Query 028527
Match_columns 208
No_of_seqs 117 out of 144
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 12:54:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028527.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028527hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1039 Predicted E3 ubiquitin 99.9 4.9E-28 1.1E-32 220.2 3.3 177 19-207 2-221 (344)
2 PHA02926 zinc finger-like prot 99.5 3.1E-15 6.7E-20 131.6 2.2 58 148-207 165-230 (242)
3 PHA03096 p28-like protein; Pro 99.0 1.8E-10 3.9E-15 103.2 1.7 47 154-204 179-231 (284)
4 PHA02929 N1R/p28-like protein; 98.9 7.3E-10 1.6E-14 97.3 2.5 54 149-206 170-226 (238)
5 PF13920 zf-C3HC4_3: Zinc fing 98.7 2.9E-09 6.2E-14 71.3 1.0 44 153-207 2-48 (50)
6 PF13639 zf-RING_2: Ring finge 98.6 8.9E-09 1.9E-13 67.2 1.0 40 154-203 1-44 (44)
7 PLN03208 E3 ubiquitin-protein 98.6 2.4E-08 5.2E-13 86.0 2.6 52 145-207 10-79 (193)
8 cd00162 RING RING-finger (Real 98.3 2.9E-07 6.3E-12 56.7 1.5 42 155-206 1-45 (45)
9 PF12678 zf-rbx1: RING-H2 zinc 98.1 1.2E-06 2.7E-11 63.7 1.8 49 153-203 19-73 (73)
10 PF13923 zf-C3HC4_2: Zinc fing 98.0 2.2E-06 4.7E-11 54.9 1.8 36 156-202 1-39 (39)
11 smart00184 RING Ring finger. E 98.0 2.9E-06 6.3E-11 50.4 2.1 36 156-202 1-39 (39)
12 KOG0320 Predicted E3 ubiquitin 98.0 1.7E-06 3.6E-11 74.6 1.3 43 154-205 132-176 (187)
13 KOG0823 Predicted E3 ubiquitin 98.0 1.9E-06 4.2E-11 76.2 1.4 45 151-206 45-94 (230)
14 PF15227 zf-C3HC4_4: zinc fing 98.0 2.5E-06 5.4E-11 56.6 1.4 36 156-202 1-42 (42)
15 PF00097 zf-C3HC4: Zinc finger 98.0 3.9E-06 8.5E-11 53.4 2.2 36 156-202 1-41 (41)
16 KOG0317 Predicted E3 ubiquitin 98.0 3.6E-06 7.8E-11 76.6 2.3 43 152-206 238-283 (293)
17 KOG4172 Predicted E3 ubiquitin 97.9 2.6E-06 5.6E-11 62.1 0.3 46 151-207 5-54 (62)
18 PF14634 zf-RING_5: zinc-RING 97.9 8E-06 1.7E-10 53.8 2.4 42 155-204 1-44 (44)
19 PF12861 zf-Apc11: Anaphase-pr 97.9 8.4E-06 1.8E-10 62.6 2.5 57 149-207 17-82 (85)
20 COG5243 HRD1 HRD ubiquitin lig 97.8 8.8E-06 1.9E-10 77.3 2.0 54 150-206 284-344 (491)
21 TIGR00599 rad18 DNA repair pro 97.7 1.3E-05 2.8E-10 75.3 2.1 48 149-207 22-71 (397)
22 KOG0802 E3 ubiquitin ligase [P 97.6 1.5E-05 3.3E-10 75.9 1.0 49 151-205 289-339 (543)
23 COG5540 RING-finger-containing 97.5 3.3E-05 7.1E-10 71.8 1.3 49 151-207 321-372 (374)
24 KOG2164 Predicted E3 ubiquitin 97.5 3.6E-05 7.9E-10 74.5 1.6 45 151-206 184-235 (513)
25 COG5574 PEX10 RING-finger-cont 97.5 4.2E-05 9.1E-10 69.2 1.8 50 144-205 207-260 (271)
26 KOG1785 Tyrosine kinase negati 97.5 3.2E-05 6.9E-10 74.2 0.9 45 152-207 368-416 (563)
27 smart00504 Ubox Modified RING 97.4 8.9E-05 1.9E-09 50.3 2.1 43 154-207 2-46 (63)
28 KOG4265 Predicted E3 ubiquitin 97.4 7.2E-05 1.6E-09 69.7 1.7 46 151-208 288-337 (349)
29 KOG4628 Predicted E3 ubiquitin 97.3 0.00011 2.3E-09 68.4 2.0 46 154-207 230-278 (348)
30 KOG0287 Postreplication repair 97.3 9.8E-05 2.1E-09 69.6 1.1 46 152-208 22-69 (442)
31 PF14835 zf-RING_6: zf-RING of 96.9 0.00037 8.1E-09 51.5 1.3 44 152-205 6-49 (65)
32 PF13445 zf-RING_UBOX: RING-ty 96.5 0.0007 1.5E-08 45.7 0.0 27 156-194 1-31 (43)
33 PF11793 FANCL_C: FANCL C-term 96.3 0.00092 2E-08 48.5 -0.4 52 153-207 2-66 (70)
34 KOG0311 Predicted E3 ubiquitin 96.1 0.00092 2E-08 62.9 -1.2 45 152-206 42-89 (381)
35 KOG4275 Predicted E3 ubiquitin 96.1 0.0013 2.7E-08 61.1 -0.4 43 153-208 300-343 (350)
36 KOG4159 Predicted E3 ubiquitin 96.1 0.0029 6.2E-08 59.8 1.7 50 148-208 79-130 (398)
37 KOG0978 E3 ubiquitin ligase in 96.0 0.0018 4E-08 65.0 -0.0 42 154-206 644-688 (698)
38 COG5432 RAD18 RING-finger-cont 95.8 0.0036 7.9E-08 58.4 1.0 49 148-207 20-70 (391)
39 KOG0804 Cytoplasmic Zn-finger 95.7 0.0039 8.4E-08 60.4 1.0 48 151-205 173-220 (493)
40 PF04564 U-box: U-box domain; 94.4 0.022 4.7E-07 41.1 1.4 44 153-207 4-50 (73)
41 KOG1734 Predicted RING-contain 94.1 0.018 4E-07 53.2 0.7 47 152-204 223-278 (328)
42 KOG0297 TNF receptor-associate 93.6 0.033 7.1E-07 51.9 1.3 46 150-206 18-66 (391)
43 KOG0828 Predicted E3 ubiquitin 93.5 0.035 7.7E-07 54.9 1.5 56 150-207 568-634 (636)
44 KOG1002 Nucleotide excision re 93.5 0.031 6.8E-07 55.8 1.1 45 151-206 534-585 (791)
45 PF14447 Prok-RING_4: Prokaryo 93.2 0.033 7.1E-07 40.1 0.6 44 152-206 6-49 (55)
46 KOG1941 Acetylcholine receptor 93.0 0.036 7.8E-07 53.6 0.8 53 144-203 356-412 (518)
47 COG5219 Uncharacterized conser 92.7 0.036 7.9E-07 58.4 0.3 56 147-206 1463-1522(1525)
48 COG5236 Uncharacterized conser 92.0 0.089 1.9E-06 50.5 2.0 44 150-205 58-106 (493)
49 PF14570 zf-RING_4: RING/Ubox 91.6 0.16 3.4E-06 35.6 2.3 45 156-207 1-48 (48)
50 COG5194 APC11 Component of SCF 91.5 0.09 1.9E-06 41.0 1.2 26 181-206 53-80 (88)
51 KOG2932 E3 ubiquitin ligase in 91.5 0.072 1.6E-06 50.3 0.7 25 182-206 109-133 (389)
52 KOG1571 Predicted E3 ubiquitin 91.4 0.096 2.1E-06 49.4 1.5 46 149-207 301-347 (355)
53 PF05290 Baculo_IE-1: Baculovi 91.4 0.1 2.2E-06 43.8 1.4 49 152-207 79-132 (140)
54 KOG1001 Helicase-like transcri 90.6 0.18 3.8E-06 50.7 2.5 42 154-207 455-500 (674)
55 KOG4692 Predicted E3 ubiquitin 90.5 0.17 3.8E-06 48.6 2.3 55 141-206 408-466 (489)
56 KOG0825 PHD Zn-finger protein 90.1 0.079 1.7E-06 54.9 -0.3 48 152-207 122-171 (1134)
57 PF14569 zf-UDP: Zinc-binding 90.1 0.19 4E-06 38.8 1.7 52 153-208 9-63 (80)
58 COG5152 Uncharacterized conser 88.0 0.2 4.3E-06 45.1 0.7 39 155-204 198-238 (259)
59 KOG2879 Predicted E3 ubiquitin 87.1 0.4 8.6E-06 44.4 2.1 49 146-205 232-285 (298)
60 KOG2660 Locus-specific chromos 86.7 0.17 3.6E-06 47.4 -0.5 46 150-207 12-61 (331)
61 KOG1813 Predicted E3 ubiquitin 86.0 0.33 7E-06 45.2 1.0 41 154-205 242-284 (313)
62 PLN02400 cellulose synthase 85.3 0.33 7.1E-06 51.4 0.7 53 152-208 35-90 (1085)
63 smart00744 RINGv The RING-vari 85.0 0.64 1.4E-05 31.7 1.8 20 184-203 26-49 (49)
64 PLN02638 cellulose synthase A 84.9 0.34 7.3E-06 51.3 0.6 49 153-208 17-71 (1079)
65 PF11789 zf-Nse: Zinc-finger o 84.7 0.38 8.2E-06 34.0 0.6 40 152-201 10-53 (57)
66 PLN02436 cellulose synthase A 84.6 0.37 8E-06 51.1 0.7 53 152-208 35-90 (1094)
67 KOG1100 Predicted E3 ubiquitin 84.4 0.42 9.2E-06 41.5 0.9 39 155-206 160-199 (207)
68 PLN02189 cellulose synthase 81.6 0.58 1.3E-05 49.4 0.8 53 152-208 33-88 (1040)
69 PF08746 zf-RING-like: RING-li 81.4 1.2 2.6E-05 29.8 2.0 39 156-202 1-43 (43)
70 PLN02915 cellulose synthase A 80.8 0.6 1.3E-05 49.4 0.5 53 152-208 14-69 (1044)
71 KOG3002 Zn finger protein [Gen 80.8 0.8 1.7E-05 42.0 1.3 41 153-206 48-90 (299)
72 KOG1814 Predicted E3 ubiquitin 79.7 1 2.3E-05 43.7 1.7 30 152-192 183-215 (445)
73 PF03854 zf-P11: P-11 zinc fin 79.7 0.64 1.4E-05 33.1 0.2 25 183-207 20-46 (50)
74 KOG1493 Anaphase-promoting com 79.4 0.57 1.2E-05 36.4 -0.1 26 181-206 50-80 (84)
75 KOG1815 Predicted E3 ubiquitin 79.0 1.2 2.5E-05 42.0 1.8 31 151-192 68-99 (444)
76 COG5175 MOT2 Transcriptional r 78.3 1.4 3.1E-05 42.4 2.1 47 152-206 13-63 (480)
77 PF05883 Baculo_RING: Baculovi 72.9 1.2 2.6E-05 37.0 0.2 40 152-195 25-66 (134)
78 KOG1952 Transcription factor N 72.3 1.6 3.4E-05 45.7 0.8 45 152-205 190-245 (950)
79 KOG4362 Transcriptional regula 72.2 1.6 3.4E-05 44.5 0.8 43 152-205 20-67 (684)
80 PF10367 Vps39_2: Vacuolar sor 72.2 4 8.6E-05 29.7 2.7 42 142-192 67-108 (109)
81 PF10272 Tmpp129: Putative tra 72.1 5.4 0.00012 37.7 4.3 58 149-206 267-350 (358)
82 PF07800 DUF1644: Protein of u 71.9 4.4 9.5E-05 34.9 3.3 16 153-168 2-17 (162)
83 KOG1428 Inhibitor of type V ad 70.0 2.3 5E-05 47.7 1.5 51 148-206 3481-3543(3738)
84 KOG2930 SCF ubiquitin ligase, 67.8 2.3 5.1E-05 34.6 0.8 23 182-204 81-105 (114)
85 PF04641 Rtf2: Rtf2 RING-finge 62.6 5 0.00011 35.3 1.9 47 151-207 111-161 (260)
86 PF08403 AA_permease_N: Amino 60.5 4.3 9.3E-05 30.7 1.0 16 106-121 38-53 (74)
87 PF08977 BOFC_N: Bypass of For 49.1 10 0.00022 27.1 1.3 32 76-107 1-33 (51)
88 KOG1812 Predicted E3 ubiquitin 48.9 6.7 0.00014 36.9 0.4 33 152-192 145-178 (384)
89 KOG2114 Vacuolar assembly/sort 47.2 13 0.00029 39.2 2.3 64 130-207 813-883 (933)
90 TIGR03738 PRTRC_C PRTRC system 46.1 21 0.00046 26.7 2.6 36 73-112 3-40 (66)
91 KOG3268 Predicted E3 ubiquitin 43.5 13 0.00029 33.2 1.4 49 154-206 166-227 (234)
92 KOG1356 Putative transcription 42.5 8.9 0.00019 40.3 0.2 24 181-204 248-279 (889)
93 KOG3899 Uncharacterized conser 41.5 10 0.00023 36.0 0.5 30 177-206 320-364 (381)
94 COG5220 TFB3 Cdk activating ki 41.4 7.9 0.00017 36.0 -0.3 48 152-207 9-64 (314)
95 PF07975 C1_4: TFIIH C1-like d 40.2 20 0.00042 25.4 1.6 24 178-203 25-50 (51)
96 KOG0298 DEAD box-containing he 40.2 17 0.00036 40.0 1.8 45 148-204 1148-1196(1394)
97 KOG0241 Kinesin-like protein [ 39.8 23 0.0005 38.7 2.7 19 10-28 653-671 (1714)
98 KOG4021 Mitochondrial ribosoma 38.4 14 0.0003 33.3 0.8 19 188-206 97-118 (239)
99 COG5222 Uncharacterized conser 38.3 17 0.00037 34.8 1.4 23 182-204 293-318 (427)
100 KOG2034 Vacuolar sorting prote 36.3 34 0.00074 36.3 3.3 34 150-192 814-847 (911)
101 smart00412 Cu_FIST Copper-Fist 32.0 22 0.00048 24.2 0.8 15 186-200 9-23 (39)
102 smart00647 IBR In Between Ring 31.5 17 0.00037 24.2 0.2 17 178-196 44-60 (64)
103 KOG2113 Predicted RNA binding 29.7 32 0.00069 33.1 1.7 41 152-203 342-383 (394)
104 KOG4185 Predicted E3 ubiquitin 28.9 16 0.00035 31.9 -0.4 53 153-205 207-265 (296)
105 PHA02825 LAP/PHD finger-like p 23.9 69 0.0015 27.7 2.5 48 151-207 6-59 (162)
106 PF10571 UPF0547: Uncharacteri 22.4 35 0.00076 20.9 0.4 10 197-206 1-10 (26)
107 KOG1512 PHD Zn-finger protein 22.2 30 0.00066 32.9 0.1 57 148-206 253-321 (381)
108 PF13798 PCYCGC: Protein of un 20.1 18 0.0004 30.9 -1.6 81 16-97 32-113 (158)
109 KOG1940 Zn-finger protein [Gen 20.0 72 0.0016 29.4 2.0 46 152-204 157-204 (276)
No 1
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=4.9e-28 Score=220.23 Aligned_cols=177 Identities=20% Similarity=0.230 Sum_probs=142.2
Q ss_pred HHhhhhHHHhhhhCCCCCCCceEEEeeccCCc-hhHHHHHHHHhhcCCCCCcccccCceeEEEEEee-eCCCCccchhhh
Q 028527 19 EADIQHANTLAAALPRDYGGDFVQMRLSYSPF-APLVLFMIEWMDYSCTDTVPSYLGLLNILVYKVY-VDGMPALSSKER 96 (208)
Q Consensus 19 eaDIqhAN~lA~~~pr~~~G~~~qmrLsYs~~-a~~flfl~qw~d~~c~~~la~~lgl~~Ilvykvy-~DG~~~~s~~~R 96 (208)
+.+++++ |++..+|+++.+.--|||+++++- ..+..++++|+|+. .|+ .|+..+++|.++ .|+..+++..+|
T Consensus 2 d~~~~~~-tic~~~~~g~c~~g~~cr~~h~~~~~~~~~~~~~~~s~~----~~~-~~~~~~~~~~~~~~~~s~~~s~~~~ 75 (344)
T KOG1039|consen 2 DLSLSQE-TICKYYQKGNCKFGDLCRLSHSLPDEEFATLLTPTTSSA----AAS-TGLSQSLIWANAVADASATMSVSSR 75 (344)
T ss_pred ccccccc-hhhhhcccccccccceeeeeccCchhhcccccccccccc----ccc-cccchhhcccchhhccccccchhcc
Confidence 4678899 999999999999999999999999 99999999999998 666 789999999999 999999999998
Q ss_pred --hchHHhHHHhhccc---------hHhhhhhhhhhhhh----------hcccchhhhhh-----------hhHHHHhhh
Q 028527 97 --KATLREFYAIIYPS---------LRQLESEFSELEDN----------SKRDQCSEISS-----------RKRVEERRK 144 (208)
Q Consensus 97 --katlrEFY~vI~Ps---------L~qL~~~~~dled~----------kq~~~c~e~~~-----------~kd~e~~~k 144 (208)
+..+++|+++.+|+ +-+.+.+..++... .+...|...++ ..++| +
T Consensus 76 ~~~~~~~~s~~~~~~s~~~~~~~~~~~~~~~g~~~~~~~~~~~~~c~l~~~~pi~~~~~~~~~~~~~~~~~~~~~e---~ 152 (344)
T KOG1039|consen 76 PVLTAIRASSSISEPSSTQENPYSNHGQCRFGNGDVTLNGNNPESCGLGTQHPICKRQYKNSMKRGSSCALSSAME---R 152 (344)
T ss_pred cchhhhhhhhccccccccccCccccccccccCCcccccccccccccccccccchhHHHHhhhhcccccccchHhhh---h
Confidence 89999999999999 43333333332222 11122222111 12343 6
Q ss_pred ccccccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhccc---------cCCChhhhhccc
Q 028527 145 LSDKDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR---------SQSCLFAVAAYR 207 (208)
Q Consensus 145 ~s~id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R---------SkSCP~CR~~~~ 207 (208)
.+..+.++|++||||||++++++ ....+++|||| |+|+||++|||+|| +++|||||++.+
T Consensus 153 ~~a~~~s~~k~CGICme~i~ek~-~~~~rfgilpn--C~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 153 SFALQKSSEKECGICMETINEKA-ASERRFGILPN--CNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccCcCccccccceehhhhccccc-hhhhhcccCCC--cchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 67777889999999999977777 55677888999 99999999999999 689999999764
No 2
>PHA02926 zinc finger-like protein; Provisional
Probab=99.52 E-value=3.1e-15 Score=131.58 Aligned_cols=58 Identities=17% Similarity=0.266 Sum_probs=46.0
Q ss_pred cccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhcccc--------CCChhhhhccc
Q 028527 148 KDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNARS--------QSCLFAVAAYR 207 (208)
Q Consensus 148 id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RS--------kSCP~CR~~~~ 207 (208)
.+.|+|++||||||...++-.++...+|+|++ |+|+||+.||+.|++ ++||+||..+.
T Consensus 165 ~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~--CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 165 YRVSKEKECGICYEVVYSKRLENDRYFGLLDS--CNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred HhccCCCCCccCccccccccccccccccccCC--CCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 45678999999999955543333445667999 999999999999986 35999999864
No 3
>PHA03096 p28-like protein; Provisional
Probab=98.97 E-value=1.8e-10 Score=103.19 Aligned_cols=47 Identities=17% Similarity=0.226 Sum_probs=34.6
Q ss_pred Cccccccccccce-eeecccccccCCCCCCCchhhhhHHhcccc-----CCChhhhh
Q 028527 154 DECGICMENCTKM-VTRKHFSLERIPDKYFSHNGLIMNYRNARS-----QSCLFAVA 204 (208)
Q Consensus 154 ~eCgICME~~~k~-V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RS-----kSCP~CR~ 204 (208)
++||||||++... +.+ ..+|+||+ |+|.||+.|||.||+ +.||.||+
T Consensus 179 k~c~ic~e~~~~k~~~~--~~fgil~~--c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIK--KYYGILSE--IKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhcccc--cccccccc--CCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 8999999995433 333 34445999 999999999999986 34555543
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.89 E-value=7.3e-10 Score=97.34 Aligned_cols=54 Identities=17% Similarity=0.368 Sum_probs=39.4
Q ss_pred ccCCCCccccccccccc-eeeecccccccCCCCCCCchhhhhHHhccc--cCCChhhhhcc
Q 028527 149 DLDRNDECGICMENCTK-MVTRKHFSLERIPDKYFSHNGLIMNYRNAR--SQSCLFAVAAY 206 (208)
Q Consensus 149 d~~~d~eCgICME~~~k-~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R--SkSCP~CR~~~ 206 (208)
+.+.+.+|+||||...+ .+. ...++.+++ |+|.||..||..|. +.+||.||.++
T Consensus 170 ~~~~~~eC~ICle~~~~~~~~--~~~~~vl~~--C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 170 NRSKDKECAICMEKVYDKEIK--NMYFGILSN--CNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred cCCCCCCCccCCcccccCccc--cccceecCC--CCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 45678999999997322 111 111234678 99999999999884 57999999876
No 5
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.73 E-value=2.9e-09 Score=71.33 Aligned_cols=44 Identities=23% Similarity=0.323 Sum_probs=36.4
Q ss_pred CCccccccccccceeeecccccccCCCCCCCch-hhhhHHhcc--ccCCChhhhhccc
Q 028527 153 NDECGICMENCTKMVTRKHFSLERIPDKYFSHN-GLIMNYRNA--RSQSCLFAVAAYR 207 (208)
Q Consensus 153 d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~-fCl~Cir~~--RSkSCP~CR~~~~ 207 (208)
+.+|.||++.....++ -+ |+|. ||..|+.+| +++.||+||.++.
T Consensus 2 ~~~C~iC~~~~~~~~~---------~p--CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVL---------LP--CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEE---------ET--TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEE---------eC--CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5799999999877777 35 9999 999999977 6799999999875
No 6
>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=98.63 E-value=8.9e-09 Score=67.17 Aligned_cols=40 Identities=28% Similarity=0.454 Sum_probs=29.0
Q ss_pred Ccccccccccc--ceeeecccccccCCCCCCCchhhhhHHhcc--ccCCChhhh
Q 028527 154 DECGICMENCT--KMVTRKHFSLERIPDKYFSHNGLIMNYRNA--RSQSCLFAV 203 (208)
Q Consensus 154 ~eCgICME~~~--k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~--RSkSCP~CR 203 (208)
++|+||+|... +.+. .+ + |+|.||..|+..| ++.+||.||
T Consensus 1 d~C~IC~~~~~~~~~~~-------~l-~--C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVV-------KL-P--CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEE-------EE-T--TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEE-------Ec-c--CCCeeCHHHHHHHHHhCCcCCccC
Confidence 58999998752 2222 12 4 9999999999976 468999998
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.59 E-value=2.4e-08 Score=85.98 Aligned_cols=52 Identities=13% Similarity=0.145 Sum_probs=41.9
Q ss_pred ccccccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhccc------------------cCCChhhhhcc
Q 028527 145 LSDKDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR------------------SQSCLFAVAAY 206 (208)
Q Consensus 145 ~s~id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R------------------SkSCP~CR~~~ 206 (208)
...+|...+.+|.||+|...+.|+ .. |.|.||..||..|- ...||.||..+
T Consensus 10 ~~~~~~~~~~~CpICld~~~dPVv---------T~--CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 10 TTLVDSGGDFDCNICLDQVRDPVV---------TL--CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred ceeccCCCccCCccCCCcCCCcEE---------cC--CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 345667788999999998877676 56 99999999999772 24899999876
Q ss_pred c
Q 028527 207 R 207 (208)
Q Consensus 207 ~ 207 (208)
.
T Consensus 79 s 79 (193)
T PLN03208 79 S 79 (193)
T ss_pred C
Confidence 3
No 8
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.29 E-value=2.9e-07 Score=56.73 Aligned_cols=42 Identities=19% Similarity=0.276 Sum_probs=31.8
Q ss_pred ccccccccccceeeecccccccCCCCCCCchhhhhHHhccc---cCCChhhhhcc
Q 028527 155 ECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR---SQSCLFAVAAY 206 (208)
Q Consensus 155 eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R---SkSCP~CR~~~ 206 (208)
+|.||++...+.+. ++. |+|.||..|+..|. +..||.||..+
T Consensus 1 ~C~iC~~~~~~~~~--------~~~--C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVV--------LLP--CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceE--------ecC--CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 59999998622222 266 99999999999664 45899999764
No 9
>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. 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 ....
Probab=98.11 E-value=1.2e-06 Score=63.65 Aligned_cols=49 Identities=16% Similarity=0.163 Sum_probs=31.3
Q ss_pred CCccccccccccceeeec-ccccc---cCCCCCCCchhhhhHHhcc--ccCCChhhh
Q 028527 153 NDECGICMENCTKMVTRK-HFSLE---RIPDKYFSHNGLIMNYRNA--RSQSCLFAV 203 (208)
Q Consensus 153 d~eCgICME~~~k~V~~k-~~~~~---~Lpn~~C~H~fCl~Cir~~--RSkSCP~CR 203 (208)
++.|+||++.......+- ..+.+ .++. |+|.|...||++| ++.+||.||
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 456999998752222111 01111 1355 9999999999987 457999998
No 10
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.05 E-value=2.2e-06 Score=54.94 Aligned_cols=36 Identities=17% Similarity=0.339 Sum_probs=27.7
Q ss_pred cccccccccce-eeecccccccCCCCCCCchhhhhHHhcc--ccCCChhh
Q 028527 156 CGICMENCTKM-VTRKHFSLERIPDKYFSHNGLIMNYRNA--RSQSCLFA 202 (208)
Q Consensus 156 CgICME~~~k~-V~~k~~~~~~Lpn~~C~H~fCl~Cir~~--RSkSCP~C 202 (208)
|+||++...+. +. .+ |+|.||..|+.+| ...+||.|
T Consensus 1 C~iC~~~~~~~~~~---------~~--CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVV---------TP--CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEE---------CT--TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEE---------CC--CCCchhHHHHHHHHHCcCCCcCC
Confidence 89999987665 44 56 9999999999955 35899988
No 11
>smart00184 RING Ring finger. 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)
Probab=98.04 E-value=2.9e-06 Score=50.41 Aligned_cols=36 Identities=22% Similarity=0.349 Sum_probs=28.8
Q ss_pred cccccccccceeeecccccccCCCCCCCchhhhhHHhcc---ccCCChhh
Q 028527 156 CGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA---RSQSCLFA 202 (208)
Q Consensus 156 CgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~---RSkSCP~C 202 (208)
|.||++.....+. .+ |+|.||..|+..| ....||.|
T Consensus 1 C~iC~~~~~~~~~---------~~--C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVV---------LP--CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEE---------ec--CCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899998655555 45 9999999999976 34779987
No 12
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=1.7e-06 Score=74.57 Aligned_cols=43 Identities=16% Similarity=0.264 Sum_probs=34.1
Q ss_pred CccccccccccceeeecccccccCCCCCCCchhhhhHHhcccc--CCChhhhhc
Q 028527 154 DECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNARS--QSCLFAVAA 205 (208)
Q Consensus 154 ~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RS--kSCP~CR~~ 205 (208)
--|||||+-..++|- ...+|+|.||-.||+...+ ..||.||..
T Consensus 132 ~~CPiCl~~~sek~~---------vsTkCGHvFC~~Cik~alk~~~~CP~C~kk 176 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVP---------VSTKCGHVFCSQCIKDALKNTNKCPTCRKK 176 (187)
T ss_pred cCCCceecchhhccc---------cccccchhHHHHHHHHHHHhCCCCCCcccc
Confidence 479999999877763 1245999999999996554 689999954
No 13
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=1.9e-06 Score=76.16 Aligned_cols=45 Identities=18% Similarity=0.158 Sum_probs=38.7
Q ss_pred CCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhcc-----ccCCChhhhhcc
Q 028527 151 DRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA-----RSQSCLFAVAAY 206 (208)
Q Consensus 151 ~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~-----RSkSCP~CR~~~ 206 (208)
+.+-+|.||+|...+-|+ .. |.|.||+-|+-+| .++.||.|+..+
T Consensus 45 ~~~FdCNICLd~akdPVv---------Tl--CGHLFCWpClyqWl~~~~~~~~cPVCK~~V 94 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVV---------TL--CGHLFCWPCLYQWLQTRPNSKECPVCKAEV 94 (230)
T ss_pred CCceeeeeeccccCCCEE---------ee--cccceehHHHHHHHhhcCCCeeCCcccccc
Confidence 466799999999888787 67 9999999999987 469999998654
No 14
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.00 E-value=2.5e-06 Score=56.55 Aligned_cols=36 Identities=19% Similarity=0.250 Sum_probs=26.0
Q ss_pred cccccccccceeeecccccccCCCCCCCchhhhhHHhc-ccc-----CCChhh
Q 028527 156 CGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRN-ARS-----QSCLFA 202 (208)
Q Consensus 156 CgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~-~RS-----kSCP~C 202 (208)
|+||++.-.+-|. -+ |+|+||..|+.+ |+. -+||+|
T Consensus 1 CpiC~~~~~~Pv~---------l~--CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVS---------LP--CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE----------S--SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccc---------cC--CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999888887 35 999999999993 322 379988
No 15
>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. 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 ....
Probab=97.99 E-value=3.9e-06 Score=53.40 Aligned_cols=36 Identities=25% Similarity=0.309 Sum_probs=29.3
Q ss_pred ccccccccccee-eecccccccCCCCCCCchhhhhHHhcc----ccCCChhh
Q 028527 156 CGICMENCTKMV-TRKHFSLERIPDKYFSHNGLIMNYRNA----RSQSCLFA 202 (208)
Q Consensus 156 CgICME~~~k~V-~~k~~~~~~Lpn~~C~H~fCl~Cir~~----RSkSCP~C 202 (208)
|+||+|...+.+ + .+ |.|.||..|+++| .+..||.|
T Consensus 1 C~iC~~~~~~~~~~---------~~--C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVIL---------LP--CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEE---------TT--TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEE---------ec--CCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999876666 4 56 9999999999944 34689987
No 16
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=3.6e-06 Score=76.62 Aligned_cols=43 Identities=21% Similarity=0.339 Sum_probs=34.2
Q ss_pred CCCccccccccc-cceeeecccccccCCCCCCCchhhhhHHhcccc--CCChhhhhcc
Q 028527 152 RNDECGICMENC-TKMVTRKHFSLERIPDKYFSHNGLIMNYRNARS--QSCLFAVAAY 206 (208)
Q Consensus 152 ~d~eCgICME~~-~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RS--kSCP~CR~~~ 206 (208)
.+-.|.||||+. ....+ | |+|.||+.||..|=+ ..||.||..+
T Consensus 238 a~~kC~LCLe~~~~pSaT---------p---CGHiFCWsCI~~w~~ek~eCPlCR~~~ 283 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNPSAT---------P---CGHIFCWSCILEWCSEKAECPLCREKF 283 (293)
T ss_pred CCCceEEEecCCCCCCcC---------c---CcchHHHHHHHHHHccccCCCcccccC
Confidence 457999999996 33333 4 999999999998754 5799999875
No 17
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=2.6e-06 Score=62.06 Aligned_cols=46 Identities=22% Similarity=0.252 Sum_probs=37.5
Q ss_pred CCCCccccccccccceeeecccccccCCCCCCCch-hhhhHHh-ccc--cCCChhhhhccc
Q 028527 151 DRNDECGICMENCTKMVTRKHFSLERIPDKYFSHN-GLIMNYR-NAR--SQSCLFAVAAYR 207 (208)
Q Consensus 151 ~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~-fCl~Cir-~~R--SkSCP~CR~~~~ 207 (208)
+-++||-||||...+.|+ -- |.|- +|-.|-+ .|+ ...||.||++++
T Consensus 5 ~~~dECTICye~pvdsVl---------Yt--CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 5 QWSDECTICYEHPVDSVL---------YT--CGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccccceeeeccCcchHHH---------HH--cchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 345999999999876676 46 9998 9999977 555 579999999876
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.90 E-value=8e-06 Score=53.78 Aligned_cols=42 Identities=19% Similarity=0.343 Sum_probs=30.2
Q ss_pred ccccccccccceeeecccccccCCCCCCCchhhhhHHhccc--cCCChhhhh
Q 028527 155 ECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR--SQSCLFAVA 204 (208)
Q Consensus 155 eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R--SkSCP~CR~ 204 (208)
+|+||.+..++ ..+. .+-. |.|+||..|+.+.. ...||+||.
T Consensus 1 ~C~~C~~~~~~-----~~~~-~l~~--CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSE-----ERRP-RLTS--CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccC-----CCCe-EEcc--cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 59999988511 0011 1345 99999999999655 789999984
No 19
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.87 E-value=8.4e-06 Score=62.65 Aligned_cols=57 Identities=21% Similarity=0.300 Sum_probs=36.8
Q ss_pred ccCCCCccccccccccceeeeccccccc----CCCCCCCchhhhhHHhcccc-----CCChhhhhccc
Q 028527 149 DLDRNDECGICMENCTKMVTRKHFSLER----IPDKYFSHNGLIMNYRNARS-----QSCLFAVAAYR 207 (208)
Q Consensus 149 d~~~d~eCgICME~~~k~V~~k~~~~~~----Lpn~~C~H~fCl~Cir~~RS-----kSCP~CR~~~~ 207 (208)
|+..|++||||...-...--.-.+|-.- +.. |+|.|-+-||.+|-+ +.||.||...+
T Consensus 17 d~~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~--C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 17 DVANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGK--CSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred ecCCCCceeeEecccccCCCCccCCCCCCceeecc--CccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 4456899999986532111111122111 234 999999999997743 68999998753
No 20
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=8.8e-06 Score=77.26 Aligned_cols=54 Identities=20% Similarity=0.377 Sum_probs=38.0
Q ss_pred cCCCCccccccccc--cc-eee--ecccccccCCCCCCCchhhhhHHhcc--ccCCChhhhhcc
Q 028527 150 LDRNDECGICMENC--TK-MVT--RKHFSLERIPDKYFSHNGLIMNYRNA--RSQSCLFAVAAY 206 (208)
Q Consensus 150 ~~~d~eCgICME~~--~k-~V~--~k~~~~~~Lpn~~C~H~fCl~Cir~~--RSkSCP~CR~~~ 206 (208)
.+.|.-|-||||-- .. .-+ .+.-.-.||| |+|.+-+.|.++| |+|+||.||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp---CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP---CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc---ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 35678999999751 11 000 1111112567 9999999999999 899999999874
No 21
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.75 E-value=1.3e-05 Score=75.33 Aligned_cols=48 Identities=23% Similarity=0.297 Sum_probs=37.1
Q ss_pred ccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhcc-c-cCCChhhhhccc
Q 028527 149 DLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA-R-SQSCLFAVAAYR 207 (208)
Q Consensus 149 d~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~-R-SkSCP~CR~~~~ 207 (208)
+++.+..|+||.+.....|+ .. |.|.||-.||+.| . ...||.||..+.
T Consensus 22 ~Le~~l~C~IC~d~~~~Pvi---------tp--CgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVPVL---------TS--CSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred ccccccCCCcCchhhhCccC---------CC--CCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 35577899999998766555 45 9999999999943 2 247999998753
No 22
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=1.5e-05 Score=75.89 Aligned_cols=49 Identities=22% Similarity=0.302 Sum_probs=35.5
Q ss_pred CCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhcc--ccCCChhhhhc
Q 028527 151 DRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA--RSQSCLFAVAA 205 (208)
Q Consensus 151 ~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~--RSkSCP~CR~~ 205 (208)
..++.|-||+|.-...- .-..-+|| |+|.|+..|+++| |+++||+||..
T Consensus 289 ~~~~~C~IC~e~l~~~~---~~~~~rL~---C~Hifh~~CL~~W~er~qtCP~CR~~ 339 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGH---NITPKRLP---CGHIFHDSCLRSWFERQQTCPTCRTV 339 (543)
T ss_pred hcCCeeeeechhhcccc---ccccceee---cccchHHHHHHHHHHHhCcCCcchhh
Confidence 35789999998732210 00011346 9999999999988 88999999983
No 23
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=3.3e-05 Score=71.78 Aligned_cols=49 Identities=29% Similarity=0.372 Sum_probs=36.7
Q ss_pred CCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhccc---cCCChhhhhccc
Q 028527 151 DRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR---SQSCLFAVAAYR 207 (208)
Q Consensus 151 ~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R---SkSCP~CR~~~~ 207 (208)
+..-||-|||+...|. -...-|| |+|-|--.|+.+|- +..||.||.++.
T Consensus 321 ~~GveCaICms~fiK~-----d~~~vlP---C~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKN-----DRLRVLP---CDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhccc-----ceEEEec---cCceechhHHHHHHhhhcccCCccCCCCC
Confidence 3458999999986432 1111236 99999999999994 689999998763
No 24
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=3.6e-05 Score=74.50 Aligned_cols=45 Identities=18% Similarity=0.162 Sum_probs=35.8
Q ss_pred CCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh-ccc------cCCChhhhhcc
Q 028527 151 DRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR-NAR------SQSCLFAVAAY 206 (208)
Q Consensus 151 ~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir-~~R------SkSCP~CR~~~ 206 (208)
+.+..|.||+|...--+. -+ |+|.||..||- -|. -.+||.||..+
T Consensus 184 ~t~~~CPICL~~~~~p~~---------t~--CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 184 STDMQCPICLEPPSVPVR---------TN--CGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CcCCcCCcccCCCCcccc---------cc--cCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 348999999998655555 57 99999999998 333 27999999875
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=4.2e-05 Score=69.17 Aligned_cols=50 Identities=14% Similarity=0.042 Sum_probs=39.0
Q ss_pred hccccccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhc-cc---cCCChhhhhc
Q 028527 144 KLSDKDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRN-AR---SQSCLFAVAA 205 (208)
Q Consensus 144 k~s~id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~-~R---SkSCP~CR~~ 205 (208)
.+.-+. .+|-+|.||||.....+. -. |.|.||+.|+-. |- ..-||.||..
T Consensus 207 ~~pfip-~~d~kC~lC~e~~~~ps~---------t~--CgHlFC~~Cl~~~~t~~k~~~CplCRak 260 (271)
T COG5574 207 GLPFIP-LADYKCFLCLEEPEVPSC---------TP--CGHLFCLSCLLISWTKKKYEFCPLCRAK 260 (271)
T ss_pred cCCccc-ccccceeeeecccCCccc---------cc--ccchhhHHHHHHHHHhhccccCchhhhh
Confidence 344444 678999999999877666 34 999999999985 64 3569999974
No 26
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.49 E-value=3.2e-05 Score=74.19 Aligned_cols=45 Identities=20% Similarity=0.271 Sum_probs=37.3
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHhccc----cCCChhhhhccc
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR----SQSCLFAVAAYR 207 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R----SkSCP~CR~~~~ 207 (208)
.-+.|-||-|+..++-. .. |.|.+|..|..+|. ++.|||||..+|
T Consensus 368 TFeLCKICaendKdvkI---------EP--CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 368 TFELCKICAENDKDVKI---------EP--CGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred hHHHHHHhhccCCCccc---------cc--ccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 34679999999655444 45 99999999999997 589999998876
No 27
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=97.42 E-value=8.9e-05 Score=50.29 Aligned_cols=43 Identities=9% Similarity=-0.114 Sum_probs=34.5
Q ss_pred CccccccccccceeeecccccccCCCCCCCchhhhhHHhcc--ccCCChhhhhccc
Q 028527 154 DECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA--RSQSCLFAVAAYR 207 (208)
Q Consensus 154 ~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~--RSkSCP~CR~~~~ 207 (208)
-.|.||++.-...|. .. |+|+||..||.+| ....||+|+..+.
T Consensus 2 ~~Cpi~~~~~~~Pv~---------~~--~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDPVI---------LP--SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCCEE---------CC--CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 469999998766666 34 8999999999955 3568999998763
No 28
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=7.2e-05 Score=69.68 Aligned_cols=46 Identities=22% Similarity=0.385 Sum_probs=36.2
Q ss_pred CCCCccccccc-cccceeeecccccccCCCCCCCch-hhhhHHhccc--cCCChhhhhcccC
Q 028527 151 DRNDECGICME-NCTKMVTRKHFSLERIPDKYFSHN-GLIMNYRNAR--SQSCLFAVAAYRE 208 (208)
Q Consensus 151 ~~d~eCgICME-~~~k~V~~k~~~~~~Lpn~~C~H~-fCl~Cir~~R--SkSCP~CR~~~~~ 208 (208)
+.-+||-|||. ..+..|+ | |.|. +|-.|...-| ...||.||.++++
T Consensus 288 ~~gkeCVIClse~rdt~vL---------P---CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVL---------P---CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEe---------c---chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 45689999995 4555565 6 9998 9999999555 5669999998753
No 29
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.31 E-value=0.00011 Score=68.41 Aligned_cols=46 Identities=26% Similarity=0.361 Sum_probs=35.2
Q ss_pred CccccccccccceeeecccccccCCCCCCCchhhhhHHhccc---cCCChhhhhccc
Q 028527 154 DECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR---SQSCLFAVAAYR 207 (208)
Q Consensus 154 ~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R---SkSCP~CR~~~~ 207 (208)
+.|-||+|- +++.-.+++|| |.|.|--.||..|= .+.||.|+...+
T Consensus 230 ~~CaIClEd-----Y~~GdklRiLP---C~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLED-----YEKGDKLRILP---CSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecc-----cccCCeeeEec---CCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 499999997 33344445578 99999999999773 356999987654
No 30
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.25 E-value=9.8e-05 Score=69.63 Aligned_cols=46 Identities=22% Similarity=0.300 Sum_probs=34.6
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHhc--cccCCChhhhhcccC
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRN--ARSQSCLFAVAAYRE 208 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~--~RSkSCP~CR~~~~~ 208 (208)
.-.-||||.|--.-.++ -. |.|+||--|||. .....||.|++++++
T Consensus 22 ~lLRC~IC~eyf~ip~i---------tp--CsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPMI---------TP--CSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHHhHHHHHhcCcee---------cc--ccchHHHHHHHHHhccCCCCCceecccch
Confidence 44679999997433333 34 999999999993 344689999998764
No 31
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.92 E-value=0.00037 Score=51.53 Aligned_cols=44 Identities=16% Similarity=0.221 Sum_probs=22.7
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHhccccCCChhhhhc
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNARSQSCLFAVAA 205 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RSkSCP~CR~~ 205 (208)
+-.-|.||.+.-.+.|. +.+ |.|.||..||+..=+.-||.|..+
T Consensus 6 ~lLrCs~C~~~l~~pv~--------l~~--CeH~fCs~Ci~~~~~~~CPvC~~P 49 (65)
T PF14835_consen 6 ELLRCSICFDILKEPVC--------LGG--CEHIFCSSCIRDCIGSECPVCHTP 49 (65)
T ss_dssp HTTS-SSS-S--SS-B-----------S--SS--B-TTTGGGGTTTB-SSS--B
T ss_pred HhcCCcHHHHHhcCCce--------ecc--CccHHHHHHhHHhcCCCCCCcCCh
Confidence 34679999998766664 367 999999999994433459999875
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.48 E-value=0.0007 Score=45.66 Aligned_cols=27 Identities=33% Similarity=0.389 Sum_probs=16.1
Q ss_pred ccccccccc----ceeeecccccccCCCCCCCchhhhhHHhcc
Q 028527 156 CGICMENCT----KMVTRKHFSLERIPDKYFSHNGLIMNYRNA 194 (208)
Q Consensus 156 CgICME~~~----k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~ 194 (208)
|.||.|..+ -+|+ + |.|+||-+|+.++
T Consensus 1 CpIc~e~~~~~n~P~~L---------~---CGH~~c~~cl~~l 31 (43)
T PF13445_consen 1 CPICKEFSTEENPPMVL---------P---CGHVFCKDCLQKL 31 (43)
T ss_dssp -TTT----TTSS-EEE----------S---SS-EEEHHHHHHH
T ss_pred CCccccccCCCCCCEEE---------e---CccHHHHHHHHHH
Confidence 889999544 4566 4 9999999999944
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.27 E-value=0.00092 Score=48.54 Aligned_cols=52 Identities=15% Similarity=0.237 Sum_probs=20.9
Q ss_pred CCccccccccccceeeecccccccCCCCCCCchhhhhHHhcc-c----c--------CCChhhhhccc
Q 028527 153 NDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA-R----S--------QSCLFAVAAYR 207 (208)
Q Consensus 153 d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~-R----S--------kSCP~CR~~~~ 207 (208)
+.+||||++...+ ...-+...-+|..|++.|-+.|...| + + ..||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~---~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLD---DGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-T---T-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecC---CCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 5799999987430 00011111255559999999999976 1 1 36999998763
No 34
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.13 E-value=0.00092 Score=62.92 Aligned_cols=45 Identities=18% Similarity=0.160 Sum_probs=35.7
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh---ccccCCChhhhhcc
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NARSQSCLFAVAAY 206 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~RSkSCP~CR~~~ 206 (208)
.+..|.||++...+... .|.|-|-||-.||- +...++||-||..+
T Consensus 42 ~~v~c~icl~llk~tmt----------tkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMT----------TKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhccHHHHHHHHhhcc----------cHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 56899999998766554 35599999999997 22348999999865
No 35
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0013 Score=61.14 Aligned_cols=43 Identities=19% Similarity=0.250 Sum_probs=35.5
Q ss_pred CCccccccccccceeeecccccccCCCCCCCch-hhhhHHhccccCCChhhhhcccC
Q 028527 153 NDECGICMENCTKMVTRKHFSLERIPDKYFSHN-GLIMNYRNARSQSCLFAVAAYRE 208 (208)
Q Consensus 153 d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~-fCl~Cir~~RSkSCP~CR~~~~~ 208 (208)
+..|-|||+..-+-|+ |+ |.|. -|-+|- .|-+.||+||.-++|
T Consensus 300 ~~LC~ICmDaP~DCvf--------Le---CGHmVtCt~CG--krm~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVF--------LE---CGHMVTCTKCG--KRMNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcceEE--------ee---cCcEEeehhhc--cccccCchHHHHHHH
Confidence 6899999999988888 45 9998 788887 555699999986653
No 36
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0029 Score=59.80 Aligned_cols=50 Identities=14% Similarity=0.225 Sum_probs=40.9
Q ss_pred cccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh--ccccCCChhhhhcccC
Q 028527 148 KDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR--NARSQSCLFAVAAYRE 208 (208)
Q Consensus 148 id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir--~~RSkSCP~CR~~~~~ 208 (208)
..+.++-+|-|||..-.+.|. .+ |.|+||..|+. -..+..||.||..|.+
T Consensus 79 ~~~~sef~c~vc~~~l~~pv~---------tp--cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 79 EEIRSEFECCVCSRALYPPVV---------TP--CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccccchhhhhhhHhhcCCCcc---------cc--ccccccHHHHHHHhccCCCCccccccccc
Confidence 334678899999999877777 46 99999999976 3466899999998864
No 37
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=95.97 E-value=0.0018 Score=64.97 Aligned_cols=42 Identities=19% Similarity=0.293 Sum_probs=36.1
Q ss_pred CccccccccccceeeecccccccCCCCCCCchhhhhHHh---ccccCCChhhhhcc
Q 028527 154 DECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NARSQSCLFAVAAY 206 (208)
Q Consensus 154 ~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~RSkSCP~CR~~~ 206 (208)
.-|+.|-.+..++|. +. |.|.||-.|++ ..|-..||.|-.+|
T Consensus 644 LkCs~Cn~R~Kd~vI---------~k--C~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 644 LKCSVCNTRWKDAVI---------TK--CGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred eeCCCccCchhhHHH---------Hh--cchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 469999977777777 77 99999999999 56889999998776
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=95.78 E-value=0.0036 Score=58.45 Aligned_cols=49 Identities=18% Similarity=0.177 Sum_probs=36.3
Q ss_pred cccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh-c-cccCCChhhhhccc
Q 028527 148 KDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR-N-ARSQSCLFAVAAYR 207 (208)
Q Consensus 148 id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir-~-~RSkSCP~CR~~~~ 207 (208)
.+++.-.-|-||-+...-.+. -. |+|+||--||| . ....-||.||...+
T Consensus 20 ~~LDs~lrC~IC~~~i~ip~~---------Tt--CgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 20 KGLDSMLRCRICDCRISIPCE---------TT--CGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hcchhHHHhhhhhheeeccee---------cc--cccchhHHHHHHHhcCCCCCccccccHH
Confidence 444455789999987544444 45 99999999999 3 33468999998654
No 39
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=95.71 E-value=0.0039 Score=60.40 Aligned_cols=48 Identities=15% Similarity=0.214 Sum_probs=35.1
Q ss_pred CCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhccccCCChhhhhc
Q 028527 151 DRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNARSQSCLFAVAA 205 (208)
Q Consensus 151 ~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RSkSCP~CR~~ 205 (208)
.+--.|.+|+|.-..-|. |+ ++ --|+|+|--.|..+|.-.|||.||-.
T Consensus 173 tELPTCpVCLERMD~s~~----gi--~t-~~c~Hsfh~~cl~~w~~~scpvcR~~ 220 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTT----GI--LT-ILCNHSFHCSCLMKWWDSSCPVCRYC 220 (493)
T ss_pred ccCCCcchhHhhcCcccc----ce--ee-eecccccchHHHhhcccCcChhhhhh
Confidence 344689999998533331 11 12 12999999999999999999999953
No 40
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. 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 ....
Probab=94.36 E-value=0.022 Score=41.09 Aligned_cols=44 Identities=16% Similarity=0.022 Sum_probs=31.1
Q ss_pred CCccccccccccceeeecccccccCCCCCCCchhhhhHHhccc---cCCChhhhhccc
Q 028527 153 NDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR---SQSCLFAVAAYR 207 (208)
Q Consensus 153 d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R---SkSCP~CR~~~~ 207 (208)
+-.|.|+.+.-.+-|. +| ++|+|+-.||.+|- ...||+|+..+.
T Consensus 4 ~f~CpIt~~lM~dPVi--------~~---~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 4 EFLCPITGELMRDPVI--------LP---SGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GGB-TTTSSB-SSEEE--------ET---TSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred ccCCcCcCcHhhCcee--------CC---cCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 4579999999877776 25 67999999999762 579999988763
No 41
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.10 E-value=0.018 Score=53.22 Aligned_cols=47 Identities=15% Similarity=0.353 Sum_probs=33.3
Q ss_pred CCCcccccccccc-----ceeeecccccccCCCCCCCchhhhhHHhcc----ccCCChhhhh
Q 028527 152 RNDECGICMENCT-----KMVTRKHFSLERIPDKYFSHNGLIMNYRNA----RSQSCLFAVA 204 (208)
Q Consensus 152 ~d~eCgICME~~~-----k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~----RSkSCP~CR~ 204 (208)
.|.+|-||-..-. +.|.||-.. |+ |||.|-.-|||-| +.++||.|..
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~---Ls---CnHvFHEfCIrGWcivGKkqtCPYCKe 278 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYK---LS---CNHVFHEFCIRGWCIVGKKQTCPYCKE 278 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhhee---ee---cccchHHHhhhhheeecCCCCCchHHH
Confidence 4678888875432 223334333 35 9999999999977 5799999954
No 42
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=93.56 E-value=0.033 Score=51.92 Aligned_cols=46 Identities=26% Similarity=0.270 Sum_probs=36.6
Q ss_pred cCCCCccccccccccceeeecccccccCC-CCCCCchhhhhHHhcccc--CCChhhhhcc
Q 028527 150 LDRNDECGICMENCTKMVTRKHFSLERIP-DKYFSHNGLIMNYRNARS--QSCLFAVAAY 206 (208)
Q Consensus 150 ~~~d~eCgICME~~~k~V~~k~~~~~~Lp-n~~C~H~fCl~Cir~~RS--kSCP~CR~~~ 206 (208)
.+.+.-|.|||-+...-+. + . |.|.||-.|+..|.+ +.||.||..+
T Consensus 18 ~~~~l~C~~C~~vl~~p~~---------~~~--cgh~fC~~C~~~~~~~~~~cp~~~~~~ 66 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQ---------TTT--CGHRFCAGCLLESLSNHQKCPVCRQEL 66 (391)
T ss_pred CcccccCccccccccCCCC---------CCC--CCCcccccccchhhccCcCCccccccc
Confidence 5678899999998655444 3 5 999999999997754 5999998653
No 43
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.51 E-value=0.035 Score=54.86 Aligned_cols=56 Identities=16% Similarity=0.115 Sum_probs=36.8
Q ss_pred cCCCCccccccccccc-------eeeec-ccccccCCCCCCCchhhhhHHhccc---cCCChhhhhccc
Q 028527 150 LDRNDECGICMENCTK-------MVTRK-HFSLERIPDKYFSHNGLIMNYRNAR---SQSCLFAVAAYR 207 (208)
Q Consensus 150 ~~~d~eCgICME~~~k-------~V~~k-~~~~~~Lpn~~C~H~fCl~Cir~~R---SkSCP~CR~~~~ 207 (208)
.++...|.|||....- ++... +.+--.+.+ |+|.|--.|..+|- +--||.||.+|.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP--C~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP--CHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccc--hHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 3567889999965311 11100 011112456 99999999999884 458999999874
No 44
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=93.48 E-value=0.031 Score=55.83 Aligned_cols=45 Identities=13% Similarity=0.354 Sum_probs=35.2
Q ss_pred CCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh-------ccccCCChhhhhcc
Q 028527 151 DRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR-------NARSQSCLFAVAAY 206 (208)
Q Consensus 151 ~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir-------~~RSkSCP~CR~~~ 206 (208)
-.+.|||+|-+...+-+. +. |-|.||--|+. ....-+||.|-..|
T Consensus 534 k~~~~C~lc~d~aed~i~---------s~--ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIE---------SS--CHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cCceeecccCChhhhhHh---------hh--hhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 357899999998766665 56 99999999996 11237999997765
No 45
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.22 E-value=0.033 Score=40.14 Aligned_cols=44 Identities=18% Similarity=0.194 Sum_probs=36.2
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHhccccCCChhhhhcc
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNARSQSCLFAVAAY 206 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RSkSCP~CR~~~ 206 (208)
.+..|-.|....++.++ .. |.|..|..|..-+|...||+|-.++
T Consensus 6 ~~~~~~~~~~~~~~~~~---------~p--CgH~I~~~~f~~~rYngCPfC~~~~ 49 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTV---------LP--CGHLICDNCFPGERYNGCPFCGTPF 49 (55)
T ss_pred cceeEEEcccccccccc---------cc--ccceeeccccChhhccCCCCCCCcc
Confidence 45677788877666666 45 9999999999999999999997765
No 46
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=93.04 E-value=0.036 Score=53.61 Aligned_cols=53 Identities=23% Similarity=0.327 Sum_probs=43.1
Q ss_pred hccccccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh----ccccCCChhhh
Q 028527 144 KLSDKDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR----NARSQSCLFAV 203 (208)
Q Consensus 144 k~s~id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir----~~RSkSCP~CR 203 (208)
..++.+.+-+.-||.|-|. +=.|...++-|| |.|.|-.+|.. +..-+|||-||
T Consensus 356 ra~~~~~e~~L~Cg~CGe~----~Glk~e~LqALp---CsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 356 RAHECVEETELYCGLCGES----IGLKNERLQALP---CSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred HHHHHHHHHhhhhhhhhhh----hcCCcccccccc---hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 3455555667889999998 556677777788 99999999998 66779999999
No 47
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.69 E-value=0.036 Score=58.42 Aligned_cols=56 Identities=16% Similarity=0.303 Sum_probs=38.6
Q ss_pred ccccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHhcc----ccCCChhhhhcc
Q 028527 147 DKDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA----RSQSCLFAVAAY 206 (208)
Q Consensus 147 ~id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~----RSkSCP~CR~~~ 206 (208)
..+.+.-+||.||..+-. +|- +-+|..+=|. |.|-|--.|+=+| .+..||.||..+
T Consensus 1463 ~~~fsG~eECaICYsvL~-~vd-r~lPskrC~T--CknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1463 DEKFSGHEECAICYSVLD-MVD-RSLPSKRCAT--CKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred hhhcCCcchhhHHHHHHH-HHh-ccCCccccch--hhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 345577899999998732 232 2233333344 7899999999877 347899999765
No 48
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.02 E-value=0.089 Score=50.47 Aligned_cols=44 Identities=18% Similarity=0.231 Sum_probs=34.1
Q ss_pred cCCCCccccccccccc-eeeecccccccCCCCCCCchhhhhHHhcc----ccCCChhhhhc
Q 028527 150 LDRNDECGICMENCTK-MVTRKHFSLERIPDKYFSHNGLIMNYRNA----RSQSCLFAVAA 205 (208)
Q Consensus 150 ~~~d~eCgICME~~~k-~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~----RSkSCP~CR~~ 205 (208)
.+.++.|-||-+..+- -++ | |+|-+|--|--+- ..|+||+||..
T Consensus 58 DEen~~C~ICA~~~TYs~~~---------P---C~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 58 DEENMNCQICAGSTTYSARY---------P---CGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccceeEEecCCceEEEec---------c---CCchHHHHHHHHHHHHHhccCCCccccc
Confidence 4567899999987643 344 5 9999999998643 46999999964
No 49
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=91.60 E-value=0.16 Score=35.61 Aligned_cols=45 Identities=16% Similarity=0.281 Sum_probs=19.1
Q ss_pred cccccccccceeeecccccccCCCCCCCchhhhhHHhcc---ccCCChhhhhccc
Q 028527 156 CGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA---RSQSCLFAVAAYR 207 (208)
Q Consensus 156 CgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~---RSkSCP~CR~~~~ 207 (208)
|.+|+|.... ... ...| =.|++-.|..|+.+. ....||-||.+|+
T Consensus 1 cp~C~e~~d~----~d~--~~~P-C~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDE----TDK--DFYP-CECGFQICRFCYHDILENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--C----CCT--T--S-STTS----HHHHHHHTTSS-SB-TTT--B--
T ss_pred CCCccccccc----CCC--cccc-CcCCCcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence 6789987411 111 1123 239999999999843 3579999999874
No 50
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=91.55 E-value=0.09 Score=41.01 Aligned_cols=26 Identities=8% Similarity=-0.067 Sum_probs=22.1
Q ss_pred CCCchhhhhHHhcccc--CCChhhhhcc
Q 028527 181 YFSHNGLIMNYRNARS--QSCLFAVAAY 206 (208)
Q Consensus 181 ~C~H~fCl~Cir~~RS--kSCP~CR~~~ 206 (208)
.|||+|-.-||.+|=+ .-||.+|.+.
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 3999999999998843 6899999764
No 51
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.46 E-value=0.072 Score=50.25 Aligned_cols=25 Identities=12% Similarity=0.073 Sum_probs=21.9
Q ss_pred CCchhhhhHHhccccCCChhhhhcc
Q 028527 182 FSHNGLIMNYRNARSQSCLFAVAAY 206 (208)
Q Consensus 182 C~H~fCl~Cir~~RSkSCP~CR~~~ 206 (208)
|.|.||++|.|.---|+||.|-..+
T Consensus 109 CkHvFCl~CAr~~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 109 CKHVFCLECARSDSDKICPLCDDRV 133 (389)
T ss_pred cchhhhhhhhhcCccccCcCcccHH
Confidence 9999999999966689999997654
No 52
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.44 E-value=0.096 Score=49.39 Aligned_cols=46 Identities=20% Similarity=0.416 Sum_probs=33.2
Q ss_pred ccCCCCccccccccccceeeecccccccCCCCCCCchhh-hhHHhccccCCChhhhhccc
Q 028527 149 DLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGL-IMNYRNARSQSCLFAVAAYR 207 (208)
Q Consensus 149 d~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fC-l~Cir~~RSkSCP~CR~~~~ 207 (208)
+.+-.+-|-||.+.....++ +| |.|.-| ..|.++ -.+||.||.+++
T Consensus 301 ~~~~p~lcVVcl~e~~~~~f--------vp---cGh~ccct~cs~~--l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVF--------VP---CGHVCCCTLCSKH--LPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCccceee--------ec---CCcEEEchHHHhh--CCCCchhHHHHH
Confidence 34566899999999877787 35 999844 444432 244999998875
No 53
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=91.38 E-value=0.1 Score=43.75 Aligned_cols=49 Identities=18% Similarity=0.346 Sum_probs=38.3
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh-cccc----CCChhhhhccc
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR-NARS----QSCLFAVAAYR 207 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir-~~RS----kSCP~CR~~~~ 207 (208)
.--||.||-|.. .+.+|=- ||.-|+-+.|-.|+. -|.- .-||.|..++|
T Consensus 79 ~lYeCnIC~etS----~ee~FLK---PneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETS----AEERFLK---PNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCccccc----chhhcCC---cccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 456999999994 3344433 777788899999999 6753 68999999886
No 54
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=90.59 E-value=0.18 Score=50.68 Aligned_cols=42 Identities=12% Similarity=0.333 Sum_probs=32.2
Q ss_pred CccccccccccceeeecccccccCCCCCCCchhhhhHHh-c---cccCCChhhhhccc
Q 028527 154 DECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR-N---ARSQSCLFAVAAYR 207 (208)
Q Consensus 154 ~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir-~---~RSkSCP~CR~~~~ 207 (208)
..|.||+| ....+. .. |.|.||..|+- . ...+.||.||..+.
T Consensus 455 ~~c~ic~~-~~~~~i---------t~--c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFI---------TR--CGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc-ccccee---------ec--ccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 89999999 444444 45 99999999998 2 23457999998664
No 55
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.49 E-value=0.17 Score=48.62 Aligned_cols=55 Identities=20% Similarity=0.342 Sum_probs=42.3
Q ss_pred Hhhhcccccc--CCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh--ccccCCChhhhhcc
Q 028527 141 ERRKLSDKDL--DRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR--NARSQSCLFAVAAY 206 (208)
Q Consensus 141 ~~~k~s~id~--~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir--~~RSkSCP~CR~~~ 206 (208)
.+..++++++ ++|..|.||.-....-|+ -+ |.|--|-.||. -..+|-|=||..+.
T Consensus 408 ~~~~~~~~~lp~sEd~lCpICyA~pi~Avf---------~P--C~H~SC~~CI~qHlmN~k~CFfCktTv 466 (489)
T KOG4692|consen 408 RKEESFNKDLPDSEDNLCPICYAGPINAVF---------AP--CSHRSCYGCITQHLMNCKRCFFCKTTV 466 (489)
T ss_pred hhHHhhcCCCCCcccccCcceecccchhhc---------cC--CCCchHHHHHHHHHhcCCeeeEeccee
Confidence 3445677775 578899999977655555 35 99999999998 45789999997654
No 56
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.14 E-value=0.079 Score=54.95 Aligned_cols=48 Identities=15% Similarity=0.301 Sum_probs=34.4
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHhccc--cCCChhhhhccc
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR--SQSCLFAVAAYR 207 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R--SkSCP~CR~~~~ 207 (208)
-...|.||+-...+-.. ...|.|.|.||-.|+..|- -++||.||..|-
T Consensus 122 ~~~~CP~Ci~s~~DqL~--------~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLE--------ESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhh--------ccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 34567787765433222 2456799999999999884 389999998764
No 57
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=90.09 E-value=0.19 Score=38.79 Aligned_cols=52 Identities=15% Similarity=0.252 Sum_probs=20.7
Q ss_pred CCccccccccccceeeecccccccCCCCCCCchhhhhHHh---ccccCCChhhhhcccC
Q 028527 153 NDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NARSQSCLFAVAAYRE 208 (208)
Q Consensus 153 d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~RSkSCP~CR~~~~~ 208 (208)
...|-||-|.+-..+....|-. --. |+-..|-.||. +-.+|+||+|+..|+|
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVA--C~e--C~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVA--CHE--CAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S---SS--S-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CcccccccCccccCCCCCEEEE--Ecc--cCCccchhHHHHHhhcCcccccccCCCccc
Confidence 4689999987533322111211 234 88889999998 5667999999998875
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=88.03 E-value=0.2 Score=45.06 Aligned_cols=39 Identities=18% Similarity=0.310 Sum_probs=28.7
Q ss_pred ccccccccccceeeecccccccCCCCCCCchhhhhHHh-ccc-cCCChhhhh
Q 028527 155 ECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR-NAR-SQSCLFAVA 204 (208)
Q Consensus 155 eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir-~~R-SkSCP~CR~ 204 (208)
.||||-+--...|. -+ |.|.||-.|.- ..+ ...|-+|-.
T Consensus 198 ~C~iCKkdy~spvv---------t~--CGH~FC~~Cai~~y~kg~~C~~Cgk 238 (259)
T COG5152 198 LCGICKKDYESPVV---------TE--CGHSFCSLCAIRKYQKGDECGVCGK 238 (259)
T ss_pred eehhchhhccchhh---------hh--cchhHHHHHHHHHhccCCcceecch
Confidence 79999986544444 47 99999999976 333 367888854
No 59
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.08 E-value=0.4 Score=44.39 Aligned_cols=49 Identities=22% Similarity=0.227 Sum_probs=35.7
Q ss_pred cccccCCCCccccccccccce-eeecccccccCCCCCCCchhhhhHHhccc----cCCChhhhhc
Q 028527 146 SDKDLDRNDECGICMENCTKM-VTRKHFSLERIPDKYFSHNGLIMNYRNAR----SQSCLFAVAA 205 (208)
Q Consensus 146 s~id~~~d~eCgICME~~~k~-V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R----SkSCP~CR~~ 205 (208)
+.-..+.+.||.+|-|..+-. +. -. |.|.||--||+..+ |-.||-|-.+
T Consensus 232 sss~~t~~~~C~~Cg~~PtiP~~~---------~~--C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~ 285 (298)
T KOG2879|consen 232 SSSTGTSDTECPVCGEPPTIPHVI---------GK--CGHIYCYYCIATSRLWDASFTCPLCGEN 285 (298)
T ss_pred ccccccCCceeeccCCCCCCCeee---------cc--ccceeehhhhhhhhcchhhcccCccCCC
Confidence 444456789999999985432 22 23 99999999999333 5799999654
No 60
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=86.72 E-value=0.17 Score=47.43 Aligned_cols=46 Identities=13% Similarity=0.121 Sum_probs=32.8
Q ss_pred cCCCCcccccccc--ccceeeecccccccCCCCCCCchhhhhHHh--ccccCCChhhhhccc
Q 028527 150 LDRNDECGICMEN--CTKMVTRKHFSLERIPDKYFSHNGLIMNYR--NARSQSCLFAVAAYR 207 (208)
Q Consensus 150 ~~~d~eCgICME~--~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir--~~RSkSCP~CR~~~~ 207 (208)
+..-..|++|-.- ....| +. |-|+||-.||= -..++.||.|...+.
T Consensus 12 ~n~~itC~LC~GYliDATTI----------~e--CLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATTI----------TE--CLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred cccceehhhccceeecchhH----------HH--HHHHHHHHHHHHHHHHhccCCccceecc
Confidence 3456789999753 22223 34 99999999998 235899999987653
No 61
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.03 E-value=0.33 Score=45.25 Aligned_cols=41 Identities=15% Similarity=0.184 Sum_probs=31.8
Q ss_pred CccccccccccceeeecccccccCCCCCCCchhhhhHHh--ccccCCChhhhhc
Q 028527 154 DECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR--NARSQSCLFAVAA 205 (208)
Q Consensus 154 ~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir--~~RSkSCP~CR~~ 205 (208)
..|.||-+.-...|. .+ |.|.||-.|.- -.++..|++|-..
T Consensus 242 f~c~icr~~f~~pVv---------t~--c~h~fc~~ca~~~~qk~~~c~vC~~~ 284 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVV---------TK--CGHYFCEVCALKPYQKGEKCYVCSQQ 284 (313)
T ss_pred ccccccccccccchh---------hc--CCceeehhhhccccccCCcceecccc
Confidence 349999987655555 57 99999999987 3456899999653
No 62
>PLN02400 cellulose synthase
Probab=85.28 E-value=0.33 Score=51.42 Aligned_cols=53 Identities=19% Similarity=0.283 Sum_probs=34.8
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh---ccccCCChhhhhcccC
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NARSQSCLFAVAAYRE 208 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~RSkSCP~CR~~~~~ 208 (208)
....|-||-+.+-..+..-.|-- =-. |.-..|-.||. +-.+|+||+|+..|||
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVA--C~e--CaFPVCRpCYEYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVA--CNE--CAFPVCRPCYEYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEE--Ecc--CCCccccchhheecccCCccCcccCCcccc
Confidence 34699999987533332111111 012 44449999998 5567999999999986
No 63
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. 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
Probab=84.99 E-value=0.64 Score=31.73 Aligned_cols=20 Identities=5% Similarity=-0.074 Sum_probs=16.1
Q ss_pred chhhhhHHhccc----cCCChhhh
Q 028527 184 HNGLIMNYRNAR----SQSCLFAV 203 (208)
Q Consensus 184 H~fCl~Cir~~R----SkSCP~CR 203 (208)
|.+-..|..+|- ..+||+|.
T Consensus 26 ~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 26 KYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred hHHHHHHHHHHHHHcCCCcCCCCC
Confidence 788889999775 45899994
No 64
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=84.89 E-value=0.34 Score=51.30 Aligned_cols=49 Identities=24% Similarity=0.354 Sum_probs=33.7
Q ss_pred CCccccccccccceeeecccccccCCCCCCCch---hhhhHHh---ccccCCChhhhhcccC
Q 028527 153 NDECGICMENCTKMVTRKHFSLERIPDKYFSHN---GLIMNYR---NARSQSCLFAVAAYRE 208 (208)
Q Consensus 153 d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~---fCl~Cir---~~RSkSCP~CR~~~~~ 208 (208)
...|-||-+.+--.+..-.| -- ||.. .|-.||. +-.+|+||+|...|||
T Consensus 17 ~qiCqICGD~vg~~~~Ge~F-----VA--C~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr 71 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPF-----VA--CDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKR 71 (1079)
T ss_pred CceeeecccccCcCCCCCEE-----EE--eccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 46899999875322221111 11 5555 9999998 5568999999999885
No 65
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=84.74 E-value=0.38 Score=34.02 Aligned_cols=40 Identities=18% Similarity=0.149 Sum_probs=25.3
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh----ccccCCChh
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR----NARSQSCLF 201 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir----~~RSkSCP~ 201 (208)
....|.|.+..-.+.|. ++.|+|+|.-..|. +.++..||.
T Consensus 10 ~~~~CPiT~~~~~~PV~----------s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVK----------SKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEE----------ESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcC----------cCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 34789999987766676 45699999999998 344678998
No 66
>PLN02436 cellulose synthase A
Probab=84.64 E-value=0.37 Score=51.05 Aligned_cols=53 Identities=17% Similarity=0.301 Sum_probs=34.5
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh---ccccCCChhhhhcccC
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NARSQSCLFAVAAYRE 208 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~RSkSCP~CR~~~~~ 208 (208)
....|-||-+.+-..+....|-- =.- |+-..|-.||. +..+++||+|...|+|
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVA--Cn~--C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVA--CNE--CAFPVCRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEe--ecc--CCCccccchhhhhhhcCCccCcccCCchhh
Confidence 44699999987533222111111 011 44449999998 5567999999999885
No 67
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.43 E-value=0.42 Score=41.46 Aligned_cols=39 Identities=15% Similarity=0.233 Sum_probs=31.0
Q ss_pred ccccccccccceeeecccccccCCCCCCCch-hhhhHHhccccCCChhhhhcc
Q 028527 155 ECGICMENCTKMVTRKHFSLERIPDKYFSHN-GLIMNYRNARSQSCLFAVAAY 206 (208)
Q Consensus 155 eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~-fCl~Cir~~RSkSCP~CR~~~ 206 (208)
-|-.|-|....+++ || |+|- +|..|-.. -+.||.|+.+-
T Consensus 160 ~Cr~C~~~~~~Vll--------lP---CrHl~lC~~C~~~--~~~CPiC~~~~ 199 (207)
T KOG1100|consen 160 SCRKCGEREATVLL--------LP---CRHLCLCGICDES--LRICPICRSPK 199 (207)
T ss_pred cceecCcCCceEEe--------ec---ccceEeccccccc--CccCCCCcChh
Confidence 38888888777666 46 9998 99999864 56799999764
No 68
>PLN02189 cellulose synthase
Probab=81.59 E-value=0.58 Score=49.43 Aligned_cols=53 Identities=17% Similarity=0.276 Sum_probs=34.6
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh---ccccCCChhhhhcccC
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NARSQSCLFAVAAYRE 208 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~RSkSCP~CR~~~~~ 208 (208)
....|-||-+.+.-.+....|- -=.- |+-..|-.||. +..+++||+|+..|+|
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fv--aC~~--C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFV--ACNE--CGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEE--eecc--CCCccccchhhhhhhcCCccCcccCCchhh
Confidence 3468999998753222111110 0122 66669999998 5567999999999885
No 69
>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). ; PDB: 3NW0_A 2CT0_A.
Probab=81.38 E-value=1.2 Score=29.80 Aligned_cols=39 Identities=18% Similarity=0.225 Sum_probs=16.5
Q ss_pred cccccccccceeeecccccccCCCCCCCchhhhhHHh---ccccC-CChhh
Q 028527 156 CGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NARSQ-SCLFA 202 (208)
Q Consensus 156 CgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~RSk-SCP~C 202 (208)
|-+|.|+++..+. =+|..|+=.+-..|++ +.+++ .||.|
T Consensus 1 C~~C~~iv~~G~~--------C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQR--------CSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE---------SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeecc--------CCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 6788888766665 1222255444445555 33443 49987
No 70
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=80.83 E-value=0.6 Score=49.38 Aligned_cols=53 Identities=13% Similarity=0.210 Sum_probs=34.7
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh---ccccCCChhhhhcccC
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NARSQSCLFAVAAYRE 208 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~RSkSCP~CR~~~~~ 208 (208)
....|-||-|.+-..+..-.|-- =.- |+-..|-.||. +..+++||+|...|+|
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVA--C~e--C~fpvCr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVA--CHV--CGFPVCKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEE--ecc--CCCccccchhhhhhhcCCccCCccCCchhh
Confidence 34789999987533322111110 011 44459999998 5668999999999875
No 71
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=80.79 E-value=0.8 Score=42.00 Aligned_cols=41 Identities=12% Similarity=0.162 Sum_probs=32.5
Q ss_pred CCccccccccccceeeecccccccCCCCCC--CchhhhhHHhccccCCChhhhhcc
Q 028527 153 NDECGICMENCTKMVTRKHFSLERIPDKYF--SHNGLIMNYRNARSQSCLFAVAAY 206 (208)
Q Consensus 153 d~eCgICME~~~k~V~~k~~~~~~Lpn~~C--~H~fCl~Cir~~RSkSCP~CR~~~ 206 (208)
-.+|.||.+..+.-++ - | .|.-|-.|-+ ..++-||+||.++
T Consensus 48 lleCPvC~~~l~~Pi~----------Q--C~nGHlaCssC~~-~~~~~CP~Cr~~~ 90 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPPIF----------Q--CDNGHLACSSCRT-KVSNKCPTCRLPI 90 (299)
T ss_pred hccCchhhccCcccce----------e--cCCCcEehhhhhh-hhcccCCcccccc
Confidence 3799999999766666 2 6 4999999985 4557899999876
No 72
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.69 E-value=1 Score=43.66 Aligned_cols=30 Identities=23% Similarity=0.290 Sum_probs=22.9
Q ss_pred CCCccccccccccc---eeeecccccccCCCCCCCchhhhhHHh
Q 028527 152 RNDECGICMENCTK---MVTRKHFSLERIPDKYFSHNGLIMNYR 192 (208)
Q Consensus 152 ~d~eCgICME~~~k---~V~~k~~~~~~Lpn~~C~H~fCl~Cir 192 (208)
+--.|.||||.... +++ +| |.|.||..|.+
T Consensus 183 slf~C~ICf~e~~G~~c~~~--------lp---C~Hv~Ck~C~k 215 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKF--------LP---CSHVFCKSCLK 215 (445)
T ss_pred hcccceeeehhhcCcceeee--------cc---cchHHHHHHHH
Confidence 45789999987433 344 45 99999999987
No 73
>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. 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.
Probab=79.67 E-value=0.64 Score=33.12 Aligned_cols=25 Identities=16% Similarity=0.134 Sum_probs=19.2
Q ss_pred CchhhhhHHh--ccccCCChhhhhccc
Q 028527 183 SHNGLIMNYR--NARSQSCLFAVAAYR 207 (208)
Q Consensus 183 ~H~fCl~Cir--~~RSkSCP~CR~~~~ 207 (208)
+|..|++|.. -.+|.-||+|-.+|.
T Consensus 20 dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 20 DHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp S-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred chhHHHHHHHHHhccccCCCcccCcCc
Confidence 5999999999 678999999987764
No 74
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=79.41 E-value=0.57 Score=36.35 Aligned_cols=26 Identities=12% Similarity=0.065 Sum_probs=21.9
Q ss_pred CCCchhhhhHHhccc-----cCCChhhhhcc
Q 028527 181 YFSHNGLIMNYRNAR-----SQSCLFAVAAY 206 (208)
Q Consensus 181 ~C~H~fCl~Cir~~R-----SkSCP~CR~~~ 206 (208)
+|.|.|-.-||-+|- ..-||.||...
T Consensus 50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred HHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 599999999999774 25899999865
No 75
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.00 E-value=1.2 Score=42.04 Aligned_cols=31 Identities=19% Similarity=0.388 Sum_probs=24.7
Q ss_pred CCCCccccccccccc-eeeecccccccCCCCCCCchhhhhHHh
Q 028527 151 DRNDECGICMENCTK-MVTRKHFSLERIPDKYFSHNGLIMNYR 192 (208)
Q Consensus 151 ~~d~eCgICME~~~k-~V~~k~~~~~~Lpn~~C~H~fCl~Cir 192 (208)
..+.+||||++.... ++. .. |+|.||..|++
T Consensus 68 ~~~~~c~ic~~~~~~~~~~---------~~--c~H~~c~~cw~ 99 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIG---------LG--CGHPFCPPCWT 99 (444)
T ss_pred CccccCCcccCCCcchhhh---------cC--CCcHHHHHHHH
Confidence 456899999998643 333 56 99999999998
No 76
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=78.30 E-value=1.4 Score=42.43 Aligned_cols=47 Identities=26% Similarity=0.458 Sum_probs=31.2
Q ss_pred CCCccccccccccceeeecc-cccccCCCCCCCchhhhhHHhccc---cCCChhhhhcc
Q 028527 152 RNDECGICMENCTKMVTRKH-FSLERIPDKYFSHNGLIMNYRNAR---SQSCLFAVAAY 206 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~-~~~~~Lpn~~C~H~fCl~Cir~~R---SkSCP~CR~~~ 206 (208)
+|+-|..|||... +.+|. |+- . |.--.|--|+.+-| ..-||-||.-|
T Consensus 13 eed~cplcie~md--itdknf~pc----~--cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 13 EEDYCPLCIEPMD--ITDKNFFPC----P--CGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred ccccCcccccccc--cccCCcccC----C--cccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 4566999999731 23343 333 2 77777777776544 36899999865
No 77
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. 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.
Probab=72.91 E-value=1.2 Score=37.04 Aligned_cols=40 Identities=15% Similarity=0.088 Sum_probs=25.9
Q ss_pred CCCccccccccccc--eeeecccccccCCCCCCCchhhhhHHhccc
Q 028527 152 RNDECGICMENCTK--MVTRKHFSLERIPDKYFSHNGLIMNYRNAR 195 (208)
Q Consensus 152 ~d~eCgICME~~~k--~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R 195 (208)
...||.||.+.... .|..- ..+-.-| =-|.||-.|+.+|+
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~v--t~~g~ln--LEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYV--TDGGTLN--LEKMFCADCDKRWR 66 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEE--ecCCeeh--HHHHHHHHHHHHHH
Confidence 47899999987544 33311 1111123 45889999999993
No 78
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=72.27 E-value=1.6 Score=45.73 Aligned_cols=45 Identities=24% Similarity=0.191 Sum_probs=34.2
Q ss_pred CCCccccccccc--cceeeecccccccCCCCCCCchhhhhHHhcccc---------CCChhhhhc
Q 028527 152 RNDECGICMENC--TKMVTRKHFSLERIPDKYFSHNGLIMNYRNARS---------QSCLFAVAA 205 (208)
Q Consensus 152 ~d~eCgICME~~--~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RS---------kSCP~CR~~ 205 (208)
+--||-||.|.. +..|+ +=+.|-|.|-+.||+.|-. --||.|+..
T Consensus 190 ~~yeCmIC~e~I~~t~~~W---------SC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVW---------SCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred CceEEEEeeeeccccCCce---------ecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 446999999975 44455 5555999999999998842 369999843
No 79
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=72.20 E-value=1.6 Score=44.50 Aligned_cols=43 Identities=19% Similarity=0.327 Sum_probs=31.7
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh---cc--ccCCChhhhhc
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR---NA--RSQSCLFAVAA 205 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir---~~--RSkSCP~CR~~ 205 (208)
.+-||+||.+.....++ -. |+|.||..|.. .| ..+-||.|+..
T Consensus 20 k~lEc~ic~~~~~~p~~---------~k--c~~~~l~~~~n~~f~~~~~~~~~~lc~~~ 67 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSL---------LK--CDHIFLKFCLNKLFESKKGPKQCALCKSD 67 (684)
T ss_pred hhccCCceeEEeeccch---------hh--hhHHHHhhhhhceeeccCccccchhhhhh
Confidence 45799999998433332 44 99999999998 22 25789999853
No 80
>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. 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 [].
Probab=72.16 E-value=4 Score=29.73 Aligned_cols=42 Identities=12% Similarity=0.233 Sum_probs=27.4
Q ss_pred hhhccccccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh
Q 028527 142 RRKLSDKDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR 192 (208)
Q Consensus 142 ~~k~s~id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir 192 (208)
+.+...+.++.+..|.+|-......++ -. -| |+|.+...|++
T Consensus 67 ~~~~~~v~i~~~~~C~vC~k~l~~~~f----~~--~p---~~~v~H~~C~~ 108 (109)
T PF10367_consen 67 KLRSRSVVITESTKCSVCGKPLGNSVF----VV--FP---CGHVVHYSCIK 108 (109)
T ss_pred hhcCceEEECCCCCccCcCCcCCCceE----EE--eC---CCeEEeccccc
Confidence 344556777889999999976422211 11 25 77888888875
No 81
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=72.12 E-value=5.4 Score=37.71 Aligned_cols=58 Identities=17% Similarity=0.150 Sum_probs=36.6
Q ss_pred ccCCCCccccccccccceeeeccc-ccc-------cCCC---CCCCchhhhhHHhcc---c------------cCCChhh
Q 028527 149 DLDRNDECGICMENCTKMVTRKHF-SLE-------RIPD---KYFSHNGLIMNYRNA---R------------SQSCLFA 202 (208)
Q Consensus 149 d~~~d~eCgICME~~~k~V~~k~~-~~~-------~Lpn---~~C~H~fCl~Cir~~---R------------SkSCP~C 202 (208)
..++.+.|==||.....+-+.|.= ..+ -.+. =||.---|+.|..+| | +-.||.|
T Consensus 267 ~~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtC 346 (358)
T PF10272_consen 267 SGQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTC 346 (358)
T ss_pred CccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCC
Confidence 345668899999877666665542 111 1222 234455589999865 2 2489999
Q ss_pred hhcc
Q 028527 203 VAAY 206 (208)
Q Consensus 203 R~~~ 206 (208)
|..+
T Consensus 347 Ra~F 350 (358)
T PF10272_consen 347 RAKF 350 (358)
T ss_pred cccc
Confidence 9874
No 82
>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. 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.
Probab=71.91 E-value=4.4 Score=34.86 Aligned_cols=16 Identities=38% Similarity=0.677 Sum_probs=12.4
Q ss_pred CCccccccccccceee
Q 028527 153 NDECGICMENCTKMVT 168 (208)
Q Consensus 153 d~eCgICME~~~k~V~ 168 (208)
|-.|.||||..-.-|+
T Consensus 2 d~~CpICme~PHNAVL 17 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVL 17 (162)
T ss_pred CccCceeccCCCceEE
Confidence 5679999998755555
No 83
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=70.01 E-value=2.3 Score=47.74 Aligned_cols=51 Identities=22% Similarity=0.262 Sum_probs=35.0
Q ss_pred cccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh-----cccc-------CCChhhhhcc
Q 028527 148 KDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR-----NARS-------QSCLFAVAAY 206 (208)
Q Consensus 148 id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir-----~~RS-------kSCP~CR~~~ 206 (208)
...+.|+.|-||.-- .+.-+..+ + -+ |.|.|-+.|.| +|-. -|||.|...+
T Consensus 3481 tkQD~DDmCmICFTE----~L~AAP~I-q-L~--C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3481 TKQDADDMCMICFTE----ALSAAPAI-Q-LD--CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred hhcccCceEEEEehh----hhCCCcce-e-cC--CccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 345688999999843 22112222 1 25 99999999999 5643 6999998765
No 84
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=67.81 E-value=2.3 Score=34.64 Aligned_cols=23 Identities=9% Similarity=-0.027 Sum_probs=19.8
Q ss_pred CCchhhhhHHhccc--cCCChhhhh
Q 028527 182 FSHNGLIMNYRNAR--SQSCLFAVA 204 (208)
Q Consensus 182 C~H~fCl~Cir~~R--SkSCP~CR~ 204 (208)
|||+|-.-||.+|= .+-||.|-.
T Consensus 81 CNHaFH~hCisrWlktr~vCPLdn~ 105 (114)
T KOG2930|consen 81 CNHAFHFHCISRWLKTRNVCPLDNK 105 (114)
T ss_pred cchHHHHHHHHHHHhhcCcCCCcCc
Confidence 99999999999884 378999854
No 85
>PF04641 Rtf2: Rtf2 RING-finger
Probab=62.59 E-value=5 Score=35.32 Aligned_cols=47 Identities=11% Similarity=0.122 Sum_probs=35.1
Q ss_pred CCCCccccccccc---cceeeecccccccCCCCCCCchhhhhHHhccc-cCCChhhhhccc
Q 028527 151 DRNDECGICMENC---TKMVTRKHFSLERIPDKYFSHNGLIMNYRNAR-SQSCLFAVAAYR 207 (208)
Q Consensus 151 ~~d~eCgICME~~---~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~R-SkSCP~CR~~~~ 207 (208)
...-.|+|....- .+.|+ |-+ |+|.|+-+++..-. +..||.|-.+|.
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~--------l~~--cG~V~s~~alke~k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVY--------LRP--CGCVFSEKALKELKKSKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCcccCCceeEEE--------EcC--CCCEeeHHHHHhhcccccccccCCccc
Confidence 3446899988542 34555 455 99999999999666 778999988764
No 86
>PF08403 AA_permease_N: Amino acid permease N-terminal; InterPro: IPR013612 Amino acid permeases are integral membrane proteins involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related [, , ]. These proteins appear to contain up to 12 transmembrane segments. The best conserved region in this family is located in the second transmembrane segment. This domain is found to the N terminus of the amino acid permease domain (IPR004841 from INTERPRO) in metazoan Na-K-Cl cotransporters.
Probab=60.48 E-value=4.3 Score=30.67 Aligned_cols=16 Identities=31% Similarity=0.360 Sum_probs=12.3
Q ss_pred hhccchHhhhhhhhhh
Q 028527 106 IIYPSLRQLESEFSEL 121 (208)
Q Consensus 106 vI~PsL~qL~~~~~dl 121 (208)
...|||++||..+.+.
T Consensus 38 ~~RPSL~~Lh~~~~~~ 53 (74)
T PF08403_consen 38 KSRPSLDELHSQLEKD 53 (74)
T ss_pred cCCCCHHHHHHHhhcC
Confidence 4689999999766543
No 87
>PF08977 BOFC_N: Bypass of Forespore C, N terminal; InterPro: IPR015071 The N-terminal domain of, bypass of forespore C, is composed of a four-stranded beta-sheet covered by an alpha-helix. The beta-sheet has a beta2-beta1-beta4-beta3 topology, where strands beta1 and beta2 and strands beta3 and beta4 are connected by beta-turns, whereas strands beta2 and beta3 are joined by an alpha-helix that runs across one face of the beta-sheet. This domain is similar to the third immunoglobulin G-binding domain of protein G from Streptococcus, the latter belonging to a large and diverse group of cell surface-associated proteins that bind to immunoglobulins. It has been hypothesised that this domain may be a mediator of protein-protein interactions involved in proteolytic events at the cell surface []. ; PDB: 2BW2_A.
Probab=49.12 E-value=10 Score=27.10 Aligned_cols=32 Identities=22% Similarity=0.471 Sum_probs=23.0
Q ss_pred eeEEEEEeeeCCCCcc-chhhhhchHHhHHHhh
Q 028527 76 LNILVYKVYVDGMPAL-SSKERKATLREFYAII 107 (208)
Q Consensus 76 ~~Ilvykvy~DG~~~~-s~~~RkatlrEFY~vI 107 (208)
..|++-+||.||.... -..|+..|+.+|.+-.
T Consensus 1 ~~V~Ler~YlDGevseE~~~Eti~s~ed~w~~Y 33 (51)
T PF08977_consen 1 MTVILERVYLDGEVSEEIKEETIWSMEDFWAKY 33 (51)
T ss_dssp EEEEEEEE-SSS-EEEEEEEEEEEEHHHHHHHS
T ss_pred CEEEEEEEEecCceeEEEEEeeeccHHHHHHhh
Confidence 3588899999999663 4467888999998753
No 88
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.87 E-value=6.7 Score=36.89 Aligned_cols=33 Identities=27% Similarity=0.468 Sum_probs=22.1
Q ss_pred CCCcccccc-ccccceeeecccccccCCCCCCCchhhhhHHh
Q 028527 152 RNDECGICM-ENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR 192 (208)
Q Consensus 152 ~d~eCgICM-E~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir 192 (208)
...+|+||+ |.... +.-|.. .. |.|-||..|..
T Consensus 145 ~~~~C~iC~~e~~~~---~~~f~~---~~--C~H~fC~~C~k 178 (384)
T KOG1812|consen 145 PKEECGICFVEDPEA---EDMFSV---LK--CGHRFCKDCVK 178 (384)
T ss_pred ccccCccCccccccH---hhhHHH---hc--ccchhhhHHhH
Confidence 468999999 55211 011111 45 99999999998
No 89
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.22 E-value=13 Score=39.17 Aligned_cols=64 Identities=19% Similarity=0.292 Sum_probs=39.0
Q ss_pred hhhhhhhhHHHHhhh-ccccccCCCC-----ccccccccc-cceeeecccccccCCCCCCCchhhhhHHhccccCCChhh
Q 028527 130 CSEISSRKRVEERRK-LSDKDLDRND-----ECGICMENC-TKMVTRKHFSLERIPDKYFSHNGLIMNYRNARSQSCLFA 202 (208)
Q Consensus 130 c~e~~~~kd~e~~~k-~s~id~~~d~-----eCgICME~~-~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~RSkSCP~C 202 (208)
-++.|. |++++.++ +.+.. .++. .|.+|--.- -.+|- -- |.|+|--.|.. ....-||-|
T Consensus 813 ~Ie~yk-~~i~e~r~~l~~lr-~sa~i~q~skCs~C~~~LdlP~Vh---------F~--CgHsyHqhC~e-~~~~~CP~C 878 (933)
T KOG2114|consen 813 AIEVYK-KDIEEKRQELETLR-TSAQIFQVSKCSACEGTLDLPFVH---------FL--CGHSYHQHCLE-DKEDKCPKC 878 (933)
T ss_pred HHHHHH-HHHHHHHHHHHHhh-cccceeeeeeecccCCccccceee---------ee--cccHHHHHhhc-cCcccCCcc
Confidence 345554 45555443 33333 3444 788886332 23333 23 99999999997 445789999
Q ss_pred hhccc
Q 028527 203 VAAYR 207 (208)
Q Consensus 203 R~~~~ 207 (208)
+..++
T Consensus 879 ~~e~~ 883 (933)
T KOG2114|consen 879 LPELR 883 (933)
T ss_pred chhhh
Confidence 98554
No 90
>TIGR03738 PRTRC_C PRTRC system protein C. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated PRTRC system protein C.
Probab=46.10 E-value=21 Score=26.70 Aligned_cols=36 Identities=33% Similarity=0.661 Sum_probs=28.3
Q ss_pred cCceeEEEEE--eeeCCCCccchhhhhchHHhHHHhhccchH
Q 028527 73 LGLLNILVYK--VYVDGMPALSSKERKATLREFYAIIYPSLR 112 (208)
Q Consensus 73 lgl~~Ilvyk--vy~DG~~~~s~~~RkatlrEFY~vI~PsL~ 112 (208)
-+|-|+.+|+ .-.|=.+.||..+ .++||+-.||-|-
T Consensus 3 ~~l~RvF~~~gi~L~DP~p~~spe~----V~dfYs~~YPeLt 40 (66)
T TIGR03738 3 TTLSRVFTYNGVRLADPSPAMSPEQ----VRDFYSAQYPELL 40 (66)
T ss_pred eeEEEEEEECCeEcCCCCCCCCHHH----HHHHHhccCchhe
Confidence 3678889997 4467778888854 6799999999875
No 91
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.49 E-value=13 Score=33.18 Aligned_cols=49 Identities=12% Similarity=0.192 Sum_probs=29.9
Q ss_pred CccccccccccceeeecccccccCCCCCCCchhhhhHHhcc-cc------------CCChhhhhcc
Q 028527 154 DECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYRNA-RS------------QSCLFAVAAY 206 (208)
Q Consensus 154 ~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~-RS------------kSCP~CR~~~ 206 (208)
.-||||.--........+-. .|-.|+..|---|...| |+ ..||.|-.++
T Consensus 166 ~~cgicyayqldGTipDqtC----dN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTC----DNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hcccceeeeecCCccccccc----cccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 57999986543322211111 23448888877887766 32 5899998765
No 92
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=42.49 E-value=8.9 Score=40.29 Aligned_cols=24 Identities=17% Similarity=0.167 Sum_probs=19.7
Q ss_pred CCCchhhhhHHhccc--c------CCChhhhh
Q 028527 181 YFSHNGLIMNYRNAR--S------QSCLFAVA 204 (208)
Q Consensus 181 ~C~H~fCl~Cir~~R--S------kSCP~CR~ 204 (208)
.|+|.+|+.|||.|. . ..|+|||-
T Consensus 248 ~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 248 RCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred ccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 399999999999882 2 58899874
No 93
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.48 E-value=10 Score=35.99 Aligned_cols=30 Identities=7% Similarity=-0.094 Sum_probs=22.1
Q ss_pred CCCCCCCchhhhhHHhcc---------------ccCCChhhhhcc
Q 028527 177 IPDKYFSHNGLIMNYRNA---------------RSQSCLFAVAAY 206 (208)
Q Consensus 177 Lpn~~C~H~fCl~Cir~~---------------RSkSCP~CR~~~ 206 (208)
-+|-+|...-|-.|..+| .|-.||.||..+
T Consensus 320 c~nc~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 320 CENCICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred ccccccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 356677788889998744 246899999864
No 94
>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=41.36 E-value=7.9 Score=35.95 Aligned_cols=48 Identities=13% Similarity=0.170 Sum_probs=31.5
Q ss_pred CCCccccccccc---cceeeecccccccCCCCCCCchhhhhHHhc---cccCCCh--hhhhccc
Q 028527 152 RNDECGICMENC---TKMVTRKHFSLERIPDKYFSHNGLIMNYRN---ARSQSCL--FAVAAYR 207 (208)
Q Consensus 152 ~d~eCgICME~~---~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~---~RSkSCP--~CR~~~~ 207 (208)
.|..|+||---. ..+++ -+-|- |-|-+|-+|..+ ..--.|| -|-..||
T Consensus 9 ~d~~CPvCksDrYLnPdik~------linPE--CyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKI------LINPE--CYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEE------EECHH--HHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 346899997432 12211 12355 999999999983 3446899 7876665
No 95
>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. 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.
Probab=40.17 E-value=20 Score=25.38 Aligned_cols=24 Identities=13% Similarity=0.018 Sum_probs=15.1
Q ss_pred CCCCCCchhhhhHHh--ccccCCChhhh
Q 028527 178 PDKYFSHNGLIMNYR--NARSQSCLFAV 203 (208)
Q Consensus 178 pn~~C~H~fCl~Cir--~~RSkSCP~CR 203 (208)
|. |.+.||+.|=- .-.-.+||-|-
T Consensus 25 ~~--C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 25 PK--CKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TT--TT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CC--CCCccccCcChhhhccccCCcCCC
Confidence 66 99999999977 44557899883
No 96
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=40.15 E-value=17 Score=40.04 Aligned_cols=45 Identities=16% Similarity=0.203 Sum_probs=34.4
Q ss_pred cccCCCCccccccccc--cceeeecccccccCCCCCCCchhhhhHHhcc--ccCCChhhhh
Q 028527 148 KDLDRNDECGICMENC--TKMVTRKHFSLERIPDKYFSHNGLIMNYRNA--RSQSCLFAVA 204 (208)
Q Consensus 148 id~~~d~eCgICME~~--~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~--RSkSCP~CR~ 204 (208)
.++++-..|.||.++. ..++. . |.|.+|-.|.--| ++..||.|..
T Consensus 1148 ~~~~~~~~c~ic~dil~~~~~I~----------~--cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1148 MNLSGHFVCEICLDILRNQGGIA----------G--CGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred HHhhcccchHHHHHHHHhcCCee----------e--echhHhhhHHHHHHHHhccCcchhh
Confidence 3455667999999874 34444 5 9999999999955 6788999864
No 97
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=39.84 E-value=23 Score=38.66 Aligned_cols=19 Identities=47% Similarity=0.639 Sum_probs=18.1
Q ss_pred chHHHHHHHHHhhhhHHHh
Q 028527 10 SYRESLKALEADIQHANTL 28 (208)
Q Consensus 10 s~~dsLk~leaDIqhAN~l 28 (208)
-|+.||+.|.+||-|||+|
T Consensus 653 mf~~SL~rLr~~iv~AN~L 671 (1714)
T KOG0241|consen 653 MFRQSLARLREQIVKANTL 671 (1714)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5999999999999999998
No 98
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=38.44 E-value=14 Score=33.33 Aligned_cols=19 Identities=26% Similarity=0.461 Sum_probs=13.7
Q ss_pred hhHHh-ccc--cCCChhhhhcc
Q 028527 188 IMNYR-NAR--SQSCLFAVAAY 206 (208)
Q Consensus 188 l~Cir-~~R--SkSCP~CR~~~ 206 (208)
..||| |.+ ..-||+||..+
T Consensus 97 ktCIrkn~~~~gnpCPICRDey 118 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEY 118 (239)
T ss_pred hHHHhhcCeecCCCCCccccce
Confidence 45777 445 37999999864
No 99
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=38.35 E-value=17 Score=34.82 Aligned_cols=23 Identities=13% Similarity=-0.058 Sum_probs=18.5
Q ss_pred CCchhhhhHHhcc---ccCCChhhhh
Q 028527 182 FSHNGLIMNYRNA---RSQSCLFAVA 204 (208)
Q Consensus 182 C~H~fCl~Cir~~---RSkSCP~CR~ 204 (208)
|+|.||-.||.+. --.-||.|-.
T Consensus 293 C~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 293 CGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccchHHHHHHhhhhhhccccCCCccc
Confidence 9999999999944 2368999953
No 100
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.32 E-value=34 Score=36.29 Aligned_cols=34 Identities=21% Similarity=0.146 Sum_probs=23.8
Q ss_pred cCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh
Q 028527 150 LDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR 192 (208)
Q Consensus 150 ~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir 192 (208)
++..+.|+||+-.- +.+.|=. -. |.|.|-..|+-
T Consensus 814 ~ep~d~C~~C~~~l----l~~pF~v---f~--CgH~FH~~Cl~ 847 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPL----LIKPFYV---FP--CGHCFHRDCLI 847 (911)
T ss_pred ecCccchHHhcchh----hcCccee---ee--ccchHHHHHHH
Confidence 46889999999762 2221111 24 99999999987
No 101
>smart00412 Cu_FIST Copper-Fist. binds DNA only in present of copper or silver
Probab=31.95 E-value=22 Score=24.22 Aligned_cols=15 Identities=27% Similarity=0.308 Sum_probs=13.0
Q ss_pred hhhhHHhccccCCCh
Q 028527 186 GLIMNYRNARSQSCL 200 (208)
Q Consensus 186 fCl~Cir~~RSkSCP 200 (208)
-|..|||.-|+.+|-
T Consensus 9 aC~~CirGHR~s~C~ 23 (39)
T smart00412 9 ACESCIRGHRSSTCN 23 (39)
T ss_pred cCHHHHCcCccCCcc
Confidence 589999999998884
No 102
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=31.52 E-value=17 Score=24.16 Aligned_cols=17 Identities=12% Similarity=-0.125 Sum_probs=13.9
Q ss_pred CCCCCCchhhhhHHhcccc
Q 028527 178 PDKYFSHNGLIMNYRNARS 196 (208)
Q Consensus 178 pn~~C~H~fCl~Cir~~RS 196 (208)
|. |+|.||..|-..|..
T Consensus 44 ~~--C~~~fC~~C~~~~H~ 60 (64)
T smart00647 44 PK--CGFSFCFRCKVPWHS 60 (64)
T ss_pred CC--CCCeECCCCCCcCCC
Confidence 56 999999999887753
No 103
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=29.73 E-value=32 Score=33.07 Aligned_cols=41 Identities=5% Similarity=-0.278 Sum_probs=34.5
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCch-hhhhHHhccccCCChhhh
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHN-GLIMNYRNARSQSCLFAV 203 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~-fCl~Cir~~RSkSCP~CR 203 (208)
.-.+|-.|-|.-...++ .. |+|. ||..|....-+..||.|-
T Consensus 342 s~~~~~~~~~~~~st~~---------~~--~~~n~~~~~~a~~s~~~~~~~c~ 383 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLSTIW---------SG--GNMNLSPGSLASASASPTSSTCD 383 (394)
T ss_pred hhcccccccCceeeeEe---------ec--CCcccChhhhhhcccCCcccccc
Confidence 45789999988766677 67 9999 999999988889999995
No 104
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.85 E-value=16 Score=31.87 Aligned_cols=53 Identities=19% Similarity=0.261 Sum_probs=29.9
Q ss_pred CCcccccccccc---ceeeecccccccCCCCCCCchhhhhHHhcc---ccCCChhhhhc
Q 028527 153 NDECGICMENCT---KMVTRKHFSLERIPDKYFSHNGLIMNYRNA---RSQSCLFAVAA 205 (208)
Q Consensus 153 d~eCgICME~~~---k~V~~k~~~~~~Lpn~~C~H~fCl~Cir~~---RSkSCP~CR~~ 205 (208)
+..|.||-..-. ....+......++-.+-|.|+.|..|+..- ..-.||+||..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 467999986532 112211111001111129999999999922 22689999863
No 105
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=23.90 E-value=69 Score=27.71 Aligned_cols=48 Identities=15% Similarity=0.184 Sum_probs=29.1
Q ss_pred CCCCccccccccccceeeecccccccCC-C-CCCCchhhhhHHhcc----ccCCChhhhhccc
Q 028527 151 DRNDECGICMENCTKMVTRKHFSLERIP-D-KYFSHNGLIMNYRNA----RSQSCLFAVAAYR 207 (208)
Q Consensus 151 ~~d~eCgICME~~~k~V~~k~~~~~~Lp-n-~~C~H~fCl~Cir~~----RSkSCP~CR~~~~ 207 (208)
..+.+|=||.+.....+. | . +-=....-..|.++| +.++||+|...|+
T Consensus 6 ~~~~~CRIC~~~~~~~~~---------PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDVVTN---------YCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCCccC---------CcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 356899999987432111 3 1 000002377888866 4589999988764
No 106
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=22.43 E-value=35 Score=20.91 Aligned_cols=10 Identities=20% Similarity=0.228 Sum_probs=7.0
Q ss_pred CCChhhhhcc
Q 028527 197 QSCLFAVAAY 206 (208)
Q Consensus 197 kSCP~CR~~~ 206 (208)
|.||.|+..+
T Consensus 1 K~CP~C~~~V 10 (26)
T PF10571_consen 1 KTCPECGAEV 10 (26)
T ss_pred CcCCCCcCCc
Confidence 5688887654
No 107
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=22.23 E-value=30 Score=32.93 Aligned_cols=57 Identities=11% Similarity=-0.004 Sum_probs=36.0
Q ss_pred cccCCCCccccccccccceeeecccccccCCCCCCCchhhhhHHh------------ccccCCChhhhhcc
Q 028527 148 KDLDRNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR------------NARSQSCLFAVAAY 206 (208)
Q Consensus 148 id~~~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir------------~~RSkSCP~CR~~~ 206 (208)
|+--+..+||||....+..+-.|..+.-.-.. |..++-..|+. -|...+|-.|+.-.
T Consensus 253 i~~~~~~~~~~~~~~~~~~~~~r~~S~I~C~~--C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~ 321 (381)
T KOG1512|consen 253 IQNQRRNERKHFWDIQTNIIQSRRNSWIVCKP--CATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICL 321 (381)
T ss_pred ccCcchhhhhhhhcchhhhhhhhhccceeecc--cccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccC
Confidence 44457789999998876666655555432233 65555555554 46677787777643
No 108
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=20.10 E-value=18 Score=30.95 Aligned_cols=81 Identities=16% Similarity=0.196 Sum_probs=62.7
Q ss_pred HHHHHhhhhHHHhhhhCCCCCCCceEEEeeccCCchhHHHHHHHHhhcCCCCC-cccccCceeEEEEEeeeCCCCccchh
Q 028527 16 KALEADIQHANTLAAALPRDYGGDFVQMRLSYSPFAPLVLFMIEWMDYSCTDT-VPSYLGLLNILVYKVYVDGMPALSSK 94 (208)
Q Consensus 16 k~leaDIqhAN~lA~~~pr~~~G~~~qmrLsYs~~a~~flfl~qw~d~~c~~~-la~~lgl~~Ilvykvy~DG~~~~s~~ 94 (208)
+...+|||.+-.-+..+|--....-=+|+..|--++. --=+++||.|-|++- =+|.=..++=.|.++-.||..+...|
T Consensus 32 ~~~~gDi~E~Tas~~~lP~fl~~~~~~i~~~Y~~A~~-~~~~L~~iPCYCGCges~gH~Sn~~Cfi~e~~~dG~Vvwd~H 110 (158)
T PF13798_consen 32 HHANGDIQETTASADVLPSFLDSASPEIQEAYQMAAK-HPELLEYIPCYCGCGESAGHKSNLDCFIDEIKEDGSVVWDDH 110 (158)
T ss_pred hccchhHHHHhcCcccccHHHHcCCHHHHHHHHHHHH-hHHHHHcCCcccCCCCCCCCccccccceeeccCCCceeeccc
Confidence 4567788888877888887777777788888875554 446789999988854 36777788899999999999877766
Q ss_pred hhh
Q 028527 95 ERK 97 (208)
Q Consensus 95 ~Rk 97 (208)
.-+
T Consensus 111 g~~ 113 (158)
T PF13798_consen 111 GTR 113 (158)
T ss_pred ccc
Confidence 654
No 109
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=20.02 E-value=72 Score=29.44 Aligned_cols=46 Identities=17% Similarity=0.192 Sum_probs=30.0
Q ss_pred CCCccccccccccceeeecccccccCCCCCCCchhhhhHHh--ccccCCChhhhh
Q 028527 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFSHNGLIMNYR--NARSQSCLFAVA 204 (208)
Q Consensus 152 ~d~eCgICME~~~k~V~~k~~~~~~Lpn~~C~H~fCl~Cir--~~RSkSCP~CR~ 204 (208)
.+..|.||.|.- + .+.+....-.|.|.+=.+|++ .-..-.||.|-.
T Consensus 157 ~~~ncPic~e~l----~---~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYL----F---LSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHh----c---cccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 345599998873 2 111222233499999999999 223389999965
Done!