..+..+...|.|||.||.+|....|..         +-
T Consensus      3462 GGvkNEE~CLPCl~Cdks~t-------kQD~DDmCmICFTE-~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~F 3533 (3738)
T KOG1428|consen 3462 GGVKNEEHCLPCLHCDKSAT-------KQDADDMCMICFTE-ALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGF 3533 (3738)
T ss_pred             cCccchhhcccccccChhhh-------hcccCceEEEEehh-hhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEee
Confidence            56678888888877754322       22457789999964 334557788999999999999876653         12


Q ss_pred             CCCCCCCcCcc
Q 025507          179 YACPICSKSVC  189 (251)
Q Consensus       179 ~~CP~Cr~~~~  189 (251)
                      .+||+|...+.
T Consensus      3534 isCPiC~n~In 3544 (3738)
T KOG1428|consen 3534 ISCPICKNKIN 3544 (3738)
T ss_pred             eecccccchhh
Confidence            46999998765

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

Probab=94.60  E-value=0.037  Score=53.44  Aligned_cols=49  Identities=27%  Similarity=0.756  Sum_probs=39.1

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..+..|.||+.- +-   +++++||||+|+..||..-+. ...-||+||..+..
T Consensus        82 ~sef~c~vc~~~-l~---~pv~tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRA-LY---PPVVTPCGHSFCLECLDRSLD-QETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhh-cC---CCccccccccccHHHHHHHhc-cCCCCccccccccc
Confidence            557799999984 43   355669999999999999766 45779999988874

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

Probab=94.51  E-value=0.035  Score=50.70  Aligned_cols=49  Identities=31%  Similarity=0.707  Sum_probs=38.2

Q ss_pred             CCCcchhhhcccC--CceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCc
Q 025507          140 HDCPVCCEYLFET--RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV  188 (251)
Q Consensus       140 ~~CpICle~lf~s--~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~  188 (251)
                      ..|-||-+++...  ...+..|.|||+|...|+...+......||.||.+.
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            3577888764332  234567899999999999999987777799999985

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.39  E-value=0.013  Score=55.35  Aligned_cols=57  Identities=26%  Similarity=0.604  Sum_probs=44.3

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccchhHHH
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVW  195 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~  195 (251)
                      ++-||.|+|+|-.+......-|||-.+++-|+....+.-+-+||-||+...+-+..|
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~   70 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRY   70 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeE
Confidence            345999999987776666666899999999988876655678999999887644333

>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=94.38  E-value=0.019  Score=44.05  Aligned_cols=33  Identities=36%  Similarity=0.850  Sum_probs=27.2

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHH
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLK  171 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~  171 (251)
                      ..+..|+||...|..  ....+.||||.||..|++
T Consensus        76 ~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence            446789999998766  367788999999999975

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 [].

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.23  E-value=0.02  Score=40.45  Aligned_cols=33  Identities=39%  Similarity=0.785  Sum_probs=26.5

Q ss_pred             eeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          155 DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       155 ~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .-.++||||.+...|+.-+--   .-||+|.+++..
T Consensus        19 ~~~~~pCgH~I~~~~f~~~rY---ngCPfC~~~~~~   51 (55)
T PF14447_consen   19 KGTVLPCGHLICDNCFPGERY---NGCPFCGTPFEF   51 (55)
T ss_pred             ccccccccceeeccccChhhc---cCCCCCCCcccC
Confidence            456889999999999887732   359999998864

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

Probab=93.96  E-value=0.034  Score=53.49  Aligned_cols=49  Identities=29%  Similarity=0.702  Sum_probs=39.0

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .+..||+|..-+.+   ++....|||.|+..|+..|+.. +..||.|+..+..
T Consensus        20 ~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~   68 (391)
T KOG0297|consen   20 ENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQ   68 (391)
T ss_pred             ccccCccccccccC---CCCCCCCCCcccccccchhhcc-CcCCcccccccch
Confidence            35789999975333   3444689999999999999986 7899999987764

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

Probab=93.79  E-value=0.049  Score=50.33  Aligned_cols=49  Identities=20%  Similarity=0.522  Sum_probs=39.1

Q ss_pred             CCcchhhhcccCCceeEE-cCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          141 DCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       141 ~CpICle~lf~s~~~~~~-lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .||+|.-+...+++-... =+|||.++.+|++..+..+.+.||.|.+.+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            589998766666543322 2999999999999998888899999997765

>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=93.69  E-value=0.033  Score=46.09  Aligned_cols=35  Identities=20%  Similarity=0.514  Sum_probs=29.8

Q ss_pred             CCCCcchhhhcccCCceeEEcCCC------CcccHHHHHHHH
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCG------HTIHKNCLKEMR  174 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCg------H~fH~~Ci~~wl  174 (251)
                      ..+|.||++.+-+ ...++.+++|      |.||.+|++.|-
T Consensus        26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            4689999998766 5678888997      889999999993

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.

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

Probab=93.67  E-value=0.039  Score=52.28  Aligned_cols=48  Identities=25%  Similarity=0.598  Sum_probs=34.9

Q ss_pred             CCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          135 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       135 e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      |.+....|.||++.    +...+.+||||.-+  |..-...  ..+||+||..+.-
T Consensus       301 ~~~~p~lcVVcl~e----~~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDE----PKSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIRL  348 (355)
T ss_pred             ccCCCCceEEecCC----ccceeeecCCcEEE--chHHHhh--CCCCchhHHHHHH
Confidence            45667899999984    33477999999966  6555433  3569999976653

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

Probab=93.65  E-value=0.023  Score=52.87  Aligned_cols=52  Identities=23%  Similarity=0.573  Sum_probs=40.3

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc----------------------CCCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----------------------HQYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~----------------------~~~~CP~Cr~~~~  189 (251)
                      --.+.|.|||- =|.+.....+.+|-|+||..||..+|..                      ....||+||..+.
T Consensus       113 ~p~gqCvICLy-gfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  113 HPNGQCVICLY-GFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCCceEEEEE-eecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            34679999995 4666666888899999999999988751                      1235999997775

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

Probab=93.26  E-value=0.013  Score=54.37  Aligned_cols=55  Identities=27%  Similarity=0.690  Sum_probs=37.3

Q ss_pred             cccccccCCCC---CCCCcchhhhcccCCceeEEcCCCCcc-cHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          128 KNSHPCVEGAM---HHDCPVCCEYLFETRQDVIVLPCGHTI-HKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       128 ~~~H~C~e~~~---~~~CpICle~lf~s~~~~~~lpCgH~f-H~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      +++|.+-....   +..|.||++    .+.+-+.|+|||.. +.+|-+.+     ..|||||+-+...
T Consensus       286 k~~~g~~~~~s~~~~~LC~ICmD----aP~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~rv  344 (350)
T KOG4275|consen  286 KGNDGEQHSRSLATRRLCAICMD----APRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIVRV  344 (350)
T ss_pred             hcccccccccchhHHHHHHHHhc----CCcceEEeecCcEEeehhhcccc-----ccCchHHHHHHHH
Confidence            34444443333   778999997    46678999999973 55565544     2699999765543

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

Probab=93.01  E-value=0.14  Score=46.08  Aligned_cols=50  Identities=32%  Similarity=0.687  Sum_probs=39.6

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-------CCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-------HQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-------~~~~CP~Cr~~~~  189 (251)
                      -..+|..|.-.|.. + +.+.|.|=|.||..|+++|...       ..|+||-|..++.
T Consensus        49 Y~pNC~LC~t~La~-g-dt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   49 YNPNCRLCNTPLAS-G-DTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCCCCceeCCcccc-C-cceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            46799999976544 4 3456789999999999999653       2589999998875

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

Probab=92.98  E-value=0.058  Score=46.93  Aligned_cols=31  Identities=29%  Similarity=0.808  Sum_probs=25.0

Q ss_pred             cCCCCcccHHHHHHHHhc-----CC-----CCCCCCCcCcc
Q 025507          159 LPCGHTIHKNCLKEMREH-----HQ-----YACPICSKSVC  189 (251)
Q Consensus       159 lpCgH~fH~~Ci~~wl~~-----~~-----~~CP~Cr~~~~  189 (251)
                      ..||-.||.-|+..||+.     .+     -.||.|.+++.
T Consensus       188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia  228 (234)
T KOG3268|consen  188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA  228 (234)
T ss_pred             cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence            479999999999999974     11     24999999874

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

Probab=92.45  E-value=0.16  Score=47.29  Aligned_cols=60  Identities=25%  Similarity=0.605  Sum_probs=44.0

Q ss_pred             CCCCcchhhhcccCCceeEEcCC--CCcccHHHHHHHHhcCCCCCCCCCcCccchhHHHHHHHHHHhcCCCCH
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPC--GHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPE  209 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpC--gH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~ld~~i~~~p~P~  209 (251)
                      -.+||||.++|..   +  ++.|  ||..+..|-.+.    ...||.||.++++...  +.|+..+++...|=
T Consensus        48 lleCPvC~~~l~~---P--i~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~~R~--~amEkV~e~~~vpC  109 (299)
T KOG3002|consen   48 LLDCPVCFNPLSP---P--IFQCDNGHLACSSCRTKV----SNKCPTCRLPIGNIRC--RAMEKVAEAVLVPC  109 (299)
T ss_pred             hccCchhhccCcc---c--ceecCCCcEehhhhhhhh----cccCCccccccccHHH--HHHHHHHHhceecc
Confidence            4689999997644   2  4456  899999998754    3679999999997533  34666677666653

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

Probab=92.34  E-value=0.17  Score=48.97  Aligned_cols=46  Identities=30%  Similarity=0.551  Sum_probs=36.5

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-------CCCCCCCCC
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-------HQYACPICS  185 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-------~~~~CP~Cr  185 (251)
                      -..|-||++ .+.+......|||+|.|++.|+..|...       ...+||-+.
T Consensus       184 lf~C~ICf~-e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  184 LFDCCICFE-EQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             cccceeeeh-hhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            468999998 4666667888999999999999998642       245798766

>PF12773 DZR: Double zinc ribbon

Probab=91.99  E-value=0.16  Score=34.22  Aligned_cols=22  Identities=32%  Similarity=0.845  Sum_probs=14.6

Q ss_pred             cCCCCccccc-cccCcCCCCccc
Q 025507           57 CSLCGTEQKV-QQVCVNCGVCMG   78 (251)
Q Consensus        57 C~~C~~~q~~-~~~C~~Cg~~f~   78 (251)
                      |..|+++.+. +..|++||+.+.
T Consensus         1 Cp~Cg~~~~~~~~fC~~CG~~l~   23 (50)
T PF12773_consen    1 CPHCGTPNPDDAKFCPHCGTPLP   23 (50)
T ss_pred             CCCcCCcCCccccCChhhcCChh
Confidence            4566666654 567777777776

>TIGR00100 hypA hydrogenase nickel insertion protein HypA

Probab=91.40  E-value=0.14  Score=41.02  Aligned_cols=35  Identities=23%  Similarity=0.601  Sum_probs=28.2

Q ss_pred             ceeEEcCCCCCCccccceeeeccCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~~~h~lg~kC~~C~SyNT~~~~~  251 (251)
                      .+...|++|+.......+  ...||.|+|+++++++|
T Consensus        68 p~~~~C~~Cg~~~~~~~~--~~~CP~Cgs~~~~i~~G  102 (115)
T TIGR00100        68 PVECECEDCSEEVSPEID--LYRCPKCHGIMLQVRAG  102 (115)
T ss_pred             CcEEEcccCCCEEecCCc--CccCcCCcCCCcEEecC
Confidence            567899999987766533  35799999999998876

In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.

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

Probab=91.40  E-value=0.13  Score=47.74  Aligned_cols=65  Identities=20%  Similarity=0.414  Sum_probs=45.1

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccchhHHHHHHHHHHhcCC
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATP  206 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~ld~~i~~~p  206 (251)
                      .....|-||.++ |.   .+++..|||.|+..|...-++. ...|++|.+.+-.....-..|...+...+
T Consensus       239 ~~Pf~c~icr~~-f~---~pVvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~g~~~~akeL~~~L~~kk  303 (313)
T KOG1813|consen  239 LLPFKCFICRKY-FY---RPVVTKCGHYFCEVCALKPYQK-GEKCYVCSQQTHGSFNVAKELLVSLKLKK  303 (313)
T ss_pred             cCCccccccccc-cc---cchhhcCCceeehhhhcccccc-CCcceecccccccccchHHHHHHHHHhhh
Confidence            345679999996 43   3567789999999999987773 57899999987643322233444444333

>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]

Probab=91.26  E-value=0.13  Score=36.95  Aligned_cols=45  Identities=36%  Similarity=0.935  Sum_probs=34.1

Q ss_pred             eeecCCCCcccc-----ccccCcCCCCccceEecCccccccCCCCCCeeecCCCCc
Q 025507           54 QVICSLCGTEQK-----VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI  104 (251)
Q Consensus        54 ~v~C~~C~~~q~-----~~~~C~~Cg~~f~~y~C~~C~~~d~~~~k~~~HC~~Cgi  104 (251)
                      ...|..|+.+..     +.-.|||||... =|-|.+|+...+     +|.|++||+
T Consensus         9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe~~-I~Rc~~CRk~g~-----~Y~Cp~CGF   58 (61)
T COG2888           9 PPVCTSCGREIAPGETAVKFPCPNCGEVE-IYRCAKCRKLGN-----PYRCPKCGF   58 (61)
T ss_pred             CceeccCCCEeccCCceeEeeCCCCCcee-eehhhhHHHcCC-----ceECCCcCc
Confidence            568999998873     245799999543 366888987754     799999985

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.24  E-value=0.21  Score=45.33  Aligned_cols=51  Identities=25%  Similarity=0.640  Sum_probs=39.5

Q ss_pred             CCCCCCCcchhhhcccCCceeEE-cCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          136 GAMHHDCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~~~~~-lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ....-.|||-...| ++....+. .||||.|-...|.+.-  ....||+|.+++.
T Consensus       110 ~~~~~~CPvt~~~~-~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  110 SEGRFICPVTGKEF-NGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFT  161 (260)
T ss_pred             CCceeECCCCCccc-CCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccc
Confidence            34567899999865 44445554 5999999999999983  3467999999976

>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=91.05  E-value=0.24  Score=42.23  Aligned_cols=33  Identities=33%  Similarity=0.879  Sum_probs=22.9

Q ss_pred             CCCCcchhhhcccCCceeEEcCCC-C------------cccHHHHHHHHh
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCG-H------------TIHKNCLKEMRE  175 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCg-H------------~fH~~Ci~~wl~  175 (251)
                      +..||||||.-    -..|+|-|. |            .-|..||+++-+
T Consensus         2 d~~CpICme~P----HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEHP----HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccCC----CceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            46899999952    235566663 2            268999999854

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.

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

Probab=90.95  E-value=0.14  Score=45.28  Aligned_cols=59  Identities=20%  Similarity=0.459  Sum_probs=41.9

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccchhHHHHHHHHHH
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREI  202 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~ld~~i  202 (251)
                      ...|.||.++ +.+   +++..|||.|+..|+..-.+ ....|-+|.+...-....-..++..+
T Consensus       196 PF~C~iCKkd-y~s---pvvt~CGH~FC~~Cai~~y~-kg~~C~~Cgk~t~G~f~V~~d~~kmL  254 (259)
T COG5152         196 PFLCGICKKD-YES---PVVTECGHSFCSLCAIRKYQ-KGDECGVCGKATYGRFWVVSDLQKML  254 (259)
T ss_pred             ceeehhchhh-ccc---hhhhhcchhHHHHHHHHHhc-cCCcceecchhhccceeHHhhHHHHH
Confidence            4589999986 443   45778999999999888655 34789999987754333334455544

>PHA02862 5L protein; Provisional

Probab=90.24  E-value=0.2  Score=42.16  Aligned_cols=46  Identities=17%  Similarity=0.455  Sum_probs=33.4

Q ss_pred             CCCCcchhhhcccCCceeEEcCCC-----CcccHHHHHHHHhcC-CCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCg-----H~fH~~Ci~~wl~~~-~~~CP~Cr~~~~  189 (251)
                      ...|=||.+.  + .+.  .-||.     -..|++|+++|+... +..||+|+.++.
T Consensus         2 ~diCWIC~~~--~-~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          2 SDICWICNDV--C-DER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CCEEEEecCc--C-CCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            4678899874  1 122  34774     469999999999863 456999998875

>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional

Probab=90.02  E-value=0.22  Score=40.05  Aligned_cols=35  Identities=31%  Similarity=0.630  Sum_probs=28.0

Q ss_pred             ceeEEcCCCCCCcccc-ceeeeccCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNVQ-FHVLAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~~-~h~lg~kC~~C~SyNT~~~~~  251 (251)
                      .+.+.|++|+..+... +++  .+||.|||++..+++|
T Consensus        69 p~~~~C~~Cg~~~~~~~~~~--~~CP~Cgs~~~~i~~G  104 (117)
T PRK00564         69 KVELECKDCSHVFKPNALDY--GVCEKCHSKNVIITQG  104 (117)
T ss_pred             CCEEEhhhCCCccccCCccC--CcCcCCCCCceEEecC
Confidence            5678999999877665 333  4799999999998776

>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional

Probab=89.91  E-value=0.25  Score=40.74  Aligned_cols=37  Identities=27%  Similarity=0.734  Sum_probs=27.5

Q ss_pred             ceeEEcCCCCCCcccc-------------cee------eeccCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNVQ-------------FHV------LAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~~-------------~h~------lg~kC~~C~SyNT~~~~~  251 (251)
                      .....|.+|+......             +|+      ...+||.|||++..+++|
T Consensus        68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G  123 (135)
T PRK03824         68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIVKG  123 (135)
T ss_pred             ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEecC
Confidence            3678999999766443             222      336899999999988776

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=89.86  E-value=0.3  Score=41.63  Aligned_cols=47  Identities=28%  Similarity=0.599  Sum_probs=33.7

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCC-----cccHHHHHHHHhcC-CCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGH-----TIHKNCLKEMREHH-QYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH-----~fH~~Ci~~wl~~~-~~~CP~Cr~~~~  189 (251)
                      ++..|=||.+..   +  ...-||.-     ..|.+|++.|+..+ ..+||+|+..+.
T Consensus         7 ~~~~CRIC~~~~---~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          7 MDKCCWICKDEY---D--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCeeEecCCCC---C--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            456899998752   1  12347753     56999999999863 467999997764

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

Probab=89.79  E-value=0.27  Score=47.28  Aligned_cols=47  Identities=30%  Similarity=0.672  Sum_probs=39.9

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCC--CCCCCCCcC
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQ--YACPICSKS  187 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~--~~CP~Cr~~  187 (251)
                      ..|||=.| .-+...+++.|.|||.+-++-++...+.+.  +.||-|-..
T Consensus       335 F~CPVlKe-qtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  335 FICPVLKE-QTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             eecccchh-hccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            47999888 456667899999999999999999988766  789999753

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

Probab=89.78  E-value=0.38  Score=45.85  Aligned_cols=66  Identities=23%  Similarity=0.450  Sum_probs=44.5

Q ss_pred             CcceeccccccccccCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-CCCCCCCCCcCcc
Q 025507          120 RCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKSVC  189 (251)
Q Consensus       120 ~~c~~~~l~~~H~C~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-~~~~CP~Cr~~~~  189 (251)
                      +.|...+|.++.+=..+..+..|.||.+.    ...+.++||||.++-.|......- ..-.||+||....
T Consensus        42 nlsaEPnlttsSaddtDEen~~C~ICA~~----~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          42 NLSAEPNLTTSSADDTDEENMNCQICAGS----TTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             ccccCCccccccccccccccceeEEecCC----ceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            45555555444332334456799999983    345668899999999998875321 3456999997754

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=89.50  E-value=0.17  Score=30.07  Aligned_cols=24  Identities=33%  Similarity=0.908  Sum_probs=18.5

Q ss_pred             eeecCCCCccccc-cccCcCCCCcc
Q 025507           54 QVICSLCGTEQKV-QQVCVNCGVCM   77 (251)
Q Consensus        54 ~v~C~~C~~~q~~-~~~C~~Cg~~f   77 (251)
                      .+.|..|+++-+. +..|++||+.+
T Consensus         2 ~~~Cp~Cg~~~~~~~~fC~~CG~~L   26 (26)
T PF13248_consen    2 EMFCPNCGAEIDPDAKFCPNCGAKL   26 (26)
T ss_pred             cCCCcccCCcCCcccccChhhCCCC
Confidence            4678899987554 67899999864

>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional

Probab=89.30  E-value=0.27  Score=39.37  Aligned_cols=35  Identities=26%  Similarity=0.685  Sum_probs=27.5

Q ss_pred             ceeEEcCCCCCCccccceeeeccCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~~~h~lg~kC~~C~SyNT~~~~~  251 (251)
                      ...+.|++|+........  ...||.|||++..+++|
T Consensus        68 p~~~~C~~Cg~~~~~~~~--~~~CP~Cgs~~~~i~~G  102 (113)
T PRK12380         68 PAQAWCWDCSQVVEIHQH--DAQCPHCHGERLRVDTG  102 (113)
T ss_pred             CcEEEcccCCCEEecCCc--CccCcCCCCCCcEEccC
Confidence            467899999987766532  23599999999998876

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

Probab=89.29  E-value=0.095  Score=49.22  Aligned_cols=49  Identities=29%  Similarity=0.673  Sum_probs=39.5

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .....|.+|..+|-+.   ..+.-|=|+|++.||..+|.. +..||.|...+.
T Consensus        13 n~~itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih   61 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIH   61 (331)
T ss_pred             ccceehhhccceeecc---hhHHHHHHHHHHHHHHHHHHH-hccCCccceecc
Confidence            3456899999987663   335679999999999999986 689999996654

>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=88.83  E-value=0.31  Score=32.50  Aligned_cols=42  Identities=29%  Similarity=0.698  Sum_probs=20.1

Q ss_pred             CcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCC-CCCCCC
Q 025507          142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQ-YACPIC  184 (251)
Q Consensus       142 CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~-~~CP~C  184 (251)
                      |.+|.| +..-+..-....|+=.+|..|+..|+++.+ .+||.|
T Consensus         1 C~~C~~-iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKE-IVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-S-B-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             Ccccch-hHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            456666 433222111224777899999999988633 369987

; PDB: 3NW0_A 2CT0_A.

>PRK03681 hypA hydrogenase nickel incorporation protein; Validated

Probab=88.77  E-value=0.32  Score=39.00  Aligned_cols=36  Identities=17%  Similarity=0.480  Sum_probs=27.8

Q ss_pred             ceeEEcCCCCCCccccceeeeccCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~~~h~lg~kC~~C~SyNT~~~~~  251 (251)
                      .....|++|+......-+. ...||.|||+++.+++|
T Consensus        68 p~~~~C~~Cg~~~~~~~~~-~~~CP~Cgs~~~~i~~G  103 (114)
T PRK03681         68 EAECWCETCQQYVTLLTQR-VRRCPQCHGDMLRIVAD  103 (114)
T ss_pred             CcEEEcccCCCeeecCCcc-CCcCcCcCCCCcEEccC
Confidence            5678999999877664332 14699999999998876

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

Probab=88.41  E-value=0.2  Score=50.08  Aligned_cols=52  Identities=27%  Similarity=0.628  Sum_probs=41.1

Q ss_pred             cCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc----CCCCCCCCCcCcc
Q 025507          134 VEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----HQYACPICSKSVC  189 (251)
Q Consensus       134 ~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~----~~~~CP~Cr~~~~  189 (251)
                      .|+..+..|-+|-|+    .+++..-.|.|.|++.|+.+|+..    .+.+||+|...+.
T Consensus       531 ~enk~~~~C~lc~d~----aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  531 DENKGEVECGLCHDP----AEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             ccccCceeecccCCh----hhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            466778899999984    234667789999999999998753    4578999998764

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

Probab=88.03  E-value=0.34  Score=29.08  Aligned_cols=23  Identities=30%  Similarity=0.778  Sum_probs=18.9

Q ss_pred             ecCCCCccccc-cccCcCCCCccc
Q 025507           56 ICSLCGTEQKV-QQVCVNCGVCMG   78 (251)
Q Consensus        56 ~C~~C~~~q~~-~~~C~~Cg~~f~   78 (251)
                      .|..|+.+-+. +..|++||..|.
T Consensus         2 ~CP~C~~~V~~~~~~Cp~CG~~F~   25 (26)
T PF10571_consen    2 TCPECGAEVPESAKFCPHCGYDFE   25 (26)
T ss_pred             cCCCCcCCchhhcCcCCCCCCCCc
Confidence            37788888774 689999999986

Several members are annotated as putative helicases.

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

Probab=88.00  E-value=0.36  Score=50.47  Aligned_cols=43  Identities=28%  Similarity=0.760  Sum_probs=31.6

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ..|..|--.|   .-|.|...|||+||++|+.   . +...||-|+-.+.
T Consensus       841 skCs~C~~~L---dlP~VhF~CgHsyHqhC~e---~-~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  841 SKCSACEGTL---DLPFVHFLCGHSYHQHCLE---D-KEDKCPKCLPELR  883 (933)
T ss_pred             eeecccCCcc---ccceeeeecccHHHHHhhc---c-CcccCCccchhhh
Confidence            3677776433   2366777899999999999   2 4578999997443

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.92  E-value=0.57  Score=42.78  Aligned_cols=56  Identities=25%  Similarity=0.507  Sum_probs=44.2

Q ss_pred             cCCCCCCCCcchhhhcccCCceeEEc-CCCCcccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          134 VEGAMHHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       134 ~e~~~~~~CpICle~lf~s~~~~~~l-pCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      +..+....|||+.+.|.. ..+..+| |+||.+..+|...++.. ...+|++.+++.+.
T Consensus       216 ~a~s~ryiCpvtrd~LtN-t~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  216 IAASKRYICPVTRDTLTN-TTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDR  272 (303)
T ss_pred             hhhccceecccchhhhcC-ccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCccc
Confidence            333456789999996654 4455565 99999999999999984 58899999998763

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=87.07  E-value=0.33  Score=28.24  Aligned_cols=21  Identities=38%  Similarity=0.956  Sum_probs=16.2

Q ss_pred             cCCCCccccc-cccCcCCCCcc
Q 025507           57 CSLCGTEQKV-QQVCVNCGVCM   77 (251)
Q Consensus        57 C~~C~~~q~~-~~~C~~Cg~~f   77 (251)
                      |..|+++.+. ++.|++||+.+
T Consensus         2 Cp~CG~~~~~~~~fC~~CG~~l   23 (23)
T PF13240_consen    2 CPNCGAEIEDDAKFCPNCGTPL   23 (23)
T ss_pred             CcccCCCCCCcCcchhhhCCcC
Confidence            7788887764 67899999864

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

Probab=86.46  E-value=0.35  Score=35.80  Aligned_cols=36  Identities=28%  Similarity=0.780  Sum_probs=22.4

Q ss_pred             ceeecCCCCccccccccCcCCCCc--------cceEecCccccc
Q 025507           53 NQVICSLCGTEQKVQQVCVNCGVC--------MGEYFCESCKLF   88 (251)
Q Consensus        53 ~~v~C~~C~~~q~~~~~C~~Cg~~--------f~~y~C~~C~~~   88 (251)
                      ....|..|+..-.....||.|+..        -+.|||..|+=.
T Consensus        16 ~~~~C~~C~~~~~~~a~CPdC~~~Le~LkACGAvdYFC~~c~gL   59 (70)
T PF07191_consen   16 GHYHCEACQKDYKKEAFCPDCGQPLEVLKACGAVDYFCNHCHGL   59 (70)
T ss_dssp             TEEEETTT--EEEEEEE-TTT-SB-EEEEETTEEEEE-TTTT-E
T ss_pred             CEEECccccccceecccCCCcccHHHHHHHhcccceeeccCCce
Confidence            477788888776667778887776        368999998744

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

>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation

Probab=86.35  E-value=0.22  Score=39.69  Aligned_cols=35  Identities=26%  Similarity=0.552  Sum_probs=24.7

Q ss_pred             ceeEEcCCCCCCccccceeeeccCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~~~h~lg~kC~~C~SyNT~~~~~  251 (251)
                      .....|++|+..+.+..+.  ..||.|+|++..+++|
T Consensus        68 p~~~~C~~Cg~~~~~~~~~--~~CP~Cgs~~~~i~~G  102 (113)
T PF01155_consen   68 PARARCRDCGHEFEPDEFD--FSCPRCGSPDVEIISG  102 (113)
T ss_dssp             --EEEETTTS-EEECHHCC--HH-SSSSSS-EEEEES
T ss_pred             CCcEECCCCCCEEecCCCC--CCCcCCcCCCcEEccC
Confidence            5678999999998776553  5799999999888765

The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.

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

Probab=86.26  E-value=0.3  Score=44.01  Aligned_cols=37  Identities=30%  Similarity=0.737  Sum_probs=27.9

Q ss_pred             ccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          150 FETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       150 f~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +.+..+..++.|+|.|+..|...-..   ..||+|++++.
T Consensus        12 ~~~~~~f~LTaC~HvfC~~C~k~~~~---~~C~lCkk~ir   48 (233)
T KOG4739|consen   12 FPSQDPFFLTACRHVFCEPCLKASSP---DVCPLCKKSIR   48 (233)
T ss_pred             cCCCCceeeeechhhhhhhhcccCCc---cccccccceee
Confidence            44444566779999999999876432   38999999964

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

Probab=85.99  E-value=0.49  Score=45.24  Aligned_cols=53  Identities=21%  Similarity=0.533  Sum_probs=42.5

Q ss_pred             ccCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          133 CVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       133 C~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      -..++.++.||||..    .+...+.-||||.-+..||.+.|. ....|=.|+.++.+
T Consensus       416 ~lp~sEd~lCpICyA----~pi~Avf~PC~H~SC~~CI~qHlm-N~k~CFfCktTv~~  468 (489)
T KOG4692|consen  416 DLPDSEDNLCPICYA----GPINAVFAPCSHRSCYGCITQHLM-NCKRCFFCKTTVID  468 (489)
T ss_pred             CCCCcccccCcceec----ccchhhccCCCCchHHHHHHHHHh-cCCeeeEecceeee
Confidence            344577889999985    334566789999999999999887 45789999988876

>PRK04023 DNA polymerase II large subunit; Validated

Probab=85.82  E-value=0.69  Score=49.41  Aligned_cols=31  Identities=29%  Similarity=0.676  Sum_probs=14.4

Q ss_pred             cCcCCCCccceEecCccccccCCCCCCeeecCCCC
Q 025507           69 VCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCG  103 (251)
Q Consensus        69 ~C~~Cg~~f~~y~C~~C~~~d~~~~k~~~HC~~Cg  103 (251)
                      .|++||+.....+|+.|.-.    ...+|.|++||
T Consensus       628 fCpsCG~~t~~frCP~CG~~----Te~i~fCP~CG  658 (1121)
T PRK04023        628 KCPSCGKETFYRRCPFCGTH----TEPVYRCPRCG  658 (1121)
T ss_pred             cCCCCCCcCCcccCCCCCCC----CCcceeCcccc
Confidence            44455444444444444322    34455555553

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

Probab=84.97  E-value=0.42  Score=48.76  Aligned_cols=42  Identities=29%  Similarity=0.712  Sum_probs=35.3

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCC
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS  185 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr  185 (251)
                      ..|+||+..++.++..++.|-|||++++.|++...   +.+|| |.
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly---n~scp-~~   53 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY---NASCP-TK   53 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh---hccCC-CC
Confidence            47999988778888888999999999999999874   35788 55

>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=84.77  E-value=0.34  Score=33.36  Aligned_cols=32  Identities=34%  Similarity=0.760  Sum_probs=22.4

Q ss_pred             EcCCC-CcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          158 VLPCG-HTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       158 ~lpCg-H~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .+.|. |..+..|++.+|+. +..||+|.+++..
T Consensus        15 Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPt   47 (50)
T PF03854_consen   15 LIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPT   47 (50)
T ss_dssp             EEE-SS-EEEHHHHHHT-SS-SSEETTTTEE---
T ss_pred             eeeecchhHHHHHHHHHhcc-ccCCCcccCcCcc
Confidence            55685 99999999999985 5899999987753

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.

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

Probab=84.55  E-value=0.17  Score=37.52  Aligned_cols=64  Identities=27%  Similarity=0.550  Sum_probs=36.9

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccchhHHHHHHHHHHhcCCCCHhhhcCceeEE
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWIL  219 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~ld~~i~~~p~P~e~~~~~~~Il  219 (251)
                      ..||.|..+|....        |+..+..|-..+...  ..||.|..++..+.                   +=..++.+
T Consensus         2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~~~~~--a~CPdC~~~Le~Lk-------------------ACGAvdYF   52 (70)
T PF07191_consen    2 NTCPKCQQELEWQG--------GHYHCEACQKDYKKE--AFCPDCGQPLEVLK-------------------ACGAVDYF   52 (70)
T ss_dssp             -B-SSS-SBEEEET--------TEEEETTT--EEEEE--EE-TTT-SB-EEEE-------------------ETTEEEEE
T ss_pred             CcCCCCCCccEEeC--------CEEECccccccceec--ccCCCcccHHHHHH-------------------Hhccccee
Confidence            47999998643321        788889998887653  67999998776532                   22347899


Q ss_pred             cCCCCC---Cccccce
Q 025507          220 CNDCGK---TSNVQFH  232 (251)
Q Consensus       220 CndC~~---~s~~~~h  232 (251)
                      ||.|.+   ++-|.|.
T Consensus        53 C~~c~gLiSKkrV~f~   68 (70)
T PF07191_consen   53 CNHCHGLISKKRVRFE   68 (70)
T ss_dssp             -TTTT-EE-TTTSEEE
T ss_pred             eccCCceeecceEEEE
Confidence            999985   5555554

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

>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional

Probab=84.11  E-value=0.77  Score=37.29  Aligned_cols=36  Identities=31%  Similarity=0.608  Sum_probs=26.1

Q ss_pred             ceeEEcCCCCCCcccc-c---ee-eeccCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNVQ-F---HV-LAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~~-~---h~-lg~kC~~C~SyNT~~~~~  251 (251)
                      .....| +|+..+... +   |+ ....||.|||++..+++|
T Consensus        68 p~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G  108 (124)
T PRK00762         68 PVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHILGG  108 (124)
T ss_pred             CeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEecC
Confidence            567899 999875432 1   11 235799999999998876

>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=83.56  E-value=0.36  Score=43.93  Aligned_cols=50  Identities=26%  Similarity=0.648  Sum_probs=40.0

Q ss_pred             CCCCcchhhhcccCCceeEEc-C-CCCcccHHHHHHHHhcCCCCCC--CCCcCc
Q 025507          139 HHDCPVCCEYLFETRQDVIVL-P-CGHTIHKNCLKEMREHHQYACP--ICSKSV  188 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~l-p-CgH~fH~~Ci~~wl~~~~~~CP--~Cr~~~  188 (251)
                      +..||||..+.+.+++-..++ | |=|.++..|.+..++.+...||  -|.+.+
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            458999998877777533333 6 9999999999999888878899  887654

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

Probab=83.54  E-value=0.72  Score=47.91  Aligned_cols=44  Identities=23%  Similarity=0.508  Sum_probs=31.5

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCC
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPI  183 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~  183 (251)
                      .....|.||--  .-.+...+-+.|||.+|..|+.+|++.+ -.||.
T Consensus      1026 ~~~~~C~~C~l--~V~gss~~Cg~C~Hv~H~sc~~eWf~~g-d~Cps 1069 (1081)
T KOG0309|consen 1026 GFTFQCAICHL--AVRGSSNFCGTCGHVGHTSCMMEWFRTG-DVCPS 1069 (1081)
T ss_pred             cceeeeeeEee--EeeccchhhccccccccHHHHHHHHhcC-CcCCC
Confidence            33445888873  3333445567899999999999999864 57873

>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues

Probab=83.25  E-value=0.74  Score=36.76  Aligned_cols=26  Identities=35%  Similarity=0.953  Sum_probs=20.3

Q ss_pred             cccCcCCCCccceEecCccccccCCCCCCeeecCCCCc
Q 025507           67 QQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI  104 (251)
Q Consensus        67 ~~~C~~Cg~~f~~y~C~~C~~~d~~~~k~~~HC~~Cgi  104 (251)
                      ...|++||+          |||  +.+|.+-.|++||.
T Consensus         9 KR~Cp~CG~----------kFY--DLnk~PivCP~CG~   34 (108)
T PF09538_consen    9 KRTCPSCGA----------KFY--DLNKDPIVCPKCGT   34 (108)
T ss_pred             cccCCCCcc----------hhc--cCCCCCccCCCCCC
Confidence            468999999          456  45688999999884

The function of members of this family is unknown.

>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]

Probab=82.53  E-value=1  Score=36.44  Aligned_cols=36  Identities=31%  Similarity=0.632  Sum_probs=29.1

Q ss_pred             CceeEEcCCCCCCccccceeeeccCCCCCCccccccCC
Q 025507          214 KKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       214 ~~~~IlCndC~~~s~~~~h~lg~kC~~C~SyNT~~~~~  251 (251)
                      ..+.+.|.+|+.....--|.+.  ||.|+|-|.++++|
T Consensus        67 ~p~~~~C~~C~~~~~~e~~~~~--CP~C~s~~~~i~~G  102 (115)
T COG0375          67 EPAECWCLDCGQEVELEELDYR--CPKCGSINLRIIGG  102 (115)
T ss_pred             eccEEEeccCCCeecchhheeE--CCCCCCCceEEecC
Confidence            3578899999887766665554  99999999999876

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

Probab=82.11  E-value=0.6  Score=48.90  Aligned_cols=48  Identities=29%  Similarity=0.668  Sum_probs=34.6

Q ss_pred             CCCCcchhhhcccCCceeEEcCC---CCcccHHHHHHHHhc------CCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPC---GHTIHKNCLKEMREH------HQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpC---gH~fH~~Ci~~wl~~------~~~~CP~Cr~~~~  189 (251)
                      ..+|.||.|.+..+.   -+|.|   =|.||..||..|...      ..-+||-|+....
T Consensus       191 ~yeCmIC~e~I~~t~---~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~  247 (950)
T KOG1952|consen  191 KYECMICTERIKRTA---PVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK  247 (950)
T ss_pred             ceEEEEeeeeccccC---CceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence            468999999765432   24445   599999999999764      2357999994443

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

Probab=81.81  E-value=0.66  Score=48.76  Aligned_cols=36  Identities=31%  Similarity=0.694  Sum_probs=29.0

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHh
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE  175 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~  175 (251)
                      ....|.+|.-+|+.  ++..+.||||.||..|+..-..
T Consensus       816 p~d~C~~C~~~ll~--~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLI--KPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             CccchHHhcchhhc--CcceeeeccchHHHHHHHHHHH
Confidence            35789999976554  4677889999999999998654

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

Probab=81.80  E-value=0.99  Score=37.50  Aligned_cols=48  Identities=27%  Similarity=0.641  Sum_probs=34.5

Q ss_pred             CCCcchhhhcccCCceeEEc-C---CCCcccHHHHHHHHhcC--CCCCCCCCcCccch
Q 025507          140 HDCPVCCEYLFETRQDVIVL-P---CGHTIHKNCLKEMREHH--QYACPICSKSVCDM  191 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~l-p---CgH~fH~~Ci~~wl~~~--~~~CP~Cr~~~~~~  191 (251)
                      -+|-||.|. ..  + ...| |   ||-.++..|....|+..  ...||+|+.|+-..
T Consensus        81 YeCnIC~et-S~--e-e~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   81 YECNICKET-SA--E-ERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             eeccCcccc-cc--h-hhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            478888873 22  2 2233 2   89999999999966652  46799999998653

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

Probab=81.58  E-value=1.2  Score=45.84  Aligned_cols=44  Identities=30%  Similarity=0.896  Sum_probs=34.8

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCC-CCCCCCcCc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQY-ACPICSKSV  188 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~-~CP~Cr~~~  188 (251)
                      ..|+||++     .+..+..+|||.|+.+|+...+..... .||+||..+
T Consensus       455 ~~c~ic~~-----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD-----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc-----cccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence            68999998     235667899999999999998775433 599999443

>PF12773 DZR: Double zinc ribbon

Probab=81.07  E-value=1.4  Score=29.53  Aligned_cols=23  Identities=35%  Similarity=0.853  Sum_probs=13.6

Q ss_pred             eeecCCCCcccc--c--cccCcCCCCc
Q 025507           54 QVICSLCGTEQK--V--QQVCVNCGVC   76 (251)
Q Consensus        54 ~v~C~~C~~~q~--~--~~~C~~Cg~~   76 (251)
                      ...|..|++.++  .  ...|++||..
T Consensus        12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~   38 (50)
T PF12773_consen   12 AKFCPHCGTPLPPPDQSKKICPNCGAE   38 (50)
T ss_pred             ccCChhhcCChhhccCCCCCCcCCcCC
Confidence            556666766655  2  2457777664

>PRK14559 putative protein serine/threonine phosphatase; Provisional

Probab=81.02  E-value=1.1  Score=45.93  Aligned_cols=46  Identities=28%  Similarity=0.723  Sum_probs=26.4

Q ss_pred             eecCCCCccccc-cccCcCCCCccceEecCccccccCCCCCCeeecCCCC
Q 025507           55 VICSLCGTEQKV-QQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCG  103 (251)
Q Consensus        55 v~C~~C~~~q~~-~~~C~~Cg~~f~~y~C~~C~~~d~~~~k~~~HC~~Cg  103 (251)
                      ++|..|+++-+. +..|++||..+..-.|+.|.---.   .+.-.|+.||
T Consensus         2 ~~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~CG~~~~---~~~~fC~~CG   48 (645)
T PRK14559          2 LICPQCQFENPNNNRFCQKCGTSLTHKPCPQCGTEVP---VDEAHCPNCG   48 (645)
T ss_pred             CcCCCCCCcCCCCCccccccCCCCCCCcCCCCCCCCC---cccccccccC
Confidence            467777777553 556777777776555666643311   2223455555

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.87  E-value=0.96  Score=41.47  Aligned_cols=54  Identities=22%  Similarity=0.530  Sum_probs=37.5

Q ss_pred             CCCCCCCcchhhhcccCCceeEEcCC-----CCcccHHHHHHHHhcC-------CCCCCCCCcCcc
Q 025507          136 GAMHHDCPVCCEYLFETRQDVIVLPC-----GHTIHKNCLKEMREHH-------QYACPICSKSVC  189 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~~~~~lpC-----gH~fH~~Ci~~wl~~~-------~~~CP~Cr~~~~  189 (251)
                      ...+-.|=||++.-.+.+...-+=||     -|..|..|+..|+...       .-+||.|+....
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            45577899999743333333234488     3889999999998752       235999997754

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

Probab=80.30  E-value=1.2  Score=41.71  Aligned_cols=44  Identities=30%  Similarity=0.763  Sum_probs=34.1

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK  186 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~  186 (251)
                      ..||.|.- |..  .+..+.-|||.|+.+||..-|....+.||.|.+
T Consensus       275 LkCplc~~-Llr--np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHC-LLR--NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhh-hhh--CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            67999987 433  244455689999999999866556799999986

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	251
2k2d_A	79	Solution Nmr Structure Of C-Terminal Domain Of Huma		3e-14
2dkt_A	143	Solution Structure Of The Chy Zinc Finger Domain Of		3e-14
2k2c_A	137	Solution Nmr Structure Of N-Terminal Domain Of Huma		4e-14
2jrj_A	52	Solution Structure Of The Human Pirh2 Ring-H2 Domai		2e-04
2ecm_A	55	Solution Structure Of The Ring Domain Of The Ring F		7e-04

>pdb|2K2D|A Chain A, Solution Nmr Structure Of C-Terminal Domain Of Human Pirh2. Northeast Structural Genomics Consortium (Nesg) Target Ht2c Length = 79

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 34/65 (52%), Positives = 40/65 (61%)
Query: 187 SVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNT 246
           S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+SYNT
Sbjct: 7   SALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESYNT 66
Query: 247 RLTRG 251
               G
Sbjct: 67  AQAGG 71

>pdb|2DKT|A Chain A, Solution Structure Of The Chy Zinc Finger Domain Of The Ring Finger And Chy Zinc Finger Domain-Containing Protein 1 From Mus Musculus Length = 143

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 44/121 (36%), Positives = 58/121 (47%), Gaps = 11/121 (9%)
Query: 17  APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
           APCC++++ CR CH         D    H + R +V +V C  C   Q  QQ C +C   
Sbjct: 30  APCCDKLYTCRLCH---------DTNEDHQLDRFKVKEVQCINCEKLQHAQQTCEDCSTL 80
Query: 77  MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCVEG 136
            GEY+C  C LFD D  K+QYH             +FFHC KC  C +  L+  H C+E 
Sbjct: 81  FGEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCIES 138
Query: 137 A 137
Sbjct: 139 G 139

>pdb|2K2C|A Chain A, Solution Nmr Structure Of N-Terminal Domain Of Human Pirh2. Northeast Structural Genomics Consortium (Nesg) Target Ht2a Length = 137

Iteration: 1
 Score = 74.7 bits (182), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 45/118 (38%), Positives = 58/118 (49%), Gaps = 11/118 (9%)
Query: 17  APCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVC 76
           APCC++++ CR CH         D    H + R +V +V C  C   Q  QQ C  C   
Sbjct: 31  APCCDKLYTCRLCH---------DNNEDHQLDRFKVKEVQCINCEKIQHAQQTCEECSTL 81
Query: 77  MGEYFCESCKLFDDDTSKKQYHXXXXXXXXXXXXXNFFHCNKCRCCYSMLLKNSHPCV 134
            GEY+C+ C LFD D  KKQYH             +FFHC KC  C +M L+  H C+
Sbjct: 82  FGEYYCDICHLFDKD--KKQYHCENCGICRIGPKEDFFHCLKCNLCLAMNLQGRHKCI 137

>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain. Northeast Structural Genomics Consortium Target Ht2b Length = 52

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 135 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKS 187
           E     +CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+C  S
Sbjct: 1   ENVSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCMHS 52

>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger And Chy Zinc Finger Domain-Containing Protein 1 From Mus Musculus Length = 55

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 20/44 (45%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 185
           CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+CS
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCS 50

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	251
2dkt_A	143	Ring finger and CHY zinc finger domain- containing	1e-36
2k2d_A	79	Ring finger and CHY zinc finger domain- containing	4e-28
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	9e-14
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	5e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	8e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	4e-04
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	7e-04

>2dkt_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.89.1.1 g.93.1.1 PDB: 2k2c_A Length = 143

 Score =  125 bits (316), Expect = 1e-36
 Identities = 56/134 (41%), Positives = 77/134 (57%), Gaps = 11/134 (8%)

Query: 6   CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
           C+HY R C ++APCC++++ CR CH+   +         H + R +V +V C  C   Q 
Sbjct: 19  CEHYDRACLLKAPCCDKLYTCRLCHDTNED---------HQLDRFKVKEVQCINCEKLQH 69

Query: 66  VQQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 125
            QQ C +C    GEY+C  C LFD D  K+QYHC+ CGICRIG  ++FFHC KC  C + 
Sbjct: 70  AQQTCEDCSTLFGEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLTT 127

Query: 126 LLKNSHPCVEGAMH 139
            L+  H C+E    
Sbjct: 128 NLRGKHKCIESGPS 141

>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens} Length = 79

 Score =  101 bits (253), Expect = 4e-28
 Identities = 34/69 (49%), Positives = 40/69 (57%)

Query: 183 ICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCK 242
               S  DM++ W + D E+A TPMP  Y N  V ILCNDC   S VQFH+L  KC  C+
Sbjct: 3   HMMHSALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICE 62

Query: 243 SYNTRLTRG 251
           SYNT    G
Sbjct: 63  SYNTAQAGG 71

>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 = 63.1 bits (154), Expect = 9e-14
 Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 136 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 188
            +    CP+C E +  +R    VLPCGH +H+ C +EM +   Y CP+CS   
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPS 53

>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 = 47.1 bits (111), Expect = 2e-06
 Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 4/67 (5%)

Query: 128 KNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKS 187
           +    C  G+    C +C     E  +DV + PCGH +  +CL   +E     CP C   
Sbjct: 321 QYELYCEMGSTFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 376

Query: 188 VCDMSKV 194
           +     +
Sbjct: 377 IKGTEPI 383

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

 Score = 40.1 bits (94), Expect = 5e-05
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)

Query: 142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYA--CPICSKSV 188
           CP+C E   E +    +L CGHTI + CL+++         CP CSK  
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT 66

>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 = 39.9 bits (93), Expect = 8e-05
 Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 4/44 (9%)

Query: 141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 184
            C +C E L E     + LPC HT+ K C +   E     CP C
Sbjct: 17  QCGICMEILVEP----VTLPCNHTLCKPCFQSTVEKASLCCPFC 56

>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 = 39.6 bits (92), Expect = 2e-04
 Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 188
            C  C E +F      I   C H + K+CL        ++CP C   +
Sbjct: 54  QCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

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

 Score = 38.2 bits (88), Expect = 2e-04
 Identities = 16/61 (26%), Positives = 26/61 (42%)

Query: 141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDR 200
           +CP+C E L     +     CG+ I + C   +R      CP C K   +   V++   +
Sbjct: 13  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPLSQ 72

Query: 201 E 201
           E
Sbjct: 73  E 73

>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 = 38.8 bits (90), Expect = 4e-04
 Identities = 11/43 (25%), Positives = 21/43 (48%), Gaps = 4/43 (9%)

Query: 142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 184
           C  C E +++     +   C H + K+CL+   +   ++CP C
Sbjct: 81  CVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPAC 119

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

 Score = 36.3 bits (84), Expect = 7e-04
 Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 4/59 (6%)

Query: 135 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKE-MREHHQYACPICSKSVCDMS 192
           E  +H  C VC E  F+ R ++ + PC H  H+ CL + +       CP+C+  V  ++
Sbjct: 11  ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLIKWLEVRKV--CPLCNMPVLQLA 66

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	251
2dkt_A	143	Ring finger and CHY zinc finger domain- containing	100.0
2k2d_A	79	Ring finger and CHY zinc finger domain- containing	99.93
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.41
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.4
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.31
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.29
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.29
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.27
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.25
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.24
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.23
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.22
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.22
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.22
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.2
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.18
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.15
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.15
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.11
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.1
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.1
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.07
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.04
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.03
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.01
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.98
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.97
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.97
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.96
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.93
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.92
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.92
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.91
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.91
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.9
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.89
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.89
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.89
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.86
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.84
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.82
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.82
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.8
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.77
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.73
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.65
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.63
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.63
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.62
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.6
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.59
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.58
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.57
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.57
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.55
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.53
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.49
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.46
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.4
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.37
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.36
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.33
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.3
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.23
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.02
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.0
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	97.82
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.73
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.52
3nw0_A	238	Non-structural maintenance of chromosomes element	96.05
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	93.58
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	92.56
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	92.36
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	88.91
3a43_A	139	HYPD, hydrogenase nickel incorporation protein HYP	87.93
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	86.49
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	86.22
2kdx_A	119	HYPA, hydrogenase/urease nickel incorporation prot	84.19
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	81.08
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	80.55

>2dkt_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.89.1.1 g.93.1.1 PDB: 2k2c_A

Probab=100.00  E-value=3e-55  Score=360.92  Aligned_cols=128  Identities=43%  Similarity=1.068  Sum_probs=123.2

Q ss_pred             CccCCccccccceeecCcCCCeecCcchhhhhccCcCcCcCCCCCCCCcccceeecCCCCccccccccCcCCCCccceEe
Q 025507            2 ITCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCMGEYF   81 (251)
Q Consensus         2 ~~~gC~HY~r~c~i~~pcC~~~y~Cr~CHde~~~~~~~~~~~~H~~~r~~~~~v~C~~C~~~q~~~~~C~~Cg~~f~~y~   81 (251)
                      .++||+||+|+|+|+||||++|||||+||||+         ++|+++|+++++|+||.|+++|++++.|++||+.||+||
T Consensus        15 ~~~gC~HY~r~~~lr~pCC~k~y~Cr~CHde~---------~dH~l~r~~~~~vlCg~C~~~q~~~~~C~~Cg~~f~~Y~   85 (143)
T 2dkt_A           15 GPRGCEHYDRACLLKAPCCDKLYTCRLCHDTN---------EDHQLDRFKVKEVQCINCEKLQHAQQTCEDCSTLFGEYY   85 (143)
T ss_dssp             CSSSCSSCCCSEEEEETTTTEEESSHHHHHHT---------SSSCCCSSSCCCEEESSSCCEECSCSBCSSSCCBSCSEE
T ss_pred             CcCCCcccCCCeeEECCCCCCccchhhhhccc---------cccccchhccceeeecccCccccccCcCCCCCccceeeE
Confidence            36899999999999999999999999999997         599999999999999999999999999999999999999


Q ss_pred             cCccccccCCCCCCeeecCCCCcceecCCcceeeccCCCcceeccccccccccCCCCCC
Q 025507           82 CESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHH  140 (251)
Q Consensus        82 C~~C~~~d~~~~k~~~HC~~CgiCR~g~~~~~fHC~~C~~c~~~~l~~~H~C~e~~~~~  140 (251)
                      |+||||||  ++|+|||||+|||||+|+++|||||++||+||+++|+++|+|+|+++++
T Consensus        86 C~~C~l~d--~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~e~~~~s  142 (143)
T 2dkt_A           86 CSICHLFD--KDKRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCIESGPSS  142 (143)
T ss_dssp             CSSSCCEE--CSSSEEEETTTTEEEESCGGGEEEETTTTEEEEGGGSSSSCCSCCCSCC
T ss_pred             eceeeccc--CCCceecCCCCCceeccCCcCcEECCcCCeeeccccCcCcccCccCccC
Confidence            99999997  4699999999999999999999999999999999999999999999864

>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens}

Probab=99.93  E-value=1.6e-27  Score=178.59  Aligned_cols=71  Identities=48%  Similarity=0.832  Sum_probs=38.0

Q ss_pred             CCCCCcCccchhHHHHHHHHHHhcCCCCHhhhcCceeEEcCCCCCCccccceeeeccCCCCCCccccccCC
Q 025507          181 CPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       181 CP~Cr~~~~~~~~~~~~ld~~i~~~p~P~e~~~~~~~IlCndC~~~s~~~~h~lg~kC~~C~SyNT~~~~~  251 (251)
                      ||+|+|++.||+.+|++||++|+++|||++|++++++|+||||+++|.++||||||||+.|+||||++++|
T Consensus         1 ~~~c~ks~~dm~~~~~~lD~~ia~~pmP~~y~~~~v~I~CnDC~~~s~v~~h~lg~kC~~C~SyNTr~~~G   71 (79)
T 2k2d_A            1 GSHMMHSALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESYNTAQAGG   71 (79)
T ss_dssp             --------------------------------CCEEEEEESSSCCEEEEECCTTCCCCTTTSCCCEEESCC
T ss_pred             CCcccccHHHHHHHHHHHHHHHHhCCCCHHHhCCEeEEECCCCCCCccCCceeecccCcCCCCcCeEecCC
Confidence            79999999999999999999999999999999999999999999999999999999999999999999875

>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=99.41  E-value=1.6e-13  Score=93.28  Aligned_cols=52  Identities=38%  Similarity=0.911  Sum_probs=45.1

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +.+..||||++.+.++...+++++|||.||.+||.+|++.. .+||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT-CCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC-CcCCCCCCcCC
Confidence            45679999999876766678899999999999999999864 89999998764

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

Probab=99.40  E-value=2.3e-13  Score=100.97  Aligned_cols=52  Identities=19%  Similarity=0.436  Sum_probs=40.4

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ++..|+||++++..+...+++++|||.||.+||.+||+. +.+||+||+++..
T Consensus        25 ~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   76 (81)
T 2ecl_A           25 VMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ-NNRCPLCQQDWVV   76 (81)
T ss_dssp             TTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT-CCBCTTTCCBCCE
T ss_pred             hhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh-CCCCCCcCCCcch
Confidence            356799999875554434444569999999999999985 5799999998753

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

Probab=99.31  E-value=1.3e-12  Score=88.96  Aligned_cols=49  Identities=31%  Similarity=0.739  Sum_probs=40.7

Q ss_pred             CCCCcchhhhcccCCceeEEcC-CCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lp-CgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +..|+||++.+. +++.++.++ |||.||.+||.+|++. +.+||+||+++.
T Consensus         5 ~~~C~IC~~~~~-~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~   54 (55)
T 1iym_A            5 GVECAVCLAELE-DGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             SCCCTTTCCCCC-TTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCcCccCCcccc-CCCceEECCCCCCcccHHHHHHHHHc-CCcCcCCCCEeE
Confidence            568999999654 445577786 9999999999999985 689999998764

>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=99.29  E-value=1.8e-12  Score=92.31  Aligned_cols=53  Identities=28%  Similarity=0.659  Sum_probs=44.0

Q ss_pred             CCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          136 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ...+..|+||++. +.....++.+||||.||..||.+|++. +.+||+||..+..
T Consensus        11 ~~~~~~C~IC~~~-~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           11 EDTEEKCTICLSI-LEEGEDVRRLPCMHLFHQVCVDQWLIT-NKKCPICRVDIEA   63 (69)
T ss_dssp             TTCCCSBTTTTBC-CCSSSCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCSBSCS
T ss_pred             CCCCCCCeeCCcc-ccCCCcEEEeCCCCHHHHHHHHHHHHc-CCCCcCcCccccC
Confidence            3456789999995 444556888999999999999999985 4789999988764

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

Probab=99.29  E-value=1.4e-12  Score=93.99  Aligned_cols=55  Identities=35%  Similarity=0.800  Sum_probs=45.6

Q ss_pred             CCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          135 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       135 e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      +...+..|+||++. +.....+++|||||.||..||.+|++. +.+||+||+++..+
T Consensus        11 ~~~~~~~C~IC~~~-~~~~~~~~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           11 ELNLHELCAVCLED-FKPRDELGICPCKHAFHRKCLIKWLEV-RKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCSCBCSSSCCB-CCSSSCEEEETTTEEEEHHHHHHHHHH-CSBCTTTCCBCSSC
T ss_pred             cCCCCCCCcCCCcc-cCCCCcEEEcCCCCEecHHHHHHHHHc-CCcCCCcCcccccc
Confidence            34557899999996 555566778899999999999999986 46999999988764

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

Probab=99.27  E-value=1.2e-12  Score=94.83  Aligned_cols=52  Identities=35%  Similarity=0.715  Sum_probs=43.9

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..+..|+||++. +..+..++.|||||.||..||.+|++. +.+||+||+++..
T Consensus        21 ~~~~~C~IC~~~-~~~~~~~~~l~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCD-FESRQLLRVLPCNHEFHAKCVDKWLKA-NRTCPICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEE-CCBTCEEEEETTTEEEETTHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCCeECCcc-cCCCCeEEEECCCCHhHHHHHHHHHHc-CCcCcCcCCcCCC
Confidence            346789999996 555667788999999999999999985 5799999998865

>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=99.25  E-value=3.5e-12  Score=99.21  Aligned_cols=54  Identities=28%  Similarity=0.491  Sum_probs=41.8

Q ss_pred             CCCCCCcchhhhcccCC--------------ceeEEcCCCCcccHHHHHHHHhc----CCCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFETR--------------QDVIVLPCGHTIHKNCLKEMREH----HQYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~--------------~~~~~lpCgH~fH~~Ci~~wl~~----~~~~CP~Cr~~~~~  190 (251)
                      ..+..||||+++|....              ..+++++|||.||.+||..|+..    .+.+||+||..+..
T Consensus        23 ~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            34578999999764321              23447899999999999999952    35789999998875

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

Probab=99.24  E-value=4.9e-12  Score=92.05  Aligned_cols=51  Identities=35%  Similarity=0.814  Sum_probs=43.3

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .+..|+||++. +.....+++|+|||.||..||..|++. +.+||+||+.+..
T Consensus        14 ~~~~C~IC~~~-~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   64 (78)
T 2ect_A           14 SGLECPVCKED-YALGESVRQLPCNHLFHDSCIVPWLEQ-HDSCPVCRKSLTG   64 (78)
T ss_dssp             SSCCCTTTTSC-CCTTSCEEECTTSCEEETTTTHHHHTT-TCSCTTTCCCCCC
T ss_pred             CCCCCeeCCcc-ccCCCCEEEeCCCCeecHHHHHHHHHc-CCcCcCcCCccCC
Confidence            46799999995 555566788999999999999999984 5899999998875

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

Probab=99.23  E-value=4.6e-12  Score=95.62  Aligned_cols=51  Identities=27%  Similarity=0.672  Sum_probs=42.7

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .+..|+||++. +.....++.|||||.||..||..|++. +.+||+||+++..
T Consensus        39 ~~~~C~IC~~~-~~~~~~~~~l~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           39 QEMCCPICCSE-YVKGDVATELPCHHYFHKPCVSIWLQK-SGTCPVCRCMFPP   89 (91)
T ss_dssp             SCSEETTTTEE-CCTTCEEEEETTTEEEEHHHHHHHHTT-TCBCTTTCCBSSC
T ss_pred             CCCCCcccChh-hcCCCcEEecCCCChHHHHHHHHHHHc-CCcCcCcCccCCC
Confidence            45689999996 444556788999999999999999984 5799999998753

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

Probab=99.22  E-value=1e-11  Score=87.55  Aligned_cols=52  Identities=23%  Similarity=0.560  Sum_probs=42.0

Q ss_pred             CCCCcchhh-hcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCE-YLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle-~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++ .+.+....+++++|||+||.+|+.+|+..+..+||+||+++..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            468999999 6555444446789999999999999977666789999998863

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

Probab=99.22  E-value=5e-12  Score=90.00  Aligned_cols=53  Identities=25%  Similarity=0.664  Sum_probs=43.0

Q ss_pred             CCCCCCcchhhhcccC---CceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s---~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..+..||||++.+.+.   ...++.++|||.||.+||.+|++. +.+||+||.++..
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   63 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc-CCCCCCCCCccCh
Confidence            4467899999975442   244578999999999999999985 4799999998864

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

Probab=99.22  E-value=6.1e-12  Score=88.78  Aligned_cols=52  Identities=25%  Similarity=0.674  Sum_probs=42.2

Q ss_pred             CCCCCCcchhhhcccC---CceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s---~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ..+..||||++.+.+.   ...+++++|||.||..||..|++. +.+||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~   67 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKIN   67 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH-CSSCTTTCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc-CCCCCCCCCccC
Confidence            3467899999975442   234578999999999999999985 579999998875

>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=99.20  E-value=1.4e-11  Score=96.49  Aligned_cols=52  Identities=17%  Similarity=0.336  Sum_probs=39.5

Q ss_pred             CCCCCCcchhhhccc---CCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFE---TRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~---s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .++..|++|+++...   ....++.++|||.||.+||.+||+. +.+||+||+++.
T Consensus        46 ~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~~~  100 (106)
T 3dpl_R           46 HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  100 (106)
T ss_dssp             CTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCC
T ss_pred             hHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc-CCcCcCCCCcce
Confidence            345678888864332   1224677899999999999999985 689999999864

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

Probab=99.18  E-value=9.5e-12  Score=86.53  Aligned_cols=51  Identities=25%  Similarity=0.699  Sum_probs=41.7

Q ss_pred             CCCCcchhhhcccC---CceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s---~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++.+.+.   .+.++.++|||.||.+|+.+|++. +.+||+||+++..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   56 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   56 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH-CSBCTTTCCBCTT
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc-CCCCCCCCccCCc
Confidence            56899999965442   244578899999999999999985 5899999998764

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

Probab=99.15  E-value=1.6e-11  Score=86.90  Aligned_cols=50  Identities=26%  Similarity=0.634  Sum_probs=41.4

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      .+..||||++.+.+   +++.+||||.||..|+..|++. +.+||+||+++..+
T Consensus         4 ~~~~C~IC~~~~~~---~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   53 (68)
T 1chc_A            4 VAERCPICLEDPSN---YSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCSSCCSCCCS---CEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCCE
T ss_pred             CCCCCeeCCccccC---CcEecCCCCeeHHHHHHHHHhC-cCcCcCCChhhHhh
Confidence            45789999996432   4578999999999999999985 48999999988753

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

Probab=99.15  E-value=3e-11  Score=89.25  Aligned_cols=53  Identities=34%  Similarity=0.706  Sum_probs=43.1

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC--CCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~--~~~CP~Cr~~~~~  190 (251)
                      ....||||++.+.++...+++++|||.||..|+..|++..  ..+||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             CCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            3568999999655544447889999999999999999853  4789999998754

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

Probab=99.11  E-value=6.2e-12  Score=93.19  Aligned_cols=57  Identities=28%  Similarity=0.614  Sum_probs=43.1

Q ss_pred             CCCCCcchhhhcccCCceeEEc--CCCCcccHHHHHHHHhcCCCCCCCCCcCccchhHHHH
Q 025507          138 MHHDCPVCCEYLFETRQDVIVL--PCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWE  196 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~l--pCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~  196 (251)
                      .+..||||+|.+..  .++.++  +|||.|+..|+..++....++||+||+++......|+
T Consensus        10 ~~~~CpICle~~~~--~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~~   68 (78)
T 1e4u_A           10 DPVECPLCMEPLEI--DDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYK   68 (78)
T ss_dssp             CCCBCTTTCCBCCT--TTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCCC
T ss_pred             cCCcCCccCccCcc--ccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchhhc
Confidence            45789999996532  223344  4999999999999886567899999999987554443

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

Probab=99.10  E-value=1e-10  Score=84.99  Aligned_cols=48  Identities=17%  Similarity=0.486  Sum_probs=40.4

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .+..||||++. +.   .+++++|||+|+..||..|++.++.+||+||+++.
T Consensus         7 ~~~~C~IC~~~-~~---~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~   54 (78)
T 1t1h_A            7 EYFRCPISLEL-MK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL   54 (78)
T ss_dssp             SSSSCTTTSCC-CS---SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS
T ss_pred             ccCCCCCcccc-cc---CCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCC
Confidence            46789999994 44   35667999999999999999865789999999885

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

Probab=99.10  E-value=4.5e-11  Score=87.73  Aligned_cols=47  Identities=21%  Similarity=0.520  Sum_probs=39.5

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ....||||++.+ .   .+++++|||+||..||..|++. ..+||+||+++.
T Consensus        14 ~~~~C~IC~~~~-~---~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~   60 (81)
T 2csy_A           14 IPFRCFICRQAF-Q---NPVVTKCRHYFCESCALEHFRA-TPRCYICDQPTG   60 (81)
T ss_dssp             CCSBCSSSCSBC-C---SEEECTTSCEEEHHHHHHHHHH-CSBCSSSCCBCC
T ss_pred             CCCCCcCCCchh-c---CeeEccCCCHhHHHHHHHHHHC-CCcCCCcCcccc
Confidence            456899999954 3   2457999999999999999985 589999999986

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

Probab=99.09  E-value=4.2e-11  Score=85.87  Aligned_cols=49  Identities=20%  Similarity=0.529  Sum_probs=40.3

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..+..|+||++.+ .   .++.+||||.||..||..|+.. +.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~-~---~~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTC-V---HPVSLPCKHVFCYLCVKGASWL-GKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBC-S---SEEEETTTEEEEHHHHHHCTTC-SSBCSSSCCBCCH
T ss_pred             CCCCCCccCCccc-C---CCEEccCCCHHHHHHHHHHHHC-CCcCcCcCchhCH
Confidence            3457899999854 3   3467899999999999999985 5899999998864

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

Probab=99.07  E-value=5.9e-11  Score=85.32  Aligned_cols=49  Identities=27%  Similarity=0.535  Sum_probs=39.4

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .+..||||++.+.+   ++++++|||.||..||..|++. +.+||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   62 (72)
T 2djb_A           14 PYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYY-SNRCPKCNIVVHQ   62 (72)
T ss_dssp             GGGSCTTTSSCCSS---CEECSSSCCEECHHHHHHHHHH-CSSCTTTCCCCCS
T ss_pred             CCCCCCCCChHHHC---cCEECCCCCHHHHHHHHHHHHc-CCcCCCcCcccCc
Confidence            35689999995433   3444599999999999999985 5899999998864

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

Probab=99.07  E-value=1.1e-10  Score=83.56  Aligned_cols=50  Identities=26%  Similarity=0.775  Sum_probs=40.2

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc--CCCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~--~~~~CP~Cr~~~~~  190 (251)
                      ..+..||||++. +.   .+++++|||.||..||..|++.  ...+||+||+.+..
T Consensus        18 ~~~~~C~IC~~~-~~---~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           18 QEEVICPICLDI-LQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCBCTTTCSB-CS---SEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             ccCCEeccCCcc-cC---CeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            345789999995 43   3567799999999999999963  45789999998753

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

Probab=99.05  E-value=1.2e-11  Score=88.16  Aligned_cols=49  Identities=22%  Similarity=0.734  Sum_probs=40.7

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      ..+..|+||++. +..    +.+||||.||..|+.+|+. .+.+||+||+.+...
T Consensus        13 ~~~~~C~IC~~~-~~~----~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           13 TDEEECCICMDG-RAD----LILPCAHSFCQKCIDKWSD-RHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCCSSSCCS-CCS----EEETTTEEECHHHHHHSSC-CCSSCHHHHHCTTCC
T ss_pred             CCCCCCeeCCcC-ccC----cccCCCCcccHHHHHHHHH-CcCcCCCcCCcccCC
Confidence            346789999995 332    6889999999999999998 468999999888754

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

Probab=99.05  E-value=7.9e-11  Score=83.15  Aligned_cols=48  Identities=19%  Similarity=0.515  Sum_probs=39.2

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.+   ++.++|||.||..||..|++..+.+||+||+++..
T Consensus        15 ~~~C~IC~~~-~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           15 KYKCEKCHLV-LCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             CEECTTTCCE-ESS---CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CCCCCCCChH-hcC---eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            5689999985 432   34589999999999999996556789999998764

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

Probab=99.04  E-value=6.8e-11  Score=85.64  Aligned_cols=50  Identities=22%  Similarity=0.669  Sum_probs=39.9

Q ss_pred             CCCCcchhhhcccCCceeEEcC-CCCcccHHHHHHHHhcC-CCCCCCCCcCccchh
Q 025507          139 HHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREHH-QYACPICSKSVCDMS  192 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lp-CgH~fH~~Ci~~wl~~~-~~~CP~Cr~~~~~~~  192 (251)
                      +..||||++. +.   .+++++ |||+||..||..|++.. ..+||+||+.+...+
T Consensus        15 ~~~C~IC~~~-~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           15 ELLCLICKDI-MT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             GGSCSSSCCC-CT---TCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCcCCChH-Hh---CCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            5689999995 44   245688 99999999999999853 368999999876543

>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=99.03  E-value=1.3e-10  Score=88.97  Aligned_cols=49  Identities=16%  Similarity=0.442  Sum_probs=39.6

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +..  ++..++|||.||..||..|+.....+||+||.++..
T Consensus        22 ~~~C~IC~~~-~~~--p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           22 VFRCFICMEK-LRD--ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HTBCTTTCSB-CSS--EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCccCCcc-ccC--ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            4689999995 442  343399999999999999998655799999999863

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

Probab=99.01  E-value=1.5e-10  Score=91.01  Aligned_cols=52  Identities=25%  Similarity=0.669  Sum_probs=42.3

Q ss_pred             CCCCCcchhhhcccC---CceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s---~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .+..||||++.+.+.   ++.++.++|||+||..||.+|++. +.+||+||+.+..
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   60 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT-CSBCTTTCCBCTT
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh-CCCCCCCCCcCcc
Confidence            457899999965442   344588999999999999999985 5799999998863

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

Probab=98.98  E-value=2e-10  Score=92.77  Aligned_cols=46  Identities=33%  Similarity=0.889  Sum_probs=39.0

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..||||++. +.   .++++||||+||..||..|+.. +.+||+||+++..
T Consensus        54 ~~C~iC~~~-~~---~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           54 LQCIICSEY-FI---EAVTLNCAHSFCSYCINEWMKR-KIECPICRKDIKS   99 (138)
T ss_dssp             SBCTTTCSB-CS---SEEEETTSCEEEHHHHHHHTTT-CSBCTTTCCBCCC
T ss_pred             CCCcccCcc-cC---CceECCCCCCccHHHHHHHHHc-CCcCCCCCCcCCC
Confidence            479999995 43   3567899999999999999984 5889999999864

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

Probab=98.97  E-value=5.5e-10  Score=88.28  Aligned_cols=48  Identities=25%  Similarity=0.598  Sum_probs=40.1

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.   .++++||||+||..||..|+.....+||+||.++..
T Consensus        52 ~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQEL-VF---RPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSB-CS---SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChH-Hc---CcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4579999995 44   356789999999999999998666799999998864

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

Probab=98.97  E-value=4e-10  Score=78.67  Aligned_cols=43  Identities=26%  Similarity=0.871  Sum_probs=35.2

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc--CCCCCCCC
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPIC  184 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~--~~~~CP~C  184 (251)
                      .+..||||++. +.   .+++++|||.||..||..|++.  ...+||+|
T Consensus        19 ~~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLDI-LQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCSB-CS---SCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCch-hC---CeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            45789999985 44   3567799999999999999974  45789998

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

Probab=98.96  E-value=7.9e-11  Score=93.87  Aligned_cols=51  Identities=18%  Similarity=0.501  Sum_probs=0.9

Q ss_pred             CCCCCcchhhhccc--------------CCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFE--------------TRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~--------------s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .++.|+||++.+.+              ....++.++|||.||.+||.+||+. +.+||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~-~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  111 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc-CCcCCCCCCeee
Confidence            35689999986532              1123445699999999999999985 689999998764

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

Probab=98.93  E-value=8e-10  Score=80.54  Aligned_cols=49  Identities=22%  Similarity=0.619  Sum_probs=39.8

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC-----CCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-----QYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~-----~~~CP~Cr~~~~~  190 (251)
                      .+..||||++. +.   .+++++|||.||..|+..|+...     ...||+||..+..
T Consensus        18 ~~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           18 EEVTCPICLEL-LK---EPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             TTTSCTTTCSC-CS---SCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             cCCCCcCCChh-hC---cceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            35689999995 43   24578999999999999999862     5789999988763

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

Probab=98.92  E-value=5.8e-10  Score=76.11  Aligned_cols=43  Identities=35%  Similarity=1.039  Sum_probs=34.5

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc--CCCCCCCC
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPIC  184 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~--~~~~CP~C  184 (251)
                      .+..||||++.+ .+   +++++|||.||..||..|+..  ...+||+|
T Consensus        14 ~~~~C~IC~~~~-~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYL-KE---PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBC-SS---CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCccc-Cc---cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            356899999954 32   356899999999999999654  46789998

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

Probab=98.92  E-value=1.7e-10  Score=83.58  Aligned_cols=49  Identities=27%  Similarity=0.737  Sum_probs=39.7

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC------CCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH------QYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~------~~~CP~Cr~~~~~  190 (251)
                      .+..||||++. +..   ++++||||+||..||..|+...      ..+||+||.++..
T Consensus        11 ~~~~C~IC~~~-~~~---p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           11 EEVTCPICLEL-LTE---PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCEETTTTEE-CSS---CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             cCCCCcCCCcc-cCC---eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            35689999995 442   4568999999999999999752      5789999998864

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

Probab=98.91  E-value=6.8e-10  Score=83.01  Aligned_cols=48  Identities=23%  Similarity=0.690  Sum_probs=39.1

Q ss_pred             CCCCCcchhhhcccCCceeEEcC-CCCcccHHHHHHHHhc-CCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREH-HQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lp-CgH~fH~~Ci~~wl~~-~~~~CP~Cr~~~~  189 (251)
                      .+..||||++. +.   .++++| |||+|+..||..|+.. +...||+||+++.
T Consensus        12 ~~~~C~IC~~~-~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           12 DELLCLICKDI-MT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             TTTEETTTTEE-CS---SCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCCCCCCChh-hc---CceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            35689999984 54   356789 9999999999999864 3478999999973

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

Probab=98.91  E-value=7.3e-10  Score=82.44  Aligned_cols=53  Identities=19%  Similarity=0.511  Sum_probs=41.3

Q ss_pred             CCCCCCCcchhhhcccCCceeEEcCCC-----CcccHHHHHHHHhcC-CCCCCCCCcCccc
Q 025507          136 GAMHHDCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICSKSVCD  190 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~~~~~lpCg-----H~fH~~Ci~~wl~~~-~~~CP~Cr~~~~~  190 (251)
                      .+.+..|+||+++ ++... .+++||+     |.||.+||++||... ..+||+||..+..
T Consensus        12 ~~~~~~C~IC~~~-~~~~~-~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           12 PSSQDICRICHCE-GDDES-PLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             CTTSCCCSSSCCC-CCSSS-CEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCCeEcCcc-ccCCC-eeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            3456799999986 44343 3578996     999999999999863 3689999988753

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

Probab=98.90  E-value=7.3e-10  Score=84.13  Aligned_cols=48  Identities=27%  Similarity=0.751  Sum_probs=38.6

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.+  ++++++|||+||..|+..|+.. +.+||+||..+..
T Consensus        22 ~~~C~IC~~~-~~~--p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEY-FNI--AMIIPQCSHNYCSLCIRKFLSY-KTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSB-CSS--EEECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCG
T ss_pred             CCCcccCChh-hCC--cCEECCCCCHhhHHHHHHHHHC-CCCCCCCCCcCCh
Confidence            4689999995 442  3444499999999999999984 5899999998863

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

Probab=98.89  E-value=6e-10  Score=86.97  Aligned_cols=48  Identities=19%  Similarity=0.475  Sum_probs=40.1

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.   .++.++|||+||..||..|+.....+||+||.++..
T Consensus        23 ~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           23 SISCQICEHI-LA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HTBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcH-hc---CcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            4689999985 43   345689999999999999998656789999999864

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

Probab=98.89  E-value=9.6e-10  Score=80.11  Aligned_cols=49  Identities=29%  Similarity=0.739  Sum_probs=39.8

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-----CCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-----HQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-----~~~~CP~Cr~~~~~  190 (251)
                      .+..||||++. +..   ++.++|||.||..|+..|+..     ....||+||..+..
T Consensus        18 ~~~~C~IC~~~-~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           18 EEVTCPICLEL-LTQ---PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCTTTCSC-CSS---CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             CCCCCCCCCcc-cCC---ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            45799999995 432   456799999999999999875     25789999988763

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

Probab=98.89  E-value=1e-09  Score=84.74  Aligned_cols=48  Identities=31%  Similarity=0.708  Sum_probs=39.1

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.+  ++.+++|||+||..||..|+.. +.+||+||..+..
T Consensus        15 ~~~C~IC~~~-~~~--p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           15 HLMCVLCGGY-FID--ATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHK   62 (108)
T ss_dssp             GTBCTTTSSB-CSS--EEEETTTCCEEEHHHHHHHHTS-CSBCTTTCCBSCS
T ss_pred             cCCCccCChH-HhC--cCEeCCCCChhhHHHHHHHHHh-CCcCcCCCccccc
Confidence            5689999995 432  4444599999999999999985 5899999998863

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

Probab=98.86  E-value=1.3e-09  Score=90.15  Aligned_cols=48  Identities=21%  Similarity=0.613  Sum_probs=39.6

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +..||||++. +..  ++.+++|||.||..||..|+......||+||..+.
T Consensus        54 ~~~C~IC~~~-~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  101 (165)
T 2ckl_B           54 ELMCPICLDM-LKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLV  101 (165)
T ss_dssp             HHBCTTTSSB-CSS--EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCCCcccChH-hhC--cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCC
Confidence            3489999995 442  45556999999999999999865788999999885

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

Probab=98.84  E-value=5e-10  Score=87.29  Aligned_cols=48  Identities=31%  Similarity=0.840  Sum_probs=40.0

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.   .++.++|||+||..||..|+.....+||+||+.+..
T Consensus        15 ~~~C~iC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEI-LV---EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSB-CS---SCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCccCCcc-cC---ceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            4579999985 43   356789999999999999998657899999998863

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

Probab=98.82  E-value=1.4e-09  Score=85.40  Aligned_cols=53  Identities=25%  Similarity=0.664  Sum_probs=42.3

Q ss_pred             CCCCCCcchhhhcccC---CceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          137 AMHHDCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       137 ~~~~~CpICle~lf~s---~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .....|+||++.+.+.   ...++.++|||.||..||++|++. +.+||+||.++..
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~  125 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH  125 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH-CSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc-CCCCCCCCCcCCh
Confidence            3467899999865431   234478899999999999999985 5799999998864

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

Probab=98.82  E-value=2.2e-09  Score=88.35  Aligned_cols=48  Identities=23%  Similarity=0.607  Sum_probs=40.1

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.   .++++||||+||..||..|+.....+||+||..+..
T Consensus        78 ~~~C~IC~~~-~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  125 (150)
T 1z6u_A           78 SFMCVCCQEL-VY---QPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ  125 (150)
T ss_dssp             HTBCTTTSSB-CS---SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCEeecCChh-hc---CCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCC
Confidence            4689999994 44   355689999999999999998666789999998864

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

Probab=98.80  E-value=1.8e-09  Score=84.73  Aligned_cols=48  Identities=23%  Similarity=0.674  Sum_probs=40.0

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.   .++.++|||+||..||..|++....+||+||+++..
T Consensus        18 ~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           18 KYECPICLMA-LR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             GGBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCcCChh-hc---CeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            4689999985 43   246789999999999999998655699999999875

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

Probab=98.77  E-value=2.7e-09  Score=82.09  Aligned_cols=47  Identities=23%  Similarity=0.754  Sum_probs=37.9

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC--CCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~--~~~CP~Cr~~~~  189 (251)
                      ...||||++. +.   .++.++|||.||..||..|+...  ..+||+||.++.
T Consensus        21 ~~~C~IC~~~-~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (112)
T 1jm7_A           21 ILECPICLEL-IK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (112)
T ss_dssp             HTSCSSSCCC-CS---SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             CCCCcccChh-hc---CeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCC
Confidence            4589999995 43   24568999999999999999853  258999999875

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

Probab=98.73  E-value=4.9e-09  Score=74.27  Aligned_cols=51  Identities=18%  Similarity=0.460  Sum_probs=39.9

Q ss_pred             CCCCCCCcchhhhcccCCceeEEc--CCCCc-ccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          136 GAMHHDCPVCCEYLFETRQDVIVL--PCGHT-IHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~~~~~l--pCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      ...+..|+||++...    .++++  ||||. |+.+|+..|++. +..||+||+++...
T Consensus         5 ~~~~~~C~IC~~~~~----~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~~   58 (64)
T 2vje_A            5 LNAIEPCVICQGRPK----NGCIVHGKTGHLMACFTCAKKLKKR-NKPCPVCRQPIQMI   58 (64)
T ss_dssp             CGGGSCCTTTSSSCS----CEEEEETTEEEEEECHHHHHHHHHT-TCCCTTTCCCCCEE
T ss_pred             CCCcCCCCcCCCCCC----CEEEECCCCCChhhHHHHHHHHHHc-CCcCCCcCcchhce
Confidence            345678999998522    34444  99999 899999999874 57899999988653

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

Probab=98.65  E-value=4.8e-09  Score=72.17  Aligned_cols=45  Identities=29%  Similarity=0.566  Sum_probs=36.2

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ..+..|+||++. +.   .+++|||||+|+..|+..|    ..+||+||+.+.
T Consensus         4 ~~~~~C~IC~~~-~~---~p~~l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~   48 (56)
T 1bor_A            4 FQFLRCQQCQAE-AK---CPKLLPCLHTLCSGCLEAS----GMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSS-CB---CCSCSTTSCCSBTTTCSSS----SSSCSSCCSSSS
T ss_pred             ccCCCceEeCCc-cC---CeEEcCCCCcccHHHHccC----CCCCCcCCcEee
Confidence            345789999985 44   2467999999999999884    468999998875

>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=98.63  E-value=1.4e-08  Score=79.54  Aligned_cols=44  Identities=23%  Similarity=0.663  Sum_probs=36.9

Q ss_pred             CCCCcchhhhcccCCceeEEc-CCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~l-pCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +..||||++. +.   .++++ +|||+|+..||..|+.   ..||+||.++.
T Consensus        22 ~~~C~IC~~~-~~---~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~   66 (117)
T 1jm7_B           22 LLRCSRCTNI-LR---EPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAW   66 (117)
T ss_dssp             TTSCSSSCSC-CS---SCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCS
T ss_pred             CCCCCCCChH-hh---CccEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCc
Confidence            5689999985 44   24566 9999999999999986   68999999885

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

Probab=98.63  E-value=1.1e-08  Score=72.18  Aligned_cols=52  Identities=21%  Similarity=0.518  Sum_probs=38.8

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      +.+..|+||++...+  ..++.+||||. |+.+|+..|++. +.+||+||+++...
T Consensus         5 ~~~~~C~IC~~~~~~--~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~~   57 (63)
T 2vje_B            5 NLLKPCSLCEKRPRD--GNIIHGRTGHLVTCFHCARRLKKA-GASCPICKKEIQLV   57 (63)
T ss_dssp             GGGSBCTTTSSSBSC--EEEEETTEEEEEECHHHHHHHHHT-TCBCTTTCCBCCEE
T ss_pred             CcCCCCcccCCcCCC--eEEEecCCCCHhHHHHHHHHHHHh-CCcCCCcCchhhce
Confidence            345789999985322  11223499999 999999999874 47899999988653

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

Probab=98.62  E-value=1.9e-08  Score=75.01  Aligned_cols=47  Identities=15%  Similarity=0.217  Sum_probs=40.3

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .+..||||++ ++.   ++++++|||+|.+.||..|+.. +.+||+||.++.
T Consensus        13 ~~~~CpI~~~-~m~---dPV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~   59 (85)
T 2kr4_A           13 DEFRDPLMDT-LMT---DPVRLPSGTVMDRSIILRHLLN-SPTDPFNRQMLT   59 (85)
T ss_dssp             TTTBCTTTCS-BCS---SEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCC
T ss_pred             hheECcccCc-hhc---CCeECCCCCEECHHHHHHHHhc-CCCCCCCcCCCC
Confidence            4678999998 455   4678899999999999999985 689999999876

>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=98.60  E-value=4.2e-08  Score=85.81  Aligned_cols=50  Identities=14%  Similarity=0.135  Sum_probs=41.8

Q ss_pred             CCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          136 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ......||||++ ++.   +++++||||+|++.||..|+..+..+||+||.++.
T Consensus       205 ~~~~~~c~i~~~-~~~---dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~  254 (281)
T 2c2l_A          205 IPDYLCGKISFE-LMR---EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT  254 (281)
T ss_dssp             CCSTTBCTTTCS-BCS---SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             CCcccCCcCcCC-Hhc---CCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCc
Confidence            345678999998 555   46789999999999999999865566999999886

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

Probab=98.59  E-value=7.1e-09  Score=84.50  Aligned_cols=46  Identities=20%  Similarity=0.463  Sum_probs=38.3

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV  188 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~  188 (251)
                      +..||||++. +.   .++.++|||+|+..||..|++....+||+||.++
T Consensus        31 ~~~C~IC~~~-~~---~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           31 KYLCSACRNV-LR---RPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GGBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             CcCCCCCChh-hc---CcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            5689999984 44   2466899999999999999986656899999865

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

Probab=98.58  E-value=1.2e-08  Score=74.01  Aligned_cols=43  Identities=26%  Similarity=0.739  Sum_probs=36.1

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..|+||++.+ .   .++.+||||. |+..|+..|     ..||+||+.+..
T Consensus        24 ~~~C~iC~~~~-~---~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRN-I---AIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSB-C---CEEEETTCCBCCCHHHHTTC-----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCC-C---CEEEcCCCChhHHHHhhhcC-----ccCCCcCcCccC
Confidence            46899999853 2   4678899999 999999988     579999998875

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

Probab=98.57  E-value=3.8e-08  Score=72.31  Aligned_cols=49  Identities=18%  Similarity=0.453  Sum_probs=38.2

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC-CCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-QYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~-~~~CP~Cr~~~~~  190 (251)
                      ..+|+||.+. +...  ..-..|+|.||..||..||+.. +.+||+||.++..
T Consensus        15 i~~C~IC~~~-i~~g--~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           15 VKICNICHSL-LIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SCBCSSSCCB-CSSS--EECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCcCcchhhH-cccC--CccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            4689999985 4433  2334899999999999999853 2789999988764

>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=98.57  E-value=3e-08  Score=76.40  Aligned_cols=47  Identities=15%  Similarity=0.233  Sum_probs=40.3

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .+..||||++ ++.   +++++||||+|.+.||..||. .+.+||+||.++.
T Consensus        28 ~~~~CpI~~~-~m~---dPV~~~cGhtf~r~~I~~~l~-~~~~cP~~~~~l~   74 (100)
T 2kre_A           28 DEFRDPLMDT-LMT---DPVRLPSGTIMDRSIILRHLL-NSPTDPFNRQTLT   74 (100)
T ss_dssp             TTTBCTTTCS-BCS---SEEEETTTEEEEHHHHHHHTT-SCSBCSSSCCBCC
T ss_pred             HhhCCcCccC-ccc---CCeECCCCCEEchHHHHHHHH-cCCCCCCCCCCCC
Confidence            4678999998 455   467889999999999999998 4689999999876

>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=98.55  E-value=5e-08  Score=74.89  Aligned_cols=47  Identities=17%  Similarity=0.231  Sum_probs=40.3

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCC-CcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCG-HTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCg-H~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .+..||||++ ++.   ++++++|| |+|.+.||..||.. +.+||+||.++.
T Consensus        21 ~~~~CpI~~~-~m~---dPV~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l~   68 (98)
T 1wgm_A           21 DEFLDPIMST-LMC---DPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLT   68 (98)
T ss_dssp             TTTBCTTTCS-BCS---SEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCC
T ss_pred             HhcCCcCccc-ccc---CCeECCCCCeEECHHHHHHHHHh-CCCCCCCCCCCC
Confidence            3578999998 555   46789999 99999999999985 689999999876

>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=98.53  E-value=3.7e-08  Score=81.57  Aligned_cols=48  Identities=23%  Similarity=0.674  Sum_probs=39.8

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++. +.   .++.++|||+|+..||..|+.....+||+||.++..
T Consensus        18 ~~~C~IC~~~-~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           18 KYECPICLMA-LR---EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             GGBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCChh-hc---CcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            4689999995 44   245689999999999999998655699999998875

>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=98.49  E-value=1.6e-07  Score=71.08  Aligned_cols=46  Identities=28%  Similarity=0.608  Sum_probs=36.9

Q ss_pred             CCCCCcchhhhcccCCceeEEcC-CCCcccHHHHHHHHhcC-----CCCCCC--CCcC
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREHH-----QYACPI--CSKS  187 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lp-CgH~fH~~Ci~~wl~~~-----~~~CP~--Cr~~  187 (251)
                      .+..||||++ +|.   ++++++ |||+|.+.||..||...     ..+||+  |++.
T Consensus         6 ~~~~CPI~~~-~~~---dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKE-EMK---KPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCS-BCS---SEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCc-hhc---CCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            3568999998 455   356675 99999999999999752     468999  9966

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

Probab=98.46  E-value=1e-07  Score=89.83  Aligned_cols=49  Identities=31%  Similarity=0.734  Sum_probs=40.7

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ....|+||++.+ .   .++.+||||.||..|+..|+.....+||+||.++..
T Consensus       331 ~~~~C~ICle~~-~---~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          331 TFQLCKICAEND-K---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSSBCTTTSSSB-C---CEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCCccCcCC-C---CeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            346899999853 2   467899999999999999998556889999998864

>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=98.40  E-value=2.8e-07  Score=69.32  Aligned_cols=49  Identities=24%  Similarity=0.517  Sum_probs=37.5

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc----C---CCCCCC--CCcC
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----H---QYACPI--CSKS  187 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~----~---~~~CP~--Cr~~  187 (251)
                      ....|+||+++ +..+..+.+.+|||.|+.+|+..|+..    +   ..+||.  |+..
T Consensus         4 ~~~~C~IC~~~-~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGE-YPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCC-CBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcc-cccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            35689999995 444444444589999999999998763    1   357999  9998

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

Probab=98.37  E-value=2.1e-07  Score=66.75  Aligned_cols=46  Identities=33%  Similarity=0.732  Sum_probs=37.3

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      ..+..|+||++.    ...+++|||||. |+..|+..     ...||+||..+...
T Consensus        13 ~~~~~C~IC~~~----~~~~v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           13 ENSKDCVVCQNG----TVNWVLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCSSCCSSSSSS----CCCCEETTTTBCCSCTTHHHH-----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCCcCcC----CCCEEEECCCChhhhHHHHhc-----CCCCCCCCcchhce
Confidence            446789999984    235788999999 99999984     25799999988764

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

Probab=98.36  E-value=8.3e-08  Score=69.53  Aligned_cols=43  Identities=26%  Similarity=0.738  Sum_probs=34.6

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..|+||++. +.   .++++||||. |+..|+..+     ..||+||+.+..
T Consensus        25 ~~~C~IC~~~-~~---~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDR-NI---AIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSS-CC---CBCCSSSCCCCBCHHHHHHC-----SBCTTTCCBCCC
T ss_pred             CCCCCcCCCC-CC---CEEEecCCCHHHHHHHhhCC-----CCCccCCceecC
Confidence            3579999985 33   4667899999 999999642     679999998865

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

Probab=98.33  E-value=2.6e-07  Score=64.96  Aligned_cols=51  Identities=25%  Similarity=0.513  Sum_probs=38.9

Q ss_pred             CCCCCCCCcchhhhcccCCceeEEcCCC--C---cccHHHHHHHHhc-CCCCCCCCCcCcc
Q 025507          135 EGAMHHDCPVCCEYLFETRQDVIVLPCG--H---TIHKNCLKEMREH-HQYACPICSKSVC  189 (251)
Q Consensus       135 e~~~~~~CpICle~lf~s~~~~~~lpCg--H---~fH~~Ci~~wl~~-~~~~CP~Cr~~~~  189 (251)
                      |.+....|.||++. .  ..+ .++||.  +   .||..||..|+.. ++.+||+|+..+.
T Consensus         2 e~~~~~~CrIC~~~-~--~~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            2 EDEDVPVCWICNEE-L--GNE-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TTCSCCEETTTTEE-C--SCC-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCEeEEeecC-C--CCc-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            45667789999985 2  223 368865  4   8999999999975 4678999998764

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

Probab=98.30  E-value=7.1e-07  Score=75.83  Aligned_cols=48  Identities=15%  Similarity=0.160  Sum_probs=39.8

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .+..||||++ ++.   +++++||||+|.+.||..|+.....+||+|+.++.
T Consensus       105 ~~f~CPI~~e-lm~---DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~  152 (179)
T 2f42_A          105 DYLCGKISFE-LMR---EPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLT  152 (179)
T ss_dssp             GGGBCTTTCS-BCS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             HhhcccCccc-cCC---CCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCC
Confidence            3568999998 455   46788999999999999999864347999999876

>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=98.23  E-value=2.8e-07  Score=67.86  Aligned_cols=44  Identities=34%  Similarity=0.820  Sum_probs=36.1

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      +..|+||++.+    ..++++||||. |+..|+..|     ..||+||..+...
T Consensus        18 ~~~C~IC~~~~----~~~v~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEE----INSTFCPCGHTVCCESCAAQL-----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSB----CCEEEETTCBCCBCHHHHTTC-----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCccc----CcEEEECCCCHHHHHHHHHhc-----CcCCCCCchhhCe
Confidence            45799999842    24778999999 999999877     2799999988753

>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=98.02  E-value=3.3e-06  Score=75.75  Aligned_cols=50  Identities=24%  Similarity=0.664  Sum_probs=39.6

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-CCCCCCC--CCcCcc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPI--CSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-~~~~CP~--Cr~~~~  189 (251)
                      ..+..||||++. |.  ++++...|||+|.+.||..|+.. +..+||+  |++.+.
T Consensus       179 ~~el~CPIcl~~-f~--DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          179 KIELTCPITCKP-YE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             BCCSBCTTTSSB-CS--SEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             ceeeECcCccCc-cc--CCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            346789999995 43  25555699999999999999875 3467999  998775

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

Probab=98.00  E-value=9.8e-07  Score=82.01  Aligned_cols=54  Identities=20%  Similarity=0.474  Sum_probs=39.7

Q ss_pred             CCCCCCCcchhhhcccCCcee-E---EcCCCCcccHHHHHHHHhcCC----------CCCCCCCcCcc
Q 025507          136 GAMHHDCPVCCEYLFETRQDV-I---VLPCGHTIHKNCLKEMREHHQ----------YACPICSKSVC  189 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s~~~~-~---~lpCgH~fH~~Ci~~wl~~~~----------~~CP~Cr~~~~  189 (251)
                      .....+|+||++.+.+++.-+ .   -++|||.||..||.+|+++..          ..||.||.++.
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            345679999999765533222 1   247999999999999997411          36999999776

>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=97.82  E-value=4.1e-06  Score=77.61  Aligned_cols=43  Identities=30%  Similarity=0.834  Sum_probs=36.2

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCc-ccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~-fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..|+||++. +.   .++.+||||. |+..|+..|     ..||+||..+..
T Consensus       295 ~~~C~IC~~~-~~---~~v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDK-EV---SVVFIPCGHLVVCQECAPSL-----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSS-BC---CEEEETTCCEEECTTTGGGC-----SBCTTTCCBCCE
T ss_pred             CCCCCccCCc-CC---ceEEcCCCChhHhHHHHhcC-----CcCCCCCCCccC
Confidence            4689999985 33   4678899999 999999988     579999998865

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

Probab=97.73  E-value=2.1e-05  Score=60.76  Aligned_cols=49  Identities=22%  Similarity=0.419  Sum_probs=39.2

Q ss_pred             CCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccchh
Q 025507          141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMS  192 (251)
Q Consensus       141 ~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~  192 (251)
                      .|++|.-++.   ...+.+||+|.|+.+|+..|.+.+..+||+|+.++.+++
T Consensus         3 fC~~C~~Pi~---iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe   51 (101)
T 3vk6_A            3 FCDKCGLPIK---VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE   51 (101)
T ss_dssp             BCTTTCSBCS---EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred             ecCccCCCeE---EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence            4778864322   246788999999999999998766789999999998654

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

Probab=97.52  E-value=5.2e-05  Score=53.13  Aligned_cols=47  Identities=13%  Similarity=0.166  Sum_probs=37.4

Q ss_pred             CCCCcchhhhcccCCceeEEc-CCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~l-pCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ...|||+++. +.   +++++ ++||+|-+++|.+|++. +.+||+.+.++..
T Consensus         3 ~~~CpIs~~~-m~---dPV~~~~sG~~yer~~I~~~l~~-~~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKV-PR---RPVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSC-CS---SEEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCG
T ss_pred             eEEecCCCCC-CC---CCEEeCCCCcEEcHHHHHHHHHh-CCCCcCCcCCCCh
Confidence            4679999994 44   24555 89999999999999985 4679999988763

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

Probab=96.05  E-value=0.0039  Score=54.75  Aligned_cols=49  Identities=20%  Similarity=0.510  Sum_probs=36.7

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC-CCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-QYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~-~~~CP~Cr~~~~~  190 (251)
                      -..|.||.+-+..   ...-..|+|.||..|+..|+++. +.+||.|+..+..
T Consensus       180 i~~C~iC~~iv~~---g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQ---GQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSS---CEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhC---CcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            5689999984432   23333599999999999998753 4689999987753

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

Probab=93.58  E-value=0.033  Score=41.29  Aligned_cols=29  Identities=28%  Similarity=0.765  Sum_probs=19.8

Q ss_pred             eecCCCCccccccccCcCCCCccceEecCccccc
Q 025507           55 VICSLCGTEQKVQQVCVNCGVCMGEYFCESCKLF   88 (251)
Q Consensus        55 v~C~~C~~~q~~~~~C~~Cg~~f~~y~C~~C~~~   88 (251)
                      .+|..|+.++.+   +..||+.  .|||.-|+=+
T Consensus        32 afCPeCgq~Le~---lkACGA~--~yFC~~C~~L   60 (81)
T 2jrp_A           32 ALCPDCRQPLQV---LKACGAV--DYFCQNGHGL   60 (81)
T ss_dssp             EECSSSCSCCCE---EEETTEE--EECCTTTTCC
T ss_pred             ccCcchhhHHHH---HHhcCCc--CeeeccCCCE
Confidence            366666666444   6667766  8999999744

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=92.56  E-value=0.16  Score=41.34  Aligned_cols=50  Identities=22%  Similarity=0.465  Sum_probs=35.1

Q ss_pred             cCCCCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHh----------cCCCCCCCCCcC
Q 025507          134 VEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE----------HHQYACPICSKS  187 (251)
Q Consensus       134 ~e~~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~----------~~~~~CP~Cr~~  187 (251)
                      .++..+..|.||.+    +++-+.-=.|.-+||..||.+-+.          .+.-.||+|+..
T Consensus        58 d~Dg~~d~C~vC~~----GG~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~  117 (142)
T 2lbm_A           58 DSDGMDEQCRWCAE----GGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             CTTSCBCSCSSSCC----CSSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             cCCCCCCeecccCC----CCcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            34667889999997    333121127889999999997552          245689999954

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

Probab=92.36  E-value=0.057  Score=40.22  Aligned_cols=33  Identities=21%  Similarity=0.423  Sum_probs=24.8

Q ss_pred             CCCCcchhhhcccCCceeEE-cCCCCcccHHHHHHH
Q 025507          139 HHDCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEM  173 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~-lpCgH~fH~~Ci~~w  173 (251)
                      +..|+||++.++.  .++.. ++|+|+|+..|+..+
T Consensus         3 e~~C~~C~~~~~~--~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQ--DAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCC--BCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCC--CceEECCcCChHHhHHHCHHH
Confidence            4679999974333  23333 999999999999984

>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=88.91  E-value=0.14  Score=39.13  Aligned_cols=82  Identities=22%  Similarity=0.570  Sum_probs=42.9

Q ss_pred             CCCcceecCC-cceeeccCCCcce-----eccccc----cccccCCCCCCCCcchhhhcccCCceeEE-cCCCCcccHHH
Q 025507          101 GCGICRIGGC-DNFFHCNKCRCCY-----SMLLKN----SHPCVEGAMHHDCPVCCEYLFETRQDVIV-LPCGHTIHKNC  169 (251)
Q Consensus       101 ~CgiCR~g~~-~~~fHC~~C~~c~-----~~~l~~----~H~C~e~~~~~~CpICle~lf~s~~~~~~-lpCgH~fH~~C  169 (251)
                      .|.||..+|. ++...|+.|+.-|     .+.+..    .=.|.+=   ..|.||.+.  .....++. -.|.-.||..|
T Consensus         9 ~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C---~~C~~C~~~--~~~~~ll~Cd~C~~~yH~~C   83 (111)
T 2ysm_A            9 NCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPEC---KVCQNCKQS--GEDSKMLVCDTCDKGYHTFC   83 (111)
T ss_dssp             CBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTT---CCCTTTCCC--SCCTTEEECSSSCCEEEGGG
T ss_pred             CCcCCCCCCCCcCCeECCCCCCCcChHHhCCccccccccCccCCcC---CcccccCcc--CCCCCeeECCCCCcHHhHHh
Confidence            3555555552 4556666666443     332211    1111110   146677752  11112222 27899999999


Q ss_pred             HHHHHhc---CCCCCCCCCcC
Q 025507          170 LKEMREH---HQYACPICSKS  187 (251)
Q Consensus       170 i~~wl~~---~~~~CP~Cr~~  187 (251)
                      +.+-|..   +...||.|+..
T Consensus        84 l~ppl~~~P~g~W~C~~C~~c  104 (111)
T 2ysm_A           84 LQPVMKSVPTNGWKCKNCRIC  104 (111)
T ss_dssp             SSSCCSSCCSSCCCCHHHHCC
T ss_pred             cCCccccCCCCCcCCcCCcCc
Confidence            9875442   34678888653

>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*

Probab=87.93  E-value=0.18  Score=40.53  Aligned_cols=37  Identities=22%  Similarity=0.621  Sum_probs=29.4

Q ss_pred             ceeEEcCCCCCCccc-------------cceee------eccCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNV-------------QFHVL------AQKCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~-------------~~h~l------g~kC~~C~SyNT~~~~~  251 (251)
                      .+...|.+|+.....             .+|++      ..+||.|||.+..+++|
T Consensus        68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~h~~p~~~~~~~~CP~Cgs~~~~i~~G  123 (139)
T 3a43_A           68 EAVFKCRNCNYEWKLKEVKDKFDERIKEDIHFIPEVVHAFLACPKCGSHDFEVVKG  123 (139)
T ss_dssp             CCEEEETTTCCEEEGGGCTTCCSCCCGGGCCCCGGGCGGGCSCSSSSCCCEEEEES
T ss_pred             CCcEECCCCCCEEecccccccccccccccccccccccccCCcCccccCCccEEecC
Confidence            467899999987532             46776      68999999999987665

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=86.22  E-value=0.15  Score=39.26  Aligned_cols=74  Identities=18%  Similarity=0.459  Sum_probs=41.5

Q ss_pred             CCcceeeccCCCcceecc-c-----------cccccccCCCCCCCCcchhhhcccCCceeEE-cCCCCcccHHHHHHHHh
Q 025507          109 GCDNFFHCNKCRCCYSML-L-----------KNSHPCVEGAMHHDCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMRE  175 (251)
Q Consensus       109 ~~~~~fHC~~C~~c~~~~-l-----------~~~H~C~e~~~~~~CpICle~lf~s~~~~~~-lpCgH~fH~~Ci~~wl~  175 (251)
                      .+++...|+.|+.-|-.+ |           ..+=.|.+=   ..|.||.+. ..+...++. -.|...||..|+.+-|.
T Consensus        22 ~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C---~~C~vC~~~-~~~~~~ll~Cd~C~~~yH~~Cl~p~l~   97 (112)
T 3v43_A           22 KPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIEC---KTCSSCRDQ-GKNADNMLFCDSCDRGFHMECCDPPLT   97 (112)
T ss_dssp             CCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTT---CCBTTTCCC-CCTTCCCEECTTTCCEECGGGCSSCCS
T ss_pred             CchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccC---CccccccCc-CCCccceEEcCCCCCeeecccCCCCCC
Confidence            356777777777655221 1           112223321   157788752 111112222 26889999999987554


Q ss_pred             c---CCCCCCCCCc
Q 025507          176 H---HQYACPICSK  186 (251)
Q Consensus       176 ~---~~~~CP~Cr~  186 (251)
                      .   +...||.|+.
T Consensus        98 ~~P~~~W~C~~C~~  111 (112)
T 3v43_A           98 RMPKGMWICQICRP  111 (112)
T ss_dssp             SCCSSCCCCTTTSC
T ss_pred             CCCCCCeECCCCCC
Confidence            3   3467999984

>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}

Probab=84.19  E-value=0.45  Score=36.88  Aligned_cols=35  Identities=31%  Similarity=0.568  Sum_probs=28.0

Q ss_pred             ceeEEcCCCCCCccccceeeec-cCCCCCCccccccCC
Q 025507          215 KVWILCNDCGKTSNVQFHVLAQ-KCPNCKSYNTRLTRG  251 (251)
Q Consensus       215 ~~~IlCndC~~~s~~~~h~lg~-kC~~C~SyNT~~~~~  251 (251)
                      .+...|.+|+......-.  .. +||.|+|.++++++|
T Consensus        71 p~~~~C~~CG~~~e~~~~--~~~~CP~Cgs~~~~i~~G  106 (119)
T 2kdx_A           71 KVELECKDCSHVFKPNAL--DYGVCEKCHSKNVIITQG  106 (119)
T ss_dssp             CCEEECSSSSCEECSCCS--TTCCCSSSSSCCCEEEES
T ss_pred             cceEEcCCCCCEEeCCCC--CCCcCccccCCCcEEecC
Confidence            467899999988766432  46 899999999998765

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=81.08  E-value=1.2  Score=31.29  Aligned_cols=46  Identities=20%  Similarity=0.390  Sum_probs=31.6

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc---CCCCCCCCCcC
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH---HQYACPICSKS  187 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~---~~~~CP~Cr~~  187 (251)
                      ....|.||.+    ..+-+.=-.|...||..|+++.|..   +.-.||.|+..
T Consensus        11 ~~~~C~vC~~----~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           11 PGARCGVCGD----GTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TTCCCTTTSC----CTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCcCCCCC----CCeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            3467999975    2221111268899999999987764   34679999854

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*

Probab=80.55  E-value=0.12  Score=39.92  Aligned_cols=83  Identities=20%  Similarity=0.534  Sum_probs=46.0

Q ss_pred             CCCCcceecC--------CcceeeccCCCcce-----eccc-------cccccccCCCCCCCCcchhhhcccCCceeEE-
Q 025507          100 DGCGICRIGG--------CDNFFHCNKCRCCY-----SMLL-------KNSHPCVEGAMHHDCPVCCEYLFETRQDVIV-  158 (251)
Q Consensus       100 ~~CgiCR~g~--------~~~~fHC~~C~~c~-----~~~l-------~~~H~C~e~~~~~~CpICle~lf~s~~~~~~-  158 (251)
                      +.|+||..|+        +++...|+.|+.-+     .+.+       ...=.|.+=   ..|.||...  ++...++. 
T Consensus         2 ~~C~~C~~~~~~n~k~g~~~~Li~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C---~~C~~C~~~--~~~~~ll~C   76 (114)
T 2kwj_A            2 SYCDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIEC---KSCILCGTS--ENDDQLLFC   76 (114)
T ss_dssp             CCCSSSCCBTTBCTTTCCCCCCEECSSSCCEECTTTTTCCHHHHHHHHHTTCCCGGG---CCCTTTTCC--TTTTTEEEC
T ss_pred             CcCccCCCCccccccCCCCCCCeEeCCCCCccchhhCCChhhhhhccCCCccCcccc---CccCccccc--CCCCceEEc
Confidence            3466665543        45788888887544     3321       111222211   257888763  11222222 


Q ss_pred             cCCCCcccHHHHHHHHhc---CCCCCCCCCcC
Q 025507          159 LPCGHTIHKNCLKEMREH---HQYACPICSKS  187 (251)
Q Consensus       159 lpCgH~fH~~Ci~~wl~~---~~~~CP~Cr~~  187 (251)
                      -.|...||..|+.+=|..   +.-.||.|...
T Consensus        77 d~C~~~yH~~Cl~ppl~~~P~g~W~C~~C~~~  108 (114)
T 2kwj_A           77 DDCDRGYHMYCLNPPVAEPPEGSWSCHLCWEL  108 (114)
T ss_dssp             SSSCCEEETTTSSSCCSSCCSSCCCCHHHHHH
T ss_pred             CCCCccccccccCCCccCCCCCCeECccccch
Confidence            278899999999974432   34568888643

---

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	251
d2dkta2	56	g.93.1.1 (A:82-137) RING finger and CHY zinc finge	1e-18
d2dkta1	74	g.89.1.1 (A:8-81) RING finger and CHY zinc finger	6e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	6e-04

>d2dkta2 g.93.1.1 (A:82-137) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 56

class: Small proteins
fold: Zinc hairpin stack
superfamily: Zinc hairpin stack
family: Zinc hairpin stack
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 75.1 bits (185), Expect = 1e-18
 Identities = 32/58 (55%), Positives = 40/58 (68%), Gaps = 2/58 (3%)

Query: 78  GEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVE 135
           GEY+C  C LFD D  K+QYHC+ CGICRIG  ++FFHC KC  C +  L+  H C+E
Sbjct: 1   GEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCIE 56

>d2dkta1 g.89.1.1 (A:8-81) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 74

class: Small proteins
fold: CHY zinc finger-like
superfamily: CHY zinc finger-like
family: CHY zinc finger
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.0 bits (124), Expect = 6e-10
 Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 9/70 (12%)

Query: 6  CQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQK 65
          C+HY R C ++APCC++++ CR CH+             H + R +V +V C  C   Q 
Sbjct: 12 CEHYDRACLLKAPCCDKLYTCRLCHDTNE---------DHQLDRFKVKEVQCINCEKLQH 62

Query: 66 VQQVCVNCGV 75
           QQ C +C  
Sbjct: 63 AQQTCEDCST 72

>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 = 35.4 bits (81), Expect = 6e-04
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 4/47 (8%)

Query: 142 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 188
           C +C     E  +DV + PCGH +  +CL   +E     CP C   +
Sbjct: 26  CKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	251
d2dkta2	56	RING finger and CHY zinc finger domain-containing	99.96
d2dkta1	74	RING finger and CHY zinc finger domain-containing	99.71
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.44
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.39
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.35
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.32
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.25
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.24
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.22
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.05
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.95
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.92
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.85
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.82
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.81
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.8
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.78
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.31
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.19
d2dkta2	56	RING finger and CHY zinc finger domain-containing	87.75
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	86.78
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	84.53
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	83.28

>d2dkta2 g.93.1.1 (A:82-137) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Zinc hairpin stack
superfamily: Zinc hairpin stack
family: Zinc hairpin stack
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.96  E-value=1.8e-30  Score=179.25  Aligned_cols=56  Identities=57%  Similarity=1.394  Sum_probs=54.0

Q ss_pred             ceEecCccccccCCCCCCeeecCCCCcceecCCcceeeccCCCcceeccccccccccC
Q 025507           78 GEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVE  135 (251)
Q Consensus        78 ~~y~C~~C~~~d~~~~k~~~HC~~CgiCR~g~~~~~fHC~~C~~c~~~~l~~~H~C~e  135 (251)
                      |+|||+||||||||  |++||||+|||||||++++||||++||+||+++|+++|+|+|
T Consensus         1 G~YfC~iC~l~ddd--k~~yHC~~CgiCRvG~~~~ffHC~~C~~C~~~~l~~~H~CiE   56 (56)
T d2dkta2           1 GEYYCSICHLFDKD--KRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCIE   56 (56)
T ss_dssp             CSEECSSSCCEECS--SSEEEETTTTEEEESCGGGEEEETTTTEEEEGGGSSSSCCSC
T ss_pred             CceECCcCCcccCC--CCcccCCCCCceeecCCccccccCccccccCcccCCCccccC
Confidence            68999999999885  999999999999999999999999999999999999999997

>d2dkta1 g.89.1.1 (A:8-81) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: CHY zinc finger-like
superfamily: CHY zinc finger-like
family: CHY zinc finger
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.71  E-value=3.5e-18  Score=124.39  Aligned_cols=67  Identities=36%  Similarity=0.906  Sum_probs=63.6

Q ss_pred             CccCCccccccceeecCcCCCeecCcchhhhhccCcCcCcCCCCCCCCcccceeecCCCCccccccccCcCCCCcc
Q 025507            2 ITCRCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQKVQQVCVNCGVCM   77 (251)
Q Consensus         2 ~~~gC~HY~r~c~i~~pcC~~~y~Cr~CHde~~~~~~~~~~~~H~~~r~~~~~v~C~~C~~~q~~~~~C~~Cg~~f   77 (251)
                      ..+||+||+|+|+|+|++||++|+|+.||+++         ..|+++|++++.++|..|+++|++.+.|++||..|
T Consensus         8 ~~~gC~HY~r~~~l~C~~Cg~~~~C~~C~~~l---------t~H~~~~k~~~~l~CH~Cg~~~~~~~~C~~Cgs~F   74 (74)
T d2dkta1           8 GPRGCEHYDRACLLKAPCCDKLYTCRLCHDTN---------EDHQLDRFKVKEVQCINCEKLQHAQQTCEDCSTLF   74 (74)
T ss_dssp             CSSSCSSCCCSEEEEETTTTEEESSHHHHHHT---------SSSCCCSSSCCCEEESSSCCEECSCSBCSSSCCBS
T ss_pred             CCCCCcccCcceEEEcCcCcCeeeCCCCCCcc---------cccccccccCCEEEeccCCCcccCCCcCCCCCCCC
Confidence            35799999999999999999999999999998         48999999999999999999999999999999987

>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=99.44  E-value=1.1e-14  Score=98.59  Aligned_cols=50  Identities=28%  Similarity=0.634  Sum_probs=41.3

Q ss_pred             CCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       141 ~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +||||+|++..+...+.+++|||.||.+||.+|++..+.+||+||+++.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            69999997655444455679999999999999998766789999998863

>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=99.39  E-value=8.6e-14  Score=95.21  Aligned_cols=49  Identities=29%  Similarity=0.682  Sum_probs=40.1

Q ss_pred             CCCCcchhhhcccCCceeEEc-CCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~l-pCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      +.+||||++++. +++.++.+ +|||.||.+||.+|++. +.+||+||+++.
T Consensus         5 ~~~C~ICl~~~~-~~~~~~~l~~C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~   54 (55)
T d1iyma_           5 GVECAVCLAELE-DGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             SCCCTTTCCCCC-TTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCeEECcccc-CCCEEEEeCCCCCcccHHHHHHHHHh-CCcCCCCCCEeE
Confidence            357999999754 45556666 69999999999999985 689999998874

>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=99.35  E-value=2.3e-13  Score=95.76  Aligned_cols=52  Identities=23%  Similarity=0.578  Sum_probs=42.4

Q ss_pred             CCCCcchhhhcccCCce-eEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQD-VIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~-~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      +..||||++.++.+++. +++++|||.||.+||..|++..+.+||+||+++..
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            57899999976655433 45679999999999999997666789999998753

>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=99.32  E-value=2.7e-13  Score=96.03  Aligned_cols=51  Identities=25%  Similarity=0.626  Sum_probs=41.9

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccch
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDM  191 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~  191 (251)
                      +....||||++.+.+   +++.+||||.||..||.+|++. +.+||+||.++.++
T Consensus         3 ~~~d~C~IC~~~~~~---~~~~~~C~H~Fc~~Ci~~w~~~-~~~CP~CR~~i~~~   53 (68)
T d1chca_           3 TVAERCPICLEDPSN---YSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCCSSCCSCCCS---CEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCCE
T ss_pred             CCCCCCccCCcCccC---CcEEeCCCCcCcHHHHHHHHHh-CCcCCCCCcchHhh
Confidence            345689999996432   4677999999999999999985 57999999987653

>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=99.25  E-value=2.4e-12  Score=93.83  Aligned_cols=48  Identities=31%  Similarity=0.750  Sum_probs=40.3

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ...||||+|. +.   .++++||||.||.+||..|+.....+||+||+.+..
T Consensus        23 ~~~C~IC~~~-~~---~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          23 FQLCKICAEN-DK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             TTBCTTTSSS-BC---CEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCCccCCCc-CC---CeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            4569999985 33   367899999999999999998656789999999875

>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=99.24  E-value=1.9e-12  Score=99.56  Aligned_cols=55  Identities=27%  Similarity=0.454  Sum_probs=42.7

Q ss_pred             CCCCCCCcchhhhcccC--------------CceeEEcCCCCcccHHHHHHHHhcC----CCCCCCCCcCccc
Q 025507          136 GAMHHDCPVCCEYLFET--------------RQDVIVLPCGHTIHKNCLKEMREHH----QYACPICSKSVCD  190 (251)
Q Consensus       136 ~~~~~~CpICle~lf~s--------------~~~~~~lpCgH~fH~~Ci~~wl~~~----~~~CP~Cr~~~~~  190 (251)
                      +..+..|+||+|.|...              ...+.+++|||.||.+||..||+..    +.+||+||..+..
T Consensus        22 ~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          22 VAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             ccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            34467899999987432              2345678999999999999999753    3579999988764

>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=99.22  E-value=4e-12  Score=94.22  Aligned_cols=52  Identities=17%  Similarity=0.463  Sum_probs=39.2

Q ss_pred             CCCCCcchhhhccc--------------CCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          138 MHHDCPVCCEYLFE--------------TRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       138 ~~~~CpICle~lf~--------------s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .+++|+||++.+.+              ....++.++|||.||.+||.+||+. +.+||+||+++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH-CCcCCCCCCcccc
Confidence            35567777765422              1224677899999999999999995 6899999998763

>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=99.05  E-value=5.3e-11  Score=88.23  Aligned_cols=47  Identities=19%  Similarity=0.487  Sum_probs=39.7

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      ..||||+|. +.   .+++++|||+|+..||.+|++..+.+||+||.++..
T Consensus        24 l~C~IC~~~-~~---~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          24 ISCQICEHI-LA---DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             TBCTTTCSB-CS---SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCCccCCcc-hh---cceecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            479999985 43   366889999999999999998666789999998764

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=1.3e-10  Score=87.87  Aligned_cols=46  Identities=24%  Similarity=0.786  Sum_probs=37.7

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcC--CCCCCCCCcCcc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVC  189 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~--~~~CP~Cr~~~~  189 (251)
                      ..||||++. +.   .++.++|||+||..||..|+...  ..+||+||+++.
T Consensus        22 l~CpIC~~~-~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          22 LECPICLEL-IK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             TSCSSSCCC-CS---SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             cCCCccCch-hC---CeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC
Confidence            579999984 54   24568999999999999999753  358999999875

>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=98.92  E-value=6.9e-10  Score=80.20  Aligned_cols=48  Identities=15%  Similarity=0.170  Sum_probs=40.8

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .+..||||++ ++.   ++++++|||+|+..||..|+...+.+||+||.++.
T Consensus         6 ~~l~CpIc~~-l~~---dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~   53 (80)
T d2c2la2           6 DYLCGKISFE-LMR---EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT   53 (80)
T ss_dssp             STTBCTTTCS-BCS---SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             ccccCcCcCc-hhh---hhcccCCcCeecHHHHHHHHhcCCccCCCcccccc
Confidence            4568999998 555   35688999999999999999876678999999875

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.85  E-value=4e-10  Score=76.56  Aligned_cols=46  Identities=13%  Similarity=0.158  Sum_probs=37.3

Q ss_pred             CCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccc
Q 025507          141 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD  190 (251)
Q Consensus       141 ~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~  190 (251)
                      .||||++. +.  ++++...|||+|+.+||.+||+. +.+||+||+++..
T Consensus         2 ~C~Ic~~~-~~--~Pv~~~~cGh~fc~~cI~~~l~~-~~~CP~c~~~l~~   47 (56)
T d2baya1           2 LCAISGKV-PR--RPVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSI   47 (56)
T ss_dssp             CCTTTCSC-CS--SEEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCG
T ss_pred             CCccCCch-HH--hcCccCCCCCcccHHHHHHHHhh-ccCCCccCCcCCH
Confidence            59999994 44  24555579999999999999995 5789999988763

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=2.3e-10  Score=78.18  Aligned_cols=42  Identities=31%  Similarity=0.634  Sum_probs=34.6

Q ss_pred             CCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          140 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       140 ~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ..||||++. +.   .++++||||+||..||+.|    +.+||+||.++.
T Consensus         7 l~C~IC~~~-~~---~p~~lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~   48 (56)
T d1bora_           7 LRCQQCQAE-AK---CPKLLPCLHTLCSGCLEAS----GMQCPICQAPWP   48 (56)
T ss_dssp             SSCSSSCSS-CB---CCSCSTTSCCSBTTTCSSS----SSSCSSCCSSSS
T ss_pred             CCCcccCcc-cC---CCEEecCCCHHhHHHHHcC----CCcCcCCCCccc
Confidence            589999985 44   3567899999999999765    468999998886

>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=98.81  E-value=1.5e-09  Score=78.01  Aligned_cols=48  Identities=19%  Similarity=0.514  Sum_probs=40.4

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      .+..||||++ ++.   ++++++|||+|+++||..|+......||+|+.++.
T Consensus         7 ~~l~CpIc~~-~m~---dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~   54 (78)
T d1t1ha_           7 EYFRCPISLE-LMK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL   54 (78)
T ss_dssp             SSSSCTTTSC-CCS---SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS
T ss_pred             ccCCCcCcCc-hhh---CceEccCCCcchHHHHHHHHHHCCCCCCcccccCC
Confidence            4678999999 454   34578999999999999999866678999998875

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.80  E-value=8e-10  Score=75.81  Aligned_cols=51  Identities=25%  Similarity=0.436  Sum_probs=38.1

Q ss_pred             CCCCCCCCcchhhhcccCCceeEEcCC-----CCcccHHHHHHHHhc-CCCCCCCCCcCcc
Q 025507          135 EGAMHHDCPVCCEYLFETRQDVIVLPC-----GHTIHKNCLKEMREH-HQYACPICSKSVC  189 (251)
Q Consensus       135 e~~~~~~CpICle~lf~s~~~~~~lpC-----gH~fH~~Ci~~wl~~-~~~~CP~Cr~~~~  189 (251)
                      |+.....|+||+|.+ ++   ..+.||     +|.||..||..|++. ++.+||+||+++.
T Consensus         2 eded~~~C~IC~~~~-~~---~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           2 EDEDVPVCWICNEEL-GN---ERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TTCSCCEETTTTEEC-SC---CCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCCCccCCccC-CC---ceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            455677899999853 32   223344     599999999999865 4578999998764

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=1.2e-09  Score=81.66  Aligned_cols=45  Identities=22%  Similarity=0.581  Sum_probs=35.8

Q ss_pred             CCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          139 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       139 ~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ...||||++. |..  +++..+|||+||..||..|+.   .+||+||.++.
T Consensus        22 ~l~C~IC~~~-~~~--pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~   66 (97)
T d1jm7b_          22 LLRCSRCTNI-LRE--PVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAW   66 (97)
T ss_dssp             TTSCSSSCSC-CSS--CBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCS
T ss_pred             cCCCccCCch-hhc--CceeCCCCCchhHHHHHHHHh---ccccccCCcCc
Confidence            4589999995 542  444558999999999999985   46999998764

>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=98.31  E-value=1.9e-07  Score=68.56  Aligned_cols=48  Identities=21%  Similarity=0.413  Sum_probs=36.2

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhc-------CCCCCCCCC
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-------HQYACPICS  185 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~-------~~~~CP~Cr  185 (251)
                      +....||||++++ ...+.+..++|||.||.+|+..|+..       ...+||.|+
T Consensus         3 ~~~~~C~IC~~~~-~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           3 SGSSGCKLCLGEY-PVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             CSBCCCSSSCCCC-BGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCCcCccCCCcc-cCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            3457899999964 43445666799999999999999863       124699865

>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=98.19  E-value=1.8e-06  Score=64.39  Aligned_cols=48  Identities=17%  Similarity=0.230  Sum_probs=39.7

Q ss_pred             CCCCCCcchhhhcccCCceeEEcCCC-CcccHHHHHHHHhcCCCCCCCCCcCcc
Q 025507          137 AMHHDCPVCCEYLFETRQDVIVLPCG-HTIHKNCLKEMREHHQYACPICSKSVC  189 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~~lpCg-H~fH~~Ci~~wl~~~~~~CP~Cr~~~~  189 (251)
                      ..+..||||++ ++.   ++|++||| |+|.+.||..||.. +.+||+||.++.
T Consensus        20 P~~f~CPI~~~-lm~---dPV~~~~~~~ty~r~~I~~~l~~-~~~~P~~~~~l~   68 (98)
T d1wgma_          20 CDEFLDPIMST-LMC---DPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLT   68 (98)
T ss_dssp             CTTTBCTTTCS-BCS---SEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCC
T ss_pred             cHHhCCcCchh-HHH---HHHhcccccchhhHHHHHHHHHh-cCCccccccccc
Confidence            45679999998 555   46688876 58999999999985 579999999886

>d2dkta2 g.93.1.1 (A:82-137) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Zinc hairpin stack
superfamily: Zinc hairpin stack
family: Zinc hairpin stack
domain: RING finger and CHY zinc finger domain-containing protein 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.75  E-value=0.088  Score=34.68  Aligned_cols=30  Identities=30%  Similarity=0.824  Sum_probs=21.3

Q ss_pred             eEecCccccccCCCCCCeeecCCCCcceec
Q 025507           79 EYFCESCKLFDDDTSKKQYHCDGCGICRIG  108 (251)
Q Consensus        79 ~y~C~~C~~~d~~~~k~~~HC~~CgiCR~g  108 (251)
                      .|-|+.|.+=--...++-|||+.||+|-.-
T Consensus        17 ~yHC~~CgiCRvG~~~~ffHC~~C~~C~~~   46 (56)
T d2dkta2          17 QYHCESCGICRIGPKEDFFHCLKCNLCLTT   46 (56)
T ss_dssp             EEEETTTTEEEESCGGGEEEETTTTEEEEG
T ss_pred             cccCCCCCceeecCCccccccCccccccCc
Confidence            366666655543446799999999999754

>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=86.78  E-value=0.13  Score=32.30  Aligned_cols=44  Identities=25%  Similarity=0.657  Sum_probs=28.8

Q ss_pred             CCcchhhhcccCCceeEE-cCCCCcccHHHHHHHHhc---CCCCCCCCCc
Q 025507          141 DCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMREH---HQYACPICSK  186 (251)
Q Consensus       141 ~CpICle~lf~s~~~~~~-lpCgH~fH~~Ci~~wl~~---~~~~CP~Cr~  186 (251)
                      .|.||...  ++....+. =.|.-.||..|+++-+..   +...||.|+.
T Consensus         2 ~C~vC~~~--~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKK--GEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCS--SCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCC--CCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            57778642  22222222 268999999999986543   3467999985

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=84.53  E-value=0.044  Score=37.81  Aligned_cols=67  Identities=22%  Similarity=0.441  Sum_probs=45.8

Q ss_pred             CCCCCcchhhhcccCCceeEEcCCCCcccHHHHHHHHhcCCCCCCCCCcCccchhHHHHHHHHHHhcCCCCHhhhcCcee
Q 025507          138 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVW  217 (251)
Q Consensus       138 ~~~~CpICle~lf~s~~~~~~lpCgH~fH~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~ld~~i~~~p~P~e~~~~~~~  217 (251)
                      |+..||.|...|-..        =||..+..|-..+..  ...||.|..++..+.                   +=..++
T Consensus         1 m~~~CP~C~~eL~~~--------~~~~~C~~C~~~~~~--~a~CPdC~~~Le~Lk-------------------ACGAvd   51 (71)
T d2jnea1           1 MELHCPQCQHVLDQD--------NGHARCRSCGEFIEM--KALCPDCHQPLQVLK-------------------ACGAVD   51 (71)
T ss_dssp             CCCBCSSSCSBEEEE--------TTEEEETTTCCEEEE--EEECTTTCSBCEEEE-------------------ETTEEE
T ss_pred             CCCcCCCccCccccc--------CCCEehhhhhhhhee--EEeCCccccHHHHHH-------------------hccchh
Confidence            467899999754321        166777777666644  257999998876532                   223588


Q ss_pred             EEcCCCCC---Ccccccee
Q 025507          218 ILCNDCGK---TSNVQFHV  233 (251)
Q Consensus       218 IlCndC~~---~s~~~~h~  233 (251)
                      ..|+.|.+   ++-|.|++
T Consensus        52 YFC~~cn~LiSKkrv~f~~   70 (71)
T d2jnea1          52 YFCQHGHGLISKKRVEFVL   70 (71)
T ss_dssp             EEETTTTEEECTTTSEEEE
T ss_pred             hhhccCCceeEeeeEEEEe
Confidence            99999984   66777764

>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=83.28  E-value=0.091  Score=34.67  Aligned_cols=50  Identities=30%  Similarity=0.575  Sum_probs=32.6

Q ss_pred             CCCCCCcchhhhcccCCceeE-EcCCCCcccHHHHHHHH---h-cCCCCCCCCCcC
Q 025507          137 AMHHDCPVCCEYLFETRQDVI-VLPCGHTIHKNCLKEMR---E-HHQYACPICSKS  187 (251)
Q Consensus       137 ~~~~~CpICle~lf~s~~~~~-~lpCgH~fH~~Ci~~wl---~-~~~~~CP~Cr~~  187 (251)
                      .....|+||.+. .+.....+ =-.|+..||..|+..-.   . ...+.||.|+..
T Consensus         4 ~~~~~C~~C~~~-~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           4 GSSGQCGACGES-YAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCC-CCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCcCcCcCCC-CCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            346799999873 33322222 23789999999997421   1 145889999854