Psyllid ID: psy8622

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-
Protein Sequence
MKTKQHFFLVHHFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPAGAGE
Secondary Structure (PSIPRED)
cccccEEEEcccccccccccccccccccccEEEEcccccccccccccccccccccEEEccccccccccHHHHHcccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEccccccHHHHccccccccccHHHcccccccEcEEEHHHcccccEEEEccccccccHHcHHHHHHHccccccEccccccccccccccccccc
Coil and Loop (DISEMBL)
MKTKQHFFLVHHfsysslgsvhnttrnpalvqvrtddsnlqcsvcweQFTLDEAvrklpcdhfyhtpciepwlqlhgtcpicrqtlhsesaeslgpagage
Flexible Loop (DISEMBL)
MKTKQHFFLVHHFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHsesaeslgpagage
Low Complexity Region (SEG)
MKTKQHFFLVHHFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPAGAGE
Disordered region (IsUnstruct)
*****HFFLVHHFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQT****************
Disordered Region (DISOPRED)
*KTKQHFFL*******************************QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR******************
Disordered Region (DISEMBL)
MKTKQHFFLVHHFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS*************
Disordered Region (DISPRO)
**TKQHFFLVHHFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL***************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKTKQHFFLVHHFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPAGAGE
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	101	2.2.26 [Sep-21-2011]
Q9Y4L5	304	E3 ubiquitin-protein liga	yes	N/A	0.732	0.243	0.435	7e-15
Q9D0C1	305	E3 ubiquitin-protein liga	yes	N/A	0.732	0.242	0.423	1e-14
Q6DIP3	311	RING finger protein 126 O	no	N/A	0.594	0.192	0.466	7e-13
Q7T0Q3	312	RING finger protein 126-A	N/A	N/A	0.594	0.192	0.466	2e-12
Q6IRP0	312	RING finger protein 126-B	N/A	N/A	0.574	0.185	0.465	2e-12
Q91YL2	313	RING finger protein 126 O	no	N/A	0.623	0.201	0.444	3e-12
Q0II22	313	RING finger protein 126 O	no	N/A	0.623	0.201	0.444	1e-11
Q9BV68	326	RING finger protein 126 O	no	N/A	0.623	0.193	0.428	2e-11
Q9M2S6	273	E3 ubiquitin-protein liga	no	N/A	0.514	0.190	0.538	3e-11
Q9C1X4	513	Uncharacterized RING fing	yes	N/A	0.554	0.109	0.410	2e-10

>sp|Q9Y4L5|RN115_HUMAN E3 ubiquitin-protein ligase RNF115 OS=Homo sapiens GN=RNF115 PE=1 SV=2

 Score = 79.0 bits (193), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 37/85 (43%), Positives = 53/85 (62%), Gaps = 11/85 (12%)

Query: 18  LGSVHNTTRNPALVQVRTD-----------DSNLQCSVCWEQFTLDEAVRKLPCDHFYHT 66
           LG + NT   PA  +  T            D  L+C VC E +T++E VR+LPC+HF+H+
Sbjct: 193 LGQLENTGPPPADKEKITSLPTVTVTQEQVDMGLECPVCKEDYTVEEEVRQLPCNHFFHS 252

Query: 67  PCIEPWLQLHGTCPICRQTLHSESA 91
            CI PWL+LH TCP+CR++L+ E +
Sbjct: 253 SCIVPWLELHDTCPVCRKSLNGEDS 277

Acts as an E2-dependent E3 ubiquitin-protein ligase. May be involved in endocytic trafficking.
Homo sapiens (taxid: 9606)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9D0C1|RN115_MOUSE E3 ubiquitin-protein ligase RNF115 OS=Mus musculus GN=Rnf115 PE=1 SV=1

 Score = 78.6 bits (192), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 36/85 (42%), Positives = 54/85 (63%), Gaps = 11/85 (12%)

Query: 18  LGSVHNTTRNPALVQVRTD-----------DSNLQCSVCWEQFTLDEAVRKLPCDHFYHT 66
           LG + NT   PA  +  T            ++ L+C VC E +T++E VR+LPC+HF+H+
Sbjct: 194 LGQLENTGPPPADKEKITSLPTVTVTQEQVNTGLECPVCKEDYTVEEKVRQLPCNHFFHS 253

Query: 67  PCIEPWLQLHGTCPICRQTLHSESA 91
            CI PWL+LH TCP+CR++L+ E +
Sbjct: 254 SCIVPWLELHDTCPVCRKSLNGEDS 278

Acts as an E2-dependent E3 ubiquitin-protein ligase. May be involved in endocytic trafficking.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6DIP3|RN126_XENTR RING finger protein 126 OS=Xenopus tropicalis GN=rnf126 PE=2 SV=1

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 28/60 (46%), Positives = 42/60 (70%)

Query: 38  SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA 97
           S L+C VC E +T+ E+VR+LPC+H +H  CI PWL+ H TCP+CR++L  ++  +  P 
Sbjct: 223 SGLECPVCKEDYTVGESVRQLPCNHLFHNDCIIPWLEQHDTCPVCRKSLSGQNTATNPPG 282

Xenopus tropicalis (taxid: 8364)

>sp|Q7T0Q3|R126A_XENLA RING finger protein 126-A OS=Xenopus laevis GN=rnf126-a PE=2 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 28/60 (46%), Positives = 41/60 (68%)

Query: 38  SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA 97
           S L+C VC E +T+ E VR+LPC+H +H  CI PWL+ H TCP+CR++L  ++  +  P 
Sbjct: 224 SGLECPVCKEDYTVGECVRQLPCNHLFHNDCIIPWLEQHDTCPVCRKSLSGQNTATNPPG 283

Xenopus laevis (taxid: 8355)

>sp|Q6IRP0|R126B_XENLA RING finger protein 126-B OS=Xenopus laevis GN=rnf126-b PE=2 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 27/58 (46%), Positives = 41/58 (70%)

Query: 40  LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA 97
           L+C VC E +T+ E+VR+LPC+H +H  CI PWL+ H TCP+CR++L  ++  +  P 
Sbjct: 226 LECPVCKEDYTVGESVRQLPCNHLFHNDCIIPWLEQHDTCPVCRKSLSGQNTATNPPG 283

Xenopus laevis (taxid: 8355)

>sp|Q91YL2|RN126_MOUSE RING finger protein 126 OS=Mus musculus GN=Rnf126 PE=1 SV=1

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 42/63 (66%)

Query: 38  SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA 97
           S L+C VC E + L E+VR+LPC+H +H  CI PWL+ H +CP+CR++L  ++  +  P 
Sbjct: 227 SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPPG 286

Query: 98  GAG 100
             G
Sbjct: 287 LTG 289

Mus musculus (taxid: 10090)

>sp|Q0II22|RN126_BOVIN RING finger protein 126 OS=Bos taurus GN=RNF126 PE=2 SV=1

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 42/63 (66%)

Query: 38  SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA 97
           S L+C VC + + L E VR+LPC+H +H  CI PWL+ H +CP+CR++L  ++  +  P 
Sbjct: 228 SGLECPVCKDDYGLGEHVRQLPCNHLFHDGCIVPWLEQHDSCPVCRKSLTGQNTATDPPG 287

Query: 98  GAG 100
            AG
Sbjct: 288 LAG 290

Bos taurus (taxid: 9913)

>sp|Q9BV68|RN126_HUMAN RING finger protein 126 OS=Homo sapiens GN=RNF126 PE=1 SV=1

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 27/63 (42%), Positives = 41/63 (65%)

Query: 38  SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA 97
           S L+C VC + + L E VR+LPC+H +H  CI PWL+ H +CP+CR++L  ++  +  P 
Sbjct: 225 SGLECPVCKDDYALGERVRQLPCNHLFHDGCIVPWLEQHDSCPVCRKSLTGQNTATNPPG 284

Query: 98  GAG 100
             G
Sbjct: 285 LTG 287

Homo sapiens (taxid: 9606)

>sp|Q9M2S6|SDIR1_ARATH E3 ubiquitin-protein ligase SDIR1 OS=Arabidopsis thaliana GN=SDIR1 PE=1 SV=1

 Score = 67.4 bits (163), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 28/52 (53%), Positives = 35/52 (67%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
           +  L CSVC EQ T+ E VR LPC H +H  CI+PWL+  GTCP+C+   HS
Sbjct: 206 EDELTCSVCLEQVTVGEIVRTLPCLHQFHAGCIDPWLRQQGTCPVCKFRAHS 257

E3 ubiquitin-protein ligase that acts as a positive regulator of abscisic acid-related stress signal transduction.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C1X4|YKW3_SCHPO Uncharacterized RING finger protein P32A8.03c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAP32A8.03c PE=4 SV=1

 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 38/56 (67%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE 92
           D   +C++C E F +++ V +LPC H++H  CI+PWL+++GTC ICR  +   S +
Sbjct: 391 DEEGECTICMEMFKINDDVIQLPCKHYFHENCIKPWLRVNGTCAICRAPVDPNSQQ 446

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

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	101
322795670	316	hypothetical protein SINV_04512 [Solenop	0.534	0.170	0.685	6e-18
307199729	324	RING finger protein 126 [Harpegnathos sa	0.633	0.197	0.594	7e-18
270000781	306	hypothetical protein TcasGA2_TC011026 [T	0.702	0.232	0.544	9e-18
91091942	295	PREDICTED: similar to CG11982 CG11982-PA	0.702	0.240	0.544	9e-18
289742067	352	zinc finger protein 364 [Glossina morsit	0.623	0.178	0.6	1e-17
321468766	431	hypothetical protein DAPPUDRAFT_304341 [	0.564	0.132	0.666	2e-17
156539061	150	PREDICTED: E3 ubiquitin-protein ligase R	0.633	0.426	0.594	2e-17
350417770	310	PREDICTED: E3 ubiquitin-protein ligase R	0.574	0.187	0.672	5e-17
340729326	310	PREDICTED: e3 ubiquitin-protein ligase R	0.574	0.187	0.672	5e-17
242006631	346	RING finger protein, putative [Pediculus	0.554	0.161	0.701	5e-17

>gi|322795670|gb|EFZ18349.1| hypothetical protein SINV_04512 [Solenopsis invicta]

 Score = 94.7 bits (234), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 37/54 (68%), Positives = 41/54 (75%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
           D  LQCSVCWE F L E VR+LPC H YH PCI PWL+LHGTCPICRQ L  ++
Sbjct: 235 DCKLQCSVCWEDFKLSEPVRQLPCQHVYHAPCIVPWLELHGTCPICRQNLGDQN 288

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307199729|gb|EFN80208.1| RING finger protein 126 [Harpegnathos saltator]

 Score = 94.4 bits (233), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 41/69 (59%), Positives = 51/69 (73%), Gaps = 5/69 (7%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA----- 91
           DS LQCSVCWE F L E VR+LPC H YH PCI PWL+LHGTCPICRQ+L  +++     
Sbjct: 225 DSKLQCSVCWEDFKLSEPVRQLPCQHVYHAPCIVPWLELHGTCPICRQSLGDQNSTEANQ 284

Query: 92  ESLGPAGAG 100
           +++GP+ A 
Sbjct: 285 DTVGPSLAA 293

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270000781|gb|EEZ97228.1| hypothetical protein TcasGA2_TC011026 [Tribolium castaneum]

 Score = 94.4 bits (233), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 43/79 (54%), Positives = 54/79 (68%), Gaps = 8/79 (10%)

Query: 30  LVQVRTD--DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL- 86
           ++ V++D  D+ LQCSVCWE F L E VR+LPC H YH PCI PWL+LHGTCPICRQ L 
Sbjct: 193 VINVKSDQVDAKLQCSVCWEDFQLGENVRQLPCTHIYHEPCIRPWLELHGTCPICRQNLV 252

Query: 87  -----HSESAESLGPAGAG 100
                +S+S +  G +  G
Sbjct: 253 NDEQSNSDSNQDSGGSSTG 271

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91091942|ref|XP_975905.1| PREDICTED: similar to CG11982 CG11982-PA isoform 2 [Tribolium castaneum]

 Score = 94.0 bits (232), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 43/79 (54%), Positives = 54/79 (68%), Gaps = 8/79 (10%)

Query: 30  LVQVRTD--DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL- 86
           ++ V++D  D+ LQCSVCWE F L E VR+LPC H YH PCI PWL+LHGTCPICRQ L 
Sbjct: 182 VINVKSDQVDAKLQCSVCWEDFQLGENVRQLPCTHIYHEPCIRPWLELHGTCPICRQNLV 241

Query: 87  -----HSESAESLGPAGAG 100
                +S+S +  G +  G
Sbjct: 242 NDEQSNSDSNQDSGGSSTG 260

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|289742067|gb|ADD19781.1| zinc finger protein 364 [Glossina morsitans morsitans]

 Score = 93.6 bits (231), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 39/65 (60%), Positives = 47/65 (72%), Gaps = 2/65 (3%)

Query: 31  VQVRTD--DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
           V+V  D  DS LQCSVCWE F L E VRKLPC H +H  CI PWL LHGTCPICR++L+ 
Sbjct: 203 VEVTKDVVDSKLQCSVCWEDFKLKEIVRKLPCSHLFHEDCIVPWLDLHGTCPICRKSLNG 262

Query: 89  ESAES 93
           +  ++
Sbjct: 263 DDEDN 267

Source: Glossina morsitans morsitans

Species: Glossina morsitans

Genus: Glossina

Family: Glossinidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321468766|gb|EFX79749.1| hypothetical protein DAPPUDRAFT_304341 [Daphnia pulex]

 Score = 93.2 bits (230), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/57 (66%), Positives = 46/57 (80%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAES 93
           + NLQCSVCWE F L E VRKL C+H+YHT CI PWLQLHGTCPICR+ L+ +S ++
Sbjct: 221 EQNLQCSVCWEDFKLAEPVRKLVCEHYYHTQCIVPWLQLHGTCPICRKALNDDSVDA 277

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156539061|ref|XP_001599771.1| PREDICTED: E3 ubiquitin-protein ligase RNF115-like, partial [Nasonia vitripennis]

 Score = 93.2 bits (230), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 41/69 (59%), Positives = 51/69 (73%), Gaps = 5/69 (7%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA----- 91
           D  LQCSVCWE F L+E+VR+LPC H YH PCI PWL+LHGTCPICRQ+L  +S      
Sbjct: 52  DCKLQCSVCWEDFVLEESVRQLPCQHVYHAPCIVPWLELHGTCPICRQSLGEQSTFDANQ 111

Query: 92  ESLGPAGAG 100
           +++GP+ A 
Sbjct: 112 DTVGPSLAA 120

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350417770|ref|XP_003491586.1| PREDICTED: E3 ubiquitin-protein ligase RNF115-like [Bombus impatiens]

 Score = 91.7 bits (226), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 39/58 (67%), Positives = 46/58 (79%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESL 94
           DS LQCSVCWE F L E V++LPC H YHTPCI PWL+LHGTCPICRQ L S+++  +
Sbjct: 210 DSKLQCSVCWEDFKLSEPVKQLPCLHLYHTPCIVPWLELHGTCPICRQHLGSQNSAEV 267

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340729326|ref|XP_003402955.1| PREDICTED: e3 ubiquitin-protein ligase RNF115-like [Bombus terrestris]

 Score = 91.7 bits (226), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 39/58 (67%), Positives = 46/58 (79%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESL 94
           DS LQCSVCWE F L E V++LPC H YHTPCI PWL+LHGTCPICRQ L S+++  +
Sbjct: 210 DSKLQCSVCWEDFKLSEPVKQLPCLHLYHTPCIVPWLELHGTCPICRQHLGSQNSAEV 267

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242006631|ref|XP_002424152.1| RING finger protein, putative [Pediculus humanus corporis] gi|212507477|gb|EEB11414.1| RING finger protein, putative [Pediculus humanus corporis]

 Score = 91.7 bits (226), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/57 (70%), Positives = 46/57 (80%), Gaps = 1/57 (1%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS-ESAE 92
           DS LQCSVCWE F + E+VRKL C+HFYH  CI PWL+LHGTCPICR++L S E AE
Sbjct: 227 DSKLQCSVCWEDFKIGESVRKLECEHFYHESCIVPWLELHGTCPICRKSLLSDEEAE 283

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	101
FB|FBgn0037653	380	CG11982 [Drosophila melanogast	0.623	0.165	0.523	1.9e-17
UNIPROTKB|Q9Y4L5	304	RNF115 "E3 ubiquitin-protein l	0.544	0.180	0.545	2.9e-16
UNIPROTKB|E2QY59	319	RNF115 "Uncharacterized protei	0.544	0.172	0.545	3.9e-16
ZFIN|ZDB-GENE-061215-82	310	rnf115 "ring finger protein 11	0.603	0.196	0.5	4.1e-16
UNIPROTKB|F1SDD6	231	F1SDD6 "Uncharacterized protei	0.623	0.272	0.5	6e-16
UNIPROTKB|I3LDQ5	293	LOC100739432 "Uncharacterized	0.623	0.215	0.5	6e-16
MGI|MGI:1915095	305	Rnf115 "ring finger protein 11	0.544	0.180	0.527	6.3e-16
UNIPROTKB|F6RQU6	293	RNF115 "Uncharacterized protei	0.623	0.215	0.484	9.8e-16
ZFIN|ZDB-GENE-060503-608	301	si:ch211-81a5.1 "si:ch211-81a5	0.495	0.166	0.58	9.1e-15
TAIR|locus:2050522	180	AT2G44330 [Arabidopsis thalian	0.623	0.35	0.476	4.9e-14

FB|FBgn0037653 CG11982 [Drosophila melanogaster (taxid:7227)]

 Score = 217 (81.4 bits), Expect = 1.9e-17, P = 1.9e-17
 Identities = 34/65 (52%), Positives = 46/65 (70%)

Query:    31 VQVRTDDSN--LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
             VQ+  ++ N  +QCS+CW+ F +DE VRKLPC H YH  CI PWL LH TCPICR++L  
Sbjct:   240 VQINAEEVNRKIQCSICWDDFKIDETVRKLPCSHLYHENCIVPWLNLHSTCPICRKSLAD 299

Query:    89 ESAES 93
             +  ++
Sbjct:   300 DGNDA 304

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9Y4L5 RNF115 "E3 ubiquitin-protein ligase RNF115" [Homo sapiens (taxid:9606)]

 Score = 202 (76.2 bits), Expect = 2.9e-16, P = 2.9e-16
 Identities = 30/55 (54%), Positives = 44/55 (80%)

Query:    37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
             D  L+C VC E +T++E VR+LPC+HF+H+ CI PWL+LH TCP+CR++L+ E +
Sbjct:   223 DMGLECPVCKEDYTVEEEVRQLPCNHFFHSSCIVPWLELHDTCPVCRKSLNGEDS 277

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=ISS

GO:0051865 "protein autoubiquitination" evidence=IDA

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

UNIPROTKB|E2QY59 RNF115 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 202 (76.2 bits), Expect = 3.9e-16, P = 3.9e-16
 Identities = 30/55 (54%), Positives = 44/55 (80%)

Query:    37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
             D  L+C VC E +T++E VR+LPC+HF+H+ CI PWL+LH TCP+CR++L+ E +
Sbjct:   239 DMGLECPVCKEDYTVEEEVRQLPCNHFFHSSCIVPWLELHDTCPVCRKSLNGEDS 293

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-061215-82 rnf115 "ring finger protein 115" [Danio rerio (taxid:7955)]

 Score = 201 (75.8 bits), Expect = 4.1e-16, P = 4.1e-16
 Identities = 31/62 (50%), Positives = 47/62 (75%)

Query:    30 LVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
             + Q  TD  N++C VC E +T+ E VR+LPC+HF+H+ CI PWL+LH TCP+CR++L+ +
Sbjct:   227 ITQEHTD-CNMECPVCKEDYTVGEPVRQLPCNHFFHSDCIVPWLELHDTCPVCRKSLNGD 285

Query:    90 SA 91
              +
Sbjct:   286 ES 287

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1SDD6 F1SDD6 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 199 (75.1 bits), Expect = 6.0e-16, P = 6.0e-16
 Identities = 32/64 (50%), Positives = 46/64 (71%)

Query:    37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE-SAESLG 95
             D  L+C VC E +T++E VR+LPC+HF+H+ CI PWL+LH  CP+CR++L  E S +   
Sbjct:   150 DKGLECPVCKEDYTVEEEVRQLPCNHFFHSSCIVPWLELHDACPVCRKSLSGEDSTQQTQ 209

Query:    96 PAGA 99
              +GA
Sbjct:   210 TSGA 213

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|I3LDQ5 LOC100739432 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 199 (75.1 bits), Expect = 6.0e-16, P = 6.0e-16
 Identities = 32/64 (50%), Positives = 46/64 (71%)

Query:    37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE-SAESLG 95
             D  L+C VC E +T++E VR+LPC+HF+H+ CI PWL+LH  CP+CR++L  E S +   
Sbjct:   212 DKGLECPVCKEDYTVEEEVRQLPCNHFFHSSCIVPWLELHDACPVCRKSLSGEDSTQQTQ 271

Query:    96 PAGA 99
              +GA
Sbjct:   272 TSGA 275

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1915095 Rnf115 "ring finger protein 115" [Mus musculus (taxid:10090)]

 Score = 199 (75.1 bits), Expect = 6.3e-16, P = 6.3e-16
 Identities = 29/55 (52%), Positives = 45/55 (81%)

Query:    37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
             ++ L+C VC E +T++E VR+LPC+HF+H+ CI PWL+LH TCP+CR++L+ E +
Sbjct:   224 NTGLECPVCKEDYTVEEKVRQLPCNHFFHSSCIVPWLELHDTCPVCRKSLNGEDS 278

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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051865 "protein autoubiquitination" evidence=ISO

UNIPROTKB|F6RQU6 RNF115 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 197 (74.4 bits), Expect = 9.8e-16, P = 9.8e-16
 Identities = 31/64 (48%), Positives = 47/64 (73%)

Query:    37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE-SAESLG 95
             D  L+C VC E +T++E VR+LPC+H++H+ CI PWL+LH  CP+CR++L+ E S +   
Sbjct:   212 DKGLECPVCKEDYTVEEEVRQLPCNHYFHSSCIVPWLELHDACPVCRKSLNGEDSTQQTQ 271

Query:    96 PAGA 99
              +GA
Sbjct:   272 RSGA 275

GO:0051865 "protein autoubiquitination" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-060503-608 si:ch211-81a5.1 "si:ch211-81a5.1" [Danio rerio (taxid:7955)]

 Score = 189 (71.6 bits), Expect = 9.1e-15, P = 9.1e-15
 Identities = 29/50 (58%), Positives = 41/50 (82%)

Query:    40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
             L+C VC E+F++ E+VR+LPC H++H+ CI PWLQLH TCP+CR++L  E
Sbjct:   223 LECPVCREEFSVGESVRQLPCLHYFHSSCIVPWLQLHDTCPVCRKSLDGE 272

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2050522 AT2G44330 [Arabidopsis thaliana (taxid:3702)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 30/63 (47%), Positives = 40/63 (63%)

Query:    30 LVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
             L    +DDS L C++C E F + E+ R+LPC+H YH  CI PWL  H +CP+CR  L   
Sbjct:    84 LSSASSDDSALPCAICREDFVVGESARRLPCNHLYHNDCIIPWLTSHNSCPLCRVELPVA 143

Query:    90 SAE 92
             S+E
Sbjct:   144 SSE 146

GO:0005634 "nucleus" evidence=ISM

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

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	101
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-13
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	3e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	4e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-07
smart00184	40	smart00184, RING, Ring finger	1e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	3e-05
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	3e-05
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	2e-04
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	3e-04
smart00504	63	smart00504, Ubox, Modified RING finger domain	5e-04
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	7e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	0.001

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

 Score = 59.3 bits (144), Expect = 1e-13
 Identities = 18/44 (40%), Positives = 27/44 (61%)

Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
          +C +C ++F   E V  LPC H +H  C++ WL+   TCP+CR 
Sbjct: 2  ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRA 45

Length = 46

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

 Score = 60.4 bits (146), Expect = 3e-12
 Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)

Query: 15  YSSLGSVHNTTRNPAL-----VQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCI 69
           YSS  ++  TT   +L      +    D  ++C++C   F  ++ +R LPCDH +H  C+
Sbjct: 294 YSSSEAIPTTTTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCV 353

Query: 70  EPWLQLHG-TCPICRQTL 86
           + WL  +   CP+CR  +
Sbjct: 354 DKWLLGYSNKCPVCRTAI 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 = 47.8 bits (114), Expect = 4e-09
 Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 3/47 (6%)

Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWL-QLHGTCPICRQTL 86
          +C +C E+F   E V  LPC H +   CI+ WL     TCP+CR  +
Sbjct: 1  ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 42.9 bits (101), Expect = 3e-07
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 2/47 (4%)

Query: 38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
            L+C +C +     + V   PC H +   CI  +L+    CPICR 
Sbjct: 1  EELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 45.7 bits (108), Expect = 5e-07
 Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 11/85 (12%)

Query: 12  HFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQF----------TLDEAVRKLPCD 61
           H  +       N     A  +  T+     C++C ++            LD   ++LPC 
Sbjct: 261 HARFRRATKDLNAMYPTATEEQLTNSDRT-CTICMDEMFHPDHEPLPRGLDMTPKRLPCG 319

Query: 62  HFYHTPCIEPWLQLHGTCPICRQTL 86
           H  H  C++ WL+   TCPICR+ +
Sbjct: 320 HILHLHCLKNWLERQQTCPICRRPV 344

Length = 491

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

 Score = 38.6 bits (90), Expect = 1e-05
 Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPIC 82
          C +C E++   +    LPC H +   CI  WL+    TCPIC
Sbjct: 1  CPICLEEY--LKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 40.8 bits (95), Expect = 3e-05
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 10/51 (19%)

Query: 41   QCSVCWEQFTLDEAVRKLP------CDHFYHTPCIEPWLQLHG--TCPICR 83
            +C++C+    LD   R LP      C + +HT C+  W        CP+CR
Sbjct: 1471 ECAICY--SVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCR 1519

Length = 1525

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

 Score = 38.6 bits (90), Expect = 3e-05
 Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 11/43 (25%)

Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR 83
           C V W             C H +H  CI  WL+   TCP+CR
Sbjct: 42 DCPVVW-----------GECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 38.1 bits (88), Expect = 2e-04
 Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 6/63 (9%)

Query: 23 NTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPIC 82
           TT  P+L  +   D++L+C +C + F   +      C H + + CI   L     CP+C
Sbjct: 13 LTTPIPSLYPL---DTSLRCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLC 66

Query: 83 RQT 85
          R  
Sbjct: 67 RAE 69

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

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

 Score = 36.4 bits (84), Expect = 3e-04
 Identities = 13/26 (50%), Positives = 16/26 (61%)

Query: 60 CDHFYHTPCIEPWLQLHGTCPICRQT 85
          C+H +H  CI  WL   G CP+ RQT
Sbjct: 54 CNHAFHDHCIYRWLDTKGVCPLDRQT 79

Length = 88

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

 Score = 35.3 bits (82), Expect = 5e-04
 Identities = 11/23 (47%), Positives = 12/23 (52%)

Query: 68 CIEPWLQLHGTCPICRQTLHSES 90
           IE WL  HGT P+  Q L  E 
Sbjct: 27 AIEKWLLSHGTDPVTGQPLTHED 49

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

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

 Score = 36.6 bits (84), Expect = 7e-04
 Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 6/61 (9%)

Query: 23 NTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPIC 82
          N T+ P+L  +   DS L+C +C  +        +  C H + + CI   L     CP+C
Sbjct: 12 NQTKIPSLKGL---DSMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVC 65

Query: 83 R 83
          R
Sbjct: 66 R 66

Length = 391

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

 Score = 33.2 bits (76), Expect = 0.001
 Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPIC 82
          C +C E     + V  LPC H + + CI  WL+  + TCP+C
Sbjct: 1  CPICLE--EPKDPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	101
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.73
KOG4628|consensus	348		99.62
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.54
KOG0317|consensus	293		99.53
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.49
PHA02929	238	N1R/p28-like protein; Provisional	99.49
KOG0823|consensus	230		99.47
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.44
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.44
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.42
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.41
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.34
KOG0320|consensus	187		99.3
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.3
PF14634	44	zf-RING_5: zinc-RING finger domain	99.28
KOG0802|consensus	543		99.26
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.23
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.22
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.2
PHA02926	242	zinc finger-like protein; Provisional	99.19
KOG2164|consensus	513		99.16
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.15
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	99.12
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.09
KOG0287|consensus	442		99.01
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.96
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.9
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.88
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.81
KOG1734|consensus	328		98.81
KOG1493|consensus	84		98.74
KOG4265|consensus	349		98.72
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.72
KOG0828|consensus	636		98.71
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.7
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.69
KOG2177|consensus	386		98.67
KOG0804|consensus	493		98.66
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.53
KOG0311|consensus	381		98.49
KOG2930|consensus	114		98.46
KOG0824|consensus	324		98.41
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.4
KOG0827|consensus	465		98.38
KOG0978|consensus	698		98.28
KOG4172|consensus	62		98.28
KOG1941|consensus	518		98.26
KOG1039|consensus	344		98.2
KOG0825|consensus	1134		98.12
KOG3039|consensus	303		98.07
KOG1785|consensus	563		98.07
KOG4159|consensus	398		98.05
KOG2660|consensus	331		98.04
COG5152	259	Uncharacterized conserved protein, contains RING a	97.98
KOG1645|consensus	463		97.97
KOG4445|consensus	368		97.96
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.94
KOG2879|consensus	298		97.93
KOG0297|consensus	391		97.88
KOG1813|consensus	313		97.74
PF04641	260	Rtf2: Rtf2 RING-finger	97.7
KOG1428|consensus	3738		97.67
KOG3970|consensus	299		97.58
KOG4692|consensus	489		97.58
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.56
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.45
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	97.42
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.4
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.39
COG5236	493	Uncharacterized conserved protein, contains RING Z	97.31
KOG4739|consensus	233		97.25
KOG1002|consensus	791		97.19
KOG1814|consensus	445		97.18
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	97.14
KOG1952|consensus	950		97.14
KOG4275|consensus	350		97.12
KOG4185|consensus	296		97.07
PHA02825	162	LAP/PHD finger-like protein; Provisional	97.06
KOG1571|consensus	355		97.02
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	97.01
PHA02862	156	5L protein; Provisional	96.95
PHA03096	284	p28-like protein; Provisional	96.79
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.77
KOG1940|consensus	276		96.71
KOG3268|consensus	234		96.67
KOG0826|consensus	357		96.66
KOG2114|consensus	933		96.52
KOG0801|consensus	205		96.48
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.45
KOG1001|consensus	674		96.45
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	96.21
KOG4367|consensus	699		96.13
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	96.1
KOG2932|consensus	389		96.08
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	96.01
KOG3800|consensus	300		95.78
KOG2817|consensus	394		95.64
KOG0827|consensus	465		95.51
KOG2034|consensus	911		95.48
KOG1100|consensus	207		94.73
KOG3053|consensus	293		94.64
KOG3899|consensus	381		94.52
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	94.34
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	94.2
KOG3002|consensus	299		94.15
KOG0298|consensus	1394		93.99
KOG0309|consensus	1081		93.78
KOG3113|consensus	293		93.38
KOG1609|consensus	323		93.08
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	93.08
KOG1812|consensus	384		93.01
KOG0802|consensus	543		93.0
KOG4362|consensus	684		91.96
KOG1815|consensus	444		90.85
KOG1812|consensus	384		89.19
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	88.91
KOG3161|consensus	861		88.17
KOG4718|consensus	235		87.98
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	87.85
KOG1829|consensus	580		87.62
KOG3579|consensus	352		86.62
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	86.33
COG5109	396	Uncharacterized conserved protein, contains RING Z	85.93
KOG0269|consensus	839		85.62
KOG0825|consensus	1134		85.51
KOG2807|consensus	378		85.07
PLN02400	1085	cellulose synthase	84.74
KOG2068|consensus	327		84.51
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	84.46
PF01363	69	FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc f	84.42
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	84.4
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	84.24
PF06844	68	DUF1244: Protein of unknown function (DUF1244); In	82.25
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	81.88
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	81.48
PF10497	105	zf-4CXXC_R1: Zinc-finger domain of monoamine-oxida	81.4
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	80.84
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	80.06

>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=99.73  E-value=2.3e-18  Score=86.79  Aligned_cols=43  Identities=47%  Similarity=1.234  Sum_probs=39.8

Q ss_pred             ccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR   83 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr   83 (101)
                      .|+||++.+..++.++.++|+|.||.+||..|++.+.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999998888889999999999999999999999999997

...

>KOG4628|consensus

Probab=99.62  E-value=4.4e-16  Score=107.24  Aligned_cols=52  Identities=35%  Similarity=1.027  Sum_probs=46.2

Q ss_pred             cccccccccccCCCceEEeCCCCcccHhHHHHHHhcCC-cccccccccccCCc
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSESA   91 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~~~~   91 (101)
                      ..|+||+|+|..++.+++|||+|.||..||..|+...+ .||+|++.+.....
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~  282 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG  282 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence            59999999999999999999999999999999998765 59999998764433

>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=99.54  E-value=9.9e-15  Score=80.90  Aligned_cols=45  Identities=36%  Similarity=0.928  Sum_probs=35.6

Q ss_pred             ccccccccccccCC----------CceEEeCCCCcccHhHHHHHHhcCCcccccc
Q psy8622          39 NLQCSVCWEQFTLD----------EAVRKLPCDHFYHTPCIEPWLQLHGTCPICR   83 (101)
Q Consensus        39 ~~~C~IC~~~~~~~----------~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr   83 (101)
                      +..|+||++.+...          -.+...+|+|.||..||.+|+..+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            44599999998322          2345567999999999999999999999997

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 ....

>KOG0317|consensus

Probab=99.53  E-value=4.9e-15  Score=99.10  Aligned_cols=59  Identities=24%  Similarity=0.646  Sum_probs=49.4

Q ss_pred             cccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCccc
Q psy8622          32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAES   93 (101)
Q Consensus        32 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~   93 (101)
                      .....+....|.+|++....+   ..+||||+||+.||..|...+..||+||..+......-
T Consensus       232 ~~~i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi~  290 (293)
T KOG0317|consen  232 LSSIPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVIC  290 (293)
T ss_pred             CccCCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCCcceee
Confidence            334456678999999987544   88999999999999999999999999999998776543

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.49  E-value=3.6e-14  Score=90.85  Aligned_cols=58  Identities=21%  Similarity=0.655  Sum_probs=45.6

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc----------------CCcccccccccccCCcccC
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL----------------HGTCPICRQTLHSESAESL   94 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~----------------~~~CP~Cr~~~~~~~~~~~   94 (101)
                      ....++..|+||++.+..+   ++++|||.||+.||..|+..                ...||+||..+...+....
T Consensus        13 ~~~~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi   86 (193)
T PLN03208         13 VDSGGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI   86 (193)
T ss_pred             ccCCCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence            3444578999999988544   77899999999999999742                2479999999976665543

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.49  E-value=2.4e-14  Score=94.76  Aligned_cols=51  Identities=27%  Similarity=0.726  Sum_probs=42.1

Q ss_pred             CCccccccccccccCCCc-----eEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEA-----VRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~-----~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ..+..|+||++.+..++.     .+.++|+|.||..||.+|+..+.+||+||..+.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            446799999998764331     244579999999999999999999999999875

>KOG0823|consensus

Probab=99.47  E-value=8.8e-14  Score=90.70  Aligned_cols=61  Identities=25%  Similarity=0.646  Sum_probs=50.0

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc---CCcccccccccccCCcccCCCCC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL---HGTCPICRQTLHSESAESLGPAG   98 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~~~~~~~~~~~~   98 (101)
                      .+...+.|.|||+.-+++   +++.|||.||+.||.+|+..   .+.||+|+..|..+..+++.+-+
T Consensus        43 ~~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG  106 (230)
T KOG0823|consen   43 RDGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG  106 (230)
T ss_pred             CCCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence            366788999999986544   77889999999999999974   45799999999888877765543

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

Probab=99.44  E-value=7.7e-14  Score=96.40  Aligned_cols=53  Identities=34%  Similarity=0.938  Sum_probs=44.6

Q ss_pred             CCCCccccccccccc-cCC---------CceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          35 TDDSNLQCSVCWEQF-TLD---------EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~-~~~---------~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ....+..|.||++++ ..+         ..+..|||||+||..|+..|++++++||+||.++.
T Consensus       283 l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             hcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            366788999999984 333         14578999999999999999999999999999953

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

Probab=99.44  E-value=1.4e-13  Score=71.00  Aligned_cols=46  Identities=37%  Similarity=0.911  Sum_probs=39.0

Q ss_pred             ccccccccccccCCCceEEeCCCCc-ccHhHHHHHHhcCCcccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHF-YHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      +..|.||++...   .+..+||||. ||..|+.+|+.....||+||+++.
T Consensus         2 ~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            468999999863   4588899999 999999999999999999999875

...

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

Probab=99.42  E-value=1.5e-13  Score=92.80  Aligned_cols=53  Identities=34%  Similarity=1.029  Sum_probs=47.3

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHh-cCCccccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ-LHGTCPICRQTLHS   88 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~   88 (101)
                      ......|+||++.|...+.+++|||.|.||..|+.+|+. .+..||+||.++++
T Consensus       320 a~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         320 ADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             cCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            445689999999998888899999999999999999997 67789999998864

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

Probab=99.41  E-value=2.4e-13  Score=66.64  Aligned_cols=39  Identities=33%  Similarity=1.014  Sum_probs=32.9

Q ss_pred             cccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccc
Q psy8622          42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPIC   82 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~C   82 (101)
                      |+||++.+.  +.++.++|||.||..|+.+|++.+..||+|
T Consensus         1 C~iC~~~~~--~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELR--DPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-S--SEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCccc--CcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            899999875  345788999999999999999998899987

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

Probab=99.34  E-value=8.8e-13  Score=65.62  Aligned_cols=38  Identities=32%  Similarity=0.835  Sum_probs=28.8

Q ss_pred             cccccccccCCCceEEeCCCCcccHhHHHHHHhcC----Cccccc
Q psy8622          42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH----GTCPIC   82 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~----~~CP~C   82 (101)
                      |+||++.|..+   +.|+|||+||..||.+|++..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999655   889999999999999998653    369987

>KOG0320|consensus

Probab=99.30  E-value=2.8e-12  Score=80.75  Aligned_cols=55  Identities=20%  Similarity=0.642  Sum_probs=45.1

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES   90 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~   90 (101)
                      ..+..+.|||||+.+... .++.+.|||+||..||...+.....||+||+.+....
T Consensus       127 ~~~~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  127 RKEGTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            345568999999998633 2355789999999999999999999999999876543

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

Probab=99.30  E-value=2.7e-12  Score=63.90  Aligned_cols=44  Identities=43%  Similarity=1.179  Sum_probs=36.1

Q ss_pred             ccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCccccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTL   86 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~   86 (101)
                      .|+||++.+.  ......+|+|.||..|+..|+.. ...||.||..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4899999883  34455569999999999999987 77899998764

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.28  E-value=3.2e-12  Score=64.23  Aligned_cols=44  Identities=27%  Similarity=0.842  Sum_probs=37.9

Q ss_pred             ccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ   84 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~   84 (101)
                      .|+||++.+.......+++|||+||..|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            48999999955567888999999999999998766778999985

>KOG0802|consensus

Probab=99.26  E-value=2.5e-12  Score=94.14  Aligned_cols=58  Identities=29%  Similarity=0.745  Sum_probs=47.8

Q ss_pred             CCCCccccccccccccCCCc--eEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEA--VRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~--~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ....+..|+||++.+.....  +.+++|+|+||..|+..|+++.++||.||..+......
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~~  346 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVLW  346 (543)
T ss_pred             hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhccccc
Confidence            44557899999999875432  57899999999999999999999999999966554443

>smart00504 Ubox Modified RING finger domain

Probab=99.23  E-value=1.3e-11  Score=66.18  Aligned_cols=50  Identities=32%  Similarity=0.516  Sum_probs=43.0

Q ss_pred             cccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ..|+||.+.+..+   +.++|||+|+..||.+|+..+..||+|+..+..++..
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~   51 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLI   51 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhce
Confidence            5799999998654   7789999999999999998888999999988655443

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

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

Probab=99.22  E-value=1.2e-11  Score=61.02  Aligned_cols=39  Identities=38%  Similarity=1.018  Sum_probs=32.9

Q ss_pred             cccccccccCCCceEEeCCCCcccHhHHHHHHh--cCCccccc
Q psy8622          42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ--LHGTCPIC   82 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~--~~~~CP~C   82 (101)
                      |+||++.+..+  ...++|+|.||..|+.+|+.  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999988533  35889999999999999998  45689987

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 ....

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

Probab=99.20  E-value=2e-11  Score=68.71  Aligned_cols=50  Identities=32%  Similarity=0.768  Sum_probs=37.8

Q ss_pred             CccccccccccccCC--------C--ceEEeCCCCcccHhHHHHHHhc---CCcccccccccc
Q psy8622          38 SNLQCSVCWEQFTLD--------E--AVRKLPCDHFYHTPCIEPWLQL---HGTCPICRQTLH   87 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~--------~--~~~~l~C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~   87 (101)
                      .+..|+||...|...        +  +++.-.|+|.||..||.+|+..   +..||+||++..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            367899999887411        1  2233359999999999999975   468999999875

>PHA02926 zinc finger-like protein; Provisional

Probab=99.19  E-value=1.3e-11  Score=80.43  Aligned_cols=53  Identities=25%  Similarity=0.676  Sum_probs=39.6

Q ss_pred             CCCCccccccccccccCCC------ceEEeCCCCcccHhHHHHHHhcC------Ccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDE------AVRKLPCDHFYHTPCIEPWLQLH------GTCPICRQTLH   87 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~------~~~~l~C~H~f~~~Ci~~w~~~~------~~CP~Cr~~~~   87 (101)
                      ..+.+..|+||++.+..+.      .....+|+|.||..||..|...+      .+||+||..+.
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            3455789999999863221      12444699999999999998743      36999999874

>KOG2164|consensus

Probab=99.16  E-value=2.1e-11  Score=87.09  Aligned_cols=50  Identities=30%  Similarity=0.794  Sum_probs=40.3

Q ss_pred             ccccccccccccCCCceEEeCCCCcccHhHHHHHHhcC-----CcccccccccccCCc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH-----GTCPICRQTLHSESA   91 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~-----~~CP~Cr~~~~~~~~   91 (101)
                      +..||||++...   .+..+.|||+||..||.+++...     ..||+||..+...+.
T Consensus       186 ~~~CPICL~~~~---~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl  240 (513)
T KOG2164|consen  186 DMQCPICLEPPS---VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL  240 (513)
T ss_pred             CCcCCcccCCCC---cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence            789999999753   33667799999999999988643     479999998876443

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.15  E-value=3.2e-11  Score=85.06  Aligned_cols=54  Identities=26%  Similarity=0.639  Sum_probs=45.8

Q ss_pred             ccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          33 VRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        33 ~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ....+....|+||++.+..+   ++++|+|.||..||..|+.....||+||..+...
T Consensus        20 l~~Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        20 LYPLDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             ccccccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            34566678999999998644   6789999999999999998888999999988654

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

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

Probab=99.12  E-value=6.4e-11  Score=78.73  Aligned_cols=52  Identities=23%  Similarity=0.671  Sum_probs=43.3

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHH-HHhcCCc-ccccccccccCCc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEP-WLQLHGT-CPICRQTLHSESA   91 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~-w~~~~~~-CP~Cr~~~~~~~~   91 (101)
                      ..+..|+||++...   .+..++|||+||+.||.. |-..+.. ||+||+.+....+
T Consensus       213 ~~d~kC~lC~e~~~---~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPE---VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccC---CcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            56889999999864   448899999999999999 8766554 9999999877654

>smart00184 RING Ring finger

Probab=99.09  E-value=1.3e-10  Score=55.89  Aligned_cols=38  Identities=42%  Similarity=1.128  Sum_probs=32.1

Q ss_pred             cccccccccCCCceEEeCCCCcccHhHHHHHHh-cCCccccc
Q psy8622          42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ-LHGTCPIC   82 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~C   82 (101)
                      |+||++..   ..+..++|+|.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999884   4457889999999999999998 56679987

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)

>KOG0287|consensus

Probab=99.01  E-value=8.4e-11  Score=80.74  Aligned_cols=57  Identities=30%  Similarity=0.733  Sum_probs=48.8

Q ss_pred             ccccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCC
Q psy8622          31 VQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES   90 (101)
Q Consensus        31 ~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~   90 (101)
                      ......+....|.||.+.|..+   .++||+|.||.-||..++..+..||.|+.++....
T Consensus        15 pslk~lD~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~   71 (442)
T KOG0287|consen   15 PSLKTLDDLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESD   71 (442)
T ss_pred             chhhhhHHHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccchhh
Confidence            3445566788999999999655   88999999999999999999999999999886544

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

Probab=98.96  E-value=6.6e-10  Score=55.37  Aligned_cols=34  Identities=26%  Similarity=0.753  Sum_probs=21.4

Q ss_pred             cccccccccC-CCceEEeCCCCcccHhHHHHHHhcC
Q psy8622          42 CSVCWEQFTL-DEAVRKLPCDHFYHTPCIEPWLQLH   76 (101)
Q Consensus        42 C~IC~~~~~~-~~~~~~l~C~H~f~~~Ci~~w~~~~   76 (101)
                      |+||.+ +.. ...+.+|+|||+|+.+|+.+++..+
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence            899999 644 3356889999999999999998743

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

Probab=98.90  E-value=7.6e-10  Score=74.81  Aligned_cols=54  Identities=26%  Similarity=0.616  Sum_probs=46.0

Q ss_pred             cccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        32 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      .....+....|.||.+.|..+   ..++|||.||.-||..++..+..||+||.+...
T Consensus        18 SL~~LDs~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          18 SLKGLDSMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             chhcchhHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            344556678999999998655   889999999999999999999999999987653

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

Probab=98.88  E-value=2.2e-09  Score=59.39  Aligned_cols=30  Identities=43%  Similarity=0.978  Sum_probs=27.8

Q ss_pred             CCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          60 CDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        60 C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      |.|.||..||.+|+..+..||++|+++...
T Consensus        54 CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          54 CNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             cchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            999999999999999999999999987644

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

Probab=98.81  E-value=4.6e-09  Score=58.09  Aligned_cols=52  Identities=31%  Similarity=0.496  Sum_probs=40.1

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCcc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESAE   92 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~~   92 (101)
                      +.+.|+|+.+.+.++   +++++||+|...+|.+|+.. ..+||+++..+...+..
T Consensus         3 ~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~   55 (73)
T PF04564_consen    3 DEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI   55 (73)
T ss_dssp             GGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE
T ss_pred             cccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce
Confidence            467899999999655   88999999999999999998 88999999988765443

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 ....

>KOG1734|consensus

Probab=98.81  E-value=1e-09  Score=73.42  Aligned_cols=55  Identities=31%  Similarity=0.724  Sum_probs=43.6

Q ss_pred             CccccccccccccCCC-------ceEEeCCCCcccHhHHHHHH--hcCCcccccccccccCCcc
Q psy8622          38 SNLQCSVCWEQFTLDE-------AVRKLPCDHFYHTPCIEPWL--QLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~-------~~~~l~C~H~f~~~Ci~~w~--~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ++..|++|-..+....       ....|.|+|+||..||..|-  ..+++||.|+..+..+...
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf  286 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF  286 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence            4568999998774333       56778999999999999996  4678999999988765443

>KOG1493|consensus

Probab=98.74  E-value=3e-09  Score=58.38  Aligned_cols=48  Identities=35%  Similarity=0.814  Sum_probs=35.4

Q ss_pred             cccccccccccCC---------CceEEeC-CCCcccHhHHHHHHhc---CCcccccccccc
Q psy8622          40 LQCSVCWEQFTLD---------EAVRKLP-CDHFYHTPCIEPWLQL---HGTCPICRQTLH   87 (101)
Q Consensus        40 ~~C~IC~~~~~~~---------~~~~~l~-C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~   87 (101)
                      ..|.||.-.|...         +.+.++. |.|.||..||.+|+..   +..||+||+.+.
T Consensus        21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            3788888877321         2233333 9999999999999964   457999999764

>KOG4265|consensus

Probab=98.72  E-value=1.7e-08  Score=69.75  Aligned_cols=52  Identities=27%  Similarity=0.645  Sum_probs=42.1

Q ss_pred             CCCCccccccccccccCCCceEEeCCCC-cccHhHHHHHHhcCCcccccccccccC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDH-FYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H-~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ..+...+|.||+.+..   .+.+|||.| -.|..|.....-..+.||+||+.+...
T Consensus       286 ~~~~gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  286 ESESGKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEEL  338 (349)
T ss_pred             cccCCCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence            4455789999999864   448899999 689999988766778899999998643

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.72  E-value=1.1e-08  Score=70.11  Aligned_cols=52  Identities=19%  Similarity=0.453  Sum_probs=37.6

Q ss_pred             ccccccccccc-cCCC-ceEEeCCCCcccHhHHHHHHh-cCCcccccccccccCC
Q psy8622          39 NLQCSVCWEQF-TLDE-AVRKLPCDHFYHTPCIEPWLQ-LHGTCPICRQTLHSES   90 (101)
Q Consensus        39 ~~~C~IC~~~~-~~~~-~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~~~   90 (101)
                      +..||+|.... .+++ ...+-+|||.||..|+...+. ....||.|+..+...+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            46899999953 2222 223337999999999999664 4568999999886554

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).

>KOG0828|consensus

Probab=98.71  E-value=5.3e-09  Score=74.98  Aligned_cols=51  Identities=27%  Similarity=0.797  Sum_probs=39.1

Q ss_pred             CccccccccccccCC--------------CceEEeCCCCcccHhHHHHHHh-cCCccccccccccc
Q psy8622          38 SNLQCSVCWEQFTLD--------------EAVRKLPCDHFYHTPCIEPWLQ-LHGTCPICRQTLHS   88 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~--------------~~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~   88 (101)
                      ....|+||+..+.-.              .....+||.|+||..|+.+|.. .+-.||+||.+++.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            356799999876211              1134469999999999999998 55599999998853

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

Probab=98.70  E-value=1.7e-08  Score=51.71  Aligned_cols=42  Identities=29%  Similarity=0.831  Sum_probs=32.0

Q ss_pred             ccccccccccCCCceEEeCCC-----CcccHhHHHHHHhc--CCcccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKLPCD-----HFYHTPCIEPWLQL--HGTCPICR   83 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l~C~-----H~f~~~Ci~~w~~~--~~~CP~Cr   83 (101)
                      .|.||++.. .++...+.||.     |.+|..|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEG-DEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCC-CCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            488999833 33455678974     88999999999964  45899984

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

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

Probab=98.69  E-value=2.1e-09  Score=59.01  Aligned_cols=51  Identities=24%  Similarity=0.668  Sum_probs=23.9

Q ss_pred             cccccccccccc-CCCce-EEe---CCCCcccHhHHHHHHhc---C--------CcccccccccccC
Q psy8622          39 NLQCSVCWEQFT-LDEAV-RKL---PCDHFYHTPCIEPWLQL---H--------GTCPICRQTLHSE   89 (101)
Q Consensus        39 ~~~C~IC~~~~~-~~~~~-~~l---~C~H~f~~~Ci~~w~~~---~--------~~CP~Cr~~~~~~   89 (101)
                      +..|+||+..+. .++.+ ..-   .|+..||..||.+|+..   .        ..||.|+.++..+
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~   68 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS   68 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence            467999999865 32222 222   48999999999999853   1        1599999988643

>KOG2177|consensus

Probab=98.67  E-value=8.2e-09  Score=69.22  Aligned_cols=48  Identities=29%  Similarity=0.695  Sum_probs=40.9

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ   84 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~   84 (101)
                      ....+...|+||++.|..+   .+++|+|.||..|+..++.....||.||.
T Consensus         8 ~~~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             hhccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            4456678999999999755   88999999999999998875568999993

>KOG0804|consensus

Probab=98.66  E-value=1.3e-08  Score=72.07  Aligned_cols=51  Identities=25%  Similarity=0.737  Sum_probs=39.7

Q ss_pred             CCCCccccccccccccCCC-ceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDE-AVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~-~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ...+..+||+|||.+.+.. .++.+.|.|.||..|+..|.  ..+||+||....
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            3445679999999986443 23445699999999999994  568999998765

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

Probab=98.53  E-value=2.3e-08  Score=76.45  Aligned_cols=52  Identities=23%  Similarity=0.823  Sum_probs=37.8

Q ss_pred             CCCcccccccccccc-CCC--ceEEe-CCCCcccHhHHHHHHhc--CCcccccccccc
Q psy8622          36 DDSNLQCSVCWEQFT-LDE--AVRKL-PCDHFYHTPCIEPWLQL--HGTCPICRQTLH   87 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~-~~~--~~~~l-~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~~   87 (101)
                      .++..+|+||...+. .+.  +.... .|.|.||.+|+.+|+..  +.+||+||.++.
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            455678999998764 110  11112 29999999999999975  568999998764

>KOG0311|consensus

Probab=98.49  E-value=1.8e-08  Score=69.57  Aligned_cols=63  Identities=24%  Similarity=0.480  Sum_probs=46.3

Q ss_pred             ccccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHh-cCCcccccccccccCCcccCC
Q psy8622          31 VQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ-LHGTCPICRQTLHSESAESLG   95 (101)
Q Consensus        31 ~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~~~~   95 (101)
                      +.......+..|+||++.+...  .....|.|.||..||...+. .+..||.||+.+.+.......
T Consensus        35 ~~l~~~~~~v~c~icl~llk~t--mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~D   98 (381)
T KOG0311|consen   35 VDLAMFDIQVICPICLSLLKKT--MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRID   98 (381)
T ss_pred             ecHHHhhhhhccHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCC
Confidence            3344456678999999998633  23334999999999988775 477999999998766444433

>KOG2930|consensus

Probab=98.46  E-value=1.4e-07  Score=54.73  Aligned_cols=51  Identities=25%  Similarity=0.640  Sum_probs=37.5

Q ss_pred             CCccccccccccc-------------cCCCceEEe-CCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          37 DSNLQCSVCWEQF-------------TLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~-------------~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ...+.|+||..-+             ...+..+.- .|.|.||..||.+|++.+..||+|.++..
T Consensus        44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~  108 (114)
T KOG2930|consen   44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV  108 (114)
T ss_pred             eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence            3456899987543             112223333 39999999999999999999999987653

>KOG0824|consensus

Probab=98.41  E-value=1.2e-07  Score=64.48  Aligned_cols=50  Identities=24%  Similarity=0.498  Sum_probs=40.3

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCC
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSES   90 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~   90 (101)
                      ....|+||+.....   ++.|+|+|.||.-||...... ..+|++||.++.+.-
T Consensus         6 ~~~eC~IC~nt~n~---Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    6 KKKECLICYNTGNC---PVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             cCCcceeeeccCCc---CccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            35689999998643   388999999999999877655 456999999997653

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

Probab=98.40  E-value=5.6e-08  Score=51.91  Aligned_cols=51  Identities=24%  Similarity=0.686  Sum_probs=24.7

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ....|++|.+.+..  ++....|.|+||..|+..-+.  ..||+|+.+.-..+..
T Consensus         6 ~lLrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~   56 (65)
T PF14835_consen    6 ELLRCSICFDILKE--PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ   56 (65)
T ss_dssp             HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred             HhcCCcHHHHHhcC--CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence            35689999999863  344556999999999987433  4599999987655543

>KOG0827|consensus

Probab=98.38  E-value=1.6e-07  Score=65.86  Aligned_cols=47  Identities=30%  Similarity=0.878  Sum_probs=34.8

Q ss_pred             cccccccccccCCCceEEeC-CCCcccHhHHHHHHhc---CCccccccccc
Q psy8622          40 LQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQL---HGTCPICRQTL   86 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~   86 (101)
                      ..|.||.+.+-....+..+. |||+||..|+..|+..   ++.||.|+-.+
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            47999955543333444454 9999999999999975   35899999444

>KOG0978|consensus

Probab=98.28  E-value=2e-07  Score=69.69  Aligned_cols=58  Identities=19%  Similarity=0.557  Sum_probs=45.2

Q ss_pred             ccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHh-cCCcccccccccccCCccc
Q psy8622          33 VRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ-LHGTCPICRQTLHSESAES   93 (101)
Q Consensus        33 ~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~~   93 (101)
                      ....-+-..|+.|-....   ..+++.|+|.||..|+...+. +.+.||.|...|...+.-.
T Consensus       637 lk~yK~~LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~  695 (698)
T KOG0978|consen  637 LKEYKELLKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR  695 (698)
T ss_pred             HHHHHhceeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence            344556789999997654   336677999999999998875 5778999999997766543

>KOG4172|consensus

Probab=98.28  E-value=1.3e-07  Score=48.78  Aligned_cols=46  Identities=30%  Similarity=0.701  Sum_probs=35.1

Q ss_pred             ccccccccccccCCCceEEeCCCC-cccHhHHHHHHh-cCCcccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDH-FYHTPCIEPWLQ-LHGTCPICRQTLH   87 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H-~f~~~Ci~~w~~-~~~~CP~Cr~~~~   87 (101)
                      ..+|.||++.-.+   .+...||| -.|..|..+.+. ....||+||+++.
T Consensus         7 ~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            3689999996432   25567999 578899877655 5779999999885

>KOG1941|consensus

Probab=98.26  E-value=4.7e-07  Score=63.69  Aligned_cols=52  Identities=31%  Similarity=0.828  Sum_probs=41.6

Q ss_pred             CCCCccccccccccccCCC-ceEEeCCCCcccHhHHHHHHhc--CCccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDE-AVRKLPCDHFYHTPCIEPWLQL--HGTCPICRQTL   86 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~-~~~~l~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~   86 (101)
                      ..+.+..|..|-+.+...+ ....|||.|+||..|+...+.+  .++||.||+-.
T Consensus       361 ~~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr  415 (518)
T KOG1941|consen  361 VEETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLR  415 (518)
T ss_pred             HHHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            3455788999999886443 6788999999999999999865  45899999533

>KOG1039|consensus

Probab=98.20  E-value=6.7e-07  Score=62.38  Aligned_cols=51  Identities=31%  Similarity=0.779  Sum_probs=38.0

Q ss_pred             CCccccccccccccCCC----ceEEeC-CCCcccHhHHHHHHh--c-----CCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDE----AVRKLP-CDHFYHTPCIEPWLQ--L-----HGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~----~~~~l~-C~H~f~~~Ci~~w~~--~-----~~~CP~Cr~~~~   87 (101)
                      ..+..|.||++.+....    ...++| |.|.||..|+..|..  +     .+.||.||....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            45779999999875332    123344 999999999999983  3     468999998653

>KOG0825|consensus

Probab=98.12  E-value=4.6e-07  Score=68.35  Aligned_cols=49  Identities=20%  Similarity=0.517  Sum_probs=39.6

Q ss_pred             ccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ...|++|+..+.........+|+|.||..|+..|-....+||+||..+.
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence            4568888877754444445579999999999999999999999999774

>KOG3039|consensus

Probab=98.07  E-value=4.6e-06  Score=55.55  Aligned_cols=64  Identities=20%  Similarity=0.387  Sum_probs=54.9

Q ss_pred             CCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCCcccccccccccCCcccCCCCCCC
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPAGAG  100 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~~~  100 (101)
                      +..+.||+|.+.+.+......| ||||+|+..|..+.+.....||+|-.++.+.+++.+..+|.|
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrGGTG  283 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRGGTG  283 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeeccccc
Confidence            3568999999999877655555 699999999999999999999999999999999987766654

>KOG1785|consensus

Probab=98.07  E-value=1.6e-06  Score=61.30  Aligned_cols=51  Identities=29%  Similarity=0.706  Sum_probs=40.6

Q ss_pred             ccccccccccccCCCceEEeCCCCcccHhHHHHHHhc--CCcccccccccccCCcc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL--HGTCPICRQTLHSESAE   92 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~~~~~~~   92 (101)
                      -..|.||-+.-   ..+.+-||||..|..|+..|-..  .++||.||.++...+.+
T Consensus       369 FeLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v  421 (563)
T KOG1785|consen  369 FELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV  421 (563)
T ss_pred             HHHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence            45799998852   45577799999999999999743  57999999999765544

>KOG4159|consensus

Probab=98.05  E-value=2.3e-06  Score=60.81  Aligned_cols=49  Identities=29%  Similarity=0.699  Sum_probs=42.8

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ..++.|.||...+..+   +.+||||.||..||.+-+.....||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCccccccccc
Confidence            5678999999988554   778999999999999988888899999998864

>KOG2660|consensus

Probab=98.04  E-value=8.2e-07  Score=61.03  Aligned_cols=55  Identities=20%  Similarity=0.521  Sum_probs=44.2

Q ss_pred             cccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        32 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ..........|.+|-..|...  ..+..|-|.||.+||.+++.....||.|...+..
T Consensus         8 k~~~~n~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen    8 KLTELNPHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             hhhhcccceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            344555677999999988633  3555699999999999999999999999887754

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

Probab=97.98  E-value=3.8e-06  Score=54.38  Aligned_cols=49  Identities=16%  Similarity=0.446  Sum_probs=41.5

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ..-.+.|.||-++|..+   +++.|||.||..|..+-++....|-+|.+...
T Consensus       193 e~IPF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         193 EKIPFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             CCCceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence            34467999999999665   78889999999999998888889999977654

>KOG1645|consensus

Probab=97.97  E-value=6.7e-06  Score=58.15  Aligned_cols=49  Identities=29%  Similarity=0.842  Sum_probs=38.1

Q ss_pred             CccccccccccccCCC--ceEEeCCCCcccHhHHHHHHhc--CCccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDE--AVRKLPCDHFYHTPCIEPWLQL--HGTCPICRQTL   86 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~--~~~~l~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~   86 (101)
                      ....||||++.+.-.-  .+..+.|+|.|...||++|+..  ...||.|..+.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            3568999999875332  5566779999999999999952  34799997654

>KOG4445|consensus

Probab=97.96  E-value=2.1e-06  Score=58.61  Aligned_cols=52  Identities=33%  Similarity=0.796  Sum_probs=42.4

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-----------------------CCcccccccccccC
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-----------------------HGTCPICRQTLHSE   89 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-----------------------~~~CP~Cr~~~~~~   89 (101)
                      ....|.|||.-|.+++...+++|.|.||..|+.+++..                       ...||+||..+..+
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            45689999999988777888999999999999887521                       12599999998755

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

Probab=97.94  E-value=9.6e-06  Score=42.71  Aligned_cols=44  Identities=23%  Similarity=0.633  Sum_probs=29.0

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc--CCcccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL--HGTCPI   81 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~--~~~CP~   81 (101)
                      ......|||.+..|.  +++....|+|+|-...|..|++.  ...||+
T Consensus         8 ~~~~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cEeccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            445679999999987  45566689999999999999943  447998

>KOG2879|consensus

Probab=97.93  E-value=1.2e-05  Score=54.21  Aligned_cols=52  Identities=31%  Similarity=0.516  Sum_probs=40.7

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc--CCcccccccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL--HGTCPICRQTLH   87 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~~   87 (101)
                      .....+.+|++|.+.-.  .+....+|+|+||..|+..-+..  ..+||.|...+.
T Consensus       234 s~~t~~~~C~~Cg~~Pt--iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  234 STGTSDTECPVCGEPPT--IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccccCCceeeccCCCCC--CCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            34556789999999744  45566779999999999887653  468999988776

>KOG0297|consensus

Probab=97.88  E-value=5.4e-06  Score=58.99  Aligned_cols=53  Identities=32%  Similarity=0.683  Sum_probs=43.5

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES   90 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~   90 (101)
                      .+.+..|++|...+.++  +..+.|||.||..|+..|+..+..||.|+..+....
T Consensus        18 ~~~~l~C~~C~~vl~~p--~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDP--VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             CcccccCccccccccCC--CCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence            56678999999998644  232579999999999999999999999988775443

>KOG1813|consensus

Probab=97.74  E-value=1.2e-05  Score=54.75  Aligned_cols=52  Identities=21%  Similarity=0.466  Sum_probs=43.6

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ...-.+.|.||...|..+   +++.|+|.||..|...-++....|++|.+.....
T Consensus       237 ~~~~Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  237 IELLPFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGS  288 (313)
T ss_pred             cccCCccccccccccccc---hhhcCCceeehhhhccccccCCcceecccccccc
Confidence            344467899999999766   7889999999999999888889999998876543

>PF04641 Rtf2: Rtf2 RING-finger

Probab=97.70  E-value=5.4e-05  Score=51.20  Aligned_cols=63  Identities=17%  Similarity=0.446  Sum_probs=50.7

Q ss_pred             CCCccccccccccccCCCce-EEeCCCCcccHhHHHHHHhcCCcccccccccccCCcccCCCCCC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAV-RKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPAGA   99 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~-~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~~   99 (101)
                      ....+.|||....|...... .+.+|||+|...++...- ....||+|-.++...+++.+.|...
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~~e  173 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPPEE  173 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCCcc
Confidence            46678999999998544444 444799999999999863 3567999999999999998888654

>KOG1428|consensus

Probab=97.67  E-value=3.3e-05  Score=62.21  Aligned_cols=53  Identities=25%  Similarity=0.686  Sum_probs=42.2

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcC----------Ccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH----------GTCPICRQTLH   87 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~----------~~CP~Cr~~~~   87 (101)
                      ..+.++.|-||+.+--...+.+.|.|+|+||..|..+.+++.          -.||+|..++.
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            456678999999876566677889999999999998766532          16999998875

>KOG3970|consensus

Probab=97.58  E-value=4.8e-05  Score=50.26  Aligned_cols=60  Identities=23%  Similarity=0.541  Sum_probs=45.7

Q ss_pred             ccccccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc--------CCcccccccccccC
Q psy8622          29 ALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL--------HGTCPICRQTLHSE   89 (101)
Q Consensus        29 ~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~--------~~~CP~Cr~~~~~~   89 (101)
                      ........+....|.+|-..+..++. +.|-|-|.||++|+..|...        .-.||.|..++...
T Consensus        40 YLqWL~DsDY~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   40 YLQWLQDSDYNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             HHHHHhhcCCCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            33445566777889999999877655 44779999999999999643        22699999988653

>KOG4692|consensus

Probab=97.58  E-value=7.8e-05  Score=52.22  Aligned_cols=51  Identities=24%  Similarity=0.475  Sum_probs=43.0

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      .+.++..|+||...-   ...+..||+|.-|..||.+.+...+.|=.|+..+..
T Consensus       418 p~sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CCcccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            456788999998853   334678999999999999999999999999998864

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

Probab=97.56  E-value=7.1e-05  Score=37.92  Aligned_cols=44  Identities=27%  Similarity=0.628  Sum_probs=22.2

Q ss_pred             cccccccccCCCceEEeC--CCCcccHhHHHHHHh-cCCccccccccc
Q psy8622          42 CSVCWEQFTLDEAVRKLP--CDHFYHTPCIEPWLQ-LHGTCPICRQTL   86 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~l~--C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~   86 (101)
                      |++|.+++...+. ..+|  |+..+|..|+...+. ....||-||.+.
T Consensus         1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7899998843332 3344  899999999999886 478999999864

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.45  E-value=9.6e-05  Score=51.54  Aligned_cols=56  Identities=25%  Similarity=0.568  Sum_probs=40.7

Q ss_pred             CCCccccccccccccCCCc-eEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCc
Q psy8622          36 DDSNLQCSVCWEQFTLDEA-VRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESA   91 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~-~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~   91 (101)
                      .++++.||+|++.+...+. ..-.+||-..|.-|+....+. +..||.||+...+++.
T Consensus        11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv   68 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENV   68 (480)
T ss_pred             ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence            3445569999999865543 344568988888898776543 6789999998876553

>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=97.42  E-value=6.2e-05  Score=43.97  Aligned_cols=33  Identities=30%  Similarity=0.696  Sum_probs=27.0

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHH
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIE   70 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~   70 (101)
                      +....|++|...+.. ......||||.||..|+.
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            345679999999865 566778999999999975

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 [].

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

Probab=97.40  E-value=0.00013  Score=36.87  Aligned_cols=40  Identities=35%  Similarity=0.888  Sum_probs=25.8

Q ss_pred             cccccccccCCCceEEeCCC--C---cccHhHHHHHHh--cCCccccc
Q psy8622          42 CSVCWEQFTLDEAVRKLPCD--H---FYHTPCIEPWLQ--LHGTCPIC   82 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~l~C~--H---~f~~~Ci~~w~~--~~~~CP~C   82 (101)
                      |-||++.-.... ..+.||.  -   ..|..|+.+|+.  .+..|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            678998764433 4567753  3   689999999997  45678877

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

Probab=97.39  E-value=0.00011  Score=44.94  Aligned_cols=37  Identities=14%  Similarity=0.579  Sum_probs=29.9

Q ss_pred             ccccccccccccCCCceEEeCCC------CcccHhHHHHHHhc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCD------HFYHTPCIEPWLQL   75 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~------H~f~~~Ci~~w~~~   75 (101)
                      ..+|.||++.+.....++.++|+      |.||..|+.+|-..
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~   68 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE   68 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence            57899999999764566777776      78999999999543

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.

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

Probab=97.31  E-value=0.00046  Score=48.38  Aligned_cols=50  Identities=30%  Similarity=0.713  Sum_probs=39.9

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHH--HhcCCccccccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPW--LQLHGTCPICRQTL   86 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w--~~~~~~CP~Cr~~~   86 (101)
                      ..+++...|.||.+.+.   ...++||+|..|..|..+.  +...+.||+||.+.
T Consensus        56 dtDEen~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          56 DTDEENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            34566778999999874   4478999999999998654  45688999999865

>KOG4739|consensus

Probab=97.25  E-value=0.00015  Score=48.19  Aligned_cols=51  Identities=18%  Similarity=0.613  Sum_probs=36.3

Q ss_pred             ccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcccC
Q psy8622          41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESL   94 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~   94 (101)
                      .|.-|...-. ++...++.|+|+||..|...-  ....||+|++.+........
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l~~s   55 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIRIIQLNRS   55 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccC--Cccccccccceeeeeecccc
Confidence            5776766433 567788889999999998652  33389999998765444433

>KOG1002|consensus

Probab=97.19  E-value=0.00016  Score=53.06  Aligned_cols=52  Identities=23%  Similarity=0.675  Sum_probs=40.1

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-----CCcccccccccccC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-----HGTCPICRQTLHSE   89 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-----~~~CP~Cr~~~~~~   89 (101)
                      ...+...|.+|.+.-   +..+...|.|.||..|+..++..     +.+||.|...+..+
T Consensus       532 enk~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             cccCceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            344567899999875   34477889999999999888742     45899998877644

>KOG1814|consensus

Probab=97.18  E-value=0.00021  Score=50.81  Aligned_cols=37  Identities=24%  Similarity=0.773  Sum_probs=32.1

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHh
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ   74 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~   74 (101)
                      ....|.||++..........+||+|+||..|+..++.
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT  219 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence            3578999999976667888899999999999999874

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=97.14  E-value=0.00024  Score=36.86  Aligned_cols=46  Identities=22%  Similarity=0.499  Sum_probs=33.1

Q ss_pred             cccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCC
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES   90 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~   90 (101)
                      ..|..|...-   ....++||+|..+..|+.-  .+-+.||+|.+++...+
T Consensus         8 ~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    8 QPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             eeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            3455555542   3347789999999999865  35567999999887654

>KOG1952|consensus

Probab=97.14  E-value=0.0002  Score=54.81  Aligned_cols=49  Identities=27%  Similarity=0.770  Sum_probs=36.4

Q ss_pred             CCCccccccccccccCCCceEE-eCCCCcccHhHHHHHHhcCC-------ccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLHG-------TCPICRQ   84 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~~~~~-------~CP~Cr~   84 (101)
                      ....+.|.||.+.+.....+.. ..|-|+||..||..|.....       .||.|..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            3456899999999865543332 24899999999999975411       5999984

>KOG4275|consensus

Probab=97.12  E-value=8.3e-05  Score=50.78  Aligned_cols=42  Identities=31%  Similarity=0.664  Sum_probs=32.5

Q ss_pred             ccccccccccccCCCceEEeCCCC-cccHhHHHHHHhcCCcccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDH-FYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H-~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ...|.||++.-   ..-+.|+||| +-|..|-.+.    ..||+||+.+.
T Consensus       300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKRM----NECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCC---cceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence            67899999964   3447799999 5578887654    37999998764

>KOG4185|consensus

Probab=97.07  E-value=0.00035  Score=47.87  Aligned_cols=47  Identities=30%  Similarity=0.684  Sum_probs=38.1

Q ss_pred             cccccccccccCCC---ceEEeCCCCcccHhHHHHHHhc-CCccccccccc
Q psy8622          40 LQCSVCWEQFTLDE---AVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTL   86 (101)
Q Consensus        40 ~~C~IC~~~~~~~~---~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~   86 (101)
                      ..|-||-++|...+   .++.|.|||.||..|+...+.. ...||.||...
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            57999999986553   5677789999999999987754 44799999984

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=97.06  E-value=0.00064  Score=42.66  Aligned_cols=50  Identities=20%  Similarity=0.615  Sum_probs=35.9

Q ss_pred             CCCccccccccccccCCCceEEeCC--CC---cccHhHHHHHHhc--CCcccccccccccC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPC--DH---FYHTPCIEPWLQL--HGTCPICRQTLHSE   89 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C--~H---~f~~~Ci~~w~~~--~~~CP~Cr~~~~~~   89 (101)
                      ...+..|-||.+...  .  ..-||  ..   ..|.+|+.+|+..  ...|++|+.++.-.
T Consensus         5 s~~~~~CRIC~~~~~--~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          5 SLMDKCCWICKDEYD--V--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCCeeEecCCCCC--C--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            345678999998742  1  22464  44   5699999999964  55899999987543

>KOG1571|consensus

Probab=97.02  E-value=0.00072  Score=47.34  Aligned_cols=49  Identities=27%  Similarity=0.539  Sum_probs=35.0

Q ss_pred             ccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          33 VRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        33 ~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      .........|.||++...+   ...+||||+-|  |..-. +....||+||+.+.
T Consensus       299 ~~~~~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  299 FRELPQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             ccccCCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            4455667889999997643   47799999866  54332 33456999998774

>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=97.01  E-value=0.001  Score=32.98  Aligned_cols=38  Identities=26%  Similarity=0.765  Sum_probs=22.2

Q ss_pred             cccccccccCCCceEEeC---CCCcccHhHHHHHHhcCC--ccccc
Q psy8622          42 CSVCWEQFTLDEAVRKLP---CDHFYHTPCIEPWLQLHG--TCPIC   82 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~l~---C~H~f~~~Ci~~w~~~~~--~CP~C   82 (101)
                      |.+|.+.+..+   +.-+   |+-.+|..|+..++....  .||.|
T Consensus         1 C~~C~~iv~~G---~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQG---QRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSS---EE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeee---ccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            56777776555   3333   888999999999997655  79987

; PDB: 3NW0_A 2CT0_A.

>PHA02862 5L protein; Provisional

Probab=96.95  E-value=0.00079  Score=41.63  Aligned_cols=46  Identities=17%  Similarity=0.574  Sum_probs=33.9

Q ss_pred             ccccccccccccCCCceEEeCCC-----CcccHhHHHHHHhc--CCccccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCD-----HFYHTPCIEPWLQL--HGTCPICRQTLHS   88 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~-----H~f~~~Ci~~w~~~--~~~CP~Cr~~~~~   88 (101)
                      ...|-||.+.-...    .-||.     ...|..|+.+|+..  +..|++|+.++.-
T Consensus         2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            35799999974322    35653     46899999999964  5589999998753

>PHA03096 p28-like protein; Provisional

Probab=96.79  E-value=0.00065  Score=46.60  Aligned_cols=36  Identities=22%  Similarity=0.496  Sum_probs=26.6

Q ss_pred             cccccccccccCCC----ceEEeC-CCCcccHhHHHHHHhc
Q psy8622          40 LQCSVCWEQFTLDE----AVRKLP-CDHFYHTPCIEPWLQL   75 (101)
Q Consensus        40 ~~C~IC~~~~~~~~----~~~~l~-C~H~f~~~Ci~~w~~~   75 (101)
                      -.|.||++......    ....|+ |.|.||..|+..|...
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            57999999764321    223344 9999999999999753

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

Probab=96.77  E-value=0.0008  Score=46.37  Aligned_cols=43  Identities=30%  Similarity=0.692  Sum_probs=34.9

Q ss_pred             ccccccccccccCCCceEEeC-CCCcccHhHHHHHH-hcCCccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWL-QLHGTCPICRQ   84 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~w~-~~~~~CP~Cr~   84 (101)
                      .+.|+.|...+.++   ..++ |+|.||..||...+ .....||.|.+
T Consensus       274 ~LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         274 SLKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             cccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            48899999988655   4455 89999999999776 45778999965

>KOG1940|consensus

Probab=96.71  E-value=0.00078  Score=45.91  Aligned_cols=47  Identities=36%  Similarity=0.804  Sum_probs=37.6

Q ss_pred             CccccccccccccCC-CceEEeCCCCcccHhHHHHHHhcCCccccccc
Q psy8622          38 SNLQCSVCWEQFTLD-EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ   84 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~-~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~   84 (101)
                      ....||||.+.+... ..+..++|+|..|..|+.......-+||+|.+
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            344599999976433 35567889999999999988776789999988

>KOG3268|consensus

Probab=96.67  E-value=0.0012  Score=42.26  Aligned_cols=30  Identities=30%  Similarity=0.924  Sum_probs=24.1

Q ss_pred             CCCCcccHhHHHHHHhc----C-------Cccccccccccc
Q psy8622          59 PCDHFYHTPCIEPWLQL----H-------GTCPICRQTLHS   88 (101)
Q Consensus        59 ~C~H~f~~~Ci~~w~~~----~-------~~CP~Cr~~~~~   88 (101)
                      .|+..||.-|+..|++.    +       ..||.|..++..
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            49999999999999863    1       159999887754

>KOG0826|consensus

Probab=96.66  E-value=0.0016  Score=45.30  Aligned_cols=50  Identities=18%  Similarity=0.342  Sum_probs=38.4

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ..+...||+|+....++  .+..--|-+||..|+..++...+.||+=..++.
T Consensus       297 ~~~~~~CpvClk~r~Np--tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~  346 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNP--TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS  346 (357)
T ss_pred             CCccccChhHHhccCCC--ceEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence            44467899999987654  232335899999999999999999998766554

>KOG2114|consensus

Probab=96.52  E-value=0.0013  Score=50.52  Aligned_cols=43  Identities=30%  Similarity=0.699  Sum_probs=34.2

Q ss_pred             ccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL   86 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   86 (101)
                      ...|.+|--.+.  -+.+...|+|.||..|+.   .....||.|+.++
T Consensus       840 ~skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  840 VSKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence            368999988875  345777899999999998   4566899998733

>KOG0801|consensus

Probab=96.48  E-value=0.00082  Score=42.41  Aligned_cols=31  Identities=29%  Similarity=0.803  Sum_probs=27.1

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccH
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHT   66 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~   66 (101)
                      .++..+|.||+|++..++.+..|||-.+||.
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            3456789999999999999999999999885

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=96.45  E-value=0.003  Score=39.65  Aligned_cols=51  Identities=24%  Similarity=0.607  Sum_probs=33.4

Q ss_pred             ccccccccccccCCCceEEeC------------CCCc-ccHhHHHHHHhc------------------------------
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLP------------CDHF-YHTPCIEPWLQL------------------------------   75 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~------------C~H~-f~~~Ci~~w~~~------------------------------   75 (101)
                      +..|||||+--.+.   +.|-            |+.. -|..||.++.+.                              
T Consensus         2 d~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (162)
T PF07800_consen    2 DVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ   78 (162)
T ss_pred             CccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence            56899999975433   4443            4432 367899887431                              


Q ss_pred             -CCcccccccccccCCcc
Q psy8622          76 -HGTCPICRQTLHSESAE   92 (101)
Q Consensus        76 -~~~CP~Cr~~~~~~~~~   92 (101)
                       ...||+||..|.....+
T Consensus        79 ~~L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   79 PELACPLCRGEVKGWTVV   96 (162)
T ss_pred             ccccCccccCceeceEEc
Confidence             11599999999766544

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.

>KOG1001|consensus

Probab=96.45  E-value=0.0011  Score=50.34  Aligned_cols=51  Identities=24%  Similarity=0.634  Sum_probs=40.7

Q ss_pred             cccccccccccCCCceEEeCCCCcccHhHHHHHHhc--CCcccccccccccCCcccC
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL--HGTCPICRQTLHSESAESL   94 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~~~~~~~~~   94 (101)
                      ..|.||++ .   +..++++|+|.||..|+...+..  ...||.||..+......+.
T Consensus       455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~  507 (674)
T KOG1001|consen  455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSA  507 (674)
T ss_pred             cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhc
Confidence            78999999 2   56688899999999999987754  3369999998876655543

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

Probab=96.21  E-value=0.0027  Score=44.91  Aligned_cols=31  Identities=23%  Similarity=0.754  Sum_probs=24.3

Q ss_pred             CCCcccHhHHHHHHhcCC-------------cccccccccccCC
Q psy8622          60 CDHFYHTPCIEPWLQLHG-------------TCPICRQTLHSES   90 (101)
Q Consensus        60 C~H~f~~~Ci~~w~~~~~-------------~CP~Cr~~~~~~~   90 (101)
                      |....|.+|+.+|+..++             .||.||+.+...+
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD  354 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD  354 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence            667889999999985322             6999999987544

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

>KOG4367|consensus

Probab=96.13  E-value=0.0038  Score=45.21  Aligned_cols=35  Identities=29%  Similarity=0.600  Sum_probs=29.9

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHh
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ   74 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~   74 (101)
                      +++..|+||...|..+   ++|||+|..|..|....+.
T Consensus         2 eeelkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREP---IILPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhccCc---eEeecccHHHHHHHHhhcc
Confidence            4578999999998655   8999999999999987654

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

Probab=96.10  E-value=0.0061  Score=37.25  Aligned_cols=57  Identities=23%  Similarity=0.497  Sum_probs=41.4

Q ss_pred             cCCCCccccccccccccCCCceEEeC---CCCcccHhHHHHHHhc---CCcccccccccccCCcc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLP---CDHFYHTPCIEPWLQL---HGTCPICRQTLHSESAE   92 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~---C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~~~~~~   92 (101)
                      -.+..-.+|.||.|...  +.-..-|   ||-..|..|-...|+.   .+.||+|+..+.+++..
T Consensus        75 F~d~~lYeCnIC~etS~--ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~~  137 (140)
T PF05290_consen   75 FLDPKLYECNICKETSA--EERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSSA  137 (140)
T ss_pred             ecCCCceeccCcccccc--hhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccccc
Confidence            34446789999999754  3334344   8999999988776654   56899999999776543

>KOG2932|consensus

Probab=96.08  E-value=0.0026  Score=44.04  Aligned_cols=43  Identities=23%  Similarity=0.641  Sum_probs=30.1

Q ss_pred             ccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      .|.-|--.+.  ...+.+||.|+||.+|...  ...+.||.|-..|.
T Consensus        92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             eecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence            4555544332  2346789999999999865  45678999977664

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=96.01  E-value=0.011  Score=30.70  Aligned_cols=34  Identities=29%  Similarity=0.684  Sum_probs=27.7

Q ss_pred             CccccccccccccCCCceEEeC-CCCcccHhHHHH
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEP   71 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~   71 (101)
                      ....|++|-+.|.+++.+++-| |+-.+|+.|+..
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            4568999999997666666666 999999999764

>KOG3800|consensus

Probab=95.78  E-value=0.0096  Score=40.80  Aligned_cols=47  Identities=21%  Similarity=0.495  Sum_probs=33.7

Q ss_pred             ccccccccc-cCCC-ceEEeCCCCcccHhHHHHHHhc-CCcccccccccc
Q psy8622          41 QCSVCWEQF-TLDE-AVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLH   87 (101)
Q Consensus        41 ~C~IC~~~~-~~~~-~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~   87 (101)
                      .||+|.... .+++ ...+-+|+|..|.+|+...+.. ...||.|...+.
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            588998753 2322 2223379999999999998865 558999977654

>KOG2817|consensus

Probab=95.64  E-value=0.013  Score=41.79  Aligned_cols=54  Identities=20%  Similarity=0.293  Sum_probs=41.9

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcC---CcccccccccccCC
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH---GTCPICRQTLHSES   90 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~---~~CP~Cr~~~~~~~   90 (101)
                      ...+.|||=.+.-...+++..|.|||+....-+.+..+..   -.||+|-......+
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~  388 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASD  388 (394)
T ss_pred             cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHh
Confidence            3467899988877666788999999999999999876643   37999966655443

>KOG0827|consensus

Probab=95.51  E-value=0.00069  Score=48.04  Aligned_cols=50  Identities=26%  Similarity=0.642  Sum_probs=41.1

Q ss_pred             ccccccccccccCC-CceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          39 NLQCSVCWEQFTLD-EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        39 ~~~C~IC~~~~~~~-~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ...|+||.+.+... +....+.|||.+|..||.+|+.....||.|++.+..
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            45789999887543 345567799999999999999988899999998854

>KOG2034|consensus

Probab=95.48  E-value=0.0091  Score=46.34  Aligned_cols=37  Identities=19%  Similarity=0.573  Sum_probs=29.2

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHH
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWL   73 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~   73 (101)
                      .+....|.+|...+.. .+..+.||||.||+.|+.+..
T Consensus       814 ~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence            4456689999988754 355778999999999998764

>KOG1100|consensus

Probab=94.73  E-value=0.014  Score=38.35  Aligned_cols=41  Identities=39%  Similarity=0.722  Sum_probs=30.4

Q ss_pred             cccccccccCCCceEEeCCCC-cccHhHHHHHHhcCCcccccccccccC
Q psy8622          42 CSVCWEQFTLDEAVRKLPCDH-FYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~l~C~H-~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      |-.|-+.-   ..+..+||.| .+|..|-..    -..||+|+......
T Consensus       161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s~  202 (207)
T KOG1100|consen  161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSPKTSS  202 (207)
T ss_pred             ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcChhhce
Confidence            88887752   4578889999 678888643    45699998876543

>KOG3053|consensus

Probab=94.64  E-value=0.018  Score=38.99  Aligned_cols=54  Identities=20%  Similarity=0.616  Sum_probs=36.4

Q ss_pred             cCCCCccccccccccccCCC-ceEEeCC-----CCcccHhHHHHHHhcC--------Ccccccccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDE-AVRKLPC-----DHFYHTPCIEPWLQLH--------GTCPICRQTLH   87 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~-~~~~l~C-----~H~f~~~Ci~~w~~~~--------~~CP~Cr~~~~   87 (101)
                      ...+.+..|-||+..-++.. ..-+-||     .|..|.+|+.+|+..+        -.||.|+.+..
T Consensus        15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            34555778999998643222 1133465     3789999999998532        26999998763

>KOG3899|consensus

Probab=94.52  E-value=0.018  Score=39.75  Aligned_cols=31  Identities=19%  Similarity=0.644  Sum_probs=23.9

Q ss_pred             CCCcccHhHHHHHHhc-------------CCcccccccccccCC
Q psy8622          60 CDHFYHTPCIEPWLQL-------------HGTCPICRQTLHSES   90 (101)
Q Consensus        60 C~H~f~~~Ci~~w~~~-------------~~~CP~Cr~~~~~~~   90 (101)
                      |....|.+|+.+|+..             +-+||+||+.+...+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d  368 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD  368 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence            6678899999999743             237999999886443

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

Probab=94.34  E-value=0.024  Score=28.56  Aligned_cols=31  Identities=32%  Similarity=0.840  Sum_probs=22.4

Q ss_pred             eCC-CCcccHhHHHHHHhcCCccccccccccc
Q psy8622          58 LPC-DHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        58 l~C-~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ..| .|..|..|+...+.....||+|..+++.
T Consensus        16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen   16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             EE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             eeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            446 5899999999999999999999988753

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.

>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=94.20  E-value=0.023  Score=38.24  Aligned_cols=48  Identities=21%  Similarity=0.508  Sum_probs=33.8

Q ss_pred             Ccccccccccccc-CCC-ceEEeC-CCCcccHhHHHHHHhcC-Cccc--ccccc
Q psy8622          38 SNLQCSVCWEQFT-LDE-AVRKLP-CDHFYHTPCIEPWLQLH-GTCP--ICRQT   85 (101)
Q Consensus        38 ~~~~C~IC~~~~~-~~~-~~~~l~-C~H~f~~~Ci~~w~~~~-~~CP--~Cr~~   85 (101)
                      .+..||||..+.. +++ ...+-| |-|..|.+|+.+.+... ..||  -|.+-
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI   62 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI   62 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence            3558999998642 333 233335 99999999999998764 4798  67543

>KOG3002|consensus

Probab=94.15  E-value=0.041  Score=38.19  Aligned_cols=49  Identities=22%  Similarity=0.546  Sum_probs=35.5

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ....+-..||||.+.+..+  ...-.=||..|..|-.+   ....||.||.++.
T Consensus        43 ~~~~~lleCPvC~~~l~~P--i~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   43 LLDLDLLDCPVCFNPLSPP--IFQCDNGHLACSSCRTK---VSNKCPTCRLPIG   91 (299)
T ss_pred             ccchhhccCchhhccCccc--ceecCCCcEehhhhhhh---hcccCCccccccc
Confidence            3455678999999998654  22222379999998753   4667999999885

>KOG0298|consensus

Probab=93.99  E-value=0.016  Score=46.72  Aligned_cols=50  Identities=24%  Similarity=0.549  Sum_probs=40.0

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQT   85 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~   85 (101)
                      ........|.||++.+..  .-.+..|+|.+|..|...|+..+..||.|...
T Consensus      1148 ~~~~~~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1148 MNLSGHFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             HHhhcccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence            334455699999998862  22556799999999999999999999999743

>KOG0309|consensus

Probab=93.78  E-value=0.039  Score=42.60  Aligned_cols=42  Identities=26%  Similarity=0.631  Sum_probs=30.6

Q ss_pred             ccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPI   81 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~   81 (101)
                      ...|.||.-.+.. ...+-..|+|+.|.+|...|+.....||.
T Consensus      1028 ~~~C~~C~l~V~g-ss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRG-SSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eeeeeeEeeEeec-cchhhccccccccHHHHHHHHhcCCcCCC
Confidence            3457777665432 23344469999999999999998888874

>KOG3113|consensus

Probab=93.38  E-value=0.11  Score=35.29  Aligned_cols=60  Identities=10%  Similarity=0.223  Sum_probs=43.7

Q ss_pred             CCccccccccccccCCCce-EEeCCCCcccHhHHHHHHhcCCcccccccccccCCcccCCCCC
Q psy8622          37 DSNLQCSVCWEQFTLDEAV-RKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPAG   98 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~-~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~   98 (101)
                      ...+.|||=--++...-.. ...+|||+|-..-+.+.  ....|++|.+.+..++.+-+.++.
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg~~  169 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNGTE  169 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCCCH
Confidence            3467899876666433333 33469999988887774  467899999999988888777653

>KOG1609|consensus

Probab=93.08  E-value=0.12  Score=35.36  Aligned_cols=50  Identities=26%  Similarity=0.679  Sum_probs=35.8

Q ss_pred             ccccccccccccCCCc-eEEeCCC-----CcccHhHHHHHHh--cCCccccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEA-VRKLPCD-----HFYHTPCIEPWLQ--LHGTCPICRQTLHS   88 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~-~~~l~C~-----H~f~~~Ci~~w~~--~~~~CP~Cr~~~~~   88 (101)
                      +..|-||......... ....||.     ...|..|+..|+.  .+..|.+|......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            4689999997542211 3566763     4579999999997  56689999876643

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

Probab=93.08  E-value=0.033  Score=28.38  Aligned_cols=43  Identities=28%  Similarity=0.689  Sum_probs=19.6

Q ss_pred             cccccccccccCCCceEEeCCCCcccHhHHHHHHhc---C--Ccccccccc
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL---H--GTCPICRQT   85 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~---~--~~CP~Cr~~   85 (101)
                      ..|||-...+.  .+++...|.|.-|.+ +..|+..   .  -.||+|.++
T Consensus         3 L~CPls~~~i~--~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIR--IPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-S--SEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEE--eCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            57888888775  345666799975543 3344432   2  269999763

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

>KOG1812|consensus

Probab=93.01  E-value=0.037  Score=39.63  Aligned_cols=38  Identities=18%  Similarity=0.655  Sum_probs=27.3

Q ss_pred             Ccccccccc-ccccCCCceEEeCCCCcccHhHHHHHHhc
Q psy8622          38 SNLQCSVCW-EQFTLDEAVRKLPCDHFYHTPCIEPWLQL   75 (101)
Q Consensus        38 ~~~~C~IC~-~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~   75 (101)
                      ....|.||. +............|+|.||..|+.+.+..
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            366899999 44333233335669999999999988763

>KOG0802|consensus

Probab=93.00  E-value=0.1  Score=38.89  Aligned_cols=56  Identities=25%  Similarity=0.780  Sum_probs=42.7

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcccCCCC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA   97 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~   97 (101)
                      .......|.||+...    ..+..+|.   |..|+..|+..+..||+|+..+..++.......
T Consensus       475 l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~~~~  530 (543)
T KOG0802|consen  475 LREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFLSKNSS  530 (543)
T ss_pred             hhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccccCcccc
Confidence            344566899999986    23566777   788999999999999999998877666554443

>KOG4362|consensus

Probab=91.96  E-value=0.039  Score=42.01  Aligned_cols=48  Identities=23%  Similarity=0.693  Sum_probs=37.6

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhc---CCccccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL---HGTCPICRQTLHS   88 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~~   88 (101)
                      ....|+||...+..+   ..+.|.|.|+..|+..-+..   ...||+|+..+..
T Consensus        20 k~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   20 KILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             hhccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            457899999988655   67889999999999765543   4479999876643

>KOG1815|consensus

Probab=90.85  E-value=0.17  Score=36.86  Aligned_cols=38  Identities=26%  Similarity=0.693  Sum_probs=30.3

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHh
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ   74 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~   74 (101)
                      .......|.||.+.+..  ....+.|+|.||..|+..++.
T Consensus        66 ~~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~  103 (444)
T KOG1815|consen   66 KKKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLG  103 (444)
T ss_pred             CCCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhh
Confidence            34556789999998753  456678999999999998875

>KOG1812|consensus

Probab=89.19  E-value=0.22  Score=35.72  Aligned_cols=44  Identities=27%  Similarity=0.516  Sum_probs=30.6

Q ss_pred             ccccccccccccCCC--ceEEeCCCCcccHhHHHHHHhcCCccccc
Q psy8622          39 NLQCSVCWEQFTLDE--AVRKLPCDHFYHTPCIEPWLQLHGTCPIC   82 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~--~~~~l~C~H~f~~~Ci~~w~~~~~~CP~C   82 (101)
                      -..|++|.-.+.-..  ....-.|+|.||..|...|...+..|..|
T Consensus       306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~  351 (384)
T KOG1812|consen  306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC  351 (384)
T ss_pred             cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence            456888876653222  23334599999999999998877766544

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

Probab=88.91  E-value=0.49  Score=37.23  Aligned_cols=53  Identities=21%  Similarity=0.652  Sum_probs=37.2

Q ss_pred             CccccccccccccCCCceEEeCCC-----CcccHhHHHHHHhc--CCcccccccccccCCc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCD-----HFYHTPCIEPWLQL--HGTCPICRQTLHSESA   91 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~-----H~f~~~Ci~~w~~~--~~~CP~Cr~~~~~~~~   91 (101)
                      ++..|-||..+-..+++.. -||.     ...|.+|+..|+..  ...|-+|..++.=.++
T Consensus        11 d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~I   70 (1175)
T COG5183          11 DKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDI   70 (1175)
T ss_pred             cchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeee
Confidence            3478999998754444333 4554     24799999999974  4579999988754433

>KOG3161|consensus

Probab=88.17  E-value=0.17  Score=38.56  Aligned_cols=41  Identities=24%  Similarity=0.647  Sum_probs=30.1

Q ss_pred             CccccccccccccCCC-ceEEeCCCCcccHhHHHHHHhcCCccc
Q psy8622          38 SNLQCSVCWEQFTLDE-AVRKLPCDHFYHTPCIEPWLQLHGTCP   80 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~-~~~~l~C~H~f~~~Ci~~w~~~~~~CP   80 (101)
                      ....|+||+..|.... .++.+-|||+.|..|+...  .+.+||
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp   51 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP   51 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC
Confidence            3467999988774332 4466679999999999874  456788

>KOG4718|consensus

Probab=87.98  E-value=0.29  Score=32.38  Aligned_cols=46  Identities=26%  Similarity=0.632  Sum_probs=34.8

Q ss_pred             CccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCCccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTL   86 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   86 (101)
                      .-..|.+|...+..+   +.. .|+-.+|..|+..+++....||.|..-+
T Consensus       180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w  226 (235)
T KOG4718|consen  180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW  226 (235)
T ss_pred             HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence            456899999876433   222 3677899999999999999999995433

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

Probab=87.85  E-value=1.4  Score=24.54  Aligned_cols=51  Identities=24%  Similarity=0.481  Sum_probs=19.8

Q ss_pred             CccccccccccccCCC--ceEEe--CCCCcccHhHHHHH-HhcCCccccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDE--AVRKL--PCDHFYHTPCIEPW-LQLHGTCPICRQTLHS   88 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~--~~~~l--~C~H~f~~~Ci~~w-~~~~~~CP~Cr~~~~~   88 (101)
                      ....|-||-+.+....  .+++.  .|+--.|..|..-= ...++.||.|+.....
T Consensus         8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr   63 (80)
T PF14569_consen    8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR   63 (80)
T ss_dssp             SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred             CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence            4568999999874332  23322  37777899998643 3457799999987753

>KOG1829|consensus

Probab=87.62  E-value=0.2  Score=37.80  Aligned_cols=23  Identities=26%  Similarity=0.826  Sum_probs=18.1

Q ss_pred             CCCCcccHhHHHHHHhcCCccccccc
Q psy8622          59 PCDHFYHTPCIEPWLQLHGTCPICRQ   84 (101)
Q Consensus        59 ~C~H~f~~~Ci~~w~~~~~~CP~Cr~   84 (101)
                      .|+++||..|+.+   .+..||.|-+
T Consensus       536 ~C~avfH~~C~~r---~s~~CPrC~R  558 (580)
T KOG1829|consen  536 TCLAVFHKKCLRR---KSPCCPRCER  558 (580)
T ss_pred             HHHHHHHHHHHhc---cCCCCCchHH
Confidence            4999999999865   4455999944

>KOG3579|consensus

Probab=86.62  E-value=0.43  Score=33.01  Aligned_cols=40  Identities=20%  Similarity=0.465  Sum_probs=28.6

Q ss_pred             CCCccccccccccccCCCceEEeC--CCCcccHhHHHHHHhcC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLP--CDHFYHTPCIEPWLQLH   76 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~--C~H~f~~~Ci~~w~~~~   76 (101)
                      ....+.|.+|.|.+++.. .+..|  =.|.||..|-...++.+
T Consensus       265 ~~apLcCTLC~ERLEDTH-FVQCPSVp~HKFCFPCSResIK~Q  306 (352)
T KOG3579|consen  265 PSAPLCCTLCHERLEDTH-FVQCPSVPSHKFCFPCSRESIKQQ  306 (352)
T ss_pred             CCCceeehhhhhhhccCc-eeecCCCcccceecccCHHHHHhh
Confidence            345689999999996442 22233  37999999999887653

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

Probab=86.33  E-value=1.3  Score=23.08  Aligned_cols=47  Identities=26%  Similarity=0.605  Sum_probs=31.4

Q ss_pred             cccccccccccCCCceEEeCCCC--cccHhHHHHHHhcCCcccccccccccC
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDH--FYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H--~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ..|-.|-.++..+. .-..-|.+  .||..|....+  ...||.|...+...
T Consensus         6 pnCE~C~~dLp~~s-~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R   54 (57)
T PF06906_consen    6 PNCECCDKDLPPDS-PEAYICSFECTFCADCAETML--NGVCPNCGGELVRR   54 (57)
T ss_pred             CCccccCCCCCCCC-CcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence            45677777764433 11222543  79999999865  67899998877654

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

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

Probab=85.93  E-value=0.78  Score=32.26  Aligned_cols=52  Identities=23%  Similarity=0.294  Sum_probs=37.0

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc---CCcccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL---HGTCPICRQTLH   87 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~   87 (101)
                      ...-..||+=-+.-....++..+.|||+.-..-+....+.   .-.||.|-..-.
T Consensus       333 fHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~  387 (396)
T COG5109         333 FHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSK  387 (396)
T ss_pred             ccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchh
Confidence            3446789987776655567899999999988888775443   226999955433

>KOG0269|consensus

Probab=85.62  E-value=0.9  Score=35.37  Aligned_cols=41  Identities=22%  Similarity=0.386  Sum_probs=28.3

Q ss_pred             cccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccc
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPI   81 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~   81 (101)
                      ..|.+|--.+.. ....---|+|.-|.+|+..|+.....||.
T Consensus       780 ~~CtVC~~vi~G-~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  780 AKCTVCDLVIRG-VDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             cCceeecceeee-eEeecccccccccHHHHHHHHhcCCCCcc
Confidence            467777665421 11111139999999999999998887776

>KOG0825|consensus

Probab=85.51  E-value=0.93  Score=35.64  Aligned_cols=52  Identities=15%  Similarity=0.203  Sum_probs=36.5

Q ss_pred             CccccccccccccCCC-ceEEeC---CCCcccHhHHHHHHhc------CCcccccccccccC
Q psy8622          38 SNLQCSVCWEQFTLDE-AVRKLP---CDHFYHTPCIEPWLQL------HGTCPICRQTLHSE   89 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~-~~~~l~---C~H~f~~~Ci~~w~~~------~~~CP~Cr~~~~~~   89 (101)
                      ....|.+|+..+..+. ..-.+|   |+|.||..||..|...      .-.|++|..-|...
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW  156 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW  156 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence            3567888888776522 233445   9999999999999753      33688888777543

>KOG2807|consensus

Probab=85.07  E-value=0.83  Score=32.23  Aligned_cols=47  Identities=17%  Similarity=0.349  Sum_probs=32.8

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ   84 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~   84 (101)
                      ....|..|.+........+--.|.+.||.+|-.-.-+.-..||.|..
T Consensus       329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh  375 (378)
T KOG2807|consen  329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH  375 (378)
T ss_pred             CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence            44569999777655544444459999999996554344557999963

>PLN02400 cellulose synthase

Probab=84.74  E-value=2.7  Score=34.18  Aligned_cols=50  Identities=22%  Similarity=0.481  Sum_probs=33.8

Q ss_pred             CccccccccccccCCC--ceE-Ee-CCCCcccHhHHHH-HHhcCCcccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDE--AVR-KL-PCDHFYHTPCIEP-WLQLHGTCPICRQTLH   87 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~--~~~-~l-~C~H~f~~~Ci~~-w~~~~~~CP~Cr~~~~   87 (101)
                      ....|-||-+++....  .+. .. -|+--.|+.|.+- .-..++.||.|+....
T Consensus        35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk   89 (1085)
T PLN02400         35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR   89 (1085)
T ss_pred             CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence            3458999999874332  222 22 3777789999842 1234778999998886

>KOG2068|consensus

Probab=84.51  E-value=1.2  Score=31.29  Aligned_cols=51  Identities=24%  Similarity=0.566  Sum_probs=36.6

Q ss_pred             CccccccccccccCCCce-EEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDEAV-RKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~-~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ....|+||.+.....+.. .-.+|++..|..|+.........||.||.+...
T Consensus       248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~  299 (327)
T KOG2068|consen  248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER  299 (327)
T ss_pred             cCCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence            346899999976433322 223478888888888877888899999976643

>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=84.46  E-value=0.5  Score=20.68  Aligned_cols=9  Identities=22%  Similarity=0.715  Sum_probs=5.0

Q ss_pred             ccccccccc
Q psy8622          41 QCSVCWEQF   49 (101)
Q Consensus        41 ~C~IC~~~~   49 (101)
                      .||-|...+
T Consensus         2 ~CP~C~~~V   10 (26)
T PF10571_consen    2 TCPECGAEV   10 (26)
T ss_pred             cCCCCcCCc
Confidence            356665554

Several members are annotated as putative helicases.

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

Probab=84.42  E-value=0.46  Score=25.36  Aligned_cols=36  Identities=17%  Similarity=0.435  Sum_probs=17.1

Q ss_pred             CCccccccccccccCCCceEEe-CCCCcccHhHHHHH
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPW   72 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w   72 (101)
                      .+...|.+|...|..-..-..- .||++||..|....
T Consensus         7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~   43 (69)
T PF01363_consen    7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR   43 (69)
T ss_dssp             GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred             CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence            4456899999998533221222 39999999998643

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=84.40  E-value=0.74  Score=30.13  Aligned_cols=41  Identities=22%  Similarity=0.826  Sum_probs=26.1

Q ss_pred             Ccccccccccc-----ccCCCceEEe-CCCCcccHhHHHHHHhcCCccccccc
Q psy8622          38 SNLQCSVCWEQ-----FTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQ   84 (101)
Q Consensus        38 ~~~~C~IC~~~-----~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~   84 (101)
                      .+..|-+|.+.     |.. +.+..- .|+..||..|+.+     ..||.|.+
T Consensus       151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R  197 (202)
T PF13901_consen  151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR  197 (202)
T ss_pred             CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence            35678888753     111 122222 3999999999862     67999954

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

Probab=84.24  E-value=0.082  Score=28.86  Aligned_cols=40  Identities=23%  Similarity=0.582  Sum_probs=19.7

Q ss_pred             cccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ..||.|...+....       ++.+|..|-.. +.....||-|..++.
T Consensus         2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le   41 (70)
T PF07191_consen    2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLE   41 (70)
T ss_dssp             -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred             CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHH
Confidence            46888888764321       55566666554 344557888887763

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

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

Probab=82.25  E-value=0.92  Score=24.44  Aligned_cols=12  Identities=17%  Similarity=0.753  Sum_probs=8.8

Q ss_pred             cccHhHHHHHHh
Q psy8622          63 FYHTPCIEPWLQ   74 (101)
Q Consensus        63 ~f~~~Ci~~w~~   74 (101)
                      .||+.||.+|..
T Consensus        11 gFCRNCLskWy~   22 (68)
T PF06844_consen   11 GFCRNCLSKWYR   22 (68)
T ss_dssp             S--HHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            599999999975

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

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

Probab=81.88  E-value=0.86  Score=23.33  Aligned_cols=24  Identities=21%  Similarity=0.528  Sum_probs=13.1

Q ss_pred             CCCcccHhHHHHHHhcCCcccccc
Q psy8622          60 CDHFYHTPCIEPWLQLHGTCPICR   83 (101)
Q Consensus        60 C~H~f~~~Ci~~w~~~~~~CP~Cr   83 (101)
                      |++.||.+|=.-.=+.-..||-|-
T Consensus        27 C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen   27 CKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             TT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CCCccccCcChhhhccccCCcCCC
Confidence            999999999643223444788873

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

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

Probab=81.48  E-value=1.4  Score=20.09  Aligned_cols=37  Identities=22%  Similarity=0.538  Sum_probs=22.0

Q ss_pred             ccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL   86 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   86 (101)
                      .|..|.+.+...+. ....=+..||..|+        .|..|+..+
T Consensus         1 ~C~~C~~~i~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~L   37 (39)
T smart00132        1 KCAGCGKPIRGGEL-VLRALGKVWHPECF--------KCSKCGKPL   37 (39)
T ss_pred             CccccCCcccCCcE-EEEeCCccccccCC--------CCcccCCcC
Confidence            36778777654322 22223667888775        477776655

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

>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression

Probab=81.40  E-value=2.2  Score=25.11  Aligned_cols=25  Identities=20%  Similarity=0.446  Sum_probs=18.6

Q ss_pred             CCcccHhHHHHHHhc---------CCcccccccc
Q psy8622          61 DHFYHTPCIEPWLQL---------HGTCPICRQT   85 (101)
Q Consensus        61 ~H~f~~~Ci~~w~~~---------~~~CP~Cr~~   85 (101)
                      .-.||..||..++..         .-.||.||..
T Consensus        37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi   70 (105)
T PF10497_consen   37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI   70 (105)
T ss_pred             cceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence            667999999887642         2269999873

This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].

>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=80.84  E-value=0.78  Score=22.83  Aligned_cols=43  Identities=28%  Similarity=0.634  Sum_probs=25.8

Q ss_pred             ccccccccccCCCceEEe-CCCCcccHhHHHHHHh------cCCccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQ------LHGTCPICRQ   84 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~------~~~~CP~Cr~   84 (101)
                      .|.||...... ..++.- .|+..||..|+..-..      ..=.||.|+.
T Consensus         1 ~C~vC~~~~~~-~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~   50 (51)
T PF00628_consen    1 YCPVCGQSDDD-GDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP   50 (51)
T ss_dssp             EBTTTTSSCTT-SSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred             eCcCCCCcCCC-CCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence            47888884322 222222 4899999999864322      1236887753

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....

>smart00249 PHD PHD zinc finger

Probab=80.06  E-value=1.2  Score=21.09  Aligned_cols=29  Identities=34%  Similarity=0.768  Sum_probs=18.1

Q ss_pred             cccccccccCCCceEE-eCCCCcccHhHHHH
Q psy8622          42 CSVCWEQFTLDEAVRK-LPCDHFYHTPCIEP   71 (101)
Q Consensus        42 C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~   71 (101)
                      |.+|...... ..++. -.|...||..|+..
T Consensus         2 C~~C~~~~~~-~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        2 CSVCGKPDDG-GELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             cccCCCcCCC-CCEEECCCCCchhhhhhCCC
Confidence            6777775422 22222 24899999999854

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	101
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		4e-13
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-07
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		6e-07
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		9e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-06
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		5e-05
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		6e-05
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		1e-04
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		2e-04

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 42/63 (66%)
Query: 38  SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA 97
           S L+C VC E + L E+VR+LPC+H +H  CI PWL+ H +CP+CR++L  ++  +  P 
Sbjct: 14  SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPPG 73
Query: 98  GAG 100
             G
Sbjct: 74  LTG 76

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 39 NLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR 83
           + C +C  ++   +   +LPC H++H PC+  WLQ  GTCP+CR
Sbjct: 40 EMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTL 86
          D  ++C+VC  +    E  R LP C H +H  C++ WL  H TCP+CR T+
Sbjct: 3  DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 27/42 (64%)
Query: 42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR 83
          C VC   F   + +R LPC+H +H  C++ WL+ + TCPICR
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
          +C++C       E VR+LPC H +H  C++ WL  +  CPICR  + ++
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
           ++ LQC +C E F   EAV  L C H + + CI  W++    CPICR+ + S++
Sbjct: 51  ENELQCIICSEYFI--EAV-TLNCAHSFCSYCINEWMKRKIECPICRKDIKSKT 101

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
           ++ LQC +C E F   EAV  L C H + + CI  W++    CPICR+ + S++
Sbjct: 51  ENELQCIICSEYFI--EAV-TLNCAHSFCSYCINEWMKRKIECPICRKDIKSKT 101

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
           ++ LQC +C E F   EAV  L C H + + CI  W++    CPICR+ + S++
Sbjct: 62  ENELQCIICSEYFI--EAV-TLNCAHSFCSYCINEWMKRKIECPICRKDIKSKT 112

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 23/41 (56%)
Query: 42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPIC 82
          C+VC E F   + +   PC H +H  C+  WL++   CP+C
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	101
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-25
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-23
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	7e-22
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-21
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-19
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	4e-17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	5e-15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	7e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-12
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-11
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-11
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	5e-10
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	4e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	7e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	7e-08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	6e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	7e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-06
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	3e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	6e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	5e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	8e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	9e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	2e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	3e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	6e-04

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

 Score = 89.8 bits (223), Expect = 1e-25
 Identities = 28/66 (42%), Positives = 42/66 (63%)

Query: 35  TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESL 94
              S L+C VC E + L E+VR+LPC+H +H  CI PWL+ H +CP+CR++L  ++  + 
Sbjct: 11  HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN 70

Query: 95  GPAGAG 100
            P   G
Sbjct: 71  PPGLTG 76

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

 Score = 85.5 bits (212), Expect = 1e-23
 Identities = 18/51 (35%), Positives = 28/51 (54%)

Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 86
              + C +C  ++   +   +LPC H++H PC+  WLQ  GTCP+CR   
Sbjct: 37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF 87

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

 Score = 80.6 bits (199), Expect = 7e-22
 Identities = 18/67 (26%), Positives = 33/67 (49%)

Query: 32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
          +V+  + +  C+VC E F   + +   PC H +H  C+  WL++   CP+C   +   + 
Sbjct: 8  KVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ 67

Query: 92 ESLGPAG 98
           S   +G
Sbjct: 68 LSGPSSG 74

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

 Score = 78.9 bits (195), Expect = 2e-21
 Identities = 19/58 (32%), Positives = 32/58 (55%)

Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAES 93
          +D+  +C++C       E VR+LPC H +H  C++ WL  +  CPICR  + ++    
Sbjct: 11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSE 68

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

 Score = 74.7 bits (184), Expect = 1e-19
 Identities = 20/56 (35%), Positives = 28/56 (50%)

Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
                C VC   F   + +R LPC+H +H  C++ WL+ + TCPICR      S 
Sbjct: 20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPSSG 75

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

 Score = 68.0 bits (167), Expect = 4e-17
 Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 1/51 (1%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTL 86
          D  ++C+VC  +    E  R LP C H +H  C++ WL  H TCP+CR T+
Sbjct: 3  DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 67.8 bits (166), Expect = 5e-17
 Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 4/67 (5%)

Query: 32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
          +V+      +C +C +      A   LPC H +   CI+ W   H  CPICR  +   + 
Sbjct: 8  RVKQLTDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANE 63

Query: 92 ESLGPAG 98
           S   +G
Sbjct: 64 SSGPSSG 70

>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 = 62.3 bits (152), Expect = 5e-15
 Identities = 15/51 (29%), Positives = 19/51 (37%), Gaps = 1/51 (1%)

Query: 37 DSNLQCSVCWEQ-FTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 86
            +  C +C E   T       LPC H  H  C E  L+    CP+C    
Sbjct: 3  SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 60.1 bits (146), Expect = 7e-14
 Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 2/48 (4%)

Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
          +C +C E  +       LPC H +   CI  W++ + TCP+C+  + S
Sbjct: 7  RCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

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

 Score = 56.8 bits (137), Expect = 1e-12
 Identities = 11/58 (18%), Positives = 25/58 (43%), Gaps = 4/58 (6%)

Query: 36 DDSNLQCSVCWEQFT----LDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
              + C +C + ++        +    C H + + C+   L+   TCP CR+ ++ +
Sbjct: 12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 69

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

 Score = 54.1 bits (130), Expect = 2e-11
 Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 1/46 (2%)

Query: 42 CSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTL 86
          C  C  +   ++ V     C+H +H  C+  W++ +  CP+C+Q  
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

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

 Score = 53.7 bits (129), Expect = 2e-11
 Identities = 11/59 (18%), Positives = 25/59 (42%), Gaps = 4/59 (6%)

Query: 36 DDSNLQCSVCWEQFT----LDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
              + C +C + ++        +    C H + + C+   L+   TCP CR+ ++ + 
Sbjct: 7  PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 65

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

 Score = 53.2 bits (128), Expect = 3e-11
 Identities = 11/57 (19%), Positives = 26/57 (45%), Gaps = 4/57 (7%)

Query: 38 SNLQCSVCWEQFT----LDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
          + + C +C + ++        +    C H + + C+   L+   TCP CR+ ++ + 
Sbjct: 2  AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

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

 Score = 50.1 bits (120), Expect = 5e-10
 Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 2/62 (3%)

Query: 27 NPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 86
          + +   +      + CS+C       +A     C H +   CI         CP C   +
Sbjct: 3  SGSSGNLSELTPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

Query: 87 HS 88
          H 
Sbjct: 61 HQ 62

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

 Score = 48.3 bits (115), Expect = 4e-09
 Identities = 17/74 (22%), Positives = 25/74 (33%), Gaps = 3/74 (4%)

Query: 18 LGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-H 76
          +G  H+   +     V +     +C +C E+    +A     C       CI  WL    
Sbjct: 1  MGHHHHHHSHMDEQSVESIAEVFRCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQR 58

Query: 77 GTCPICRQTLHSES 90
            CP CR  L    
Sbjct: 59 AQCPHCRAPLQLRE 72

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

 Score = 47.9 bits (114), Expect = 7e-09
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 31 VQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
          +++   + +L C +C   F   +A   + C H +   CI  +L+    CPIC   +H 
Sbjct: 7  IKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62

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

 Score = 46.4 bits (110), Expect = 2e-08
 Identities = 15/64 (23%), Positives = 28/64 (43%), Gaps = 3/64 (4%)

Query: 35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESL 94
             +  +C++C +       V  LPC H +   C++    L   C +CRQ +  +  +S 
Sbjct: 11 PSLTVPECAICLQTCV--HPVS-LPCKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDSG 67

Query: 95 GPAG 98
            +G
Sbjct: 68 PSSG 71

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

 Score = 47.3 bits (112), Expect = 3e-08
 Identities = 21/55 (38%), Positives = 32/55 (58%), Gaps = 3/55 (5%)

Query: 36  DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
            ++ LQC +C E F   EAV  L C H + + CI  W++    CPICR+ + S++
Sbjct: 61  LENELQCIICSEYFI--EAVT-LNCAHSFCSYCINEWMKRKIECPICRKDIKSKT 112

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

 Score = 46.3 bits (110), Expect = 3e-08
 Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 28 PALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH 87
          P L  ++T D  L+C +C+E F    A+    C H Y + CI  +L     CP C  T+ 
Sbjct: 11 PGLAVMKTIDDLLRCGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT 68

Query: 88 SES 90
             
Sbjct: 69 EPD 71

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

 Score = 45.6 bits (108), Expect = 4e-08
 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 3/49 (6%)

Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
          ++   +C +C + F     V    C H++   C     +    C IC Q
Sbjct: 12 EEIPFRCFICRQAFQ--NPVV-TKCRHYFCESCALEHFRATPRCYICDQ 57

>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 = 47.5 bits (112), Expect = 7e-08
 Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 37  DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSES 90
            +   C +C E       V+  PC H   T C+  W +  G  CP CR  +    
Sbjct: 330 STFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 381

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

 Score = 46.0 bits (108), Expect = 2e-07
 Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 16/75 (21%)

Query: 36  DDSNLQCSVCWEQFTLDEAVRKLPCD-----HFYHTPCIEPWLQ-----------LHGTC 79
           D+  L+C++C+        V  + CD        H  C+E W +             G C
Sbjct: 305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQC 364

Query: 80  PICRQTLHSESAESL 94
           P C+  L +  A  L
Sbjct: 365 PFCKAKLSTSFAALL 379

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

 Score = 43.7 bits (102), Expect = 3e-07
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 1/54 (1%)

Query: 32 QVRTDDSNLQCSVCWEQFTLD-EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
          +    D  ++C       T +   V    C+H +H  CI  WL+    CP+  +
Sbjct: 44 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 97

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

 Score = 42.8 bits (101), Expect = 6e-07
 Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 4/62 (6%)

Query: 37 DSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLHG---TCPICRQTLHSESAE 92
             L+C +C E FT ++   K L C H     C+E  L        CP C +     S  
Sbjct: 13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLT 72

Query: 93 SL 94
           L
Sbjct: 73 QL 74

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

 Score = 43.3 bits (101), Expect = 7e-07
 Identities = 10/44 (22%), Positives = 18/44 (40%)

Query: 41  QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
             +      + +  V    C+H +H  CI  WL+    CP+  +
Sbjct: 65  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 108

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

 Score = 41.5 bits (97), Expect = 1e-06
 Identities = 11/51 (21%), Positives = 18/51 (35%), Gaps = 4/51 (7%)

Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQ 84
           D+   C++C       +      C    H PC+  + Q +    CP C  
Sbjct: 12 PDAVKICNICHSLLI--QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A Length = 61

 Score = 40.0 bits (94), Expect = 3e-06
 Identities = 9/52 (17%), Positives = 20/52 (38%), Gaps = 2/52 (3%)

Query: 38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
          S++ C++  +       V        +    +E +++  G  PI  + L  E
Sbjct: 2  SHMLCAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE 51

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

 Score = 41.6 bits (97), Expect = 6e-06
 Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 4/63 (6%)

Query: 36  DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQTLHSESAES 93
            D+   C++C       +      C    H PC+  + Q +    CP C      E  + 
Sbjct: 177 PDAVKICNICHSLLI--QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKV 234

Query: 94  LGP 96
             P
Sbjct: 235 FDP 237

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

 Score = 39.8 bits (92), Expect = 2e-05
 Identities = 11/58 (18%), Positives = 25/58 (43%), Gaps = 4/58 (6%)

Query: 36 DDSNLQCSVCWEQFTLDEAVRK----LPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
              + C +C + ++      +      C H + + C+   L+   TCP CR+ ++ +
Sbjct: 4  GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 61

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

 Score = 38.6 bits (90), Expect = 2e-05
 Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 4/54 (7%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQTLHS 88
             L C +C +  T  +AV    C + Y   CI   L      TCP C Q   S
Sbjct: 13 PDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 64

>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 = 39.1 bits (91), Expect = 2e-05
 Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 4/58 (6%)

Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSESAESLGP 96
           QC +C E     E V  LPC+H    PC +  ++     CP CR+ + S +      
Sbjct: 16 CQCGICMEILV--EPVT-LPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRR 70

>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 = 38.8 bits (90), Expect = 3e-05
 Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 4/53 (7%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHS 88
          +   QC  C E       +    C H     C++   +    +CP CR  L  
Sbjct: 50 EETFQCICCQELVF--RPIT-TVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR 99

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

 Score = 37.8 bits (88), Expect = 5e-05
 Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 4/54 (7%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQTLHS 88
             L C +C +  T  +AV    C + Y   CI   L      TCP C Q   S
Sbjct: 11 PDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 62

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

 Score = 37.6 bits (87), Expect = 8e-05
 Identities = 17/74 (22%), Positives = 30/74 (40%), Gaps = 4/74 (5%)

Query: 17 SLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH 76
          +   +H +T+  A+        ++ C +C  +  L + V    C H +   CI   L++ 
Sbjct: 1  NCSKIHLSTKLLAVDFPAHFVKSISCQIC--EHILADPVE-TSCKHLFCRICILRCLKVM 57

Query: 77 G-TCPICRQTLHSE 89
          G  CP CR      
Sbjct: 58 GSYCPSCRYPCFPT 71

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

 Score = 37.5 bits (86), Expect = 9e-05
 Identities = 11/76 (14%), Positives = 18/76 (23%), Gaps = 20/76 (26%)

Query: 30 LVQVRTDDSNLQCSVCWEQFTL---------------DEAVRKLPCDHFYHTPCIEPWLQ 74
            +         C +C E+  +                   R   C H +H  C+     
Sbjct: 16 YTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYC 75

Query: 75 -----LHGTCPICRQT 85
                   CP C+  
Sbjct: 76 NGNKDGSLQCPSCKTI 91

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

 Score = 36.2 bits (84), Expect = 1e-04
 Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 6/45 (13%)

Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
          L+C  C  +       + LPC H   + C+E        CPIC+ 
Sbjct: 7  LRCQQCQAEAK---CPKLLPCLHTLCSGCLE---ASGMQCPICQA 45

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

 Score = 36.6 bits (84), Expect = 1e-04
 Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 2/59 (3%)

Query: 36 DDSNLQCSVCWEQFTL-DEAVRKLPCDHFYHTPCIEPWL-QLHGTCPICRQTLHSESAE 92
           +  ++C +C E   + D       C +     C        +G CP CR+    + A 
Sbjct: 8  KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV 66

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

 Score = 37.2 bits (86), Expect = 1e-04
 Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 4/49 (8%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQT 85
          +  L+CS C       E V    C+H + + C+   +     CP+C   
Sbjct: 20 EKLLRCSRCTNILR--EPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTP 64

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

 Score = 35.9 bits (83), Expect = 2e-04
 Identities = 11/59 (18%), Positives = 22/59 (37%), Gaps = 4/59 (6%)

Query: 33 VRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSES 90
          V+T +   +C  C     L    +   C H +   C+   L      C  C++++  + 
Sbjct: 9  VKTVEDKYKCEKCHL--VLCSPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae} Length = 267

 Score = 38.0 bits (87), Expect = 2e-04
 Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 6/64 (9%)

Query: 31  VQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGT--CPI--CRQTL 86
           +Q+      L C +  + +     +    C+H +    I+ +LQ + T  CP   C Q +
Sbjct: 173 LQIEGGKIELTCPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVV 230

Query: 87  HSES 90
               
Sbjct: 231 SMRD 234

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

 Score = 36.3 bits (84), Expect = 3e-04
 Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 4/55 (7%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSES 90
          +S  +C +C     L EAV+  PC H +   CI   ++  G  CP+  + L    
Sbjct: 16 ESKYECPIC--LMALREAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>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 = 36.5 bits (84), Expect = 3e-04
 Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 4/50 (8%)

Query: 40  LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHS 88
             C  C E     + V    C H     C++   +    +CP CR  L  
Sbjct: 79  FMCVCCQELVY--QPV-TTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ 125

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

 Score = 36.1 bits (83), Expect = 6e-04
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 40  LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSE 89
           L C +C +       +    C H +   CI   L+     CP CR+ L S+
Sbjct: 55  LMCPICLDMLK--NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	101
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.77
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.77
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.74
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.74
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.71
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.71
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.7
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.69
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.68
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.66
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.66
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.66
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.65
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.64
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.64
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.64
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.64
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.64
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.63
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.61
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.61
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.6
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.59
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.58
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.58
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.57
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.57
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.56
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.56
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.56
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.54
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.54
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.53
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.51
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.51
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.51
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.5
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.49
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.47
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.47
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.46
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.46
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.45
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.45
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.45
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.45
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.44
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.44
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.43
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.42
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.4
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.37
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.36
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.35
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.34
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.33
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.31
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.3
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.25
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.24
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.19
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.18
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.15
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.08
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.07
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.05
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	99.04
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.98
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.91
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.75
3nw0_A	238	Non-structural maintenance of chromosomes element	98.42
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	97.32
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.91
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	96.06
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	95.82
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	94.39
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	93.86
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	93.75
1we9_A	64	PHD finger family protein; structural genomics, PH	92.8
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	92.03
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	91.52
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	91.39
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	91.12
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	90.7
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	90.4
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	90.27
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	90.05
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	89.97
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	89.4
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	89.27
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	89.21
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	88.09
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	88.07
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	87.68
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	87.26
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	87.23
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	86.73
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	86.7
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	86.48
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	86.26
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	86.23
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	86.12
2d8v_A	67	Zinc finger FYVE domain-containing protein 19; zfy	86.01
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	85.9
2yt5_A	66	Metal-response element-binding transcription facto	85.9
1z60_A	59	TFIIH basal transcription factor complex P44 subun	85.76
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	85.44
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	85.22
1wem_A	76	Death associated transcription factor 1; structura	85.15
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	84.98
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	84.92
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	84.88
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	84.79
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	84.16
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	82.99
4gne_A	107	Histone-lysine N-methyltransferase NSD3; zinc fing	82.64
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	80.88
3zyq_A	226	Hepatocyte growth factor-regulated tyrosine kinas	80.79
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	80.78
2a20_A	62	Regulating synaptic membrane exocytosis protein 2;	80.64
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	80.25
1dvp_A	220	HRS, hepatocyte growth factor-regulated tyrosine k	80.14
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	80.07

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

Probab=99.77  E-value=4.7e-19  Score=98.37  Aligned_cols=65  Identities=42%  Similarity=1.019  Sum_probs=54.4

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcccCCCCCC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPAGA   99 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~~   99 (101)
                      .......|+||++.+..+..+..++|+|.||..||.+|+..+..||+||..+...+.....+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~   75 (78)
T 2ect_A           11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPPGLT   75 (78)
T ss_dssp             TSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCCCCSSCT
T ss_pred             cCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcccCCCCCCCC
Confidence            34556789999999987777788899999999999999999999999999998777665554443

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

Probab=99.77  E-value=1.2e-18  Score=95.86  Aligned_cols=58  Identities=26%  Similarity=0.736  Sum_probs=49.8

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA   91 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~   91 (101)
                      ........|+||++.+..+..+..++|+|.||..||.+|+..+.+||+||..+.....
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2ep4_A           10 KELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ   67 (74)
T ss_dssp             CCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCS
T ss_pred             ccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccccc
Confidence            3445577899999999877777888999999999999999998999999999965443

>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=99.74  E-value=5.1e-18  Score=92.10  Aligned_cols=55  Identities=35%  Similarity=0.971  Sum_probs=48.2

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ..+....|+||++.+..+..+..++|+|.||..||..|+..+.+||+||..+...
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            4455678999999997777788899999999999999999999999999998654

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

Probab=99.74  E-value=2.8e-18  Score=94.64  Aligned_cols=54  Identities=35%  Similarity=0.889  Sum_probs=48.0

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ..+...|+||++.+..++.+..++|+|.||..||.+|+..+.+||+||+.+...
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            445678999999998777788899999999999999999999999999988654

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

Probab=99.71  E-value=3.9e-18  Score=88.71  Aligned_cols=51  Identities=41%  Similarity=1.003  Sum_probs=45.3

Q ss_pred             CCccccccccccccCCCceEEeC-CCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      ++...|+||++.+..++.+..++ |+|.||..|+.+|+..+.+||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            45678999999998777778887 9999999999999999999999998874

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

Probab=99.71  E-value=8.9e-18  Score=95.90  Aligned_cols=53  Identities=34%  Similarity=1.025  Sum_probs=47.2

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ......|+||++.+..++.+..++|+|.||..||..|+..+.+||+||..+..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            34567899999999877778889999999999999999999999999998854

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

Probab=99.70  E-value=4.3e-17  Score=89.19  Aligned_cols=59  Identities=20%  Similarity=0.438  Sum_probs=48.2

Q ss_pred             ccCCCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCCcccccccccccCCcccC
Q psy8622          33 VRTDDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESL   94 (101)
Q Consensus        33 ~~~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~   94 (101)
                      ....++...|+||++.+..+   +.+ +|+|.||..||..|+.....||+||..+...+....
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   68 (72)
T 2djb_A            9 LSELTPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSG   68 (72)
T ss_dssp             CCCCCGGGSCTTTSSCCSSC---EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCCC
T ss_pred             HhhcCCCCCCCCCChHHHCc---CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccccccc
Confidence            34456678999999998643   555 999999999999999988999999999977655543

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

Probab=99.69  E-value=1.1e-17  Score=91.30  Aligned_cols=57  Identities=23%  Similarity=0.512  Sum_probs=47.2

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcccCC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLG   95 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~   95 (101)
                      ..+...|+||++.+..+   +.++|+|.||..||..|+.....||+||..+.......+.
T Consensus        12 ~~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~p~   68 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDSGP   68 (71)
T ss_dssp             SSSCCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHHHHSCSC
T ss_pred             CCCCCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHhhccCCC
Confidence            44567899999998543   7789999999999999999889999999999766544433

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

Probab=99.68  E-value=3.2e-17  Score=89.24  Aligned_cols=58  Identities=19%  Similarity=0.608  Sum_probs=48.0

Q ss_pred             CCCCccccccccccccCC----CceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          35 TDDSNLQCSVCWEQFTLD----EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~----~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ..++...|+||++.+..+    ...+.++|||.||..|+.+|+..+..||+||..+...+..
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   67 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   67 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhee
Confidence            345577899999998542    3447789999999999999999999999999999866544

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

Probab=99.66  E-value=7.5e-17  Score=87.65  Aligned_cols=54  Identities=28%  Similarity=0.723  Sum_probs=46.0

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ...+...|+||++.+..    +.++|+|.||..|+.+|+.....||+||..+...+..
T Consensus        11 ~~~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   64 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANES   64 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCC
T ss_pred             cCCCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCcc
Confidence            44557789999999853    7789999999999999999999999999999765543

>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=99.66  E-value=6.9e-17  Score=83.88  Aligned_cols=51  Identities=27%  Similarity=0.675  Sum_probs=43.4

Q ss_pred             CCccccccccccccCC-CceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLD-EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~-~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      .....|+||++.+... ..+..++|+|.||..|+.+|+.....||+||+.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            3467899999998543 35678899999999999999998899999999874

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

Probab=99.66  E-value=8.7e-17  Score=86.93  Aligned_cols=54  Identities=20%  Similarity=0.658  Sum_probs=44.9

Q ss_pred             CCCCccccccccccccCC----CceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLD----EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~----~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ...+...|+||++.+..+    ..++.++|+|.||..||..|+..+..||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            445677899999998643    234778999999999999999999999999998753

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

Probab=99.65  E-value=1.8e-16  Score=87.16  Aligned_cols=56  Identities=30%  Similarity=0.509  Sum_probs=45.4

Q ss_pred             cCCCCccccccccccccCCCceEEeC-CCCcccHhHHHHHHhcC--CcccccccccccCCcc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLH--GTCPICRQTLHSESAE   92 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~w~~~~--~~CP~Cr~~~~~~~~~   92 (101)
                      ....+...|+||++.+..+   +.++ |+|.||..||..|+...  ..||+||+.+...+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~   68 (74)
T 2yur_A           10 DPIPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDAL   68 (74)
T ss_dssp             CCSCGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTTT
T ss_pred             ccCCCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcccc
Confidence            3445678999999998644   7799 99999999999999765  6899999987655443

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

Probab=99.64  E-value=4.1e-16  Score=87.97  Aligned_cols=59  Identities=27%  Similarity=0.570  Sum_probs=47.7

Q ss_pred             ccCCCCccccccccccccCCCc-eEEeCCCCcccHhHHHHHHhcC---CcccccccccccCCc
Q psy8622          33 VRTDDSNLQCSVCWEQFTLDEA-VRKLPCDHFYHTPCIEPWLQLH---GTCPICRQTLHSESA   91 (101)
Q Consensus        33 ~~~~~~~~~C~IC~~~~~~~~~-~~~l~C~H~f~~~Ci~~w~~~~---~~CP~Cr~~~~~~~~   91 (101)
                      .....+...|+||++.+...+. ++.++|||.||..|+..|+...   ..||+||..+...+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i   71 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSL   71 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSST
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchhH
Confidence            3445567889999999875442 6788999999999999999875   789999998876543

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

Probab=99.64  E-value=8e-17  Score=85.88  Aligned_cols=55  Identities=20%  Similarity=0.631  Sum_probs=46.1

Q ss_pred             CccccccccccccCC----CceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          38 SNLQCSVCWEQFTLD----EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~----~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      +...|+||++.+..+    ..+..++|||.||..|+.+|+..+..||+||..+...+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   60 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   60 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCEE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCcccee
Confidence            356899999998542    3447789999999999999999999999999999876544

>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=99.64  E-value=2.9e-16  Score=92.71  Aligned_cols=52  Identities=21%  Similarity=0.554  Sum_probs=41.8

Q ss_pred             CccccccccccccCCC---------------ceEEeCCCCcccHhHHHHHH-----hcCCcccccccccccC
Q psy8622          38 SNLQCSVCWEQFTLDE---------------AVRKLPCDHFYHTPCIEPWL-----QLHGTCPICRQTLHSE   89 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~---------------~~~~l~C~H~f~~~Ci~~w~-----~~~~~CP~Cr~~~~~~   89 (101)
                      .+..|+||++.|..+.               ....++|+|.||..||..|+     ....+||+||+.+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            4568999999985432               23468899999999999999     4467999999988654

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

Probab=99.64  E-value=2e-16  Score=88.48  Aligned_cols=52  Identities=25%  Similarity=0.704  Sum_probs=41.1

Q ss_pred             CccccccccccccC-----------CCceEEeC-CCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          38 SNLQCSVCWEQFTL-----------DEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        38 ~~~~C~IC~~~~~~-----------~~~~~~l~-C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ++..|+||++.+..           ++.++.++ |+|.||..||.+|+..+.+||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            45568888887743           33345554 999999999999999999999999988654

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

Probab=99.64  E-value=1.9e-16  Score=85.55  Aligned_cols=50  Identities=30%  Similarity=0.777  Sum_probs=43.1

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      +....|+||++.+.  +....++|+|.||..|+.+|+..+.+||+||..+..
T Consensus         3 ~~~~~C~IC~~~~~--~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCcccc--CCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            34568999999985  335778999999999999999988999999998864

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

Probab=99.63  E-value=3.8e-16  Score=84.03  Aligned_cols=53  Identities=17%  Similarity=0.540  Sum_probs=44.0

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHh-cCCcccccccccccCC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ-LHGTCPICRQTLHSES   90 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~~~   90 (101)
                      ...+...|+||++.+..+   +.++|||.||..|+.+|+. ....||+||..+..++
T Consensus        11 ~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           11 TVEDKYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             SCCCCEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             cCCcCCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            345578999999998644   5589999999999999994 5678999999987654

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

Probab=99.61  E-value=1.1e-15  Score=83.57  Aligned_cols=54  Identities=17%  Similarity=0.512  Sum_probs=44.4

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHh---cCCcccccccccccCC
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ---LHGTCPICRQTLHSES   90 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~---~~~~CP~Cr~~~~~~~   90 (101)
                      ....+...|+||++.+..   ++.++|||.||..|+..|+.   ....||+||..+..++
T Consensus        15 ~~~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             HhCccCCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            345567899999999853   36789999999999999996   4568999999987654

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

Probab=99.61  E-value=8.3e-16  Score=85.74  Aligned_cols=50  Identities=20%  Similarity=0.553  Sum_probs=43.4

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      .......|+||++.+..   +++++|+|.||..|+..|+.....||+||..+.
T Consensus        11 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           11 EEEIPFRCFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCCSBCSSSCSBCCS---EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             cCCCCCCCcCCCchhcC---eeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            34456789999999854   367999999999999999998999999999985

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=99.60  E-value=1.1e-15  Score=89.48  Aligned_cols=52  Identities=23%  Similarity=0.487  Sum_probs=43.3

Q ss_pred             CCccccccccccccCCC---------------ceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDE---------------AVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~---------------~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      .++..|+||++.|...-               .++.++|+|.||..||..|+..+.+||+||+.+..
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  101 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCccee
Confidence            35678999999986431               35668999999999999999999999999998643

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

Probab=99.59  E-value=5e-16  Score=94.67  Aligned_cols=49  Identities=37%  Similarity=0.875  Sum_probs=42.7

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ++..|+||++.+..   ++.++|||.||..||..|+..+.+||+||..+...
T Consensus        52 ~~~~C~iC~~~~~~---~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSS---EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCC---ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            35689999999854   37899999999999999999999999999998643

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

Probab=99.58  E-value=2e-15  Score=83.50  Aligned_cols=54  Identities=22%  Similarity=0.433  Sum_probs=45.3

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCcc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESAE   92 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~~   92 (101)
                      ..+...|+||++.+..+   +.++|||.||..||.+|+.. ..+||+||..+...+..
T Consensus         5 ~~~~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~   59 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLT   59 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCE
T ss_pred             CcccCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCc
Confidence            34578999999998644   77899999999999999986 77999999998765443

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

Probab=99.58  E-value=3.9e-15  Score=83.25  Aligned_cols=56  Identities=21%  Similarity=0.553  Sum_probs=46.2

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc------CCcccccccccccCCccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL------HGTCPICRQTLHSESAES   93 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~------~~~CP~Cr~~~~~~~~~~   93 (101)
                      ...+...|+||++.+..+   +.++|+|.||..|+..|+..      ...||+||..+...+...
T Consensus        15 ~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~   76 (85)
T 2ecw_A           15 MIKEEVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKP   76 (85)
T ss_dssp             CCCTTTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEE
T ss_pred             hCccCCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCc
Confidence            345577999999998654   67899999999999999987      668999999997665443

>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=99.57  E-value=9.9e-16  Score=88.73  Aligned_cols=55  Identities=25%  Similarity=0.607  Sum_probs=45.5

Q ss_pred             CCCCccccccccccccCCCceEE-eCCCCcccHhHHHHHHhcC-CcccccccccccCCcc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLH-GTCPICRQTLHSESAE   92 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~~~~~~   92 (101)
                      ...+...|+||++.+..   ++. ++|||.||..||..|+... ..||+||..+...+..
T Consensus        18 ~l~~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~   74 (100)
T 3lrq_A           18 SIAEVFRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELV   74 (100)
T ss_dssp             HHHHHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCE
T ss_pred             cCCCCCCCccCCccccC---ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhH
Confidence            34457899999999863   366 8999999999999999877 6999999999765543

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

Probab=99.57  E-value=4.5e-15  Score=82.84  Aligned_cols=54  Identities=24%  Similarity=0.685  Sum_probs=43.9

Q ss_pred             CCCccccccccccccCCCceEEeCCC-----CcccHhHHHHHHhcC--CcccccccccccCC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCD-----HFYHTPCIEPWLQLH--GTCPICRQTLHSES   90 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~-----H~f~~~Ci~~w~~~~--~~CP~Cr~~~~~~~   90 (101)
                      ..+...|.||++++..++.+ ++||.     |.||..||.+|+..+  .+||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            34456899999998655554 68996     999999999999764  59999999997654

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

Probab=99.56  E-value=1e-15  Score=88.35  Aligned_cols=52  Identities=31%  Similarity=0.759  Sum_probs=43.8

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCCcccccccccccCC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTLHSES   90 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~   90 (101)
                      ..+...|+||++.+..+   +.+ +|||.||..|+..|+..+..||+||..+...+
T Consensus        19 ~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   71 (99)
T 2y43_A           19 IDDLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD   71 (99)
T ss_dssp             HHHHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG
T ss_pred             CCCCCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhh
Confidence            34567999999998643   555 89999999999999998899999999987543

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

Probab=99.56  E-value=5.3e-15  Score=82.68  Aligned_cols=56  Identities=23%  Similarity=0.631  Sum_probs=46.1

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc------CCcccccccccccCCccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL------HGTCPICRQTLHSESAES   93 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~------~~~CP~Cr~~~~~~~~~~   93 (101)
                      ...+...|+||++.+..+   +.++|+|.||..|+..|+..      ...||+||..+...+...
T Consensus        15 ~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~   76 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRP   76 (85)
T ss_dssp             CCCCCCCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCC
T ss_pred             HccCCCCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCc
Confidence            345578999999998644   66899999999999999976      779999999998665443

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

Probab=99.56  E-value=9.1e-16  Score=84.98  Aligned_cols=56  Identities=23%  Similarity=0.523  Sum_probs=45.6

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-------CCcccccccccccCCccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-------HGTCPICRQTLHSESAES   93 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-------~~~CP~Cr~~~~~~~~~~   93 (101)
                      ...+...|+||++.+..+   +.++|||.||..|+..|+..       ...||+||..+...+...
T Consensus         8 ~~~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~   70 (79)
T 2egp_A            8 NVQEEVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQA   70 (79)
T ss_dssp             CCCCCCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGT
T ss_pred             hcccCCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCc
Confidence            345578999999998644   66899999999999999976       568999999997654443

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

Probab=99.54  E-value=7.4e-15  Score=83.58  Aligned_cols=50  Identities=30%  Similarity=0.560  Sum_probs=42.1

Q ss_pred             CCCCccccccccccccCCCceEEeC-CCCcccHhHHHHHHhcC--Ccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLH--GTCPICRQTLH   87 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~w~~~~--~~CP~Cr~~~~   87 (101)
                      ...+...|+||++.+..+   +.++ |||.||..||..|+...  ..||+||..+.
T Consensus         9 ~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            445678999999998654   7889 99999999999999643  58999999874

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

Probab=99.54  E-value=1.3e-14  Score=77.15  Aligned_cols=46  Identities=20%  Similarity=0.546  Sum_probs=38.4

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHh---cCCccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ---LHGTCPIC   82 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~---~~~~CP~C   82 (101)
                      ....+...|+||++.+..+   +.++|||.||..||.+|+.   ....||+|
T Consensus        15 ~~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HhCccCCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3455678999999998644   7789999999999999997   45689998

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

Probab=99.53  E-value=5.9e-15  Score=88.60  Aligned_cols=57  Identities=19%  Similarity=0.626  Sum_probs=47.3

Q ss_pred             CCccccccccccccCC----CceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCccc
Q psy8622          37 DSNLQCSVCWEQFTLD----EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAES   93 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~----~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~   93 (101)
                      .+...|+||++.+..+    ..++.++|||.||..||.+|+..+.+||+||+.+.......
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~   65 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP   65 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEEE
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccccccc
Confidence            3467899999998543    34478899999999999999999999999999997665543

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

Probab=99.51  E-value=1.3e-14  Score=77.76  Aligned_cols=54  Identities=19%  Similarity=0.476  Sum_probs=42.7

Q ss_pred             ccccccccc-cccCCCc-eEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCcc
Q psy8622          39 NLQCSVCWE-QFTLDEA-VRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESAE   92 (101)
Q Consensus        39 ~~~C~IC~~-~~~~~~~-~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~~   92 (101)
                      +..|+||++ .+..+.. ...++|||.||..|+.+|+.. ...||+||..+...+..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   59 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFR   59 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCE
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccce
Confidence            568999999 7755432 246799999999999999754 56899999999766543

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

Probab=99.51  E-value=1.3e-14  Score=84.93  Aligned_cols=53  Identities=26%  Similarity=0.613  Sum_probs=44.7

Q ss_pred             cCCCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ....+...|+||++.+..+   +.+ +|||.||..||..|+.....||+||..+...
T Consensus        10 ~~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           10 TELNPHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             HHHGGGTBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             hccCCcCCCccCChHHhCc---CEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            3445678999999998633   555 9999999999999999889999999998754

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

Probab=99.51  E-value=1.1e-14  Score=87.20  Aligned_cols=49  Identities=24%  Similarity=0.546  Sum_probs=41.9

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCC-ccccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHS   88 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~   88 (101)
                      .+...|+||++.+..+   +.++|||.||..||..|+.... .||+||..+..
T Consensus        50 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4567899999998643   7789999999999999998544 99999999976

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

Probab=99.50  E-value=1.6e-14  Score=75.45  Aligned_cols=45  Identities=29%  Similarity=0.727  Sum_probs=37.1

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHh---cCCccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ---LHGTCPIC   82 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~---~~~~CP~C   82 (101)
                      ...+...|+||++.+..+   +.++|+|.||..||.+|+.   ....||+|
T Consensus        11 ~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            345567899999998654   6689999999999999954   56689987

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

Probab=99.49  E-value=3.2e-15  Score=88.81  Aligned_cols=52  Identities=25%  Similarity=0.529  Sum_probs=1.5

Q ss_pred             CCccccccccccccCC-------------C--ceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLD-------------E--AVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~-------------~--~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ..+..|+||++.|...             +  .+..++|+|.||..||.+|+..+.+||+||+++..
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             CCC----------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            3457899999998542             1  22335899999999999999999999999998643

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

Probab=99.47  E-value=2.1e-14  Score=85.28  Aligned_cols=54  Identities=22%  Similarity=0.545  Sum_probs=45.0

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCC-cccccccccccCC
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSES   90 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~~~   90 (101)
                      ....+...|+||++.+..+   +.++|||.||..||..|+.... .||+||..+....
T Consensus        13 ~~~~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           13 PPLESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             cCCCCCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            3456678999999998644   7789999999999999998654 9999999987654

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

Probab=99.47  E-value=6.2e-14  Score=76.97  Aligned_cols=51  Identities=24%  Similarity=0.576  Sum_probs=41.4

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcC--CcccccccccccC
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH--GTCPICRQTLHSE   89 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~--~~CP~Cr~~~~~~   89 (101)
                      +....|+||.+.+..+.  .-..|+|.||..||.+|++.+  .+||+||..+...
T Consensus        13 ~~i~~C~IC~~~i~~g~--~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~   65 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE   65 (74)
T ss_dssp             SSSCBCSSSCCBCSSSE--ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSC
T ss_pred             CCCCcCcchhhHcccCC--ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCC
Confidence            34568999999997552  222699999999999999877  7999999988644

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

Probab=99.46  E-value=4.9e-14  Score=84.57  Aligned_cols=60  Identities=18%  Similarity=0.597  Sum_probs=48.8

Q ss_pred             ccCCCCccccccccccccCC----CceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          33 VRTDDSNLQCSVCWEQFTLD----EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        33 ~~~~~~~~~C~IC~~~~~~~----~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ....++...|+||++.+...    ...+.++|||.||..|+.+|+....+||+||..+...+..
T Consensus        66 l~i~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~  129 (133)
T 4ap4_A           66 IYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH  129 (133)
T ss_dssp             CBCSSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGGEE
T ss_pred             cccCCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhcce
Confidence            34456678999999988532    2347789999999999999999999999999999766543

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

Probab=99.46  E-value=3.7e-14  Score=83.19  Aligned_cols=53  Identities=25%  Similarity=0.649  Sum_probs=43.6

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCC---cccccccccccCCccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG---TCPICRQTLHSESAES   93 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~---~CP~Cr~~~~~~~~~~   93 (101)
                      ....|+||++.+..+   +.++|||.||..|+..|+....   .||+||..+...+...
T Consensus        20 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~   75 (112)
T 1jm7_A           20 KILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE   75 (112)
T ss_dssp             HHTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBC
T ss_pred             CCCCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCc
Confidence            456899999998644   5689999999999999998654   8999999987655443

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

Probab=99.45  E-value=4.1e-14  Score=88.34  Aligned_cols=50  Identities=30%  Similarity=0.624  Sum_probs=41.9

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhc-CCccccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL-HGTCPICRQTLHS   88 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~   88 (101)
                      ......|+||++.+..  . +.+ +|||.||..||..|+.. ...||+||..+..
T Consensus        51 ~~~~~~C~IC~~~~~~--p-~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           51 LHSELMCPICLDMLKN--T-MTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             CHHHHBCTTTSSBCSS--E-EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCCCcccChHhhC--c-CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            3456799999999864  3 555 99999999999999987 7789999999854

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

Probab=99.45  E-value=1.1e-14  Score=86.12  Aligned_cols=51  Identities=31%  Similarity=0.713  Sum_probs=43.1

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHS   88 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~   88 (101)
                      ...++..|+||++.+..+   +.++|||.||..||..|+.. ...||+||..+..
T Consensus        11 ~~~~~~~C~iC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           11 PSLSECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSC---EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCCCccCCcccCce---eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            344578999999998644   77899999999999999976 6689999999864

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

Probab=99.45  E-value=4.2e-14  Score=83.64  Aligned_cols=52  Identities=21%  Similarity=0.538  Sum_probs=43.9

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESA   91 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~   91 (101)
                      .+...|+||++.+..+   +.++|||.||..||..|+.. ...||+||..+...+.
T Consensus        21 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   73 (116)
T 1rmd_A           21 VKSISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDL   73 (116)
T ss_dssp             HHHTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             cCCCCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhc
Confidence            3467899999998543   66899999999999999986 7799999999876544

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

Probab=99.45  E-value=9.3e-14  Score=78.25  Aligned_cols=53  Identities=19%  Similarity=0.113  Sum_probs=45.8

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA   91 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~   91 (101)
                      ..+.+.|+||++.+..+   +.++|||+|+..||..|+....+||+||..+...+.
T Consensus        11 ~p~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l   63 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESML   63 (85)
T ss_dssp             CCTTTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGC
T ss_pred             CchheECcccCchhcCC---eECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhc
Confidence            45578999999999654   889999999999999999988999999999876543

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

Probab=99.44  E-value=6e-14  Score=86.64  Aligned_cols=49  Identities=22%  Similarity=0.514  Sum_probs=42.2

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCC-cccccccccccC
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSE   89 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~~   89 (101)
                      +...|+||++.+..+   +.++|||.||..||..|+.... .||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            457899999998543   6799999999999999998654 899999999765

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

Probab=99.44  E-value=1.7e-13  Score=76.05  Aligned_cols=56  Identities=21%  Similarity=0.553  Sum_probs=42.7

Q ss_pred             CCCccccccccccccCCCceEEe--CCCCcccHhHHHHHHh-cCCcccccccccccCCcc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL--PCDHFYHTPCIEPWLQ-LHGTCPICRQTLHSESAE   92 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l--~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~   92 (101)
                      .+++..|+||++.+...+. ..+  +|||.||..|+..++. ....||.||+.+...+..
T Consensus         8 ~~~~~~CpICle~~~~~d~-~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~   66 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDI-NFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV   66 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTT-TCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSC
T ss_pred             cccCCcCCccCccCccccc-cccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchh
Confidence            4557789999998853322 334  4999999999999874 356899999999766544

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

Probab=99.43  E-value=2.2e-13  Score=78.87  Aligned_cols=55  Identities=22%  Similarity=0.155  Sum_probs=46.9

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ...+.+.||||++.+..+   +.++|||+|+..||..|+....+||+||.++...+..
T Consensus        25 ~~p~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~   79 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLE   79 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSE
T ss_pred             cCcHhhCCcCccCcccCC---eECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhce
Confidence            345678999999999655   8899999999999999999888999999998765433

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

Probab=99.42  E-value=3.8e-13  Score=77.63  Aligned_cols=53  Identities=15%  Similarity=0.065  Sum_probs=45.9

Q ss_pred             CCCccccccccccccCCCceEEeCCC-CcccHhHHHHHHhcCCcccccccccccCCc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCD-HFYHTPCIEPWLQLHGTCPICRQTLHSESA   91 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~-H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~   91 (101)
                      ..+.+.|+||++.|..+   ++++|| |+|+..||..|+....+||+||.++...+.
T Consensus        19 ~p~~~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L   72 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             CCTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             CcHhcCCcCccccccCC---eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhc
Confidence            35578999999999654   789999 999999999999988899999999876544

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

Probab=99.40  E-value=1.8e-13  Score=83.76  Aligned_cols=51  Identities=20%  Similarity=0.419  Sum_probs=43.2

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCC-cccccccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLH   87 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~   87 (101)
                      ...++...|+||++.+..+   +.++|||.||..||..|+.... .||+||.++.
T Consensus        26 ~~l~~~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             ccCCcCcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            4556788999999998644   6789999999999999998654 8999999764

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

Probab=99.37  E-value=7.5e-14  Score=72.81  Aligned_cols=48  Identities=27%  Similarity=0.568  Sum_probs=39.7

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccC
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ..+...|+||++.+..+   +.++|+|.||..|+..   ....||+||+.+...
T Consensus         3 e~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~---~~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEA---SGMQCPICQAPWPLG   50 (56)
T ss_dssp             SCCCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSS---SSSSCSSCCSSSSCC
T ss_pred             cccCCCceEeCCccCCe---EEcCCCCcccHHHHcc---CCCCCCcCCcEeecC
Confidence            35577899999998654   7789999999999977   356899999988654

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

Probab=99.36  E-value=2.9e-13  Score=72.40  Aligned_cols=48  Identities=19%  Similarity=0.436  Sum_probs=40.0

Q ss_pred             CCccccccccccccCCCceEEe--CCCCc-ccHhHHHHHHhcCCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL--PCDHF-YHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l--~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      .++..|+||++....   ...+  ||||. ||..|+..|...+..||+||+.+.
T Consensus         6 ~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKN---GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSC---EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCC---EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            346689999998642   2445  99999 899999999988889999999885

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

Probab=99.35  E-value=5.3e-13  Score=92.92  Aligned_cols=56  Identities=27%  Similarity=0.676  Sum_probs=46.3

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHh-cCCcccccccccccCCcccCCC
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ-LHGTCPICRQTLHSESAESLGP   96 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~~~~~   96 (101)
                      ....|+||++.+.   .++.++|||.||..|+..|+. ....||+||..+.........+
T Consensus       331 ~~~~C~ICle~~~---~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~i~v~p  387 (389)
T 2y1n_A          331 TFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDP  387 (389)
T ss_dssp             SSSBCTTTSSSBC---CEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEECSCCT
T ss_pred             CCCCCCccCcCCC---CeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCceeEecCC
Confidence            3468999999874   347899999999999999998 6889999999998765554443

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

Probab=99.34  E-value=1.5e-13  Score=81.43  Aligned_cols=51  Identities=22%  Similarity=0.552  Sum_probs=42.2

Q ss_pred             CCCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCCcccccccccccCC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTLHSES   90 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~   90 (101)
                      ...+...|+||++.+..+   +.+ +|||.||..||..|+.  ..||+||..+...+
T Consensus        18 ~l~~~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (117)
T 1jm7_B           18 RLEKLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (117)
T ss_dssp             HHHHTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             hchhCCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcccc
Confidence            335578999999998644   666 8999999999999987  78999999985443

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

Probab=99.33  E-value=5.9e-13  Score=70.98  Aligned_cols=48  Identities=19%  Similarity=0.425  Sum_probs=39.5

Q ss_pred             CCccccccccccccCCCceEEe--CCCCc-ccHhHHHHHHhcCCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL--PCDHF-YHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l--~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      +....|+||++....   ...+  ||||. ||..|+..|...+..||+||+++.
T Consensus         5 ~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRD---GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSC---EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCC---eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            345689999997642   2445  99998 999999999988889999999885

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

Probab=99.31  E-value=9.3e-13  Score=82.49  Aligned_cols=54  Identities=20%  Similarity=0.496  Sum_probs=44.9

Q ss_pred             cCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcC-CcccccccccccCC
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH-GTCPICRQTLHSES   90 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~~~~   90 (101)
                      ...++.+.|+||++.+..+   +.++|||.||..||.+|+... ..||+||..+...+
T Consensus        13 ~~~~~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           13 PPLESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             cCCCCCCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            3556678999999998644   668999999999999999764 49999999987653

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

Probab=99.30  E-value=1.3e-13  Score=75.66  Aligned_cols=47  Identities=21%  Similarity=0.605  Sum_probs=39.0

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCc-ccHhHHHHHHhcCCccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHF-YHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ...+...|+||++.+..   ++.+||||. ||..|+..|    ..||+||..+..
T Consensus        20 ~~~~~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           20 RLQEEKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHHHHTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             cCccCCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            33456789999998743   477899999 999999988    789999998864

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

Probab=99.25  E-value=3.3e-12  Score=73.03  Aligned_cols=50  Identities=24%  Similarity=0.527  Sum_probs=40.4

Q ss_pred             CCccccccccccccCCCceEEeC-CCCcccHhHHHHHHhcC------Ccccc--cccc-cccC
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLH------GTCPI--CRQT-LHSE   89 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~w~~~~------~~CP~--Cr~~-~~~~   89 (101)
                      ...+.||||++.|..+   +.++ |||+|+..||..|+...      .+||+  |+.. +...
T Consensus         5 ~~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~   64 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKS   64 (94)
T ss_dssp             SSCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGG
T ss_pred             CcEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHh
Confidence            4568899999999644   7786 99999999999999753      48999  9866 5443

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

Probab=99.24  E-value=4.5e-12  Score=84.19  Aligned_cols=53  Identities=23%  Similarity=0.182  Sum_probs=43.9

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESA   91 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~   91 (101)
                      ......|+||++.+..+   ++++|||+||..||..|+.. ..+||+||.++...+.
T Consensus       205 ~~~~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l  258 (281)
T 2c2l_A          205 IPDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL  258 (281)
T ss_dssp             CCSTTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGC
T ss_pred             CCcccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcC
Confidence            34578999999999654   78999999999999999976 4459999999965443

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

Probab=99.19  E-value=2.7e-12  Score=70.53  Aligned_cols=46  Identities=22%  Similarity=0.624  Sum_probs=37.5

Q ss_pred             CCCccccccccccccCCCceEEeCCCCc-ccHhHHHHHHhcCCccccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHF-YHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ..+...|+||++.+..   ++.+||||. ||..|+..    ...||+||..+..
T Consensus        22 ~~~~~~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           22 LQEEKLCKICMDRNIA---IVFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHHHHSCSSSCSSCCC---BCCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCCCCcCCCCCCC---EEEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            3456789999998754   367899999 99999964    3789999998865

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

Probab=99.18  E-value=2.9e-11  Score=65.30  Aligned_cols=48  Identities=27%  Similarity=0.680  Sum_probs=38.5

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCc-ccHhHHHHHHhcCCcccccccccccC
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHF-YHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      ...+...|.||++...   .++.+||+|. ||..|+..    ...||+||..+...
T Consensus        11 ~~~~~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTV---NWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             SCCCSSCCSSSSSSCC---CCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             cCCCCCCCCCcCcCCC---CEEEECCCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            3445678999999864   3488999999 99999984    47899999988653

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

Probab=99.15  E-value=2.6e-11  Score=76.70  Aligned_cols=53  Identities=21%  Similarity=0.164  Sum_probs=44.3

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcC-CcccccccccccCCc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH-GTCPICRQTLHSESA   91 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~~~~~   91 (101)
                      ....+.||||++.+..+   ++++|||+|+..||..|+... .+||+|+.++...+.
T Consensus       103 ip~~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L  156 (179)
T 2f42_A          103 IPDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQL  156 (179)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGC
T ss_pred             CcHhhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhC
Confidence            45678999999999654   788999999999999999763 479999999876543

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

Probab=99.08  E-value=4.8e-11  Score=68.02  Aligned_cols=52  Identities=19%  Similarity=0.662  Sum_probs=39.4

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhc--------CCcccc--cccc--cccC
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL--------HGTCPI--CRQT--LHSE   89 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~--------~~~CP~--Cr~~--~~~~   89 (101)
                      ....|+||++.+..+......+|+|.||..|+..++..        ...||.  |+..  +...
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~   67 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN   67 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHH
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHH
Confidence            46789999999865433333479999999999999853        237999  9988  6543

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

Probab=99.07  E-value=1.3e-10  Score=77.08  Aligned_cols=57  Identities=19%  Similarity=0.479  Sum_probs=44.7

Q ss_pred             ccCCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcC--Ccccc--cccccccCCc
Q psy8622          33 VRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH--GTCPI--CRQTLHSESA   91 (101)
Q Consensus        33 ~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~--~~CP~--Cr~~~~~~~~   91 (101)
                      +........||||++.|..  ++..+.|||+||..||..|+...  ..||+  ||..+...+.
T Consensus       175 v~~~~~el~CPIcl~~f~D--PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL  235 (267)
T 3htk_C          175 IEGGKIELTCPITCKPYEA--PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDF  235 (267)
T ss_dssp             CCSSBCCSBCTTTSSBCSS--EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGE
T ss_pred             ecCCceeeECcCccCcccC--CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhC
Confidence            3445667899999999963  34445899999999999999754  47999  9998865543

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

Probab=99.05  E-value=2.9e-11  Score=67.09  Aligned_cols=46  Identities=26%  Similarity=0.655  Sum_probs=37.6

Q ss_pred             CCccccccccccccCCCceEEeCCCCc-ccHhHHHHHHhcCCcccccccccccC
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHF-YHTPCIEPWLQLHGTCPICRQTLHSE   89 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~~~   89 (101)
                      .+...|+||++.+.   .++.+||||. ||..|+..|    ..||+||..+...
T Consensus        16 ~~~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           16 KEAMLCMVCCEEEI---NSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HHHTBCTTTSSSBC---CEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCCCEeEEeCcccC---cEEEECCCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            34568999999874   3478999999 999999876    3899999988643

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

Probab=99.05  E-value=3.9e-11  Score=82.29  Aligned_cols=57  Identities=28%  Similarity=0.702  Sum_probs=42.4

Q ss_pred             CCCCccccccccccccCCCceE-----EeCCCCcccHhHHHHHHhcC-----------CcccccccccccCCc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVR-----KLPCDHFYHTPCIEPWLQLH-----------GTCPICRQTLHSESA   91 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~-----~l~C~H~f~~~Ci~~w~~~~-----------~~CP~Cr~~~~~~~~   91 (101)
                      ..+....|+||++.+..+..+-     ...|+|.||..|+.+|++..           ..||+||+++..+-.
T Consensus       304 ~ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~sf~  376 (381)
T 3k1l_B          304 EDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTSFA  376 (381)
T ss_dssp             CCCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGGGG
T ss_pred             cccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCccHH
Confidence            3456789999999886522111     23699999999999999742           469999999875543

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

Probab=99.04  E-value=1.6e-10  Score=60.92  Aligned_cols=49  Identities=27%  Similarity=0.692  Sum_probs=38.1

Q ss_pred             CCCccccccccccccCCCceEEeCCC--C---cccHhHHHHHHhc--CCcccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCD--H---FYHTPCIEPWLQL--HGTCPICRQTLH   87 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~--H---~f~~~Ci~~w~~~--~~~CP~Cr~~~~   87 (101)
                      +++...|.||++...  +. .++||.  +   .||..||.+|+..  +.+||+|+..+.
T Consensus         3 ~~~~~~CrIC~~~~~--~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            3 DEDVPVCWICNEELG--NE-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEECS--CC-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCEeEEeecCCC--Cc-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            456678999999743  33 468854  4   8999999999964  678999999875

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

Probab=98.98  E-value=3.2e-10  Score=59.93  Aligned_cols=54  Identities=13%  Similarity=0.214  Sum_probs=45.5

Q ss_pred             ccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCCcccccccccccCCcccCC
Q psy8622          39 NLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLG   95 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~   95 (101)
                      .+.|+|+++.+.++   +.+ ++||+|...||.+|+..+.+||+.+.++...+...+.
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip~~   57 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIV   57 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEECC
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEECc
Confidence            46799999998644   667 8999999999999998888899999999877766544

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.91  E-value=2.1e-10  Score=79.09  Aligned_cols=46  Identities=28%  Similarity=0.690  Sum_probs=38.6

Q ss_pred             CCCccccccccccccCCCceEEeCCCCc-ccHhHHHHHHhcCCccccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHF-YHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ..+...|+||++.+..   ++.+||||. ||..|+..|    ..||+||..+..
T Consensus       292 l~~~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          292 LQEERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HHTTCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CcCCCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            3456799999998853   477899999 999999987    689999998854

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

Probab=98.75  E-value=8.9e-09  Score=58.84  Aligned_cols=46  Identities=22%  Similarity=0.483  Sum_probs=37.8

Q ss_pred             ccccccccccCCCceEEeCCCCcccHhHHHHHHh-cCCccccccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ-LHGTCPICRQTLHS   88 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~   88 (101)
                      .|++|--.+.  ...+.+||.|+||.+|+..|.+ ..+.||.|+.++..
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            4778876654  4568899999999999999974 57899999998853

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

Probab=98.42  E-value=4.1e-07  Score=59.79  Aligned_cols=49  Identities=22%  Similarity=0.606  Sum_probs=40.2

Q ss_pred             CccccccccccccCCCceEEeC-CCCcccHhHHHHHHhcCC--cccccccccccC
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHG--TCPICRQTLHSE   89 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~w~~~~~--~CP~Cr~~~~~~   89 (101)
                      ....|.||.+.+..+   ...+ |+|.||..|+..|++...  .||.|+..+...
T Consensus       179 ~i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            467899999988755   4444 999999999999997644  899999987655

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

Probab=96.91  E-value=0.00077  Score=38.15  Aligned_cols=35  Identities=17%  Similarity=0.447  Sum_probs=25.3

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHH
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPW   72 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w   72 (101)
                      ++..|+||.+.+..+....-+.|+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            35789999986432222233889999999999983

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=96.06  E-value=0.0067  Score=31.98  Aligned_cols=46  Identities=22%  Similarity=0.420  Sum_probs=31.1

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCC----cccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHG----TCPICRQT   85 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~----~CP~Cr~~   85 (101)
                      ......|.||.+.    ..++.- .|...||..|+...+....    .||.|...
T Consensus         9 ~~~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C            9 LAPGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CCTTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            3345679999763    222322 3899999999987665432    69999654

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=95.82  E-value=0.032  Score=30.78  Aligned_cols=33  Identities=24%  Similarity=0.579  Sum_probs=23.4

Q ss_pred             CCCccccccccccccCCCceEEeC---CCCcccHhHHHHH
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLP---CDHFYHTPCIEPW   72 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~---C~H~f~~~Ci~~w   72 (101)
                      ...+..|.||-.. ...   ..+|   |+.+||..|+.+.
T Consensus        12 ~~~D~~C~VC~~~-t~~---~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           12 VVNDEMCDVCEVW-TAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTTCCC-CSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCCcccCccccc-ccc---ceeccccccccccHhhcccc
Confidence            3456789999643 222   3344   8999999999996

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=94.39  E-value=0.019  Score=30.74  Aligned_cols=53  Identities=21%  Similarity=0.474  Sum_probs=33.7

Q ss_pred             cCCCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhc----CCcccccccccc
Q psy8622          34 RTDDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL----HGTCPICRQTLH   87 (101)
Q Consensus        34 ~~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~~~   87 (101)
                      ....+...|.||..... ++.++.- .|...||..|+..-...    .-.||.|+..+.
T Consensus        13 ~~~~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           13 EWGNQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             SSSCEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             ccCCCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            33445667999987642 2223322 38899999999653322    236999987654

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=93.86  E-value=0.048  Score=28.06  Aligned_cols=46  Identities=26%  Similarity=0.660  Sum_probs=30.1

Q ss_pred             CCCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhc----CCccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL----HGTCPICRQ   84 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~----~~~CP~Cr~   84 (101)
                      ....+..|.+|...    ..++.- .|...||..|+..-+..    .=.||.|+.
T Consensus         7 ~~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            7 ETDHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SSCCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             cCCCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            34556789999873    222222 38889999999864332    226999965

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

Probab=93.75  E-value=0.074  Score=41.18  Aligned_cols=55  Identities=16%  Similarity=0.131  Sum_probs=45.6

Q ss_pred             CCCCccccccccccccCCCceEEeCCC-CcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCD-HFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~-H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ...+...|||-++.+.++   +++|-| ++|=+..|.+|+....+||.=|.++......
T Consensus       887 ~iP~~F~cPIs~~lM~DP---VilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~li  942 (968)
T 3m62_A          887 DVPDEFLDPLMYTIMKDP---VILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVT  942 (968)
T ss_dssp             CSCGGGBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCE
T ss_pred             CCcHHhCCcchhhHHhCC---eEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCccccc
Confidence            345578899999998655   889987 5899999999999899999999998765443

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=92.80  E-value=0.072  Score=27.48  Aligned_cols=50  Identities=26%  Similarity=0.547  Sum_probs=32.8

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHh-----cCCcccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQ-----LHGTCPICRQT   85 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~-----~~~~CP~Cr~~   85 (101)
                      .++...|+||...+......+.- .|...||..|+.--..     ..-.||.|+..
T Consensus         3 ~~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            3 SGSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             CSSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            45667899999876433333333 4889999999853221     23369999763

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=92.03  E-value=0.14  Score=28.46  Aligned_cols=50  Identities=28%  Similarity=0.551  Sum_probs=32.6

Q ss_pred             ccCCCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCC----ccccccccc
Q psy8622          33 VRTDDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHG----TCPICRQTL   86 (101)
Q Consensus        33 ~~~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~----~CP~Cr~~~   86 (101)
                      ......+..|.+|...   ++ +..- .|...||..|+..-+....    .||.|+..-
T Consensus        19 ~~~d~n~~~C~vC~~~---g~-LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~~   73 (88)
T 1fp0_A           19 GTLDDSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   73 (88)
T ss_dssp             CSSSSSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             cccCCCCCcCcCcCCC---CC-EEECCCCCCceecccCCCCCCCCcCCCcCCccccCCC
Confidence            3445567789999874   22 2222 3888999999966443322    699997643

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=91.52  E-value=0.2  Score=26.06  Aligned_cols=35  Identities=20%  Similarity=0.582  Sum_probs=23.7

Q ss_pred             CCCccccccccccccCCCceEEe--CCCCcccHhHHH
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL--PCDHFYHTPCIE   70 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l--~C~H~f~~~Ci~   70 (101)
                      .+....|++|...+......+.-  .|...||..|+.
T Consensus         5 ~~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            5 SDPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             ----CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             CCCcCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            44566899999987655444444  488999999983

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=91.39  E-value=1.1  Score=24.92  Aligned_cols=50  Identities=22%  Similarity=0.441  Sum_probs=35.4

Q ss_pred             CccccccccccccCCC--ceEEe--CCCCcccHhHHHHHH-hcCCcccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDE--AVRKL--PCDHFYHTPCIEPWL-QLHGTCPICRQTLH   87 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~--~~~~l--~C~H~f~~~Ci~~w~-~~~~~CP~Cr~~~~   87 (101)
                      ....|.||-+.+....  .+++.  -|+-..|..|+.--. ..++.||.|+..+.
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYk   69 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccc
Confidence            4568999999864332  22222  377788999996433 45789999999886

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=91.12  E-value=0.093  Score=25.77  Aligned_cols=43  Identities=26%  Similarity=0.629  Sum_probs=25.8

Q ss_pred             ccccccccccCCCceEEe-CCCCcccHhHHHHHHhc----CCccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL----HGTCPICRQ   84 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~----~~~CP~Cr~   84 (101)
                      .|.||...-.. ..++.- .|...||..|+..=+..    .=.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            47888765322 222222 38899999999643322    125888854

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=90.70  E-value=0.03  Score=28.86  Aligned_cols=48  Identities=29%  Similarity=0.543  Sum_probs=29.8

Q ss_pred             CCCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc----CCcccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL----HGTCPICRQT   85 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~   85 (101)
                      .+..+..|.+|...   ++-+.--.|...||..|+..-+..    .=.||.|+..
T Consensus         5 ~d~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            5 SDHHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             ccCCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            34556789999863   221111138889999999753332    1259999654

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=90.40  E-value=0.048  Score=34.72  Aligned_cols=48  Identities=25%  Similarity=0.501  Sum_probs=31.3

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcC----Ccccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLH----GTCPICRQTLH   87 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~~~   87 (101)
                      +..+..|.+|...   + .+... .|...||..|+..-+...    =.||.|+..-.
T Consensus         4 d~~~~~C~~C~~~---g-~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~   56 (207)
T 3u5n_A            4 DPNEDWCAVCQNG---G-DLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIGK   56 (207)
T ss_dssp             CSSCSSBTTTCCC---E-EEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCCCCCCCCCCC---C-ceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCccc
Confidence            4456779999853   2 22222 388999999997644332    26999987543

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=90.27  E-value=0.23  Score=27.39  Aligned_cols=54  Identities=19%  Similarity=0.298  Sum_probs=32.4

Q ss_pred             CCCCccccccccccccCCC-ceEEe-CCCCcccHhHHHHHHhc--CCccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDE-AVRKL-PCDHFYHTPCIEPWLQL--HGTCPICRQTLHS   88 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~-~~~~l-~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~~~   88 (101)
                      ..+.+..|.||...-.... .++.- .|.-.||..|+..-...  .=.||.|......
T Consensus        21 ~~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~   78 (88)
T 2l43_A           21 LIDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRAR   78 (88)
T ss_dssp             CCCCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTS
T ss_pred             cCCCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccch
Confidence            3455678999987531111 22222 38889999999742211  2269999765433

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=90.05  E-value=0.28  Score=26.38  Aligned_cols=50  Identities=16%  Similarity=0.494  Sum_probs=31.2

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHh-----cCCccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQ-----LHGTCPICRQTL   86 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~-----~~~~CP~Cr~~~   86 (101)
                      +.....| ||..........+.- .|...||..|+.--..     ..-.||.|+...
T Consensus         9 ~~~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A            9 ALVPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             cCCccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            4445567 898876423333333 3889999999942111     234799998754

>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=89.97  E-value=0.46  Score=25.80  Aligned_cols=42  Identities=14%  Similarity=0.360  Sum_probs=28.9

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ......|+.|-+.+. ++  .+..-+..||..|+        .|-.|+..|..
T Consensus        22 ~~~~~~C~~C~~~I~-~~--~v~a~~~~~H~~CF--------~C~~C~~~L~~   63 (90)
T 2dar_A           22 GKRTPMCAHCNQVIR-GP--FLVALGKSWHPEEF--------NCAHCKNTMAY   63 (90)
T ss_dssp             TTCCCBBSSSCCBCC-SC--EEEETTEEECTTTC--------BCSSSCCBCSS
T ss_pred             CCCCCCCccCCCEec-ce--EEEECCccccccCC--------ccCCCCCCCCC
Confidence            344668999998874 22  33345788888876        48888877764

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=89.40  E-value=0.085  Score=32.89  Aligned_cols=46  Identities=26%  Similarity=0.545  Sum_probs=30.5

Q ss_pred             CccccccccccccCCCceEEe-CCCCcccHhHHHHHHhc----CCcccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL----HGTCPICRQTLH   87 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~~~   87 (101)
                      .+..|.+|...   ++ +..- .|...||..|+..-+..    .=.||.|+..-.
T Consensus         3 ~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   53 (184)
T 3o36_A            3 NEDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK   53 (184)
T ss_dssp             SCSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCccc
Confidence            45679999854   22 2222 38899999998664433    226999987553

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=89.27  E-value=0.69  Score=25.11  Aligned_cols=54  Identities=20%  Similarity=0.346  Sum_probs=33.4

Q ss_pred             CCCCccccccccccccCCCceEE-eCCCCcccHhHHHHHH--------hcCCccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWL--------QLHGTCPICRQTLHS   88 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~--------~~~~~CP~Cr~~~~~   88 (101)
                      .+.+...|.+|...|..-..--. ..||.+||..|.....        ...+.|-.|-..+..
T Consensus        17 pd~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~~~lp~~~~~~~~RVC~~C~~~l~~   79 (84)
T 1z2q_A           17 EDEDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHRAAIPMRGITEPERVCDACYLALRS   79 (84)
T ss_dssp             CTTTCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCEEEETTTTEEEEEECCHHHHHHHHT
T ss_pred             cCCCCCCCcCcCCccccchhcccccCCCcEEChHHhCCeEeccCCCCCCCCEECHHHHHHHhh
Confidence            34456689999999854322122 2499999999976532        112357777655543

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=89.21  E-value=0.84  Score=24.90  Aligned_cols=39  Identities=21%  Similarity=0.500  Sum_probs=28.8

Q ss_pred             CCCccccccccccccCCCceEEeC--CCCcccHhHHHHHHhc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLP--CDHFYHTPCIEPWLQL   75 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~--C~H~f~~~Ci~~w~~~   75 (101)
                      ......|.+|.+.++... .+..|  =.|.||..|-+..++.
T Consensus        12 ~~a~l~CtlC~erLEdtH-FVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTH-FVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTT-SEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCCeeEeecchhhhccCc-eeeCCCccCCeeeccccHHHHHh
Confidence            355788999999986443 33344  3799999999988764

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=88.09  E-value=0.05  Score=27.83  Aligned_cols=46  Identities=28%  Similarity=0.675  Sum_probs=29.6

Q ss_pred             CCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhc----CCccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL----HGTCPICRQTL   86 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~~   86 (101)
                      ..+..|.+|...   ++ ++.- .|...||..|+..-+..    .=.||.|....
T Consensus         3 ~~~~~C~vC~~~---g~-ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   53 (60)
T 2puy_A            3 IHEDFCSVCRKS---GQ-LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQM   53 (60)
T ss_dssp             CCCSSCTTTCCC---SS-CEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHH
T ss_pred             CCCCCCcCCCCC---Cc-EEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChh
Confidence            346689999874   22 2222 48899999999753332    22599997654

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=88.07  E-value=0.1  Score=27.21  Aligned_cols=46  Identities=26%  Similarity=0.601  Sum_probs=29.7

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhc----CCcccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL----HGTCPICRQT   85 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~   85 (101)
                      ...+..|.||...   ++ ++.- .|...||..|+..-+..    .=.||.|...
T Consensus         5 ~~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~   55 (66)
T 1xwh_A            5 QKNEDECAVCRDG---GE-LICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQA   55 (66)
T ss_dssp             CSCCCSBSSSSCC---SS-CEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHT
T ss_pred             CCCCCCCccCCCC---CC-EEEcCCCChhhcccccCCCcCcCCCCCeECccccCc
Confidence            3456789999864   22 2222 38889999999753322    2269999653

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=87.68  E-value=0.06  Score=27.12  Aligned_cols=45  Identities=29%  Similarity=0.695  Sum_probs=28.0

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcC----Cccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLH----GTCPICRQ   84 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~----~~CP~Cr~   84 (101)
                      ...+..|.+|...   ++ ++.- .|...||..|+..-+...    =.||.|..
T Consensus         6 ~~~~~~C~vC~~~---g~-ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            6 SGHEDFCSVCRKS---GQ-LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CSSCCSCSSSCCS---SC-CEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCCccCCCC---Ce-EEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            3456689999874   22 2222 488899999997533221    15887753

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=87.26  E-value=0.085  Score=30.98  Aligned_cols=50  Identities=16%  Similarity=0.375  Sum_probs=29.7

Q ss_pred             CCCccccccccccccCCCceEE-eCCCCcccHhHHHHHHhcCCcccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLHGTCPICRQT   85 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~   85 (101)
                      +.....|..|...|..-..--. ..||.+||..|........+.|-.|...
T Consensus        16 d~~~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~vRVC~~C~~~   66 (120)
T 1y02_A           16 TGLEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQRF   66 (120)
T ss_dssp             ----CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHHH
T ss_pred             ccccCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCCceECHHHHHH
Confidence            3344689999998853321122 3499999999987655556678888543

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=87.23  E-value=0.57  Score=23.02  Aligned_cols=43  Identities=16%  Similarity=0.318  Sum_probs=25.9

Q ss_pred             ccccccccccCCCceEEe--CCCCcccHhHHHHH----HhcCCcccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKL--PCDHFYHTPCIEPW----LQLHGTCPICR   83 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l--~C~H~f~~~Ci~~w----~~~~~~CP~Cr   83 (101)
                      .|.+|...+..+...+.-  .|...||..|+.--    ....-.||.|+
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            467888776433333333  37889999998421    12345788774

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=86.73  E-value=0.19  Score=28.23  Aligned_cols=46  Identities=17%  Similarity=0.300  Sum_probs=28.0

Q ss_pred             CCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhc---CCccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL---HGTCPICRQ   84 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~---~~~CP~Cr~   84 (101)
                      ++...| ||......+ .++.- .|...||..|+..-...   .-.||.|+.
T Consensus        26 ~d~vrC-iC~~~~~~~-~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           26 TDVTRC-ICGFTHDDG-YMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CCBCCC-TTSCCSCSS-CEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCCEEe-ECCCccCCC-cEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            344667 887764333 22222 38899999998642221   237999974

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=86.70  E-value=0.49  Score=25.61  Aligned_cols=52  Identities=23%  Similarity=0.547  Sum_probs=31.6

Q ss_pred             CCCccccccccccccCCCceEE-eCCCCcccHhHHHHHHh------cCCcccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQ------LHGTCPICRQTLH   87 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~~------~~~~CP~Cr~~~~   87 (101)
                      +.+...|.+|...|.....--. ..||.+||..|....+.      ....|-.|-..+.
T Consensus        16 d~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~~~l~~~~~~~RVC~~C~~~l~   74 (82)
T 2yw8_A           16 DDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELALPSYPKPVRVCDSCHTLLL   74 (82)
T ss_dssp             CCCCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCEEECCTTCSSCEEECHHHHHHTT
T ss_pred             CccCCcccCcCCcccCccccccCCCCCCEEChHHhCCeeecCCCCCcCEECHHHHHHHH
Confidence            3445689999998853321112 24999999999764321      1235666655443

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=86.48  E-value=0.77  Score=31.95  Aligned_cols=50  Identities=18%  Similarity=0.510  Sum_probs=31.8

Q ss_pred             ccccccccccccCCCceEEeCCCCc--ccHhHHHHHHhc--CCcccccccccccCC
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHF--YHTPCIEPWLQL--HGTCPICRQTLHSES   90 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~--f~~~Ci~~w~~~--~~~CP~Cr~~~~~~~   90 (101)
                      .+.|||=...+.  .+++...|.|.  |-..-+..+...  .-.||+|.+.+...+
T Consensus       249 SL~CPlS~~ri~--~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~d  302 (371)
T 3i2d_A          249 SLQCPISYTRMK--YPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALEN  302 (371)
T ss_dssp             ESBCTTTSSBCS--SEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGG
T ss_pred             eecCCCcccccc--ccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHH
Confidence            468998877765  45566779998  433333333222  337999998875443

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=86.26  E-value=0.45  Score=27.92  Aligned_cols=34  Identities=15%  Similarity=0.456  Sum_probs=23.3

Q ss_pred             CccccccccccccCCCceEE-eCCCCcccHhHHHH
Q psy8622          38 SNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEP   71 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~   71 (101)
                      ....|.+|...|.....--. -.||++||..|...
T Consensus        68 ~~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~  102 (125)
T 1joc_A           68 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK  102 (125)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             CCCCCcCcCCccccccccccCCCCCeEEChHHhCC
Confidence            34579999998853321122 24999999999754

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=86.23  E-value=0.56  Score=25.47  Aligned_cols=36  Identities=17%  Similarity=0.393  Sum_probs=24.1

Q ss_pred             CCCccccccccccccCCCceEE-eCCCCcccHhHHHH
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEP   71 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~   71 (101)
                      +.+...|.+|...|..-..--. ..||.+||..|...
T Consensus        11 d~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   47 (84)
T 1x4u_A           11 TNNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSF   47 (84)
T ss_dssp             CCCCSSCSSSCCCCCSSSCCEECSSSCCEECTTTSCE
T ss_pred             CCCCCcCcCcCCccccchhhhhhcCCCcEEChhhcCC
Confidence            4445689999998853321111 24999999999754

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=86.12  E-value=0.82  Score=31.68  Aligned_cols=50  Identities=22%  Similarity=0.456  Sum_probs=32.2

Q ss_pred             ccccccccccccCCCceEEeCCCCc--ccHhHHHHHHhc--CCcccccccccccCC
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHF--YHTPCIEPWLQL--HGTCPICRQTLHSES   90 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~--f~~~Ci~~w~~~--~~~CP~Cr~~~~~~~   90 (101)
                      .+.|||=...+.  .+.+...|.|.  |-..-+..+...  .-.||+|.+.+..++
T Consensus       215 SL~CPlS~~ri~--~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~d  268 (360)
T 4fo9_A          215 SLMCPLGKMRLT--IPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYES  268 (360)
T ss_dssp             ESBCTTTCSBCS--SEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGG
T ss_pred             eeeCCCccceec--cCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHH
Confidence            467998877765  44566779998  444333333332  337999999886543

>2d8v_A Zinc finger FYVE domain-containing protein 19; zfyve19, ZF- B_BOX, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.43.1.1

Probab=86.01  E-value=0.57  Score=24.50  Aligned_cols=34  Identities=21%  Similarity=0.486  Sum_probs=25.6

Q ss_pred             CCCCccccccccccccCCCceEEeCC-CCcccHhHHHHH
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLPC-DHFYHTPCIEPW   72 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~C-~H~f~~~Ci~~w   72 (101)
                      ..++..-|.||.++    ..++-+.| +-.||..|+...
T Consensus         4 ~~ee~pWC~ICneD----AtlrC~gCdgDLYC~rC~rE~   38 (67)
T 2d8v_A            4 GSSGLPWCCICNED----ATLRCAGCDGDLYCARCFREG   38 (67)
T ss_dssp             SCCCCSSCTTTCSC----CCEEETTTTSEEECSSHHHHH
T ss_pred             cCcCCCeeEEeCCC----CeEEecCCCCceehHHHHHHH
Confidence            34556679999987    34566678 779999998775

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=85.90  E-value=0.83  Score=25.17  Aligned_cols=51  Identities=18%  Similarity=0.454  Sum_probs=32.1

Q ss_pred             CCccccccccccccCCCceEE-eCCCCcccHhHHHHHHh------cCCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQ------LHGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~~------~~~~CP~Cr~~~~   87 (101)
                      .+...|.+|...|..-..--. ..||.+||..|......      ..+.|-.|-..+.
T Consensus        18 ~~~~~C~~C~~~F~~~~RrhhCr~CG~v~C~~Cs~~~~~l~~~~~~~RVC~~C~~~l~   75 (90)
T 3t7l_A           18 SEAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRKCKLQYLEKEARVCVVCYETIS   75 (90)
T ss_dssp             GGCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEEEEETTTTEEEEECHHHHHHHH
T ss_pred             ccCCcCcCCCCcccchhhCccccCCCCEECCcccCCeeecCCCCCCCeECHHHHHHHH
Confidence            345679999998853322122 24999999999865431      2335777765553

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=85.90  E-value=0.46  Score=24.43  Aligned_cols=50  Identities=22%  Similarity=0.490  Sum_probs=30.9

Q ss_pred             CCccccccccccccCCCceEEe--CCCCcccHhHHHHHHh-------cCCccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL--PCDHFYHTPCIEPWLQ-------LHGTCPICRQTL   86 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l--~C~H~f~~~Ci~~w~~-------~~~~CP~Cr~~~   86 (101)
                      ..+..|.||...........++  .|...||..|+..-+.       ..=.|+.|....
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~   62 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFAT   62 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTT
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCcc
Confidence            4567899999764322222222  3889999999875221       223688886543

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=85.76  E-value=0.28  Score=25.13  Aligned_cols=43  Identities=16%  Similarity=0.305  Sum_probs=27.9

Q ss_pred             cccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccc
Q psy8622          40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPIC   82 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~C   82 (101)
                      ..|..|+..+.......-..|++.||.+|=.-.-+.-..||-|
T Consensus        16 ~~C~~C~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           16 RFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CcccccCcccCCCccEECCccCcCcccchhHHHHhhccCCcCC
Confidence            4599999988432112222499999999965433444578887

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=85.44  E-value=0.14  Score=28.34  Aligned_cols=56  Identities=21%  Similarity=0.492  Sum_probs=35.2

Q ss_pred             CccccccccccccCCCceEEe--CCCCcccHhHHHHHHh--------cCCcccccccccccCCccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKL--PCDHFYHTPCIEPWLQ--------LHGTCPICRQTLHSESAES   93 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l--~C~H~f~~~Ci~~w~~--------~~~~CP~Cr~~~~~~~~~~   93 (101)
                      ....|.+|...-.......++  .|...||..|+..-+.        ..=.|+.|+..........
T Consensus        15 ~~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~~~~~~~   80 (88)
T 1wev_A           15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKRMAQKN   80 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHCCSTTCC
T ss_pred             CCCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhhhhcccc
Confidence            466899999763221122333  3899999999975432        1227999987765544433

>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=85.22  E-value=0.21  Score=28.53  Aligned_cols=38  Identities=24%  Similarity=0.447  Sum_probs=24.5

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHH
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWL   73 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~   73 (101)
                      ...+..|.||.+.-...+-+.--.|...||..|+...+
T Consensus         4 ~~~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~   41 (111)
T 2ysm_A            4 GSSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAV   41 (111)
T ss_dssp             CCCCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCC
T ss_pred             CCCCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCcc
Confidence            34567899998753211112223489999999997654

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=85.15  E-value=1.5  Score=23.15  Aligned_cols=47  Identities=19%  Similarity=0.463  Sum_probs=29.4

Q ss_pred             CccccccccccccCCCceEEe-CCCCcccHhHHHHH---------HhcCCccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPW---------LQLHGTCPICRQTL   86 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w---------~~~~~~CP~Cr~~~   86 (101)
                      ....| ||...... ..++.- .|...||..|+.--         ....-.||.|+..-
T Consensus        15 ~~~~C-~C~~~~~~-~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~   71 (76)
T 1wem_A           15 NALYC-ICRQPHNN-RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             TCCCS-TTCCCCCS-SCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CCCEE-ECCCccCC-CCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCcc
Confidence            35667 89887542 222322 48999999998421         12355899997643

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=84.98  E-value=0.19  Score=27.97  Aligned_cols=50  Identities=26%  Similarity=0.384  Sum_probs=31.1

Q ss_pred             CCCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcC----Ccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLH----GTCPICRQT   85 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~   85 (101)
                      ...+...|.||...-.. ..++.- .|...||..|+..-+...    =.||.|+..
T Consensus        12 ~~~~~~~C~vC~~~~~~-~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~   66 (92)
T 2e6r_A           12 QFIDSYICQVCSRGDED-DKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILA   66 (92)
T ss_dssp             CCCCCCCCSSSCCSGGG-GGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHH
T ss_pred             hccCCCCCccCCCcCCC-CCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCc
Confidence            33445679999876321 222322 388999999997433221    259999764

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=84.92  E-value=0.53  Score=26.78  Aligned_cols=49  Identities=20%  Similarity=0.493  Sum_probs=32.6

Q ss_pred             ccccccccccccCCCceEEe--CCCCcccHhHHHHH------Hh----cCCcccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKL--PCDHFYHTPCIEPW------LQ----LHGTCPICRQTLH   87 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l--~C~H~f~~~Ci~~w------~~----~~~~CP~Cr~~~~   87 (101)
                      ...|+||...+......+.-  .|...||..|+.--      +.    ..-.||.|+....
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~~   63 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTKE   63 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTTT
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcCC
Confidence            35799999987554444444  48889999998421      10    2337999987654

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

Probab=84.88  E-value=1.8  Score=25.98  Aligned_cols=46  Identities=26%  Similarity=0.439  Sum_probs=30.9

Q ss_pred             CCCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHh-----------cCCccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQ-----------LHGTCPICRQ   84 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~-----------~~~~CP~Cr~   84 (101)
                      .+..+..|.+|.+.   ++ +..- .|...||..||.+-+.           ..=.||.|+.
T Consensus        59 ~Dg~~d~C~vC~~G---G~-LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           59 SDGMDEQCRWCAEG---GN-LICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             TTSCBCSCSSSCCC---SS-EEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCCCeecccCCC---Cc-EEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            35557789999874   22 2222 4889999999986542           1226999964

>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein VPS27; endosome maturation, intracellular trafficking; 1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1

Probab=84.79  E-value=0.83  Score=24.08  Aligned_cols=32  Identities=16%  Similarity=0.378  Sum_probs=21.9

Q ss_pred             cccccccccccCCCceEE-eCCCCcccHhHHHH
Q psy8622          40 LQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEP   71 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~   71 (101)
                      ..|.+|...|..-..--. ..||.+||..|...
T Consensus        12 ~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~~   44 (73)
T 1vfy_A           12 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSSN   44 (73)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             CcccCCCCccCCccccccCCCCCEEEcccccCC
Confidence            479999998853321111 24999999999753

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=84.16  E-value=0.22  Score=28.61  Aligned_cols=44  Identities=32%  Similarity=0.618  Sum_probs=25.5

Q ss_pred             ccccccccccCCCceEEe-CCCCcccHhHHHHHHhcC----Cccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLH----GTCPICRQ   84 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~----~~CP~Cr~   84 (101)
                      .|.||...-...+.+..- .|...||..|+..-+...    =.||.|+.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            566776532122222222 388999999986543321    26888864

>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1

Probab=82.99  E-value=0.94  Score=24.88  Aligned_cols=52  Identities=19%  Similarity=0.361  Sum_probs=33.0

Q ss_pred             CCccccccccccccCCCceEE-eCCCCcccHhHHHHHH-------hcCCccccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWL-------QLHGTCPICRQTLHS   88 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~-------~~~~~CP~Cr~~~~~   88 (101)
                      .+...|.+|...|..-..--. ..||.+||..|....+       .....|-.|-..+..
T Consensus         7 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~~~~lp~~g~~~~RVC~~C~~~l~~   66 (88)
T 1wfk_A            7 GMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQKVCKQCHTILTR   66 (88)
T ss_dssp             CCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEEEEETTTTSEEEEECHHHHHHHHH
T ss_pred             CcCCCCcCcCCcccCccccccCCCCCCEEChhHcCCceeccccCCCcCEECHHHHHHHHh
Confidence            345589999998853321111 2499999999976432       123468888766543

>4gne_A Histone-lysine N-methyltransferase NSD3; zinc finger, transcription, nuclear protein, transf nuclear protein complex; 1.47A {Homo sapiens} PDB: 4gnd_A 4gnf_A 4gng_A*

Probab=82.64  E-value=1.3  Score=25.40  Aligned_cols=46  Identities=20%  Similarity=0.372  Sum_probs=28.1

Q ss_pred             CCCCccccccccccccCCCceEEeC---CCCcccHhHHHHHHhcCC----ccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLP---CDHFYHTPCIEPWLQLHG----TCPICRQTL   86 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~---C~H~f~~~Ci~~w~~~~~----~CP~Cr~~~   86 (101)
                      ....+..|.+|.+.    ..++.-.   |...||..|+.  +....    .||.|.-.+
T Consensus        11 ~~~~~~~C~~C~~~----G~ll~CD~~~Cp~~fH~~Cl~--L~~~P~g~W~Cp~c~C~~   63 (107)
T 4gne_A           11 KQMHEDYCFQCGDG----GELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECPWHQCDE   63 (107)
T ss_dssp             CCSSCSSCTTTCCC----SEEEECCSTTCCCEECTGGGT--CSSCCSSCCCCGGGBCTT
T ss_pred             cCCCCCCCCcCCCC----CcEeEECCCCCCcccccccCc--CCcCCCCCEECCCCCCCc
Confidence            34556789999842    2333333   77899999996  33221    477665443

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=80.88  E-value=1  Score=28.21  Aligned_cols=48  Identities=23%  Similarity=0.504  Sum_probs=32.4

Q ss_pred             ccccccccccccCCCc---eEEe-CCCCcccHhHHHH------HHh-----cCCccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEA---VRKL-PCDHFYHTPCIEP------WLQ-----LHGTCPICRQTL   86 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~---~~~l-~C~H~f~~~Ci~~------w~~-----~~~~CP~Cr~~~   86 (101)
                      +..|+||...+..++.   .+.- .|...||..|+.-      -+.     ..-.||.|+..-
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~   64 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERH   64 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSS
T ss_pred             cCcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCC
Confidence            3469999998876542   3333 3899999999832      111     145899998754

>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*

Probab=80.79  E-value=1.7  Score=27.90  Aligned_cols=48  Identities=19%  Similarity=0.455  Sum_probs=29.9

Q ss_pred             ccccccccccccCCCceEE-eCCCCcccHhHHHHHHh--------cCCccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQ--------LHGTCPICRQTL   86 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~~--------~~~~CP~Cr~~~   86 (101)
                      ...|.+|...|..-..--. ..||.+||..|......        ..+.|-.|-..+
T Consensus       164 ~~~C~~C~~~F~~~~RrhHCR~CG~v~C~~Cs~~~~~~p~~~~~~~~RVC~~C~~~l  220 (226)
T 3zyq_A          164 AEECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKYSTIPKFGIEKEVRVCEPCYEQL  220 (226)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECTTTCCEEEEEGGGTEEEEEEECHHHHHHH
T ss_pred             CCCCcCcCCCCCccccccccCCCcCEeChhhcCCcccCCCCCCCCCCEeCHHHHHHh
Confidence            4589999998853322122 24999999999764321        123566665544

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=80.78  E-value=2.5  Score=22.20  Aligned_cols=49  Identities=20%  Similarity=0.332  Sum_probs=29.6

Q ss_pred             CCCcccccccccccc-CCCceEEe-CCCCcccHhHHHHHHhc--CCccccccc
Q psy8622          36 DDSNLQCSVCWEQFT-LDEAVRKL-PCDHFYHTPCIEPWLQL--HGTCPICRQ   84 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~-~~~~~~~l-~C~H~f~~~Ci~~w~~~--~~~CP~Cr~   84 (101)
                      ......|.||...-. ..+.++.- .|.-.||..|+..-...  .=.||.|+.
T Consensus        13 ~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~   65 (71)
T 2ku3_A           13 IDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   65 (71)
T ss_dssp             CCSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcC
Confidence            445678999987531 12222222 38899999999642211  226888865

>2a20_A Regulating synaptic membrane exocytosis protein 2; zinc-finger domain, metal binding protein; NMR {Rattus norvegicus} PDB: 2cjs_C

Probab=80.64  E-value=0.093  Score=26.92  Aligned_cols=49  Identities=16%  Similarity=0.390  Sum_probs=28.7

Q ss_pred             CCCcccccccccc-ccCCCceEEeCCCCcccHhHHHHHHhc-CC---ccccccc
Q psy8622          36 DDSNLQCSVCWEQ-FTLDEAVRKLPCDHFYHTPCIEPWLQL-HG---TCPICRQ   84 (101)
Q Consensus        36 ~~~~~~C~IC~~~-~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~---~CP~Cr~   84 (101)
                      ..+...|.||+.. |.++..-.-.-|.-.||..|-..|-.. ++   .|-+||+
T Consensus         6 ~~d~~~C~iC~KTKFADG~Gh~C~yCk~r~CaRCGg~v~lr~~k~~WvC~lC~k   59 (62)
T 2a20_A            6 KGDAPTCGICHKTKFADGCGHNCSYCQTKFCARCGGRVSLRSNKVMWVCNLCRK   59 (62)
T ss_dssp             SSCCCCCSSSSCSCCCSSCCEEBTTTCCEECTTSEEEEESSTTCEEEEEHHHHH
T ss_pred             cCCcchhhhhccceeccCCCccccccCCeeecccCCEeeecCCeEEEEehhhhh
Confidence            3456789999974 433322222347777888877665422 22   4777764

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=80.25  E-value=1  Score=23.71  Aligned_cols=46  Identities=22%  Similarity=0.564  Sum_probs=27.4

Q ss_pred             CCCccccccccccccCCCceEEe-C--CC-CcccHhHHHHHHhc----CCccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-P--CD-HFYHTPCIEPWLQL----HGTCPICRQTL   86 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~--C~-H~f~~~Ci~~w~~~----~~~CP~Cr~~~   86 (101)
                      ..+...| ||..... + .++.- .  |. ..||..|+.  +..    .-.||.|+..-
T Consensus        13 ~~~~~~C-~C~~~~~-g-~MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~~   66 (71)
T 1wen_A           13 PNEPTYC-LCHQVSY-G-EMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   66 (71)
T ss_dssp             TTSCCCS-TTCCCSC-S-SEECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSCS
T ss_pred             CCCCCEE-ECCCCCC-C-CEeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCccc
Confidence            3456678 8987532 2 22221 2  55 589999997  322    22699997643

>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1

Probab=80.14  E-value=1.9  Score=27.46  Aligned_cols=34  Identities=18%  Similarity=0.499  Sum_probs=23.4

Q ss_pred             CccccccccccccCCCceEEe-CCCCcccHhHHHH
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEP   71 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~   71 (101)
                      ++..|.+|...|..-..--.. .||++||..|...
T Consensus       160 ~~~~C~~C~~~F~~~~rrhhCr~CG~v~C~~Cs~~  194 (220)
T 1dvp_A          160 DGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK  194 (220)
T ss_dssp             CCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             CCCccCCCCCccCCcccccccCCcCCEEChHHhCC
Confidence            346899999988533221222 4999999999754

>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM domain protein; NMR {Rattus rattus} SCOP: g.39.1.3 g.39.1.3

Probab=80.07  E-value=0.62  Score=24.35  Aligned_cols=41  Identities=17%  Similarity=0.203  Sum_probs=21.9

Q ss_pred             ccccccccccccCCCceEEeCCCCcccH-hHHHHHHhcCCcccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHFYHT-PCIEPWLQLHGTCPICR   83 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~f~~-~Ci~~w~~~~~~CP~Cr   83 (101)
                      -..|..|...+....  ....=+..||. .|..+.  ....|-.|.
T Consensus        27 CF~C~~C~~~L~~~~--~~~~~g~~yC~~~cy~~~--f~~~C~~C~   68 (76)
T 1iml_A           27 CLKCEKCGKTLTSGG--HAEHEGKPYCNHPCYSAM--FGPKGFGRG   68 (76)
T ss_dssp             TCBCTTTCCBCCTTT--EEEETTEEEETTTHHHHH--SSCCCSSCC
T ss_pred             CCCccccCccCCCCc--eECcCCeEeeCHHHHHHH--hCccCCCcC
Confidence            356777776664332  22234556676 466542  344566664

---

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	101
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-15
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-12
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	6e-10
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-07
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-07
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	3e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	7e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	1e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	4e-05

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 61.8 bits (150), Expect = 4e-15
 Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 1/51 (1%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTL 86
          D  ++C+VC  +    E  R LP C H +H  C++ WL  H TCP+CR T+
Sbjct: 3  DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 55.7 bits (134), Expect = 1e-12
 Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 2/48 (4%)

Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
          +C +C E  +       LPC H +   CI  W++ + TCP+C+  + S
Sbjct: 7  RCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.1 bits (119), Expect = 3e-10
 Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 1/78 (1%)

Query: 8  FLVHHFSYSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQF-TLDEAVRKLPCDHFYHT 66
          F V  ++  +L +      N A+ +    D  ++C        + +  V    C+H +H 
Sbjct: 4  FEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHF 63

Query: 67 PCIEPWLQLHGTCPICRQ 84
           CI  WL+    CP+  +
Sbjct: 64 HCISRWLKTRQVCPLDNR 81

>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 = 49.2 bits (117), Expect = 6e-10
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 4/59 (6%)

Query: 31 VQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHS 88
          +      +   C +C E     + V+  PC H   T C+  W +  G  CP CR  +  
Sbjct: 15 LYCEMGSTFQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG 70

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (107), Expect = 3e-08
 Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 6/57 (10%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG---TCPICRQTLHSES 90
             L+C +C E            CDH +   C+   L        CP+C+  +   S
Sbjct: 19 QKILECPICLELIK---EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS 72

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.8 bits (100), Expect = 1e-07
 Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 3/52 (5%)

Query: 39 NLQCSVCWEQFTLDEAVRKL--PCDHFYHTPCIEPWLQL-HGTCPICRQTLH 87
          +  C  C      + +++ +   C H     C++       G CP C   L 
Sbjct: 3  DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.8 bits (98), Expect = 2e-07
 Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 6/47 (12%)

Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 86
          L+C  C  +    +  + LPC H   + C+E        CPIC+   
Sbjct: 7  LRCQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCPICQAPW 47

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 3e-07
 Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 2/52 (3%)

Query: 40 LQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLHGT-CPICRQTLHSE 89
          ++C +C E   +D+       C +     C           CP CR+    +
Sbjct: 1  VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.4 bits (97), Expect = 7e-07
 Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 4/74 (5%)

Query: 21 VHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TC 79
          +H +T+  A+        ++ C +C           +  C H +   CI   L++ G  C
Sbjct: 5  IHLSTKLLAVDFPAHFVKSISCQICEHILA---DPVETSCKHLFCRICILRCLKVMGSYC 61

Query: 80 PICRQTLHSESAES 93
          P CR        ES
Sbjct: 62 PSCRYPCFPTDLES 75

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 37.5 bits (86), Expect = 1e-05
 Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 4/54 (7%)

Query: 36 DDSNLQCSVCWEQFTLDE--AVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQT 85
          D+    C +C E+   +   A          H  C+  WL +     C IC   
Sbjct: 3  DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.2 bits (88), Expect = 1e-05
 Identities = 10/54 (18%), Positives = 20/54 (37%), Gaps = 4/54 (7%)

Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
          +  L+CS C         +    C+H + + C+     +   CP+C      + 
Sbjct: 20 EKLLRCSRCTNILREPVCL--GGCEHIFCSNCVSDC--IGTGCPVCYTPAWIQD 69

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.7 bits (86), Expect = 3e-05
 Identities = 8/37 (21%), Positives = 11/37 (29%), Gaps = 5/37 (13%)

Query: 52 DEAVRKLPCDHFYHTPCIEPWLQ-----LHGTCPICR 83
              R   C H +H  C+              CP C+
Sbjct: 53 MVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCK 89

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (85), Expect = 4e-05
 Identities = 8/56 (14%), Positives = 21/56 (37%), Gaps = 8/56 (14%)

Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--------TCPICRQTLHS 88
           C +C  ++ +++      C   + T C++ +++L          +CP        
Sbjct: 7  GCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQG 62

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	101
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.79
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.73
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.68
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.67
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.65
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.65
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.62
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.61
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.6
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.54
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.54
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.45
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.44
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.44
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.39
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.28
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.96
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	96.14
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.8
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	94.57
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	93.65
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	93.61
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	93.54
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	93.08
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	92.91
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	92.77
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	92.13
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	91.5
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	91.32
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	90.06
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	89.91
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	86.95
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	86.76
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	83.85
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	83.12
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	82.68
d2o35a1	79	Hypothetical protein SMc04008 {Rhizobium meliloti	80.17

>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=99.79  E-value=2.6e-20  Score=96.09  Aligned_cols=51  Identities=41%  Similarity=1.003  Sum_probs=44.7

Q ss_pred             CCccccccccccccCCCceEEeC-CCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~-C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      +++..|+||++.|..++.+..++ |+|.||..|+.+|++.+.+||+||+++.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            44567999999998877777765 9999999999999999999999999874

>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=99.73  E-value=1.1e-18  Score=93.49  Aligned_cols=48  Identities=31%  Similarity=0.816  Sum_probs=41.9

Q ss_pred             ccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccccccccc
Q psy8622          39 NLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS   88 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~   88 (101)
                      ...|+||++.+.  +..+.++|+|.||..|+.+|++.+.+||+||+++..
T Consensus         5 ~d~C~IC~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           5 AERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCC--SCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCccCCcCcc--CCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            457999999985  345678999999999999999999999999998853

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=2.2e-17  Score=90.74  Aligned_cols=55  Identities=25%  Similarity=0.647  Sum_probs=44.9

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCcccCC
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESAESLG   95 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~~~~~   95 (101)
                      ....|+||++.+.   .+++++|||.||..||.+|+.. .+.||+||..+.........
T Consensus        22 ~~~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i~i~   77 (79)
T d1fbva4          22 TFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVD   77 (79)
T ss_dssp             CTTBCTTTSSSBC---CEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCSSCC
T ss_pred             CCCCCccCCCcCC---CeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCceeecC
Confidence            3457999999874   3588999999999999999974 56899999999876655443

>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=99.67  E-value=9.2e-18  Score=85.44  Aligned_cols=49  Identities=22%  Similarity=0.552  Sum_probs=40.3

Q ss_pred             cccccccccccCCCc-eEEeCCCCcccHhHHHHHHhc-CCccccccccccc
Q psy8622          40 LQCSVCWEQFTLDEA-VRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHS   88 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~-~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~   88 (101)
                      ..|+||+++|..++. +..++|||.||..|+.+|++. +..||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            369999999865543 345689999999999999985 5579999999865

>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=99.65  E-value=4.1e-17  Score=86.54  Aligned_cols=53  Identities=19%  Similarity=0.436  Sum_probs=41.5

Q ss_pred             CccccccccccccCC--CceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCC
Q psy8622          38 SNLQCSVCWEQFTLD--EAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSES   90 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~--~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~   90 (101)
                      ++..|+||++.+..+  ....+++|+|.||..||.+|+.. +..||+||+.+...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            357899999976332  23466789999999999999965 567999999986543

>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=99.65  E-value=9.2e-17  Score=89.87  Aligned_cols=50  Identities=24%  Similarity=0.550  Sum_probs=40.9

Q ss_pred             CccccccccccccCCC---------------ceEEeCCCCcccHhHHHHHHhcCCcccccccccc
Q psy8622          38 SNLQCSVCWEQFTLDE---------------AVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH   87 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~---------------~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   87 (101)
                      .+..|+||++.+....               .+..++|+|.||..||.+|++.+.+||+||+++.
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            3456999988774322               3567889999999999999999999999999875

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.62  E-value=9.7e-17  Score=82.73  Aligned_cols=55  Identities=15%  Similarity=0.256  Sum_probs=47.0

Q ss_pred             cccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCCcccccccccccCCcccCCCC
Q psy8622          40 LQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA   97 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~   97 (101)
                      ..|+||++.+..+   +.+ .|||+||.+||.+|++.+.+||+||.++..++.....++
T Consensus         1 l~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dLipik~~   56 (56)
T d2baya1           1 MLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIVPS   56 (56)
T ss_dssp             CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEECCCC
T ss_pred             CCCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhceeCCCC
Confidence            3699999998643   556 599999999999999999999999999998888776653

>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=99.61  E-value=4.5e-16  Score=90.66  Aligned_cols=53  Identities=21%  Similarity=0.521  Sum_probs=41.0

Q ss_pred             CccccccccccccCC---------------CceEEeCCCCcccHhHHHHHHhcC-----CcccccccccccCC
Q psy8622          38 SNLQCSVCWEQFTLD---------------EAVRKLPCDHFYHTPCIEPWLQLH-----GTCPICRQTLHSES   90 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~---------------~~~~~l~C~H~f~~~Ci~~w~~~~-----~~CP~Cr~~~~~~~   90 (101)
                      .+..|+||++.+...               ..+..++|+|.||..||..|+...     .+||+||+.+....
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCc
Confidence            355799999987432               234667899999999999999743     37999999885543

>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=99.60  E-value=4e-16  Score=86.76  Aligned_cols=52  Identities=23%  Similarity=0.573  Sum_probs=43.3

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCcc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESAE   92 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~~   92 (101)
                      ....|+||++.+..   +++++|||.||..||.+|++. ...||+||.++...+..
T Consensus        22 ~~l~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          22 KSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             cCcCCccCCcchhc---ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            45789999999854   378999999999999999964 56899999998765543

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=3.1e-16  Score=80.73  Aligned_cols=48  Identities=27%  Similarity=0.548  Sum_probs=39.5

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCC
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES   90 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~   90 (101)
                      .+...|+||++.+..+   +.++|||.||..||.+|   +..||+||+.+....
T Consensus         4 ~~~l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           4 FQFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             cCCCCCcccCcccCCC---EEecCCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            3457999999998654   77899999999999765   668999999997543

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=1.6e-15  Score=86.96  Aligned_cols=52  Identities=25%  Similarity=0.664  Sum_probs=42.7

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcC---CcccccccccccCCc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH---GTCPICRQTLHSESA   91 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~---~~CP~Cr~~~~~~~~   91 (101)
                      .....|+||++.+..+   +.++|||.||..||..|+...   ..||+||..+...+.
T Consensus        19 ~~~l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l   73 (103)
T d1jm7a_          19 QKILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (103)
T ss_dssp             HHHTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             ccCcCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhC
Confidence            3457899999998644   678999999999999999754   379999999876554

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.45  E-value=6e-14  Score=76.47  Aligned_cols=54  Identities=22%  Similarity=0.433  Sum_probs=45.0

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCCcc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSESAE   92 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~~~   92 (101)
                      ..+++.|+||++.|..+   +.++|||.||..||.+|+.. ...||.|+.++...+..
T Consensus         5 iP~~l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~   59 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLT   59 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCE
T ss_pred             CCccCCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCCcccccCCccccc
Confidence            34678999999999644   77899999999999999976 45799999998765543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.44  E-value=3.2e-14  Score=74.00  Aligned_cols=51  Identities=24%  Similarity=0.524  Sum_probs=39.3

Q ss_pred             CCCCccccccccccccCCCceEEeC-----CCCcccHhHHHHHHh--cCCccccccccccc
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLP-----CDHFYHTPCIEPWLQ--LHGTCPICRQTLHS   88 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~-----C~H~f~~~Ci~~w~~--~~~~CP~Cr~~~~~   88 (101)
                      .+++...|+||++.+...   ...+     |+|.||..||.+|+.  .+.+||+||+++..
T Consensus         2 eded~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           2 EDEDVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TTCSCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            345677899999987543   3344     459999999999995  45689999998753

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.44  E-value=3.5e-14  Score=77.81  Aligned_cols=51  Identities=24%  Similarity=0.222  Sum_probs=43.2

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc-CCcccccccccccCC
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLHSES   90 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~~~   90 (101)
                      .+.+.|+||++.|..+   +.++|||+||..||.+|+.. ...||.||..+...+
T Consensus         5 P~~l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           5 PDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CSTTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CccccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            4678999999999644   78999999999999999975 557999999886554

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=1.8e-14  Score=81.63  Aligned_cols=52  Identities=21%  Similarity=0.507  Sum_probs=40.8

Q ss_pred             CCCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCcccccccccccCCc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA   91 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~   91 (101)
                      ......|+||++.|..+  +...+|||.||..||.+|+.  ..||.||..+...+.
T Consensus        19 l~~~l~C~IC~~~~~~p--v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l   70 (97)
T d1jm7b_          19 LEKLLRCSRCTNILREP--VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDL   70 (97)
T ss_dssp             HHHTTSCSSSCSCCSSC--BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSC
T ss_pred             hhhcCCCccCCchhhcC--ceeCCCCCchhHHHHHHHHh--ccccccCCcCchhhC
Confidence            34567899999999644  33457999999999999974  469999998865543

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.28  E-value=4.6e-12  Score=71.67  Aligned_cols=54  Identities=15%  Similarity=0.066  Sum_probs=45.0

Q ss_pred             CCCccccccccccccCCCceEEeCCC-CcccHhHHHHHHhcCCcccccccccccCCcc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKLPCD-HFYHTPCIEPWLQLHGTCPICRQTLHSESAE   92 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l~C~-H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~~~~   92 (101)
                      ..+.+.||||++.|..+   ++++|+ |.|+..||.+|+..+..||+||.++..++..
T Consensus        19 ~P~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~   73 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIR   73 (98)
T ss_dssp             CCTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSE
T ss_pred             CcHHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccchhhc
Confidence            34579999999999654   778866 5899999999999999999999998765443

>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=98.96  E-value=9.7e-11  Score=65.41  Aligned_cols=47  Identities=17%  Similarity=0.605  Sum_probs=36.1

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhc--------CCcccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL--------HGTCPICR   83 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~--------~~~CP~Cr   83 (101)
                      .....|+||++++...+.+..++|+|.||..|+..|+..        .-.||.|+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            345689999999865555566689999999999999852        12699864

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.14  E-value=0.0028  Score=33.50  Aligned_cols=34  Identities=26%  Similarity=0.706  Sum_probs=25.0

Q ss_pred             CCCCccccccccccccCCCceEEeC---CCCcccHhHHHHH
Q psy8622          35 TDDSNLQCSVCWEQFTLDEAVRKLP---CDHFYHTPCIEPW   72 (101)
Q Consensus        35 ~~~~~~~C~IC~~~~~~~~~~~~l~---C~H~f~~~Ci~~w   72 (101)
                      ....+..|.|| +.+...   .++|   |+.+||..|+.+.
T Consensus        11 ~v~~D~mC~vC-~v~t~~---~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          11 PVVNDEMCDVC-EVWTAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTT-CCCCSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcCcccccc-Cccccc---ceecceeecchhhHHHHHHh
Confidence            34456789999 555444   3445   7899999999987

>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=94.80  E-value=0.0052  Score=29.29  Aligned_cols=43  Identities=26%  Similarity=0.629  Sum_probs=27.2

Q ss_pred             ccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCC----ccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHG----TCPICRQ   84 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~----~CP~Cr~   84 (101)
                      .|.||...-.. ..++.- .|...||..|+..-+....    .||.|+.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            58888765322 223322 3899999999976543322    5888864

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=94.57  E-value=0.0043  Score=31.04  Aligned_cols=48  Identities=27%  Similarity=0.565  Sum_probs=31.3

Q ss_pred             CccccccccccccCCCceEEe-CCCCcccHhHHHHHHh-----cCCcccccccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQ-----LHGTCPICRQT   85 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~-----~~~~CP~Cr~~   85 (101)
                      ....|.+|......+...+.- .|+..||..|+..-..     ..-.||.|+..
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            356899999876544433333 4999999999953111     12379999754

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.65  E-value=0.0069  Score=29.91  Aligned_cols=46  Identities=15%  Similarity=0.311  Sum_probs=30.0

Q ss_pred             CCccccccccccccCCCceEEeCCCCcccHhHHHHHHhcCCccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPIC   82 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci~~w~~~~~~CP~C   82 (101)
                      .....|.-|+..+.......-..|++.||.+|=.-.-+.-..||-|
T Consensus        13 ~~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          13 NGERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CSCCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            3456799999887533222223499999999965433344578877

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.61  E-value=0.013  Score=29.81  Aligned_cols=47  Identities=28%  Similarity=0.589  Sum_probs=30.0

Q ss_pred             CCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhcCC----cccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQLHG----TCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~~~----~CP~Cr~~~~   87 (101)
                      +....|.+|...   ++ ++.- .|...||..|+...+....    .||.|+..-.
T Consensus         5 d~c~~C~~C~~~---~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           5 DSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCCCCc---CE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            345567777653   22 2222 3899999999987654322    5999976443

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.54  E-value=0.21  Score=25.59  Aligned_cols=48  Identities=17%  Similarity=0.540  Sum_probs=29.9

Q ss_pred             cccccccccccCCCceEEe-CCCCcccHhHHHH--H-Hhc--CCccccccccccc
Q psy8622          40 LQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEP--W-LQL--HGTCPICRQTLHS   88 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~--w-~~~--~~~CP~Cr~~~~~   88 (101)
                      ..| ||..........+.- .|.-.||..|+.-  . ...  .-.||.|+.....
T Consensus        13 v~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~gp   66 (79)
T d1wepa_          13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGP   66 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSCS
T ss_pred             eEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcCC
Confidence            445 898765433333333 3899999999941  1 111  2479999876543

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.08  E-value=0.0052  Score=30.50  Aligned_cols=46  Identities=30%  Similarity=0.582  Sum_probs=29.0

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHHHHHhc----CCcccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQL----HGTCPICRQT   85 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~   85 (101)
                      +.....|.+|.+.   ++ ++.- .|...||..|+...+..    .=.||.|+..
T Consensus         6 d~~~~~C~~C~~~---g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           6 DHHMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             CSSCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             cCCcCCCcCCCCC---Ce-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            3445579999753   22 2222 38899999998654432    2269999654

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.91  E-value=0.013  Score=31.03  Aligned_cols=51  Identities=22%  Similarity=0.556  Sum_probs=30.8

Q ss_pred             CCccccccccccccCCC-ceEEe-CCCCcccHhHHHHHH-----hc---CCcccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDE-AVRKL-PCDHFYHTPCIEPWL-----QL---HGTCPICRQTLH   87 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~-~~~~l-~C~H~f~~~Ci~~w~-----~~---~~~CP~Cr~~~~   87 (101)
                      +....|.||........ .++.- .|...||..|+...+     ..   .-.||.|.....
T Consensus        14 ~~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          14 EMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             HHCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             cCcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            33567999986543222 22222 388999999975321     11   236999976543

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.77  E-value=0.14  Score=25.82  Aligned_cols=48  Identities=23%  Similarity=0.546  Sum_probs=28.7

Q ss_pred             CCCccccccccccccCCCceEEe-CCCCcccHhHHH----HH--H---hcCCcccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIE----PW--L---QLHGTCPICRQT   85 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~----~w--~---~~~~~CP~Cr~~   85 (101)
                      +.....| ||......+ .++.- .|.-.||..|+.    ..  .   ...-.||.|+..
T Consensus        13 d~~~~~C-iC~~~~~~~-~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~   70 (76)
T d1wema_          13 DPNALYC-ICRQPHNNR-FMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CTTCCCS-TTCCCCCSS-CEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             CCCcCEE-ECCCccCCC-eEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCc
Confidence            3345568 898765332 23322 388999999982    11  1   123589999654

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=92.13  E-value=0.39  Score=25.15  Aligned_cols=52  Identities=21%  Similarity=0.415  Sum_probs=35.4

Q ss_pred             CCccccccccccccCCC--ceEEe--CCCCcccHhHHHH-HHhcCCccccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDE--AVRKL--PCDHFYHTPCIEP-WLQLHGTCPICRQTLHS   88 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~--~~~~l--~C~H~f~~~Ci~~-w~~~~~~CP~Cr~~~~~   88 (101)
                      .....|-||-+.+....  .+++.  -|+--.|..|..- ....++.||.|+..+..
T Consensus        14 ~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr   70 (93)
T d1weoa_          14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             cccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhh
Confidence            34568999999874332  22222  2777889999863 33467899999988754

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=91.50  E-value=0.028  Score=28.53  Aligned_cols=49  Identities=20%  Similarity=0.275  Sum_probs=29.0

Q ss_pred             CCccccccccccccCCCceEEe-CCCCcccHhHHHHHHh----cCCccccccccc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEPWLQ----LHGTCPICRQTL   86 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~w~~----~~~~CP~Cr~~~   86 (101)
                      +....| ||.........++.- .|...||..|+..-..    ..-.||.|+..-
T Consensus        14 ~~~~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~~   67 (72)
T d1weea_          14 NWKVDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELS   67 (72)
T ss_dssp             SSEECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHHC
T ss_pred             CCeEEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCcC
Confidence            334567 787655433333332 4899999999853211    223699996643

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=91.32  E-value=0.15  Score=26.04  Aligned_cols=49  Identities=22%  Similarity=0.478  Sum_probs=30.4

Q ss_pred             CCCccccccccccccCCCceEEe---CCCCcccHhHHHH----HHh-----cCCccccccccc
Q psy8622          36 DDSNLQCSVCWEQFTLDEAVRKL---PCDHFYHTPCIEP----WLQ-----LHGTCPICRQTL   86 (101)
Q Consensus        36 ~~~~~~C~IC~~~~~~~~~~~~l---~C~H~f~~~Ci~~----w~~-----~~~~CP~Cr~~~   86 (101)
                      .++...| ||...... ...+..   .|...||..|+.-    ...     ..-.||.|+..-
T Consensus        13 ~~~~~~C-~C~~~~~~-~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T d1wewa_          13 PEIKVRC-VCGNSLET-DSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CCCCCCC-SSCCCCCC-SCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             CCCccEe-ECCCccCC-CcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcC
Confidence            3345678 89887643 234445   3899999999831    100     123799997644

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.06  E-value=0.2  Score=25.40  Aligned_cols=38  Identities=21%  Similarity=0.494  Sum_probs=27.7

Q ss_pred             CCccccccccccccCCCceEEeC--CCCcccHhHHHHHHhc
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKLP--CDHFYHTPCIEPWLQL   75 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l~--C~H~f~~~Ci~~w~~~   75 (101)
                      .....|.+|.+.+++.. .+..|  =+|.||..|-...++.
T Consensus         6 ~~~l~CtlC~erLEdtH-FVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           6 SGPLCCTICHERLEDTH-FVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             CCSCCCSSSCSCCSSTT-SEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCceeeeeehhhhcCCc-eEeCCCCcCCceeccccHHHHHh
Confidence            34578999999986443 33334  3799999999988753

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.91  E-value=0.016  Score=27.69  Aligned_cols=44  Identities=18%  Similarity=0.468  Sum_probs=26.6

Q ss_pred             ccccccccccCCCceEE-eCCCCcccHhHHHHHHhcCCccccccc
Q psy8622          41 QCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLHGTCPICRQ   84 (101)
Q Consensus        41 ~C~IC~~~~~~~~~~~~-l~C~H~f~~~Ci~~w~~~~~~CP~Cr~   84 (101)
                      .|.+|...|..-..-.. ..||.+||..|..........|..|.+
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~~   46 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQR   46 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHhh
Confidence            47888887753322122 249999999997654444567877753

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.95  E-value=0.31  Score=24.51  Aligned_cols=43  Identities=23%  Similarity=0.580  Sum_probs=25.2

Q ss_pred             CccccccccccccCCCceEEeC---C-CCcccHhHHHHHHhc----CCcccccccc
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLP---C-DHFYHTPCIEPWLQL----HGTCPICRQT   85 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~---C-~H~f~~~Ci~~w~~~----~~~CP~Cr~~   85 (101)
                      +...| ||.....  ...+...   | ...||..|+.  +..    .-.||.|+..
T Consensus        15 e~~~C-iC~~~~~--~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          15 EPTYC-LCNQVSY--GEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             SCCCS-TTCCCCC--SSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CCCEE-EeCCCCC--CCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            34556 8987542  2233332   4 3579999984  222    2269999653

>d1joca1 g.50.1.1 (A:1348-1411) Eea1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Eea1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.76  E-value=0.22  Score=24.49  Aligned_cols=35  Identities=14%  Similarity=0.470  Sum_probs=23.2

Q ss_pred             CCccccccccccccCCCceEEe-CCCCcccHhHHHH
Q psy8622          37 DSNLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEP   71 (101)
Q Consensus        37 ~~~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~   71 (101)
                      ++...|.+|...|..-..--.- .||.+||..|...
T Consensus         6 ~~~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~~   41 (64)
T d1joca1           6 NEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK   41 (64)
T ss_dssp             GGCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             ccCCcCcCcCCcccCCccccchhhhCCeecccccCC
Confidence            3445799999988543221222 3999999999654

>d1dvpa2 g.50.1.1 (A:149-220) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Hrs
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=83.85  E-value=0.44  Score=23.94  Aligned_cols=33  Identities=18%  Similarity=0.509  Sum_probs=22.6

Q ss_pred             ccccccccccccCCCceEEe-CCCCcccHhHHHH
Q psy8622          39 NLQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEP   71 (101)
Q Consensus        39 ~~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~   71 (101)
                      +..|.+|...|..-..-..- .||++||..|...
T Consensus        13 ~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~~   46 (72)
T d1dvpa2          13 GRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK   46 (72)
T ss_dssp             CSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             CCccccCCCcccCccccccccccCCeeChhhhCC
Confidence            35699999988543222222 3999999999754

>d1vfya_ g.50.1.1 (A:) vps27p protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: vps27p protein
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.12  E-value=0.52  Score=23.25  Aligned_cols=32  Identities=16%  Similarity=0.386  Sum_probs=21.7

Q ss_pred             cccccccccccCCCceEEe-CCCCcccHhHHHH
Q psy8622          40 LQCSVCWEQFTLDEAVRKL-PCDHFYHTPCIEP   71 (101)
Q Consensus        40 ~~C~IC~~~~~~~~~~~~l-~C~H~f~~~Ci~~   71 (101)
                      ..|.+|...|..-..--.- .||.+||..|...
T Consensus         6 ~~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~   38 (67)
T d1vfya_           6 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSSN   38 (67)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             cccccCCCcccCcccccccccCCCEecccccCC
Confidence            4699999988533221222 3999999999744

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=82.68  E-value=0.46  Score=21.54  Aligned_cols=30  Identities=20%  Similarity=0.407  Sum_probs=21.4

Q ss_pred             CccccccccccccCCCceEEeCCCCcccHhHH
Q psy8622          38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCI   69 (101)
Q Consensus        38 ~~~~C~IC~~~~~~~~~~~~l~C~H~f~~~Ci   69 (101)
                      ....|+.|-..+...+.+..  =++.||..|.
T Consensus        14 ~~~kC~~C~k~VY~~E~~~~--~g~~~Hk~CF   43 (43)
T d1b8ta3          14 GSDGCPRCGQAVYAAEKVIG--AGKSWHKSCF   43 (43)
T ss_dssp             CCEECTTTSCEECSSSCEEE--TTEEECTTTC
T ss_pred             CCCcCccCCCEeeHHHHhhc--CCCccccCCC
Confidence            34689999987765554433  5888998873

>d2o35a1 a.293.1.1 (A:2-80) Hypothetical protein SMc04008 {Rhizobium meliloti [TaxId: 382]}

class: All alpha proteins
fold: SMc04008-like
superfamily: SMc04008-like
family: SMc04008-like
domain: Hypothetical protein SMc04008
species: Rhizobium meliloti [TaxId: 382]

Probab=80.17  E-value=0.36  Score=24.71  Aligned_cols=12  Identities=17%  Similarity=0.744  Sum_probs=10.7

Q ss_pred             cccHhHHHHHHh
Q psy8622          63 FYHTPCIEPWLQ   74 (101)
Q Consensus        63 ~f~~~Ci~~w~~   74 (101)
                      .||..|+.+|..
T Consensus        39 GFCRNCLskWy~   50 (79)
T d2o35a1          39 GFCRNCLSNWYR   50 (79)
T ss_dssp             SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            599999999984