Citrus Sinensis ID: 044489

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------
Protein Sequence
LLVKQLGWQRRADGIFEHTIARSLFYLLNAAFCIQGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSIKRGRKRPSLINGAVLAKSPALTRFG
Secondary Structure (PSIPRED)
cccccccEEEcccccccccccccEEEEEcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHcccEEEcccccccccccccccEEccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHcHHHHHHHHHHccEEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHccccccccccHHHHHHccEEEEEccccccccccccEEEEEccccccccEEEcccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
LLVKQLGWQRRADGIFEHTIARSLFYLLNAAFCIQGLPRVARYGIVIGVGIPGLLCIIGlgcylcgrfracyqhrnsdaelgtsitpqlqpafvptgldkptiesypktilgdsgrlpkpndstcpiclceyhpketlrsipkcnhYFHAICIDEWLKinatcplcrnsrenssvvtpsssikrgrkrpslingavlakspaltrfg
Flexible Loop (DISEMBL)
llvkqlgwqrraDGIFEHTIARSLFYLLNAAFCIQGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTilgdsgrlpkpnDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPlcrnsrenssvvtpsssikrgrkrpslingavlakspaltrfg
Low Complexity Region (SEG)
LLVKQLGWQRRADGIFEHTIARSLFYLLNAAFCIQGLPRVARygivigvgipgllciiglgcylcgRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSIKRGRKRPSLINGAVLAKSPALTRFG
Disordered region (IsUnstruct)
****QLGWQRRADGIFEHTIARSLFYLLNAAFCIQGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGL***********I************STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR****************************************
Disordered Region (DISOPRED)
******GWQRRADGIFEHTIARSLFYLLNAA*****LPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRAC******************************TIESYPKTILGDS*****PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR*************************************
Disordered Region (DISEMBL)
LLVKQLGWQRRADGIFEHTIARSLFYLLNAAFCIQGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN******************KRPSLINGAVLAKSPALTRFG
Disordered Region (DISPRO)
LLVKQLGWQRRADGIFEHTIARSLFYLLNAAFCIQGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQ**********************TGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE************************************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
LLVKQLGWQRRADGIFEHTIARSLFYLLNAAFCIQGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSIKRGRKRPSLINGAVLAKSPALTRFG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	207	2.2.26 [Sep-21-2011]
Q9FL42	159	Putative RING-H2 finger p	no	no	0.661	0.861	0.471	4e-30
Q9C7E9	299	RING-H2 finger protein AT	no	no	0.545	0.377	0.513	5e-25
P0CH01	372	Putative RING-H2 finger p	no	no	0.570	0.317	0.488	2e-22
P0CH03	366	Putative RING-H2 finger p	no	no	0.560	0.316	0.434	2e-20
Q9SKK8	377	RING-H2 finger protein AT	no	no	0.531	0.291	0.464	2e-20
P0CH02	362	Putative RING-H2 finger p	no	no	0.429	0.245	0.528	6e-20
O82353	214	RING-H2 finger protein AT	no	no	0.454	0.439	0.45	6e-18
Q9M313	212	RING-H2 finger protein AT	no	no	0.628	0.613	0.327	1e-17
Q8RX29	217	RING-H2 finger protein AT	no	no	0.666	0.635	0.391	5e-16
Q7X843	349	RING-H2 finger protein AT	no	no	0.483	0.286	0.409	9e-15

>sp|Q9FL42|ATL69_ARATH Putative RING-H2 finger protein ATL69 OS=Arabidopsis thaliana GN=ATL69 PE=3 SV=1

 Score =  131 bits (329), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 66/140 (47%), Positives = 88/140 (62%), Gaps = 3/140 (2%)

Query: 43  YGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPT 102
           YGI I V I  L+  I L  Y+C R ++  +   +   +    +P    A V  GLD+P 
Sbjct: 15  YGIAIAVSILVLISFIMLASYICIRSKSTGRDEATSDVVLDLPSPA---AEVKLGLDRPV 71

Query: 103 IESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINAT 162
           IESYP+ +LGDS RLP+PN+  C ICLC+Y  +E +R IP+CNH FH  C+DEWL+ +AT
Sbjct: 72  IESYPRIVLGDSRRLPRPNNGPCSICLCDYEAREPVRCIPECNHCFHTDCVDEWLRTSAT 131

Query: 163 CPLCRNSRENSSVVTPSSSI 182
           CPLCRNS   S + TP S +
Sbjct: 132 CPLCRNSPAPSRLATPLSDL 151

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C7E9|ATL20_ARATH RING-H2 finger protein ATL20 OS=Arabidopsis thaliana GN=ATL20 PE=2 SV=2

 Score =  114 bits (285), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 59/115 (51%), Positives = 73/115 (63%), Gaps = 2/115 (1%)

Query: 56  CIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSG 115
           CI  +  Y   RF    Q R + A    + T Q +   V TGLD+ TIESY K  LG+S 
Sbjct: 186 CIAAIRIYNSERF--VNQRRQNAAITARNTTQQPRGVVVTTGLDQSTIESYKKVELGESR 243

Query: 116 RLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR 170
           RLP  N   CPICL EY  KET+R +P+C+H FH  CIDEWLKI+++CP+CRNSR
Sbjct: 244 RLPGTNGIICPICLSEYASKETVRCMPECDHCFHVQCIDEWLKIHSSCPVCRNSR 298

Arabidopsis thaliana (taxid: 3702)

>sp|P0CH01|AT21A_ARATH Putative RING-H2 finger protein ATL21A OS=Arabidopsis thaliana GN=ATL21A PE=3 SV=1

 Score =  105 bits (262), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/129 (48%), Positives = 76/129 (58%), Gaps = 11/129 (8%)

Query: 46  VIGVGIPGLLCI----IGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKP 101
           +I + I G L I    I +G     RF +  Q   + A L      Q     V TGLD+ 
Sbjct: 242 IILLSIIGPLTIFATCIAVGVCTSERFASLIQRNVAIAAL------QPNEVIVTTGLDES 295

Query: 102 TIESYPKTILGDSGRLPKPNDS-TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN 160
            IESY KT LG+S RLP  ND   CPICL EY  KET+R IP+C+H FH+ CID WLKI+
Sbjct: 296 IIESYKKTELGESRRLPGNNDDIVCPICLSEYASKETVRCIPECDHCFHSECIDVWLKIH 355

Query: 161 ATCPLCRNS 169
            +CPLCRNS
Sbjct: 356 GSCPLCRNS 364

Arabidopsis thaliana (taxid: 3702)

>sp|P0CH03|AT21C_ARATH Putative RING-H2 finger protein ATL21C OS=Arabidopsis thaliana GN=ATL21C PE=3 SV=1

 Score = 99.4 bits (246), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 53/122 (43%), Positives = 68/122 (55%), Gaps = 6/122 (4%)

Query: 54  LLCIIGLGCYLCGRFRACYQHRNSDAE------LGTSITPQLQPAFVPTGLDKPTIESYP 107
           L+ +I L       F  C   R  D+E         ++  Q +      GLD+ TIE++ 
Sbjct: 243 LVLVISLSAVTVFVFPTCIAIRLYDSERFDSAIAAATVMQQPREVMARRGLDQSTIETFK 302

Query: 108 KTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
           K  LG+S RL   N   CPICL EY  KET+R IP+C+H FH  CID WLKI+ +CPLCR
Sbjct: 303 KMELGESRRLSGTNGIVCPICLSEYASKETVRFIPECDHCFHVECIDVWLKIHGSCPLCR 362

Query: 168 NS 169
           NS
Sbjct: 363 NS 364

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SKK8|ATL22_ARATH RING-H2 finger protein ATL22 OS=Arabidopsis thaliana GN=ATL22 PE=2 SV=2

 Score = 99.4 bits (246), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 52/112 (46%), Positives = 69/112 (61%), Gaps = 2/112 (1%)

Query: 60  LGCYLCGRFRACYQHRNSD-AELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLP 118
           +G  +C   R   Q + +  A L  S+T Q        GLD+ TIESY K  LG+S RLP
Sbjct: 260 VGLVMCSSERVSSQIQQAVVARLSGSVTSQPSNEVARIGLDESTIESYKKVELGESRRLP 319

Query: 119 K-PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
              ND  CPICL EY  KET+R +P+C H FH  CID WLK++++CP+CR++
Sbjct: 320 TGSNDVVCPICLSEYATKETVRCLPECEHCFHTECIDAWLKLHSSCPVCRSN 371

Arabidopsis thaliana (taxid: 3702)

>sp|P0CH02|AT21B_ARATH Putative RING-H2 finger protein ATL21B OS=Arabidopsis thaliana GN=ATL21B PE=3 SV=1

 Score = 97.4 bits (241), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 47/89 (52%), Positives = 57/89 (64%)

Query: 82  GTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSI 141
             ++  Q +      GLD+ TIE Y    LG+S R P  N   CPICL EY  KET+R I
Sbjct: 273 AATVMQQPREVMATRGLDQSTIEKYKTMELGESRRPPGTNGIVCPICLSEYVSKETVRFI 332

Query: 142 PKCNHYFHAICIDEWLKINATCPLCRNSR 170
           P+C+H FHA CID WLKI+ +CPLCRNSR
Sbjct: 333 PECDHCFHAKCIDVWLKIHGSCPLCRNSR 361

Arabidopsis thaliana (taxid: 3702)

>sp|O82353|ATL67_ARATH RING-H2 finger protein ATL67 OS=Arabidopsis thaliana GN=ATL67 PE=2 SV=1

 Score = 90.9 bits (224), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 45/100 (45%), Positives = 56/100 (56%), Gaps = 6/100 (6%)

Query: 88  QLQPAFVPTGLDKPTIESYPK------TILGDSGRLPKPNDSTCPICLCEYHPKETLRSI 141
            L+   V  GLD+  I SYPK      T    S       D+TC ICLCEY   E LR +
Sbjct: 95  DLEAGDVVVGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTCSICLCEYKEAEMLRMM 154

Query: 142 PKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSS 181
           P+C HYFH  C+D WLK+N +CP+CRNS   +   TP S+
Sbjct: 155 PECKHYFHLCCLDAWLKLNGSCPVCRNSPLPTPTSTPLST 194

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M313|ATL68_ARATH RING-H2 finger protein ATL68 OS=Arabidopsis thaliana GN=ATL68 PE=2 SV=1

 Score = 89.7 bits (221), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 57/174 (32%), Positives = 75/174 (43%), Gaps = 44/174 (25%)

Query: 43  YGIVIGVGIPGLLCIIGLGCYLCGRF--------------------------RACYQHRN 76
           Y I I +G   L+  I L  Y+C R                           R  +   +
Sbjct: 28  YSIAIALGFLVLISTIILSSYICCRASRLRFSASAANANANASFSDRGVIVPRIIFVAED 87

Query: 77  SDAELGTSITPQLQPAFVPTGLDKPTIESYPK---------TILGDSGRLPKPNDSTCPI 127
            D E G           V  GLD   I SYPK          + GD     +  ++TC I
Sbjct: 88  DDLESGN---------VVVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGRETTCSI 138

Query: 128 CLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSS 181
           CLCEY  +E LR +P+C HYFH  C+D WLK+N +CP+CRNS   +   TP S+
Sbjct: 139 CLCEYMEEEMLRMMPECKHYFHVYCLDAWLKLNGSCPVCRNSPLPTPQSTPQST 192

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RX29|ATL70_ARATH RING-H2 finger protein ATL70 OS=Arabidopsis thaliana GN=ATL70 PE=2 SV=1

 Score = 84.3 bits (207), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 56/143 (39%), Positives = 75/143 (52%), Gaps = 5/143 (3%)

Query: 42  RYGIVIGVGIPGLLCIIGLGCYLCGR--FRACYQHRNSDAELGTSITPQLQPAFVPTGLD 99
           RYGI + +G+  L+  I L  Y C R    +     N D+         +    VP GLD
Sbjct: 65  RYGIGVSIGVLLLITTITLTSYYCTRNQLSSSPSQTNQDSTRIHHHHHHVIIDVVP-GLD 123

Query: 100 KPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI 159
           + TI+SYPK IL    + P    S C ICL +Y  K  LR +P CNH FH  CID WL++
Sbjct: 124 EDTIQSYPK-ILYSEAKGPT-TASCCAICLGDYKGKHLLRQLPDCNHLFHLKCIDTWLRL 181

Query: 160 NATCPLCRNSRENSSVVTPSSSI 182
           N TCP+CR S   + + TP + +
Sbjct: 182 NPTCPVCRTSPLPTPLSTPLAEV 204

Arabidopsis thaliana (taxid: 3702)

>sp|Q7X843|ATL48_ARATH RING-H2 finger protein ATL48 OS=Arabidopsis thaliana GN=ATL48 PE=2 SV=2

 Score = 80.1 bits (196), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 43/105 (40%), Positives = 62/105 (59%), Gaps = 5/105 (4%)

Query: 74  HRNSDAELGTSITPQLQPAFV--PTGLDKPTIESYPKTILGD-SGRLPKPNDSTCPICLC 130
           H N + +L +  +PQLQ  F    +GLD+  I++ P  + G+ +  L +P D  C +CL 
Sbjct: 155 HFNYNPDLFSFSSPQLQHLFFLHDSGLDQTAIDALPVFLYGNVTISLEQPFD--CAVCLN 212

Query: 131 EYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV 175
           E+   + LR +P C+H FH  CID WL  N+TCPLCR S   S+V
Sbjct: 213 EFSDTDKLRLLPVCSHAFHLHCIDTWLLSNSTCPLCRRSLSTSNV 257

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	207
224075100	385	predicted protein [Populus trichocarpa]	0.666	0.358	0.685	4e-49
255537789	392	ring finger protein, putative [Ricinus c	0.685	0.362	0.659	2e-43
224053779	378	predicted protein [Populus trichocarpa]	0.671	0.367	0.687	7e-43
359490864	1054	PREDICTED: uncharacterized protein LOC10	0.753	0.148	0.531	1e-42
356511447	582	PREDICTED: putative RING-H2 finger prote	0.657	0.233	0.612	1e-42
302144043	381	unnamed protein product [Vitis vinifera]	0.700	0.380	0.582	2e-41
449464090	393	PREDICTED: putative RING-H2 finger prote	0.700	0.368	0.560	2e-39
225426346	386	PREDICTED: putative RING-H2 finger prote	0.768	0.411	0.554	1e-38
224132906	384	predicted protein [Populus trichocarpa]	0.652	0.351	0.536	2e-37
334188355	382	RING/U-box domain-containing protein-lik	0.661	0.358	0.532	3e-36

>gi|224075100|ref|XP_002304557.1| predicted protein [Populus trichocarpa] gi|222841989|gb|EEE79536.1| predicted protein [Populus trichocarpa]

 Score =  199 bits (507), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 96/140 (68%), Positives = 109/140 (77%), Gaps = 2/140 (1%)

Query: 37  LPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPT 96
           LPR A+YGIV+G GIPGLLCI G+G YL GR +          E  T+I PQ  P+ V T
Sbjct: 230 LPRSAKYGIVLGAGIPGLLCIFGIGSYLFGRLKEYSGGNQPTTEFSTAIAPQ--PSVVIT 287

Query: 97  GLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW 156
           GLD PTIESYPKT LGDSGRLPKPND+TCPICL EY PK+TLR+IP C+HYFHA CIDEW
Sbjct: 288 GLDAPTIESYPKTQLGDSGRLPKPNDNTCPICLSEYQPKDTLRTIPDCSHYFHANCIDEW 347

Query: 157 LKINATCPLCRNSRENSSVV 176
           LK+NATCPLCRNS + SSV+
Sbjct: 348 LKMNATCPLCRNSPDGSSVM 367

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537789|ref|XP_002509961.1| ring finger protein, putative [Ricinus communis] gi|223549860|gb|EEF51348.1| ring finger protein, putative [Ricinus communis]

 Score =  181 bits (458), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 95/144 (65%), Positives = 114/144 (79%), Gaps = 2/144 (1%)

Query: 35  QGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFV 94
           + LPR A+YGI+IG+GIPGLLCIIGLGCY+ GR     +  +S   L  +  P+ QP+  
Sbjct: 223 RALPRSAKYGIIIGIGIPGLLCIIGLGCYVAGRVGTYRRSLHSSTALNATF-PR-QPSMA 280

Query: 95  PTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICID 154
            TG+D  T+E YPKT+LG+S RLPKPND+TCPICLCEY PKETLR+IP+CNHYFHA CID
Sbjct: 281 VTGIDGATLELYPKTLLGESRRLPKPNDNTCPICLCEYQPKETLRTIPECNHYFHADCID 340

Query: 155 EWLKINATCPLCRNSRENSSVVTP 178
           EWLK+NATCPLCRNS + SSV TP
Sbjct: 341 EWLKMNATCPLCRNSPDVSSVATP 364

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053779|ref|XP_002297975.1| predicted protein [Populus trichocarpa] gi|222845233|gb|EEE82780.1| predicted protein [Populus trichocarpa]

 Score =  179 bits (453), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 97/141 (68%), Positives = 111/141 (78%), Gaps = 2/141 (1%)

Query: 37  LPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPT 96
           LPR A+YGI+IG GIPGLLCIIG+  Y+ GR +A         E+ TS+ PQ  P  V T
Sbjct: 225 LPRSAKYGIIIGAGIPGLLCIIGIVSYVFGRLKARSSGNEPTMEMSTSVAPQ--PCVVVT 282

Query: 97  GLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW 156
           GLD PTIESYPKT LGDSGRLPKPND+TCPICL EY PK+TLR+IP CNHYFHA C+DEW
Sbjct: 283 GLDGPTIESYPKTQLGDSGRLPKPNDNTCPICLSEYQPKDTLRTIPNCNHYFHANCVDEW 342

Query: 157 LKINATCPLCRNSRENSSVVT 177
           LK+NATCPLCRNS + SSV+T
Sbjct: 343 LKMNATCPLCRNSPDGSSVMT 363

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490864|ref|XP_002267722.2| PREDICTED: uncharacterized protein LOC100262465 [Vitis vinifera]

 Score =  178 bits (452), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 92/173 (53%), Positives = 111/173 (64%), Gaps = 17/173 (9%)

Query: 35  QGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFV 94
           +GLPR ARY I +GVGIP L+C +GL C+LCGR +A    R   AE  + +TPQ  P  V
Sbjct: 205 RGLPRTARYAITVGVGIPALMCFVGLLCFLCGRVKAFGGRRRPIAEFTSMVTPQ--PTAV 262

Query: 95  PTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICID 154
             GLD PTIESYPK +LG+S RLPKP+D+TC ICL EY PKETL+ IP+C H FH+ CID
Sbjct: 263 -MGLDGPTIESYPKVVLGESRRLPKPDDNTCSICLSEYRPKETLKIIPECQHCFHSECID 321

Query: 155 EWLKINATCPLCRNSRENSSVVTPSSSIKRGRKRPSLINGAVLAKSPALTRFG 207
           EWL +NA+CP+CRNS   S               PS I   +   SP L RF 
Sbjct: 322 EWLHLNASCPICRNSPAKSP--------------PSQIASPISMSSPLLIRFA 360

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511447|ref|XP_003524438.1| PREDICTED: putative RING-H2 finger protein ATL21B-like [Glycine max]

 Score =  178 bits (451), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 87/142 (61%), Positives = 107/142 (75%), Gaps = 6/142 (4%)

Query: 35  QGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFV 94
           +GL R A+YG+ IGVGIPGLLC+IG+ C +CG+      +R   A+L  +I+  L+P   
Sbjct: 252 KGLSRSAKYGLAIGVGIPGLLCLIGISCCICGKL----TNRRRSADLPVTIS--LEPVPF 305

Query: 95  PTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICID 154
             GLD  TI+ YPKT++G+SGRL KPND+TC ICL EY PKETLRSIP+CNHYFHA CID
Sbjct: 306 VMGLDGATIDKYPKTLIGESGRLLKPNDNTCAICLSEYQPKETLRSIPECNHYFHADCID 365

Query: 155 EWLKINATCPLCRNSRENSSVV 176
           EWL++NATCPLCRNS E SS  
Sbjct: 366 EWLRLNATCPLCRNSPEASSTA 387

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302144043|emb|CBI23148.3| unnamed protein product [Vitis vinifera]

 Score =  174 bits (441), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 88/151 (58%), Positives = 107/151 (70%), Gaps = 6/151 (3%)

Query: 35  QGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFV 94
           +GLPR ARY I +GVGIP L+C +GL C+LCGR +A    R   AE  + +TPQ  P  V
Sbjct: 234 RGLPRTARYAITVGVGIPALMCFVGLLCFLCGRVKAFGGRRRPIAEFTSMVTPQ--PTAV 291

Query: 95  PTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICID 154
             GLD PTIESYPK +LG+S RLPKP+D+TC ICL EY PKETL+ IP+C H FH+ CID
Sbjct: 292 -MGLDGPTIESYPKVVLGESRRLPKPDDNTCSICLSEYRPKETLKIIPECQHCFHSECID 350

Query: 155 EWLKINATCPLCRNSRENSSVVTPSSSIKRG 185
           EWL +NA+CP+CRNS   S    PS S + G
Sbjct: 351 EWLHLNASCPICRNSPAKS---PPSQSHENG 378

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464090|ref|XP_004149762.1| PREDICTED: putative RING-H2 finger protein ATL21A-like [Cucumis sativus] gi|449505086|ref|XP_004162372.1| PREDICTED: putative RING-H2 finger protein ATL21A-like [Cucumis sativus]

 Score =  167 bits (423), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 83/148 (56%), Positives = 105/148 (70%), Gaps = 3/148 (2%)

Query: 35  QGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFV 94
            G+PR A+YG++IGVGIPGLL +IGL  Y+CG+ +A  +     + L  S+    +P   
Sbjct: 229 SGIPRGAKYGLIIGVGIPGLLFLIGLVFYICGKCKAFARPNRPTSNLSLSL--GHEPTST 286

Query: 95  PTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICID 154
             GLD PTIES+PKT LG S RLPK ND+TC ICL EY  KET+R+IP C H+FHA C+D
Sbjct: 287 KAGLDGPTIESFPKTTLGQSRRLPKSNDTTCAICLSEYQSKETIRTIPDCGHFFHANCVD 346

Query: 155 EWLKINATCPLCRNSRENSSVV-TPSSS 181
           EWLK+NATCP+CR S ++SS   TPS S
Sbjct: 347 EWLKLNATCPVCRTSPDDSSATSTPSQS 374

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426346|ref|XP_002265994.1| PREDICTED: putative RING-H2 finger protein ATL21A [Vitis vinifera] gi|297742332|emb|CBI34481.3| unnamed protein product [Vitis vinifera]

 Score =  165 bits (418), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 96/173 (55%), Positives = 121/173 (69%), Gaps = 14/173 (8%)

Query: 7   GWQRRADGIFEHTIARSLFYLLNAAFCIQGLPRVARYGIVIGVGIPGLLCIIGLGCYLCG 66
           G++R  D   E + A S            GLPR A+YG++IG+GIPGLLC+IG+ C +CG
Sbjct: 207 GFKRGTDSEIESSKASS-----------HGLPRSAKYGLIIGIGIPGLLCLIGISCCICG 255

Query: 67  RFRACYQHRN-SDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTC 125
           R R   + R+ SD +   SI P   PA V  GLD PTIESYPKT+LG+S RLPKP+D TC
Sbjct: 256 RIRTYARRRHRSDTDFAISIGPL--PAVVVMGLDGPTIESYPKTVLGESMRLPKPSDGTC 313

Query: 126 PICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTP 178
           PICL EY PK+T+R+IP+CNH FH  C+DEWLK+N TCP+CRNS + SS+ TP
Sbjct: 314 PICLSEYQPKDTIRTIPECNHCFHVDCVDEWLKMNPTCPVCRNSPDASSLGTP 366

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132906|ref|XP_002321438.1| predicted protein [Populus trichocarpa] gi|222868434|gb|EEF05565.1| predicted protein [Populus trichocarpa]

 Score =  160 bits (406), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 73/136 (53%), Positives = 95/136 (69%), Gaps = 1/136 (0%)

Query: 37  LPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNSDAEL-GTSITPQLQPAFVP 95
            PR A Y I+   GIPG L ++GL C++CGR + C +  +    L     T   +   + 
Sbjct: 242 FPRSALYAIITAAGIPGALILVGLLCFICGRVKYCDRSSSESGGLPEVDSTVDTESVVII 301

Query: 96  TGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDE 155
            GLD PTIESYPK +LG+S RLPKP+D+TC ICLCEY PKETL++IP+C H FH+ CIDE
Sbjct: 302 AGLDGPTIESYPKIVLGESRRLPKPDDNTCSICLCEYKPKETLKTIPECKHCFHSDCIDE 361

Query: 156 WLKINATCPLCRNSRE 171
           WL++NA+CP+CRNS E
Sbjct: 362 WLRLNASCPICRNSPE 377

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334188355|ref|NP_200123.2| RING/U-box domain-containing protein-like protein [Arabidopsis thaliana] gi|332008921|gb|AED96304.1| RING/U-box domain-containing protein-like protein [Arabidopsis thaliana]

 Score =  157 bits (396), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 74/139 (53%), Positives = 94/139 (67%), Gaps = 2/139 (1%)

Query: 36  GLPRVARYGIVIGVGIPGLLCIIGLGCYLCGRFRACYQHRN--SDAELGTSITPQLQPAF 93
            +PR ARY I +G GIPG L + GL C++  +  +C + R      E+  +    L  + 
Sbjct: 239 AIPRRARYAIAVGAGIPGALIVFGLFCFVYSKISSCIKRRRLVPTPEINNAQAHYLHSSV 298

Query: 94  VPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICI 153
           +  GLD PTIESYPK +LG+S RLPK +D+TC ICL EY PKETLR+IP+C H FHA CI
Sbjct: 299 IVMGLDGPTIESYPKIVLGESKRLPKVDDATCAICLSEYEPKETLRTIPQCQHCFHADCI 358

Query: 154 DEWLKINATCPLCRNSREN 172
           DEWLK+N TCP+CRNS E 
Sbjct: 359 DEWLKLNGTCPVCRNSPEQ 377

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	207
TAIR|locus:2169399	159	AT5G07040 [Arabidopsis thalian	0.541	0.704	0.504	2.4e-28
TAIR|locus:2010489	299	AT1G28040 [Arabidopsis thalian	0.473	0.327	0.551	4.6e-25
TAIR|locus:2040085	377	AT2G25410 [Arabidopsis thalian	0.439	0.241	0.521	5.5e-22
TAIR|locus:2062892	214	AT2G46160 [Arabidopsis thalian	0.449	0.434	0.454	4e-19
TAIR|locus:2082762	212	AT3G61550 [Arabidopsis thalian	0.410	0.400	0.446	3.6e-18
TAIR|locus:2039170	217	AT2G35910 [Arabidopsis thalian	0.415	0.396	0.483	2e-17
TAIR|locus:2097890	349	AT3G48030 "AT3G48030" [Arabido	0.483	0.286	0.409	1.8e-15
TAIR|locus:2122378	357	AT4G09130 [Arabidopsis thalian	0.444	0.257	0.406	2.6e-15
TAIR|locus:2122348	132	AT4G09100 [Arabidopsis thalian	0.449	0.704	0.393	6.9e-15
TAIR|locus:2096309	398	ATL6 "Arabidopsis toxicos en l	0.502	0.261	0.383	8.3e-15

TAIR|locus:2169399 AT5G07040 [Arabidopsis thaliana (taxid:3702)]

 Score = 316 (116.3 bits), Expect = 2.4e-28, P = 2.4e-28
 Identities = 58/115 (50%), Positives = 78/115 (67%)

Query:    71 CYQHRNSDAELGTS-ITPQL-QPAF-VPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPI 127
             C + +++  +  TS +   L  PA  V  GLD+P IESYP+ +LGDS RLP+PN+  C I
Sbjct:    37 CIRSKSTGRDEATSDVVLDLPSPAAEVKLGLDRPVIESYPRIVLGDSRRLPRPNNGPCSI 96

Query:   128 CLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSI 182
             CLC+Y  +E +R IP+CNH FH  C+DEWL+ +ATCPLCRNS   S + TP S +
Sbjct:    97 CLCDYEAREPVRCIPECNHCFHTDCVDEWLRTSATCPLCRNSPAPSRLATPLSDL 151

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2010489 AT1G28040 [Arabidopsis thaliana (taxid:3702)]

 Score = 285 (105.4 bits), Expect = 4.6e-25, P = 4.6e-25
 Identities = 54/98 (55%), Positives = 67/98 (68%)

Query:    73 QHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEY 132
             Q R + A    + T Q +   V TGLD+ TIESY K  LG+S RLP  N   CPICL EY
Sbjct:   201 QRRQNAAITARNTTQQPRGVVVTTGLDQSTIESYKKVELGESRRLPGTNGIICPICLSEY 260

Query:   133 HPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR 170
               KET+R +P+C+H FH  CIDEWLKI+++CP+CRNSR
Sbjct:   261 ASKETVRCMPECDHCFHVQCIDEWLKIHSSCPVCRNSR 298

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2040085 AT2G25410 [Arabidopsis thaliana (taxid:3702)]

 Score = 256 (95.2 bits), Expect = 5.5e-22, P = 5.5e-22
 Identities = 48/92 (52%), Positives = 61/92 (66%)

Query:    79 AELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPK-PNDSTCPICLCEYHPKET 137
             A L  S+T Q        GLD+ TIESY K  LG+S RLP   ND  CPICL EY  KET
Sbjct:   280 ARLSGSVTSQPSNEVARIGLDESTIESYKKVELGESRRLPTGSNDVVCPICLSEYATKET 339

Query:   138 LRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
             +R +P+C H FH  CID WLK++++CP+CR++
Sbjct:   340 VRCLPECEHCFHTECIDAWLKLHSSCPVCRSN 371

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2062892 AT2G46160 [Arabidopsis thaliana (taxid:3702)]

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 45/99 (45%), Positives = 56/99 (56%)

Query:    89 LQPAFVPTGLDKPTIESYPK------TILGDSGRLPKPNDSTCPICLCEYHPKETLRSIP 142
             L+   V  GLD+  I SYPK      T    S       D+TC ICLCEY   E LR +P
Sbjct:    96 LEAGDVVVGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTCSICLCEYKEAEMLRMMP 155

Query:   143 KCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSS 181
             +C HYFH  C+D WLK+N +CP+CRNS   +   TP S+
Sbjct:   156 ECKHYFHLCCLDAWLKLNGSCPVCRNSPLPTPTSTPLST 194

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

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2082762 AT3G61550 [Arabidopsis thaliana (taxid:3702)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 42/94 (44%), Positives = 55/94 (58%)

Query:    97 GLDKPTIESYPK---------TILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHY 147
             GLD   I SYPK          + GD     +  ++TC ICLCEY  +E LR +P+C HY
Sbjct:    99 GLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGRETTCSICLCEYMEEEMLRMMPECKHY 158

Query:   148 FHAICIDEWLKINATCPLCRNSRENSSVVTPSSS 181
             FH  C+D WLK+N +CP+CRNS   +   TP S+
Sbjct:   159 FHVYCLDAWLKLNGSCPVCRNSPLPTPQSTPQST 192

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2039170 AT2G35910 [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 43/89 (48%), Positives = 55/89 (61%)

Query:    94 VPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICI 153
             VP GLD+ TI+SYPK IL    + P    S C ICL +Y  K  LR +P CNH FH  CI
Sbjct:   119 VP-GLDEDTIQSYPK-ILYSEAKGPT-TASCCAICLGDYKGKHLLRQLPDCNHLFHLKCI 175

Query:   154 DEWLKINATCPLCRNSRENSSVVTPSSSI 182
             D WL++N TCP+CR S   + + TP + +
Sbjct:   176 DTWLRLNPTCPVCRTSPLPTPLSTPLAEV 204

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2097890 AT3G48030 "AT3G48030" [Arabidopsis thaliana (taxid:3702)]

 Score = 198 (74.8 bits), Expect = 1.8e-15, P = 1.8e-15
 Identities = 43/105 (40%), Positives = 62/105 (59%)

Query:    74 HRNSDAELGTSITPQLQPAFV--PTGLDKPTIESYPKTILGD-SGRLPKPNDSTCPICLC 130
             H N + +L +  +PQLQ  F    +GLD+  I++ P  + G+ +  L +P D  C +CL 
Sbjct:   155 HFNYNPDLFSFSSPQLQHLFFLHDSGLDQTAIDALPVFLYGNVTISLEQPFD--CAVCLN 212

Query:   131 EYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV 175
             E+   + LR +P C+H FH  CID WL  N+TCPLCR S   S+V
Sbjct:   213 EFSDTDKLRLLPVCSHAFHLHCIDTWLLSNSTCPLCRRSLSTSNV 257

GO:0001666 "response to hypoxia" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 197 (74.4 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 39/96 (40%), Positives = 53/96 (55%)

Query:    94 VPTGLDKPTIESYPKTILGDSGRLPKPNDST-CPICLCEYHPKETLRSIPKCNHYFHAIC 152
             V  G+DK  IES+P  +  +       N    C ICLCE+  +E LR +P C+H FHA C
Sbjct:    88 VRRGIDKDVIESFPAFLYSEVKAFKIGNGGVECAICLCEFEDEEPLRWMPPCSHTFHANC 147

Query:   153 IDEWLKINATCPLCRNS---RENSSVVTPSSSIKRG 185
             IDEWL   +TCP+CR +   +   S   PS  ++ G
Sbjct:   148 IDEWLSSRSTCPVCRANLSLKSGDSFPHPSMDVETG 183

GO:0005576 "extracellular region" evidence=ISM

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

TAIR|locus:2122348 AT4G09100 [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 6.9e-15, P = 6.9e-15
 Identities = 37/94 (39%), Positives = 52/94 (55%)

Query:    75 RNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDS-GRLPKPNDSTCPICLCEYH 133
             RN  A  G     ++ P   P GLD   I+S+P  +  ++ G  P   +  C +CL E+ 
Sbjct:    34 RNRAAAAGDIEEARMSPRRPPRGLDAEAIKSFPSFVYTEARGIEPGIGELECVVCLNEFK 93

Query:   134 PKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
               ETLR +P C H FHA C+D WL  ++TCP+CR
Sbjct:    94 DDETLRLVPPCVHVFHADCVDIWLSHSSTCPICR 127

GO:0005576 "extracellular region" evidence=ISM

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

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

 Score = 194 (73.4 bits), Expect = 8.3e-15, P = 8.3e-15
 Identities = 43/112 (38%), Positives = 61/112 (54%)

Query:    97 GLDKPTIESYPKTILGD--SGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICID 154
             GLD   +E++P  +  D  + +L K  +  C ICL E+   ETLR +PKC+H FH  CID
Sbjct:    99 GLDVSVVETFPTFLYSDVKTQKLGK-GELECAICLNEFEDDETLRLLPKCDHVFHPHCID 157

Query:   155 EWLKINATCPLCR-NSRENSSVVTPSSSIKRGRKRPSL-INGAVLAKSPALT 204
              WL+ + TCP+CR N  E    V    S++ G   P L +   V+   P +T
Sbjct:   158 AWLEAHVTCPVCRANLAEQ---VAEGESVEPGGTEPDLELQQVVVNPEPVVT 206

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0016567 "protein ubiquitination" evidence=IDA

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

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

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

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

GO:0035556 "intracellular signal transduction" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	207
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-13
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	1e-09
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-09
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	8e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	4e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	5e-06
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	9e-06
smart00184	40	smart00184, RING, Ring finger	4e-05
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-04
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-04
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	5e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.002

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

 Score = 60.5 bits (147), Expect = 6e-13
 Identities = 23/44 (52%), Positives = 30/44 (68%), Gaps = 1/44 (2%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
            CPICL E+ P E +  +P C H FH  C+D+WL+ + TCPLCR
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 52.8 bits (127), Expect = 1e-09
 Identities = 20/56 (35%), Positives = 22/56 (39%), Gaps = 9/56 (16%)

Query: 121 NDSTCPICLCEYHPKETLRSIP---------KCNHYFHAICIDEWLKINATCPLCR 167
            D  C IC   +         P         +C H FH  CI  WLK   TCPLCR
Sbjct: 18  EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 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|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 = 51.3 bits (123), Expect = 2e-09
 Identities = 21/45 (46%), Positives = 24/45 (53%), Gaps = 4/45 (8%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCR 167
            CPICL E+        +  C H F   CID+WLK    TCPLCR
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 50.5 bits (121), Expect = 8e-08
 Identities = 20/51 (39%), Positives = 25/51 (49%), Gaps = 4/51 (7%)

Query: 122 DSTCPICLCEYHPKETLRS----IPKCNHYFHAICIDEWLKINATCPLCRN 168
           D  C IC+ + + KE        +  CNH F   CID W K   TCP+CR 
Sbjct: 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224

Length = 238

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

 Score = 42.1 bits (99), Expect = 4e-06
 Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 3/47 (6%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
            +  CPICL     ++ +   P C H F   CI  +LK  + CP+CR
Sbjct: 1   EELECPICLDL--LRDPVVLTP-CGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 43.3 bits (102), Expect = 5e-06
 Identities = 19/47 (40%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 122 DSTCPICLCEYHP-KETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
             TCP C     P  E       CNH FH  CI  WL     CPL R
Sbjct: 31  MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 45.4 bits (107), Expect = 9e-06
 Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 9/52 (17%)

Query: 125  CPICLCEYHPKETLRSIPK-----CNHYFHAICIDEWLKI--NATCPLCRNS 169
            C IC       +  RS+P      C + FH  C+ +W      + CPLCR+ 
Sbjct: 1472 CAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSE 1521

Length = 1525

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

 Score = 39.4 bits (92), Expect = 4e-05
 Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLC 166
           CPICL EY   +    +P C H F   CI +WL+  N TCP+C
Sbjct: 1   CPICLEEY--LKDPVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 41.5 bits (97), Expect = 1e-04
 Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 2/44 (4%)

Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCR 167
           C IC+  +   + LR +P C+H FH  C+D+WL   +  CP+CR
Sbjct: 326 CAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

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

 Score = 37.8 bits (88), Expect = 1e-04
 Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA-TCPLC 166
           CPICL E   K+ +  +P C H F + CI  WL+    TCPLC
Sbjct: 1   CPICLEEP--KDPVTILP-CGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 41.5 bits (97), Expect = 2e-04
 Identities = 22/58 (37%), Positives = 28/58 (48%), Gaps = 9/58 (15%)

Query: 121 NDSTCPICLCE-YHP-----KETLRSIPK---CNHYFHAICIDEWLKINATCPLCRNS 169
           +D TC IC+ E +HP        L   PK   C H  H  C+  WL+   TCP+CR  
Sbjct: 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRP 343

Length = 491

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

 Score = 37.0 bits (86), Expect = 5e-04
 Identities = 17/57 (29%), Positives = 20/57 (35%), Gaps = 15/57 (26%)

Query: 125 CPICLCEYHPKETLRSI----PKCNHYFHAICIDEWLK-----------INATCPLC 166
           C IC         +  I    PKC   FH  C+ EWL+              TCP C
Sbjct: 5   CGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYC 61

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

>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 12/62 (19%)

Query: 120 PNDSTCPICL---------CEYHPKETLRSIPKCNHYFHAICIDEWLKINAT---CPLCR 167
           P+D  C IC          C++   +      KC H FH  CI +WL    +   CP+CR
Sbjct: 19  PSDDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

Query: 168 NS 169
            +
Sbjct: 79  QT 80

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	207
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.84
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.67
PHA02929	238	N1R/p28-like protein; Provisional	99.54
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.49
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.48
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.42
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.34
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.3
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.3
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.21
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.21
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.19
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.18
PHA02926	242	zinc finger-like protein; Provisional	99.11
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.06
PF14634	44	zf-RING_5: zinc-RING finger domain	99.04
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.97
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.96
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.95
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.92
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.89
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.81
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.78
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.76
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.76
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.69
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.66
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.62
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.58
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.48
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.47
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.43
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.42
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.36
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.31
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.26
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.19
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.18
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.15
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.1
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.09
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.08
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.05
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.03
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.02
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.92
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.91
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.9
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.86
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.85
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.77
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.63
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.39
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.39
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.39
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.36
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.3
KOG3039	303	consensus Uncharacterized conserved protein [Funct	97.24
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.21
PHA02862	156	5L protein; Provisional	97.21
PHA02825	162	LAP/PHD finger-like protein; Provisional	97.18
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.17
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.08
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.98
KOG2660	331	consensus Locus-specific chromosome binding protei	96.94
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.86
COG5152	259	Uncharacterized conserved protein, contains RING a	96.82
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.72
PHA03096	284	p28-like protein; Provisional	96.65
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.62
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.54
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.49
PF04641	260	Rtf2: Rtf2 RING-finger	96.39
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.27
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.19
KOG4739	233	consensus Uncharacterized protein involved in syna	95.97
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.94
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.93
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.85
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.85
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.82
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.81
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.73
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.71
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.42
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	95.2
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.17
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	94.96
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.9
KOG1940	276	consensus Zn-finger protein [General function pred	94.82
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	94.7
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.19
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.09
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	94.02
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	93.96
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.76
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.66
KOG3053	293	consensus Uncharacterized conserved protein [Funct	93.28
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.09
KOG1609	323	consensus Protein involved in mRNA turnover and st	92.95
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	92.62
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	92.59
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	92.53
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.15
KOG3002	299	consensus Zn finger protein [General function pred	92.11
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	90.87
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	90.32
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	90.15
KOG3899	381	consensus Uncharacterized conserved protein [Funct	90.09
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	90.07
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	88.92
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	87.26
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	87.11
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	86.62
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	86.56
KOG1829	580	consensus Uncharacterized conserved protein, conta	86.53
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	85.27
PF13908	179	Shisa: Wnt and FGF inhibitory regulator	82.84
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	82.45
KOG0269	839	consensus WD40 repeat-containing protein [Function	81.77
KOG3113	293	consensus Uncharacterized conserved protein [Funct	80.61
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	80.48

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

Probab=99.84  E-value=4.5e-21  Score=163.43  Aligned_cols=115  Identities=29%  Similarity=0.550  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhccccccccccCCCCCCCCCCCCCCCCCHHHHhhCCCeecCCCCCCCCCCCCccccc
Q 044489           49 VGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPIC  128 (207)
Q Consensus        49 i~i~~~i~~i~i~~~~~~~~r~~~r~r~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~p~~~~~~~~~~~~~~~~~C~IC  128 (207)
                      ++.++.+..+...+++.++++++.+.|++               .....+.+..++++|...|.........  ..|+||
T Consensus       173 ~i~~l~v~~il~~~f~i~~~~~~~~~r~~---------------~~~~r~~k~~l~~~p~~~f~~~~~~~~~--~~CaIC  235 (348)
T KOG4628|consen  173 LISLLTVVAILVTCFFIYRIRRLIRARNR---------------LRRNRLIKRLLKKLPVRTFTKGDDEDAT--DTCAIC  235 (348)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHhH---------------hhhhhhHHHHHhhCCcEEeccccccCCC--ceEEEe
Confidence            44445555555555555554443333221               2234677889999999999876644333  699999


Q ss_pred             CccCCCCCceeecCCCCCcccHHHHHHHhhcC-CCCccccCcCCCCCCCCCCcc
Q 044489          129 LCEYHPKETLRSIPKCNHYFHAICIDEWLKIN-ATCPLCRNSRENSSVVTPSSS  181 (207)
Q Consensus       129 L~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~~~~~~~~~~~~~  181 (207)
                      ||+|+.+|++|+|| |+|.||..|||+||.++ ..||+||+++......++.++
T Consensus       236 lEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e  288 (348)
T KOG4628|consen  236 LEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSE  288 (348)
T ss_pred             ecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCCCCCCccC
Confidence            99999999999999 99999999999999655 569999999876655554444

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

Probab=99.67  E-value=2e-17  Score=101.59  Aligned_cols=44  Identities=52%  Similarity=1.251  Sum_probs=40.3

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCcccc
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR  167 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR  167 (207)
                      ++|+||+++|..++.+..++ |+|.||.+||.+|++++.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            37999999999999999998 999999999999999899999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.54  E-value=4.7e-15  Score=121.52  Aligned_cols=76  Identities=29%  Similarity=0.556  Sum_probs=58.3

Q ss_pred             CCCCHHHHhhCCCeecCCCCCCCCCCCCcccccCccCCCCC----ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489           96 TGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKE----TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus        96 ~~~~~~~i~~~p~~~~~~~~~~~~~~~~~C~ICL~~~~~~~----~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      .+..+..+.++|..............+.+|+||++++.+++    .+.+++.|+|.||.+||.+|++.+.+||+||.++.
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            45577888888887654433333445789999999987654    23455569999999999999999999999999875

>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=99.49  E-value=3.2e-14  Score=96.66  Aligned_cols=45  Identities=47%  Similarity=0.979  Sum_probs=35.8

Q ss_pred             CCcccccCccCCCC----------CceeecCCCCCcccHHHHHHHhhcCCCCcccc
Q 044489          122 DSTCPICLCEYHPK----------ETLRSIPKCNHYFHAICIDEWLKINATCPLCR  167 (207)
Q Consensus       122 ~~~C~ICL~~~~~~----------~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR  167 (207)
                      ++.|+||++++.+.          -.+...+ |||.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            55699999999332          2344455 999999999999999999999998

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

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

Probab=99.48  E-value=1.6e-14  Score=119.80  Aligned_cols=52  Identities=35%  Similarity=0.973  Sum_probs=47.5

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSREN  172 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~  172 (207)
                      ..+.+|+|||++|..+|+++++| |+|.||..|+++|+. .+..||+||.++++
T Consensus       321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            34689999999999999999999 999999999999995 77789999999865

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

Probab=99.42  E-value=2.7e-13  Score=112.04  Aligned_cols=53  Identities=36%  Similarity=0.783  Sum_probs=45.4

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      .....|.+||+...++.   -+| |||+||+.||..|...+..||+||.+..++.++
T Consensus       237 ~a~~kC~LCLe~~~~pS---aTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi  289 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPS---ATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKVI  289 (293)
T ss_pred             CCCCceEEEecCCCCCC---cCc-CcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence            34679999999876653   566 999999999999999999999999999887664

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.34  E-value=2e-12  Score=102.25  Aligned_cols=56  Identities=27%  Similarity=0.635  Sum_probs=44.6

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----------------CCCCccccCcCCCCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----------------NATCPLCRNSRENSSVVTP  178 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----------------~~~CP~CR~~~~~~~~~~~  178 (207)
                      ..++.+|+||++.+.+.   .+++ |||.||+.||.+|+..                ...||+||+++....+++.
T Consensus        15 ~~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi   86 (193)
T PLN03208         15 SGGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI   86 (193)
T ss_pred             CCCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence            34578999999988654   2455 9999999999999842                3479999999988777664

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

Probab=99.30  E-value=1.8e-12  Score=104.36  Aligned_cols=56  Identities=27%  Similarity=0.581  Sum_probs=45.3

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC---CCCccccCcCCCCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN---ATCPLCRNSRENSSVVTP  178 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~~~~~~~~~~  178 (207)
                      .....+|.||||.-+++  | ++. |||+||+.||.+||..+   +.||+||..+..+.+++.
T Consensus        44 ~~~~FdCNICLd~akdP--V-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPl  102 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP--V-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPL  102 (230)
T ss_pred             CCCceeeeeeccccCCC--E-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEee
Confidence            35679999999985444  4 343 99999999999999543   369999999999998875

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

Probab=99.30  E-value=2e-12  Score=110.00  Aligned_cols=50  Identities=38%  Similarity=0.968  Sum_probs=42.2

Q ss_pred             CCCCcccccCccCCCCC----------ceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489          120 PNDSTCPICLCEYHPKE----------TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR  170 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~----------~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~  170 (207)
                      .++..|.||+|++...+          +-..|| |||+||.+|+..|++++.+||+||.|+
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence            46789999999943333          234687 999999999999999999999999994

>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=99.21  E-value=9.9e-12  Score=78.16  Aligned_cols=46  Identities=37%  Similarity=0.902  Sum_probs=38.5

Q ss_pred             CCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      +..|.||++...   .+..+| |||. |+.+|+.+|++.+..||+||+++.
T Consensus         2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            468999999854   356777 9999 999999999999999999999875

...

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

Probab=99.21  E-value=1.2e-11  Score=74.96  Aligned_cols=44  Identities=52%  Similarity=1.215  Sum_probs=36.7

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSR  170 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~  170 (207)
                      +|+||++.+  .+.+...+ |+|.||.+|+..|++. +..||+||+++
T Consensus         1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998  34455555 9999999999999976 77899999864

>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=99.19  E-value=1.6e-11  Score=73.21  Aligned_cols=39  Identities=44%  Similarity=1.081  Sum_probs=32.4

Q ss_pred             ccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccc
Q 044489          125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLC  166 (207)
Q Consensus       125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~C  166 (207)
                      |+||++.+.+  .+..++ |||.||.+||.+|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999998765  455676 99999999999999888999998

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

Probab=99.18  E-value=1.3e-11  Score=84.95  Aligned_cols=51  Identities=35%  Similarity=0.853  Sum_probs=37.9

Q ss_pred             CCcccccCccCC--------CCCc-eeecCCCCCcccHHHHHHHhhc---CCCCccccCcCCC
Q 044489          122 DSTCPICLCEYH--------PKET-LRSIPKCNHYFHAICIDEWLKI---NATCPLCRNSREN  172 (207)
Q Consensus       122 ~~~C~ICL~~~~--------~~~~-v~~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~~~~  172 (207)
                      ++.|.||...|+        ++|. -.+...|+|.||..||.+|+++   +..||+||+++..
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            678888888875        2221 1123359999999999999964   4689999998754

>PHA02926 zinc finger-like protein; Provisional

Probab=99.11  E-value=4.8e-11  Score=95.61  Aligned_cols=52  Identities=29%  Similarity=0.735  Sum_probs=40.2

Q ss_pred             CCCCcccccCccCCCC-----CceeecCCCCCcccHHHHHHHhhcC------CCCccccCcCC
Q 044489          120 PNDSTCPICLCEYHPK-----ETLRSIPKCNHYFHAICIDEWLKIN------ATCPLCRNSRE  171 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~-----~~v~~lp~C~H~FH~~CI~~Wl~~~------~~CP~CR~~~~  171 (207)
                      +.+.+|+||+|..-+.     ....+|++|+|.||..||..|.+.+      .+||+||....
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            3568999999976322     2345677899999999999999643      46999999864

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

Probab=99.06  E-value=9.7e-11  Score=90.71  Aligned_cols=55  Identities=35%  Similarity=0.699  Sum_probs=46.0

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      ..+...|+|||+.+.....+  -.+|||+||..||..-++....||+|++.+..+..
T Consensus       128 ~~~~~~CPiCl~~~sek~~v--sTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~  182 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVPV--STKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF  182 (187)
T ss_pred             cccccCCCceecchhhcccc--ccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence            44568999999998765543  33699999999999999999999999999877654

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.04  E-value=1.9e-10  Score=70.37  Aligned_cols=44  Identities=30%  Similarity=0.798  Sum_probs=38.0

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN  168 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  168 (207)
                      +|.||+++|.+....++++ |||+|+.+|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            5999999996566677776 9999999999999867779999985

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

Probab=98.97  E-value=3.7e-10  Score=67.85  Aligned_cols=39  Identities=41%  Similarity=1.079  Sum_probs=32.8

Q ss_pred             ccccCccCCCCCceeecCCCCCcccHHHHHHHhh--cCCCCccc
Q 044489          125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK--INATCPLC  166 (207)
Q Consensus       125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~--~~~~CP~C  166 (207)
                      |+||++.+.+..  ..++ |||.||.+||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999976554  4565 999999999999997  55679998

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 ....

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

Probab=98.96  E-value=2e-10  Score=105.44  Aligned_cols=53  Identities=36%  Similarity=0.871  Sum_probs=45.7

Q ss_pred             CCCcccccCccCCCCCc--eeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489          121 NDSTCPICLCEYHPKET--LRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS  174 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~--v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~  174 (207)
                      .+..|+||+|++..++.  ...++ |+|+||..|+..|++++.+||+||..+....
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~  344 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYV  344 (543)
T ss_pred             cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhccc
Confidence            47899999999988765  66787 9999999999999999999999999554433

>smart00504 Ubox Modified RING finger domain

Probab=98.95  E-value=8.8e-10  Score=72.25  Aligned_cols=51  Identities=20%  Similarity=0.441  Sum_probs=42.7

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~  177 (207)
                      ..|+||++.+.++  + .++ |||+|++.||.+|++.+..||+|++++..+.+..
T Consensus         2 ~~Cpi~~~~~~~P--v-~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~   52 (63)
T smart00504        2 FLCPISLEVMKDP--V-ILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIP   52 (63)
T ss_pred             cCCcCCCCcCCCC--E-ECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhhcee
Confidence            4699999998765  3 456 9999999999999988889999999986655544

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

>smart00184 RING Ring finger

Probab=98.92  E-value=9.7e-10  Score=64.18  Aligned_cols=38  Identities=53%  Similarity=1.186  Sum_probs=31.9

Q ss_pred             ccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccc
Q 044489          125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLC  166 (207)
Q Consensus       125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~C  166 (207)
                      |+||++.   ......++ |+|.||..|++.|++ .+..||+|
T Consensus         1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899988   34555676 999999999999997 66789987

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)

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

Probab=98.89  E-value=9.4e-10  Score=66.58  Aligned_cols=38  Identities=39%  Similarity=0.961  Sum_probs=27.9

Q ss_pred             ccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC----CCCccc
Q 044489          125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN----ATCPLC  166 (207)
Q Consensus       125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----~~CP~C  166 (207)
                      |+||++.|.++-   .++ |||.|+..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~Pv---~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPV---SLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEE---E-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCcc---ccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999997663   455 99999999999999543    369988

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

Probab=98.81  E-value=3.8e-09  Score=71.18  Aligned_cols=30  Identities=43%  Similarity=0.896  Sum_probs=27.7

Q ss_pred             CCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          143 KCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       143 ~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      .|+|.||.+||.+||.++..||++|+++..
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            499999999999999999999999998753

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

Probab=98.78  E-value=8e-09  Score=91.09  Aligned_cols=51  Identities=29%  Similarity=0.801  Sum_probs=38.9

Q ss_pred             CCCcccccCccCCCCCc--------------eeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCC
Q 044489          121 NDSTCPICLCEYHPKET--------------LRSIPKCNHYFHAICIDEWLK-INATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~--------------v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~  172 (207)
                      ...+|+||+.+..--.+              -..+| |+|+||..|+.+|.. .+-.||+||.++++
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            35789999997532111              12356 999999999999997 55599999999865

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

Probab=98.76  E-value=1.9e-09  Score=72.05  Aligned_cols=49  Identities=39%  Similarity=0.887  Sum_probs=35.3

Q ss_pred             CCcccccCccCCC--------CC--ceeecCCCCCcccHHHHHHHhhc---CCCCccccCcCC
Q 044489          122 DSTCPICLCEYHP--------KE--TLRSIPKCNHYFHAICIDEWLKI---NATCPLCRNSRE  171 (207)
Q Consensus       122 ~~~C~ICL~~~~~--------~~--~v~~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~~~  171 (207)
                      ++.|-||...|..        +|  .+ ++-.|.|.||..||.+|+..   +.-||+||+.+.
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPL-v~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPL-VWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCcc-HHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            4578888887742        22  12 12249999999999999943   446999999874

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

Probab=98.76  E-value=2.6e-09  Score=87.72  Aligned_cols=56  Identities=29%  Similarity=0.708  Sum_probs=45.3

Q ss_pred             CCCCCcccccCccCCCCC-------ceeecCCCCCcccHHHHHHHh--hcCCCCccccCcCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKE-------TLRSIPKCNHYFHAICIDEWL--KINATCPLCRNSRENSSV  175 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~-------~v~~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~~~~~~~  175 (207)
                      ..++..|+||-..+....       ++-.|. |+|+||+.||.-|.  .++++||.||+.++.+..
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rm  285 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRM  285 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhhh
Confidence            345789999998886665       556676 99999999999996  778899999998865443

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.69  E-value=1.4e-08  Score=89.09  Aligned_cols=51  Identities=29%  Similarity=0.673  Sum_probs=42.7

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      ....|+||++.|...-   +++ |||.||..||..|+.....||+||.++....+
T Consensus        25 ~~l~C~IC~d~~~~Pv---itp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~L   75 (397)
T TIGR00599        25 TSLRCHICKDFFDVPV---LTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL   75 (397)
T ss_pred             cccCCCcCchhhhCcc---CCC-CCCchhHHHHHHHHhCCCCCCCCCCccccccC
Confidence            4679999999986552   466 99999999999999888899999999875533

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

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

Probab=98.66  E-value=2.2e-08  Score=62.56  Aligned_cols=42  Identities=31%  Similarity=0.842  Sum_probs=32.4

Q ss_pred             cccccCccCCCCCceeecCCCC-----CcccHHHHHHHhhc--CCCCcccc
Q 044489          124 TCPICLCEYHPKETLRSIPKCN-----HYFHAICIDEWLKI--NATCPLCR  167 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR  167 (207)
                      .|.||++ ...++...+.| |.     |.+|.+|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 33444555777 85     99999999999943  45899995

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

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

Probab=98.62  E-value=1.6e-08  Score=83.09  Aligned_cols=51  Identities=35%  Similarity=0.711  Sum_probs=41.4

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHH-HhhcCCC-CccccCcCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDE-WLKINAT-CPLCRNSRENSSV  175 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~-Wl~~~~~-CP~CR~~~~~~~~  175 (207)
                      .+..|+||++.....   ..++ |||+||..||.. |-+++.- ||+||+...++.+
T Consensus       214 ~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         214 ADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             cccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            478999999886544   3565 999999999999 9866665 9999999877665

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

Probab=98.58  E-value=2.6e-08  Score=88.42  Aligned_cols=54  Identities=28%  Similarity=0.645  Sum_probs=42.5

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC-----CCCccccCcCCCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN-----ATCPLCRNSRENSSVVTPS  179 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-----~~CP~CR~~~~~~~~~~~~  179 (207)
                      +..|+|||++.....    +..|||+||..||.+++...     ..||+||..+..+++.+.-
T Consensus       186 ~~~CPICL~~~~~p~----~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~  244 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPV----RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVF  244 (513)
T ss_pred             CCcCCcccCCCCccc----ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeee
Confidence            678999999865442    22499999999999988543     4799999999887776543

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

Probab=98.48  E-value=1.4e-07  Score=57.24  Aligned_cols=38  Identities=34%  Similarity=0.838  Sum_probs=22.2

Q ss_pred             ccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcC----CCCc
Q 044489          125 CPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKIN----ATCP  164 (207)
Q Consensus       125 C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~----~~CP  164 (207)
                      |+||.+ |...+ .-.+|+ |||.|+++||.++++.+    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 75544 456788 99999999999999643    3576

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

Probab=98.47  E-value=6.8e-08  Score=68.30  Aligned_cols=51  Identities=35%  Similarity=0.637  Sum_probs=38.1

Q ss_pred             CCCcccccCccC-------------CCCC-ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          121 NDSTCPICLCEY-------------HPKE-TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~-------------~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      ..+.|+||..-+             ..++ .|.-- .|+|.||..||.+||+++..||+|.+++..
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG-~CNHaFH~hCisrWlktr~vCPLdn~eW~~  109 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWG-VCNHAFHFHCISRWLKTRNVCPLDNKEWVF  109 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEee-ecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence            357899987632             1112 23333 599999999999999999999999998753

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

Probab=98.43  E-value=4.3e-08  Score=65.91  Aligned_cols=51  Identities=25%  Similarity=0.660  Sum_probs=24.2

Q ss_pred             CCcccccCccCCCCCc--eeec--CCCCCcccHHHHHHHhhc---C--------CCCccccCcCCC
Q 044489          122 DSTCPICLCEYHPKET--LRSI--PKCNHYFHAICIDEWLKI---N--------ATCPLCRNSREN  172 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~--v~~l--p~C~H~FH~~CI~~Wl~~---~--------~~CP~CR~~~~~  172 (207)
                      +.+|.||.+...+++.  ..+-  ++|++.||..||.+||..   .        ..||.|++++.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            4589999998763332  2222  269999999999999842   1        159999998753

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.42  E-value=2.3e-07  Score=78.68  Aligned_cols=53  Identities=25%  Similarity=0.606  Sum_probs=39.7

Q ss_pred             CCcccccCcc-CCCCC-ceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCC
Q 044489          122 DSTCPICLCE-YHPKE-TLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSV  175 (207)
Q Consensus       122 ~~~C~ICL~~-~~~~~-~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~  175 (207)
                      +..|++|..+ +...+ .+.+.+ |||.||..||+..+ .....||.|++++.....
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~f   58 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNF   58 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhc
Confidence            5689999996 44444 333334 99999999999976 555689999999876553

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).

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

Probab=98.36  E-value=7.2e-08  Score=90.71  Aligned_cols=52  Identities=25%  Similarity=0.735  Sum_probs=38.2

Q ss_pred             CCCCcccccCccCCCCC---ceeecCCCCCcccHHHHHHHhhc--CCCCccccCcCC
Q 044489          120 PNDSTCPICLCEYHPKE---TLRSIPKCNHYFHAICIDEWLKI--NATCPLCRNSRE  171 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~---~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~~~  171 (207)
                      .+.+||+||......-|   .-...+.|.|.||..|+.+|+++  +.+||+||.+++
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            45799999988654111   11123469999999999999954  457999998764

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

Probab=98.31  E-value=2.4e-07  Score=62.78  Aligned_cols=52  Identities=23%  Similarity=0.482  Sum_probs=38.8

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSVVT  177 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~~~~  177 (207)
                      ...|+|+.+-+.++  | +++ +||.|.+.||..|++. +.+||+|++++..+.+++
T Consensus         4 ~f~CpIt~~lM~dP--V-i~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p   56 (73)
T PF04564_consen    4 EFLCPITGELMRDP--V-ILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP   56 (73)
T ss_dssp             GGB-TTTSSB-SSE--E-EET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE
T ss_pred             ccCCcCcCcHhhCc--e-eCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE
Confidence            56899999998655  3 466 9999999999999977 889999999988765543

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 ....

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

Probab=98.26  E-value=3.6e-07  Score=78.70  Aligned_cols=55  Identities=27%  Similarity=0.733  Sum_probs=39.9

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC---CCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN---ATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~~~~~~~~  176 (207)
                      ..+|.||.+-+.....+.-.-.|||+||..|+..|+..-   ..||+||-.+....+.
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~   61 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA   61 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence            458999954444444555544599999999999999653   5799999666555554

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

Probab=98.19  E-value=6e-07  Score=74.85  Aligned_cols=45  Identities=33%  Similarity=0.825  Sum_probs=39.3

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN  168 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  168 (207)
                      .+...|+||++.|...   .+++ |+|.||..||..++.....||.||.
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence            3567999999999888   5777 9999999999999885568999993

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

Probab=98.18  E-value=4.6e-07  Score=76.92  Aligned_cols=51  Identities=27%  Similarity=0.654  Sum_probs=43.1

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      --.|-||.+-|..+-   ++| |+|.||.-||..+|..+..||.|+.++....+-
T Consensus        23 lLRC~IC~eyf~ip~---itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr   73 (442)
T KOG0287|consen   23 LLRCGICFEYFNIPM---ITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR   73 (442)
T ss_pred             HHHHhHHHHHhcCce---ecc-ccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence            457999999886652   556 999999999999999999999999998665543

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

Probab=98.15  E-value=1.5e-06  Score=75.00  Aligned_cols=51  Identities=31%  Similarity=0.833  Sum_probs=40.4

Q ss_pred             CCCCcccccCccCCCCC----ceeecCCCCCcccHHHHHHHh--hc-----CCCCccccCcC
Q 044489          120 PNDSTCPICLCEYHPKE----TLRSIPKCNHYFHAICIDEWL--KI-----NATCPLCRNSR  170 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~----~v~~lp~C~H~FH~~CI~~Wl--~~-----~~~CP~CR~~~  170 (207)
                      ..+.+|.||++...+..    ...++|+|.|.||.+||..|-  .+     .++||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            45789999999754333    245678899999999999997  44     46899999875

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

Probab=98.10  E-value=1.8e-06  Score=73.88  Aligned_cols=53  Identities=26%  Similarity=0.608  Sum_probs=41.7

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      .+..+|.|||++-   ..+.+|| |.|. .|..|-+..--+++.||+||+++...-.+
T Consensus       288 ~~gkeCVIClse~---rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i  341 (349)
T KOG4265|consen  288 ESGKECVICLSES---RDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEI  341 (349)
T ss_pred             cCCCeeEEEecCC---cceEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhhee
Confidence            4468999999984   3445898 9998 78999988666788999999998664443

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

Probab=98.09  E-value=1.8e-06  Score=75.74  Aligned_cols=50  Identities=36%  Similarity=0.927  Sum_probs=38.9

Q ss_pred             CCCCCcccccCccCCCCCc-eeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          119 KPNDSTCPICLCEYHPKET-LRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~-v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      ..+...|+||||-+...-. ++... |.|.||..|+..|.  ..+||+||--..
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence            3456789999999866553 44454 99999999999995  467999997654

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

Probab=98.08  E-value=7.4e-07  Score=55.87  Aligned_cols=46  Identities=22%  Similarity=0.522  Sum_probs=33.8

Q ss_pred             CCcccccCccCCCCCceeecCCCCCc-ccHHHHHH-HhhcCCCCccccCcCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDE-WLKINATCPLCRNSRE  171 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~-Wl~~~~~CP~CR~~~~  171 (207)
                      ..||.||.|.-.+.    ++..|||+ .|.+|-.+ |-..+..||+||+++.
T Consensus         7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            37999999875433    33349997 67888544 4457889999999874

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

Probab=98.05  E-value=2.2e-06  Score=71.43  Aligned_cols=50  Identities=30%  Similarity=0.687  Sum_probs=40.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      -..|-||-+-|...    .+..|||-||.-||...|..+..||+||.+...+.+
T Consensus        25 ~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrl   74 (391)
T COG5432          25 MLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRL   74 (391)
T ss_pred             HHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHHhhhc
Confidence            45799998776554    333499999999999999999999999998655443

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

Probab=98.03  E-value=1.3e-06  Score=56.91  Aligned_cols=48  Identities=23%  Similarity=0.598  Sum_probs=23.6

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      -.|++|.+-+..+-  . +..|.|+|+..||..-+..  .||+|+.|....++
T Consensus         8 LrCs~C~~~l~~pv--~-l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~   55 (65)
T PF14835_consen    8 LRCSICFDILKEPV--C-LGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDI   55 (65)
T ss_dssp             TS-SSS-S--SS-B------SSS--B-TTTGGGGTTT--B-SSS--B-S-SS-
T ss_pred             cCCcHHHHHhcCCc--e-eccCccHHHHHHhHHhcCC--CCCCcCChHHHHHH
Confidence            46999998876553  2 3369999999999886553  49999998755443

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

Probab=98.02  E-value=1.8e-06  Score=80.20  Aligned_cols=52  Identities=23%  Similarity=0.556  Sum_probs=41.5

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~~~  177 (207)
                      --.|+.|-+-+.+.    ++++|+|+||..||..-+ .+++.||.|.+++...++.+
T Consensus       643 ~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~  695 (698)
T KOG0978|consen  643 LLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR  695 (698)
T ss_pred             ceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence            45799998665433    344699999999999999 67889999999998777653

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

Probab=97.92  E-value=1.1e-06  Score=74.93  Aligned_cols=53  Identities=30%  Similarity=0.552  Sum_probs=41.6

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVV  176 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~~  176 (207)
                      .+..|+|||+-+...-   ..+.|.|.||.+||..=+ ..+++||.||+.+..+-.+
T Consensus        42 ~~v~c~icl~llk~tm---ttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL   95 (381)
T KOG0311|consen   42 IQVICPICLSLLKKTM---TTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL   95 (381)
T ss_pred             hhhccHHHHHHHHhhc---ccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence            4678999999875543   444799999999999988 5677999999998544433

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

Probab=97.91  E-value=1.6e-06  Score=80.49  Aligned_cols=56  Identities=25%  Similarity=0.560  Sum_probs=46.0

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~  177 (207)
                      ....|++||..+.++.....-+ |+|.||..||+.|-+.-.+||+||..+..-.+..
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~e  177 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLE  177 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeeeec
Confidence            3577899998887776655565 9999999999999999999999999986554443

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

Probab=97.90  E-value=7.2e-06  Score=71.15  Aligned_cols=47  Identities=28%  Similarity=0.753  Sum_probs=38.5

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh--cCCCCccccCcCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK--INATCPLCRNSREN  172 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~--~~~~CP~CR~~~~~  172 (207)
                      -+.|.||-|.   +..|++.| |||..|..|+..|-.  ...+||.||.++..
T Consensus       369 FeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  369 FELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            4679999764   45688888 999999999999973  36789999998743

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

Probab=97.86  E-value=8.8e-06  Score=68.24  Aligned_cols=57  Identities=28%  Similarity=0.487  Sum_probs=44.0

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCCCCCCCCCcc
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSRENSSVVTPSSS  181 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~~~~~~~~~~  181 (207)
                      ...+|+||+..-..+   ..++ |+|.||.-||.-=.+ ...+|++||.+++..-...++..
T Consensus         6 ~~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~psl~   63 (324)
T KOG0824|consen    6 KKKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEPSLK   63 (324)
T ss_pred             cCCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchhcchhhh
Confidence            467999999886554   3566 999999999987764 45579999999987766665443

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

Probab=97.85  E-value=1e-05  Score=70.36  Aligned_cols=54  Identities=35%  Similarity=0.850  Sum_probs=39.9

Q ss_pred             CCCcccccCccCCCCCcee-ecCCCCCcccHHHHHHHhh--cCCCCccccCcCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLR-SIPKCNHYFHAICIDEWLK--INATCPLCRNSRENSS  174 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~-~lp~C~H~FH~~CI~~Wl~--~~~~CP~CR~~~~~~~  174 (207)
                      ....|+|||+.+...-+.+ +.+.|||.|-.+||++||.  ....||.|..+-....
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~   59 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ   59 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence            3568999999987655333 3335999999999999993  3346999987754443

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

Probab=97.77  E-value=7.6e-06  Score=68.55  Aligned_cols=50  Identities=30%  Similarity=0.845  Sum_probs=42.6

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-----------------------CCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-----------------------NATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-----------------------~~~CP~CR~~~~  171 (207)
                      ....|.|||--|.+++...+++ |.|.||..|+.+.|..                       +..||+||..+.
T Consensus       114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            4578999999999999888898 9999999999888631                       236999999874

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

Probab=97.63  E-value=6.3e-05  Score=60.76  Aligned_cols=48  Identities=27%  Similarity=0.634  Sum_probs=40.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--------CCCCccccCcCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--------NATCPLCRNSRE  171 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~~~~  171 (207)
                      ...|..|-..+..+|.+|..  |-|+||++|+++|-..        ...||.|..++-
T Consensus        50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            56799999999999999854  9999999999999632        337999999984

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

Probab=97.39  E-value=0.0001  Score=72.64  Aligned_cols=56  Identities=27%  Similarity=0.638  Sum_probs=43.8

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC----------CCCccccCcCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN----------ATCPLCRNSRENSSV  175 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----------~~CP~CR~~~~~~~~  175 (207)
                      ...++.|.||+.+-........|- |+|+||..|...-|+++          .+||+|+.++.+..+
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~L 3548 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVL 3548 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHH
Confidence            455789999998877777777786 99999999997655432          279999999876543

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

Probab=97.39  E-value=9.9e-05  Score=65.39  Aligned_cols=55  Identities=27%  Similarity=0.610  Sum_probs=45.6

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~  177 (207)
                      ..+..|++|...+.++-..  . .|||.||..|+..|+..+..||.|+..+.....+.
T Consensus        19 ~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP   73 (391)
T ss_pred             cccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhccC
Confidence            3567899999998777432  3 49999999999999988999999999987666654

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

Probab=97.39  E-value=5.4e-05  Score=65.68  Aligned_cols=48  Identities=38%  Similarity=0.827  Sum_probs=38.7

Q ss_pred             CCcccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcC--CCCccccCcC
Q 044489          122 DSTCPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKIN--ATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~~  170 (207)
                      +--|-.|-+.+...+ .+.-|| |.|+||..|+.+.|.++  .+||-||+-.
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crklr  415 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLR  415 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            567999998876555 577788 99999999999999544  4899999543

>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=97.36  E-value=6.6e-05  Score=56.19  Aligned_cols=35  Identities=20%  Similarity=0.474  Sum_probs=29.6

Q ss_pred             CCcccccCccCCCCCceeecCCCC------CcccHHHHHHHh
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCN------HYFHAICIDEWL  157 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~------H~FH~~CI~~Wl  157 (207)
                      ..||+||++...+.+-+..++ ||      |+||.+|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence            579999999998855666666 76      999999999994

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

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

Probab=97.30  E-value=0.00012  Score=47.10  Aligned_cols=42  Identities=29%  Similarity=0.644  Sum_probs=27.3

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--CCCCcc
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPL  165 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~  165 (207)
                      -...|+|.+..|+++  |+-. .|+|.|-++.|.+|+++  ...||+
T Consensus        10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            357899999998755  5444 49999999999999943  446998

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.24  E-value=0.00026  Score=57.97  Aligned_cols=61  Identities=8%  Similarity=0.232  Sum_probs=55.0

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCCccc
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSI  182 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~~~~  182 (207)
                      .+.|++|.+.+.+...+..|.+|||+|+.+|+++..+....||+|-+++.+.+++....+.
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrGG  281 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRGG  281 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeeccc
Confidence            4789999999999998888888999999999999999999999999999999998765544

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

Probab=97.21  E-value=0.00027  Score=66.63  Aligned_cols=50  Identities=28%  Similarity=0.674  Sum_probs=40.6

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-------CCCCccccCc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-------NATCPLCRNS  169 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-------~~~CP~CR~~  169 (207)
                      ....+|.||.+.+...+.+.--..|-|+||..||.+|-++       .-.||.|...
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            3468999999999888877766679999999999999743       2269999843

>PHA02862 5L protein; Provisional

Probab=97.21  E-value=0.00022  Score=53.86  Aligned_cols=52  Identities=19%  Similarity=0.461  Sum_probs=37.9

Q ss_pred             CCcccccCccCCCCCceeecCCCC-----CcccHHHHHHHhh--cCCCCccccCcCCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCN-----HYFHAICIDEWLK--INATCPLCRNSRENSSVVTP  178 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~CR~~~~~~~~~~~  178 (207)
                      ...|-||+++-++  .+  -| |.     ...|++|+.+|++  ++..||+|+.+..-+....|
T Consensus         2 ~diCWIC~~~~~e--~~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~yKp   60 (156)
T PHA02862          2 SDICWICNDVCDE--RN--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKTYVS   60 (156)
T ss_pred             CCEEEEecCcCCC--Cc--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEcccc
Confidence            3579999998432  22  34 54     6789999999994  44579999999866555544

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=97.18  E-value=0.00037  Score=53.53  Aligned_cols=55  Identities=25%  Similarity=0.582  Sum_probs=38.4

Q ss_pred             CCCCcccccCccCCCCCceeecC-CCCC---cccHHHHHHHhh--cCCCCccccCcCCCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIP-KCNH---YFHAICIDEWLK--INATCPLCRNSRENSSVVTP  178 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp-~C~H---~FH~~CI~~Wl~--~~~~CP~CR~~~~~~~~~~~  178 (207)
                      ..+.+|-||.++-.  +..  .| .|..   ..|.+|+.+|+.  +..+|++|+++........|
T Consensus         6 ~~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~kp   66 (162)
T PHA02825          6 LMDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKNYKK   66 (162)
T ss_pred             CCCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEecCC
Confidence            45679999998843  222  34 2444   569999999994  34579999999865544433

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

Probab=97.17  E-value=0.00022  Score=63.02  Aligned_cols=49  Identities=31%  Similarity=0.706  Sum_probs=41.2

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      ..+.+|.||..-+.+.-   .+| |||.||..||++-+.....||.||.++..
T Consensus        82 ~sef~c~vc~~~l~~pv---~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPV---VTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCc---ccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            45789999988876553   456 99999999999988888899999999865

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

Probab=97.08  E-value=0.00038  Score=42.93  Aligned_cols=40  Identities=38%  Similarity=1.006  Sum_probs=26.9

Q ss_pred             ccccCccCCCCCceeecCCCC-----CcccHHHHHHHhh--cCCCCccc
Q 044489          125 CPICLCEYHPKETLRSIPKCN-----HYFHAICIDEWLK--INATCPLC  166 (207)
Q Consensus       125 C~ICL~~~~~~~~v~~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~C  166 (207)
                      |-||+++-...+.+ +.| |+     ...|.+|+.+|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~~l-i~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPL-ISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-E-E-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCce-ecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            77999987666533 455 54     4789999999994  45679987

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

Probab=96.98  E-value=0.0014  Score=55.79  Aligned_cols=55  Identities=22%  Similarity=0.461  Sum_probs=41.6

Q ss_pred             CCCCCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          114 SGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       114 ~~~~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      +..........|++|+..-.++..+-   .-|-+||..||...+..++.||+=..|..
T Consensus       292 e~e~l~~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~  346 (357)
T KOG0826|consen  292 ESELLPPDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYPAS  346 (357)
T ss_pred             ccccCCCccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence            33333445689999998876664332   26999999999999999999998766654

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

Probab=96.94  E-value=0.00018  Score=61.25  Aligned_cols=51  Identities=25%  Similarity=0.519  Sum_probs=43.0

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS  174 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~  174 (207)
                      ....|.+|-.-|.+...+.   .|-|.||+.||.+.|.....||+|...+-...
T Consensus        14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH   64 (331)
T ss_pred             cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence            4678999998887776554   59999999999999999999999998875543

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

Probab=96.86  E-value=0.00036  Score=53.70  Aligned_cols=30  Identities=27%  Similarity=0.729  Sum_probs=27.3

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccH
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHA  150 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~  150 (207)
                      ....||.||||+++.++++..|| |--+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            34679999999999999999999 9999996

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

Probab=96.82  E-value=0.00048  Score=54.72  Aligned_cols=45  Identities=22%  Similarity=0.569  Sum_probs=38.1

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~  170 (207)
                      ...|.||-.+|+.+-   ++ +|||.||..|...-.+....|-+|-+.-
T Consensus       196 PF~C~iCKkdy~spv---vt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         196 PFLCGICKKDYESPV---VT-ECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             ceeehhchhhccchh---hh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence            458999999997763   23 5999999999999889999999998764

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

Probab=96.72  E-value=0.0018  Score=39.98  Aligned_cols=45  Identities=24%  Similarity=0.662  Sum_probs=22.7

Q ss_pred             ccccCccCCCCC-ceeecCCCCCcccHHHHHHHhh-cCCCCccccCcC
Q 044489          125 CPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSR  170 (207)
Q Consensus       125 C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~  170 (207)
                      |++|.+++...+ ...-- +|++..+..|...-++ .+..||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999985444 33333 4899999999888775 577999999875

>PHA03096 p28-like protein; Provisional

Probab=96.65  E-value=0.00093  Score=56.62  Aligned_cols=47  Identities=28%  Similarity=0.543  Sum_probs=34.2

Q ss_pred             CcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhc---CCCCccccCc
Q 044489          123 STCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKI---NATCPLCRNS  169 (207)
Q Consensus       123 ~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~  169 (207)
                      -+|.||++.....    ..-..|++|.|.|+..||..|-..   ...||.||.-
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~  232 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL  232 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence            5899999965432    245578899999999999999732   2346666554

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

Probab=96.62  E-value=0.0031  Score=52.56  Aligned_cols=51  Identities=29%  Similarity=0.546  Sum_probs=38.2

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--CCCCccccCcCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPLCRNSREN  172 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~~~~  172 (207)
                      .+.+.+|++|-+.-..+..  .. +|+|+||.-||..=+..  ..+||.|-.++.+
T Consensus       236 ~t~~~~C~~Cg~~PtiP~~--~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPHV--IG-KCGHIYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             ccCCceeeccCCCCCCCee--ec-cccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence            3457899999887544432  34 49999999999886643  4689999888753

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

Probab=96.54  E-value=0.0011  Score=57.93  Aligned_cols=48  Identities=25%  Similarity=0.607  Sum_probs=37.7

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--------CCCCccccC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--------NATCPLCRN  168 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~  168 (207)
                      ....+|.||+++..-.+....+| |+|+||+.|+...+..        .-.||-++-
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            34679999999987667888888 9999999999999742        125876554

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

Probab=96.49  E-value=0.0012  Score=47.28  Aligned_cols=32  Identities=25%  Similarity=0.648  Sum_probs=26.4

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHH
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICID  154 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~  154 (207)
                      ++..|++|-..+.. ....+.| |||+||..|+.
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            46789999999877 4566777 99999999975

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

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.39  E-value=0.0045  Score=51.94  Aligned_cols=60  Identities=18%  Similarity=0.449  Sum_probs=47.8

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPS  179 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~  179 (207)
                      ......|+|...+|........+-+|||+|-.++|.+- .....||+|-+++...++++..
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~DiI~Ln  169 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEEDIIPLN  169 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCCEEEec
Confidence            45578999999999665555555459999999999996 3356799999999988888643

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

Probab=96.27  E-value=0.0022  Score=57.98  Aligned_cols=53  Identities=25%  Similarity=0.567  Sum_probs=39.3

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-----cCCCCccccCcCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-----INATCPLCRNSRENSSV  175 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~~~~~~~  175 (207)
                      ..++.+|.+|-++-++.-   .. .|.|.||.-||.++..     .+-+||.|...+.-+..
T Consensus       533 nk~~~~C~lc~d~aed~i---~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls  590 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDYI---ES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS  590 (791)
T ss_pred             ccCceeecccCChhhhhH---hh-hhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence            445789999998754432   23 4999999999988863     24589999998876533

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

Probab=96.19  E-value=0.0021  Score=54.06  Aligned_cols=47  Identities=23%  Similarity=0.556  Sum_probs=39.2

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      ...|-||...|..+-    ..+|+|.||..|-..=++....|++|-+....
T Consensus       241 Pf~c~icr~~f~~pV----vt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPV----VTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             Cccccccccccccch----hhcCCceeehhhhccccccCCcceeccccccc
Confidence            356999999998763    22599999999999988999999999987643

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

Probab=95.97  E-value=0.0026  Score=52.08  Aligned_cols=44  Identities=25%  Similarity=0.623  Sum_probs=32.2

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      .|-.|.-- ..++....+. |+|+||..|...-  ....||+||+++-
T Consensus         5 hCn~C~~~-~~~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir   48 (233)
T KOG4739|consen    5 HCNKCFRF-PSQDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIR   48 (233)
T ss_pred             Eecccccc-CCCCceeeee-chhhhhhhhcccC--Cccccccccceee
Confidence            46767643 3477787776 9999999997642  2238999999863

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

Probab=95.94  E-value=0.013  Score=50.44  Aligned_cols=50  Identities=28%  Similarity=0.631  Sum_probs=38.4

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHH--hhcCCCCccccCcCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW--LKINATCPLCRNSREN  172 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~W--l~~~~~CP~CR~~~~~  172 (207)
                      +++...|.||-+..   ..+..+| |+|..|--|-.+-  |-.++.||+||.+...
T Consensus        58 DEen~~C~ICA~~~---TYs~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~  109 (493)
T COG5236          58 DEENMNCQICAGST---TYSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEA  109 (493)
T ss_pred             ccccceeEEecCCc---eEEEecc-CCchHHHHHHHHHHHHHhccCCCccccccce
Confidence            45567899998764   3556788 9999999997654  3467799999998754

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

Probab=95.93  E-value=0.0055  Score=52.92  Aligned_cols=44  Identities=30%  Similarity=0.604  Sum_probs=32.0

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      ....|.||+++..+   ...+| |||+-+  |..-- +....||+||+.+.
T Consensus       304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            45789999999766   34566 999966  65542 33456999999763

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.85  E-value=0.0042  Score=39.28  Aligned_cols=47  Identities=21%  Similarity=0.526  Sum_probs=33.3

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS  174 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~  174 (207)
                      ...|-.|...   +.+-.++| |+|+.+..|.+-  .+-+.||+|-+++...+
T Consensus         7 ~~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~--~rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    7 EQPCVFCGFV---GTKGTVLP-CGHLICDNCFPG--ERYNGCPFCGTPFEFDD   53 (55)
T ss_pred             ceeEEEcccc---cccccccc-ccceeeccccCh--hhccCCCCCCCcccCCC
Confidence            4456666543   23334677 999999999764  56678999999987654

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

Probab=95.85  E-value=0.0092  Score=51.50  Aligned_cols=52  Identities=29%  Similarity=0.597  Sum_probs=42.1

Q ss_pred             CCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          117 LPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       117 ~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      .+..++..|+||...   +-.....| |+|.=|..||.+-+...+.|=.|+..+..
T Consensus       417 lp~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  417 LPDSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CCCcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            345678899999754   23344566 99999999999999999999999998764

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

Probab=95.82  E-value=0.0069  Score=36.57  Aligned_cols=41  Identities=22%  Similarity=0.613  Sum_probs=23.2

Q ss_pred             ccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC--CCccc
Q 044489          125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA--TCPLC  166 (207)
Q Consensus       125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~--~CP~C  166 (207)
                      |.+|-+-...+...... .|+=.+|..|+..+++.+.  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            66777776666544322 4888999999999996655  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.81  E-value=0.0061  Score=51.80  Aligned_cols=48  Identities=29%  Similarity=0.697  Sum_probs=38.4

Q ss_pred             CCcccccCccCCCCCc---eeecCCCCCcccHHHHHHHhh-cCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKET---LRSIPKCNHYFHAICIDEWLK-INATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~---v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~  170 (207)
                      ..+|-||-++|...+.   -+.| +|||.|+..|+.+-+. ....||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            3579999999988753   3445 4999999999998774 445799999985

>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=95.73  E-value=0.0058  Score=37.35  Aligned_cols=43  Identities=26%  Similarity=0.754  Sum_probs=25.8

Q ss_pred             cccccCccCCCCCceeecCCCC-CcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          124 TCPICLCEYHPKETLRSIPKCN-HYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      .|.-|+  |++..-+.    |. |..+..|+..-|.+...||+|..+++.
T Consensus         4 nCKsCW--f~~k~Li~----C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen    4 NCKSCW--FANKGLIK----CSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             ---SS---S--SSEEE-----SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             cChhhh--hcCCCeee----ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            466676  44444343    75 999999999999999999999998864

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.

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

Probab=95.71  E-value=0.00053  Score=59.54  Aligned_cols=54  Identities=20%  Similarity=0.513  Sum_probs=45.0

Q ss_pred             CCcccccCccCCCC-CceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPK-ETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~-~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      ...|+||.+.+... +++..+- |||.+|.+||.+||.....||.|+++++.....
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e  250 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNGFE  250 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhhHH
Confidence            56899999988766 5666665 999999999999998888999999998765443

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

Probab=95.42  E-value=0.0069  Score=57.50  Aligned_cols=43  Identities=23%  Similarity=0.571  Sum_probs=32.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~  170 (207)
                      ...|..|-..++-+-.  .- .|||.||.+|++   .....||-|+.+.
T Consensus       840 ~skCs~C~~~LdlP~V--hF-~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  840 VSKCSACEGTLDLPFV--HF-LCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeecccCCcccccee--ee-ecccHHHHHhhc---cCcccCCccchhh
Confidence            3689999877755532  22 399999999999   5566899999843

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

Probab=95.20  E-value=0.018  Score=50.32  Aligned_cols=32  Identities=25%  Similarity=0.690  Sum_probs=23.6

Q ss_pred             CCCcccHHHHHHHhhc-------------CCCCccccCcCCCCCC
Q 044489          144 CNHYFHAICIDEWLKI-------------NATCPLCRNSRENSSV  175 (207)
Q Consensus       144 C~H~FH~~CI~~Wl~~-------------~~~CP~CR~~~~~~~~  175 (207)
                      |.-++|.+|+-+|+.+             +-.||+||+.....++
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV  355 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV  355 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence            4566789999999832             2279999999765543

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

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

Probab=95.17  E-value=0.013  Score=45.97  Aligned_cols=30  Identities=33%  Similarity=0.997  Sum_probs=24.4

Q ss_pred             CCCCcccHHHHHHHhhc-----C------CCCccccCcCCC
Q 044489          143 KCNHYFHAICIDEWLKI-----N------ATCPLCRNSREN  172 (207)
Q Consensus       143 ~C~H~FH~~CI~~Wl~~-----~------~~CP~CR~~~~~  172 (207)
                      .||.-||.-|+..||+.     +      ..||.|..|+..
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            49999999999999953     1      169999998753

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=94.96  E-value=0.036  Score=35.02  Aligned_cols=45  Identities=20%  Similarity=0.650  Sum_probs=35.6

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCcc--ccCc
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPL--CRNS  169 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~--CR~~  169 (207)
                      ....|.+|-+.|.+++.+.+-|.|+-.+|.+|-+.    ...|-.  |.++
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~   50 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG   50 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence            45689999999999999999999999999999554    445544  5443

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

Probab=94.90  E-value=0.019  Score=48.62  Aligned_cols=43  Identities=33%  Similarity=0.780  Sum_probs=34.2

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccC
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRN  168 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~  168 (207)
                      ..|+.|-.-..+.-   .++.|+|.||.+||..=| .....||.|.+
T Consensus       275 LkCplc~~Llrnp~---kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPM---KTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcc---cCccccchHHHHHHhhhhhhccccCCCccc
Confidence            57999877665543   235799999999998776 77889999976

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

Probab=94.82  E-value=0.013  Score=49.38  Aligned_cols=50  Identities=28%  Similarity=0.688  Sum_probs=39.6

Q ss_pred             CCCcccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          121 NDSTCPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      ....|+||.+.+-... .+..++ |||.-|..|+......+.+||+|.+ +.+
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d  207 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGD  207 (276)
T ss_pred             ccCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHH
Confidence            3455999999766665 455666 9999999999999877799999999 433

>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=94.70  E-value=0.021  Score=43.93  Aligned_cols=56  Identities=38%  Similarity=0.820  Sum_probs=36.0

Q ss_pred             CCcccccCccCCCCCceeecC-----------CCC-CcccHHHHHHHhhc------------------------------
Q 044489          122 DSTCPICLCEYHPKETLRSIP-----------KCN-HYFHAICIDEWLKI------------------------------  159 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp-----------~C~-H~FH~~CI~~Wl~~------------------------------  159 (207)
                      +..|+||||---+.   ..|.           -|+ -.-|..|++++-+.                              
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            56899999863222   2232           033 22489999998531                              


Q ss_pred             -CCCCccccCcCCCCCCCCCCc
Q 044489          160 -NATCPLCRNSRENSSVVTPSS  180 (207)
Q Consensus       160 -~~~CP~CR~~~~~~~~~~~~~  180 (207)
                       +..||+||-++..=.++.+..
T Consensus        79 ~~L~CPLCRG~V~GWtvve~AR  100 (162)
T PF07800_consen   79 PELACPLCRGEVKGWTVVEPAR  100 (162)
T ss_pred             ccccCccccCceeceEEchHHH
Confidence             226999999997777766533

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.19  E-value=0.04  Score=47.41  Aligned_cols=55  Identities=22%  Similarity=0.651  Sum_probs=40.0

Q ss_pred             CCCcccccCccCCCCCc-eeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKET-LRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVV  176 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~-v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~~  176 (207)
                      +++-|+.|++++...|+ ..-.| ||-..|.-|...-- .-+..||-||+...+..+-
T Consensus        13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~   69 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR   69 (480)
T ss_pred             ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence            45569999999988874 44455 99888888855433 2356899999998766554

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

Probab=94.09  E-value=0.014  Score=55.10  Aligned_cols=50  Identities=30%  Similarity=0.680  Sum_probs=38.5

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--CCCCccccCcCCCCCCCC
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPLCRNSRENSSVVT  177 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~~~~~~~~~  177 (207)
                      ..|.||++    .+.....+ |+|.||.+|+..-+..  ...||.||..+..+.+..
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s  506 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS  506 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence            79999998    34444565 9999999999888733  336999999987666654

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

Probab=94.02  E-value=0.024  Score=48.18  Aligned_cols=43  Identities=30%  Similarity=0.705  Sum_probs=31.2

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR  170 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~  170 (207)
                      --|--|  +|-..-.-|+.| |.|+||.+|-..  ...+.||.|--.+
T Consensus        91 HfCd~C--d~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRC--DFPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             Eeeccc--CCcceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            346666  344445667888 999999999654  5567999997665

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

Probab=93.96  E-value=0.057  Score=51.35  Aligned_cols=59  Identities=24%  Similarity=0.578  Sum_probs=44.0

Q ss_pred             CCCCcccccCccCCCCCceeecCCCC---CcccHHHHHHHhh--cCCCCccccCcCCCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCN---HYFHAICIDEWLK--INATCPLCRNSRENSSVVTP  178 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~---H~FH~~CI~~Wl~--~~~~CP~CR~~~~~~~~~~~  178 (207)
                      .++..|.||..+=..++.+-.-.+|.   ...|++|+.+|+.  ....|-+|+.++.-+.+..+
T Consensus        10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e   73 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKE   73 (1175)
T ss_pred             ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeeccc
Confidence            34589999999877777654322343   5689999999995  34579999999987777654

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

Probab=93.76  E-value=0.012  Score=49.51  Aligned_cols=41  Identities=24%  Similarity=0.573  Sum_probs=28.8

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcc-cHHHHHHHhhcCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYF-HAICIDEWLKINATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~F-H~~CI~~Wl~~~~~CP~CR~~~  170 (207)
                      ...|+||++.-   -....|+ |||.. |.+|-.    +-..||+||+.+
T Consensus       300 ~~LC~ICmDaP---~DCvfLe-CGHmVtCt~CGk----rm~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAP---RDCVFLE-CGHMVTCTKCGK----RMNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCC---cceEEee-cCcEEeehhhcc----ccccCchHHHHH
Confidence            67899999863   3455676 99974 455532    234899999875

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

Probab=93.66  E-value=0.032  Score=53.38  Aligned_cols=35  Identities=26%  Similarity=0.567  Sum_probs=27.1

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL  157 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl  157 (207)
                      .++.|.+|.-.+... ...+-| |||.||++||.+-.
T Consensus       816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            467999998877555 444566 99999999998764

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.28  E-value=0.037  Score=45.87  Aligned_cols=51  Identities=22%  Similarity=0.655  Sum_probs=35.1

Q ss_pred             CCCCcccccCccCCCCCce-eecCCCC-----CcccHHHHHHHhhc-CC-------CCccccCcCC
Q 044489          120 PNDSTCPICLCEYHPKETL-RSIPKCN-----HYFHAICIDEWLKI-NA-------TCPLCRNSRE  171 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v-~~lp~C~-----H~FH~~CI~~Wl~~-~~-------~CP~CR~~~~  171 (207)
                      +.+..|-||+..=++...- -+-| |.     |=.|..|+..|+.. +.       +||.|+.+..
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            4567899999864333221 2444 63     78999999999922 11       6999999864

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

Probab=93.09  E-value=0.021  Score=56.56  Aligned_cols=45  Identities=27%  Similarity=0.672  Sum_probs=37.6

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCc
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS  169 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  169 (207)
                      ...|.||++......-+.   .|||.++..|+..|+..+..||+|+..
T Consensus      1153 ~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             ccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhh
Confidence            458999999887444333   399999999999999999999999854

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

Probab=92.95  E-value=0.068  Score=45.49  Aligned_cols=51  Identities=31%  Similarity=0.713  Sum_probs=37.7

Q ss_pred             CCcccccCccCCCCCc-eeecCCCC-----CcccHHHHHHHhh--cCCCCccccCcCCCC
Q 044489          122 DSTCPICLCEYHPKET-LRSIPKCN-----HYFHAICIDEWLK--INATCPLCRNSRENS  173 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~-v~~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~CR~~~~~~  173 (207)
                      +..|-||.++...... ....| |.     +..|..|++.|+.  .+..|.+|.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            5789999997654432 23444 54     7789999999995  566899999976554

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

Probab=92.62  E-value=0.031  Score=51.80  Aligned_cols=44  Identities=25%  Similarity=0.536  Sum_probs=33.2

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCc
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS  169 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  169 (207)
                      ..|.||+..|......-+.+.|||..|..|+..  ..+.+|| |+.+
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~--lyn~scp-~~~D   55 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQL--LYNASCP-TKRD   55 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHh--HhhccCC-CCcc
Confidence            579999998877663333334999999999986  5677899 6654

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

Probab=92.59  E-value=0.27  Score=28.64  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=19.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHhh
Q 044489           44 GIVIGVGIPGLLCIIGLGCYLCGR   67 (207)
Q Consensus        44 ~iil~i~i~~~i~~i~i~~~~~~~   67 (207)
                      +|+.++.+.+++.+++++++.|++
T Consensus         7 aIIv~V~vg~~iiii~~~~YaCcy   30 (38)
T PF02439_consen    7 AIIVAVVVGMAIIIICMFYYACCY   30 (38)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            477888888888888888888875

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

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

Probab=92.53  E-value=0.52  Score=41.48  Aligned_cols=49  Identities=16%  Similarity=0.367  Sum_probs=39.7

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC---CCccccCcC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA---TCPLCRNSR  170 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~---~CP~CR~~~  170 (207)
                      ....|+|=.++-.+.+.-..|. |||+..++-|.+--+...   .||.|=.+-
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e~  384 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVEQ  384 (394)
T ss_pred             ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence            4678999888887778777887 999999999999775443   699995543

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

Probab=92.15  E-value=0.14  Score=43.27  Aligned_cols=51  Identities=25%  Similarity=0.565  Sum_probs=37.0

Q ss_pred             cccccCcc-CCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCC
Q 044489          124 TCPICLCE-YHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSS  174 (207)
Q Consensus       124 ~C~ICL~~-~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~  174 (207)
                      .|++|-.+ |.+++-+.+...|+|..|.+|++.-+ .....||.|-+.+-...
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n   54 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN   54 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence            58888874 45555333333599999999999998 45568999988765443

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

Probab=92.11  E-value=0.098  Score=44.78  Aligned_cols=45  Identities=29%  Similarity=0.702  Sum_probs=35.0

Q ss_pred             CCCCcccccCccCCCCCceeecCCC--CCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKC--NHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C--~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      ..-.+|+||.+.+..+    +.. |  ||+-|.+|=.   +....||.||.++.+
T Consensus        46 ~~lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             hhhccCchhhccCccc----cee-cCCCcEehhhhhh---hhcccCCcccccccc
Confidence            3568999999998777    343 7  5999988854   457789999999863

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

Probab=90.87  E-value=0.12  Score=48.79  Aligned_cols=23  Identities=35%  Similarity=0.963  Sum_probs=21.3

Q ss_pred             CCCCcccHHHHHHHhhcCCCCcc
Q 044489          143 KCNHYFHAICIDEWLKINATCPL  165 (207)
Q Consensus       143 ~C~H~FH~~CI~~Wl~~~~~CP~  165 (207)
                      .|+|+-|.+|...|++.+.+||.
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            49999999999999999999985

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

Probab=90.32  E-value=0.13  Score=45.64  Aligned_cols=37  Identities=24%  Similarity=0.653  Sum_probs=28.1

Q ss_pred             CCCcccccCccCCCC-CceeecCCCCCcccHHHHHHHhh
Q 044489          121 NDSTCPICLCEYHPK-ETLRSIPKCNHYFHAICIDEWLK  158 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~-~~v~~lp~C~H~FH~~CI~~Wl~  158 (207)
                      ...+|.||..+.... +...+. .|+|.||.+|+.+.++
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhh
Confidence            467999999555444 444444 5999999999998875

>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=90.15  E-value=0.13  Score=42.34  Aligned_cols=50  Identities=26%  Similarity=0.698  Sum_probs=37.8

Q ss_pred             CCCcccccCcc-CCCCC-ceeecCCCCCcccHHHHHHHhhcCC-CCc--cccCcC
Q 044489          121 NDSTCPICLCE-YHPKE-TLRSIPKCNHYFHAICIDEWLKINA-TCP--LCRNSR  170 (207)
Q Consensus       121 ~~~~C~ICL~~-~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~-~CP--~CR~~~  170 (207)
                      .+..|+||..+ |.+++ ++-+-|.|-|..|..|+++-+...+ -||  -|-+-+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            46689999986 44444 4455667999999999999995554 799  786654

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.09  E-value=0.13  Score=43.46  Aligned_cols=32  Identities=25%  Similarity=0.559  Sum_probs=24.0

Q ss_pred             CCCcccHHHHHHHhh-------------cCCCCccccCcCCCCCC
Q 044489          144 CNHYFHAICIDEWLK-------------INATCPLCRNSRENSSV  175 (207)
Q Consensus       144 C~H~FH~~CI~~Wl~-------------~~~~CP~CR~~~~~~~~  175 (207)
                      |.-++|.+|+.+|+.             .+-.||+||+...-.++
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv  369 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV  369 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence            567789999999972             23379999999765443

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

Probab=90.07  E-value=0.19  Score=40.80  Aligned_cols=39  Identities=31%  Similarity=0.820  Sum_probs=28.1

Q ss_pred             ccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCC
Q 044489          125 CPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       125 C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      |-.|-+.   .-.|..+| |.|+ +|..|=+.    -..||+|+.+..
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence            8888654   55688898 9975 66777443    456999998754

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

Probab=88.92  E-value=0.2  Score=46.48  Aligned_cols=55  Identities=33%  Similarity=0.843  Sum_probs=42.9

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCCccc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSI  182 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~~~~  182 (207)
                      .....|.||+++.    ..+..+ |.   |..|+.+|+..+..||+|++...........+..
T Consensus       477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~~~~~  531 (543)
T KOG0802|consen  477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFLSKNSSE  531 (543)
T ss_pred             cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccccCccccc
Confidence            3467899999987    455565 88   9999999999999999999988666555444333

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

Probab=87.26  E-value=0.15  Score=47.97  Aligned_cols=52  Identities=31%  Similarity=0.724  Sum_probs=40.4

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC---CCCccccCcCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN---ATCPLCRNSRENSSVVT  177 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~~~~~~~~~  177 (207)
                      ..+|.||+..+...    .+.+|.|.|+.-|+..-+...   ..||+|+..++......
T Consensus        21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E   75 (684)
T KOG4362|consen   21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE   75 (684)
T ss_pred             hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc
Confidence            56899999988766    333699999999988776443   36999998887766654

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=87.11  E-value=0.51  Score=38.07  Aligned_cols=41  Identities=32%  Similarity=0.805  Sum_probs=30.2

Q ss_pred             CCcccccCc-----cCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489          122 DSTCPICLC-----EYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN  168 (207)
Q Consensus       122 ~~~C~ICL~-----~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  168 (207)
                      +..|-+|-+     .|+. +.+..-++|+-+||.+|..     +..||-|-+
T Consensus       152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R  197 (202)
T PF13901_consen  152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR  197 (202)
T ss_pred             CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence            678999976     2444 2455566799999999966     267999954

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

Probab=86.62  E-value=0.67  Score=34.78  Aligned_cols=53  Identities=23%  Similarity=0.523  Sum_probs=35.9

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHH-HHHh--hcCCCCccccCcCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICI-DEWL--KINATCPLCRNSRENS  173 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI-~~Wl--~~~~~CP~CR~~~~~~  173 (207)
                      .-.+|-||.|...+..-+.---.||-..|--|- .-|-  ..++.||.|+.+.-.+
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            467999999875444322211138988888885 4453  5577999999987543

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

Probab=86.56  E-value=0.69  Score=28.90  Aligned_cols=42  Identities=26%  Similarity=0.600  Sum_probs=22.3

Q ss_pred             ccccCccCCCCC------ceeecCCCCCcccHHHHHHHh-hcCCCCcccc
Q 044489          125 CPICLCEYHPKE------TLRSIPKCNHYFHAICIDEWL-KINATCPLCR  167 (207)
Q Consensus       125 C~ICL~~~~~~~------~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR  167 (207)
                      |.-|+..|....      ..-.-|+|++.|+.+| |.+. +.=.+||-|-
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence            555666666552      3445667999999999 4444 4455899884

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.

>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]

Probab=86.53  E-value=0.27  Score=45.59  Aligned_cols=44  Identities=23%  Similarity=0.682  Sum_probs=28.1

Q ss_pred             CCCcccccCc-----cCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489          121 NDSTCPICLC-----EYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN  168 (207)
Q Consensus       121 ~~~~C~ICL~-----~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  168 (207)
                      ....|.+|-.     .|+ .+.++..-.|+++||+.|+.   ..+..||-|-+
T Consensus       510 ~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~---r~s~~CPrC~R  558 (580)
T KOG1829|consen  510 KGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLR---RKSPCCPRCER  558 (580)
T ss_pred             CeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHh---ccCCCCCchHH
Confidence            3567888833     244 33333333499999999955   34555999954

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

Probab=85.27  E-value=1.6  Score=32.45  Aligned_cols=20  Identities=30%  Similarity=0.253  Sum_probs=9.4

Q ss_pred             CcccchhhhHHHHHHHHHHH
Q 044489           38 PRVARYGIVIGVGIPGLLCI   57 (207)
Q Consensus        38 ~~~~~y~iil~i~i~~~i~~   57 (207)
                      +...+.+|++++...++..+
T Consensus        62 s~~~i~~Ii~gv~aGvIg~I   81 (122)
T PF01102_consen   62 SEPAIIGIIFGVMAGVIGII   81 (122)
T ss_dssp             S-TCHHHHHHHHHHHHHHHH
T ss_pred             cccceeehhHHHHHHHHHHH
Confidence            33344556666555444433

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

>PF13908 Shisa: Wnt and FGF inhibitory regulator

Probab=82.84  E-value=1.4  Score=34.58  Aligned_cols=24  Identities=25%  Similarity=0.562  Sum_probs=12.3

Q ss_pred             chhhhHHHHHHHHHHHHHHHHHHH
Q 044489           42 RYGIVIGVGIPGLLCIIGLGCYLC   65 (207)
Q Consensus        42 ~y~iil~i~i~~~i~~i~i~~~~~   65 (207)
                      ..+|+++|++++++++++|+++.+
T Consensus        77 ~~~iivgvi~~Vi~Iv~~Iv~~~C  100 (179)
T PF13908_consen   77 ITGIIVGVICGVIAIVVLIVCFCC  100 (179)
T ss_pred             eeeeeeehhhHHHHHHHhHhhhee
Confidence            344666665544444554554543

>TIGR00622 ssl1 transcription factor ssl1

Probab=82.45  E-value=2.5  Score=30.87  Aligned_cols=47  Identities=17%  Similarity=0.243  Sum_probs=33.3

Q ss_pred             CCcccccCccCCCCC----------ceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489          122 DSTCPICLCEYHPKE----------TLRSIPKCNHYFHAICIDEWLKINATCPLCRN  168 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~----------~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  168 (207)
                      ...|--|+..|....          ..-.-++|++.|+.+|=.-+-+.=.+||-|-.
T Consensus        55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~  111 (112)
T TIGR00622        55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH  111 (112)
T ss_pred             CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence            356999999886531          12235579999999995555566678999963

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

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

Probab=81.77  E-value=1.5  Score=41.70  Aligned_cols=45  Identities=18%  Similarity=0.422  Sum_probs=31.8

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCcc--ccCc
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPL--CRNS  169 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~--CR~~  169 (207)
                      ..|.+|-... .+..+ ..+.|+|.=|.+|+.+|+....-||.  |-..
T Consensus       780 ~~CtVC~~vi-~G~~~-~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~  826 (839)
T KOG0269|consen  780 AKCTVCDLVI-RGVDV-WCQVCGHGGHDSHLKSWFFKASPCAKSICPHL  826 (839)
T ss_pred             cCceeeccee-eeeEe-ecccccccccHHHHHHHHhcCCCCccccCCcc
Confidence            4788885433 23223 34469999999999999988887776  5443

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.61  E-value=1.6  Score=36.38  Aligned_cols=59  Identities=17%  Similarity=0.372  Sum_probs=43.8

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCCcc
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSS  181 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~~~  181 (207)
                      ....|+|---++........+-.|||+|-..-+.+.  ...+|++|.+.+..++++..+..
T Consensus       110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg~  168 (293)
T KOG3113|consen  110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNGT  168 (293)
T ss_pred             ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCCC
Confidence            357899987777666554455569999998887663  36689999999998888765433

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.48  E-value=0.62  Score=44.41  Aligned_cols=43  Identities=23%  Similarity=0.550  Sum_probs=30.4

Q ss_pred             CCcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhcCCCCccc
Q 044489          122 DSTCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKINATCPLC  166 (207)
Q Consensus       122 ~~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~C  166 (207)
                      +..|.-|++.....    +.+.++- |+|+||+.|+..-..++. |-.|
T Consensus       784 e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~  830 (846)
T KOG2066|consen  784 EERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE  830 (846)
T ss_pred             hhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence            55899999876533    3566675 999999999987764443 4333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	207
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-11
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		4e-09
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		4e-06
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		6e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		2e-05
2jrj_A	52	Solution Structure Of The Human Pirh2 Ring-H2 Domai		2e-04
2ecm_A	55	Solution Structure Of The Ring Domain Of The Ring F		8e-04

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

Iteration: 1
 Score = 64.3 bits (155), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 43/65 (66%), Gaps = 10/65 (15%)
Query: 112 GDSGRLP----KPND-----STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINAT 162
           G SG+LP     PN+     + C +C+C++  ++ LR +P CNH FHA C+D+WLK N T
Sbjct: 4   GSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRT 62
Query: 163 CPLCR 167
           CP+CR
Sbjct: 63  CPICR 67

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/43 (51%), Positives = 28/43 (65%)
Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
           C +CL E    E  R +P+C H FHA C+D WL  ++TCPLCR
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/53 (41%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT 177
           CP+C  +Y   E++R +P CNH FH  CI  WL+ + +CP+CR S    +  T
Sbjct: 18  CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT 69

>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 = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 41/69 (59%), Gaps = 4/69 (5%)
Query: 100 KPTIESYPKTILG-DSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK 158
           K +I++ P+ ++  D G + +  +  CPIC  EY   +    +P C+HYFH  C+  WL+
Sbjct: 19  KESIDALPEILVTEDHGAVGQ--EMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQ 75
Query: 159 INATCPLCR 167
            + TCP+CR
Sbjct: 76  KSGTCPVCR 84

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171
           C ICL      E +R +P C H FH +C+D+WL  N  CP+CR   E
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIE 62

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 112 GDSGRLPKPN-DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLC 166
           G SG++ + N    C +CL ++ P++ L   P C H FH  C+ +WL++   CPLC
Sbjct: 4   GSSGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/49 (36%), Positives = 24/49 (48%)
Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
           +   CPICL + H    +  +  C H  H  C +E LK    CPLC +S
Sbjct: 4   SQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 22/48 (45%)
Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN 168
             S CPICL + H    +  +  C H  H  C +E LK    CPLC  
Sbjct: 4   GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	207
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-23
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	4e-23
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-22
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	5e-21
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	6e-21
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-18
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-18
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-17
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-14
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	8e-12
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-11
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	3e-11
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	3e-10
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-09
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	4e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	7e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	4e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	5e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	6e-05
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	6e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	6e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	7e-04
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	7e-04

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

 Score = 87.8 bits (218), Expect = 3e-23
 Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 100 KPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI 159
             +    P      +    +   + C +C+C++  ++ LR +P CNH FHA C+D+WLK 
Sbjct: 3   SGSSGQLPSYRFNPNNH--QSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKA 59

Query: 160 NATCPLCRNS 169
           N TCP+CR  
Sbjct: 60  NRTCPICRAD 69

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

 Score = 86.5 bits (215), Expect = 4e-23
 Identities = 22/49 (44%), Positives = 30/49 (61%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
           +   C +CL E    E  R +P+C H FHA C+D WL  ++TCPLCR +
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

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

 Score = 85.9 bits (213), Expect = 2e-22
 Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 2/75 (2%)

Query: 95  PTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICID 154
                K +I++ P+ ++ +        +  CPIC  EY   +    +P C+HYFH  C+ 
Sbjct: 14  NPPASKESIDALPEILVTEDHGAVG-QEMCCPICCSEYVKGDVATELP-CHHYFHKPCVS 71

Query: 155 EWLKINATCPLCRNS 169
            WL+ + TCP+CR  
Sbjct: 72  IWLQKSGTCPVCRCM 86

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

 Score = 81.7 bits (202), Expect = 5e-21
 Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 2/71 (2%)

Query: 112 GDSGRLPKPND-STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR 170
           G SG++ + N    C +CL ++ P++ L   P C H FH  C+ +WL++   CPLC    
Sbjct: 4   GSSGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV 62

Query: 171 ENSSVVTPSSS 181
              + ++  SS
Sbjct: 63  LQLAQLSGPSS 73

>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 = 81.3 bits (201), Expect = 6e-21
 Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
            +  C ICL      E +R +P C H FH +C+D+WL  N  CP+CR
Sbjct: 13  TEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

>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 = 75.5 bits (186), Expect = 1e-18
 Identities = 21/49 (42%), Positives = 31/49 (63%), Gaps = 1/49 (2%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
           +   CP+C  +Y   E++R +P CNH FH  CI  WL+ + +CP+CR S
Sbjct: 14  SGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKS 61

>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 = 74.6 bits (184), Expect = 2e-18
 Identities = 18/49 (36%), Positives = 22/49 (44%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
             S CPICL + H    +  +  C H  H  C +E LK    CPLC   
Sbjct: 4   GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52

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

 Score = 73.0 bits (179), Expect = 2e-17
 Identities = 16/46 (34%), Positives = 23/46 (50%)

Query: 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
              C  C  E   ++ +    +CNH FH  C+  W+K N  CPLC+
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 64.7 bits (158), Expect = 1e-14
 Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
              CPICL +            C H F  +CI  W++ N TCPLC+
Sbjct: 5   AERCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCK 47

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

 Score = 64.7 bits (158), Expect = 2e-14
 Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 6/61 (9%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS-RENSSVVTPS 179
           ++  C IC+              C H F   CID+W   +  CP+CR      +    PS
Sbjct: 14  DEEECCICMDGRADLIL-----PCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSGPS 68

Query: 180 S 180
           S
Sbjct: 69  S 69

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

 Score = 57.6 bits (139), Expect = 8e-12
 Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 121 NDSTCPICLCEYHPKETLRSIP---KCNHYFHAICIDEWLKINATCPLCR 167
              +CPIC+  Y        +    +C H F + C+ + LK   TCP CR
Sbjct: 14  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63

>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 = 58.3 bits (140), Expect = 1e-11
 Identities = 15/49 (30%), Positives = 17/49 (34%)

Query: 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
                 C         +E   +   CNH FH  CI  WLK    CPL  
Sbjct: 48  MDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>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 = 57.2 bits (137), Expect = 3e-11
 Identities = 15/49 (30%), Positives = 17/49 (34%)

Query: 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
                 C         +E   +   CNH FH  CI  WLK    CPL  
Sbjct: 59  MDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

>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-10
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 3/47 (6%)

Query: 124 TCPICLCEYHPKETLRSIP---KCNHYFHAICIDEWLKINATCPLCR 167
           +CPIC+  Y        +    +C H F + C+ + LK   TCP CR
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51

>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 = 53.3 bits (128), Expect = 3e-10
 Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 121 NDSTCPICLCEYHPKETLRSIP---KCNHYFHAICIDEWLKINATCPLCR 167
              +CPIC+  Y        +    +C H F + C+ + LK   TCP CR
Sbjct: 9   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58

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

 Score = 56.0 bits (134), Expect = 1e-09
 Identities = 14/63 (22%), Positives = 21/63 (33%), Gaps = 15/63 (23%)

Query: 121 NDSTCPICLCEYHPKETLRSI----PKCNHYFHAICIDEWLK-----------INATCPL 165
            +  C IC         +  +     KC    HA+C++EW K               CP 
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366

Query: 166 CRN 168
           C+ 
Sbjct: 367 CKA 369

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

 Score = 50.9 bits (122), Expect = 3e-09
 Identities = 20/71 (28%), Positives = 25/71 (35%), Gaps = 5/71 (7%)

Query: 112 GDSGRLPKPNDS-TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS- 169
           G SG L +      C IC        T   I +C H F   CI      +  CP C    
Sbjct: 4   GSSGNLSELTPYILCSICKGYLIDATT---ITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

Query: 170 RENSSVVTPSS 180
            +   +  PSS
Sbjct: 61  HQTQPLSGPSS 71

>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 = 51.4 bits (123), Expect = 4e-09
 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 4/54 (7%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVV 176
            C IC+ +       R  P C+      CI  WL +  A CP CR   +   +V
Sbjct: 24  RCFICMEKL---RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELV 74

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

 Score = 50.2 bits (120), Expect = 6e-09
 Identities = 15/57 (26%), Positives = 20/57 (35%), Gaps = 6/57 (10%)

Query: 112 GDSGRLPKPNDSTCPICLCEY-HPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
              G   +     C IC   + +P  T     KC HYF   C  E  +    C +C 
Sbjct: 5   SSGGSEEEEIPFRCFICRQAFQNPVVT-----KCRHYFCESCALEHFRATPRCYICD 56

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

 Score = 49.5 bits (117), Expect = 2e-08
 Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 19/71 (26%)

Query: 116 RLPKPNDSTCPICLCEYHPK--------------ETLRSIPKCNHYFHAICIDEWLK--- 158
            L    +  C IC+ +                    +  + KC+H FH +C+        
Sbjct: 19  ELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN 78

Query: 159 --INATCPLCR 167
              +  CP C+
Sbjct: 79  KDGSLQCPSCK 89

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

 Score = 47.9 bits (114), Expect = 3e-08
 Identities = 15/57 (26%), Positives = 18/57 (31%), Gaps = 6/57 (10%)

Query: 114 SGRLPKPNDSTCPICLCEY-HPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
               P      C ICL    HP         C H F  +C+     +   C LCR  
Sbjct: 7   GNTAPSLTVPECAICLQTCVHPVSL-----PCKHVFCYLCVKGASWLGKRCALCRQE 58

>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 = 46.5 bits (110), Expect = 1e-07
 Identities = 10/47 (21%), Positives = 16/47 (34%), Gaps = 5/47 (10%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPLCRN 168
            C IC          +S   C    H  C+ ++ +      CP C +
Sbjct: 17  ICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

>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 = 46.7 bits (111), Expect = 2e-07
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 3/44 (6%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
            C +C   +    T   I +C H F   CI  +L+ +  CP+C 
Sbjct: 17  MCVLCGGYFIDATT---IIECLHSFCKTCIVRYLETSKYCPICD 57

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

 Score = 47.0 bits (111), Expect = 4e-07
 Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 4/54 (7%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS 174
           N+  C IC   +    TL     C H F + CI+EW+K    CP+CR   ++ +
Sbjct: 63  NELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRKDIKSKT 112

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

 Score = 45.5 bits (108), Expect = 5e-07
 Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 9/49 (18%)

Query: 124 TCPICLCEYHPKETLR---SIPKCNHYFHAICIDEWLKINATCPLCRNS 169
            C IC       E       IP+C+H + ++CI ++L     CP C  +
Sbjct: 24  RCGICF------EYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVT 66

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

 Score = 44.8 bits (105), Expect = 2e-06
 Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 121 NDSTCPICLCEYHPKETLRSIP---KCNHYFHAICIDEWLKINATCPLCRN 168
              +CPIC+  Y        +    +C H F + C+ + LK   TCP CR 
Sbjct: 6   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 56

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

 Score = 41.3 bits (96), Expect = 4e-05
 Identities = 14/51 (27%), Positives = 19/51 (37%)

Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV 175
           C     E      L    +C H F + C+ + LK   TCP CR    +   
Sbjct: 78  CMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 128

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

 Score = 44.3 bits (104), Expect = 7e-06
 Identities = 12/62 (19%), Positives = 19/62 (30%), Gaps = 7/62 (11%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPLCRN--SRENSSVV 176
               C IC       ++      C    H  C+ ++ +      CP C +    E   V 
Sbjct: 179 AVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKVF 235

Query: 177 TP 178
            P
Sbjct: 236 DP 237

>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 = 40.7 bits (95), Expect = 4e-05
 Identities = 9/44 (20%), Positives = 15/44 (34%), Gaps = 5/44 (11%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
            C  C            +  C H F + C+ + +     CP+C 
Sbjct: 24  RCSRCTNILR---EPVCLGGCEHIFCSNCVSDCIG--TGCPVCY 62

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

 Score = 39.8 bits (93), Expect = 5e-05
 Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 9/51 (17%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--------NATCPLC 166
            C +CL EY  ++    I +C   F  +C+ +++++          +CP  
Sbjct: 7   GCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

>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 = 42.1 bits (98), Expect = 6e-05
 Identities = 22/115 (19%), Positives = 33/115 (28%), Gaps = 14/115 (12%)

Query: 64  LCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDS 123
           + G     Y   +     G +  P L     PT  D   +      +  + G        
Sbjct: 283 IDGFREGFYLFPD-----GRNQNPDLTGLCEPTPQDHIKVTQEQYELYCEMGS----TFQ 333

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVVT 177
            C IC      K+    I  C H     C+  W       CP CR   + +  + 
Sbjct: 334 LCKICAEND--KDV--KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV 384

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

 Score = 38.7 bits (90), Expect = 1e-04
 Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 5/60 (8%)

Query: 113 DSGRLPKPNDSTCPICLCEYHPKETLRSIPKCN---HYFHAICIDEWL--KINATCPLCR 167
               +   +   C IC CE   +  L +   C    H+ H  C+ +W+       C LC+
Sbjct: 6   SGTSITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.4 bits (96), Expect = 1e-04
 Identities = 28/166 (16%), Positives = 49/166 (29%), Gaps = 40/166 (24%)

Query: 72  YQHRNSDAELGT------SITPQLQPAFVPTGLDKPTIESYPKTILGDSG-----RLPKP 120
           + H + D E G        I    + AFV    D   ++  PK+IL              
Sbjct: 2   HHHHHMDFETGEHQYQYKDILSVFEDAFV-DNFDCKDVQDMPKSILSKEEIDHIIMSKDA 60

Query: 121 NDSTCPI--CLCEYHPKET----LRSIPKCNHYFHAICIDEWL--KINATC--PL----- 165
              T  +   L     +E     +  + + N Y       ++L   I      P      
Sbjct: 61  VSGTLRLFWTLLSK-QEEMVQKFVEEVLRIN-Y-------KFLMSPIKTEQRQPSMMTRM 111

Query: 166 ---CRNSRENSSVVTPSSSIKRGRKRPSLINGAV-LAKSPALTRFG 207
               R+   N + V    ++ R +    L    + L  +  +   G
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG 157

>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 = 39.2 bits (91), Expect = 3e-04
 Identities = 19/45 (42%), Positives = 22/45 (48%), Gaps = 4/45 (8%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCR 167
            CPICL     K T  +  +C H F A CI   L+  N  CP CR
Sbjct: 56  MCPICLDML--KNT-MTTKECLHRFCADCIITALRSGNKECPTCR 97

>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 = 6e-04
 Identities = 13/71 (18%), Positives = 21/71 (29%), Gaps = 1/71 (1%)

Query: 118 PKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSRENSSVV 176
            K +   CP+C+      +       C +     C        N  CP CR        V
Sbjct: 7   AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV 66

Query: 177 TPSSSIKRGRK 187
               S +  ++
Sbjct: 67  YKPLSQEELQR 77

>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 = 37.2 bits (86), Expect = 6e-04
 Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 7/63 (11%)

Query: 124 TCPICLCEYH-PKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSVVTPSSS 181
           +C IC      P ET      C H F  ICI   LK+  + CP CR     + + +P  S
Sbjct: 25  SCQICEHILADPVET-----SCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKS 79

Query: 182 IKR 184
              
Sbjct: 80  FLN 82

>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 = 37.3 bits (86), Expect = 7e-04
 Identities = 11/48 (22%), Positives = 14/48 (29%), Gaps = 5/48 (10%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA-TCPLCR 167
               C  C        T      C H     C+D   +    +CP CR
Sbjct: 51  ETFQCICCQELVFRPITT----VCQHNVCKDCLDRSFRAQVFSCPACR 94

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

 Score = 36.6 bits (85), Expect = 7e-04
 Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 3/47 (6%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA---TCPLCR 167
            CPIC+  +  ++    +  C H     C+++ L  +     CP C 
Sbjct: 17  ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	207
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.78
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.73
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.69
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.69
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.68
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.68
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.65
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.61
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.6
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.59
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.58
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.57
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.56
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.55
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.54
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.52
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.51
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.5
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.49
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.47
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.44
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.42
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.41
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.41
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.4
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.37
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.37
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.36
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.35
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.34
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.34
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.34
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.33
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.31
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.3
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.28
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.28
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.28
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.26
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.25
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.23
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.23
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.21
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.18
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.17
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.15
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.15
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.11
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.07
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.06
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.02
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.99
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.91
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.88
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.87
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.85
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.85
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.84
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.79
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.69
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.65
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.62
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.51
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.47
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.45
3nw0_A	238	Non-structural maintenance of chromosomes element	98.28
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	97.17
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	96.48
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.23
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	94.59
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	93.96
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	91.95
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	90.54
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	90.52
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	90.51
1we9_A	64	PHD finger family protein; structural genomics, PH	90.27
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	89.93
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	89.64
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	89.58
2jwa_A	44	Receptor tyrosine-protein kinase ERBB-2; transmemb	89.52
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	89.46
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	89.17
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	87.94
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	87.85
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	87.56
2ks1_B	44	Epidermal growth factor receptor; ERBB1, ERBB2, tr	87.2
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	87.07
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	86.8
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	86.65
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	86.25
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	85.71
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	84.93
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	84.43
2l2t_A	44	Receptor tyrosine-protein kinase ERBB-4; transmemb	83.8
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	83.37
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	82.25
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	82.22
2yt5_A	66	Metal-response element-binding transcription facto	81.96
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	81.92
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	81.79
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	81.44
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	81.17
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	80.63
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	80.26
2klu_A	70	T-cell surface glycoprotein CD4; cell membrane, di	80.1
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	80.02

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

Probab=99.78  E-value=5.1e-19  Score=124.31  Aligned_cols=81  Identities=28%  Similarity=0.704  Sum_probs=69.7

Q ss_pred             CCCCCCCCCCHHHHhhCCCeecCCCCCCCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCc
Q 044489           90 QPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS  169 (207)
Q Consensus        90 ~~~~~~~~~~~~~i~~~p~~~~~~~~~~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~  169 (207)
                      .......+++++.++.+|...+..... ....+.+|+||+++|..++.++.++ |+|.||.+||..|++.+.+||+||++
T Consensus         9 ~~~~~~~~~s~~~i~~lp~~~~~~~~~-~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~   86 (91)
T 2l0b_A            9 SHMVANPPASKESIDALPEILVTEDHG-AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCM   86 (91)
T ss_dssp             CCSSCCCCCCHHHHHTSCEEECCTTCS-SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCB
T ss_pred             CCCcCCCCCCHHHHHhCCCeeeccccc-ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCcc
Confidence            455677899999999999988865442 2345678999999999999999998 99999999999999999999999998


Q ss_pred             CCC
Q 044489          170 REN  172 (207)
Q Consensus       170 ~~~  172 (207)
                      +..
T Consensus        87 ~~~   89 (91)
T 2l0b_A           87 FPP   89 (91)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            864

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

Probab=99.73  E-value=1.5e-18  Score=117.38  Aligned_cols=69  Identities=36%  Similarity=0.937  Sum_probs=56.8

Q ss_pred             HHhhCCCeecCCCCCCCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCC
Q 044489          102 TIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENS  173 (207)
Q Consensus       102 ~i~~~p~~~~~~~~~~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~  173 (207)
                      .++.+|...+....  ...++.+|+||+++|..++.++.++ |+|.||.+||.+|++.+.+||+||+++...
T Consensus         5 ~i~~lp~~~~~~~~--~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            5 SSGQLPSYRFNPNN--HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CCSSCCCEEBCSSS--CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hHhhCCcEEecCcc--ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            34566776665432  2345679999999999999999998 999999999999999999999999998654

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

Probab=99.69  E-value=1.7e-17  Score=105.32  Aligned_cols=51  Identities=43%  Similarity=0.976  Sum_probs=46.7

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      ++.+|+||+++|..++.+..++.|+|.||.+||.+|++.+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            467899999999999888888779999999999999999999999999874

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

Probab=99.69  E-value=4.9e-17  Score=109.47  Aligned_cols=55  Identities=31%  Similarity=0.841  Sum_probs=48.9

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      ..+.+|+||+++|..++.++.++ |+|.||.+||.+|++.+.+||+||+++.....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ   67 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCS
T ss_pred             CCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccccc
Confidence            34679999999999999998898 99999999999999988999999999865433

>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=99.68  E-value=6.6e-17  Score=107.38  Aligned_cols=54  Identities=39%  Similarity=0.989  Sum_probs=48.4

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENS  173 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~  173 (207)
                      .....+|+||++.|..++.++.++ |+|.||.+||.+|++.+.+||+||+++...
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            345678999999999888888898 999999999999999899999999998654

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

Probab=99.68  E-value=6e-17  Score=110.12  Aligned_cols=57  Identities=39%  Similarity=0.937  Sum_probs=50.7

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~  177 (207)
                      ....+|+||+++|..++.++.++ |+|.||.+||.+|++.+.+||+||+++.......
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   69 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT   69 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCC
T ss_pred             CCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcccCC
Confidence            45679999999999998888898 9999999999999998999999999987765543

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

Probab=99.65  E-value=7.4e-17  Score=110.82  Aligned_cols=52  Identities=33%  Similarity=0.765  Sum_probs=43.4

Q ss_pred             CCCcccccCccCCC-----------CCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          121 NDSTCPICLCEYHP-----------KETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~-----------~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      ++..|+||+++|.+           ++.++.+++|+|.||.+||++||+.+.+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            46678888888854           44566666799999999999999999999999999754

>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=99.61  E-value=1.3e-15  Score=110.82  Aligned_cols=61  Identities=21%  Similarity=0.499  Sum_probs=46.5

Q ss_pred             CCCcccccCccCCCCC---------------ceeecCCCCCcccHHHHHHHh-----hcCCCCccccCcCCCCCCCCCCc
Q 044489          121 NDSTCPICLCEYHPKE---------------TLRSIPKCNHYFHAICIDEWL-----KINATCPLCRNSRENSSVVTPSS  180 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~---------------~v~~lp~C~H~FH~~CI~~Wl-----~~~~~CP~CR~~~~~~~~~~~~~  180 (207)
                      .+.+|+||+++|..+.               .++.++ |+|.||.+||..|+     +.+.+||+||+.+.......|..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g~qp~g  102 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWG  102 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSCTTS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCCCCCCC
Confidence            3568999999997653               333566 99999999999999     45679999999987665444443


Q ss_pred             cc
Q 044489          181 SI  182 (207)
Q Consensus       181 ~~  182 (207)
                      .+
T Consensus       103 ~m  104 (114)
T 1v87_A          103 KM  104 (114)
T ss_dssp             SC
T ss_pred             eE
Confidence            33

>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=99.60  E-value=7.8e-16  Score=97.50  Aligned_cols=50  Identities=38%  Similarity=0.889  Sum_probs=43.4

Q ss_pred             CCCcccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      ++.+|+||++++.+++ .+..++ |+|.||.+||.+|++.+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            4678999999997654 466676 9999999999999988899999999874

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

Probab=99.59  E-value=5.8e-16  Score=103.11  Aligned_cols=56  Identities=30%  Similarity=0.676  Sum_probs=46.9

Q ss_pred             CCCCcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      .++.+|+||++.+.+.    +.+..++ |||.||.+||.+|++.+.+||+||+++....+.
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   67 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   67 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhhee
Confidence            4577999999998653    4456676 999999999999999999999999999766553

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

Probab=99.58  E-value=2.1e-15  Score=103.30  Aligned_cols=58  Identities=28%  Similarity=0.769  Sum_probs=47.7

Q ss_pred             CCCCcccccCccCCCCCceeecCCCC-----CcccHHHHHHHhhcC--CCCccccCcCCCCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCN-----HYFHAICIDEWLKIN--ATCPLCRNSRENSSVVTPS  179 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~-----H~FH~~CI~~Wl~~~--~~CP~CR~~~~~~~~~~~~  179 (207)
                      .++..|.||+++|.+++.+ ++| |+     |.||.+||++||..+  .+||+||.++.......|.
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~~~P~   77 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETKLSGP   77 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCCSCCC
T ss_pred             CCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcccCCC
Confidence            4567899999999887776 588 96     999999999999654  5899999999776655543

>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=99.57  E-value=2.3e-15  Score=108.43  Aligned_cols=50  Identities=36%  Similarity=0.624  Sum_probs=42.9

Q ss_pred             CCCcccccCccCCCCC---------------ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKE---------------TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~---------------~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      ++..|+||+++|....               .++.++ |+|.||.+||++||+.+.+||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            4678999999998651               355676 9999999999999999999999999864

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

Probab=99.56  E-value=2.2e-15  Score=99.55  Aligned_cols=52  Identities=33%  Similarity=0.748  Sum_probs=43.9

Q ss_pred             CCCCcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          120 PNDSTCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      .+..+|+||++.|.+.    +.+..++ |||.||.+||..|++.+.+||+||+++..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            4567899999998754    3345676 99999999999999989999999998864

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

Probab=99.55  E-value=1.4e-15  Score=101.55  Aligned_cols=58  Identities=26%  Similarity=0.530  Sum_probs=47.6

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCCc
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSS  180 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~~  180 (207)
                      ..++.+|+||++.+.+.   ..++ |+|.||.+||..|++.+..||+||+++....+..|.+
T Consensus        12 ~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~p~~   69 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDSGPS   69 (71)
T ss_dssp             SSSCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHHHHSCSCS
T ss_pred             CCCCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHhhccCCCC
Confidence            34567999999998554   4566 9999999999999998999999999997766655543

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

Probab=99.54  E-value=1.7e-15  Score=98.70  Aligned_cols=54  Identities=31%  Similarity=0.688  Sum_probs=45.4

Q ss_pred             CCCcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          121 NDSTCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      ++.+|+||++.+.+.    +.+..++ |||.||.+||.+|++.+.+||+||+++....+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   59 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   59 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCccce
Confidence            357899999998753    3456676 99999999999999989999999999876554

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

Probab=99.52  E-value=1.7e-14  Score=96.58  Aligned_cols=56  Identities=20%  Similarity=0.357  Sum_probs=45.8

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTP  178 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~  178 (207)
                      .+...|+||++.+.+.  +..++ |||.||.+||..|++.+..||+||+++........
T Consensus        13 ~~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   68 (72)
T 2djb_A           13 TPYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSG   68 (72)
T ss_dssp             CGGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCCC
T ss_pred             CCCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccccccc
Confidence            3467899999998753  33345 99999999999999889999999999977666543

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

Probab=99.51  E-value=8.4e-15  Score=97.35  Aligned_cols=51  Identities=29%  Similarity=0.760  Sum_probs=44.0

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      .+..+|+||++.+.+    ..++ |+|.||.+||.+|++.+.+||+||+++.....
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   63 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANE   63 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCCC
T ss_pred             CCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCCc
Confidence            346799999999876    5677 99999999999999999999999999875543

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

Probab=99.50  E-value=4.6e-14  Score=97.62  Aligned_cols=55  Identities=22%  Similarity=0.625  Sum_probs=46.0

Q ss_pred             CCCCcccccCccCCCCCc-eeecCCCCCcccHHHHHHHhhcC---CCCccccCcCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKET-LRSIPKCNHYFHAICIDEWLKIN---ATCPLCRNSRENSSV  175 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~-v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~~~~~~~  175 (207)
                      .+..+|+||++.|.+.+. ...++ |||.||.+||..|++.+   ..||+||+++....+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i   71 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRITSL   71 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSST
T ss_pred             cCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccchhH
Confidence            356789999999988764 56676 99999999999999765   789999999866543

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

Probab=99.49  E-value=2.6e-14  Score=94.36  Aligned_cols=49  Identities=39%  Similarity=0.915  Sum_probs=42.2

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      .+.+|+||++.+.+  .+..++ |||.||.+||..|++.+.+||+||+++..
T Consensus         4 ~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            46789999999864  346677 99999999999999988999999999863

>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=99.47  E-value=4.6e-15  Score=108.52  Aligned_cols=51  Identities=37%  Similarity=0.634  Sum_probs=1.1

Q ss_pred             CCCcccccCccCCCC-------------C--ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          121 NDSTCPICLCEYHPK-------------E--TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~-------------~--~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      .++.|+||+++|...             +  .+..++ |+|.||.+||++||+.+.+||+||+++..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             CC-----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            467999999999753             2  222345 99999999999999999999999998743

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

Probab=99.44  E-value=1.7e-13  Score=92.17  Aligned_cols=50  Identities=20%  Similarity=0.541  Sum_probs=42.9

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC--CCCccccCcCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN--ATCPLCRNSREN  172 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~~~~  172 (207)
                      ....+|+||.+.+..++...   .|+|.||.+||.+||+++  .+||+||+++..
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            34689999999998776544   599999999999999877  799999999864

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

Probab=99.42  E-value=1.8e-13  Score=89.82  Aligned_cols=51  Identities=20%  Similarity=0.486  Sum_probs=42.3

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSS  174 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~  174 (207)
                      .+...|+||++.+.+...   ++ |||.||.+||.+|+ +.+..||+||+++....
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPKQ---TE-CGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCEECTTTCCEESSCCC---CS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CcCCCCCCCChHhcCeeE---CC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            346789999999876532   55 99999999999999 56678999999987654

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

Probab=99.41  E-value=3.6e-13  Score=89.96  Aligned_cols=51  Identities=31%  Similarity=0.653  Sum_probs=41.5

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh---cCCCCccccCcCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK---INATCPLCRNSRENSS  174 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~---~~~~CP~CR~~~~~~~  174 (207)
                      .++..|+||++.+.+.   ..++ |||.||.+||..|++   .+..||+||+++....
T Consensus        18 ~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           18 QEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCBCTTTCSBCSSE---EECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             ccCCEeccCCcccCCe---EEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            3567999999998743   3456 999999999999996   4568999999986654

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

Probab=99.41  E-value=2.7e-13  Score=92.59  Aligned_cols=48  Identities=23%  Similarity=0.570  Sum_probs=41.5

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      .....|+||++.|.+.  + +++ |||.||..||..|++....||+||+++.
T Consensus        13 ~~~~~C~IC~~~~~~p--~-~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP--V-VTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE--E-ECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe--e-Ecc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3467899999998653  3 466 9999999999999998999999999986

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

Probab=99.40  E-value=2e-13  Score=89.41  Aligned_cols=54  Identities=24%  Similarity=0.533  Sum_probs=42.8

Q ss_pred             CCCcccccCc-cCCCCCce-eecCCCCCcccHHHHHHHhh-cCCCCccccCcCCCCCC
Q 044489          121 NDSTCPICLC-EYHPKETL-RSIPKCNHYFHAICIDEWLK-INATCPLCRNSRENSSV  175 (207)
Q Consensus       121 ~~~~C~ICL~-~~~~~~~v-~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~~~~  175 (207)
                      ++..|+||++ .+.++... ..++ |||.||.+||.+|+. .+..||+||+++....+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            3568999999 77666543 3455 999999999999974 45689999999876554

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

Probab=99.37  E-value=1.6e-13  Score=101.64  Aligned_cols=55  Identities=31%  Similarity=0.686  Sum_probs=46.7

Q ss_pred             CCCcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          121 NDSTCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      ++.+|+||++.|.++    +.+..++ |||.||.+||.+|++.+.+||+||+++....+.
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~   64 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   64 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEE
T ss_pred             CCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCcccccc
Confidence            467899999998764    4456776 999999999999999999999999999766553

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

Probab=99.37  E-value=6.3e-13  Score=89.34  Aligned_cols=52  Identities=25%  Similarity=0.531  Sum_probs=41.3

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC--CCCccccCcCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN--ATCPLCRNSRENSSV  175 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~~~~~~~  175 (207)
                      .+..|+||++.|.+.  + .++.|||.||..||..|++.+  ..||+||+++.....
T Consensus        14 ~~~~C~IC~~~~~~p--~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2yur_A           14 DELLCLICKDIMTDA--V-VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA   67 (74)
T ss_dssp             GGGSCSSSCCCCTTC--E-ECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTT
T ss_pred             CCCCCcCCChHHhCC--e-EcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccc
Confidence            467899999998754  2 354599999999999999755  689999998654333

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

Probab=99.36  E-value=3.2e-13  Score=101.50  Aligned_cols=47  Identities=32%  Similarity=0.851  Sum_probs=40.8

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      +..|+||++.|.++   ..+| |||.||.+||..|+..+.+||+||+++..
T Consensus        53 ~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            45799999998643   4577 99999999999999999999999999854

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

Probab=99.35  E-value=1.2e-12  Score=89.62  Aligned_cols=50  Identities=34%  Similarity=0.676  Sum_probs=41.9

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc------CCCCccccCcCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI------NATCPLCRNSRENSS  174 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR~~~~~~~  174 (207)
                      ++..|+||++.+.+..   .++ |+|.||.+||..|++.      ...||+||+++....
T Consensus        18 ~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           18 EEVTCPICLELLKEPV---SAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             TTTSCTTTCSCCSSCE---ECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             cCCCCcCCChhhCcce---eCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            4679999999987652   566 9999999999999966      678999999987543

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

Probab=99.34  E-value=1.2e-12  Score=88.64  Aligned_cols=52  Identities=21%  Similarity=0.494  Sum_probs=43.0

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSV  175 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~~  175 (207)
                      .++..|+||++.|.++  + .++ |||.||..||..|++. +.+||+||+++....+
T Consensus         6 ~~~~~C~IC~~~~~~P--v-~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l   58 (78)
T 1t1h_A            6 PEYFRCPISLELMKDP--V-IVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             SSSSSCTTTSCCCSSE--E-EET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             cccCCCCCccccccCC--E-EcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChhhC
Confidence            3467999999998654  3 456 9999999999999976 7899999999876543

>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=99.34  E-value=5e-13  Score=95.08  Aligned_cols=52  Identities=27%  Similarity=0.559  Sum_probs=42.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC-CCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN-ATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~~~~~~~~  176 (207)
                      +..|+||++.|.+  .+..++ |||.||..||..|++.+ ..||+||+++....+.
T Consensus        22 ~~~C~IC~~~~~~--p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~   74 (100)
T 3lrq_A           22 VFRCFICMEKLRD--ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELV   74 (100)
T ss_dssp             HTBCTTTCSBCSS--EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCE
T ss_pred             CCCCccCCccccC--ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhH
Confidence            5789999999864  333366 99999999999999776 7999999999765544

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

Probab=99.34  E-value=1.6e-12  Score=88.93  Aligned_cols=52  Identities=33%  Similarity=0.719  Sum_probs=42.8

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc------CCCCccccCcCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI------NATCPLCRNSRENSSV  175 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR~~~~~~~~  175 (207)
                      .+..+|+||++.+.+.   ..++ |||.||.+||..|++.      ...||+||+++....+
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecv_A           17 KEEVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENI   74 (85)
T ss_dssp             CCCCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSC
T ss_pred             cCCCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhc
Confidence            3467999999998654   2456 9999999999999976      7799999999876443

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

Probab=99.33  E-value=4.2e-13  Score=90.92  Aligned_cols=51  Identities=31%  Similarity=0.591  Sum_probs=42.1

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-------CCCCccccCcCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-------NATCPLCRNSRENSS  174 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-------~~~CP~CR~~~~~~~  174 (207)
                      .++..|+||++.|.+..   .++ |||.||.+||..|++.       ...||+||+++....
T Consensus        10 ~~~~~C~IC~~~~~~p~---~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A           10 QEEVTCPICLELLTEPL---SLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCEETTTTEECSSCC---CCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             ccCCCCcCCCcccCCee---ECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            35678999999987643   466 9999999999999976       568999999987543

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

Probab=99.31  E-value=1.2e-12  Score=92.67  Aligned_cols=50  Identities=22%  Similarity=0.601  Sum_probs=41.8

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS  174 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~  174 (207)
                      ...|+||++.|.++  +..++ |||.||..||..|+..+..||+||+++....
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   71 (99)
T 2y43_A           22 LLRCGICFEYFNIA--MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD   71 (99)
T ss_dssp             HTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG
T ss_pred             CCCcccCChhhCCc--CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCChhh
Confidence            56899999998753  33335 9999999999999998899999999987543

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

Probab=99.30  E-value=7.1e-13  Score=98.07  Aligned_cols=54  Identities=31%  Similarity=0.710  Sum_probs=45.0

Q ss_pred             CCCcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          121 NDSTCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      +..+|+||++.|.+.    .....++ |||.||..||++|++.+++||+||+++..+.+
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~  128 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY  128 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGGGE
T ss_pred             CCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChhcc
Confidence            467899999998653    2335666 99999999999999999999999999876543

>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=99.28  E-value=2.6e-12  Score=92.42  Aligned_cols=50  Identities=24%  Similarity=0.561  Sum_probs=42.3

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENS  173 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~  173 (207)
                      ++..|+||++.|.+  .+..++ |||.||..||..|++.+..||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYFID--ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHHhC--cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            36789999999864  344446 999999999999999899999999998754

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

Probab=99.28  E-value=3.8e-12  Score=81.00  Aligned_cols=42  Identities=31%  Similarity=0.862  Sum_probs=35.2

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh---hcCCCCccc
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL---KINATCPLC  166 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl---~~~~~CP~C  166 (207)
                      +...|+||++.+.+.   ..++ |||.||.+||.+|+   +.+..||+|
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            467899999999765   2466 99999999999995   456789998

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

Probab=99.28  E-value=4.9e-12  Score=82.09  Aligned_cols=43  Identities=35%  Similarity=0.722  Sum_probs=35.7

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh---cCCCCccc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK---INATCPLC  166 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~---~~~~CP~C  166 (207)
                      .++..|+||++.+.+.   ..++ |||.||.+||.+|++   .+..||+|
T Consensus        18 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSSC---EECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCCe---EEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3567999999998754   3456 999999999999997   45689998

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

Probab=99.26  E-value=1.4e-11  Score=83.72  Aligned_cols=56  Identities=20%  Similarity=0.506  Sum_probs=44.0

Q ss_pred             CCCCcccccCccCCCCCc-eeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKET-LRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVV  176 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~-v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~~  176 (207)
                      .++.+|+||++.+...+. +..++ |||.||..|+..++ ..+..||+||+++....+.
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~   66 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV   66 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSC
T ss_pred             ccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchh
Confidence            456799999999865543 22244 99999999999998 4467899999999876664

>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=99.25  E-value=6.8e-12  Score=92.41  Aligned_cols=48  Identities=23%  Similarity=0.467  Sum_probs=40.0

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC-CCCccccCcCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN-ATCPLCRNSRENS  173 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~~~~~  173 (207)
                      +..|+||++.|.++   ..++ |||.||..||..|+..+ ..||+||+++...
T Consensus        52 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  100 (124)
T 3fl2_A           52 TFQCICCQELVFRP---ITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGRS  100 (124)
T ss_dssp             HTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCCCCcCChHHcCc---EEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCCC
Confidence            46899999998754   3456 99999999999999754 4999999999763

>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=99.23  E-value=3.9e-12  Score=98.24  Aligned_cols=48  Identities=38%  Similarity=0.708  Sum_probs=40.4

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSREN  172 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~  172 (207)
                      ...|+||++.|.+  .+..++ |||.||..||..|++. +..||+||+++..
T Consensus        54 ~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           54 ELMCPICLDMLKN--TMTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCcccChHhhC--cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            4689999999875  344446 9999999999999976 7789999999854

>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=99.23  E-value=7.8e-12  Score=90.13  Aligned_cols=52  Identities=33%  Similarity=0.679  Sum_probs=42.1

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC---CCccccCcCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA---TCPLCRNSRENSSVVT  177 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~---~CP~CR~~~~~~~~~~  177 (207)
                      ...|+||++.+.+..   .++ |||.||..||..|+..+.   .||+||+++....+..
T Consensus        21 ~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~   75 (112)
T 1jm7_A           21 ILECPICLELIKEPV---STK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE   75 (112)
T ss_dssp             HTSCSSSCCCCSSCC---BCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBC
T ss_pred             CCCCcccChhhcCeE---ECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCc
Confidence            458999999986553   356 999999999999997654   8999999987665443

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

Probab=99.21  E-value=1.3e-11  Score=86.07  Aligned_cols=49  Identities=29%  Similarity=0.602  Sum_probs=39.8

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC--CCCccccCcCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN--ATCPLCRNSRE  171 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~~~  171 (207)
                      .++..|+||++.|.++  + .++.|||.||..||..|+..+  ..||+||+++.
T Consensus        11 ~~~~~C~IC~~~~~~p--~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMTDA--V-VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECSSC--E-ECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhcCc--e-ECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            4568999999998754  2 454599999999999999543  58999999973

>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=99.18  E-value=8.6e-12  Score=81.54  Aligned_cols=49  Identities=22%  Similarity=0.371  Sum_probs=40.2

Q ss_pred             CCCCcccccCccCCCCCcee-ecCCCCCc-ccHHHHHHHhhcCCCCccccCcCC
Q 044489          120 PNDSTCPICLCEYHPKETLR-SIPKCNHY-FHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~-~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      .++.+|.||++.+.+.  +. .+| |||. |+.+|+..|.+.+..||+||+++.
T Consensus         6 ~~~~~C~IC~~~~~~~--~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKNG--CIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSCE--EEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCCE--EEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            4567899999986443  32 237 9999 899999999988899999999885

>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=99.17  E-value=9.9e-12  Score=90.83  Aligned_cols=52  Identities=25%  Similarity=0.575  Sum_probs=42.2

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC-CCccccCcCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA-TCPLCRNSRENSSV  175 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~~~~~~~  175 (207)
                      .+...|+||++.+.++   ..++ |||.||..||..|++.+. +||+||+++....+
T Consensus        16 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   68 (118)
T 3hct_A           16 ESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQL   68 (118)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhc
Confidence            3467999999998754   3466 999999999999996654 99999999876543

>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=99.15  E-value=2e-11  Score=93.07  Aligned_cols=49  Identities=20%  Similarity=0.457  Sum_probs=40.9

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC-CCccccCcCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA-TCPLCRNSRENSS  174 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~~~~~~  174 (207)
                      ...|+||++.|.++  + .++ |||.||..||..|+.... .||+||+++....
T Consensus        78 ~~~C~IC~~~~~~p--v-~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~  127 (150)
T 1z6u_A           78 SFMCVCCQELVYQP--V-TTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQNY  127 (150)
T ss_dssp             HTBCTTTSSBCSSE--E-ECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTC
T ss_pred             CCEeecCChhhcCC--E-EcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCCC
Confidence            46899999998654  2 366 999999999999997654 8999999997763

>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=99.15  E-value=1.5e-11  Score=89.50  Aligned_cols=53  Identities=30%  Similarity=0.656  Sum_probs=43.3

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSVVTP  178 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~~~~~  178 (207)
                      +..|+||++.+.++  + .++ |||.||..||..|++. +.+||+||+++....+..+
T Consensus        23 ~~~C~IC~~~~~~p--~-~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~   76 (116)
T 1rmd_A           23 SISCQICEHILADP--V-ETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP   76 (116)
T ss_dssp             HTBCTTTCSBCSSE--E-ECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCC
T ss_pred             CCCCCCCCcHhcCc--E-EcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhcccc
Confidence            56899999998654  3 366 9999999999999976 7799999999877655443

>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=99.11  E-value=4e-11  Score=85.31  Aligned_cols=53  Identities=17%  Similarity=0.190  Sum_probs=44.9

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      .....|+||++-|.++  | +++ |||.|+..||..|+..+.+||+||+++....+.
T Consensus        27 p~~~~CpI~~~~m~dP--V-~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~   79 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP--V-RLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTESMLE   79 (100)
T ss_dssp             STTTBCTTTCSBCSSE--E-EET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSE
T ss_pred             cHhhCCcCccCcccCC--e-ECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChhhce
Confidence            3578999999998765  3 466 999999999999999889999999998775544

>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=99.11  E-value=7.7e-12  Score=90.88  Aligned_cols=48  Identities=25%  Similarity=0.672  Sum_probs=40.0

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~  172 (207)
                      ++..|+||++.|.+.   ..++ |||.||..||..|+.. +..||+||+++..
T Consensus        14 ~~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            357899999998754   3456 9999999999999965 6789999999853

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

Probab=99.08  E-value=8.4e-11  Score=81.10  Aligned_cols=53  Identities=17%  Similarity=0.169  Sum_probs=44.4

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      ..+..|+||++-|.++  | +++ |||.|+..||..|+..+.+||+||+++....+.
T Consensus        12 p~~~~CpI~~~~m~dP--V-~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~   64 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDP--V-RLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTESMLE   64 (85)
T ss_dssp             CTTTBCTTTCSBCSSE--E-ECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCE
T ss_pred             chheECcccCchhcCC--e-ECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChHhcc
Confidence            3578999999998765  2 466 999999999999998889999999998765443

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

Probab=99.08  E-value=2.7e-11  Score=102.61  Aligned_cols=55  Identities=27%  Similarity=0.666  Sum_probs=41.9

Q ss_pred             CCCCCcccccCccCCCCCce----eecCCCCCcccHHHHHHHhhcC-----------CCCccccCcCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETL----RSIPKCNHYFHAICIDEWLKIN-----------ATCPLCRNSRENS  173 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v----~~lp~C~H~FH~~CI~~Wl~~~-----------~~CP~CR~~~~~~  173 (207)
                      +....+|+||++.+.++..+    -..++|+|.||..||.+||++.           .+||.||+++..+
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            34678999999998873322    2233599999999999999642           4699999998643

>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=99.07  E-value=6.7e-11  Score=102.45  Aligned_cols=51  Identities=24%  Similarity=0.666  Sum_probs=42.4

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~~~~~  176 (207)
                      ..+|+||++.+.+   ...+| |||.||..||..|+. .+.+||+||+++.....+
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~i  383 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI  383 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEEC
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCceeE
Confidence            4689999998844   45677 999999999999997 788999999998765443

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

Probab=99.07  E-value=4.6e-11  Score=75.87  Aligned_cols=46  Identities=22%  Similarity=0.525  Sum_probs=38.1

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      .+...|+||++.|.+.   +.++ |||.||..||..|   ...||+||+++..
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeec
Confidence            3567899999999765   3576 9999999999874   6789999998754

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

Probab=99.06  E-value=1.7e-10  Score=81.69  Aligned_cols=53  Identities=15%  Similarity=0.140  Sum_probs=44.8

Q ss_pred             CCCcccccCccCCCCCceeecCCCC-CcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCN-HYFHAICIDEWLKINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~  177 (207)
                      ++..|+||++-|.++  | +++ || |.|+..||..|+..+.+||+||+++....+.+
T Consensus        21 ~~~~CpI~~~~m~dP--V-~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~p   74 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDP--V-VLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRP   74 (98)
T ss_dssp             TTTBCTTTCSBCSSE--E-ECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEE
T ss_pred             HhcCCcCccccccCC--e-ECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceE
Confidence            468999999998765  3 456 99 99999999999988889999999998765543

>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=99.05  E-value=4.9e-11  Score=77.68  Aligned_cols=49  Identities=18%  Similarity=0.373  Sum_probs=39.4

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      ...+|.||++...+.. +..+| |||. |+.+|+..|.+.+..||+||+++.
T Consensus         6 ~~~~C~IC~~~~~~~~-~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGN-IIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBSCEE-EEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             cCCCCcccCCcCCCeE-EEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            4578999999754331 22237 9998 999999999988899999999985

>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=99.04  E-value=5.6e-11  Score=89.62  Aligned_cols=48  Identities=17%  Similarity=0.475  Sum_probs=40.0

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC-CCccccCcCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA-TCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~~~~  172 (207)
                      +...|+||++.+.++  + .++ |||.||..||..|++.+. .||+||+++..
T Consensus        30 ~~~~C~IC~~~~~~p--v-~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           30 AKYLCSACRNVLRRP--F-QAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             GGGBCTTTCSBCSSE--E-ECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             cCcCCCCCChhhcCc--E-ECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            467899999998766  3 355 999999999999997554 89999998743

>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=99.02  E-value=9.6e-11  Score=85.41  Aligned_cols=49  Identities=18%  Similarity=0.516  Sum_probs=40.4

Q ss_pred             CCcccccCccCCCCCceeec-CCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSI-PKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~l-p~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      ...|+||++.|.++  + .+ + |||.||..||..|+.  ..||+||+++....+.
T Consensus        22 ~~~C~IC~~~~~~p--v-~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~   71 (117)
T 1jm7_B           22 LLRCSRCTNILREP--V-CLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLK   71 (117)
T ss_dssp             TTSCSSSCSCCSSC--B-CCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCC
T ss_pred             CCCCCCCChHhhCc--c-EeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCcccccc
Confidence            57899999998755  3 34 5 999999999999998  8899999998654443

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

Probab=98.99  E-value=4.1e-10  Score=72.57  Aligned_cols=48  Identities=25%  Similarity=0.558  Sum_probs=37.4

Q ss_pred             CCCCcccccCccCCCCCceeecCCCC--C---cccHHHHHHHhh--cCCCCccccCcCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCN--H---YFHAICIDEWLK--INATCPLCRNSRE  171 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~--H---~FH~~CI~~Wl~--~~~~CP~CR~~~~  171 (207)
                      .+...|.||+++.  ++.+ ++| |.  |   .||.+||.+|+.  .+.+||+||.++.
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4567899999984  3334 577 65  4   999999999994  3678999999874

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

Probab=98.91  E-value=4.5e-10  Score=75.30  Aligned_cols=43  Identities=23%  Similarity=0.632  Sum_probs=36.3

Q ss_pred             CCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      +..|+||++.+.+   ...+| |||. ||.+|+..|    ..||+||+++..
T Consensus        24 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            4689999998754   34567 9999 999999998    889999999864

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

Probab=98.88  E-value=2.5e-09  Score=70.59  Aligned_cols=49  Identities=24%  Similarity=0.575  Sum_probs=38.5

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRENSSV  175 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~~~~~  175 (207)
                      ..+...|.||++...   .+..+| |||. |+.+|+..    ...||+||+++.....
T Consensus        12 ~~~~~~C~IC~~~~~---~~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~~~   61 (68)
T 2ea5_A           12 EENSKDCVVCQNGTV---NWVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQESFA   61 (68)
T ss_dssp             CCCSSCCSSSSSSCC---CCEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCEEC
T ss_pred             CCCCCCCCCcCcCCC---CEEEEC-CCChhhhHHHHhc----CCCCCCCCcchhceEE
Confidence            345678999998754   355677 9999 99999984    5789999999865433

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

Probab=98.87  E-value=5.8e-10  Score=86.29  Aligned_cols=51  Identities=25%  Similarity=0.610  Sum_probs=41.9

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSV  175 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~~  175 (207)
                      +...|+||++.+.++  + .++ |||.||..||.+|++. +..||+||+++....+
T Consensus        17 ~~~~C~IC~~~~~~p--v-~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   68 (170)
T 3hcs_A           17 SKYECPICLMALREA--V-QTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQL   68 (170)
T ss_dssp             GGGBCTTTCSBCSSE--E-ECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGC
T ss_pred             CCCCCCCCChhhcCc--E-ECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchhhh
Confidence            467999999998765  3 466 9999999999999965 4599999999876543

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

Probab=98.85  E-value=1.2e-09  Score=76.45  Aligned_cols=51  Identities=24%  Similarity=0.712  Sum_probs=41.3

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--------CCCCcc--ccCc--CCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--------NATCPL--CRNS--REN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--------~~~CP~--CR~~--~~~  172 (207)
                      +..+|+||++++..++.+...+ |||.||.+|+..+++.        ...||.  |+..  +..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~   66 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQE   66 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECH
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCH
Confidence            4678999999998776666566 9999999999999853        247999  9998  544

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

Probab=98.85  E-value=1.2e-09  Score=90.25  Aligned_cols=54  Identities=15%  Similarity=0.161  Sum_probs=43.3

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCCCC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSVV  176 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~~~  176 (207)
                      ......|+||++.|.++  | +++ |||.||..||..|+.. +.+||+||+++....+.
T Consensus       205 ~~~~~~c~i~~~~~~dP--v-~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~  259 (281)
T 2c2l_A          205 IPDYLCGKISFELMREP--C-ITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI  259 (281)
T ss_dssp             CCSTTBCTTTCSBCSSE--E-ECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCE
T ss_pred             CCcccCCcCcCCHhcCC--e-ECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCc
Confidence            34578999999998755  3 466 9999999999999965 45699999999765543

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

Probab=98.84  E-value=9.1e-10  Score=77.22  Aligned_cols=54  Identities=24%  Similarity=0.479  Sum_probs=41.7

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC------CCCcc--ccCc-CCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN------ATCPL--CRNS-RENSSVVT  177 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~------~~CP~--CR~~-~~~~~~~~  177 (207)
                      .+..|+||++.|.++  | +++.|||.|+..||..|+..+      .+||+  |++. +....+.+
T Consensus         6 ~~~~CPI~~~~~~dP--V-~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~p   68 (94)
T 2yu4_A            6 SGFTCPITKEEMKKP--V-KNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQ   68 (94)
T ss_dssp             SCCBCTTTCSBCSSE--E-EESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEE
T ss_pred             cEeECcCcCchhcCC--E-EcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcC
Confidence            467899999998754  4 343499999999999999653      58999  9987 66555443

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

Probab=98.79  E-value=4e-09  Score=70.73  Aligned_cols=44  Identities=23%  Similarity=0.585  Sum_probs=35.5

Q ss_pred             CCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRENS  173 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~~~  173 (207)
                      +.+|+||++.+.+.   ..+| |||. ||.+|+..    ...||+||+++...
T Consensus        25 ~~~C~IC~~~~~~~---~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCCB---CCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCCE---EEec-CCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            45899999987543   3567 9999 99999964    47899999998653

>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=98.69  E-value=8.7e-09  Score=66.49  Aligned_cols=55  Identities=15%  Similarity=0.202  Sum_probs=44.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPS  179 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~  179 (207)
                      ...|+||++.+.++  | +++.|||.|.+.||.+|++.+.+||++++++..+.+++..
T Consensus         3 ~~~CpIs~~~m~dP--V-~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip~~   57 (61)
T 2bay_A            3 HMLCAISGKVPRRP--V-LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIV   57 (61)
T ss_dssp             -CCCTTTCSCCSSE--E-EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEECC
T ss_pred             eEEecCCCCCCCCC--E-EeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEECc
Confidence            35799999998754  4 3423999999999999998888899999999887776543

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

Probab=98.65  E-value=8e-09  Score=80.63  Aligned_cols=53  Identities=15%  Similarity=0.170  Sum_probs=42.9

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCCCC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSVV  176 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~~~  176 (207)
                      .....|+||++-|.++  | +++ |||.|+..||..|+.. +.+||+|+.++....++
T Consensus       104 p~~f~CPI~~elm~DP--V-~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~  157 (179)
T 2f42_A          104 PDYLCGKISFELMREP--C-ITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLI  157 (179)
T ss_dssp             CGGGBCTTTCSBCSSE--E-ECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCE
T ss_pred             cHhhcccCccccCCCC--e-ECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCc
Confidence            4568999999998754  3 456 9999999999999965 45799999998765544

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.62  E-value=1.1e-08  Score=69.31  Aligned_cols=44  Identities=27%  Similarity=0.605  Sum_probs=36.0

Q ss_pred             CCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRENS  173 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~~~  173 (207)
                      +..|.||++.+.+   ...+| |||. |+.+|+..|    ..||+||+++...
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            4589999987643   45677 9999 999999876    4999999998654

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

Probab=98.51  E-value=4.3e-08  Score=80.41  Aligned_cols=54  Identities=31%  Similarity=0.525  Sum_probs=42.8

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC--CCCcc--ccCcCCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN--ATCPL--CRNSRENSSVVT  177 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~~CP~--CR~~~~~~~~~~  177 (207)
                      ....|+||++.|.++  |+... |||.|++.||..|++.+  ..||+  ||+.+....+..
T Consensus       180 ~el~CPIcl~~f~DP--Vts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~p  237 (267)
T 3htk_C          180 IELTCPITCKPYEAP--LISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVR  237 (267)
T ss_dssp             CCSBCTTTSSBCSSE--EEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEE
T ss_pred             eeeECcCccCcccCC--eeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCc
Confidence            467899999998655  54444 99999999999999654  47999  999887665543

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

Probab=98.47  E-value=1.2e-07  Score=66.24  Aligned_cols=46  Identities=30%  Similarity=0.470  Sum_probs=37.8

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSREN  172 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~  172 (207)
                      -|.+|--.  .....|+.| |+|+||.+|+..|. ++.++||+|+.++..
T Consensus         3 fC~~C~~P--i~iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLP--IKVYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSB--CSEEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCC--eEEEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            47777544  456788898 99999999999998 567899999999854

>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=98.45  E-value=4.1e-08  Score=84.13  Aligned_cols=43  Identities=28%  Similarity=0.731  Sum_probs=36.3

Q ss_pred             CCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      +..|+||++.+.+   ...+| |||. ||..|+..|    ..||+||+++..
T Consensus       295 ~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            5789999998753   34567 9999 999999988    789999999854

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

Probab=98.28  E-value=6.4e-07  Score=72.94  Aligned_cols=50  Identities=22%  Similarity=0.558  Sum_probs=41.2

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC--CCccccCcCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA--TCPLCRNSRENS  173 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~--~CP~CR~~~~~~  173 (207)
                      ...+|+||.+-...+..   .++|+|.||..|+..|++.+.  .||.|+.+++..
T Consensus       179 ~i~~C~iC~~iv~~g~~---C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSCEE---CSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCCcc---cCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            36789999998887643   335999999999999997654  899999998664

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=96.48  E-value=0.0043  Score=40.12  Aligned_cols=46  Identities=17%  Similarity=0.341  Sum_probs=33.4

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC----CCccccCcC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA----TCPLCRNSR  170 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----~CP~CR~~~  170 (207)
                      ....|.||.+.   ++ +..--.|...||..|++..|....    .||.|+...
T Consensus        11 ~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           11 PGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            45689999743   33 333445899999999998885433    799998754

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.23  E-value=0.017  Score=39.94  Aligned_cols=34  Identities=12%  Similarity=0.357  Sum_probs=25.1

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHH
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW  156 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~W  156 (207)
                      +..|.||++++.......-+. |+|.|+..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            468999998753333333365 9999999999984

>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=94.59  E-value=0.057  Score=36.27  Aligned_cols=35  Identities=23%  Similarity=0.588  Sum_probs=23.9

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHH
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW  156 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~W  156 (207)
                      ..+..|.||- .|..++... ..-|+-+||..|+.+-
T Consensus        13 ~~D~~C~VC~-~~t~~~l~p-CRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCE-VWTAESLFP-CRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTC-CCCSSCCSS-CSSSSSCCCHHHHHHH
T ss_pred             CCCcccCccc-cccccceec-cccccccccHhhcccc
Confidence            3578999995 444443211 1138999999999986

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=93.96  E-value=0.056  Score=34.07  Aligned_cols=47  Identities=19%  Similarity=0.588  Sum_probs=32.7

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCc
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNS  169 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~  169 (207)
                      ...+..|.+|.+.   + .+..--.|...||..|+..=+..    .-.||.|++.
T Consensus         8 ~~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            8 TDHQDYCEVCQQG---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SCCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            4456789999863   3 33333358899999999975532    3379999764

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=91.95  E-value=0.059  Score=33.96  Aligned_cols=47  Identities=23%  Similarity=0.479  Sum_probs=31.9

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCcC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNSR  170 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~~  170 (207)
                      ..+..|.+|-+.   ++ +..--.|...||..|+..=+..    .-.||.|+...
T Consensus         7 ~~~~~C~vC~~~---g~-ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC---CC-EEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            356789999752   33 3333358899999999865533    33699998754

>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=90.54  E-value=0.073  Score=40.99  Aligned_cols=46  Identities=30%  Similarity=0.594  Sum_probs=32.9

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCcC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNSR  170 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~~  170 (207)
                      ++..|.+|.+.   ++ +...-.|...||..|+..-+..    .-.||.|+..-
T Consensus         3 ~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            3 NEDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             SCSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            46789999843   33 3334458899999999877643    33699998754

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=90.52  E-value=0.17  Score=30.41  Aligned_cols=44  Identities=27%  Similarity=0.603  Sum_probs=29.0

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRN  168 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~  168 (207)
                      .|.||.+.-..+ .+..--.|...||..|++.=+..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~~~-~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCC-CEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            588898653333 33333358899999999754432    236999975

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=90.51  E-value=0.25  Score=33.51  Aligned_cols=48  Identities=23%  Similarity=0.470  Sum_probs=33.4

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCcC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNSR  170 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~~  170 (207)
                      ..++..|.+|.+.   ++ +..--.|.-.||..|+++=+..    .-.||.|+...
T Consensus        22 d~n~~~C~vC~~~---g~-LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~~   73 (88)
T 1fp0_A           22 DDSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   73 (88)
T ss_dssp             SSSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCcCcCcCCC---CC-EEECCCCCCceecccCCCCCCCCcCCCcCCccccCCC
Confidence            4456789999864   33 3333358899999999776643    23699998654

>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=90.27  E-value=0.11  Score=32.77  Aligned_cols=50  Identities=24%  Similarity=0.517  Sum_probs=33.6

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-----cCCCCccccCc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-----INATCPLCRNS  169 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~  169 (207)
                      .+...|++|...+.++.....--.|..=||..|+.--..     ....||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            356679999988754443333334888899999864321     34579999864

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=89.93  E-value=0.12  Score=33.00  Aligned_cols=46  Identities=26%  Similarity=0.571  Sum_probs=31.9

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNS  169 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~  169 (207)
                      .++..|.||.+.   ++ +..--.|...||..|+..=+..    .-.||.|...
T Consensus         6 ~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~   55 (66)
T 1xwh_A            6 KNEDECAVCRDG---GE-LICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQA   55 (66)
T ss_dssp             SCCCSBSSSSCC---SS-CEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHT
T ss_pred             CCCCCCccCCCC---CC-EEEcCCCChhhcccccCCCcCcCCCCCeECccccCc
Confidence            457789999863   33 3333358899999999865532    3369999764

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.64  E-value=0.071  Score=32.90  Aligned_cols=46  Identities=26%  Similarity=0.620  Sum_probs=31.0

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccC
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRN  168 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~  168 (207)
                      ...+..|.+|.+.   ++ +..--.|...||..|+..=+..    .-.||.|++
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            3456789999864   33 3333358899999999865532    225888864

>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=89.58  E-value=0.09  Score=41.29  Aligned_cols=47  Identities=30%  Similarity=0.617  Sum_probs=33.7

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCcC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNSR  170 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~~  170 (207)
                      .++..|.+|.+.    ..+...-.|...||..|+.+-+..    .-.||.|+..-
T Consensus         5 ~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            5 PNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            356789999743    334444468899999999877643    23799998754

>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A

Probab=89.52  E-value=0.75  Score=26.95  Aligned_cols=23  Identities=17%  Similarity=0.088  Sum_probs=10.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHhh
Q 044489           45 IVIGVGIPGLLCIIGLGCYLCGR   67 (207)
Q Consensus        45 iil~i~i~~~i~~i~i~~~~~~~   67 (207)
                      |+.+++.+++++++.+..+++.|
T Consensus        14 Ia~~vVGvll~vi~~l~~~~~~R   36 (44)
T 2jwa_A           14 IISAVVGILLVVVLGVVFGILIK   36 (44)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHhhee
Confidence            33333334444444444444443

>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=89.46  E-value=3.5  Score=27.82  Aligned_cols=53  Identities=15%  Similarity=0.328  Sum_probs=37.3

Q ss_pred             CCCCcccccCccCC---CCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCC
Q 044489          120 PNDSTCPICLCEYH---PKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSREN  172 (207)
Q Consensus       120 ~~~~~C~ICL~~~~---~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~  172 (207)
                      .....|.||=++..   +++...-...|+--.|+.|.+-=. +.+.+||.|+..+..
T Consensus        14 ~~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr   70 (93)
T 1weo_A           14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             cCCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCcccc
Confidence            35679999998853   333222222577788999987655 567799999999853

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=89.17  E-value=0.19  Score=34.07  Aligned_cols=54  Identities=22%  Similarity=0.388  Sum_probs=35.7

Q ss_pred             CCCCcccccCccC-CCCCceeecCCCCCcccHHHHHHHh--hcCCCCccccCcCCCC
Q 044489          120 PNDSTCPICLCEY-HPKETLRSIPKCNHYFHAICIDEWL--KINATCPLCRNSRENS  173 (207)
Q Consensus       120 ~~~~~C~ICL~~~-~~~~~v~~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~~~~~  173 (207)
                      .++..|.||.+.- .+.+.+..--.|.-.||..|+..-+  ...-.||.|.......
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~~   79 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRARP   79 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTSC
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccchh
Confidence            3567899998653 2333444444688999999997533  2344799998765443

>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=87.94  E-value=0.26  Score=38.05  Aligned_cols=49  Identities=24%  Similarity=0.609  Sum_probs=34.5

Q ss_pred             CCcccccCccCCCCCc---eeecCCCCCcccHHHHHH------Hhh-----cCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKET---LRSIPKCNHYFHAICIDE------WLK-----INATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~---v~~lp~C~H~FH~~CI~~------Wl~-----~~~~CP~CR~~~  170 (207)
                      +..|+||...|.+++.   ....-.|..=||.+|+.-      =+.     ....||.|+..-
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            3469999999988762   333335889999999732      111     157899998864

>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=87.85  E-value=0.065  Score=36.40  Aligned_cols=52  Identities=15%  Similarity=0.374  Sum_probs=35.4

Q ss_pred             CCCcccccCccCCC-CCceeecCCCCCcccHHHHHHHhh--------cCCCCccccCcCCC
Q 044489          121 NDSTCPICLCEYHP-KETLRSIPKCNHYFHAICIDEWLK--------INATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~-~~~v~~lp~C~H~FH~~CI~~Wl~--------~~~~CP~CR~~~~~  172 (207)
                      .+..|.+|...-.. ++.+..--.|...||..|+..=|.        ..-.||.|+.....
T Consensus        15 ~~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~~   75 (88)
T 1wev_A           15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKR   75 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHCC
T ss_pred             CCCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhhh
Confidence            35689999875332 234444446899999999986553        23479999876543

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=87.56  E-value=0.18  Score=35.62  Aligned_cols=46  Identities=26%  Similarity=0.503  Sum_probs=30.7

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccC
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRN  168 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~  168 (207)
                      ..|.||.+.-.+++.+..--.|...||..|+++=|..    .-.||.|+.
T Consensus        62 ~~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           62 KTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CCBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             CccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            3688888653333344444458899999999765533    236999975

>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}

Probab=87.20  E-value=1.1  Score=26.17  Aligned_cols=7  Identities=29%  Similarity=0.188  Sum_probs=3.2

Q ss_pred             hhHHHHH
Q 044489           45 IVIGVGI   51 (207)
Q Consensus        45 iil~i~i   51 (207)
                      |+.+++.
T Consensus        13 IA~gVVg   19 (44)
T 2ks1_B           13 IATGMVG   19 (44)
T ss_dssp             STHHHHH
T ss_pred             EEeehhH
Confidence            4444444

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=87.07  E-value=0.37  Score=31.25  Aligned_cols=50  Identities=22%  Similarity=0.383  Sum_probs=33.4

Q ss_pred             CCCCcccccCccC-CCCCceeecCCCCCcccHHHHHHHh--hcCCCCccccCc
Q 044489          120 PNDSTCPICLCEY-HPKETLRSIPKCNHYFHAICIDEWL--KINATCPLCRNS  169 (207)
Q Consensus       120 ~~~~~C~ICL~~~-~~~~~v~~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~  169 (207)
                      .++..|.||.+.- .+++.+..--.|.-.||..|+..=.  +..-.||.|+..
T Consensus        14 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~~   66 (71)
T 2ku3_A           14 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQS   66 (71)
T ss_dssp             CSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcCc
Confidence            3567899998653 3334454444688999999997532  223469888653

>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=86.80  E-value=0.26  Score=34.62  Aligned_cols=47  Identities=19%  Similarity=0.584  Sum_probs=30.1

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCcccc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCR  167 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR  167 (207)
                      .++..|.||.+.-+..+.+ .-..|+..||..|+...+..    .-.||.|+
T Consensus         5 ~~~~~C~~C~~~g~~~~ll-~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            5 SSGANCAVCDSPGDLLDQF-FCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCSCBTTTCCCCCTTTSE-ECSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCcCCCCCCCCcCCe-ECCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            3577899998763322223 33359999999999877632    22455553

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=86.65  E-value=0.16  Score=33.13  Aligned_cols=50  Identities=20%  Similarity=0.465  Sum_probs=33.5

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh----cCCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK----INATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~----~~~~CP~CR~~~~  171 (207)
                      +...|.||..... ++....--.|.--||..|+..-..    ....||.|+..+.
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            3456999987653 333333335889999999976543    2447999987654

>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=86.25  E-value=2.1  Score=27.97  Aligned_cols=48  Identities=21%  Similarity=0.445  Sum_probs=31.4

Q ss_pred             CCCcccccCccCCCCC-ceeecCCCCCcccHHHHHHHh-----hcCCCCccccCcC
Q 044489          121 NDSTCPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWL-----KINATCPLCRNSR  170 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl-----~~~~~CP~CR~~~  170 (207)
                      ....| ||...+.++. .|.-- .|..=||..|+.---     .....||.|+..-
T Consensus        11 ~~~~C-~C~~~~d~~~~MIqCd-~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           11 VPVYC-LCRQPYNVNHFMIECG-LCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCS-TTSCSCCSSSCEEEBT-TTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CccEE-EcCCccCCCCceEEcC-CCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            34566 9988775333 34333 488889999985321     1355799998764

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=85.71  E-value=0.18  Score=31.44  Aligned_cols=46  Identities=26%  Similarity=0.626  Sum_probs=31.7

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCcC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNSR  170 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~~  170 (207)
                      .+..|.+|.+.   ++.+ .--.|...||..|+..=+..    .-.||.|....
T Consensus         4 ~~~~C~vC~~~---g~ll-~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   53 (60)
T 2puy_A            4 HEDFCSVCRKS---GQLL-MCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQM   53 (60)
T ss_dssp             CCSSCTTTCCC---SSCE-ECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHH
T ss_pred             CCCCCcCCCCC---CcEE-EcCCCCcCEECCcCCCCcCCCCCCceEChhccChh
Confidence            46789999863   3333 33358899999999865532    33699997654

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

Probab=84.93  E-value=1.4  Score=32.45  Aligned_cols=46  Identities=24%  Similarity=0.389  Sum_probs=32.2

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-----------cCCCCccccCc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-----------INATCPLCRNS  169 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-----------~~~~CP~CR~~  169 (207)
                      ..+..|.+|-+-   + ++..--.|-..||..||++=+.           ..-.||+|+.+
T Consensus        61 g~~d~C~vC~~G---G-~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~  117 (142)
T 2lbm_A           61 GMDEQCRWCAEG---G-NLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             SCBCSCSSSCCC---S-SEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             CCCCeecccCCC---C-cEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            356789999853   3 3433335889999999997652           23379999753

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=84.43  E-value=1.9  Score=30.23  Aligned_cols=47  Identities=23%  Similarity=0.474  Sum_probs=29.4

Q ss_pred             CCCcccccCccC-----CCCCceeecCCCCCcccHHHHHH------Hh-hcCCCCcccc
Q 044489          121 NDSTCPICLCEY-----HPKETLRSIPKCNHYFHAICIDE------WL-KINATCPLCR  167 (207)
Q Consensus       121 ~~~~C~ICL~~~-----~~~~~v~~lp~C~H~FH~~CI~~------Wl-~~~~~CP~CR  167 (207)
                      ....|.+|+..-     ..++++..-..|+..||..|+..      -+ +..-.||-|+
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   62 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECK   62 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTTC
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccCC
Confidence            356799998753     12334444446999999999953      22 3334566664

>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}

Probab=83.80  E-value=1.6  Score=25.54  Aligned_cols=22  Identities=32%  Similarity=0.232  Sum_probs=9.1

Q ss_pred             hhHHHHH-HHHHHHHHHHHHHHh
Q 044489           45 IVIGVGI-PGLLCIIGLGCYLCG   66 (207)
Q Consensus        45 iil~i~i-~~~i~~i~i~~~~~~   66 (207)
                      |+.+++. +++++++.+..+++.
T Consensus        12 IA~gVVgGv~~v~ii~~~~~~~~   34 (44)
T 2l2t_A           12 IAAGVIGGLFILVIVGLTFAVYV   34 (44)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEeehHHHHHHHHHHHHHHHHh
Confidence            4555444 333333334434433

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=83.37  E-value=1.4  Score=29.20  Aligned_cols=39  Identities=13%  Similarity=0.337  Sum_probs=28.1

Q ss_pred             CCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHH
Q 044489          118 PKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW  156 (207)
Q Consensus       118 ~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~W  156 (207)
                      ++.+...|.+|-..|..-..--.-..||++|+.+|....
T Consensus        17 pd~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   55 (84)
T 1z2q_A           17 EDEDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHR   55 (84)
T ss_dssp             CTTTCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCE
T ss_pred             cCCCCCCCcCcCCccccchhcccccCCCcEEChHHhCCe
Confidence            344567899999998765432233369999999997654

>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=82.25  E-value=1.4  Score=27.97  Aligned_cols=49  Identities=22%  Similarity=0.419  Sum_probs=31.7

Q ss_pred             CCCCcccccCccCCCCCceeecC-CCCCcccHHHHHHHh------h----cCCCCccccC
Q 044489          120 PNDSTCPICLCEYHPKETLRSIP-KCNHYFHAICIDEWL------K----INATCPLCRN  168 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp-~C~H~FH~~CI~~Wl------~----~~~~CP~CR~  168 (207)
                      .....|.+|...+.+++..+.-- .|.--||..|+.---      .    ....||.|++
T Consensus         6 ~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvglt~~~~~~l~~e~~~~w~C~~C~~   65 (65)
T 2vpb_A            6 DPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTCMA   65 (65)
T ss_dssp             ---CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHTCCHHHHHHHHHCTTEEECCHHHHC
T ss_pred             CCcCcCccCCCccCCCCCeEecccCccccCchhccCCCHHHHHHhhccCCCcEECcCccC
Confidence            34678999999987666544443 588899999983211      1    1346888863

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=82.22  E-value=2.2  Score=30.90  Aligned_cols=46  Identities=24%  Similarity=0.400  Sum_probs=31.4

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh------h-----cCCCCccccCc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL------K-----INATCPLCRNS  169 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl------~-----~~~~CP~CR~~  169 (207)
                      ..+..|.||-+-    -++..--.|-..||.+||.+=+      +     ..-.|++|+.+
T Consensus        55 g~~~~C~vC~dG----G~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~~  111 (129)
T 3ql9_A           55 GMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHPE  111 (129)
T ss_dssp             SCBSSCTTTCCC----SEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCCG
T ss_pred             CCCCcCeecCCC----CeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCCH
Confidence            346779999853    3443333588999999999742      1     22479999654

>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=81.96  E-value=0.89  Score=28.60  Aligned_cols=51  Identities=22%  Similarity=0.513  Sum_probs=34.6

Q ss_pred             CCCCcccccCccCC-CCCceeecCCCCCcccHHHHHHHhh-------cCCCCccccCcC
Q 044489          120 PNDSTCPICLCEYH-PKETLRSIPKCNHYFHAICIDEWLK-------INATCPLCRNSR  170 (207)
Q Consensus       120 ~~~~~C~ICL~~~~-~~~~v~~lp~C~H~FH~~CI~~Wl~-------~~~~CP~CR~~~  170 (207)
                      .++..|.||..... ++..+..-..|...||..|+..=+.       ..-.||.|+...
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            35678999997643 2344444456899999999886432       234799997643

>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=81.92  E-value=1.9  Score=28.56  Aligned_cols=40  Identities=20%  Similarity=0.293  Sum_probs=30.6

Q ss_pred             CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc
Q 044489          120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI  159 (207)
Q Consensus       120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~  159 (207)
                      .....|.+|.+.+++..-|.--..=+|.||..|-...+++
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            3467899999999988877522123699999999998854

>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=81.79  E-value=0.69  Score=44.29  Aligned_cols=53  Identities=15%  Similarity=0.177  Sum_probs=43.6

Q ss_pred             CCCcccccCccCCCCCceeecCCCC-CcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCN-HYFHAICIDEWLKINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~  177 (207)
                      +...|+|-++-+.++  | ++| -| +.|-..+|.+||.++.+||+=|+++....+++
T Consensus       890 ~~F~cPIs~~lM~DP--V-ilp-sG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liP  943 (968)
T 3m62_A          890 DEFLDPLMYTIMKDP--V-ILP-ASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTP  943 (968)
T ss_dssp             GGGBCTTTCSBCSSE--E-ECT-TTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEE
T ss_pred             HHhCCcchhhHHhCC--e-EcC-CCCEEECHHHHHHHHhcCCCCCCCCCCCCcccccc
Confidence            468899999987655  3 466 76 68999999999988999999999998766543

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.44  E-value=1.7  Score=28.82  Aligned_cols=39  Identities=23%  Similarity=0.459  Sum_probs=26.7

Q ss_pred             CCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHH
Q 044489          117 LPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDE  155 (207)
Q Consensus       117 ~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~  155 (207)
                      .++.+...|.+|-..|..-..--.-..||++|+..|...
T Consensus         9 ~pd~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   47 (84)
T 1x4u_A            9 YPTNNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSF   47 (84)
T ss_dssp             CSCCCCSSCSSSCCCCCSSSCCEECSSSCCEECTTTSCE
T ss_pred             ccCCCCCcCcCcCCccccchhhhhhcCCCcEEChhhcCC
Confidence            344556789999999865432222336999999999543

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=81.17  E-value=0.42  Score=36.94  Aligned_cols=45  Identities=24%  Similarity=0.496  Sum_probs=30.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~~  170 (207)
                      +..|.+|.+.   ++ +...-.|...||..|+..=+..    .-.||.|+..-
T Consensus         2 ~~~C~~C~~~---g~-ll~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~~   50 (189)
T 2ro1_A            2 ATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   50 (189)
T ss_dssp             CCCBTTTCCC---SS-CCCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSCSC
T ss_pred             CCcCccCCCC---Cc-eeECCCCCchhccccCCCCcccCCCCCCCCcCccCCC
Confidence            4579999854   33 3233358899999999764432    23699998764

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=80.63  E-value=0.83  Score=31.42  Aligned_cols=45  Identities=20%  Similarity=0.358  Sum_probs=30.1

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh---cCCCCccccC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK---INATCPLCRN  168 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~---~~~~CP~CR~  168 (207)
                      ...| ||-.....+..+. --.|.--||..|+..=+.   ....||.|+.
T Consensus        28 ~vrC-iC~~~~~~~~mi~-Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           28 VTRC-ICGFTHDDGYMIC-CDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             BCCC-TTSCCSCSSCEEE-BTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CEEe-ECCCccCCCcEEE-cCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            3567 8987665554443 335889999999865332   2347999974

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=80.26  E-value=1.4  Score=29.20  Aligned_cols=38  Identities=18%  Similarity=0.425  Sum_probs=27.2

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHH
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW  156 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~W  156 (207)
                      +.+...|.+|-..|..-..--.-..||++|+.+|....
T Consensus        16 d~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   53 (82)
T 2yw8_A           16 DDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNE   53 (82)
T ss_dssp             CCCCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCEE
T ss_pred             CccCCcccCcCCcccCccccccCCCCCCEEChHHhCCe
Confidence            44567899999998755432233369999999997653

>2klu_A T-cell surface glycoprotein CD4; cell membrane, disulfide bond, HOST- virus interaction, immune response, immunoglobulin domain, lipoprotein; NMR {Homo sapiens}

Probab=80.10  E-value=3.4  Score=26.24  Aligned_cols=6  Identities=0%  Similarity=-0.252  Sum_probs=2.6

Q ss_pred             Ccccch
Q 044489           38 PRVARY   43 (207)
Q Consensus        38 ~~~~~y   43 (207)
                      ...|+.
T Consensus         4 ~~~~p~    9 (70)
T 2klu_A            4 VPRGSM    9 (70)
T ss_dssp             SCCCSS
T ss_pred             chhhHH
Confidence            344444

>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=80.02  E-value=0.39  Score=33.57  Aligned_cols=49  Identities=20%  Similarity=0.438  Sum_probs=33.7

Q ss_pred             CCcccccCccCCCCCceeecC-CCCCcccHHHHHHHh----------hcCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKETLRSIP-KCNHYFHAICIDEWL----------KINATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp-~C~H~FH~~CI~~Wl----------~~~~~CP~CR~~~  170 (207)
                      ...|.||...+.+......-- .|..=||.+|+.---          .....||.|+..-
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~   62 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTK   62 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTT
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcC
Confidence            457999999986655444332 478889999984211          1345799998764

---

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	207
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	8e-18
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	9e-12
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-09
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	7e-09
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-08
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	5e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	6e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	6e-04
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	0.004

>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 = 71.8 bits (176), Expect = 8e-18
 Identities = 22/49 (44%), Positives = 30/49 (61%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
           +   C +CL E    E  R +P+C H FHA C+D WL  ++TCPLCR +
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

>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 = 56.5 bits (136), Expect = 9e-12
 Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 3/43 (6%)

Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
           CPICL +            C H F  +CI  W++ N TCPLC+
Sbjct: 8   CPICLEDPSNYSM---ALPCLHAFCYVCITRWIRQNPTCPLCK 47

>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 = 54.0 bits (129), Expect = 1e-10
 Identities = 16/61 (26%), Positives = 16/61 (26%), Gaps = 14/61 (22%)

Query: 121 NDSTCPICLCEYHPKETLRSIP--------------KCNHYFHAICIDEWLKINATCPLC 166
               C IC                             CNH FH  CI  WLK    CPL 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 167 R 167
            
Sbjct: 80  N 80

>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 = 50.5 bits (120), Expect = 1e-09
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 2/48 (4%)

Query: 122 DSTCPICLCEYHPKETLRSIP-KCNHYFHAICIDEWLKIN-ATCPLCR 167
           D  CP C    +   +L+ +   C H     C+D         CP C 
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

>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 = 48.2 bits (114), Expect = 7e-09
 Identities = 10/46 (21%), Positives = 14/46 (30%), Gaps = 1/46 (2%)

Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNS 169
           CP+C+      +       C +     C        N  CP CR  
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 48

>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 = 48.5 bits (114), Expect = 2e-08
 Identities = 17/94 (18%), Positives = 30/94 (31%), Gaps = 19/94 (20%)

Query: 116 RLPKPNDSTCPICLCEYH--------------PKETLRSIPKCNHYFHAICIDEWLK--- 158
            L    +  C IC+ +                    +  + KC+H FH +C+        
Sbjct: 19  ELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN 78

Query: 159 --INATCPLCRNSRENSSVVTPSSSIKRGRKRPS 190
              +  CP C+      +   P   ++  R  PS
Sbjct: 79  KDGSLQCPSCKTIYGEKTGTQPWGKMEVFRSGPS 112

>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 = 46.8 bits (110), Expect = 2e-08
 Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 3/50 (6%)

Query: 121 NDSTCPICLCEYHPKETLRSIPK-CNHYFHAICIDEWLKIN--ATCPLCR 167
           +   C IC  E   +              H  C+  WL I+    C +C 
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>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 = 46.9 bits (111), Expect = 3e-08
 Identities = 12/58 (20%), Positives = 20/58 (34%), Gaps = 5/58 (8%)

Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN-ATCPLCRNSRENSSVVT 177
               C IC       + ++  P C H     C+  W +     CP CR   + +  + 
Sbjct: 22  TFQLCKICAEND---KDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV 75

>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 = 42.2 bits (99), Expect = 1e-06
 Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 7/44 (15%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
            C  C  E    + L     C H   + C++        CP+C+
Sbjct: 8   RCQQCQAEAKCPKLL----PCLHTLCSGCLEAS---GMQCPICQ 44

>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 = 41.6 bits (97), Expect = 5e-06
 Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 9/54 (16%)

Query: 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--------NATCPLCR 167
            S C +CL EY  ++    I +C   F  +C+ +++++          +CP   
Sbjct: 5   SSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.1 bits (96), Expect = 6e-06
 Identities = 17/60 (28%), Positives = 23/60 (38%), Gaps = 5/60 (8%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSVVTPSSSI 182
           +C IC               C H F  ICI   LK+  + CP CR     + + +P  S 
Sbjct: 25  SCQICEHILADPVETS----CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSF 80

>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 = 40.4 bits (94), Expect = 1e-05
 Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 7/49 (14%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL---KINATCPLCRNS 169
            CPICL       +     KC+H F   C+ + L   K  + CPLC+N 
Sbjct: 23  ECPICLELIKEPVST----KCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>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 = 39.8 bits (92), Expect = 2e-05
 Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 5/44 (11%)

Query: 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
            C  C         L     C H F + C+ + +     CP+C 
Sbjct: 24  RCSRCTNILREPVCL---GGCEHIFCSNCVSDCI--GTGCPVCY 62

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 35.4 bits (81), Expect = 6e-04
 Identities = 11/65 (16%), Positives = 18/65 (27%), Gaps = 4/65 (6%)

Query: 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPS 179
           P    CPI L        +         +    I +WL                + +TP+
Sbjct: 6   PEYFRCPISLELMKDPVIVS----TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPN 61

Query: 180 SSIKR 184
             +K 
Sbjct: 62  YVLKS 66

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.3 bits (75), Expect = 0.004
 Identities = 9/65 (13%), Positives = 17/65 (26%), Gaps = 4/65 (6%)

Query: 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPS 179
           P+     I             I      +    I+E L+          S      + P+
Sbjct: 5   PDYLCGKISFELMRE----PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPN 60

Query: 180 SSIKR 184
            ++K 
Sbjct: 61  LAMKE 65

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	207
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.8
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.64
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.62
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.61
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.55
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.52
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.47
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.36
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.34
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.31
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.31
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.18
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.09
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.06
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.97
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.79
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.44
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	94.33
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	92.69
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	92.04
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	91.7
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	91.63
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	89.92
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	88.81
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	88.8
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	88.62
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	86.76
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	85.9
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	84.92
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	82.1

>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=99.80  E-value=1.3e-20  Score=118.69  Aligned_cols=51  Identities=43%  Similarity=0.976  Sum_probs=46.8

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      ++.+|+||+++|..++.++.++.|+|.||.+||.+|++.+.+||+||+++.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            456899999999999999888779999999999999999999999999873

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=2.6e-17  Score=102.22  Aligned_cols=48  Identities=21%  Similarity=0.515  Sum_probs=40.6

Q ss_pred             cccccCccCCCCCcee-ecCCCCCcccHHHHHHHhhc-CCCCccccCcCCC
Q 044489          124 TCPICLCEYHPKETLR-SIPKCNHYFHAICIDEWLKI-NATCPLCRNSREN  172 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~-~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~  172 (207)
                      +|+||+++|..++.+. .++ |||.||.+||.+|++. +..||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            7999999998777544 455 9999999999999975 5579999999864

>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=99.64  E-value=7.6e-17  Score=105.61  Aligned_cols=49  Identities=39%  Similarity=0.915  Sum_probs=42.3

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN  172 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~  172 (207)
                      ..++|+||++.+.+  .++.++ |||.||.+||.+|++.+.+||+||+++..
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            45689999999864  456677 99999999999999999999999998753

>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=99.62  E-value=2.9e-16  Score=112.84  Aligned_cols=63  Identities=21%  Similarity=0.457  Sum_probs=47.4

Q ss_pred             CCCcccccCccCCCC---------------CceeecCCCCCcccHHHHHHHhhcC-----CCCccccCcCCCCCCCCCCc
Q 044489          121 NDSTCPICLCEYHPK---------------ETLRSIPKCNHYFHAICIDEWLKIN-----ATCPLCRNSRENSSVVTPSS  180 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~---------------~~v~~lp~C~H~FH~~CI~~Wl~~~-----~~CP~CR~~~~~~~~~~~~~  180 (207)
                      .+++|+||++++...               ..+..++ |+|.||.+||..||+.+     .+||+||+.+..+....|..
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~~qP~~  102 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWG  102 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSCTTS
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccCcCCCCCC
Confidence            356899999987542               2345565 99999999999999643     47999999997776666555


Q ss_pred             cccc
Q 044489          181 SIKR  184 (207)
Q Consensus       181 ~~~~  184 (207)
                      .++.
T Consensus       103 ~~~~  106 (114)
T d1v87a_         103 KMEV  106 (114)
T ss_dssp             SCCC
T ss_pred             ceee
Confidence            5543

>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=99.61  E-value=2.1e-16  Score=108.58  Aligned_cols=50  Identities=36%  Similarity=0.624  Sum_probs=41.9

Q ss_pred             CCCcccccCccCCCCC---------------ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489          121 NDSTCPICLCEYHPKE---------------TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE  171 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~---------------~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~  171 (207)
                      .+++|+||++++.+..               .+..++ |||.||.+||++||+.+.+||+||+++.
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            4567999999876533               245566 9999999999999999999999999975

>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=99.55  E-value=1.6e-15  Score=98.32  Aligned_cols=53  Identities=25%  Similarity=0.524  Sum_probs=40.9

Q ss_pred             CCCcccccCccCCCC-C-ceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCC
Q 044489          121 NDSTCPICLCEYHPK-E-TLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSS  174 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~-~-~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~  174 (207)
                      ++..|+||++++..+ + .+.+++ |||.||.+||.+|++. +.+||+||+++....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            467999999986433 3 344555 9999999999999954 568999999886543

>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=99.52  E-value=6e-15  Score=99.15  Aligned_cols=51  Identities=24%  Similarity=0.666  Sum_probs=41.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~~~~~  176 (207)
                      ...|+||++.+.+   .++++ |||.||.+||..|++ ++++||+||+++.....+
T Consensus        23 ~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i   74 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI   74 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCS
T ss_pred             CCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCcee
Confidence            4579999998754   55777 999999999999996 456899999999765443

>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=99.47  E-value=4.7e-15  Score=93.21  Aligned_cols=51  Identities=16%  Similarity=0.247  Sum_probs=43.4

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~  177 (207)
                      .|+||++.+.++  + .+++|||.||.+||.+|++++.+||+||+++..+++++
T Consensus         2 ~C~Ic~~~~~~P--v-~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dLip   52 (56)
T d2baya1           2 LCAISGKVPRRP--V-LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVE   52 (56)
T ss_dssp             CCTTTCSCCSSE--E-EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEE
T ss_pred             CCccCCchHHhc--C-ccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhcee
Confidence            599999998644  3 34459999999999999999999999999998877654

>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=99.36  E-value=1.2e-13  Score=86.53  Aligned_cols=48  Identities=21%  Similarity=0.515  Sum_probs=39.0

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      ..+|+||++.|.+.   +++| |||.||.+||++|   +.+||+||+++......
T Consensus         6 ~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~~   53 (56)
T d1bora_           6 FLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGADT   53 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSSC
T ss_pred             CCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCCCC
Confidence            45899999998754   4677 9999999999865   66899999998755443

>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=99.34  E-value=2.8e-13  Score=92.08  Aligned_cols=53  Identities=30%  Similarity=0.629  Sum_probs=42.9

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSRENSSVVTP  178 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~~~~~~~  178 (207)
                      ...|+||++.+.+.   .+++ |||.||..||.+|++ ++..||+||.++...++..|
T Consensus        23 ~l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P   76 (86)
T d1rmda2          23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP   76 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCC
T ss_pred             CcCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCH
Confidence            35799999998644   4566 999999999999996 45689999999877665544

>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=99.31  E-value=9e-13  Score=83.62  Aligned_cols=53  Identities=21%  Similarity=0.408  Sum_probs=38.6

Q ss_pred             CCCCCcccccCccCCCCCcee-ecCCCCCcccHHHHHHHh--hcCCCCccccCcCC
Q 044489          119 KPNDSTCPICLCEYHPKETLR-SIPKCNHYFHAICIDEWL--KINATCPLCRNSRE  171 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~-~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~~~  171 (207)
                      +++...|.||++++.+..... ....|+|.||.+||.+|+  +.+.+||+||+++.
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            345678999999886543211 111246999999999999  35568999999875

>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=99.31  E-value=7.6e-13  Score=92.99  Aligned_cols=50  Identities=34%  Similarity=0.751  Sum_probs=40.5

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC---CCCccccCcCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN---ATCPLCRNSRENSSV  175 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~~~~~~~  175 (207)
                      ..+|+||++.|.++  + .++ |||.||..||..|++.+   ..||+||+++....+
T Consensus        21 ~l~CpIC~~~~~~p--v-~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l   73 (103)
T d1jm7a_          21 ILECPICLELIKEP--V-STK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (103)
T ss_dssp             HTSCSSSCCCCSSC--C-BCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CcCCCccCchhCCe--E-EcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhC
Confidence            35799999998765  2 466 99999999999999654   379999999876554

>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=99.18  E-value=2.8e-12  Score=89.02  Aligned_cols=50  Identities=18%  Similarity=0.428  Sum_probs=39.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV  176 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~  176 (207)
                      ...|+||++.|.++  +...+ |||.||.+||.+|+.  ..||.||+++....+.
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~   71 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLK   71 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCC
T ss_pred             cCCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHh--ccccccCCcCchhhCc
Confidence            45899999999765  33344 999999999999985  3599999988665543

>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=99.09  E-value=4.3e-11  Score=79.58  Aligned_cols=52  Identities=19%  Similarity=0.445  Sum_probs=43.3

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSVV  176 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~~~  176 (207)
                      ++..|+||++.|.+.  | +++ |||.|+..||.+|++. +..||.|+.++....+.
T Consensus         7 ~~l~CpIc~~~m~dP--V-~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~   59 (78)
T d1t1ha_           7 EYFRCPISLELMKDP--V-IVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLT   59 (78)
T ss_dssp             SSSSCTTTSCCCSSE--E-EET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCE
T ss_pred             ccCCCcCcCchhhCc--e-Ecc-CCCcchHHHHHHHHHHCCCCCCcccccCCccccc
Confidence            578999999998765  3 566 9999999999999965 56799999998776554

>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=99.06  E-value=4.3e-11  Score=79.99  Aligned_cols=52  Identities=13%  Similarity=0.167  Sum_probs=42.6

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSRENSSVV  176 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~~~~~  176 (207)
                      ++..|+||++-|.++  | +++ |||.|+..||.+|+. .+.+||+||+++....+.
T Consensus         6 ~~l~CpIc~~l~~dP--v-~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~   58 (80)
T d2c2la2           6 DYLCGKISFELMREP--C-ITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI   58 (80)
T ss_dssp             STTBCTTTCSBCSSE--E-ECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCE
T ss_pred             ccccCcCcCchhhhh--c-ccC-CcCeecHHHHHHHHhcCCccCCCccccccccccc
Confidence            567899999998765  3 466 999999999999995 456899999998765443

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=2.7e-10  Score=78.93  Aligned_cols=54  Identities=15%  Similarity=0.134  Sum_probs=44.6

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT  177 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~  177 (207)
                      ++..|+||++-|.++  | +++.|+|.|++.||.+||+++..||+||+++....+.+
T Consensus        21 ~~f~CPI~~~lm~dP--V-~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~p   74 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP--V-VLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRP   74 (98)
T ss_dssp             TTTBCTTTCSBCSSE--E-ECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEE
T ss_pred             HHhCCcCchhHHHHH--H-hcccccchhhHHHHHHHHHhcCCcccccccccchhhcc
Confidence            478999999998765  3 56645568999999999999999999999997766653

>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=98.79  E-value=6.1e-10  Score=76.32  Aligned_cols=47  Identities=23%  Similarity=0.655  Sum_probs=37.3

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC--------CCCccccC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN--------ATCPLCRN  168 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--------~~CP~CR~  168 (207)
                      +..+|+||++++...+.+..++ |+|.||.+|+..|++.+        ..||.|+-
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4679999999997777666665 99999999999999421        26998653

>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=94.44  E-value=0.01  Score=34.56  Aligned_cols=44  Identities=27%  Similarity=0.597  Sum_probs=30.5

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC----CCCccccC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN----ATCPLCRN  168 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~  168 (207)
                      .|.||-..-.. +.+..--.|...||.+|++.-+...    -.||.||.
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            58888765433 3344444699999999998876432    26999975

>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=94.33  E-value=0.0065  Score=37.18  Aligned_cols=49  Identities=24%  Similarity=0.534  Sum_probs=35.2

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHH---h--hcCCCCccccCc
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW---L--KINATCPLCRNS  169 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~W---l--~~~~~CP~CR~~  169 (207)
                      ....|.+|.+...+++....--.|+.-||..|+..=   .  ..+..||.|+..
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            466899999887666654444469999999998532   1  134579999865

>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=92.69  E-value=0.29  Score=30.71  Aligned_cols=47  Identities=21%  Similarity=0.430  Sum_probs=30.8

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHH--HH-hh--cCCCCccccCcC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICID--EW-LK--INATCPLCRNSR  170 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~--~W-l~--~~~~CP~CR~~~  170 (207)
                      .+-||...+..++....--.|.--||..|+.  .. ..  .+..||.|+...
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            4449988765554433344688999999984  22 22  246899998754

>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=92.04  E-value=0.11  Score=33.09  Aligned_cols=36  Identities=22%  Similarity=0.566  Sum_probs=25.8

Q ss_pred             CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHH
Q 044489          119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW  156 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~W  156 (207)
                      ..++..|.|| +.|...+.. ...-|+.+||..|+.+-
T Consensus        12 v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            3457899999 666555532 11148899999999986

>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=91.70  E-value=0.025  Score=34.11  Aligned_cols=46  Identities=24%  Similarity=0.497  Sum_probs=31.4

Q ss_pred             CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----CCCCccccCcC
Q 044489          121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----NATCPLCRNSR  170 (207)
Q Consensus       121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~~  170 (207)
                      .+..|.+|.+.   ++ +..--.|.-.||..|+..-+..    .-.||.|+.+-
T Consensus         8 ~~~~C~~C~~~---g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           8 HMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CcCCCcCCCCC---Ce-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            45679999752   33 3333358899999999866633    33699997653

>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=91.63  E-value=0.055  Score=33.47  Aligned_cols=45  Identities=24%  Similarity=0.473  Sum_probs=30.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC----CCCccccCcC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN----ATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~~~  170 (207)
                      ...|.+|.+.   ++ +..--.|...||..|+...+...    -.||.|+..-
T Consensus         7 c~~C~~C~~~---~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           7 ATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCc---CE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            4567777542   33 33444589999999999887433    3699997654

>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=89.92  E-value=0.053  Score=34.96  Aligned_cols=49  Identities=16%  Similarity=0.415  Sum_probs=32.1

Q ss_pred             CCcccccCccCCCC-CceeecCCCCCcccHHHHHHHh-----h---cCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPK-ETLRSIPKCNHYFHAICIDEWL-----K---INATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~-~~v~~lp~C~H~FH~~CI~~Wl-----~---~~~~CP~CR~~~  170 (207)
                      ...|.||....... ..+..--.|+..||..|+...+     +   ..-.||.|....
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~   73 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchH
Confidence            45699998654332 3344344588999999987443     1   134799997653

>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=88.81  E-value=0.11  Score=32.65  Aligned_cols=48  Identities=19%  Similarity=0.490  Sum_probs=31.1

Q ss_pred             CCcccccCccCCCCCceeec-CCCCCcccHHHHHH----Hh-----hcCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKETLRSI-PKCNHYFHAICIDE----WL-----KINATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~l-p~C~H~FH~~CI~~----Wl-----~~~~~CP~CR~~~  170 (207)
                      ...| ||-+....+..+..- ..|..=||..|+.-    .-     .....||.|+..-
T Consensus        16 ~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T d1wewa_          16 KVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             ccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcC
Confidence            4567 999877655544332 13899999999842    10     1135799998654

>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=88.80  E-value=0.2  Score=29.76  Aligned_cols=43  Identities=23%  Similarity=0.542  Sum_probs=31.7

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccc
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLC  166 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~C  166 (207)
                      ...|--|...+.+. .+..-++|++.|+.+| |-+. +.-.+||-|
T Consensus        15 ~~~C~gC~~~l~~~-~~y~C~~C~~~FC~dC-D~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQ-HVYVCAVCQNVFCVDC-DVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTS-EEECCTTTTCCBCHHH-HHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCC-ceEECcCCCCcccccc-chhhhhhhcCCCCC
Confidence            56799999888543 3455678999999999 3344 555689987

>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=88.62  E-value=1.9  Score=27.31  Aligned_cols=54  Identities=15%  Similarity=0.316  Sum_probs=38.0

Q ss_pred             CCCCCcccccCccCCC---CCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCC
Q 044489          119 KPNDSTCPICLCEYHP---KETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSREN  172 (207)
Q Consensus       119 ~~~~~~C~ICL~~~~~---~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~  172 (207)
                      ......|.||-++...   ++...-...|+--.|+.|.+-=. ..+..||.|+.....
T Consensus        13 ~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr   70 (93)
T d1weoa_          13 NLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             CCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             hcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhh
Confidence            4457899999987643   33222233577788999987544 567799999999854

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.76  E-value=0.03  Score=32.66  Aligned_cols=45  Identities=18%  Similarity=0.451  Sum_probs=29.5

Q ss_pred             cccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489          124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN  168 (207)
Q Consensus       124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~  168 (207)
                      .|.+|-..|..-..-..-..||++|+.+|....-+....|..|.+
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            488888888655433334469999999997665455567887754

>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=85.90  E-value=0.33  Score=29.88  Aligned_cols=43  Identities=28%  Similarity=0.647  Sum_probs=25.3

Q ss_pred             CcccccCccCCCCCceeec-CCCCC-cccHHHHHHHhhc----CCCCccccCc
Q 044489          123 STCPICLCEYHPKETLRSI-PKCNH-YFHAICIDEWLKI----NATCPLCRNS  169 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~l-p~C~H-~FH~~CI~~Wl~~----~~~CP~CR~~  169 (207)
                      .-| ||.+.. +++.+... -.|.+ -||..|+.  |..    .-.||.|+..
T Consensus        17 ~~C-iC~~~~-~~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          17 TYC-LCNQVS-YGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             CCS-TTCCCC-CSSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CEE-EeCCCC-CCCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            345 998653 33333321 12444 59999985  332    3379999864

>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=84.92  E-value=0.75  Score=28.14  Aligned_cols=47  Identities=21%  Similarity=0.510  Sum_probs=29.9

Q ss_pred             CCcccccCccCCCCCceeecCCCCCcccHHHHH------HH---hhcCCCCccccCcC
Q 044489          122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICID------EW---LKINATCPLCRNSR  170 (207)
Q Consensus       122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~------~W---l~~~~~CP~CR~~~  170 (207)
                      ...| ||-.....+. ...--.|.--||..|+.      ..   ......||.|+..-
T Consensus        16 ~~~C-iC~~~~~~~~-mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~   71 (76)
T d1wema_          16 ALYC-ICRQPHNNRF-MICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             CCCS-TTCCCCCSSC-EEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             cCEE-ECCCccCCCe-EEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcC
Confidence            4457 8977654443 33344588999999982      11   13356899997653

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=82.10  E-value=0.15  Score=31.44  Aligned_cols=47  Identities=19%  Similarity=0.332  Sum_probs=31.6

Q ss_pred             CcccccCccCCCCCceeecCCCCCcccHHHHHHHh----hcCCCCccccCcC
Q 044489          123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL----KINATCPLCRNSR  170 (207)
Q Consensus       123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl----~~~~~CP~CR~~~  170 (207)
                      ..| ||.....+++....--.|..-||..|+..=.    .....||.|+..-
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~~   67 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELS   67 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHHC
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCcC
Confidence            347 7887666666544555689999999975321    2344799998754