Query 032682
Match_columns 136
No_of_seqs 150 out of 1456
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 04:36:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032682.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032682hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1940 Zn-finger protein [Gen 99.9 4.5E-24 9.7E-29 169.3 6.8 116 7-124 156-271 (276)
2 PF14599 zinc_ribbon_6: Zinc-r 99.9 3.4E-23 7.4E-28 130.5 0.0 60 59-118 2-61 (61)
3 PF13639 zf-RING_2: Ring finge 99.5 5.6E-15 1.2E-19 87.1 1.7 44 10-55 1-44 (44)
4 PF15227 zf-C3HC4_4: zinc fing 99.3 1.8E-12 3.8E-17 76.1 2.0 39 12-54 1-42 (42)
5 PF12678 zf-rbx1: RING-H2 zinc 99.2 5.9E-12 1.3E-16 82.1 3.5 50 5-55 15-73 (73)
6 COG5243 HRD1 HRD ubiquitin lig 99.2 1.1E-11 2.4E-16 101.8 3.1 56 5-61 283-348 (491)
7 PF13923 zf-C3HC4_2: Zinc fing 99.2 1.7E-11 3.6E-16 70.5 2.3 39 12-54 1-39 (39)
8 KOG4628 Predicted E3 ubiquitin 99.1 2.2E-11 4.8E-16 99.7 3.4 49 11-60 231-279 (348)
9 cd00162 RING RING-finger (Real 99.1 6.4E-11 1.4E-15 68.1 3.7 45 11-58 1-45 (45)
10 PF13920 zf-C3HC4_3: Zinc fing 99.1 4E-11 8.6E-16 72.4 2.7 46 9-59 2-48 (50)
11 PHA02929 N1R/p28-like protein; 99.1 7E-11 1.5E-15 92.7 4.3 51 8-59 173-227 (238)
12 PF14634 zf-RING_5: zinc-RING 99.1 1.8E-10 4E-15 67.9 3.8 44 11-56 1-44 (44)
13 PLN03208 E3 ubiquitin-protein 99.1 1.5E-10 3.4E-15 87.9 4.1 49 8-60 17-80 (193)
14 PF00097 zf-C3HC4: Zinc finger 99.0 1.3E-10 2.8E-15 67.0 2.6 40 12-54 1-41 (41)
15 PF13445 zf-RING_UBOX: RING-ty 99.0 1E-10 2.2E-15 68.9 2.0 40 12-52 1-43 (43)
16 smart00184 RING Ring finger. E 99.0 5.6E-10 1.2E-14 61.9 4.0 39 12-54 1-39 (39)
17 KOG0804 Cytoplasmic Zn-finger 98.9 2E-10 4.4E-15 96.0 1.2 86 7-120 173-260 (493)
18 PF12861 zf-Apc11: Anaphase-pr 98.9 1.5E-09 3.2E-14 72.6 4.7 50 8-58 20-81 (85)
19 COG5540 RING-finger-containing 98.9 7.9E-10 1.7E-14 88.9 3.2 49 10-59 324-372 (374)
20 KOG0317 Predicted E3 ubiquitin 98.9 1.3E-09 2.9E-14 86.8 3.7 51 4-59 234-284 (293)
21 KOG0320 Predicted E3 ubiquitin 98.9 1.8E-09 3.9E-14 80.9 3.7 51 5-58 127-177 (187)
22 smart00504 Ubox Modified RING 98.9 2.5E-09 5.5E-14 66.7 3.5 44 10-58 2-45 (63)
23 PHA02926 zinc finger-like prot 98.8 2.6E-09 5.6E-14 82.7 4.0 53 7-59 168-230 (242)
24 KOG0823 Predicted E3 ubiquitin 98.8 2.1E-09 4.6E-14 83.3 3.1 47 9-59 47-95 (230)
25 KOG0802 E3 ubiquitin ligase [P 98.7 7.8E-09 1.7E-13 89.4 2.1 53 5-58 287-340 (543)
26 TIGR00599 rad18 DNA repair pro 98.6 2E-08 4.4E-13 83.9 3.0 47 8-59 25-71 (397)
27 TIGR00570 cdk7 CDK-activating 98.5 1.1E-07 2.5E-12 77.0 3.8 52 8-59 2-54 (309)
28 PF04564 U-box: U-box domain; 98.5 2.6E-07 5.6E-12 59.9 4.2 47 9-59 4-50 (73)
29 KOG2177 Predicted E3 ubiquitin 98.4 6.5E-08 1.4E-12 74.0 1.5 45 7-56 11-55 (386)
30 KOG2164 Predicted E3 ubiquitin 98.4 1.4E-07 3E-12 80.3 2.5 47 9-59 186-236 (513)
31 KOG0287 Postreplication repair 98.4 1.9E-07 4.2E-12 76.3 2.7 45 10-59 24-68 (442)
32 COG5574 PEX10 RING-finger-cont 98.3 4.5E-07 9.8E-12 71.7 3.6 51 3-58 209-261 (271)
33 smart00744 RINGv The RING-vari 98.3 1.2E-06 2.7E-11 52.8 4.2 43 11-55 1-49 (49)
34 PF11793 FANCL_C: FANCL C-term 98.2 3E-07 6.6E-12 59.4 0.3 50 9-58 2-65 (70)
35 KOG0828 Predicted E3 ubiquitin 98.2 1.1E-06 2.3E-11 74.9 3.0 51 9-59 571-634 (636)
36 PF14835 zf-RING_6: zf-RING of 98.1 4.6E-07 1E-11 57.5 -0.1 55 9-70 7-63 (65)
37 KOG0827 Predicted E3 ubiquitin 98.1 1.7E-06 3.7E-11 71.8 2.8 45 10-55 5-52 (465)
38 COG5194 APC11 Component of SCF 98.0 7.5E-06 1.6E-10 54.1 4.4 33 25-58 47-80 (88)
39 KOG1493 Anaphase-promoting com 98.0 1.7E-06 3.8E-11 56.6 1.1 53 5-58 16-80 (84)
40 COG5432 RAD18 RING-finger-cont 98.0 2.8E-06 6.1E-11 68.4 2.1 44 10-58 26-69 (391)
41 KOG1734 Predicted RING-contain 98.0 2.2E-06 4.7E-11 68.3 1.4 56 3-58 218-280 (328)
42 KOG0978 E3 ubiquitin ligase in 97.8 5.2E-06 1.1E-10 73.5 1.1 47 10-60 644-690 (698)
43 KOG4172 Predicted E3 ubiquitin 97.8 1.1E-05 2.3E-10 49.8 1.7 53 4-60 2-55 (62)
44 KOG3970 Predicted E3 ubiquitin 97.8 3.6E-05 7.7E-10 60.2 4.9 49 10-60 51-106 (299)
45 KOG0311 Predicted E3 ubiquitin 97.7 6.4E-06 1.4E-10 67.6 -0.4 49 8-59 42-90 (381)
46 KOG1941 Acetylcholine receptor 97.7 1.5E-05 3.3E-10 66.5 1.4 51 8-58 364-415 (518)
47 KOG1039 Predicted E3 ubiquitin 97.6 2.4E-05 5.2E-10 64.5 1.2 53 6-58 158-220 (344)
48 KOG4265 Predicted E3 ubiquitin 97.5 9.1E-05 2E-09 60.9 3.8 46 9-59 290-336 (349)
49 COG5219 Uncharacterized conser 97.5 3.1E-05 6.7E-10 70.5 1.0 49 10-58 1470-1522(1525)
50 PF11789 zf-Nse: Zinc-finger o 97.5 4.5E-05 9.7E-10 47.4 1.3 42 9-53 11-53 (57)
51 KOG0824 Predicted E3 ubiquitin 97.5 5.5E-05 1.2E-09 61.1 2.0 48 8-59 6-53 (324)
52 PF14570 zf-RING_4: RING/Ubox 97.5 7.1E-05 1.5E-09 45.0 1.8 47 12-58 1-47 (48)
53 KOG2930 SCF ubiquitin ligase, 97.4 9.7E-05 2.1E-09 51.1 2.5 51 6-57 43-106 (114)
54 KOG4159 Predicted E3 ubiquitin 97.4 0.00012 2.5E-09 61.6 3.1 53 3-60 78-130 (398)
55 KOG2879 Predicted E3 ubiquitin 97.4 0.00013 2.8E-09 58.3 3.2 53 5-61 235-289 (298)
56 KOG1785 Tyrosine kinase negati 97.1 0.00019 4.1E-09 60.2 1.7 46 10-59 370-416 (563)
57 KOG1645 RING-finger-containing 97.1 0.00036 7.8E-09 58.5 2.9 49 9-57 4-54 (463)
58 KOG1002 Nucleotide excision re 97.1 0.00034 7.3E-09 60.6 2.4 53 2-58 529-585 (791)
59 KOG0297 TNF receptor-associate 96.8 0.00049 1.1E-08 57.7 1.6 53 3-60 15-68 (391)
60 COG5152 Uncharacterized conser 96.7 0.00089 1.9E-08 51.6 2.1 45 10-59 197-241 (259)
61 KOG0825 PHD Zn-finger protein 96.7 0.00031 6.8E-09 63.1 -0.4 48 10-59 124-171 (1134)
62 PF14447 Prok-RING_4: Prokaryo 96.7 0.00058 1.3E-08 42.1 0.7 45 8-59 6-50 (55)
63 KOG1814 Predicted E3 ubiquitin 96.6 0.002 4.4E-08 54.1 3.4 47 8-55 183-236 (445)
64 KOG2660 Locus-specific chromos 96.5 0.00089 1.9E-08 54.7 0.6 48 8-59 14-61 (331)
65 COG5222 Uncharacterized conser 96.4 0.0033 7.2E-08 51.2 3.3 44 10-56 275-318 (427)
66 PF10367 Vps39_2: Vacuolar sor 96.4 0.0011 2.4E-08 44.8 0.5 32 8-41 77-108 (109)
67 KOG3800 Predicted E3 ubiquitin 96.3 0.0038 8.3E-08 50.3 3.3 48 11-59 2-51 (300)
68 KOG4445 Uncharacterized conser 96.2 0.0029 6.3E-08 51.4 2.3 41 5-46 111-151 (368)
69 KOG4185 Predicted E3 ubiquitin 96.2 0.0045 9.7E-08 49.5 3.3 48 10-58 4-54 (296)
70 PF04641 Rtf2: Rtf2 RING-finge 96.2 0.0047 1E-07 49.0 3.1 50 7-59 111-161 (260)
71 PF07800 DUF1644: Protein of u 96.1 0.007 1.5E-07 44.9 3.7 35 8-46 1-48 (162)
72 KOG1813 Predicted E3 ubiquitin 96.1 0.002 4.4E-08 52.1 0.8 46 10-60 242-287 (313)
73 KOG2817 Predicted E3 ubiquitin 96.1 0.0043 9.3E-08 51.9 2.6 45 10-55 335-381 (394)
74 KOG2114 Vacuolar assembly/sort 96.0 0.0069 1.5E-07 54.9 3.8 42 10-58 841-882 (933)
75 PF12906 RINGv: RING-variant d 95.9 0.0033 7.1E-08 37.4 0.8 41 12-54 1-47 (47)
76 KOG4275 Predicted E3 ubiquitin 95.8 0.0014 3E-08 53.1 -1.5 44 9-61 300-344 (350)
77 KOG3268 Predicted E3 ubiquitin 95.8 0.0087 1.9E-07 45.5 2.9 50 10-59 166-228 (234)
78 PHA02825 LAP/PHD finger-like p 95.8 0.015 3.3E-07 43.1 4.1 49 5-58 4-58 (162)
79 COG5236 Uncharacterized conser 95.7 0.015 3.2E-07 48.4 4.3 49 5-57 57-106 (493)
80 KOG3039 Uncharacterized conser 95.7 0.008 1.7E-07 47.7 2.5 49 10-60 222-271 (303)
81 COG5220 TFB3 Cdk activating ki 95.6 0.0071 1.5E-07 47.9 2.0 52 8-59 9-64 (314)
82 KOG1571 Predicted E3 ubiquitin 95.5 0.0069 1.5E-07 50.1 1.7 43 9-59 305-347 (355)
83 COG5175 MOT2 Transcriptional r 95.4 0.0082 1.8E-07 49.7 1.6 51 10-60 15-65 (480)
84 PF05883 Baculo_RING: Baculovi 95.3 0.012 2.5E-07 42.6 2.1 35 9-44 26-66 (134)
85 KOG1952 Transcription factor N 95.3 0.012 2.6E-07 53.4 2.5 48 5-55 187-243 (950)
86 PHA02862 5L protein; Provision 95.2 0.024 5.1E-07 41.6 3.3 46 9-59 2-53 (156)
87 KOG4692 Predicted E3 ubiquitin 95.1 0.015 3.2E-07 48.5 2.3 50 6-60 419-468 (489)
88 KOG1428 Inhibitor of type V ad 95.1 0.031 6.7E-07 53.9 4.5 50 8-58 3485-3543(3738)
89 PF05290 Baculo_IE-1: Baculovi 94.7 0.034 7.5E-07 40.2 3.0 47 10-60 81-133 (140)
90 KOG4739 Uncharacterized protei 94.4 0.016 3.5E-07 45.5 0.8 43 12-59 6-48 (233)
91 KOG3161 Predicted E3 ubiquitin 94.3 0.014 3.1E-07 51.7 0.4 44 10-57 12-55 (861)
92 TIGR00100 hypA hydrogenase nic 94.3 0.024 5.2E-07 39.8 1.5 37 85-123 68-104 (115)
93 KOG1812 Predicted E3 ubiquitin 94.1 0.047 1E-06 45.8 3.1 50 9-58 146-202 (384)
94 KOG3002 Zn finger protein [Gen 93.9 0.07 1.5E-06 43.4 3.7 59 8-77 47-107 (299)
95 PHA03096 p28-like protein; Pro 93.9 0.045 9.8E-07 44.2 2.5 46 10-55 179-230 (284)
96 PF03854 zf-P11: P-11 zinc fin 93.9 0.02 4.4E-07 34.3 0.3 43 10-59 3-46 (50)
97 KOG1001 Helicase-like transcri 93.8 0.031 6.8E-07 50.0 1.5 48 5-58 451-499 (674)
98 KOG2034 Vacuolar sorting prote 93.7 0.038 8.1E-07 50.5 1.9 37 7-45 815-851 (911)
99 KOG4367 Predicted Zn-finger pr 93.6 0.052 1.1E-06 46.5 2.4 34 8-45 3-36 (699)
100 PRK12380 hydrogenase nickel in 93.4 0.043 9.3E-07 38.4 1.4 37 85-123 68-104 (113)
101 PRK00564 hypA hydrogenase nick 93.1 0.052 1.1E-06 38.2 1.6 38 85-123 69-106 (117)
102 PF01155 HypA: Hydrogenase exp 92.8 0.039 8.5E-07 38.5 0.5 37 85-123 68-104 (113)
103 PRK03681 hypA hydrogenase nick 92.7 0.061 1.3E-06 37.7 1.3 38 85-123 68-105 (114)
104 PF08746 zf-RING-like: RING-li 92.6 0.086 1.9E-06 30.7 1.7 40 12-54 1-43 (43)
105 PRK03824 hypA hydrogenase nick 91.9 0.089 1.9E-06 37.9 1.4 38 86-123 69-125 (135)
106 KOG0826 Predicted E3 ubiquitin 91.6 0.13 2.8E-06 42.4 2.3 49 5-58 296-345 (357)
107 PF02891 zf-MIZ: MIZ/SP-RING z 90.3 0.24 5.3E-06 29.6 2.1 44 10-57 3-50 (50)
108 KOG3113 Uncharacterized conser 89.5 0.33 7.1E-06 38.8 2.7 51 6-59 108-158 (293)
109 PF14569 zf-UDP: Zinc-binding 89.3 0.6 1.3E-05 30.8 3.4 56 3-58 3-61 (80)
110 COG1066 Sms Predicted ATP-depe 89.1 0.22 4.9E-06 42.4 1.7 32 86-121 6-37 (456)
111 PRK00762 hypA hydrogenase nick 89.0 0.21 4.6E-06 35.4 1.3 38 85-123 68-110 (124)
112 COG0375 HybF Zn finger protein 88.9 0.23 5.1E-06 35.0 1.4 38 85-124 68-105 (115)
113 KOG2907 RNA polymerase I trans 88.9 0.094 2E-06 36.9 -0.6 18 104-121 73-94 (116)
114 COG5109 Uncharacterized conser 88.9 0.27 5.9E-06 40.5 2.0 45 10-55 337-383 (396)
115 PF14446 Prok-RING_1: Prokaryo 88.8 0.42 9.1E-06 29.3 2.3 36 7-42 3-38 (54)
116 KOG3053 Uncharacterized conser 88.7 0.51 1.1E-05 37.8 3.3 51 8-58 19-81 (293)
117 KOG0827 Predicted E3 ubiquitin 88.1 0.049 1.1E-06 45.8 -2.9 50 10-60 197-246 (465)
118 KOG2932 E3 ubiquitin ligase in 86.5 0.34 7.4E-06 39.8 1.2 30 27-59 105-134 (389)
119 COG1656 Uncharacterized conser 86.0 0.76 1.6E-05 34.4 2.7 53 48-106 97-149 (165)
120 KOG0298 DEAD box-containing he 85.6 0.24 5.3E-06 47.1 -0.1 47 10-60 1154-1200(1394)
121 COG5183 SSM4 Protein involved 85.5 0.86 1.9E-05 41.9 3.3 53 4-58 7-65 (1175)
122 TIGR00416 sms DNA repair prote 85.2 0.52 1.1E-05 40.3 1.8 30 86-119 6-35 (454)
123 KOG2068 MOT2 transcription fac 85.0 0.81 1.7E-05 37.7 2.7 49 10-59 250-298 (327)
124 PRK11823 DNA repair protein Ra 84.4 0.59 1.3E-05 39.8 1.8 32 85-120 5-36 (446)
125 PF10272 Tmpp129: Putative tra 84.2 1.9 4.1E-05 36.1 4.6 25 35-59 315-351 (358)
126 KOG0309 Conserved WD40 repeat- 82.8 0.78 1.7E-05 41.9 1.9 25 27-52 1044-1068(1081)
127 KOG2066 Vacuolar assembly/sort 81.4 0.68 1.5E-05 42.2 1.0 44 9-54 784-830 (846)
128 KOG1609 Protein involved in mR 80.3 1.7 3.7E-05 34.4 2.9 50 9-58 78-133 (323)
129 KOG1815 Predicted E3 ubiquitin 79.7 1.8 3.8E-05 36.9 2.9 37 7-46 68-104 (444)
130 TIGR02605 CxxC_CxxC_SSSS putat 78.4 1.3 2.8E-05 26.2 1.3 35 87-121 5-43 (52)
131 smart00249 PHD PHD zinc finger 76.9 0.97 2.1E-05 25.1 0.4 31 11-43 1-32 (47)
132 smart00734 ZnF_Rad18 Rad18-lik 75.8 2.3 5.1E-05 21.9 1.6 20 49-69 2-21 (26)
133 PRK00398 rpoP DNA-directed RNA 74.0 2 4.4E-05 24.9 1.3 30 87-116 3-32 (46)
134 PF04710 Pellino: Pellino; In 73.5 1 2.2E-05 38.1 -0.2 51 4-57 272-337 (416)
135 PF07191 zinc-ribbons_6: zinc- 72.5 0.16 3.4E-06 32.9 -4.1 40 9-58 1-40 (70)
136 KOG4185 Predicted E3 ubiquitin 71.1 0.77 1.7E-05 36.6 -1.4 47 10-57 208-265 (296)
137 PLN02189 cellulose synthase 70.7 4.3 9.4E-05 38.3 3.2 52 8-59 33-87 (1040)
138 KOG0269 WD40 repeat-containing 70.6 4.8 0.0001 36.8 3.3 39 10-53 780-820 (839)
139 COG1198 PriA Primosomal protei 70.0 3.8 8.3E-05 37.3 2.7 25 86-115 461-485 (730)
140 PF10122 Mu-like_Com: Mu-like 70.0 1.6 3.5E-05 26.4 0.2 40 87-126 4-46 (51)
141 TIGR00595 priA primosomal prot 68.3 3.8 8.3E-05 35.5 2.2 25 86-115 239-263 (505)
142 KOG3899 Uncharacterized conser 68.2 4.6 0.0001 33.2 2.5 29 31-59 325-365 (381)
143 PLN02436 cellulose synthase A 68.2 5.2 0.00011 37.9 3.2 52 8-59 35-89 (1094)
144 KOG3842 Adaptor protein Pellin 68.1 1.7 3.8E-05 36.0 0.1 51 4-57 285-350 (429)
145 KOG1100 Predicted E3 ubiquitin 67.0 3.2 7E-05 32.0 1.4 39 11-58 160-199 (207)
146 KOG4718 Non-SMC (structural ma 66.6 3 6.5E-05 32.6 1.1 42 10-55 182-223 (235)
147 PF13901 DUF4206: Domain of un 66.5 5.1 0.00011 30.6 2.4 40 10-55 153-196 (202)
148 PF13894 zf-C2H2_4: C2H2-type 66.5 4.4 9.5E-05 19.1 1.4 17 49-65 1-17 (24)
149 cd02339 ZZ_Mind_bomb Zinc fing 65.9 4.6 0.0001 23.6 1.6 28 88-118 1-28 (45)
150 PF00628 PHD: PHD-finger; Int 65.8 0.27 5.9E-06 28.8 -3.8 42 11-55 1-49 (51)
151 PF09986 DUF2225: Uncharacteri 65.7 0.94 2E-05 35.0 -1.8 13 47-59 4-16 (214)
152 KOG4362 Transcriptional regula 63.9 2.1 4.5E-05 38.6 -0.2 47 9-59 21-69 (684)
153 smart00132 LIM Zinc-binding do 62.8 6.2 0.00013 20.9 1.7 37 11-58 1-37 (39)
154 KOG3579 Predicted E3 ubiquitin 61.5 3.2 7E-05 33.9 0.5 35 8-46 267-305 (352)
155 PF00096 zf-C2H2: Zinc finger, 61.5 4.7 0.0001 19.3 0.9 15 49-63 1-15 (23)
156 cd02344 ZZ_HERC2 Zinc finger, 60.9 6.6 0.00014 23.1 1.6 28 88-118 1-28 (45)
157 TIGR01562 FdhE formate dehydro 60.6 5.8 0.00013 32.5 1.8 24 86-113 209-232 (305)
158 KOG1829 Uncharacterized conser 60.4 4.1 8.8E-05 36.2 0.9 23 28-54 534-556 (580)
159 smart00659 RPOLCX RNA polymera 60.1 5 0.00011 23.4 1.0 25 88-113 3-27 (44)
160 PRK05580 primosome assembly pr 59.4 6.8 0.00015 35.2 2.2 25 86-115 407-431 (679)
161 PF14353 CpXC: CpXC protein 59.3 0.95 2.1E-05 31.8 -2.6 10 49-58 2-11 (128)
162 cd02345 ZZ_dah Zinc finger, ZZ 58.6 6.7 0.00015 23.2 1.4 28 88-118 1-28 (49)
163 COG1996 RPC10 DNA-directed RNA 58.6 4.3 9.2E-05 24.4 0.5 28 86-113 5-32 (49)
164 PF10571 UPF0547: Uncharacteri 57.2 8.4 0.00018 19.9 1.5 19 90-112 3-21 (26)
165 PRK03564 formate dehydrogenase 56.9 8.2 0.00018 31.7 2.1 24 86-113 211-234 (309)
166 PLN02638 cellulose synthase A 56.0 14 0.00031 35.2 3.7 53 7-59 15-70 (1079)
167 cd02334 ZZ_dystrophin Zinc fin 55.6 7 0.00015 23.3 1.1 28 88-118 1-28 (49)
168 PF05605 zf-Di19: Drought indu 54.7 14 0.00029 22.0 2.3 10 48-57 2-11 (54)
169 PF01927 Mut7-C: Mut7-C RNAse 54.4 8.9 0.00019 27.6 1.8 50 49-105 92-142 (147)
170 PF14952 zf-tcix: Putative tre 54.3 6.3 0.00014 23.1 0.7 12 106-117 12-23 (44)
171 cd02342 ZZ_UBA_plant Zinc fing 54.2 9.9 0.00021 22.2 1.6 28 88-118 1-28 (43)
172 PF06676 DUF1178: Protein of u 53.3 4.8 0.0001 29.6 0.2 25 29-58 6-42 (148)
173 PF02701 zf-Dof: Dof domain, z 53.1 7 0.00015 24.6 0.9 15 105-119 5-19 (63)
174 PRK14873 primosome assembly pr 52.6 9.2 0.0002 34.5 1.9 27 86-118 409-435 (665)
175 COG4306 Uncharacterized protei 52.4 9.4 0.0002 27.6 1.6 23 33-59 28-50 (160)
176 cd02343 ZZ_EF Zinc finger, ZZ 52.1 10 0.00023 22.6 1.5 27 88-118 1-27 (48)
177 PF06906 DUF1272: Protein of u 50.8 26 0.00057 21.6 3.1 45 9-58 5-51 (57)
178 PRK11788 tetratricopeptide rep 50.7 9.9 0.00022 30.4 1.7 29 87-119 354-382 (389)
179 KOG3039 Uncharacterized conser 50.2 11 0.00024 30.3 1.8 33 10-46 44-76 (303)
180 cd00065 FYVE FYVE domain; Zinc 49.9 9.9 0.00021 22.4 1.2 33 10-43 3-36 (57)
181 PRK12286 rpmF 50S ribosomal pr 49.2 13 0.00028 22.9 1.6 29 86-119 26-54 (57)
182 cd02338 ZZ_PCMF_like Zinc fing 49.1 11 0.00024 22.2 1.3 28 88-118 1-28 (49)
183 TIGR02159 PA_CoA_Oxy4 phenylac 48.2 9.9 0.00021 27.7 1.2 18 106-123 106-123 (146)
184 PF04423 Rad50_zn_hook: Rad50 47.0 19 0.0004 21.4 2.1 11 50-60 22-32 (54)
185 smart00064 FYVE Protein presen 46.4 18 0.00039 22.2 2.0 34 10-44 11-45 (68)
186 PF15353 HECA: Headcase protei 46.4 16 0.00035 25.4 1.9 17 30-46 39-55 (107)
187 PF07754 DUF1610: Domain of un 44.8 14 0.0003 18.9 1.1 7 106-112 17-23 (24)
188 PRK11088 rrmA 23S rRNA methylt 44.5 8.8 0.00019 30.1 0.4 24 10-36 3-28 (272)
189 PLN02400 cellulose synthase 44.5 18 0.00039 34.5 2.4 52 8-59 35-89 (1085)
190 smart00647 IBR In Between Ring 44.4 3.9 8.6E-05 24.5 -1.2 33 11-43 20-58 (64)
191 PF09779 Ima1_N: Ima1 N-termin 44.0 16 0.00035 26.0 1.7 35 88-122 1-37 (131)
192 PLN02915 cellulose synthase A 43.8 19 0.00041 34.3 2.5 53 7-59 13-68 (1044)
193 KOG1812 Predicted E3 ubiquitin 43.7 12 0.00026 31.5 1.1 43 10-54 307-351 (384)
194 cd02340 ZZ_NBR1_like Zinc fing 42.5 16 0.00034 21.0 1.2 27 88-118 1-27 (43)
195 PF12773 DZR: Double zinc ribb 42.0 26 0.00056 20.1 2.1 22 87-112 29-50 (50)
196 PF00412 LIM: LIM domain; Int 41.9 8.7 0.00019 22.5 0.0 37 12-59 1-37 (58)
197 TIGR01031 rpmF_bact ribosomal 41.8 16 0.00034 22.3 1.2 29 86-119 25-53 (55)
198 PF13248 zf-ribbon_3: zinc-rib 41.4 16 0.00035 18.5 1.0 21 88-112 3-23 (26)
199 COG3058 FdhE Uncharacterized p 41.1 7.8 0.00017 31.6 -0.3 7 50-56 187-193 (308)
200 smart00109 C1 Protein kinase C 40.5 29 0.00062 19.3 2.1 36 8-43 10-45 (49)
201 KOG2462 C2H2-type Zn-finger pr 40.4 13 0.00027 30.2 0.7 53 10-63 162-230 (279)
202 PLN02195 cellulose synthase A 39.3 38 0.00082 32.1 3.7 53 7-59 4-59 (977)
203 PF00569 ZZ: Zinc finger, ZZ t 38.8 16 0.00036 21.1 0.9 29 86-117 3-31 (46)
204 PF09237 GAGA: GAGA factor; I 38.1 21 0.00045 21.8 1.3 14 49-62 25-38 (54)
205 PF01363 FYVE: FYVE zinc finge 37.8 5.4 0.00012 24.7 -1.4 33 9-42 9-42 (69)
206 PF08792 A2L_zn_ribbon: A2L zi 36.0 20 0.00044 19.5 0.9 27 87-113 3-29 (33)
207 PF01783 Ribosomal_L32p: Ribos 35.8 26 0.00056 21.2 1.5 29 86-119 25-53 (56)
208 COG5132 BUD31 Cell cycle contr 35.8 15 0.00033 26.3 0.5 21 36-57 102-122 (146)
209 PRK01343 zinc-binding protein; 35.2 21 0.00045 22.1 0.9 11 48-58 9-19 (57)
210 PF12171 zf-C2H2_jaz: Zinc-fin 34.8 27 0.00058 17.5 1.3 14 49-62 2-15 (27)
211 PRK00418 DNA gyrase inhibitor; 34.8 20 0.00044 22.5 0.9 11 48-58 6-16 (62)
212 PF09723 Zn-ribbon_8: Zinc rib 34.1 19 0.00041 20.4 0.6 8 106-113 27-34 (42)
213 smart00355 ZnF_C2H2 zinc finge 33.9 42 0.0009 15.4 1.9 14 49-62 1-14 (26)
214 COG1571 Predicted DNA-binding 33.4 34 0.00074 29.3 2.3 34 86-120 349-383 (421)
215 PF12088 DUF3565: Protein of u 33.1 17 0.00037 22.7 0.4 15 24-38 10-24 (61)
216 PF13717 zinc_ribbon_4: zinc-r 32.8 29 0.00062 19.1 1.2 10 49-58 3-12 (36)
217 PF13240 zinc_ribbon_2: zinc-r 32.5 26 0.00056 17.4 0.9 7 90-96 2-8 (23)
218 smart00834 CxxC_CXXC_SSSS Puta 32.4 24 0.00052 19.2 0.9 10 49-58 6-15 (41)
219 PF10058 DUF2296: Predicted in 32.3 45 0.00097 20.2 2.1 30 86-115 21-54 (54)
220 PF04216 FdhE: Protein involve 32.2 6.3 0.00014 31.5 -2.2 45 8-57 171-220 (290)
221 PF09845 DUF2072: Zn-ribbon co 32.1 33 0.00072 24.7 1.7 25 89-113 3-27 (131)
222 cd00350 rubredoxin_like Rubred 31.9 33 0.00071 18.3 1.4 10 48-57 17-26 (33)
223 KOG2979 Protein involved in DN 31.8 23 0.00051 28.4 1.0 45 10-57 177-222 (262)
224 PF12387 Peptidase_C74: Pestiv 31.2 20 0.00044 27.2 0.5 29 85-118 160-188 (200)
225 TIGR00373 conserved hypothetic 31.1 68 0.0015 23.5 3.3 26 47-72 127-154 (158)
226 PF02318 FYVE_2: FYVE-type zin 31.0 15 0.00033 25.5 -0.2 50 8-57 53-103 (118)
227 COG3813 Uncharacterized protei 30.9 78 0.0017 20.7 3.1 44 10-58 6-51 (84)
228 cd02341 ZZ_ZZZ3 Zinc finger, Z 30.8 39 0.00084 19.9 1.6 27 89-118 2-30 (48)
229 KOG0825 PHD Zn-finger protein 30.3 46 0.001 31.1 2.7 49 9-58 96-153 (1134)
230 PF12874 zf-met: Zinc-finger o 29.3 26 0.00056 16.9 0.6 15 49-63 1-15 (25)
231 PRK13130 H/ACA RNA-protein com 28.9 44 0.00096 20.5 1.7 21 88-114 6-26 (56)
232 PF10235 Cript: Microtubule-as 28.8 26 0.00055 23.7 0.7 39 10-62 45-83 (90)
233 PF13465 zf-H2C2_2: Zinc-finge 28.6 16 0.00034 18.4 -0.3 11 48-58 14-24 (26)
234 PRK00415 rps27e 30S ribosomal 28.5 24 0.00052 22.0 0.4 30 84-113 8-38 (59)
235 PF06844 DUF1244: Protein of u 28.4 41 0.00089 21.5 1.5 13 34-46 11-23 (68)
236 PF03884 DUF329: Domain of unk 28.1 21 0.00045 22.0 0.1 11 49-59 3-13 (57)
237 TIGR01206 lysW lysine biosynth 28.1 34 0.00074 20.8 1.1 10 49-58 3-12 (54)
238 PRK06266 transcription initiat 28.1 84 0.0018 23.5 3.4 13 47-59 135-147 (178)
239 cd02335 ZZ_ADA2 Zinc finger, Z 27.8 48 0.001 19.3 1.7 27 89-118 2-28 (49)
240 KOG2231 Predicted E3 ubiquitin 27.6 46 0.00099 30.3 2.2 46 10-59 1-52 (669)
241 PRK00366 ispG 4-hydroxy-3-meth 27.3 59 0.0013 27.4 2.7 47 50-100 270-318 (360)
242 COG2260 Predicted Zn-ribbon RN 27.1 31 0.00067 21.5 0.7 14 104-117 4-17 (59)
243 PF06827 zf-FPG_IleRS: Zinc fi 27.0 33 0.00071 17.7 0.8 16 105-120 1-16 (30)
244 KOG2071 mRNA cleavage and poly 26.9 29 0.00064 30.9 0.9 36 7-43 511-556 (579)
245 KOG3608 Zn finger proteins [Ge 26.5 37 0.00079 28.8 1.3 50 10-60 208-275 (467)
246 PF13912 zf-C2H2_6: C2H2-type 26.4 27 0.00059 17.2 0.4 15 49-63 2-16 (27)
247 TIGR03830 CxxCG_CxxCG_HTH puta 26.3 40 0.00087 22.9 1.3 43 12-61 1-44 (127)
248 KOG1280 Uncharacterized conser 26.2 23 0.00049 29.7 0.1 32 84-118 5-36 (381)
249 PF03604 DNA_RNApol_7kD: DNA d 26.0 39 0.00084 18.3 0.9 6 107-112 19-24 (32)
250 KOG2079 Vacuolar assembly/sort 25.8 46 0.001 32.0 1.9 44 5-52 1129-1172(1206)
251 PF09297 zf-NADH-PPase: NADH p 25.4 23 0.0005 18.7 -0.0 24 89-112 5-28 (32)
252 PRK00432 30S ribosomal protein 25.0 39 0.00084 20.1 0.9 23 89-112 22-44 (50)
253 KOG2807 RNA polymerase II tran 24.8 53 0.0011 27.5 1.9 23 87-112 330-352 (378)
254 PF09567 RE_MamI: MamI restric 24.6 38 0.00083 27.3 1.1 28 87-118 82-109 (314)
255 KOG0230 Phosphatidylinositol-4 24.6 25 0.00054 34.7 0.0 18 28-45 878-895 (1598)
256 KOG0802 E3 ubiquitin ligase [P 24.5 31 0.00067 30.2 0.6 43 7-58 477-519 (543)
257 smart00291 ZnF_ZZ Zinc-binding 24.5 57 0.0012 18.5 1.5 28 87-118 4-31 (44)
258 PF12172 DUF35_N: Rubredoxin-l 24.1 28 0.0006 18.9 0.1 27 86-116 10-36 (37)
259 cd01675 RNR_III Class III ribo 23.9 49 0.0011 29.1 1.7 29 87-119 518-546 (555)
260 PHA00616 hypothetical protein 23.9 50 0.0011 19.3 1.2 20 49-68 2-21 (44)
261 TIGR02098 MJ0042_CXXC MJ0042 f 23.8 49 0.0011 17.9 1.1 10 49-58 3-12 (38)
262 PF13719 zinc_ribbon_5: zinc-r 23.3 46 0.001 18.3 1.0 10 49-58 3-12 (37)
263 PF12647 RNHCP: RNHCP domain; 23.2 71 0.0015 21.7 2.0 26 104-129 23-49 (92)
264 PF13913 zf-C2HC_2: zinc-finge 23.1 39 0.00085 17.0 0.6 11 49-59 3-13 (25)
265 PF14311 DUF4379: Domain of un 23.0 39 0.00084 20.0 0.6 23 30-54 33-55 (55)
266 PRK01110 rpmF 50S ribosomal pr 23.0 41 0.00089 20.8 0.8 28 87-120 27-54 (60)
267 PF07649 C1_3: C1-like domain; 22.8 50 0.0011 17.1 1.0 29 11-40 2-30 (30)
268 PRK14890 putative Zn-ribbon RN 22.5 81 0.0018 19.6 2.0 43 10-55 8-55 (59)
269 PRK11595 DNA utilization prote 22.3 60 0.0013 24.9 1.8 38 10-57 6-43 (227)
270 PF07975 C1_4: TFIIH C1-like d 22.2 52 0.0011 19.8 1.1 24 30-54 26-49 (51)
271 KOG0396 Uncharacterized conser 21.8 1.2E+02 0.0026 25.7 3.5 36 23-58 343-378 (389)
272 KOG3005 GIY-YIG type nuclease 21.7 1.2E+02 0.0026 24.6 3.4 47 10-58 183-242 (276)
273 COG0068 HypF Hydrogenase matur 21.7 66 0.0014 29.6 2.1 73 32-117 100-186 (750)
274 COG2051 RPS27A Ribosomal prote 21.4 32 0.00069 22.0 0.0 33 82-114 14-47 (67)
275 KOG1296 Uncharacterized conser 21.2 88 0.0019 23.2 2.3 51 79-130 23-92 (161)
276 KOG0801 Predicted E3 ubiquitin 21.1 41 0.0009 25.4 0.6 13 47-59 137-149 (205)
277 PF13597 NRDD: Anaerobic ribon 21.1 40 0.00087 29.6 0.6 29 87-120 491-519 (546)
278 KOG0006 E3 ubiquitin-protein l 20.9 98 0.0021 26.0 2.7 33 7-43 219-253 (446)
279 PRK09263 anaerobic ribonucleos 20.8 59 0.0013 29.7 1.6 30 86-115 640-669 (711)
280 KOG2169 Zn-finger transcriptio 20.7 47 0.001 29.9 1.0 44 10-59 307-356 (636)
281 COG2956 Predicted N-acetylgluc 20.6 45 0.00098 28.1 0.8 29 85-117 352-380 (389)
282 PF04981 NMD3: NMD3 family ; 20.6 52 0.0011 25.5 1.1 13 105-117 35-47 (236)
283 PF09889 DUF2116: Uncharacteri 20.4 61 0.0013 20.1 1.1 13 48-60 3-15 (59)
284 smart00154 ZnF_AN1 AN1-like Zi 20.3 74 0.0016 17.8 1.4 28 90-121 1-29 (39)
285 PHA02768 hypothetical protein; 20.2 65 0.0014 19.7 1.2 17 48-64 5-21 (55)
286 PF11781 RRN7: RNA polymerase 20.1 74 0.0016 17.5 1.4 25 10-34 9-34 (36)
No 1
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=99.90 E-value=4.5e-24 Score=169.26 Aligned_cols=116 Identities=42% Similarity=0.828 Sum_probs=108.7
Q ss_pred CCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccchhhhHHHhhHHHHhcCCCChhhhcccc
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWDMSKLWSKIDQEIASTPMPAMYQNKMV 86 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~~l~~~~~~~~~p~~~~~~~~ 86 (136)
....+||||.+.||++...+..++|||..|.+|++++...+ |+||+|.+ +.++..+|+.++.+++.+++|.+|++.++
T Consensus 156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y~~~~~ 233 (276)
T KOG1940|consen 156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK-PGDMSHYFRKLDKELAGSPMPEEYKNKTQ 233 (276)
T ss_pred cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc-hHHHHHHHHHHHHHHhcCCCCchhhchhh
Confidence 35577999999999999999999999999999999998755 99999999 99999999999999999999999999999
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCCcccccccCCCC
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTRGDTA 124 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~~~~~ 124 (136)
.++|++|+..+++++|+++.||..|++|||++++.+.-
T Consensus 234 ~i~cndC~~~~~~k~~~l~~kc~~c~~~~~r~~~~~~~ 271 (276)
T KOG1940|consen 234 DILCNDCGSGTNVKYHILYHKCGKCGSYNTRMISDPSK 271 (276)
T ss_pred eeeccCCCCCCccceehhhhhCCCcccceeeeccCCCc
Confidence 99999999999999999999999999999999986543
No 2
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=99.86 E-value=3.4e-23 Score=130.54 Aligned_cols=60 Identities=63% Similarity=1.162 Sum_probs=22.2
Q ss_pred chhhhHHHhhHHHHhcCCCChhhhcccccccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 59 WDMSKLWSKIDQEIASTPMPAMYQNKMVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 59 ~~~~~~~~~l~~~~~~~~~p~~~~~~~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
.+|+.+|+.||+++++++||++|++.++.|+||||++++.++|||+|+||.+|+||||++
T Consensus 2 ~dM~~~w~~LD~~i~~~pmP~~Y~~~~v~IlCNDC~~~s~v~fH~lg~KC~~C~SYNT~q 61 (61)
T PF14599_consen 2 VDMSAYWRMLDAEIAATPMPEEYRNKKVWILCNDCNAKSEVPFHFLGHKCSHCGSYNTRQ 61 (61)
T ss_dssp --------------------------EEEEEESSS--EEEEE--TT----TTTS---EEE
T ss_pred CCHHHHHHHHHHHHHhCCCCHHHhCCEEEEECCCCCCccceeeeHhhhcCCCCCCcccCC
Confidence 578899999999999999999999999999999999999999999999999999999985
No 3
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.50 E-value=5.6e-15 Score=87.09 Aligned_cols=44 Identities=34% Similarity=0.716 Sum_probs=37.1
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCS 55 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr 55 (136)
+.|+||++. ++....++.|+|||.||..|+.+|+.. +.+||+||
T Consensus 1 d~C~IC~~~-~~~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEE-FEDGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp -CETTTTCB-HHTTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCCcCCChh-hcCCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 479999999 555677888999999999999999985 67999997
No 4
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.27 E-value=1.8e-12 Score=76.09 Aligned_cols=39 Identities=33% Similarity=0.740 Sum_probs=30.1
Q ss_pred ceecCcCccCCccceEEecCCcHhhHHHHHHHHhhc---CCCCCCc
Q 032682 12 YNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHY---RYTCPVC 54 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~---~~~CP~C 54 (136)
||||++.| .+|+.|+|||+||..||.+|+... .+.||+|
T Consensus 1 CpiC~~~~----~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF----KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-----SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh----CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999994 678999999999999999998762 2579987
No 5
>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=99.24 E-value=5.9e-12 Score=82.06 Aligned_cols=50 Identities=26% Similarity=0.531 Sum_probs=37.6
Q ss_pred CCCCCCcceecCcCccCC---------ccceEEecCCcHhhHHHHHHHHhhcCCCCCCcc
Q 032682 5 LNVNDNFYNFGLQFIFDT---------MKDITVLRCGHTIHLECLKEMEKHYRYTCPVCS 55 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~---------~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr 55 (136)
+.+.+.+|+||++.|.+. ...++..+|||.||..||.+|+.. +.+||+||
T Consensus 15 ~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR 73 (73)
T PF12678_consen 15 WDIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR 73 (73)
T ss_dssp ESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred ecCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence 455677899999996332 134455699999999999999984 56999997
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=1.1e-11 Score=101.81 Aligned_cols=56 Identities=30% Similarity=0.663 Sum_probs=47.4
Q ss_pred CCCCCCcceecCcCccCCc---------cceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc-chh
Q 032682 5 LNVNDNFYNFGLQFIFDTM---------KDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL-WDM 61 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~---------~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~-~~~ 61 (136)
|..+|+.|.||||.||.+. ..|+.|||||.+|..|++.|++. +-+||+||.++ +|+
T Consensus 283 l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~ifd~ 348 (491)
T COG5243 283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPVIFDQ 348 (491)
T ss_pred hcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcccccc
Confidence 5678899999999987664 35688999999999999999994 68899999994 443
No 7
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.16 E-value=1.7e-11 Score=70.49 Aligned_cols=39 Identities=28% Similarity=0.662 Sum_probs=31.6
Q ss_pred ceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCc
Q 032682 12 YNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVC 54 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~C 54 (136)
|+||++.+ ..+.+.++|||.||.+|+++|++. +.+||+|
T Consensus 1 C~iC~~~~---~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL---RDPVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB----SSEEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcc---cCcCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 89999984 233367899999999999999986 7899998
No 8
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=2.2e-11 Score=99.67 Aligned_cols=49 Identities=22% Similarity=0.600 Sum_probs=43.9
Q ss_pred cceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 11 FYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
.|+||+|. |...+.++.|||+|.||..|++.|+...+..||+|+.++.+
T Consensus 231 ~CaIClEd-Y~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 231 TCAICLED-YEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred eEEEeecc-cccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 89999999 88888899999999999999999998665669999988754
No 9
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.12 E-value=6.4e-11 Score=68.07 Aligned_cols=45 Identities=24% Similarity=0.561 Sum_probs=35.8
Q ss_pred cceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 11 FYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
.|+||++.+ .....+++|||.||..|+++|+.....+||+|++.+
T Consensus 1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999984 234444569999999999999886567899998753
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.12 E-value=4e-11 Score=72.38 Aligned_cols=46 Identities=26% Similarity=0.610 Sum_probs=38.4
Q ss_pred CCcceecCcCccCCccceEEecCCcH-hhHHHHHHHHhhcCCCCCCcccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHT-IHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~-fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
+..|+||++. ..+++.+||||. ||..|+.+|+. ...+||+||+.+.
T Consensus 2 ~~~C~iC~~~----~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFEN----PRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSS----BSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-S
T ss_pred cCCCccCCcc----CCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhc
Confidence 5789999998 356788899999 99999999988 6788999998863
No 11
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.10 E-value=7e-11 Score=92.67 Aligned_cols=51 Identities=24% Similarity=0.499 Sum_probs=39.9
Q ss_pred CCCcceecCcCccCCcc----ceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMK----DITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~----~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+..|+||++.+.+... -.++++|||.||..||.+|+. .+.+||+||..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~-~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK-EKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh-cCCCCCCCCCEee
Confidence 45789999998543221 134458999999999999987 5678999998874
No 12
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.06 E-value=1.8e-10 Score=67.86 Aligned_cols=44 Identities=25% Similarity=0.633 Sum_probs=37.1
Q ss_pred cceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccc
Q 032682 11 FYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSK 56 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~ 56 (136)
.|+||++. +.....+.+++|||+||.+|++++. .....||+||+
T Consensus 1 ~C~~C~~~-~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEK-YSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCcc-ccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 48999999 5555678889999999999999987 34678999985
No 13
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.05 E-value=1.5e-10 Score=87.91 Aligned_cols=49 Identities=27% Similarity=0.495 Sum_probs=39.7
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh---------------cCCCCCCcccccch
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH---------------YRYTCPVCSKSLWD 60 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~---------------~~~~CP~Cr~~~~~ 60 (136)
.+..|+||++.+ +++++++|||.||+.||.+|+.. ...+||+||..+..
T Consensus 17 ~~~~CpICld~~----~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 17 GDFDCNICLDQV----RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CccCCccCCCcC----CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 457899999983 56778899999999999999753 13579999988843
No 14
>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=99.04 E-value=1.3e-10 Score=67.05 Aligned_cols=40 Identities=25% Similarity=0.667 Sum_probs=32.8
Q ss_pred ceecCcCccCCccceEEecCCcHhhHHHHHHHHh-hcCCCCCCc
Q 032682 12 YNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEK-HYRYTCPVC 54 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~-~~~~~CP~C 54 (136)
|+||++.+ . .+..+++|||.||..|+.+|+. .....||+|
T Consensus 1 C~iC~~~~-~--~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF-E--DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC-S--SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccc-c--CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999984 2 2334789999999999999998 466779998
No 15
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.03 E-value=1e-10 Score=68.95 Aligned_cols=40 Identities=28% Similarity=0.610 Sum_probs=24.6
Q ss_pred ceecCcCccCCccceEEecCCcHhhHHHHHHHHhhc---CCCCC
Q 032682 12 YNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHY---RYTCP 52 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~---~~~CP 52 (136)
||||.| +.+....+++|+|||+|+++|+++++..+ .++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 45556778999999999999999998853 45687
No 16
>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=99.00 E-value=5.6e-10 Score=61.94 Aligned_cols=39 Identities=38% Similarity=0.742 Sum_probs=33.5
Q ss_pred ceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCc
Q 032682 12 YNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVC 54 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~C 54 (136)
|+||++. ...++.++|||.||..|+++|+......||+|
T Consensus 1 C~iC~~~----~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE----LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC----CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899988 35778889999999999999988556779987
No 17
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.94 E-value=2e-10 Score=96.04 Aligned_cols=86 Identities=24% Similarity=0.479 Sum_probs=67.1
Q ss_pred CCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccchhhhHHHhhHHHHhcCCCChhhhcccc
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWDMSKLWSKIDQEIASTPMPAMYQNKMV 86 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~~l~~~~~~~~~p~~~~~~~~ 86 (136)
+.-.+||||+|.|-++...++.+.|.|+||-.|+..|+. .+||+||.... |. ...
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q~------------------p~----~ve 227 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQS------------------PS----VVE 227 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhhhcC------------------cc----hhh
Confidence 355889999999877777778889999999999999965 78999984321 11 123
Q ss_pred cccCCCCCCCCccchhhhhhcCCC--CCCccccccc
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLS--CKSYNTRQTR 120 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~--C~synt~~~~ 120 (136)
...|..|+...+. |+.+.|.+ ||.|...+.+
T Consensus 228 ~~~c~~c~~~~~L---wicliCg~vgcgrY~eghA~ 260 (493)
T KOG0804|consen 228 SSLCLACGCTEDL---WICLICGNVGCGRYKEGHAR 260 (493)
T ss_pred hhhhhhhcccccE---EEEEEccceecccccchhHH
Confidence 5569999987655 89999996 9999987753
No 18
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.93 E-value=1.5e-09 Score=72.59 Aligned_cols=50 Identities=22% Similarity=0.527 Sum_probs=38.2
Q ss_pred CCCcceecCcCccCCc---------c-ceEEecCCcHhhHHHHHHHHhhc--CCCCCCccccc
Q 032682 8 NDNFYNFGLQFIFDTM---------K-DITVLRCGHTIHLECLKEMEKHY--RYTCPVCSKSL 58 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~---------~-~~~~L~CgH~fh~~Cl~~~~~~~--~~~CP~Cr~~~ 58 (136)
+|..|+||... |+.. . +++.-.|+|.||..||.+|++.. +..||+||..+
T Consensus 20 ~dd~CgICr~~-fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 20 NDDVCGICRMP-FDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred CCCceeeEecc-cccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 57889999988 5532 2 33333899999999999999863 45799999765
No 19
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=7.9e-10 Score=88.92 Aligned_cols=49 Identities=24% Similarity=0.508 Sum_probs=42.4
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
-+|+|||+. |-..+..++|||.|.||..|+++|+...+..||+||..++
T Consensus 324 veCaICms~-fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 324 VECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred ceEEEEhhh-hcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 579999999 6666778999999999999999998755677999998764
No 20
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=1.3e-09 Score=86.85 Aligned_cols=51 Identities=18% Similarity=0.409 Sum_probs=41.3
Q ss_pred CCCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 4 ELNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 4 ~~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+......|.+|+|. ..++...||||.||+.||.+|.. ...-||+||..+.
T Consensus 234 ~i~~a~~kC~LCLe~----~~~pSaTpCGHiFCWsCI~~w~~-ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 234 SIPEATRKCSLCLEN----RSNPSATPCGHIFCWSCILEWCS-EKAECPLCREKFQ 284 (293)
T ss_pred cCCCCCCceEEEecC----CCCCCcCcCcchHHHHHHHHHHc-cccCCCcccccCC
Confidence 344455779999998 46777789999999999999987 4566999997763
No 21
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=1.8e-09 Score=80.94 Aligned_cols=51 Identities=24% Similarity=0.431 Sum_probs=40.3
Q ss_pred CCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
-+..--.|||||+. +. .+-++...|||.||.+||++.+. ....||+|+|.+
T Consensus 127 ~~~~~~~CPiCl~~-~s-ek~~vsTkCGHvFC~~Cik~alk-~~~~CP~C~kkI 177 (187)
T KOG0320|consen 127 RKEGTYKCPICLDS-VS-EKVPVSTKCGHVFCSQCIKDALK-NTNKCPTCRKKI 177 (187)
T ss_pred ccccccCCCceecc-hh-hccccccccchhHHHHHHHHHHH-hCCCCCCccccc
Confidence 34445679999999 43 23445679999999999999988 568899999865
No 22
>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=98.85 E-value=2.5e-09 Score=66.66 Aligned_cols=44 Identities=23% Similarity=0.299 Sum_probs=38.6
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
..||||++.| +++++++|||+|+++|+.+|+.. +..||+|++.+
T Consensus 2 ~~Cpi~~~~~----~~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVM----KDPVILPSGQTYERRAIEKWLLS-HGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcC----CCCEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCC
Confidence 5799999995 45788899999999999999985 67899999887
No 23
>PHA02926 zinc finger-like protein; Provisional
Probab=98.84 E-value=2.6e-09 Score=82.73 Aligned_cols=53 Identities=11% Similarity=0.352 Sum_probs=39.6
Q ss_pred CCCCcceecCcCccCCc-----cceEEecCCcHhhHHHHHHHHhhc-----CCCCCCcccccc
Q 032682 7 VNDNFYNFGLQFIFDTM-----KDITVLRCGHTIHLECLKEMEKHY-----RYTCPVCSKSLW 59 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~-----~~~~~L~CgH~fh~~Cl~~~~~~~-----~~~CP~Cr~~~~ 59 (136)
..+..|+||+|.+++.. .-.++.+|+|.||..|+.+|.... ...||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 34688999999876431 123445999999999999998742 245999998764
No 24
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=2.1e-09 Score=83.33 Aligned_cols=47 Identities=30% Similarity=0.452 Sum_probs=38.9
Q ss_pred CCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhc--CCCCCCcccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHY--RYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~--~~~CP~Cr~~~~ 59 (136)
.-+|.||+|. .+++++..|||.||+-||.+|+... ...||+|+..+.
T Consensus 47 ~FdCNICLd~----akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 47 FFDCNICLDL----AKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred ceeeeeeccc----cCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 4679999998 4788888999999999999999862 344899987764
No 25
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=7.8e-09 Score=89.37 Aligned_cols=53 Identities=28% Similarity=0.545 Sum_probs=43.3
Q ss_pred CCCCCCcceecCcCccCCc-cceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 5 LNVNDNFYNFGLQFIFDTM-KDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~-~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
+...++.|+||+|.|.... ..++.|+|||.||..|+++|++. ..+||+||..+
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~ 340 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVL 340 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhh
Confidence 4556899999999985421 23677999999999999999995 78999999854
No 26
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.62 E-value=2e-08 Score=83.87 Aligned_cols=47 Identities=17% Similarity=0.360 Sum_probs=39.3
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
....|+||++.+ ..+++++|||.||..|+..|+.. ...||+|+..+.
T Consensus 25 ~~l~C~IC~d~~----~~PvitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~ 71 (397)
T TIGR00599 25 TSLRCHICKDFF----DVPVLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQ 71 (397)
T ss_pred cccCCCcCchhh----hCccCCCCCCchhHHHHHHHHhC-CCCCCCCCCccc
Confidence 347899999984 45667899999999999999874 567999998764
No 27
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.48 E-value=1.1e-07 Score=76.96 Aligned_cols=52 Identities=21% Similarity=0.314 Sum_probs=38.6
Q ss_pred CCCcceecCcCccCCccc-eEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMKD-ITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~-~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
++..||+|....+.+..- ..+-+|||.||..|++..+..+...||.|++.+.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr 54 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence 457899999964433322 1222799999999999987766678999998764
No 28
>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=98.45 E-value=2.6e-07 Score=59.94 Aligned_cols=47 Identities=17% Similarity=0.227 Sum_probs=37.6
Q ss_pred CCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
...|||+.+.| .+++++++||+|.+.+|++|+......||+++..+.
T Consensus 4 ~f~CpIt~~lM----~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 4 EFLCPITGELM----RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GGB-TTTSSB-----SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred ccCCcCcCcHh----hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 46899999995 788999999999999999999865788999988774
No 29
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=6.5e-08 Score=73.96 Aligned_cols=45 Identities=24% Similarity=0.574 Sum_probs=38.0
Q ss_pred CCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccc
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSK 56 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~ 56 (136)
.+...|+||++.+ ..+++|+|||+||..|+..++. ....||.||.
T Consensus 11 ~~~~~C~iC~~~~----~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYF----REPVLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHh----hcCccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 3568899999994 3347889999999999999887 6688999994
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1.4e-07 Score=80.34 Aligned_cols=47 Identities=19% Similarity=0.338 Sum_probs=36.8
Q ss_pred CCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhc----CCCCCCcccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHY----RYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~----~~~CP~Cr~~~~ 59 (136)
+..||||++. ..-++...|||.||..||.++|... -..||+|+..+.
T Consensus 186 ~~~CPICL~~----~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~ 236 (513)
T KOG2164|consen 186 DMQCPICLEP----PSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTIT 236 (513)
T ss_pred CCcCCcccCC----CCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcc
Confidence 7899999998 2334445699999999999988753 245999997764
No 31
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.38 E-value=1.9e-07 Score=76.34 Aligned_cols=45 Identities=18% Similarity=0.488 Sum_probs=40.0
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+|-||.|++ ..+++.||||+||.-||+.++. .+..||.|+.++.
T Consensus 24 LRC~IC~eyf----~ip~itpCsHtfCSlCIR~~L~-~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 24 LRCGICFEYF----NIPMITPCSHTFCSLCIRKFLS-YKPQCPTCCVTVT 68 (442)
T ss_pred HHHhHHHHHh----cCceeccccchHHHHHHHHHhc-cCCCCCceecccc
Confidence 6799999993 6788889999999999999998 5789999998874
No 32
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=4.5e-07 Score=71.73 Aligned_cols=51 Identities=27% Similarity=0.518 Sum_probs=39.8
Q ss_pred CCCCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHH-HHhhcCCC-CCCccccc
Q 032682 3 PELNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKE-MEKHYRYT-CPVCSKSL 58 (136)
Q Consensus 3 ~~~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~-~~~~~~~~-CP~Cr~~~ 58 (136)
|-+...|-.|+||++.. ..+..++|||.||+.||.. |-. .++. ||+||.-.
T Consensus 209 pfip~~d~kC~lC~e~~----~~ps~t~CgHlFC~~Cl~~~~t~-~k~~~CplCRak~ 261 (271)
T COG5574 209 PFIPLADYKCFLCLEEP----EVPSCTPCGHLFCLSCLLISWTK-KKYEFCPLCRAKV 261 (271)
T ss_pred Ccccccccceeeeeccc----CCcccccccchhhHHHHHHHHHh-hccccCchhhhhc
Confidence 44445678899999983 5677789999999999999 655 4555 99998654
No 33
>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=98.29 E-value=1.2e-06 Score=52.77 Aligned_cols=43 Identities=23% Similarity=0.408 Sum_probs=33.1
Q ss_pred cceecCcCccCCccceEEecCC-----cHhhHHHHHHHHhhc-CCCCCCcc
Q 032682 11 FYNFGLQFIFDTMKDITVLRCG-----HTIHLECLKEMEKHY-RYTCPVCS 55 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L~Cg-----H~fh~~Cl~~~~~~~-~~~CP~Cr 55 (136)
.|-||++. +....+.+.||. |.+|..|+++|+... ..+||+|+
T Consensus 1 ~CrIC~~~--~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE--GDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC--CCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 38899983 334566677984 999999999999753 45799994
No 34
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.21 E-value=3e-07 Score=59.38 Aligned_cols=50 Identities=26% Similarity=0.456 Sum_probs=23.1
Q ss_pred CCcceecCcCccCCccceEEe----cCCcHhhHHHHHHHHhh--cC--------CCCCCccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVL----RCGHTIHLECLKEMEKH--YR--------YTCPVCSKSL 58 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L----~CgH~fh~~Cl~~~~~~--~~--------~~CP~Cr~~~ 58 (136)
+..|+||++.+.+....+.++ .|+..||..||.+|+.. +. -.||.|++.+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 468999999865333333322 69999999999999875 11 1399998877
No 35
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=1.1e-06 Score=74.92 Aligned_cols=51 Identities=27% Similarity=0.479 Sum_probs=38.5
Q ss_pred CCcceecCcCcc--CC-----------ccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 9 DNFYNFGLQFIF--DT-----------MKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf--~~-----------~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
-..|+|||.++- .. .+..++.||.|.||..|+++|....+..||+||..++
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 367999998751 00 1234556999999999999999854567999998764
No 36
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.13 E-value=4.6e-07 Score=57.52 Aligned_cols=55 Identities=18% Similarity=0.443 Sum_probs=26.1
Q ss_pred CCcceecCcCccCCccceE-EecCCcHhhHHHHHHHHhhcCCCCCCcccccchh-hhHHHhhHH
Q 032682 9 DNFYNFGLQFIFDTMKDIT-VLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWDM-SKLWSKIDQ 70 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~-~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~~-~~~~~~l~~ 70 (136)
-..|++|.+.| +.++ +-.|.|.||+.|+.+.+. +.||+|+.+.+.. -+.++.|+.
T Consensus 7 lLrCs~C~~~l----~~pv~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~~NrqLd~ 63 (65)
T PF14835_consen 7 LLRCSICFDIL----KEPVCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQINRQLDS 63 (65)
T ss_dssp TTS-SSS-S------SS-B---SSS--B-TTTGGGGTT---TB-SSS--B-S-SS----HHHHH
T ss_pred hcCCcHHHHHh----cCCceeccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHHhhhhhhc
Confidence 36899999995 4454 459999999999987543 5699999887531 123444544
No 37
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=1.7e-06 Score=71.81 Aligned_cols=45 Identities=20% Similarity=0.463 Sum_probs=36.9
Q ss_pred CcceecCcCccCCccceEEec-CCcHhhHHHHHHHHhhc--CCCCCCcc
Q 032682 10 NFYNFGLQFIFDTMKDITVLR-CGHTIHLECLKEMEKHY--RYTCPVCS 55 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~-CgH~fh~~Cl~~~~~~~--~~~CP~Cr 55 (136)
..|.||-+. ++...++..+. |||+||..|+.+|+... ...||+|+
T Consensus 5 A~C~Ic~d~-~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDG-RPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccC-CccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 579999554 88777776675 99999999999999863 24699998
No 38
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.05 E-value=7.5e-06 Score=54.08 Aligned_cols=33 Identities=21% Similarity=0.448 Sum_probs=27.4
Q ss_pred ceEEe-cCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 25 DITVL-RCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 25 ~~~~L-~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
=++++ .|.|.||..||.+|+.. +..||++|+++
T Consensus 47 C~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w 80 (88)
T COG5194 47 CPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTW 80 (88)
T ss_pred ceEEEEecchHHHHHHHHHHHhh-CCCCCCCCcee
Confidence 34444 79999999999999984 67899999876
No 39
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=1.7e-06 Score=56.62 Aligned_cols=53 Identities=21% Similarity=0.370 Sum_probs=38.1
Q ss_pred CCCCCCcceecCcCccCCc---------cceEEe-cCCcHhhHHHHHHHHhhc--CCCCCCccccc
Q 032682 5 LNVNDNFYNFGLQFIFDTM---------KDITVL-RCGHTIHLECLKEMEKHY--RYTCPVCSKSL 58 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~---------~~~~~L-~CgH~fh~~Cl~~~~~~~--~~~CP~Cr~~~ 58 (136)
+...+.+|.||.-. |++. .=|.++ .|.|.||..|+.+|+... +-.||+||.++
T Consensus 16 W~~~~e~CGiCRm~-Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 16 WDAPDETCGICRMP-FDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred EcCCCCccceEecc-cCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 34556688888887 6542 223333 699999999999998763 34599999765
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.00 E-value=2.8e-06 Score=68.43 Aligned_cols=44 Identities=23% Similarity=0.289 Sum_probs=38.7
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
..|-||-+.| +.+...+|||+||.-||+.++. .+..||+||.++
T Consensus 26 lrC~IC~~~i----~ip~~TtCgHtFCslCIR~hL~-~qp~CP~Cr~~~ 69 (391)
T COG5432 26 LRCRICDCRI----SIPCETTCGHTFCSLCIRRHLG-TQPFCPVCREDP 69 (391)
T ss_pred HHhhhhhhee----ecceecccccchhHHHHHHHhc-CCCCCccccccH
Confidence 6799999984 6677789999999999999987 578999999876
No 41
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=2.2e-06 Score=68.35 Aligned_cols=56 Identities=23% Similarity=0.420 Sum_probs=43.7
Q ss_pred CCCCCCCCcceecCcCccCCcc------ceEEecCCcHhhHHHHHHHHhh-cCCCCCCccccc
Q 032682 3 PELNVNDNFYNFGLQFIFDTMK------DITVLRCGHTIHLECLKEMEKH-YRYTCPVCSKSL 58 (136)
Q Consensus 3 ~~~~~~~~~CpIC~e~lf~~~~------~~~~L~CgH~fh~~Cl~~~~~~-~~~~CP~Cr~~~ 58 (136)
|..-.+|+.|+||-..++.+.+ ..-.|.|+|.||+-||+-|--. ...+||.|++.+
T Consensus 218 Ptkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 218 PTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 6667789999999998654431 3456899999999999999654 346799997665
No 42
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=5.2e-06 Score=73.46 Aligned_cols=47 Identities=21% Similarity=0.417 Sum_probs=40.1
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
..||+|-.. .++.++..|||.||..|++........+||.|...|+.
T Consensus 644 LkCs~Cn~R----~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 644 LKCSVCNTR----WKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred eeCCCccCc----hhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 569999754 57777789999999999999887777889999999863
No 43
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=1.1e-05 Score=49.79 Aligned_cols=53 Identities=21% Similarity=0.431 Sum_probs=39.8
Q ss_pred CCCCCCCcceecCcCccCCccceEEecCCcH-hhHHHHHHHHhhcCCCCCCcccccch
Q 032682 4 ELNVNDNFYNFGLQFIFDTMKDITVLRCGHT-IHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 4 ~~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~-fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
++..-+..|.||+|. ..+.++..|||. +|.+|-.+.+...+-.||+||.++.+
T Consensus 2 g~~~~~dECTICye~----pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 2 GLGQWSDECTICYEH----PVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred CccccccceeeeccC----cchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 344455899999987 345555689995 78899887766556789999988754
No 44
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=3.6e-05 Score=60.19 Aligned_cols=49 Identities=29% Similarity=0.525 Sum_probs=40.0
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh-------cCCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH-------YRYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~-------~~~~CP~Cr~~~~~ 60 (136)
.+|..|--.|- ..+.+.|.|-|.||++|+.+|... ..+.||.|...++.
T Consensus 51 pNC~LC~t~La--~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 51 PNCRLCNTPLA--SGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCceeCCccc--cCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 68999998863 245667899999999999999765 35889999988753
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=6.4e-06 Score=67.65 Aligned_cols=49 Identities=22% Similarity=0.443 Sum_probs=39.5
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+..|+||++.|- ....+.-|+|.||..||..-+..+...||.||+.+.
T Consensus 42 ~~v~c~icl~llk---~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 42 IQVICPICLSLLK---KTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhccHHHHHHHH---hhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 3567999999973 233345899999999999887777888999999874
No 46
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.69 E-value=1.5e-05 Score=66.50 Aligned_cols=51 Identities=25% Similarity=0.497 Sum_probs=41.2
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhc-CCCCCCccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHY-RYTCPVCSKSL 58 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~-~~~CP~Cr~~~ 58 (136)
.+..|..|.|.+-........|||.|.||.+|+.+++..+ ...||-||+-.
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLR 415 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 3578999999876666667779999999999999998763 45699999543
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.59 E-value=2.4e-05 Score=64.52 Aligned_cols=53 Identities=15% Similarity=0.470 Sum_probs=38.9
Q ss_pred CCCCCcceecCcCccCCc---cceEE-ecCCcHhhHHHHHHHHhhc------CCCCCCccccc
Q 032682 6 NVNDNFYNFGLQFIFDTM---KDITV-LRCGHTIHLECLKEMEKHY------RYTCPVCSKSL 58 (136)
Q Consensus 6 ~~~~~~CpIC~e~lf~~~---~~~~~-L~CgH~fh~~Cl~~~~~~~------~~~CP~Cr~~~ 58 (136)
+..+..|.||||.+.+.. ..-.. .+|.|.||..|+..|.... ...||.||...
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 356789999999976543 11122 4799999999999997543 35699999765
No 48
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=9.1e-05 Score=60.92 Aligned_cols=46 Identities=24% Similarity=0.473 Sum_probs=38.6
Q ss_pred CCcceecCcCccCCccceEEecCCcH-hhHHHHHHHHhhcCCCCCCcccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHT-IHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~-fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
...|.|||.. .++.++|||-|. +|..|.+.... .+.+||+||..+.
T Consensus 290 gkeCVIClse----~rdt~vLPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 290 GKECVICLSE----SRDTVVLPCRHLCLCSGCAKSLRY-QTNNCPICRQPIE 336 (349)
T ss_pred CCeeEEEecC----CcceEEecchhhehhHhHHHHHHH-hhcCCCccccchH
Confidence 4679999988 478889999997 89999998764 4678999998873
No 49
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.51 E-value=3.1e-05 Score=70.55 Aligned_cols=49 Identities=18% Similarity=0.357 Sum_probs=35.9
Q ss_pred CcceecCcCcc--CCccceEE-ecCCcHhhHHHHHHHHhh-cCCCCCCccccc
Q 032682 10 NFYNFGLQFIF--DTMKDITV-LRCGHTIHLECLKEMEKH-YRYTCPVCSKSL 58 (136)
Q Consensus 10 ~~CpIC~e~lf--~~~~~~~~-L~CgH~fh~~Cl~~~~~~-~~~~CP~Cr~~~ 58 (136)
..|+||.-.|. ++.-+.+. -.|.|.||.+|+.+|+.+ ++.+||+||..+
T Consensus 1470 eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1470 EECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred chhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 67999998863 11112221 258899999999999987 567899999765
No 50
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.49 E-value=4.5e-05 Score=47.40 Aligned_cols=42 Identities=24% Similarity=0.357 Sum_probs=28.1
Q ss_pred CCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh-cCCCCCC
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH-YRYTCPV 53 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~-~~~~CP~ 53 (136)
...|||.+..| ..+++...|||+|-++.|.+|+.. ...+||+
T Consensus 11 ~~~CPiT~~~~---~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPF---EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB----SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChh---hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 37799999994 245555699999999999999943 4567998
No 51
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=5.5e-05 Score=61.10 Aligned_cols=48 Identities=21% Similarity=0.214 Sum_probs=38.9
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+..|+||+... .-++.|+|+|.||..||+--...+..+|++||..+.
T Consensus 6 ~~~eC~IC~nt~----n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 6 KKKECLICYNTG----NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred cCCcceeeeccC----CcCccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 346899999883 456789999999999998855545677999999874
No 52
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.46 E-value=7.1e-05 Score=44.97 Aligned_cols=47 Identities=21% Similarity=0.351 Sum_probs=23.7
Q ss_pred ceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 12 YNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
||+|.+.|..+..+..-=+||+.+|+.|+.+.+....-+||-||+.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 78999997333333222267999999999998765568899999764
No 53
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=9.7e-05 Score=51.08 Aligned_cols=51 Identities=24% Similarity=0.481 Sum_probs=35.4
Q ss_pred CCCCCcceecCcCccC-----------Cccc-eEEe-cCCcHhhHHHHHHHHhhcCCCCCCcccc
Q 032682 6 NVNDNFYNFGLQFIFD-----------TMKD-ITVL-RCGHTIHLECLKEMEKHYRYTCPVCSKS 57 (136)
Q Consensus 6 ~~~~~~CpIC~e~lf~-----------~~~~-~~~L-~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~ 57 (136)
++.-.+|+||..-+.+ .... .+.. -|.|.||.-||.+|++ .+..||++.+.
T Consensus 43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlk-tr~vCPLdn~e 106 (114)
T KOG2930|consen 43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLK-TRNVCPLDNKE 106 (114)
T ss_pred eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHh-hcCcCCCcCcc
Confidence 3444678888764411 1111 2333 7999999999999998 56889999765
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.41 E-value=0.00012 Score=61.59 Aligned_cols=53 Identities=26% Similarity=0.448 Sum_probs=42.5
Q ss_pred CCCCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 3 PELNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 3 ~~~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
|+...++..|.||+..| .+++++||||+||..|+++.+. ....||.||..+..
T Consensus 78 ~~~~~sef~c~vc~~~l----~~pv~tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 78 PEEIRSEFECCVCSRAL----YPPVVTPCGHSFCLECLDRSLD-QETECPLCRDELVE 130 (398)
T ss_pred CccccchhhhhhhHhhc----CCCccccccccccHHHHHHHhc-cCCCCccccccccc
Confidence 44456788999999885 4566679999999999999766 45779999988863
No 55
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=0.00013 Score=58.32 Aligned_cols=53 Identities=19% Similarity=0.377 Sum_probs=39.8
Q ss_pred CCCCCCcceecCcCccCCccceEEe-cCCcHhhHHHHHHHHhh-cCCCCCCcccccchh
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVL-RCGHTIHLECLKEMEKH-YRYTCPVCSKSLWDM 61 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L-~CgH~fh~~Cl~~~~~~-~~~~CP~Cr~~~~~~ 61 (136)
+..++-.||+|.+. ...|.++ +|||.||--|+..-... ..++||.|..+...+
T Consensus 235 ~~t~~~~C~~Cg~~----PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 235 TGTSDTECPVCGEP----PTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred cccCCceeeccCCC----CCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 45567889999998 3445544 79999999999885432 458899998877543
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.15 E-value=0.00019 Score=60.24 Aligned_cols=46 Identities=24% Similarity=0.512 Sum_probs=38.6
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhc-CCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHY-RYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~-~~~CP~Cr~~~~ 59 (136)
..|-||-|. .+++++=||||.+|..|+..|..+. ...||-||..+.
T Consensus 370 eLCKICaen----dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 370 ELCKICAEN----DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHHhhcc----CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 459999886 6788878999999999999998653 678999998763
No 57
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.11 E-value=0.00036 Score=58.55 Aligned_cols=49 Identities=22% Similarity=0.470 Sum_probs=36.9
Q ss_pred CCcceecCcCcc-CCccceEEecCCcHhhHHHHHHHHhh-cCCCCCCcccc
Q 032682 9 DNFYNFGLQFIF-DTMKDITVLRCGHTIHLECLKEMEKH-YRYTCPVCSKS 57 (136)
Q Consensus 9 ~~~CpIC~e~lf-~~~~~~~~L~CgH~fh~~Cl~~~~~~-~~~~CP~Cr~~ 57 (136)
...||||++... ......+.|.|||.|-..|++.|+.. ....||.|...
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 468999999742 22334567899999999999999953 23569999644
No 58
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.06 E-value=0.00034 Score=60.61 Aligned_cols=53 Identities=26% Similarity=0.446 Sum_probs=43.0
Q ss_pred CCCCCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh----cCCCCCCccccc
Q 032682 2 FPELNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH----YRYTCPVCSKSL 58 (136)
Q Consensus 2 ~~~~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~----~~~~CP~Cr~~~ 58 (136)
+|+-+.+...|.+|-++ -.+++.-.|.|.||+.|+.+|... .+.+||+|.+.+
T Consensus 529 ~~~enk~~~~C~lc~d~----aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 529 LPDENKGEVECGLCHDP----AEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred CCccccCceeecccCCh----hhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 45566677889999988 366777899999999999998765 357899998765
No 59
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.85 E-value=0.00049 Score=57.65 Aligned_cols=53 Identities=23% Similarity=0.439 Sum_probs=41.0
Q ss_pred CCCCCCCCcceecCcCccCCccceEE-ecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 3 PELNVNDNFYNFGLQFIFDTMKDITV-LRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 3 ~~~~~~~~~CpIC~e~lf~~~~~~~~-L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
++-.-.+..|++|+..+ .+++. ..|||.||..|+..|+.. +..||.|+.....
T Consensus 15 ~~~~~~~l~C~~C~~vl----~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 15 GRPLDENLLCPICMSVL----RDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQ 68 (391)
T ss_pred CCCCcccccCccccccc----cCCCCCCCCCCcccccccchhhcc-CcCCcccccccch
Confidence 33344568899999995 33433 599999999999999885 7889999877643
No 60
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.74 E-value=0.00089 Score=51.58 Aligned_cols=45 Identities=20% Similarity=0.387 Sum_probs=35.4
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
..|.||.+. | ..+++..|||.||..|+-.-.. ....|-+|.+...
T Consensus 197 F~C~iCKkd-y---~spvvt~CGH~FC~~Cai~~y~-kg~~C~~Cgk~t~ 241 (259)
T COG5152 197 FLCGICKKD-Y---ESPVVTECGHSFCSLCAIRKYQ-KGDECGVCGKATY 241 (259)
T ss_pred eeehhchhh-c---cchhhhhcchhHHHHHHHHHhc-cCCcceecchhhc
Confidence 369999998 4 4566789999999999866433 4578999988764
No 61
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.73 E-value=0.00031 Score=63.06 Aligned_cols=48 Identities=19% Similarity=0.200 Sum_probs=36.1
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
..||+|+.. |.......-.+|+|.||..||..|-. ...+||+||+.|.
T Consensus 124 ~~CP~Ci~s-~~DqL~~~~k~c~H~FC~~Ci~sWsR-~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 124 NQCPNCLKS-CNDQLEESEKHTAHYFCEECVGSWSR-CAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhHHHHH-HHHHhhccccccccccHHHHhhhhhh-hcccCchhhhhhh
Confidence 568888876 33222223358999999999999966 5678999999885
No 62
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.71 E-value=0.00058 Score=42.07 Aligned_cols=45 Identities=27% Similarity=0.396 Sum_probs=31.2
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
....|-.|... ...-++++|||.++..|+.-+.. ..||.|.+.+.
T Consensus 6 ~~~~~~~~~~~----~~~~~~~pCgH~I~~~~f~~~rY---ngCPfC~~~~~ 50 (55)
T PF14447_consen 6 PEQPCVFCGFV----GTKGTVLPCGHLICDNCFPGERY---NGCPFCGTPFE 50 (55)
T ss_pred cceeEEEcccc----ccccccccccceeeccccChhhc---cCCCCCCCccc
Confidence 34456666544 23455689999999999866532 45999988873
No 63
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.58 E-value=0.002 Score=54.12 Aligned_cols=47 Identities=17% Similarity=0.143 Sum_probs=36.2
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh-------cCCCCCCcc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH-------YRYTCPVCS 55 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~-------~~~~CP~Cr 55 (136)
+.-.|.||++. +-.....+.|||+|.||+.|+..|... ...+||-+.
T Consensus 183 slf~C~ICf~e-~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 183 SLFDCCICFEE-QMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred hcccceeeehh-hcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 34579999998 555566677899999999999998764 235688654
No 64
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.48 E-value=0.00089 Score=54.69 Aligned_cols=48 Identities=19% Similarity=0.409 Sum_probs=37.9
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
....|.+|..+|-+. ..+.-|-|+||+.||.+++.. ...||.|...+.
T Consensus 14 ~~itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih 61 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIH 61 (331)
T ss_pred cceehhhccceeecc---hhHHHHHHHHHHHHHHHHHHH-hccCCccceecc
Confidence 347899999996433 223479999999999999985 688999987663
No 65
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.37 E-value=0.0033 Score=51.24 Aligned_cols=44 Identities=23% Similarity=0.451 Sum_probs=34.9
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSK 56 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~ 56 (136)
+.||.|...| ..+.++--|||.||.+||+.-+....+.||.|..
T Consensus 275 LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 7899999986 3444444689999999999876656789999954
No 66
>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=96.37 E-value=0.0011 Score=44.82 Aligned_cols=32 Identities=22% Similarity=0.457 Sum_probs=25.8
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHH
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLK 41 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~ 41 (136)
++..|+||...|+. ...++.||||.||..|++
T Consensus 77 ~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence 45779999999753 455667999999999975
No 67
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=96.32 E-value=0.0038 Score=50.33 Aligned_cols=48 Identities=17% Similarity=0.297 Sum_probs=36.9
Q ss_pred cceecCcCccCCccceEEe--cCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 11 FYNFGLQFIFDTMKDITVL--RCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L--~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.||+|.-..+-+.. .+.+ +|||.+|..|....+..+...||.|.+.+.
T Consensus 2 ~Cp~CKt~~Y~np~-lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPD-LKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCcc-ceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 58999876443322 2222 999999999999998888889999987664
No 68
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.24 E-value=0.0029 Score=51.44 Aligned_cols=41 Identities=24% Similarity=0.338 Sum_probs=32.3
Q ss_pred CCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH 46 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~ 46 (136)
=+...+.|.||+.- |.+.....+.+|-|.||..||.+++..
T Consensus 111 nn~p~gqCvICLyg-fa~~~~ft~T~C~Hy~H~~ClaRyl~~ 151 (368)
T KOG4445|consen 111 NNHPNGQCVICLYG-FASSPAFTVTACDHYMHFACLARYLTE 151 (368)
T ss_pred CCCCCCceEEEEEe-ecCCCceeeehhHHHHHHHHHHHHHHH
Confidence 35566889999999 665444666799999999999887753
No 69
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.0045 Score=49.46 Aligned_cols=48 Identities=25% Similarity=0.494 Sum_probs=39.7
Q ss_pred CcceecCcCccCCc---cceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 10 NFYNFGLQFIFDTM---KDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 10 ~~CpIC~e~lf~~~---~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
..|-||-++ |++. ..|+.|.|||+++..|+...+......||-||...
T Consensus 4 ~~c~~c~~~-~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNED-YSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCcc-ccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 579999999 5553 46678999999999999998876666799999884
No 70
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.17 E-value=0.0047 Score=48.99 Aligned_cols=50 Identities=22% Similarity=0.369 Sum_probs=38.2
Q ss_pred CCCCcceecCcCccCCccceEEe-cCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVL-RCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L-~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.....|||....| ......+.| +|||+|-..+|++.- ....||+|.+.|.
T Consensus 111 ~~~~~CPvt~~~~-~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEF-NGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCccc-CCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccc
Confidence 3446799999995 444444444 999999999999983 2467999999874
No 71
>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=96.13 E-value=0.007 Score=44.90 Aligned_cols=35 Identities=23% Similarity=0.455 Sum_probs=25.7
Q ss_pred CCCcceecCcCccCCccceEEecCC-c------------HhhHHHHHHHHhh
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCG-H------------TIHLECLKEMEKH 46 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~Cg-H------------~fh~~Cl~~~~~~ 46 (136)
++..||||||. .-..++|.|. | .-|..||+++.+.
T Consensus 1 ed~~CpICme~----PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka 48 (162)
T PF07800_consen 1 EDVTCPICMEH----PHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKA 48 (162)
T ss_pred CCccCceeccC----CCceEEEEeccccCCccccccCCccchhHHHHHHHHH
Confidence 46789999997 4566777763 3 3588999998653
No 72
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.12 E-value=0.002 Score=52.07 Aligned_cols=46 Identities=22% Similarity=0.311 Sum_probs=36.3
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
..|-||.++ | ..+++..|||.||..|...-+. ....|++|.+.+..
T Consensus 242 f~c~icr~~-f---~~pVvt~c~h~fc~~ca~~~~q-k~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKY-F---YRPVVTKCGHYFCEVCALKPYQ-KGEKCYVCSQQTHG 287 (313)
T ss_pred ccccccccc-c---ccchhhcCCceeehhhhccccc-cCCcceeccccccc
Confidence 459999999 3 5577789999999999866544 35789999987744
No 73
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0043 Score=51.88 Aligned_cols=45 Identities=22% Similarity=0.431 Sum_probs=38.4
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcC--CCCCCcc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYR--YTCPVCS 55 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~--~~CP~Cr 55 (136)
..|||=.+- .+...+|+.|.|||++.++-+.+....+. ++||.|-
T Consensus 335 F~CPVlKeq-tsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 335 FICPVLKEQ-TSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred eecccchhh-ccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 459998887 56678999999999999999999977665 7899994
No 74
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.01 E-value=0.0069 Score=54.93 Aligned_cols=42 Identities=24% Similarity=0.448 Sum_probs=33.7
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
..|..|--.| .-+.+-..|||.||..|++ .+...||-|+..+
T Consensus 841 skCs~C~~~L---dlP~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTL---DLPFVHFLCGHSYHQHCLE----DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCcc---ccceeeeecccHHHHHhhc----cCcccCCccchhh
Confidence 4799998876 4566667999999999998 2557899998754
No 75
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.87 E-value=0.0033 Score=37.40 Aligned_cols=41 Identities=17% Similarity=0.411 Sum_probs=26.0
Q ss_pred ceecCcCccCCccceEEecCC-----cHhhHHHHHHHHhh-cCCCCCCc
Q 032682 12 YNFGLQFIFDTMKDITVLRCG-----HTIHLECLKEMEKH-YRYTCPVC 54 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~Cg-----H~fh~~Cl~~~~~~-~~~~CP~C 54 (136)
|=||++. .+. .++.+.||+ -..|..||++|+.. +..+|++|
T Consensus 1 CrIC~~~-~~~-~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEG-EEE-DEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE--SS-SS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCc-CCC-CCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 5688887 222 234556774 37799999999875 45669887
No 76
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.79 E-value=0.0014 Score=53.11 Aligned_cols=44 Identities=25% Similarity=0.631 Sum_probs=32.5
Q ss_pred CCcceecCcCccCCccceEEecCCcHh-hHHHHHHHHhhcCCCCCCcccccchh
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTI-HLECLKEMEKHYRYTCPVCSKSLWDM 61 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~f-h~~Cl~~~~~~~~~~CP~Cr~~~~~~ 61 (136)
+..|.||++. ..+-+.|+|||.. |.+|-..+ ..|||||+-+...
T Consensus 300 ~~LC~ICmDa----P~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~rv 344 (350)
T KOG4275|consen 300 RRLCAICMDA----PRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIVRV 344 (350)
T ss_pred HHHHHHHhcC----CcceEEeecCcEEeehhhcccc-----ccCchHHHHHHHH
Confidence 5679999887 6889999999954 55664333 2599999776543
No 77
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.0087 Score=45.49 Aligned_cols=50 Identities=20% Similarity=0.486 Sum_probs=36.1
Q ss_pred CcceecCcCccCCccceE---EecCCcHhhHHHHHHHHhh-----cCC-----CCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDIT---VLRCGHTIHLECLKEMEKH-----YRY-----TCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~---~L~CgH~fh~~Cl~~~~~~-----~~~-----~CP~Cr~~~~ 59 (136)
+.|.||+.+-.+.+.+.. -+.||..||.-||.+|+.. .++ .||.|.+++.
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 668999887555433322 2489999999999999875 122 3999998873
No 78
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.75 E-value=0.015 Score=43.14 Aligned_cols=49 Identities=20% Similarity=0.468 Sum_probs=35.3
Q ss_pred CCCCCCcceecCcCccCCccceEEecCC--c---HhhHHHHHHHHhhc-CCCCCCccccc
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVLRCG--H---TIHLECLKEMEKHY-RYTCPVCSKSL 58 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L~Cg--H---~fh~~Cl~~~~~~~-~~~CP~Cr~~~ 58 (136)
....+..|=||.+. .+ ...-||. . ..|.+|+++|+..+ ..+|++|+..+
T Consensus 4 ~s~~~~~CRIC~~~-~~----~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 4 VSLMDKCCWICKDE-YD----VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred cCCCCCeeEecCCC-CC----CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 34567889999987 22 1124664 3 56999999999863 46699998776
No 79
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.74 E-value=0.015 Score=48.43 Aligned_cols=49 Identities=16% Similarity=0.335 Sum_probs=37.4
Q ss_pred CCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh-cCCCCCCcccc
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH-YRYTCPVCSKS 57 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~-~~~~CP~Cr~~ 57 (136)
.+.++..|.||.+.+ .-..++||+|.+|-.|..+...- ....||+||..
T Consensus 57 tDEen~~C~ICA~~~----TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 57 TDEENMNCQICAGST----TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred cccccceeEEecCCc----eEEEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 345668899999985 45567899999999998775332 45679999865
No 80
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.70 E-value=0.008 Score=47.75 Aligned_cols=49 Identities=22% Similarity=0.335 Sum_probs=40.2
Q ss_pred CcceecCcCccCCccceEEe-cCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMKDITVL-RCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L-~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
-.||||.+.|. +..+.++| +|||+++..|.++++. ....||+|.+.+.+
T Consensus 222 yiCpvtrd~Lt-Nt~~ca~Lr~sg~Vv~~ecvEklir-~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 222 YICPVTRDTLT-NTTPCAVLRPSGHVVTKECVEKLIR-KDMVDPVTDKPLKD 271 (303)
T ss_pred eecccchhhhc-CccceEEeccCCcEeeHHHHHHhcc-ccccccCCCCcCcc
Confidence 46999999964 45566666 9999999999999987 56789999988754
No 81
>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=95.62 E-value=0.0071 Score=47.92 Aligned_cols=52 Identities=17% Similarity=0.241 Sum_probs=39.9
Q ss_pred CCCcceecCcCccCCccceEEe-c-CCcHhhHHHHHHHHhhcCCCCC--Ccccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVL-R-CGHTIHLECLKEMEKHYRYTCP--VCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L-~-CgH~fh~~Cl~~~~~~~~~~CP--~Cr~~~~ 59 (136)
.|..||||..+.+-+..-..++ | |-|.+|.+|..+.++.+.-.|| -|.+-+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 4568999998866654433333 5 9999999999999987778899 8876553
No 82
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.54 E-value=0.0069 Score=50.08 Aligned_cols=43 Identities=23% Similarity=0.463 Sum_probs=32.0
Q ss_pred CCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
+..|.||++. ....+.+||||.-| |..-... -..||+||..+.
T Consensus 305 p~lcVVcl~e----~~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDE----PKSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCC----ccceeeecCCcEEE--chHHHhh--CCCCchhHHHHH
Confidence 3789999988 34577899999976 6655433 356999997763
No 83
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.37 E-value=0.0082 Score=49.72 Aligned_cols=51 Identities=20% Similarity=0.400 Sum_probs=37.7
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
..||+|+|+|--+++.-.--+||..+|+-|.......-+-+||-||+.+.+
T Consensus 15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 459999999744444444458999999999877655445789999987643
No 84
>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=95.31 E-value=0.012 Score=42.63 Aligned_cols=35 Identities=11% Similarity=0.113 Sum_probs=29.3
Q ss_pred CCcceecCcCccCCccceEEecCC------cHhhHHHHHHHH
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCG------HTIHLECLKEME 44 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~Cg------H~fh~~Cl~~~~ 44 (136)
...|.||++.+-+ ...++.++|| |.||..|+++|.
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 4679999999754 4678888886 899999999994
No 85
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.27 E-value=0.012 Score=53.43 Aligned_cols=48 Identities=25% Similarity=0.477 Sum_probs=34.9
Q ss_pred CCCCCCcceecCcCccCCccceEEec---CCcHhhHHHHHHHHhh------cCCCCCCcc
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVLR---CGHTIHLECLKEMEKH------YRYTCPVCS 55 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L~---CgH~fh~~Cl~~~~~~------~~~~CP~Cr 55 (136)
|..+.-.|.||.+.+- . ..+ ++. |-|.||..||++|..+ ..-+||-|+
T Consensus 187 l~~~~yeCmIC~e~I~-~-t~~-~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 187 LSNRKYECMICTERIK-R-TAP-VWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred HhcCceEEEEeeeecc-c-cCC-ceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 3445578999999962 2 233 254 5699999999999865 235699998
No 86
>PHA02862 5L protein; Provisional
Probab=95.18 E-value=0.024 Score=41.62 Aligned_cols=46 Identities=15% Similarity=0.377 Sum_probs=33.5
Q ss_pred CCcceecCcCccCCccceEEecCC-----cHhhHHHHHHHHhhc-CCCCCCcccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCG-----HTIHLECLKEMEKHY-RYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~Cg-----H~fh~~Cl~~~~~~~-~~~CP~Cr~~~~ 59 (136)
+..|=||.+. -+ .+ .-||. -.-|++|+++|+... ...|++|+..+.
T Consensus 2 ~diCWIC~~~-~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDV-CD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCc-CC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 4679999987 22 11 24663 578999999999763 456999998773
No 87
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.09 E-value=0.015 Score=48.50 Aligned_cols=50 Identities=16% Similarity=0.294 Sum_probs=39.9
Q ss_pred CCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 6 NVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 6 ~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
.+.|+.||||... ....+.-||||.-|..||.+.+- +..+|-.|+.++.+
T Consensus 419 ~sEd~lCpICyA~----pi~Avf~PC~H~SC~~CI~qHlm-N~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAG----PINAVFAPCSHRSCYGCITQHLM-NCKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceecc----cchhhccCCCCchHHHHHHHHHh-cCCeeeEecceeee
Confidence 3578899999865 34556679999999999999776 56889999877753
No 88
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.05 E-value=0.031 Score=53.94 Aligned_cols=50 Identities=20% Similarity=0.497 Sum_probs=37.7
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhc---------CCCCCCccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHY---------RYTCPVCSKSL 58 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~---------~~~CP~Cr~~~ 58 (136)
.|..|.||+-. --+-.+.+.|.|||.||..|-+..+++. -..||+|.-.+
T Consensus 3485 ~DDmCmICFTE-~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3485 ADDMCMICFTE-ALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred cCceEEEEehh-hhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 35779999876 3345677889999999999998876651 13499997655
No 89
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.65 E-value=0.034 Score=40.20 Aligned_cols=47 Identities=26% Similarity=0.388 Sum_probs=35.1
Q ss_pred CcceecCcCccCCccceEEe----cCCcHhhHHHHHHHHhhc--CCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMKDITVL----RCGHTIHLECLKEMEKHY--RYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L----~CgH~fh~~Cl~~~~~~~--~~~CP~Cr~~~~~ 60 (136)
-.|.||.|.- .+...| =||-.+|..|.-..|+.. ...||+|+.++..
T Consensus 81 YeCnIC~etS----~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 81 YECNICKETS----AEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred eeccCccccc----chhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 4699999982 334445 289999999999977753 3569999988743
No 90
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.36 E-value=0.016 Score=45.53 Aligned_cols=43 Identities=28% Similarity=0.547 Sum_probs=29.5
Q ss_pred ceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 12 YNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
|..|.-. .+..+-.++.|+|.||..|...- ....||+|++++.
T Consensus 6 Cn~C~~~--~~~~~f~LTaC~HvfC~~C~k~~---~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 6 CNKCFRF--PSQDPFFLTACRHVFCEPCLKAS---SPDVCPLCKKSIR 48 (233)
T ss_pred ecccccc--CCCCceeeeechhhhhhhhcccC---Cccccccccceee
Confidence 5566543 34344455699999999997643 2238999999863
No 91
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.29 E-value=0.014 Score=51.73 Aligned_cols=44 Identities=25% Similarity=0.567 Sum_probs=35.4
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKS 57 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~ 57 (136)
..|+||+..+|.....++.|.|||++|..|++.. .+..|| |..+
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l---yn~scp-~~~D 55 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL---YNASCP-TKRD 55 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH---hhccCC-CCcc
Confidence 6799998887777778889999999999999876 235788 6443
No 92
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=94.28 E-value=0.024 Score=39.77 Aligned_cols=37 Identities=19% Similarity=0.377 Sum_probs=29.0
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCcccccccCCC
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTRGDT 123 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~~~~ 123 (136)
.....|++|+....... ....||+|||++...++|..
T Consensus 68 p~~~~C~~Cg~~~~~~~--~~~~CP~Cgs~~~~i~~G~E 104 (115)
T TIGR00100 68 PVECECEDCSEEVSPEI--DLYRCPKCHGIMLQVRAGKE 104 (115)
T ss_pred CcEEEcccCCCEEecCC--cCccCcCCcCCCcEEecCCe
Confidence 45789999998765533 35679999999999998853
No 93
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.11 E-value=0.047 Score=45.80 Aligned_cols=50 Identities=22% Similarity=0.408 Sum_probs=32.3
Q ss_pred CCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh-----cCCCCC--Cccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH-----YRYTCP--VCSKSL 58 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~-----~~~~CP--~Cr~~~ 58 (136)
...|.||+.........-.++.|+|.||..|..+++.. ...+|| .|...+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l 202 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRL 202 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccC
Confidence 46899999332222222225789999999999998774 245576 344443
No 94
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.92 E-value=0.07 Score=43.44 Aligned_cols=59 Identities=12% Similarity=0.312 Sum_probs=40.5
Q ss_pred CCCcceecCcCccCCccceEEecC--CcHhhHHHHHHHHhhcCCCCCCcccccchhhhHHHhhHHHHhcCCC
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRC--GHTIHLECLKEMEKHYRYTCPVCSKSLWDMSKLWSKIDQEIASTPM 77 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~C--gH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~~l~~~~~~~~~ 77 (136)
+-.+||||.+.| .++ +..| ||..|..|-.+. ..+||.||..+.+... +.++..+++...
T Consensus 47 ~lleCPvC~~~l----~~P-i~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~~R~--~amEkV~e~~~v 107 (299)
T KOG3002|consen 47 DLLDCPVCFNPL----SPP-IFQCDNGHLACSSCRTKV----SNKCPTCRLPIGNIRC--RAMEKVAEAVLV 107 (299)
T ss_pred hhccCchhhccC----ccc-ceecCCCcEehhhhhhhh----cccCCccccccccHHH--HHHHHHHHhcee
Confidence 347899999996 333 2577 899999997643 4689999999986532 333444554443
No 95
>PHA03096 p28-like protein; Provisional
Probab=93.87 E-value=0.045 Score=44.24 Aligned_cols=46 Identities=20% Similarity=0.205 Sum_probs=30.7
Q ss_pred CcceecCcCccCCc---cceEEe-cCCcHhhHHHHHHHHhhc--CCCCCCcc
Q 032682 10 NFYNFGLQFIFDTM---KDITVL-RCGHTIHLECLKEMEKHY--RYTCPVCS 55 (136)
Q Consensus 10 ~~CpIC~e~lf~~~---~~~~~L-~CgH~fh~~Cl~~~~~~~--~~~CP~Cr 55 (136)
-.|.||+|...... +.--.| .|.|.||..|+..|.... ...||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 35999999864321 111234 799999999999998752 23355554
No 96
>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=93.85 E-value=0.02 Score=34.30 Aligned_cols=43 Identities=30% Similarity=0.594 Sum_probs=24.5
Q ss_pred CcceecCcCccCCccceEEecCC-cHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCG-HTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~Cg-H~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+|--|+ |.. +. .+.|. |..|..|+..++. .+..||+|.++++
T Consensus 3 ~nCKsCW---f~~-k~--Li~C~dHYLCl~CLt~ml~-~s~~C~iC~~~LP 46 (50)
T PF03854_consen 3 YNCKSCW---FAN-KG--LIKCSDHYLCLNCLTLMLS-RSDRCPICGKPLP 46 (50)
T ss_dssp ----SS----S---SS--EEE-SS-EEEHHHHHHT-S-SSSEETTTTEE--
T ss_pred ccChhhh---hcC-CC--eeeecchhHHHHHHHHHhc-cccCCCcccCcCc
Confidence 3566666 322 22 35897 9999999999987 5688999998875
No 97
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.75 E-value=0.031 Score=50.05 Aligned_cols=48 Identities=29% Similarity=0.710 Sum_probs=36.9
Q ss_pred CCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCC-CCCCccccc
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRY-TCPVCSKSL 58 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~-~CP~Cr~~~ 58 (136)
|.++ ..|+||++. ..++..+|||.||..|+.+.+..... .||+||..+
T Consensus 451 l~~~-~~c~ic~~~-----~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 451 LSVS-HWCHICCDL-----DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred Hhhc-ccccccccc-----ccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 3444 789999983 45666799999999999998765333 599998654
No 98
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.71 E-value=0.038 Score=50.51 Aligned_cols=37 Identities=22% Similarity=0.336 Sum_probs=29.2
Q ss_pred CCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHh
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEK 45 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~ 45 (136)
..+..|.+|...|+. ++-.+.+|||.||+.|+.+-..
T Consensus 815 ep~d~C~~C~~~ll~--~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLI--KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcchhhc--CcceeeeccchHHHHHHHHHHH
Confidence 356789999999742 4455569999999999988654
No 99
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.57 E-value=0.052 Score=46.50 Aligned_cols=34 Identities=15% Similarity=0.346 Sum_probs=28.7
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHh
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEK 45 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~ 45 (136)
.+..||||... ++++++|+|||+.|+.|....+.
T Consensus 3 eelkc~vc~~f----~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSF----YREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhh----ccCceEeecccHHHHHHHHhhcc
Confidence 45789999987 36788999999999999987654
No 100
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=93.38 E-value=0.043 Score=38.40 Aligned_cols=37 Identities=22% Similarity=0.438 Sum_probs=28.4
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCcccccccCCC
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTRGDT 123 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~~~~ 123 (136)
.....|++|+....... ....|++|||++...++|.-
T Consensus 68 p~~~~C~~Cg~~~~~~~--~~~~CP~Cgs~~~~i~~G~E 104 (113)
T PRK12380 68 PAQAWCWDCSQVVEIHQ--HDAQCPHCHGERLRVDTGDS 104 (113)
T ss_pred CcEEEcccCCCEEecCC--cCccCcCCCCCCcEEccCCe
Confidence 45789999997765532 34459999999999998853
No 101
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=93.14 E-value=0.052 Score=38.19 Aligned_cols=38 Identities=26% Similarity=0.386 Sum_probs=28.6
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCcccccccCCC
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTRGDT 123 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~~~~ 123 (136)
.....|++|+....... +...+|+.|||++...++|.-
T Consensus 69 p~~~~C~~Cg~~~~~~~-~~~~~CP~Cgs~~~~i~~G~E 106 (117)
T PRK00564 69 KVELECKDCSHVFKPNA-LDYGVCEKCHSKNVIITQGNE 106 (117)
T ss_pred CCEEEhhhCCCccccCC-ccCCcCcCCCCCceEEecCCE
Confidence 45789999997765532 123469999999999988853
No 102
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=92.78 E-value=0.039 Score=38.51 Aligned_cols=37 Identities=22% Similarity=0.415 Sum_probs=25.6
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCcccccccCCC
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTRGDT 123 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~~~~ 123 (136)
.....|.+|+....... ....||.|||++...++|..
T Consensus 68 p~~~~C~~Cg~~~~~~~--~~~~CP~Cgs~~~~i~~G~e 104 (113)
T PF01155_consen 68 PARARCRDCGHEFEPDE--FDFSCPRCGSPDVEIISGRE 104 (113)
T ss_dssp --EEEETTTS-EEECHH--CCHH-SSSSSS-EEEEESS-
T ss_pred CCcEECCCCCCEEecCC--CCCCCcCCcCCCcEEccCCe
Confidence 45789999999876655 34679999999999988853
No 103
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=92.65 E-value=0.061 Score=37.67 Aligned_cols=38 Identities=16% Similarity=0.297 Sum_probs=28.4
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCcccccccCCC
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTRGDT 123 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~~~~ 123 (136)
.....|.+|+.......+ ....||.|||++...++|.-
T Consensus 68 p~~~~C~~Cg~~~~~~~~-~~~~CP~Cgs~~~~i~~G~E 105 (114)
T PRK03681 68 EAECWCETCQQYVTLLTQ-RVRRCPQCHGDMLRIVADDG 105 (114)
T ss_pred CcEEEcccCCCeeecCCc-cCCcCcCcCCCCcEEccCCe
Confidence 457899999987554322 22569999999999998853
No 104
>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=92.60 E-value=0.086 Score=30.70 Aligned_cols=40 Identities=20% Similarity=0.482 Sum_probs=20.6
Q ss_pred ceecCcCccCCccceEEe--cCCcHhhHHHHHHHHhhcC-CCCCCc
Q 032682 12 YNFGLQFIFDTMKDITVL--RCGHTIHLECLKEMEKHYR-YTCPVC 54 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L--~CgH~fh~~Cl~~~~~~~~-~~CP~C 54 (136)
|.+|.+..+ ...+-- .|+=.+|..|++.++.... .+||.|
T Consensus 1 C~~C~~iv~---~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVT---QGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-S---SSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHe---eeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 567777643 223222 4777899999999988633 369987
No 105
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=91.89 E-value=0.089 Score=37.93 Aligned_cols=38 Identities=24% Similarity=0.488 Sum_probs=27.8
Q ss_pred ccccCCCCCCCCccc---h----------h------hhhhcCCCCCCcccccccCCC
Q 032682 86 VWILCNDCGANSHVQ---F----------H------VIAHKCLSCKSYNTRQTRGDT 123 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~---~----------h------~~~~kC~~C~synt~~~~~~~ 123 (136)
....|.+|+...... + | ....+|+.|||++...++|.-
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G~e 125 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIVKGRG 125 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEecCce
Confidence 468899999765443 0 1 244679999999999888853
No 106
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=91.63 E-value=0.13 Score=42.39 Aligned_cols=49 Identities=20% Similarity=0.230 Sum_probs=37.0
Q ss_pred CCCCCCcceecCcCccCCccceEEe-cCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVL-RCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L-~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
+-.++..||||+.. ...+.+| -=|.+||..|+-.++. +..+||+=..++
T Consensus 296 l~~~~~~CpvClk~----r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 296 LPPDREVCPVCLKK----RQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPA 345 (357)
T ss_pred CCCccccChhHHhc----cCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCcc
Confidence 44566889999987 2344444 5699999999999988 567899876554
No 107
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=90.33 E-value=0.24 Score=29.65 Aligned_cols=44 Identities=20% Similarity=0.436 Sum_probs=19.8
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh----cCCCCCCcccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH----YRYTCPVCSKS 57 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~----~~~~CP~Cr~~ 57 (136)
..|||....| ..+++...|.|.-|-+ ++.|+.. ....||+|+++
T Consensus 3 L~CPls~~~i---~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRI---RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB----SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEE---EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 5789988885 3456666899874322 2334443 34679999763
No 108
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.46 E-value=0.33 Score=38.85 Aligned_cols=51 Identities=16% Similarity=0.195 Sum_probs=37.8
Q ss_pred CCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 6 NVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 6 ~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
+.....|||=.-.|-...+=....+|||+|-.+.+++.- ...|++|...+.
T Consensus 108 ~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~ 158 (293)
T KOG3113|consen 108 QRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQ 158 (293)
T ss_pred ccceeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCccc
Confidence 344456999888754434444556999999999999873 478999998763
No 109
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=89.27 E-value=0.6 Score=30.76 Aligned_cols=56 Identities=20% Similarity=0.307 Sum_probs=23.7
Q ss_pred CCCCCCCCcceecCcCccCCc-cceEEe--cCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 3 PELNVNDNFYNFGLQFIFDTM-KDITVL--RCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 3 ~~~~~~~~~CpIC~e~lf~~~-~~~~~L--~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
|..+.+...|.||.+.+-.+. -.+.+. -|+--.|+.|++-=.+.++..||.|+..+
T Consensus 3 p~k~~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 3 PLKNLNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp --S--SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred ChhhcCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 445567789999999863222 233332 68899999999876665777899998665
No 110
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=89.13 E-value=0.22 Score=42.45 Aligned_cols=32 Identities=28% Similarity=0.590 Sum_probs=25.8
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcccccccC
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTRG 121 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~~ 121 (136)
....|++|+..+.- |+| ||+.|+.|||-....
T Consensus 6 t~f~C~~CG~~s~K---W~G-kCp~Cg~Wns~vE~~ 37 (456)
T COG1066 6 TAFVCQECGYVSPK---WLG-KCPACGAWNTLVEEV 37 (456)
T ss_pred cEEEcccCCCCCcc---ccc-cCCCCCCccceEEee
Confidence 46789999987543 788 999999999987643
No 111
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=88.98 E-value=0.21 Score=35.45 Aligned_cols=38 Identities=26% Similarity=0.450 Sum_probs=26.5
Q ss_pred cccccCCCCCCCCccc-h---hh-hhhcCCCCCCcccccccCCC
Q 032682 85 MVWILCNDCGANSHVQ-F---HV-IAHKCLSCKSYNTRQTRGDT 123 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~-~---h~-~~~kC~~C~synt~~~~~~~ 123 (136)
.....| +|+...... + |+ ....||.|||++...+.|.-
T Consensus 68 p~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G~E 110 (124)
T PRK00762 68 PVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHILGGRE 110 (124)
T ss_pred CeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEecCCe
Confidence 457899 999774321 1 11 13579999999999988853
No 112
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=88.94 E-value=0.23 Score=35.02 Aligned_cols=38 Identities=29% Similarity=0.481 Sum_probs=29.3
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCcccccccCCCC
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTRGDTA 124 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~~~~~ 124 (136)
.+...|.+|+.......|.+ +||.|+|-+.+.+.|+..
T Consensus 68 p~~~~C~~C~~~~~~e~~~~--~CP~C~s~~~~i~~G~el 105 (115)
T COG0375 68 PAECWCLDCGQEVELEELDY--RCPKCGSINLRIIGGDEL 105 (115)
T ss_pred ccEEEeccCCCeecchhhee--ECCCCCCCceEEecCCee
Confidence 46789999987765554333 499999999999998753
No 113
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=88.94 E-value=0.094 Score=36.86 Aligned_cols=18 Identities=56% Similarity=0.934 Sum_probs=15.8
Q ss_pred hhhcCCCCC----CcccccccC
Q 032682 104 IAHKCLSCK----SYNTRQTRG 121 (136)
Q Consensus 104 ~~~kC~~C~----synt~~~~~ 121 (136)
+-++|++|| +|+|.|+|-
T Consensus 73 I~~kCpkCghe~m~Y~T~QlRS 94 (116)
T KOG2907|consen 73 IKHKCPKCGHEEMSYHTLQLRS 94 (116)
T ss_pred hhccCcccCCchhhhhhhhccc
Confidence 667999998 899999985
No 114
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.92 E-value=0.27 Score=40.51 Aligned_cols=45 Identities=22% Similarity=0.469 Sum_probs=35.8
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhc--CCCCCCcc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHY--RYTCPVCS 55 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~--~~~CP~Cr 55 (136)
..|||=.+. .....+|+.|.|||.+=...+.+.-.++ .++||.|-
T Consensus 337 FiCPVlKe~-~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKEL-CTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeccccHhh-hcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 458887776 5556788999999999999998876554 47799993
No 115
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=88.84 E-value=0.42 Score=29.34 Aligned_cols=36 Identities=14% Similarity=0.168 Sum_probs=25.4
Q ss_pred CCCCcceecCcCccCCccceEEecCCcHhhHHHHHH
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKE 42 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~ 42 (136)
-....|++|.+.|.+....++---||=.+|+.|.+.
T Consensus 3 ~~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 3 YEGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 345789999999544433333347999999999543
No 116
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.72 E-value=0.51 Score=37.84 Aligned_cols=51 Identities=20% Similarity=0.310 Sum_probs=34.8
Q ss_pred CCCcceecCcCccCCccceEEecC---C--cHhhHHHHHHHHhhc-------CCCCCCccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRC---G--HTIHLECLKEMEKHY-------RYTCPVCSKSL 58 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~C---g--H~fh~~Cl~~~~~~~-------~~~CP~Cr~~~ 58 (136)
.+..|=||+..=-|+....-+-|| | |--|.+||..|++.. ...||.|+..+
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 456799999872222222233477 3 889999999999752 23599999775
No 117
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.06 E-value=0.049 Score=45.84 Aligned_cols=50 Identities=18% Similarity=0.337 Sum_probs=39.8
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
..|+||.+.|-........+.|||.+|..+|.+|+.. ...||.|+..+..
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPK 246 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhh
Confidence 4588888876444445566789999999999999985 6789999988864
No 118
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=86.51 E-value=0.34 Score=39.85 Aligned_cols=30 Identities=27% Similarity=0.718 Sum_probs=22.2
Q ss_pred EEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 27 TVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 27 ~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
+.++|.|+||.+|...- ....||.|...+.
T Consensus 105 RmIPCkHvFCl~CAr~~---~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARSD---SDKICPLCDDRVQ 134 (389)
T ss_pred cccccchhhhhhhhhcC---ccccCcCcccHHH
Confidence 45799999999997532 3457999976653
No 119
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=86.02 E-value=0.76 Score=34.39 Aligned_cols=53 Identities=23% Similarity=0.357 Sum_probs=34.5
Q ss_pred CCCCCCcccccchhhhHHHhhHHHHhcCCCChhhhcccccccCCCCCCCCccchhhhhh
Q 032682 48 RYTCPVCSKSLWDMSKLWSKIDQEIASTPMPAMYQNKMVWILCNDCGANSHVQFHVIAH 106 (136)
Q Consensus 48 ~~~CP~Cr~~~~~~~~~~~~l~~~~~~~~~p~~~~~~~~~i~C~~C~~~~~~~~h~~~~ 106 (136)
-.+||.|+..+.... .+++.+.-.|..+.+...-..|..|++.-....||-.+
T Consensus 97 ~~RCp~CN~~L~~vs------~eev~~~Vp~~~~~~~~~f~~C~~CgkiYW~GsHw~~m 149 (165)
T COG1656 97 FSRCPECNGELEKVS------REEVKEKVPEKVYRNYEEFYRCPKCGKIYWKGSHWRRM 149 (165)
T ss_pred cccCcccCCEeccCc------HHHHhhccchhhhhcccceeECCCCcccccCchHHHHH
Confidence 467999998875432 23333333234455554567799999998888888654
No 120
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=85.56 E-value=0.24 Score=47.10 Aligned_cols=47 Identities=19% Similarity=0.314 Sum_probs=36.4
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~ 60 (136)
..|+||++.+- ..-.+..|||.+|..|+..|+. .+..||+|.....+
T Consensus 1154 ~~c~ic~dil~---~~~~I~~cgh~~c~~c~~~~l~-~~s~~~~~ksi~~d 1200 (1394)
T KOG0298|consen 1154 FVCEICLDILR---NQGGIAGCGHEPCCRCDELWLY-ASSRCPICKSIKGD 1200 (1394)
T ss_pred cchHHHHHHHH---hcCCeeeechhHhhhHHHHHHH-HhccCcchhhhhhh
Confidence 57999999862 1223458999999999999998 47899999755443
No 121
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.50 E-value=0.86 Score=41.94 Aligned_cols=53 Identities=23% Similarity=0.318 Sum_probs=39.2
Q ss_pred CCCCCCCcceecCcCccCCccceEEecCC-----cHhhHHHHHHHHhh-cCCCCCCccccc
Q 032682 4 ELNVNDNFYNFGLQFIFDTMKDITVLRCG-----HTIHLECLKEMEKH-YRYTCPVCSKSL 58 (136)
Q Consensus 4 ~~~~~~~~CpIC~e~lf~~~~~~~~L~Cg-----H~fh~~Cl~~~~~~-~~~~CP~Cr~~~ 58 (136)
..|.++..|-||.-. +...++..-||. -.+|++|+-+|+.. +..+|-+|+..+
T Consensus 7 ~mN~d~~~CRICr~e--~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 7 PMNEDKRSCRICRTE--DIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred CCCccchhceeecCC--CCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 356788999999976 223445444774 46899999999987 356699998765
No 122
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=85.20 E-value=0.52 Score=40.35 Aligned_cols=30 Identities=33% Similarity=0.707 Sum_probs=24.5
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcccccc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQT 119 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~ 119 (136)
....|..|+..+.. |++ +|+.|++|||-..
T Consensus 6 ~~y~C~~Cg~~~~~---~~g-~Cp~C~~w~t~~~ 35 (454)
T TIGR00416 6 SKFVCQHCGADSPK---WQG-KCPACHAWNTITE 35 (454)
T ss_pred CeEECCcCCCCCcc---ccE-ECcCCCCccccch
Confidence 46789999987644 455 9999999999886
No 123
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=85.05 E-value=0.81 Score=37.72 Aligned_cols=49 Identities=20% Similarity=0.246 Sum_probs=35.2
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
..||||.+++........-.+||+..|.-|+..-.. +..+||.||+++.
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~-~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD-GDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccc-cCCCCCccCCccc
Confidence 679999998633333222237788888888877655 5688999997764
No 124
>PRK11823 DNA repair protein RadA; Provisional
Probab=84.42 E-value=0.59 Score=39.84 Aligned_cols=32 Identities=28% Similarity=0.658 Sum_probs=25.1
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCccccccc
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTR 120 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~ 120 (136)
+....|..|+..+.. |++ +|+.|++|||-...
T Consensus 5 ~~~y~C~~Cg~~~~~---~~g-~Cp~C~~w~t~~e~ 36 (446)
T PRK11823 5 KTAYVCQECGAESPK---WLG-RCPECGAWNTLVEE 36 (446)
T ss_pred CCeEECCcCCCCCcc---cCe-eCcCCCCccceeee
Confidence 346789999987644 455 99999999998763
No 125
>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=84.24 E-value=1.9 Score=36.08 Aligned_cols=25 Identities=24% Similarity=0.571 Sum_probs=19.4
Q ss_pred hhHHHHHHHHhh------------cCCCCCCcccccc
Q 032682 35 IHLECLKEMEKH------------YRYTCPVCSKSLW 59 (136)
Q Consensus 35 fh~~Cl~~~~~~------------~~~~CP~Cr~~~~ 59 (136)
-|.+|+-+|+.+ ++-.||.||+.|-
T Consensus 315 WC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 315 WCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred HHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 488999999876 2345999998873
No 126
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=82.84 E-value=0.78 Score=41.92 Aligned_cols=25 Identities=32% Similarity=0.627 Sum_probs=20.5
Q ss_pred EEecCCcHhhHHHHHHHHhhcCCCCC
Q 032682 27 TVLRCGHTIHLECLKEMEKHYRYTCP 52 (136)
Q Consensus 27 ~~L~CgH~fh~~Cl~~~~~~~~~~CP 52 (136)
+...|||..|..|..+|+.. ...||
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~-gd~Cp 1068 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRT-GDVCP 1068 (1081)
T ss_pred hhccccccccHHHHHHHHhc-CCcCC
Confidence 34589999999999999985 45677
No 127
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=81.40 E-value=0.68 Score=42.21 Aligned_cols=44 Identities=20% Similarity=0.430 Sum_probs=31.0
Q ss_pred CCcceecCcCccCC---ccceEEecCCcHhhHHHHHHHHhhcCCCCCCc
Q 032682 9 DNFYNFGLQFIFDT---MKDITVLRCGHTIHLECLKEMEKHYRYTCPVC 54 (136)
Q Consensus 9 ~~~CpIC~e~lf~~---~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~C 54 (136)
+..|..|.+...-+ +...+++.|||.||.+|+.....+. .|-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~--~~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN--ACNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc--ccChh
Confidence 35799999885322 2567788999999999997754432 25555
No 128
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=80.26 E-value=1.7 Score=34.42 Aligned_cols=50 Identities=14% Similarity=0.210 Sum_probs=35.0
Q ss_pred CCcceecCcCccCCccceEEecC-----CcHhhHHHHHHHHhh-cCCCCCCccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRC-----GHTIHLECLKEMEKH-YRYTCPVCSKSL 58 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~C-----gH~fh~~Cl~~~~~~-~~~~CP~Cr~~~ 58 (136)
+..|=||.+..+.....+...|| ....|+.|++.|... +...|.+|...+
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 35799999974332222444576 277899999999874 456699997655
No 129
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.68 E-value=1.8 Score=36.88 Aligned_cols=37 Identities=22% Similarity=0.357 Sum_probs=29.2
Q ss_pred CCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH 46 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~ 46 (136)
..+..|.||.+. ++. ....+.|||.|+..|...++..
T Consensus 68 ~~~~~c~ic~~~-~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVES-YDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCC-Ccc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 345789999988 332 4556799999999999998875
No 130
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=78.42 E-value=1.3 Score=26.18 Aligned_cols=35 Identities=20% Similarity=0.341 Sum_probs=19.6
Q ss_pred cccCCCCCCCCccchhh---hhhcCCCCCCccc-ccccC
Q 032682 87 WILCNDCGANSHVQFHV---IAHKCLSCKSYNT-RQTRG 121 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~---~~~kC~~C~synt-~~~~~ 121 (136)
...|.+|+...++.... -...|+.||+-+. ++++.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~~s~ 43 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRLLSA 43 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEEecc
Confidence 34577777654432110 1236999998665 45553
No 131
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=75.76 E-value=2.3 Score=21.93 Aligned_cols=20 Identities=30% Similarity=0.674 Sum_probs=12.8
Q ss_pred CCCCCcccccchhhhHHHhhH
Q 032682 49 YTCPVCSKSLWDMSKLWSKID 69 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~~~~~~l~ 69 (136)
..||+|.+.+ ....+.+.||
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3599998887 4444555554
No 133
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=73.99 E-value=2 Score=24.86 Aligned_cols=30 Identities=17% Similarity=0.284 Sum_probs=17.2
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCCccc
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKSYNT 116 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~synt 116 (136)
...|.+|+............+|+.||+.-.
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeEE
Confidence 456777776543322222568888886444
No 134
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=73.49 E-value=1 Score=38.14 Aligned_cols=51 Identities=29% Similarity=0.552 Sum_probs=1.9
Q ss_pred CCCCCCCcceecCcCc-c---------CCccceEEecCCcHhhHHHHHHHHhh-----cCCCCCCcccc
Q 032682 4 ELNVNDNFYNFGLQFI-F---------DTMKDITVLRCGHTIHLECLKEMEKH-----YRYTCPVCSKS 57 (136)
Q Consensus 4 ~~~~~~~~CpIC~e~l-f---------~~~~~~~~L~CgH~fh~~Cl~~~~~~-----~~~~CP~Cr~~ 57 (136)
+||....-|||=+..| | +...+-+.|.|||++-. ..|... ....||+||..
T Consensus 272 ~lNa~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 272 ELNAGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp HSS------------------------------------------------------------------
T ss_pred HHhhcCCCCCcCCCccccccccccccccccCceeeccccceeee---cccccccccccccccCCCcccc
Confidence 5677777888887766 1 22335577899987643 345432 24569999754
No 135
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=72.47 E-value=0.16 Score=32.86 Aligned_cols=40 Identities=28% Similarity=0.363 Sum_probs=21.4
Q ss_pred CCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
+..||.|..+|-. + . ||.+|..|-..+.. ...||-|...+
T Consensus 1 e~~CP~C~~~L~~--~-----~-~~~~C~~C~~~~~~--~a~CPdC~~~L 40 (70)
T PF07191_consen 1 ENTCPKCQQELEW--Q-----G-GHYHCEACQKDYKK--EAFCPDCGQPL 40 (70)
T ss_dssp --B-SSS-SBEEE--E-----T-TEEEETTT--EEEE--EEE-TTT-SB-
T ss_pred CCcCCCCCCccEE--e-----C-CEEECcccccccee--cccCCCcccHH
Confidence 3679999998621 1 1 78888888766532 36799998776
No 136
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.12 E-value=0.77 Score=36.57 Aligned_cols=47 Identities=23% Similarity=0.445 Sum_probs=35.9
Q ss_pred CcceecCcCccC---CccceEEec--------CCcHhhHHHHHHHHhhcCCCCCCcccc
Q 032682 10 NFYNFGLQFIFD---TMKDITVLR--------CGHTIHLECLKEMEKHYRYTCPVCSKS 57 (136)
Q Consensus 10 ~~CpIC~e~lf~---~~~~~~~L~--------CgH~fh~~Cl~~~~~~~~~~CP~Cr~~ 57 (136)
..|.||... ++ ....+.++. |||+.+..|++..+......||.|++.
T Consensus 208 ~~c~ic~~~-~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERI-YSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHH-hhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 458888887 33 234556666 999999999999876655789999875
No 137
>PLN02189 cellulose synthase
Probab=70.74 E-value=4.3 Score=38.30 Aligned_cols=52 Identities=17% Similarity=0.307 Sum_probs=35.6
Q ss_pred CCCcceecCcCccCCcc-ceE-Ee-cCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMK-DIT-VL-RCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~-~~~-~L-~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
+...|.||.|.+-.... .+. .- -||--.|+.|++-=.+.++..||.|+..+.
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 44689999998632222 222 12 478889999996555556778999987764
No 138
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=70.65 E-value=4.8 Score=36.83 Aligned_cols=39 Identities=23% Similarity=0.205 Sum_probs=28.3
Q ss_pred CcceecCcCccCCccceEEe--cCCcHhhHHHHHHHHhhcCCCCCC
Q 032682 10 NFYNFGLQFIFDTMKDITVL--RCGHTIHLECLKEMEKHYRYTCPV 53 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L--~CgH~fh~~Cl~~~~~~~~~~CP~ 53 (136)
..|.||-..+ +.+.+. -|||..|..++++|+. +...||.
T Consensus 780 ~~CtVC~~vi----~G~~~~c~~C~H~gH~sh~~sw~~-~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVI----RGVDVWCQVCGHGGHDSHLKSWFF-KASPCAK 820 (839)
T ss_pred cCceeeccee----eeeEeecccccccccHHHHHHHHh-cCCCCcc
Confidence 4699998775 333333 6999999999999987 4455554
No 139
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=70.03 E-value=3.8 Score=37.33 Aligned_cols=25 Identities=24% Similarity=0.549 Sum_probs=20.3
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYN 115 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~syn 115 (136)
....|+.|+.....+. +|+.|||-.
T Consensus 461 ~~L~CH~Cg~~~~~p~-----~Cp~Cgs~~ 485 (730)
T COG1198 461 GQLRCHYCGYQEPIPQ-----SCPECGSEH 485 (730)
T ss_pred CeeEeCCCCCCCCCCC-----CCCCCCCCe
Confidence 5788999998865554 899999983
No 140
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=70.01 E-value=1.6 Score=26.43 Aligned_cols=40 Identities=20% Similarity=0.347 Sum_probs=22.2
Q ss_pred cccCCCCCCCCc--cchhhhhhcCCCCCCcccccc-cCCCCCC
Q 032682 87 WILCNDCGANSH--VQFHVIAHKCLSCKSYNTRQT-RGDTATT 126 (136)
Q Consensus 87 ~i~C~~C~~~~~--~~~h~~~~kC~~C~synt~~~-~~~~~~~ 126 (136)
.+.|..|++.-- ..+..+-.||++|+..|.... ++.+.|.
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN~~~a~~~~~~p~ 46 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTINHVRATSPEPEPL 46 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccceEeccCCCCCch
Confidence 455666654210 011125669999998887654 3444444
No 141
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=68.31 E-value=3.8 Score=35.50 Aligned_cols=25 Identities=24% Similarity=0.594 Sum_probs=18.9
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYN 115 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~syn 115 (136)
....|+.|+.+...+ ..|+.|+|-.
T Consensus 239 ~~l~Ch~Cg~~~~~~-----~~Cp~C~s~~ 263 (505)
T TIGR00595 239 GKLRCHYCGYQEPIP-----KTCPQCGSED 263 (505)
T ss_pred CeEEcCCCcCcCCCC-----CCCCCCCCCe
Confidence 367899999875443 4899999853
No 142
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.21 E-value=4.6 Score=33.17 Aligned_cols=29 Identities=24% Similarity=0.506 Sum_probs=21.3
Q ss_pred CCcHhhHHHHHHHHhh------------cCCCCCCcccccc
Q 032682 31 CGHTIHLECLKEMEKH------------YRYTCPVCSKSLW 59 (136)
Q Consensus 31 CgH~fh~~Cl~~~~~~------------~~~~CP~Cr~~~~ 59 (136)
|--..|.+||-+|+.. ++-.||+||+.+-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 3456788999998753 2456999999874
No 143
>PLN02436 cellulose synthase A
Probab=68.16 E-value=5.2 Score=37.92 Aligned_cols=52 Identities=13% Similarity=0.227 Sum_probs=35.5
Q ss_pred CCCcceecCcCccCCccceEEe---cCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVL---RCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L---~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
+...|.||.|.+-.+...-... -||--.|+.|++-=.+.++..||.|+..+.
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4458999999863222222222 478889999996555546778999987764
No 144
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=68.06 E-value=1.7 Score=35.96 Aligned_cols=51 Identities=25% Similarity=0.486 Sum_probs=32.5
Q ss_pred CCCCCCCcceecCcCc-c---------CCccceEEecCCcHhhHHHHHHHHhh-----cCCCCCCcccc
Q 032682 4 ELNVNDNFYNFGLQFI-F---------DTMKDITVLRCGHTIHLECLKEMEKH-----YRYTCPVCSKS 57 (136)
Q Consensus 4 ~~~~~~~~CpIC~e~l-f---------~~~~~~~~L~CgH~fh~~Cl~~~~~~-----~~~~CP~Cr~~ 57 (136)
++|....-|||=+..| | +..++-+.|.|||.-- ...|-.. ....||+|+..
T Consensus 285 ~iNA~RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G---~H~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 285 EINAARPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHG---YHNWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred HHhccCCCCCcccceeecccccccccccccCCeEEEecccccc---ccccccccccCcccCcCCeeeee
Confidence 4677788899998876 1 2234567899997532 1235332 13569999743
No 145
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.98 E-value=3.2 Score=32.01 Aligned_cols=39 Identities=15% Similarity=0.248 Sum_probs=27.8
Q ss_pred cceecCcCccCCccceEEecCC-cHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 11 FYNFGLQFIFDTMKDITVLRCG-HTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L~Cg-H~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
.|-.|.+. ...+.+|||- |.+|..|-.. ...||+|+...
T Consensus 160 ~Cr~C~~~----~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 160 SCRKCGER----EATVLLLPCRHLCLCGICDES-----LRICPICRSPK 199 (207)
T ss_pred cceecCcC----CceEEeecccceEeccccccc-----CccCCCCcChh
Confidence 38889876 4567778997 5678888422 35699997553
No 146
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=66.63 E-value=3 Score=32.59 Aligned_cols=42 Identities=21% Similarity=0.483 Sum_probs=31.4
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCS 55 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr 55 (136)
.+|.+|...+. ....-=.||=.||..|++.++.. ...||.|.
T Consensus 182 k~Cn~Ch~LvI---qg~rCg~c~i~~h~~c~qty~q~-~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVI---QGIRCGSCNIQYHRGCIQTYLQR-RDICPHCG 223 (235)
T ss_pred HHHhHhHHHhh---eeeccCcccchhhhHHHHHHhcc-cCcCCchh
Confidence 46899988742 23333367788999999999884 78899994
No 147
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=66.54 E-value=5.1 Score=30.61 Aligned_cols=40 Identities=23% Similarity=0.576 Sum_probs=26.4
Q ss_pred CcceecC--cCccCCccce--EEecCCcHhhHHHHHHHHhhcCCCCCCcc
Q 032682 10 NFYNFGL--QFIFDTMKDI--TVLRCGHTIHLECLKEMEKHYRYTCPVCS 55 (136)
Q Consensus 10 ~~CpIC~--e~lf~~~~~~--~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr 55 (136)
..|.+|. +.||.-..+. .--.|+-.||..|+. ...||-|.
T Consensus 153 fiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~------~~~CpkC~ 196 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR------KKSCPKCA 196 (202)
T ss_pred CCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC------CCCCCCcH
Confidence 4688887 4555432212 223799999999975 25699993
No 148
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=66.53 E-value=4.4 Score=19.06 Aligned_cols=17 Identities=41% Similarity=0.978 Sum_probs=9.9
Q ss_pred CCCCCcccccchhhhHH
Q 032682 49 YTCPVCSKSLWDMSKLW 65 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~~~~ 65 (136)
+.||+|.+.+.+...+.
T Consensus 1 ~~C~~C~~~~~~~~~l~ 17 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELR 17 (24)
T ss_dssp EE-SSTS-EESSHHHHH
T ss_pred CCCcCCCCcCCcHHHHH
Confidence 35899988886655443
No 149
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=65.87 E-value=4.6 Score=23.60 Aligned_cols=28 Identities=29% Similarity=0.761 Sum_probs=18.9
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
|.|+.|++...+ .+..||..|..|..-+
T Consensus 1 i~Cd~C~~~~i~---G~RykC~~C~dyDLC~ 28 (45)
T cd02339 1 IICDTCRKQGII---GIRWKCAECPNYDLCT 28 (45)
T ss_pred CCCCCCCCCCcc---cCeEECCCCCCccchH
Confidence 579999875433 3566888887776543
No 150
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=65.75 E-value=0.27 Score=28.83 Aligned_cols=42 Identities=26% Similarity=0.419 Sum_probs=26.9
Q ss_pred cceecCcCccCCccceEEe--cCCcHhhHHHHHHHHhh-----cCCCCCCcc
Q 032682 11 FYNFGLQFIFDTMKDITVL--RCGHTIHLECLKEMEKH-----YRYTCPVCS 55 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L--~CgH~fh~~Cl~~~~~~-----~~~~CP~Cr 55 (136)
.|+||... .+ ...++. .|+-.||..|+..-... ..+.||.|+
T Consensus 1 ~C~vC~~~-~~--~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQS-DD--DGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSS-CT--TSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCc-CC--CCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 37889885 22 223323 78999999998653321 256788874
No 151
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=65.70 E-value=0.94 Score=34.97 Aligned_cols=13 Identities=46% Similarity=0.992 Sum_probs=10.4
Q ss_pred cCCCCCCcccccc
Q 032682 47 YRYTCPVCSKSLW 59 (136)
Q Consensus 47 ~~~~CP~Cr~~~~ 59 (136)
...+||+|.+.|.
T Consensus 4 k~~~CPvC~~~F~ 16 (214)
T PF09986_consen 4 KKITCPVCGKEFK 16 (214)
T ss_pred CceECCCCCCeee
Confidence 3578999998885
No 152
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=63.92 E-value=2.1 Score=38.62 Aligned_cols=47 Identities=17% Similarity=0.336 Sum_probs=35.6
Q ss_pred CCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh--cCCCCCCcccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH--YRYTCPVCSKSLW 59 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~--~~~~CP~Cr~~~~ 59 (136)
...|+||.+..++ +..+.|-|.|+..|+...+.. +...||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~----p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKE----PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeec----cchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 4689999998643 366899999999999875443 3456999986653
No 153
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=62.78 E-value=6.2 Score=20.87 Aligned_cols=37 Identities=24% Similarity=0.397 Sum_probs=22.9
Q ss_pred cceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 11 FYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
.|+.|.+.+... ...+..=+..||..| ++|..|++.+
T Consensus 1 ~C~~C~~~i~~~--~~~~~~~~~~~H~~C---------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGG--ELVLRALGKVWHPEC---------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCC--cEEEEeCCccccccC---------CCCcccCCcC
Confidence 478888886432 122223367888877 5677887665
No 154
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.48 E-value=3.2 Score=33.88 Aligned_cols=35 Identities=17% Similarity=0.365 Sum_probs=27.9
Q ss_pred CCCcceecCcCccCCccceEEecC----CcHhhHHHHHHHHhh
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRC----GHTIHLECLKEMEKH 46 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~C----gH~fh~~Cl~~~~~~ 46 (136)
..+.|.+|.|.| .+...+.| +|.||.-|-++.++.
T Consensus 267 apLcCTLC~ERL----EDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERL----EDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred Cceeehhhhhhh----ccCceeecCCCcccceecccCHHHHHh
Confidence 447899999997 34555677 699999999998875
No 155
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=61.46 E-value=4.7 Score=19.32 Aligned_cols=15 Identities=47% Similarity=1.070 Sum_probs=10.5
Q ss_pred CCCCCcccccchhhh
Q 032682 49 YTCPVCSKSLWDMSK 63 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~~ 63 (136)
+.||.|.+.+.....
T Consensus 1 y~C~~C~~~f~~~~~ 15 (23)
T PF00096_consen 1 YKCPICGKSFSSKSN 15 (23)
T ss_dssp EEETTTTEEESSHHH
T ss_pred CCCCCCCCccCCHHH
Confidence 468999888865443
No 156
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=60.88 E-value=6.6 Score=23.05 Aligned_cols=28 Identities=18% Similarity=0.530 Sum_probs=19.9
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
+.|+.|+...-+. ...||..|..|+.-+
T Consensus 1 V~Cd~C~~~pI~G---~RykC~~C~dyDLC~ 28 (45)
T cd02344 1 VTCDGCQMFPING---PRFKCRNCDDFDFCE 28 (45)
T ss_pred CCCCCCCCCCCcc---CeEECCCCCCccchH
Confidence 4689998754332 566899998887654
No 157
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=60.57 E-value=5.8 Score=32.45 Aligned_cols=24 Identities=25% Similarity=0.822 Sum_probs=16.6
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCC
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKS 113 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~s 113 (136)
....|.-|+ ..+|+...+|++||+
T Consensus 209 RyL~CslC~----teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 209 RYLSCSLCA----TEWHYVRVKCSHCEE 232 (305)
T ss_pred eEEEcCCCC----CcccccCccCCCCCC
Confidence 366777777 445667778888874
No 158
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=60.45 E-value=4.1 Score=36.19 Aligned_cols=23 Identities=30% Similarity=0.745 Sum_probs=18.1
Q ss_pred EecCCcHhhHHHHHHHHhhcCCCCCCc
Q 032682 28 VLRCGHTIHLECLKEMEKHYRYTCPVC 54 (136)
Q Consensus 28 ~L~CgH~fh~~Cl~~~~~~~~~~CP~C 54 (136)
-..||+.||..|+.. .+..||.|
T Consensus 534 C~~C~avfH~~C~~r----~s~~CPrC 556 (580)
T KOG1829|consen 534 CSTCLAVFHKKCLRR----KSPCCPRC 556 (580)
T ss_pred HHHHHHHHHHHHHhc----cCCCCCch
Confidence 457999999999754 34559999
No 159
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=60.06 E-value=5 Score=23.35 Aligned_cols=25 Identities=20% Similarity=0.721 Sum_probs=12.7
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCC
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKS 113 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~s 113 (136)
..|-+|+...... .....+|+.||+
T Consensus 3 Y~C~~Cg~~~~~~-~~~~irC~~CG~ 27 (44)
T smart00659 3 YICGECGRENEIK-SKDVVRCRECGY 27 (44)
T ss_pred EECCCCCCEeecC-CCCceECCCCCc
Confidence 4566666543332 123456666664
No 160
>PRK05580 primosome assembly protein PriA; Validated
Probab=59.36 E-value=6.8 Score=35.21 Aligned_cols=25 Identities=24% Similarity=0.683 Sum_probs=18.8
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYN 115 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~syn 115 (136)
....|+.|+.+...+ ..|+.|||-.
T Consensus 407 ~~l~Ch~Cg~~~~~~-----~~Cp~Cg~~~ 431 (679)
T PRK05580 407 RRLRCHHCGYQEPIP-----KACPECGSTD 431 (679)
T ss_pred CeEECCCCcCCCCCC-----CCCCCCcCCe
Confidence 367899999875443 4899999863
No 161
>PF14353 CpXC: CpXC protein
Probab=59.28 E-value=0.95 Score=31.76 Aligned_cols=10 Identities=40% Similarity=1.119 Sum_probs=8.0
Q ss_pred CCCCCccccc
Q 032682 49 YTCPVCSKSL 58 (136)
Q Consensus 49 ~~CP~Cr~~~ 58 (136)
.+||.|++.+
T Consensus 2 itCP~C~~~~ 11 (128)
T PF14353_consen 2 ITCPHCGHEF 11 (128)
T ss_pred cCCCCCCCee
Confidence 5799998776
No 162
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=58.65 E-value=6.7 Score=23.18 Aligned_cols=28 Identities=21% Similarity=0.566 Sum_probs=20.1
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
+.|+.|.+..-. .+..+|..|..|+.-+
T Consensus 1 ~~C~~C~~~~i~---g~R~~C~~C~dydLC~ 28 (49)
T cd02345 1 LSCSACRKQDIS---GIRFPCQVCRDYSLCL 28 (49)
T ss_pred CcCCCCCCCCce---EeeEECCCCCCcCchH
Confidence 468999875323 3667899998888765
No 163
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=58.56 E-value=4.3 Score=24.41 Aligned_cols=28 Identities=21% Similarity=0.503 Sum_probs=16.7
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCC
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKS 113 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~s 113 (136)
....|..|+++.....-..+..|+.||+
T Consensus 5 ~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~ 32 (49)
T COG1996 5 MEYKCARCGREVELDQETRGIRCPYCGS 32 (49)
T ss_pred EEEEhhhcCCeeehhhccCceeCCCCCc
Confidence 3566777776654333345667777775
No 164
>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=57.21 E-value=8.4 Score=19.92 Aligned_cols=19 Identities=37% Similarity=0.842 Sum_probs=11.5
Q ss_pred CCCCCCCCccchhhhhhcCCCCC
Q 032682 90 CNDCGANSHVQFHVIAHKCLSCK 112 (136)
Q Consensus 90 C~~C~~~~~~~~h~~~~kC~~C~ 112 (136)
|.+|++.-.. ...+|++||
T Consensus 3 CP~C~~~V~~----~~~~Cp~CG 21 (26)
T PF10571_consen 3 CPECGAEVPE----SAKFCPHCG 21 (26)
T ss_pred CCCCcCCchh----hcCcCCCCC
Confidence 6666665222 455788887
No 165
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=56.93 E-value=8.2 Score=31.66 Aligned_cols=24 Identities=33% Similarity=0.910 Sum_probs=16.9
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCC
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKS 113 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~s 113 (136)
....|.-|+ ..+|+...+|++||.
T Consensus 211 RyL~CslC~----teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 211 RYLHCNLCE----SEWHVVRVKCSNCEQ 234 (309)
T ss_pred eEEEcCCCC----CcccccCccCCCCCC
Confidence 467788887 445667778888884
No 166
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=55.97 E-value=14 Score=35.16 Aligned_cols=53 Identities=15% Similarity=0.216 Sum_probs=35.4
Q ss_pred CCCCcceecCcCccCCcc-ceEE--ecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 7 VNDNFYNFGLQFIFDTMK-DITV--LRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~-~~~~--L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+...|.||.|.+--+.. ++.+ --||--.|+.|++-=.+.++..||.|+..+.
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 355689999998532222 2221 2578889999995444446677999987664
No 167
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=55.61 E-value=7 Score=23.27 Aligned_cols=28 Identities=29% Similarity=0.540 Sum_probs=20.3
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
+.|+.|++..- .++..+|..|..|+.-+
T Consensus 1 ~~Cd~C~~~pi---~g~RykC~~C~d~DLC~ 28 (49)
T cd02334 1 AKCNICKEFPI---TGFRYRCLKCFNYDLCQ 28 (49)
T ss_pred CCCCCCCCCCc---eeeeEECCCCCCcCchH
Confidence 46899987432 34778999999887665
No 168
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=54.74 E-value=14 Score=21.99 Aligned_cols=10 Identities=50% Similarity=1.361 Sum_probs=7.6
Q ss_pred CCCCCCcccc
Q 032682 48 RYTCPVCSKS 57 (136)
Q Consensus 48 ~~~CP~Cr~~ 57 (136)
.++||.|.+.
T Consensus 2 ~f~CP~C~~~ 11 (54)
T PF05605_consen 2 SFTCPYCGKG 11 (54)
T ss_pred CcCCCCCCCc
Confidence 4788999873
No 169
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=54.36 E-value=8.9 Score=27.63 Aligned_cols=50 Identities=26% Similarity=0.498 Sum_probs=26.0
Q ss_pred CCCCCcccccchhhhHHHhhHHHHhcCCCCh-hhhcccccccCCCCCCCCccchhhhh
Q 032682 49 YTCPVCSKSLWDMSKLWSKIDQEIASTPMPA-MYQNKMVWILCNDCGANSHVQFHVIA 105 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~~~~~~l~~~~~~~~~p~-~~~~~~~~i~C~~C~~~~~~~~h~~~ 105 (136)
.+||.|...+..... +++.. .+|+ -+.....--.|..|++--+...||-.
T Consensus 92 sRC~~CN~~L~~v~~------~~v~~-~vp~~v~~~~~~f~~C~~C~kiyW~GsH~~~ 142 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSK------EEVKD-RVPPYVYETYDEFWRCPGCGKIYWEGSHWRR 142 (147)
T ss_pred CccCCCCcEeeechh------hcccc-ccCccccccCCeEEECCCCCCEecccccHHH
Confidence 569999887643321 11111 1232 22222235678888876666556543
No 170
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=54.27 E-value=6.3 Score=23.13 Aligned_cols=12 Identities=42% Similarity=0.980 Sum_probs=10.0
Q ss_pred hcCCCCCCcccc
Q 032682 106 HKCLSCKSYNTR 117 (136)
Q Consensus 106 ~kC~~C~synt~ 117 (136)
+||+.||-||-.
T Consensus 12 rkCp~CGt~NG~ 23 (44)
T PF14952_consen 12 RKCPKCGTYNGT 23 (44)
T ss_pred ccCCcCcCccCc
Confidence 599999999943
No 171
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=54.18 E-value=9.9 Score=22.21 Aligned_cols=28 Identities=21% Similarity=0.344 Sum_probs=20.1
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
|.|+.|+..+-+. ...||..|..|..-.
T Consensus 1 I~CDgCg~~PI~G---~RykC~~C~dyDLC~ 28 (43)
T cd02342 1 IQCDGCGVLPITG---PRYKSKVKEDYDLCT 28 (43)
T ss_pred CCCCCCCCCcccc---cceEeCCCCCCccHH
Confidence 5699999765443 567899998886543
No 172
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=53.35 E-value=4.8 Score=29.58 Aligned_cols=25 Identities=36% Similarity=0.788 Sum_probs=17.1
Q ss_pred ecC--CcHhhHHHHHHHHhh----------cCCCCCCccccc
Q 032682 29 LRC--GHTIHLECLKEMEKH----------YRYTCPVCSKSL 58 (136)
Q Consensus 29 L~C--gH~fh~~Cl~~~~~~----------~~~~CP~Cr~~~ 58 (136)
|.| ||.| +.|+.+ +-..||+|...-
T Consensus 6 L~C~~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 6 LRCENGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTE 42 (148)
T ss_pred EecCCCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCe
Confidence 545 7888 667765 346699997553
No 173
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 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 entry consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=53.13 E-value=7 Score=24.65 Aligned_cols=15 Identities=33% Similarity=0.556 Sum_probs=12.4
Q ss_pred hhcCCCCCCcccccc
Q 032682 105 AHKCLSCKSYNTRQT 119 (136)
Q Consensus 105 ~~kC~~C~synt~~~ 119 (136)
.++|++|.|.||+.-
T Consensus 5 ~~~CPRC~S~nTKFc 19 (63)
T PF02701_consen 5 PLPCPRCDSTNTKFC 19 (63)
T ss_pred CCCCCCcCCCCCEEE
Confidence 358999999999864
No 174
>PRK14873 primosome assembly protein PriA; Provisional
Probab=52.65 E-value=9.2 Score=34.49 Aligned_cols=27 Identities=26% Similarity=0.438 Sum_probs=19.2
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
....|+.|+... . ...|++|||-..+.
T Consensus 409 ~~l~Ch~CG~~~-~-----p~~Cp~Cgs~~l~~ 435 (665)
T PRK14873 409 GTPRCRWCGRAA-P-----DWRCPRCGSDRLRA 435 (665)
T ss_pred CeeECCCCcCCC-c-----CccCCCCcCCccee
Confidence 357799999753 2 34899999875443
No 175
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.40 E-value=9.4 Score=27.62 Aligned_cols=23 Identities=26% Similarity=0.606 Sum_probs=16.4
Q ss_pred cHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 33 HTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 33 H~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
..||..|-+.-+ ..||+|..++.
T Consensus 28 eafcskcgeati----~qcp~csasir 50 (160)
T COG4306 28 EAFCSKCGEATI----TQCPICSASIR 50 (160)
T ss_pred HHHHhhhchHHH----hcCCccCCccc
Confidence 467888866543 35999988874
No 176
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=52.10 E-value=10 Score=22.58 Aligned_cols=27 Identities=22% Similarity=0.586 Sum_probs=19.6
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
|.|+.|++... .+..||..|..|..-+
T Consensus 1 i~CdgC~~~~~----~~RykCl~C~d~DlC~ 27 (48)
T cd02343 1 ISCDGCDEIAP----WHRYRCLQCTDMDLCK 27 (48)
T ss_pred CCCCCCCCcCC----CceEECCCCCCchhHH
Confidence 46999997532 2677999998887655
No 177
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=50.79 E-value=26 Score=21.65 Aligned_cols=45 Identities=18% Similarity=0.283 Sum_probs=31.3
Q ss_pred CCcceecCcCccCCccceEEecCC--cHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 9 DNFYNFGLQFIFDTMKDITVLRCG--HTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~~~L~Cg--H~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
..+|-.|-..|-....+. .-|. .+||..|.+..+. ..||-|.-.+
T Consensus 5 rpnCE~C~~dLp~~s~~A--~ICSfECTFC~~C~e~~l~---~~CPNCgGel 51 (57)
T PF06906_consen 5 RPNCECCDKDLPPDSPEA--YICSFECTFCADCAETMLN---GVCPNCGGEL 51 (57)
T ss_pred CCCccccCCCCCCCCCcc--eEEeEeCcccHHHHHHHhc---CcCcCCCCcc
Confidence 357888888863222122 3354 7899999998864 6899998665
No 178
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=50.73 E-value=9.9 Score=30.43 Aligned_cols=29 Identities=28% Similarity=0.710 Sum_probs=22.4
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCCcccccc
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKSYNTRQT 119 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~ 119 (136)
...|..|+-.+.. ....|++|++++|..-
T Consensus 354 ~~~c~~cg~~~~~----~~~~c~~c~~~~~~~~ 382 (389)
T PRK11788 354 RYRCRNCGFTART----LYWHCPSCKAWETIKP 382 (389)
T ss_pred CEECCCCCCCCcc----ceeECcCCCCccCcCC
Confidence 4669999977544 4568999999999763
No 179
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.18 E-value=11 Score=30.26 Aligned_cols=33 Identities=18% Similarity=0.124 Sum_probs=27.9
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH 46 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~ 46 (136)
..|.+|+++ ..+|++.+=||.|++.||.+++..
T Consensus 44 dcCsLtLqP----c~dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 44 DCCSLTLQP----CRDPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred ceeeeeccc----ccCCccCCCCeeeeHHHHHHHHHH
Confidence 569999999 367877888999999999998754
No 180
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=49.88 E-value=9.9 Score=22.41 Aligned_cols=33 Identities=12% Similarity=0.105 Sum_probs=21.6
Q ss_pred CcceecCcCccCCcc-ceEEecCCcHhhHHHHHHH
Q 032682 10 NFYNFGLQFIFDTMK-DITVLRCGHTIHLECLKEM 43 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~-~~~~L~CgH~fh~~Cl~~~ 43 (136)
..|.+|... |.... ...--.||+.||..|....
T Consensus 3 ~~C~~C~~~-F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKP-FTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCcc-ccCCccccccCcCcCCcChHHcCCe
Confidence 578889877 43322 2333478999998887544
No 181
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=49.16 E-value=13 Score=22.86 Aligned_cols=29 Identities=28% Similarity=0.628 Sum_probs=21.5
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcccccc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQT 119 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~ 119 (136)
..+.|..|++.... ..-|+.||-|+.+++
T Consensus 26 ~l~~C~~CG~~~~~-----H~vC~~CG~Y~gr~v 54 (57)
T PRK12286 26 GLVECPNCGEPKLP-----HRVCPSCGYYKGREV 54 (57)
T ss_pred cceECCCCCCccCC-----eEECCCCCcCCCEEe
Confidence 35779999976322 347999999998875
No 182
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=49.13 E-value=11 Score=22.21 Aligned_cols=28 Identities=29% Similarity=0.700 Sum_probs=18.6
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
|.|+.|+.+.-. ..+.+|..|..|+.-+
T Consensus 1 i~C~~C~~~~i~---g~R~~C~~C~d~dlC~ 28 (49)
T cd02338 1 VSCDGCGKSNFT---GRRYKCLICYDYDLCA 28 (49)
T ss_pred CCCCCCcCCCcE---EeeEEeCCCCCCccch
Confidence 468888865433 3566888887777654
No 183
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=48.24 E-value=9.9 Score=27.74 Aligned_cols=18 Identities=28% Similarity=0.255 Sum_probs=15.3
Q ss_pred hcCCCCCCcccccccCCC
Q 032682 106 HKCLSCKSYNTRQTRGDT 123 (136)
Q Consensus 106 ~kC~~C~synt~~~~~~~ 123 (136)
..|++|||-||++++.=+
T Consensus 106 ~~cp~c~s~~t~~~s~fg 123 (146)
T TIGR02159 106 VQCPRCGSADTTITSIFG 123 (146)
T ss_pred CcCCCCCCCCcEeecCCC
Confidence 589999999999997533
No 184
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=46.98 E-value=19 Score=21.40 Aligned_cols=11 Identities=36% Similarity=1.117 Sum_probs=6.0
Q ss_pred CCCCcccccch
Q 032682 50 TCPVCSKSLWD 60 (136)
Q Consensus 50 ~CP~Cr~~~~~ 60 (136)
.||+|+.++..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999999854
No 185
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF15353 HECA: Headcase protein family homologue
Probab=46.39 E-value=16 Score=25.41 Aligned_cols=17 Identities=29% Similarity=0.645 Sum_probs=14.1
Q ss_pred cCCcHhhHHHHHHHHhh
Q 032682 30 RCGHTIHLECLKEMEKH 46 (136)
Q Consensus 30 ~CgH~fh~~Cl~~~~~~ 46 (136)
|.|+.+|.+||+.|-++
T Consensus 39 p~~~~MH~~CF~~wE~~ 55 (107)
T PF15353_consen 39 PFGQYMHRECFEKWEDS 55 (107)
T ss_pred CCCCchHHHHHHHHHHH
Confidence 34899999999999663
No 187
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=44.83 E-value=14 Score=18.88 Aligned_cols=7 Identities=29% Similarity=0.942 Sum_probs=5.0
Q ss_pred hcCCCCC
Q 032682 106 HKCLSCK 112 (136)
Q Consensus 106 ~kC~~C~ 112 (136)
.+|++||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 4788876
No 188
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=44.50 E-value=8.8 Score=30.09 Aligned_cols=24 Identities=13% Similarity=0.057 Sum_probs=15.9
Q ss_pred CcceecCcCccCCccceEEecC--CcHhh
Q 032682 10 NFYNFGLQFIFDTMKDITVLRC--GHTIH 36 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~C--gH~fh 36 (136)
..||+|.+.|.. ....|.| ||.|-
T Consensus 3 ~~CP~C~~~l~~---~~~~~~C~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTL---EENSWICPQNHQFD 28 (272)
T ss_pred ccCCCCCcchhc---CCCEEEcCCCCCCc
Confidence 479999999732 2234545 78883
No 189
>PLN02400 cellulose synthase
Probab=44.49 E-value=18 Score=34.54 Aligned_cols=52 Identities=19% Similarity=0.277 Sum_probs=34.5
Q ss_pred CCCcceecCcCccCCcc-ceEE--ecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 8 NDNFYNFGLQFIFDTMK-DITV--LRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~-~~~~--L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
+...|.||.|.+-.+.. .+.+ --||--.|+.|++-=.+.++..||.|+..+.
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 44589999998632222 2222 2678889999995433336677999987764
No 190
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=44.44 E-value=3.9 Score=24.49 Aligned_cols=33 Identities=15% Similarity=0.186 Sum_probs=20.7
Q ss_pred cce--ecCcCccCC---ccceEEe-cCCcHhhHHHHHHH
Q 032682 11 FYN--FGLQFIFDT---MKDITVL-RCGHTIHLECLKEM 43 (136)
Q Consensus 11 ~Cp--IC~e~lf~~---~~~~~~L-~CgH~fh~~Cl~~~ 43 (136)
-|| =|...+... ....+.- .|||.||..|..+|
T Consensus 20 ~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 20 WCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 377 665554322 1223333 68999999998887
No 191
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=43.98 E-value=16 Score=25.97 Aligned_cols=35 Identities=34% Similarity=0.696 Sum_probs=24.7
Q ss_pred ccCCCCCCCCccchhh-hh-hcCCCCCCcccccccCC
Q 032682 88 ILCNDCGANSHVQFHV-IA-HKCLSCKSYNTRQTRGD 122 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~-~~-~kC~~C~synt~~~~~~ 122 (136)
+-|..|++++.+.+-. .. ..|++|+-||----.|+
T Consensus 1 v~C~fC~~~s~~~~~~~~~~w~C~~C~q~N~f~e~Gd 37 (131)
T PF09779_consen 1 VNCWFCGQNSKVPYDNRNSNWTCPHCEQYNGFDEDGD 37 (131)
T ss_pred CeeccCCCCCCCCCCCCCCeeECCCCCCccCccccCC
Confidence 3588998877665432 22 58999999998776664
No 192
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=43.82 E-value=19 Score=34.26 Aligned_cols=53 Identities=13% Similarity=0.172 Sum_probs=35.6
Q ss_pred CCCCcceecCcCccCCcc-ceEE--ecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 7 VNDNFYNFGLQFIFDTMK-DITV--LRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~-~~~~--L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+...|.||.|.+-.+.. ++.+ --||--.|+.|++-=.+.++..||.|+..+.
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 356789999998532222 2221 2578889999995444446777999987664
No 193
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.67 E-value=12 Score=31.47 Aligned_cols=43 Identities=21% Similarity=0.332 Sum_probs=27.5
Q ss_pred CcceecCcCccCCc--cceEEecCCcHhhHHHHHHHHhhcCCCCCCc
Q 032682 10 NFYNFGLQFIFDTM--KDITVLRCGHTIHLECLKEMEKHYRYTCPVC 54 (136)
Q Consensus 10 ~~CpIC~e~lf~~~--~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~C 54 (136)
..||.|.-.+ +.. -.-++-.|||.||..|..+|... +..|..|
T Consensus 307 r~CpkC~~~i-e~~~GCnhm~CrC~~~fcy~C~~~~~~~-~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMI-ELSEGCNHMTCRCGHQFCYMCGGDWKTH-NGECYEC 351 (384)
T ss_pred CcCcccceee-eecCCcceEEeeccccchhhcCcchhhC-CccccCc
Confidence 4688888663 222 22333469999999999999763 3334333
No 194
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=42.53 E-value=16 Score=21.01 Aligned_cols=27 Identities=30% Similarity=0.806 Sum_probs=18.0
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
+.|+.|++. -. ..+.+|..|..|+.-.
T Consensus 1 v~Cd~C~~~-i~---G~ry~C~~C~d~dLC~ 27 (43)
T cd02340 1 VICDGCQGP-IV---GVRYKCLVCPDYDLCE 27 (43)
T ss_pred CCCCCCCCc-Cc---CCeEECCCCCCccchH
Confidence 468888872 12 3566888888776543
No 195
>PF12773 DZR: Double zinc ribbon
Probab=42.00 E-value=26 Score=20.14 Aligned_cols=22 Identities=32% Similarity=0.709 Sum_probs=11.8
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCC
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCK 112 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~ 112 (136)
.+.|..|+..-.. -...|..||
T Consensus 29 ~~~C~~Cg~~~~~----~~~fC~~CG 50 (50)
T PF12773_consen 29 KKICPNCGAENPP----NAKFCPNCG 50 (50)
T ss_pred CCCCcCCcCCCcC----CcCccCccc
Confidence 5667777765221 233566664
No 196
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=41.95 E-value=8.7 Score=22.53 Aligned_cols=37 Identities=27% Similarity=0.506 Sum_probs=25.0
Q ss_pred ceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 12 YNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 12 CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
|+.|.+.+.. ...++..=|..||..| ++|-.|++.+.
T Consensus 1 C~~C~~~I~~--~~~~~~~~~~~~H~~C---------f~C~~C~~~l~ 37 (58)
T PF00412_consen 1 CARCGKPIYG--TEIVIKAMGKFWHPEC---------FKCSKCGKPLN 37 (58)
T ss_dssp BTTTSSBESS--SSEEEEETTEEEETTT---------SBETTTTCBTT
T ss_pred CCCCCCCccC--cEEEEEeCCcEEEccc---------cccCCCCCccC
Confidence 6678888542 2333235688888877 67889988774
No 197
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=41.79 E-value=16 Score=22.26 Aligned_cols=29 Identities=31% Similarity=0.699 Sum_probs=21.0
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcccccc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQT 119 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~ 119 (136)
..+.|..|++-. . -..-|+.||-|+-+++
T Consensus 25 ~l~~C~~cG~~~--~---~H~vc~~cG~Y~gr~v 53 (55)
T TIGR01031 25 TLVVCPNCGEFK--L---PHRVCPSCGYYKGRQV 53 (55)
T ss_pred cceECCCCCCcc--c---CeeECCccCeECCEEc
Confidence 357799999752 2 2347999999988765
No 198
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=41.42 E-value=16 Score=18.51 Aligned_cols=21 Identities=33% Similarity=0.823 Sum_probs=9.9
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCC
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCK 112 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~ 112 (136)
+.|..|+..-.. -...|++||
T Consensus 3 ~~Cp~Cg~~~~~----~~~fC~~CG 23 (26)
T PF13248_consen 3 MFCPNCGAEIDP----DAKFCPNCG 23 (26)
T ss_pred CCCcccCCcCCc----ccccChhhC
Confidence 346666653111 123566665
No 199
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=41.07 E-value=7.8 Score=31.56 Aligned_cols=7 Identities=57% Similarity=1.550 Sum_probs=5.4
Q ss_pred CCCCccc
Q 032682 50 TCPVCSK 56 (136)
Q Consensus 50 ~CP~Cr~ 56 (136)
.||+|..
T Consensus 187 ~CPvCGS 193 (308)
T COG3058 187 YCPVCGS 193 (308)
T ss_pred cCCCcCC
Confidence 5999953
No 200
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=40.52 E-value=29 Score=19.25 Aligned_cols=36 Identities=11% Similarity=0.258 Sum_probs=23.7
Q ss_pred CCCcceecCcCccCCccceEEecCCcHhhHHHHHHH
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEM 43 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~ 43 (136)
....|.+|.+.|........-..|+=..|.+|....
T Consensus 10 ~~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~v 45 (49)
T smart00109 10 KPTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEKV 45 (49)
T ss_pred CCCCccccccccCcCCCCcCCCCCCchHHHHHHhhc
Confidence 346799999986432223333367888899998653
No 201
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=40.45 E-value=13 Score=30.17 Aligned_cols=53 Identities=19% Similarity=0.313 Sum_probs=33.5
Q ss_pred CcceecCcCccCCcc------ceEEecCCcHhhHHHHHH-HHhhc---------CCCCCCcccccchhhh
Q 032682 10 NFYNFGLQFIFDTMK------DITVLRCGHTIHLECLKE-MEKHY---------RYTCPVCSKSLWDMSK 63 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~------~~~~L~CgH~fh~~Cl~~-~~~~~---------~~~CP~Cr~~~~~~~~ 63 (136)
..|++|-.. +.+.- ....|+|--.+|.+-|.+ |+..+ -+.||.|+|.|.|..+
T Consensus 162 ~~C~~C~K~-YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSN 230 (279)
T KOG2462|consen 162 FSCKYCGKV-YVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSN 230 (279)
T ss_pred ccCCCCCce-eeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHH
Confidence 457777766 33321 112357766676666654 87653 3669999999987554
No 202
>PLN02195 cellulose synthase A
Probab=39.33 E-value=38 Score=32.09 Aligned_cols=53 Identities=13% Similarity=0.079 Sum_probs=35.5
Q ss_pred CCCCcceecCcCccCCc-cceE--EecCCcHhhHHHHHHHHhhcCCCCCCcccccc
Q 032682 7 VNDNFYNFGLQFIFDTM-KDIT--VLRCGHTIHLECLKEMEKHYRYTCPVCSKSLW 59 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~-~~~~--~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~ 59 (136)
.+...|.||.+.+-... -++. .--||--.|+.|++-=.+.++..||.|+..+.
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 45568999999652221 1222 22688999999995444446677999987664
No 203
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 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 entry represents ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=38.84 E-value=16 Score=21.06 Aligned_cols=29 Identities=24% Similarity=0.667 Sum_probs=17.5
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcccc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYNTR 117 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~ 117 (136)
..+.|+.|+..... ..+.+|..|..|+.-
T Consensus 3 ~~~~C~~C~~~~i~---g~Ry~C~~C~d~dLC 31 (46)
T PF00569_consen 3 HGYTCDGCGTDPII---GVRYHCLVCPDYDLC 31 (46)
T ss_dssp SSCE-SSS-SSSEE---SSEEEESSSSS-EEE
T ss_pred CCeECcCCCCCcCc---CCeEECCCCCCCchh
Confidence 35789999974322 256688888888754
No 204
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=38.12 E-value=21 Score=21.79 Aligned_cols=14 Identities=29% Similarity=0.798 Sum_probs=7.4
Q ss_pred CCCCCcccccchhh
Q 032682 49 YTCPVCSKSLWDMS 62 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~ 62 (136)
-+||+|...+....
T Consensus 25 atCP~C~a~~~~sr 38 (54)
T PF09237_consen 25 ATCPICGAVIRQSR 38 (54)
T ss_dssp EE-TTT--EESSHH
T ss_pred CCCCcchhhccchh
Confidence 35999988876433
No 205
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=37.83 E-value=5.4 Score=24.68 Aligned_cols=33 Identities=12% Similarity=0.234 Sum_probs=14.7
Q ss_pred CCcceecCcCccCCccce-EEecCCcHhhHHHHHH
Q 032682 9 DNFYNFGLQFIFDTMKDI-TVLRCGHTIHLECLKE 42 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~~-~~L~CgH~fh~~Cl~~ 42 (136)
...|.+|... |.-...- .--.||+.||..|...
T Consensus 9 ~~~C~~C~~~-F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 9 ASNCMICGKK-FSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp -SB-TTT--B--BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCcCcCcCCc-CCCceeeEccCCCCCEECCchhCC
Confidence 4789999998 6433222 2236888888777543
No 206
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=35.98 E-value=20 Score=19.51 Aligned_cols=27 Identities=30% Similarity=0.540 Sum_probs=15.0
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCC
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKS 113 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~s 113 (136)
...|..|+....+..-.-++.|..|++
T Consensus 3 ~~~C~~C~~~~i~~~~~~~~~C~~Cg~ 29 (33)
T PF08792_consen 3 LKKCSKCGGNGIVNKEDDYEVCIFCGS 29 (33)
T ss_pred ceEcCCCCCCeEEEecCCeEEcccCCc
Confidence 456777776543311234557777774
No 207
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=35.84 E-value=26 Score=21.21 Aligned_cols=29 Identities=31% Similarity=0.654 Sum_probs=20.8
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcccccc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQT 119 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~ 119 (136)
..+.|..|++-. . -..-|+.||-|+.+++
T Consensus 25 ~l~~c~~cg~~~--~---~H~vc~~cG~y~~r~v 53 (56)
T PF01783_consen 25 NLVKCPNCGEPK--L---PHRVCPSCGYYKGRQV 53 (56)
T ss_dssp SEEESSSSSSEE--S---TTSBCTTTBBSSSSSS
T ss_pred ceeeeccCCCEe--c---ccEeeCCCCeECCEEE
Confidence 457899999642 2 2357899998888764
No 208
>COG5132 BUD31 Cell cycle control protein, G10 family [Transcription / Cell division and chromosome partitioning]
Probab=35.77 E-value=15 Score=26.26 Aligned_cols=21 Identities=29% Similarity=0.749 Sum_probs=10.0
Q ss_pred hHHHHHHHHhhcCCCCCCcccc
Q 032682 36 HLECLKEMEKHYRYTCPVCSKS 57 (136)
Q Consensus 36 h~~Cl~~~~~~~~~~CP~Cr~~ 57 (136)
|.+||+.--+...++| +||.+
T Consensus 102 CLRCIQ~~esk~GstC-ICRVP 122 (146)
T COG5132 102 CLRCIQPIESKHGSTC-ICRVP 122 (146)
T ss_pred hHhhcCcccccCCCEE-EEeCc
Confidence 4555555433334455 55533
No 209
>PRK01343 zinc-binding protein; Provisional
Probab=35.19 E-value=21 Score=22.12 Aligned_cols=11 Identities=36% Similarity=0.869 Sum_probs=9.0
Q ss_pred CCCCCCccccc
Q 032682 48 RYTCPVCSKSL 58 (136)
Q Consensus 48 ~~~CP~Cr~~~ 58 (136)
..+||+|++.+
T Consensus 9 ~~~CP~C~k~~ 19 (57)
T PRK01343 9 TRPCPECGKPS 19 (57)
T ss_pred CCcCCCCCCcC
Confidence 46799999876
No 210
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=34.82 E-value=27 Score=17.49 Aligned_cols=14 Identities=21% Similarity=0.607 Sum_probs=10.4
Q ss_pred CCCCCcccccchhh
Q 032682 49 YTCPVCSKSLWDMS 62 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~ 62 (136)
+.|.+|.+.+.+..
T Consensus 2 ~~C~~C~k~f~~~~ 15 (27)
T PF12171_consen 2 FYCDACDKYFSSEN 15 (27)
T ss_dssp CBBTTTTBBBSSHH
T ss_pred CCcccCCCCcCCHH
Confidence 67999988886543
No 211
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=34.78 E-value=20 Score=22.50 Aligned_cols=11 Identities=36% Similarity=1.078 Sum_probs=9.0
Q ss_pred CCCCCCccccc
Q 032682 48 RYTCPVCSKSL 58 (136)
Q Consensus 48 ~~~CP~Cr~~~ 58 (136)
..+||+|++.+
T Consensus 6 ~v~CP~C~k~~ 16 (62)
T PRK00418 6 TVNCPTCGKPV 16 (62)
T ss_pred cccCCCCCCcc
Confidence 35799999986
No 212
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=34.14 E-value=19 Score=20.42 Aligned_cols=8 Identities=38% Similarity=0.808 Sum_probs=4.5
Q ss_pred hcCCCCCC
Q 032682 106 HKCLSCKS 113 (136)
Q Consensus 106 ~kC~~C~s 113 (136)
..|+.||+
T Consensus 27 ~~CP~Cg~ 34 (42)
T PF09723_consen 27 VPCPECGS 34 (42)
T ss_pred CcCCCCCC
Confidence 35666665
No 213
>smart00355 ZnF_C2H2 zinc finger.
Probab=33.90 E-value=42 Score=15.45 Aligned_cols=14 Identities=43% Similarity=0.921 Sum_probs=9.4
Q ss_pred CCCCCcccccchhh
Q 032682 49 YTCPVCSKSLWDMS 62 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~ 62 (136)
+.|+.|.+.+....
T Consensus 1 ~~C~~C~~~f~~~~ 14 (26)
T smart00355 1 YRCPECGKVFKSKS 14 (26)
T ss_pred CCCCCCcchhCCHH
Confidence 36888887775433
No 214
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=33.43 E-value=34 Score=29.33 Aligned_cols=34 Identities=18% Similarity=0.398 Sum_probs=23.9
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCC-Cccccccc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCK-SYNTRQTR 120 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~-synt~~~~ 120 (136)
.+..|..|+.+-...=-. |.+|++|| .+++..+.
T Consensus 349 ~~p~Cp~Cg~~m~S~G~~-g~rC~kCg~~~~~~~~~ 383 (421)
T COG1571 349 VNPVCPRCGGRMKSAGRN-GFRCKKCGTRARETLIK 383 (421)
T ss_pred cCCCCCccCCchhhcCCC-CcccccccccCCccccc
Confidence 467999999763321112 77999999 78877765
No 215
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=33.10 E-value=17 Score=22.74 Aligned_cols=15 Identities=40% Similarity=0.753 Sum_probs=11.9
Q ss_pred cceEEecCCcHhhHH
Q 032682 24 KDITVLRCGHTIHLE 38 (136)
Q Consensus 24 ~~~~~L~CgH~fh~~ 38 (136)
.-+..|.|||+-|.+
T Consensus 10 hWVA~L~CGH~QHvR 24 (61)
T PF12088_consen 10 HWVAELSCGHTQHVR 24 (61)
T ss_pred CEEEEeccccccccc
Confidence 456789999998865
No 216
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=32.77 E-value=29 Score=19.09 Aligned_cols=10 Identities=40% Similarity=1.002 Sum_probs=7.2
Q ss_pred CCCCCccccc
Q 032682 49 YTCPVCSKSL 58 (136)
Q Consensus 49 ~~CP~Cr~~~ 58 (136)
..||.|++.+
T Consensus 3 i~Cp~C~~~y 12 (36)
T PF13717_consen 3 ITCPNCQAKY 12 (36)
T ss_pred EECCCCCCEE
Confidence 3588887665
No 217
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=32.45 E-value=26 Score=17.41 Aligned_cols=7 Identities=57% Similarity=1.626 Sum_probs=3.6
Q ss_pred CCCCCCC
Q 032682 90 CNDCGAN 96 (136)
Q Consensus 90 C~~C~~~ 96 (136)
|..|+.+
T Consensus 2 Cp~CG~~ 8 (23)
T PF13240_consen 2 CPNCGAE 8 (23)
T ss_pred CcccCCC
Confidence 5555544
No 218
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=32.38 E-value=24 Score=19.23 Aligned_cols=10 Identities=30% Similarity=1.055 Sum_probs=4.5
Q ss_pred CCCCCccccc
Q 032682 49 YTCPVCSKSL 58 (136)
Q Consensus 49 ~~CP~Cr~~~ 58 (136)
++||.|.+.+
T Consensus 6 y~C~~Cg~~f 15 (41)
T smart00834 6 YRCEDCGHTF 15 (41)
T ss_pred EEcCCCCCEE
Confidence 3455554433
No 219
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=32.26 E-value=45 Score=20.17 Aligned_cols=30 Identities=23% Similarity=0.624 Sum_probs=18.3
Q ss_pred ccccCCCCCCCC----ccchhhhhhcCCCCCCcc
Q 032682 86 VWILCNDCGANS----HVQFHVIAHKCLSCKSYN 115 (136)
Q Consensus 86 ~~i~C~~C~~~~----~~~~h~~~~kC~~C~syn 115 (136)
-.++|..|..-. ...+..+..+|+.|+.+|
T Consensus 21 ~aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 21 YALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred eeEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 356698886421 122223556899999876
No 220
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=32.24 E-value=6.3 Score=31.51 Aligned_cols=45 Identities=16% Similarity=0.136 Sum_probs=18.0
Q ss_pred CCCcceecCcCccCCccceEEecC---C--cHhhHHHHHHHHhhcCCCCCCcccc
Q 032682 8 NDNFYNFGLQFIFDTMKDITVLRC---G--HTIHLECLKEMEKHYRYTCPVCSKS 57 (136)
Q Consensus 8 ~~~~CpIC~e~lf~~~~~~~~L~C---g--H~fh~~Cl~~~~~~~~~~CP~Cr~~ 57 (136)
..+.||||... ..-.++..= | |.+|.-|-.+|-. ....||.|..+
T Consensus 171 ~~g~CPvCGs~----P~~s~l~~~~~~G~R~L~Cs~C~t~W~~-~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSP----PVLSVLRGGEREGKRYLHCSLCGTEWRF-VRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT-------EEEEEEE------EEEEEETTT--EEE---TTS-TTT---
T ss_pred cCCcCCCCCCc----CceEEEecCCCCccEEEEcCCCCCeeee-cCCCCcCCCCC
Confidence 45899999875 111111111 2 5566678888854 46789999644
No 221
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=32.11 E-value=33 Score=24.75 Aligned_cols=25 Identities=24% Similarity=0.501 Sum_probs=18.3
Q ss_pred cCCCCCCCCccchhhhhhcCCCCCC
Q 032682 89 LCNDCGANSHVQFHVIAHKCLSCKS 113 (136)
Q Consensus 89 ~C~~C~~~~~~~~h~~~~kC~~C~s 113 (136)
.|..|+.......--|-.-|+.||+
T Consensus 3 ~Ct~Cg~~f~dgs~eil~GCP~CGg 27 (131)
T PF09845_consen 3 QCTKCGRVFEDGSKEILSGCPECGG 27 (131)
T ss_pred ccCcCCCCcCCCcHHHHccCcccCC
Confidence 4888888766555457778999984
No 222
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=31.95 E-value=33 Score=18.34 Aligned_cols=10 Identities=40% Similarity=1.252 Sum_probs=7.3
Q ss_pred CCCCCCcccc
Q 032682 48 RYTCPVCSKS 57 (136)
Q Consensus 48 ~~~CP~Cr~~ 57 (136)
...||+|...
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 4679999654
No 223
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=31.76 E-value=23 Score=28.37 Aligned_cols=45 Identities=18% Similarity=0.324 Sum_probs=30.9
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhh-cCCCCCCcccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKH-YRYTCPVCSKS 57 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~-~~~~CP~Cr~~ 57 (136)
+.|||=..++ ..+++.-.|||.|-+.-+.+++.. ...+||+=..+
T Consensus 177 ~rdPis~~~I---~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 177 NRDPISKKPI---VNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred ccCchhhhhh---hchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 5688877664 223344589999999999998763 24569974444
No 224
>PF12387 Peptidase_C74: Pestivirus NS2 peptidase; InterPro: IPR022120 The pestivirus NS2 peptidase is responsible for single cleavage between NS2 and NS3 of the Bovine viral diarrhea virus 1 polyprotein, a cleavage that is correlated with cytopathogenicity []. The peptidase is activated by its interaction with 'J-domain protein interacting with viral protein' - Jiv. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0016817 hydrolase activity, acting on acid anhydrides, 0017111 nucleoside-triphosphatase activity, 0070008 serine-type exopeptidase activity
Probab=31.17 E-value=20 Score=27.22 Aligned_cols=29 Identities=21% Similarity=0.399 Sum_probs=22.1
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
+.-|+|..|..+. |-+-.|++||++..-.
T Consensus 160 ~hcilCtvCe~r~-----w~g~~CPKCGr~G~pi 188 (200)
T PF12387_consen 160 KHCILCTVCEGRE-----WKGGNCPKCGRHGKPI 188 (200)
T ss_pred CceEEEeeeecCc-----cCCCCCCcccCCCCCe
Confidence 4569999999875 4456899999886543
No 225
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=31.09 E-value=68 Score=23.45 Aligned_cols=26 Identities=35% Similarity=0.681 Sum_probs=14.0
Q ss_pred cCCCCCCcccccc--hhhhHHHhhHHHH
Q 032682 47 YRYTCPVCSKSLW--DMSKLWSKIDQEI 72 (136)
Q Consensus 47 ~~~~CP~Cr~~~~--~~~~~~~~l~~~~ 72 (136)
..+.||.|...+. +.+.....|++.+
T Consensus 127 ~~F~Cp~Cg~~L~~~dn~~~i~~l~~~i 154 (158)
T TIGR00373 127 LNFTCPRCGAMLDYLDNSEAIEKLEEQI 154 (158)
T ss_pred cCCcCCCCCCEeeeccCHHHHHHHHHHH
Confidence 3577888877763 2333334444433
No 226
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=31.01 E-value=15 Score=25.48 Aligned_cols=50 Identities=18% Similarity=0.282 Sum_probs=29.3
Q ss_pred CCCcceecCcCc-cCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccc
Q 032682 8 NDNFYNFGLQFI-FDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKS 57 (136)
Q Consensus 8 ~~~~CpIC~e~l-f~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~ 57 (136)
++..|.+|...+ |.......-..|+|.+|.+|-..--......|-+|++.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHHH
Confidence 567899999863 12223445568999999999544101122348888654
No 227
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.87 E-value=78 Score=20.69 Aligned_cols=44 Identities=18% Similarity=0.237 Sum_probs=30.4
Q ss_pred CcceecCcCccCCccceEEecC--CcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRC--GHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~C--gH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
.+|--|-.+|-....+. +-| -|+||..|.+.-+. -.||-|.-.+
T Consensus 6 PnCECCDrDLpp~s~dA--~ICtfEcTFCadCae~~l~---g~CPnCGGel 51 (84)
T COG3813 6 PNCECCDRDLPPDSTDA--RICTFECTFCADCAENRLH---GLCPNCGGEL 51 (84)
T ss_pred CCCcccCCCCCCCCCce--eEEEEeeehhHhHHHHhhc---CcCCCCCchh
Confidence 56777777763333333 335 49999999987654 5799998766
No 228
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=30.75 E-value=39 Score=19.93 Aligned_cols=27 Identities=22% Similarity=0.608 Sum_probs=18.3
Q ss_pred cCCCCCCCCccchhhhhhcCCCCC--Cccccc
Q 032682 89 LCNDCGANSHVQFHVIAHKCLSCK--SYNTRQ 118 (136)
Q Consensus 89 ~C~~C~~~~~~~~h~~~~kC~~C~--synt~~ 118 (136)
.|+.|+...-+ .++.+|..|. .|..-+
T Consensus 2 ~Cd~C~~~pI~---G~R~~C~~C~~~d~DlC~ 30 (48)
T cd02341 2 KCDSCGIEPIP---GTRYHCSECDDGDFDLCQ 30 (48)
T ss_pred CCCCCCCCccc---cceEECCCCCCCCCccCH
Confidence 48888874433 3566888888 777654
No 229
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=30.35 E-value=46 Score=31.13 Aligned_cols=49 Identities=10% Similarity=0.078 Sum_probs=31.6
Q ss_pred CCcceecCcCccCCccc-eEEe---cCCcHhhHHHHHHHHhh-----cCCCCCCccccc
Q 032682 9 DNFYNFGLQFIFDTMKD-ITVL---RCGHTIHLECLKEMEKH-----YRYTCPVCSKSL 58 (136)
Q Consensus 9 ~~~CpIC~e~lf~~~~~-~~~L---~CgH~fh~~Cl~~~~~~-----~~~~CP~Cr~~~ 58 (136)
...|++|.-. |.+..+ .-.+ .|+|.+|-.||..|... ..-.|+.|..-|
T Consensus 96 s~Ss~~C~~E-~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKE-HSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhhee-cCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 3568888877 333111 1123 49999999999999875 233477776554
No 230
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=29.32 E-value=26 Score=16.91 Aligned_cols=15 Identities=27% Similarity=0.735 Sum_probs=10.1
Q ss_pred CCCCCcccccchhhh
Q 032682 49 YTCPVCSKSLWDMSK 63 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~~ 63 (136)
+.|.+|.+.+.+...
T Consensus 1 ~~C~~C~~~f~s~~~ 15 (25)
T PF12874_consen 1 FYCDICNKSFSSENS 15 (25)
T ss_dssp EEETTTTEEESSHHH
T ss_pred CCCCCCCCCcCCHHH
Confidence 358888888765443
No 231
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=28.85 E-value=44 Score=20.50 Aligned_cols=21 Identities=24% Similarity=0.675 Sum_probs=11.0
Q ss_pred ccCCCCCCCCccchhhhhhcCCCCCCc
Q 032682 88 ILCNDCGANSHVQFHVIAHKCLSCKSY 114 (136)
Q Consensus 88 i~C~~C~~~~~~~~h~~~~kC~~C~sy 114 (136)
..|..|+.-. +...|+.||+-
T Consensus 6 r~C~~CgvYT------Lk~~CP~CG~~ 26 (56)
T PRK13130 6 RKCPKCGVYT------LKEICPVCGGK 26 (56)
T ss_pred eECCCCCCEE------ccccCcCCCCC
Confidence 3466665321 34456666654
No 232
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=28.82 E-value=26 Score=23.69 Aligned_cols=39 Identities=15% Similarity=0.294 Sum_probs=26.2
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccchhh
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWDMS 62 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 62 (136)
..|-||-..+. .=||.||..|.. ..-.|.+|.+.+.|..
T Consensus 45 ~~C~~CK~~v~---------q~g~~YCq~CAY-----kkGiCamCGKki~dtk 83 (90)
T PF10235_consen 45 SKCKICKTKVH---------QPGAKYCQTCAY-----KKGICAMCGKKILDTK 83 (90)
T ss_pred ccccccccccc---------cCCCccChhhhc-----ccCcccccCCeecccc
Confidence 45777765531 127899999942 2356999999986644
No 233
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=28.59 E-value=16 Score=18.43 Aligned_cols=11 Identities=55% Similarity=1.340 Sum_probs=8.8
Q ss_pred CCCCCCccccc
Q 032682 48 RYTCPVCSKSL 58 (136)
Q Consensus 48 ~~~CP~Cr~~~ 58 (136)
.+.||.|.+.+
T Consensus 14 ~~~C~~C~k~F 24 (26)
T PF13465_consen 14 PYKCPYCGKSF 24 (26)
T ss_dssp SEEESSSSEEE
T ss_pred CCCCCCCcCee
Confidence 46799998876
No 234
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=28.48 E-value=24 Score=22.00 Aligned_cols=30 Identities=30% Similarity=0.711 Sum_probs=18.3
Q ss_pred ccccccCCCCCCCCccchh-hhhhcCCCCCC
Q 032682 84 KMVWILCNDCGANSHVQFH-VIAHKCLSCKS 113 (136)
Q Consensus 84 ~~~~i~C~~C~~~~~~~~h-~~~~kC~~C~s 113 (136)
....+.|.+|+....+..| ..-.+|..||.
T Consensus 8 ~F~~VkCp~C~n~q~vFsha~t~V~C~~Cg~ 38 (59)
T PRK00415 8 RFLKVKCPDCGNEQVVFSHASTVVRCLVCGK 38 (59)
T ss_pred eEEEEECCCCCCeEEEEecCCcEEECcccCC
Confidence 3457888999876544333 12346777764
No 235
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=28.36 E-value=41 Score=21.50 Aligned_cols=13 Identities=15% Similarity=0.348 Sum_probs=9.1
Q ss_pred HhhHHHHHHHHhh
Q 032682 34 TIHLECLKEMEKH 46 (136)
Q Consensus 34 ~fh~~Cl~~~~~~ 46 (136)
.||+.||-+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999754
No 236
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=28.14 E-value=21 Score=22.04 Aligned_cols=11 Identities=36% Similarity=1.036 Sum_probs=6.0
Q ss_pred CCCCCcccccc
Q 032682 49 YTCPVCSKSLW 59 (136)
Q Consensus 49 ~~CP~Cr~~~~ 59 (136)
.+||+|++.+.
T Consensus 3 v~CP~C~k~~~ 13 (57)
T PF03884_consen 3 VKCPICGKPVE 13 (57)
T ss_dssp EE-TTT--EEE
T ss_pred ccCCCCCCeec
Confidence 46999998873
No 237
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=28.11 E-value=34 Score=20.79 Aligned_cols=10 Identities=30% Similarity=1.188 Sum_probs=7.8
Q ss_pred CCCCCccccc
Q 032682 49 YTCPVCSKSL 58 (136)
Q Consensus 49 ~~CP~Cr~~~ 58 (136)
+.||.|...+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 5799998765
No 238
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=28.07 E-value=84 Score=23.50 Aligned_cols=13 Identities=38% Similarity=1.043 Sum_probs=10.5
Q ss_pred cCCCCCCcccccc
Q 032682 47 YRYTCPVCSKSLW 59 (136)
Q Consensus 47 ~~~~CP~Cr~~~~ 59 (136)
..+.||.|...+.
T Consensus 135 ~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 135 YGFRCPQCGEMLE 147 (178)
T ss_pred cCCcCCCCCCCCe
Confidence 4689999988874
No 239
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=27.77 E-value=48 Score=19.30 Aligned_cols=27 Identities=22% Similarity=0.566 Sum_probs=15.3
Q ss_pred cCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 89 LCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 89 ~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
.|+.|.+.... ..+.+|..|..|+.-+
T Consensus 2 ~Cd~C~~~~~~---g~r~~C~~C~d~dLC~ 28 (49)
T cd02335 2 HCDYCSKDITG---TIRIKCAECPDFDLCL 28 (49)
T ss_pred CCCCcCCCCCC---CcEEECCCCCCcchhH
Confidence 37777764322 2455777776665544
No 240
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.60 E-value=46 Score=30.27 Aligned_cols=46 Identities=17% Similarity=0.347 Sum_probs=32.5
Q ss_pred CcceecCcCccCCccceEEecCCc-HhhHHHHHHHHhh-c----CCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGH-TIHLECLKEMEKH-Y----RYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH-~fh~~Cl~~~~~~-~----~~~CP~Cr~~~~ 59 (136)
..|+||-..+ .-+..-.||| ..+.+|..+.... . ...||+||..+.
T Consensus 1 ~~c~ic~~s~----~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 1 DSCAICAFSP----DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CCcceeecCc----cccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 3699998762 3344458999 9999999886433 2 344899998663
No 241
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=27.28 E-value=59 Score=27.35 Aligned_cols=47 Identities=21% Similarity=0.591 Sum_probs=34.7
Q ss_pred CCCCcccccchhhhHHHhhHHHHhcCCCChhhhcccccccC--CCCCCCCccc
Q 032682 50 TCPVCSKSLWDMSKLWSKIDQEIASTPMPAMYQNKMVWILC--NDCGANSHVQ 100 (136)
Q Consensus 50 ~CP~Cr~~~~~~~~~~~~l~~~~~~~~~p~~~~~~~~~i~C--~~C~~~~~~~ 100 (136)
.||-|++...|.......+++.+....+| ++ .+..-| |.|++.....
T Consensus 270 sCPgCgR~~~D~~~la~~vee~~~~~~~P--lk--IAVmGC~VNgpGEa~~aD 318 (360)
T PRK00366 270 SCPTCGRTEFDVIQELAEVEQRLEHIKMP--LK--VAVMGCVVNGPGEAKEAD 318 (360)
T ss_pred ECCCCCCCcccHHHHHHHHHHHhcCCCCC--cE--EEEeCCCCCCCCchhhCc
Confidence 49999999888888888888888877766 22 345668 7887765443
No 242
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=27.07 E-value=31 Score=21.49 Aligned_cols=14 Identities=29% Similarity=0.833 Sum_probs=6.7
Q ss_pred hhhcCCCCCCcccc
Q 032682 104 IAHKCLSCKSYNTR 117 (136)
Q Consensus 104 ~~~kC~~C~synt~ 117 (136)
+..+|+.|+.|...
T Consensus 4 ~~rkC~~cg~YTLk 17 (59)
T COG2260 4 LIRKCPKCGRYTLK 17 (59)
T ss_pred hhhcCcCCCceeec
Confidence 44455555555444
No 243
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 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 entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=26.95 E-value=33 Score=17.74 Aligned_cols=16 Identities=25% Similarity=0.443 Sum_probs=8.8
Q ss_pred hhcCCCCCCccccccc
Q 032682 105 AHKCLSCKSYNTRQTR 120 (136)
Q Consensus 105 ~~kC~~C~synt~~~~ 120 (136)
|.+|++|+.+-..+..
T Consensus 1 G~~C~rC~~~~~~~~~ 16 (30)
T PF06827_consen 1 GEKCPRCWNYIEDIGI 16 (30)
T ss_dssp TSB-TTT--BBEEEEE
T ss_pred CCcCccCCCcceEeEe
Confidence 5689999988655543
No 244
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=26.87 E-value=29 Score=30.88 Aligned_cols=36 Identities=25% Similarity=0.373 Sum_probs=24.4
Q ss_pred CCCCcceecCcCccCC----------ccceEEecCCcHhhHHHHHHH
Q 032682 7 VNDNFYNFGLQFIFDT----------MKDITVLRCGHTIHLECLKEM 43 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~----------~~~~~~L~CgH~fh~~Cl~~~ 43 (136)
.....|+||.|. |+. .++.+.+.=|-.||..|+.+-
T Consensus 511 e~~~~C~IC~Ek-Fe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEK-FEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccc-cceeecchhhheeecceeeeccCceeeccccchH
Confidence 344679999999 543 124444545788899988664
No 245
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=26.50 E-value=37 Score=28.84 Aligned_cols=50 Identities=20% Similarity=0.327 Sum_probs=32.7
Q ss_pred CcceecCcCccCCcc-------ceEEecCCcHhhHHHHHHHHhh-----------cCCCCCCcccccch
Q 032682 10 NFYNFGLQFIFDTMK-------DITVLRCGHTIHLECLKEMEKH-----------YRYTCPVCSKSLWD 60 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~-------~~~~L~CgH~fh~~Cl~~~~~~-----------~~~~CP~Cr~~~~~ 60 (136)
..||-|.+. |.... ....|.=.|.-|..|.+.+... ..++||+|......
T Consensus 208 vACp~Cg~~-F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~ 275 (467)
T KOG3608|consen 208 VACPHCGEL-FRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSS 275 (467)
T ss_pred EecchHHHH-hccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCC
Confidence 459999887 54322 1223444588888898876542 36889999876643
No 246
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=26.43 E-value=27 Score=17.19 Aligned_cols=15 Identities=27% Similarity=0.762 Sum_probs=10.2
Q ss_pred CCCCCcccccchhhh
Q 032682 49 YTCPVCSKSLWDMSK 63 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~~ 63 (136)
+.|..|++.|.+...
T Consensus 2 ~~C~~C~~~F~~~~~ 16 (27)
T PF13912_consen 2 FECDECGKTFSSLSA 16 (27)
T ss_dssp EEETTTTEEESSHHH
T ss_pred CCCCccCCccCChhH
Confidence 468888888765443
No 247
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=26.25 E-value=40 Score=22.89 Aligned_cols=43 Identities=21% Similarity=0.312 Sum_probs=25.4
Q ss_pred ceecCc-CccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccccchh
Q 032682 12 YNFGLQ-FIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSLWDM 61 (136)
Q Consensus 12 CpIC~e-~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~~~~ 61 (136)
|++|.+ .+..........-.|+.+-. ......||.|...+.+.
T Consensus 1 C~~C~~~~~~~~~~~~~~~~~G~~~~v-------~~~~~~C~~CGe~~~~~ 44 (127)
T TIGR03830 1 CPICGSGELVRDVKDEPYTYKGESITI-------GVPGWYCPACGEELLDP 44 (127)
T ss_pred CCCCCCccceeeeecceEEEcCEEEEE-------eeeeeECCCCCCEEEcH
Confidence 899984 44333333333356766522 12456799999888653
No 248
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=26.25 E-value=23 Score=29.74 Aligned_cols=32 Identities=25% Similarity=0.614 Sum_probs=24.1
Q ss_pred ccccccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 84 KMVWILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 84 ~~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
....|.|+.|++..-. +-..||.+|..|....
T Consensus 5 rHe~v~CdgC~k~~~t---~rrYkCL~C~DyDlC~ 36 (381)
T KOG1280|consen 5 RHEGVSCDGCGKTAFT---FRRYKCLRCSDYDLCF 36 (381)
T ss_pred CcCCceecccccccee---eeeeEeeeecchhHHH
Confidence 3457899999986422 3677999999997655
No 249
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=26.02 E-value=39 Score=18.30 Aligned_cols=6 Identities=33% Similarity=1.248 Sum_probs=2.7
Q ss_pred cCCCCC
Q 032682 107 KCLSCK 112 (136)
Q Consensus 107 kC~~C~ 112 (136)
+|+.||
T Consensus 19 rC~~CG 24 (32)
T PF03604_consen 19 RCPECG 24 (32)
T ss_dssp SBSSSS
T ss_pred ECCcCC
Confidence 444444
No 250
>KOG2079 consensus Vacuolar assembly/sorting protein VPS8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.84 E-value=46 Score=31.96 Aligned_cols=44 Identities=20% Similarity=0.475 Sum_probs=34.4
Q ss_pred CCCCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCC
Q 032682 5 LNVNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCP 52 (136)
Q Consensus 5 ~~~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP 52 (136)
+-+....|.+|.+.+....++...+.|||.-|.+|..... .+||
T Consensus 1129 ~~iht~~c~~c~q~~~~h~~~~~Fl~wgh~qh~qc~~~~d----~~c~ 1172 (1206)
T KOG2079|consen 1129 WSIHTDDCEICGQKIWAHLDPLLFLAWGHVQHHQCMISVD----LKCP 1172 (1206)
T ss_pred ceecCcchHhhhhhhhccCcchheeeccchhhHHHHHHHh----hcCC
Confidence 3455688999999987666666777899999999987654 3576
No 251
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=25.41 E-value=23 Score=18.73 Aligned_cols=24 Identities=33% Similarity=0.701 Sum_probs=7.9
Q ss_pred cCCCCCCCCccchhhhhhcCCCCC
Q 032682 89 LCNDCGANSHVQFHVIAHKCLSCK 112 (136)
Q Consensus 89 ~C~~C~~~~~~~~h~~~~kC~~C~ 112 (136)
+|--|+...........+.|+.|+
T Consensus 5 fC~~CG~~t~~~~~g~~r~C~~Cg 28 (32)
T PF09297_consen 5 FCGRCGAPTKPAPGGWARRCPSCG 28 (32)
T ss_dssp B-TTT--BEEE-SSSS-EEESSSS
T ss_pred ccCcCCccccCCCCcCEeECCCCc
Confidence 344444433222222344555555
No 252
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=25.01 E-value=39 Score=20.10 Aligned_cols=23 Identities=26% Similarity=0.726 Sum_probs=11.7
Q ss_pred cCCCCCCCCccchhhhhhcCCCCC
Q 032682 89 LCNDCGANSHVQFHVIAHKCLSCK 112 (136)
Q Consensus 89 ~C~~C~~~~~~~~h~~~~kC~~C~ 112 (136)
.|..|+.. -...|.-.++|..|+
T Consensus 22 fCP~Cg~~-~m~~~~~r~~C~~Cg 44 (50)
T PRK00432 22 FCPRCGSG-FMAEHLDRWHCGKCG 44 (50)
T ss_pred cCcCCCcc-hheccCCcEECCCcC
Confidence 55555543 333344455666665
No 253
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=24.81 E-value=53 Score=27.49 Aligned_cols=23 Identities=26% Similarity=0.472 Sum_probs=10.9
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCC
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCK 112 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~ 112 (136)
.-.|-.|++..... .+..|..|.
T Consensus 330 ~~~Cf~C~~~~~~~---~~y~C~~Ck 352 (378)
T KOG2807|consen 330 SRFCFACQGELLSS---GRYRCESCK 352 (378)
T ss_pred CcceeeeccccCCC---CcEEchhcc
Confidence 34477774432221 334555555
No 254
>PF09567 RE_MamI: MamI restriction endonuclease; InterPro: IPR019067 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the MamI restriction endonuclease which recognises and cleaves GATNN^NNATC. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=24.64 E-value=38 Score=27.33 Aligned_cols=28 Identities=39% Similarity=0.790 Sum_probs=21.2
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
.-.|++|+.. |.. +-..|++|+|-|...
T Consensus 82 l~~C~~CGa~--V~~--~e~~Cp~C~StnI~r 109 (314)
T PF09567_consen 82 LGKCNNCGAN--VSR--LEESCPNCGSTNIKR 109 (314)
T ss_pred hhhhccccce--eee--hhhcCCCCCcccccc
Confidence 5679999976 432 667899999987544
No 255
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=24.57 E-value=25 Score=34.73 Aligned_cols=18 Identities=39% Similarity=0.901 Sum_probs=14.8
Q ss_pred EecCCcHhhHHHHHHHHh
Q 032682 28 VLRCGHTIHLECLKEMEK 45 (136)
Q Consensus 28 ~L~CgH~fh~~Cl~~~~~ 45 (136)
+.+|||.||+.|+.-+..
T Consensus 878 ~~~C~Hsl~rD~L~ffgf 895 (1598)
T KOG0230|consen 878 VASCGHSLHRDCLRFFGF 895 (1598)
T ss_pred ccCCcchhhhhhhhhccc
Confidence 347999999999987754
No 256
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.52 E-value=31 Score=30.16 Aligned_cols=43 Identities=19% Similarity=0.465 Sum_probs=31.5
Q ss_pred CCCCcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
.....|.+|.+.+ ..+..+|. |..|+.+|+. .+..||.|++.+
T Consensus 477 ~~~~~~~~~~~~~-----~~~~~~~~---~~~~l~~~~~-~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 477 EPNDVCAICYQEM-----SARITPCS---HALCLRKWLY-VQEVCPLCHTYM 519 (543)
T ss_pred cccCcchHHHHHH-----Hhcccccc---chhHHHhhhh-hccccCCCchhh
Confidence 3457799999884 22334666 8889999987 467899998765
No 257
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=24.47 E-value=57 Score=18.48 Aligned_cols=28 Identities=32% Similarity=0.709 Sum_probs=18.3
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCCccccc
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKSYNTRQ 118 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~ 118 (136)
.+.|+.|+. ... ....+|..|..|+.-.
T Consensus 4 ~~~C~~C~~-~i~---g~ry~C~~C~d~dlC~ 31 (44)
T smart00291 4 SYSCDTCGK-PIV---GVRYHCLVCPDYDLCQ 31 (44)
T ss_pred CcCCCCCCC-CCc---CCEEECCCCCCccchH
Confidence 567999987 222 2445888888776543
No 258
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=24.08 E-value=28 Score=18.92 Aligned_cols=27 Identities=26% Similarity=0.448 Sum_probs=11.9
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCccc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYNT 116 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~synt 116 (136)
....|.+|+... +.-...|++|+|-+.
T Consensus 10 ~~~rC~~Cg~~~----~pPr~~Cp~C~s~~l 36 (37)
T PF12172_consen 10 LGQRCRDCGRVQ----FPPRPVCPHCGSDEL 36 (37)
T ss_dssp EEEE-TTT--EE----ES--SEETTTT----
T ss_pred EEEEcCCCCCEe----cCCCcCCCCcCcccc
Confidence 456788888642 123457888887553
No 259
>cd01675 RNR_III Class III ribonucleotide reductase. Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and bacteriophage, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in strict or facultative anaerobic bacteria, bacteriophage, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). The class III enzyme from phage T4 consists of two subunits, this model covers the larger subunit w
Probab=23.91 E-value=49 Score=29.13 Aligned_cols=29 Identities=31% Similarity=0.557 Sum_probs=20.4
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCCcccccc
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKSYNTRQT 119 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~ 119 (136)
...|.+|+..... .+.+|+.||+-+...+
T Consensus 518 ~~~C~~CG~~~~~----~~~~CP~CGs~~~~~~ 546 (555)
T cd01675 518 IDICNDCGYIGEG----EGFKCPKCGSEDVEVI 546 (555)
T ss_pred CccCCCCCCCCcC----CCCCCcCCCCcCceEE
Confidence 3489999975321 4569999998765544
No 260
>PHA00616 hypothetical protein
Probab=23.86 E-value=50 Score=19.30 Aligned_cols=20 Identities=15% Similarity=0.474 Sum_probs=14.1
Q ss_pred CCCCCcccccchhhhHHHhh
Q 032682 49 YTCPVCSKSLWDMSKLWSKI 68 (136)
Q Consensus 49 ~~CP~Cr~~~~~~~~~~~~l 68 (136)
+.||.|.+.+.+...+.+-+
T Consensus 2 YqC~~CG~~F~~~s~l~~H~ 21 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHL 21 (44)
T ss_pred CccchhhHHHhhHHHHHHHH
Confidence 67999999887655544443
No 261
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=23.81 E-value=49 Score=17.86 Aligned_cols=10 Identities=40% Similarity=1.069 Sum_probs=7.3
Q ss_pred CCCCCccccc
Q 032682 49 YTCPVCSKSL 58 (136)
Q Consensus 49 ~~CP~Cr~~~ 58 (136)
..||.|...+
T Consensus 3 ~~CP~C~~~~ 12 (38)
T TIGR02098 3 IQCPNCKTSF 12 (38)
T ss_pred EECCCCCCEE
Confidence 4688887665
No 262
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=23.28 E-value=46 Score=18.28 Aligned_cols=10 Identities=40% Similarity=1.075 Sum_probs=7.3
Q ss_pred CCCCCccccc
Q 032682 49 YTCPVCSKSL 58 (136)
Q Consensus 49 ~~CP~Cr~~~ 58 (136)
.+||.|...+
T Consensus 3 i~CP~C~~~f 12 (37)
T PF13719_consen 3 ITCPNCQTRF 12 (37)
T ss_pred EECCCCCceE
Confidence 4689997665
No 263
>PF12647 RNHCP: RNHCP domain; InterPro: IPR024439 This domain is found in uncharacterised bacterial proteins. It is typically between 94 and 143 amino acids in length and has a conserved RNHCP sequence motif.
Probab=23.21 E-value=71 Score=21.67 Aligned_cols=26 Identities=31% Similarity=0.608 Sum_probs=20.2
Q ss_pred hhhcCCCCC-CcccccccCCCCCCCCC
Q 032682 104 IAHKCLSCK-SYNTRQTRGDTATTCSS 129 (136)
Q Consensus 104 ~~~kC~~C~-synt~~~~~~~~~~~~~ 129 (136)
...+|++|. |..+-..-||++..+-.
T Consensus 23 ~RNHCP~CL~S~Hvd~~pGDRas~C~g 49 (92)
T PF12647_consen 23 HRNHCPSCLSSLHVDIVPGDRASDCGG 49 (92)
T ss_pred ccCcCcccccccccCCCCCCccccCCC
Confidence 456899999 88888777898887653
No 264
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=23.05 E-value=39 Score=16.96 Aligned_cols=11 Identities=27% Similarity=1.038 Sum_probs=8.7
Q ss_pred CCCCCcccccc
Q 032682 49 YTCPVCSKSLW 59 (136)
Q Consensus 49 ~~CP~Cr~~~~ 59 (136)
..||+|.+.|.
T Consensus 3 ~~C~~CgR~F~ 13 (25)
T PF13913_consen 3 VPCPICGRKFN 13 (25)
T ss_pred CcCCCCCCEEC
Confidence 35999988884
No 265
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.97 E-value=39 Score=20.03 Aligned_cols=23 Identities=26% Similarity=0.665 Sum_probs=10.4
Q ss_pred cCCcHhhHHHHHHHHhhcCCCCCCc
Q 032682 30 RCGHTIHLECLKEMEKHYRYTCPVC 54 (136)
Q Consensus 30 ~CgH~fh~~Cl~~~~~~~~~~CP~C 54 (136)
.|||.|-..=-.+. .....||.|
T Consensus 33 ~Cgh~w~~~v~~R~--~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDRT--RRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhhc--cCCCCCCCC
Confidence 35666544322222 134557766
No 266
>PRK01110 rpmF 50S ribosomal protein L32; Validated
Probab=22.95 E-value=41 Score=20.80 Aligned_cols=28 Identities=18% Similarity=0.097 Sum_probs=20.2
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCCccccccc
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTR 120 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~ 120 (136)
.+.|..|+.. ...| ..|. ||-|+.+++-
T Consensus 27 ~~~c~~cg~~--~~pH---~vc~-cG~Y~gr~v~ 54 (60)
T PRK01110 27 LSVDKTTGEY--HLPH---HVSP-KGYYKGRKVL 54 (60)
T ss_pred eeEcCCCCce--eccc---eecC-CcccCCeEee
Confidence 5679999875 2223 3588 9999998864
No 267
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=22.81 E-value=50 Score=17.06 Aligned_cols=29 Identities=17% Similarity=0.039 Sum_probs=8.2
Q ss_pred cceecCcCccCCccceEEecCCcHhhHHHH
Q 032682 11 FYNFGLQFIFDTMKDITVLRCGHTIHLECL 40 (136)
Q Consensus 11 ~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl 40 (136)
.|.+|.+.+. ......-..|.-.+|.+|+
T Consensus 2 ~C~~C~~~~~-~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPID-GGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS-----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCC-CCceEECccCCCccChhcC
Confidence 4667777632 1122233466777777763
No 268
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=22.53 E-value=81 Score=19.62 Aligned_cols=43 Identities=28% Similarity=0.424 Sum_probs=19.5
Q ss_pred CcceecCcCccCCccceEEe--cCCcH---hhHHHHHHHHhhcCCCCCCcc
Q 032682 10 NFYNFGLQFIFDTMKDITVL--RCGHT---IHLECLKEMEKHYRYTCPVCS 55 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L--~CgH~---fh~~Cl~~~~~~~~~~CP~Cr 55 (136)
..|.-|-..|......+... .||.. -|.+|-++ ...|+||.|.
T Consensus 8 ~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC~~CRk~---~~~Y~CP~CG 55 (59)
T PRK14890 8 PKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCRKQ---SNPYTCPKCG 55 (59)
T ss_pred ccccCCCCcccCCCccCEeeCCCCCCeeEeechhHHhc---CCceECCCCC
Confidence 35666666553322223222 45554 13334322 1346677764
No 269
>PRK11595 DNA utilization protein GntX; Provisional
Probab=22.30 E-value=60 Score=24.88 Aligned_cols=38 Identities=13% Similarity=0.232 Sum_probs=20.5
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHhhcCCCCCCcccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKS 57 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~ 57 (136)
..|.+|.+.+..+ ...+|..|...+-.. ...||.|.+.
T Consensus 6 ~~C~~C~~~~~~~---------~~~lC~~C~~~l~~~-~~~C~~Cg~~ 43 (227)
T PRK11595 6 GLCWLCRMPLALS---------HWGICSVCSRALRTL-KTCCPQCGLP 43 (227)
T ss_pred CcCccCCCccCCC---------CCcccHHHHhhCCcc-cCcCccCCCc
Confidence 4688888774211 123577776664221 2346666543
No 270
>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=22.18 E-value=52 Score=19.79 Aligned_cols=24 Identities=21% Similarity=0.704 Sum_probs=11.8
Q ss_pred cCCcHhhHHHHHHHHhhcCCCCCCc
Q 032682 30 RCGHTIHLECLKEMEKHYRYTCPVC 54 (136)
Q Consensus 30 ~CgH~fh~~Cl~~~~~~~~~~CP~C 54 (136)
.|++.||.+| +-++...--.||-|
T Consensus 26 ~C~~~FC~dC-D~fiHE~LH~CPGC 49 (51)
T PF07975_consen 26 KCKNHFCIDC-DVFIHETLHNCPGC 49 (51)
T ss_dssp TTT--B-HHH-HHTTTTTS-SSSTT
T ss_pred CCCCccccCc-ChhhhccccCCcCC
Confidence 6889999988 23332122348877
No 271
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.82 E-value=1.2e+02 Score=25.74 Aligned_cols=36 Identities=11% Similarity=0.088 Sum_probs=23.3
Q ss_pred ccceEEecCCcHhhHHHHHHHHhhcCCCCCCccccc
Q 032682 23 MKDITVLRCGHTIHLECLKEMEKHYRYTCPVCSKSL 58 (136)
Q Consensus 23 ~~~~~~L~CgH~fh~~Cl~~~~~~~~~~CP~Cr~~~ 58 (136)
...|+++|=||+|-..-|..|-...+..||.=.+.+
T Consensus 343 ~N~P~lfpnG~Vyg~~~L~s~~~~~~i~dP~~~k~f 378 (389)
T KOG0396|consen 343 DNPPHLFPNGYVYGTKALESLNEDDGIGDPRTKKVF 378 (389)
T ss_pred CCCcccccCceeehhHHHHhhcccCCCcCCCCCccc
Confidence 346666777788877777777654346677655444
No 272
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=21.73 E-value=1.2e+02 Score=24.55 Aligned_cols=47 Identities=30% Similarity=0.398 Sum_probs=31.1
Q ss_pred CcceecCcCccCCccceEEe-----cCCcHhhHHHHHHHHhh---c-----CCCCCCccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVL-----RCGHTIHLECLKEMEKH---Y-----RYTCPVCSKSL 58 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L-----~CgH~fh~~Cl~~~~~~---~-----~~~CP~Cr~~~ 58 (136)
..|-+|.+.+.+. +...+ -|+-.+|..||-..+.. + .-.||.|++.+
T Consensus 183 ~~celc~~ei~e~--~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILET--DWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccc--cceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 4799999885322 22223 37888999999884332 1 23599998765
No 273
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=21.72 E-value=66 Score=29.56 Aligned_cols=73 Identities=19% Similarity=0.369 Sum_probs=41.9
Q ss_pred CcHhhHHHHHHHHhhcC-------CCCCCcccccchhhhHHHhhHHHHhcCCCChhhhcc--cccccCCCCCC----CCc
Q 032682 32 GHTIHLECLKEMEKHYR-------YTCPVCSKSLWDMSKLWSKIDQEIASTPMPAMYQNK--MVWILCNDCGA----NSH 98 (136)
Q Consensus 32 gH~fh~~Cl~~~~~~~~-------~~CP~Cr~~~~~~~~~~~~l~~~~~~~~~p~~~~~~--~~~i~C~~C~~----~~~ 98 (136)
-=.+|.+|+++.+..++ ..|-.|.-.+.-+ ++ +|-+..++ ..-.+|.+|.+ ..+
T Consensus 100 D~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi-----------~a--lPYDR~nTsM~~F~lC~~C~~EY~dP~n 166 (750)
T COG0068 100 DAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTII-----------EA--LPYDRENTSMADFPLCPFCDKEYKDPLN 166 (750)
T ss_pred chhhhHHHHHHhcCCCCcceeccccccCCCCcceeee-----------cc--CCCCcccCccccCcCCHHHHHHhcCccc
Confidence 34678888888876532 1388885444211 11 12111111 23578888864 234
Q ss_pred cchhhhhhcCCCCC-Ccccc
Q 032682 99 VQFHVIAHKCLSCK-SYNTR 117 (136)
Q Consensus 99 ~~~h~~~~kC~~C~-synt~ 117 (136)
..||.=..-|+.|| .+.-.
T Consensus 167 RRfHAQp~aCp~CGP~~~l~ 186 (750)
T COG0068 167 RRFHAQPIACPKCGPHLFLV 186 (750)
T ss_pred cccccccccCcccCCCeEEE
Confidence 66777777899999 45444
No 274
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=21.44 E-value=32 Score=21.98 Aligned_cols=33 Identities=27% Similarity=0.651 Sum_probs=19.9
Q ss_pred hcccccccCCCCCCCCccchh-hhhhcCCCCCCc
Q 032682 82 QNKMVWILCNDCGANSHVQFH-VIAHKCLSCKSY 114 (136)
Q Consensus 82 ~~~~~~i~C~~C~~~~~~~~h-~~~~kC~~C~sy 114 (136)
++....+.|.||+....+..| ....+|..||..
T Consensus 14 ~s~Fl~VkCpdC~N~q~vFshast~V~C~~CG~~ 47 (67)
T COG2051 14 RSRFLRVKCPDCGNEQVVFSHASTVVTCLICGTT 47 (67)
T ss_pred CceEEEEECCCCCCEEEEeccCceEEEecccccE
Confidence 334457889999876544333 234477777743
No 275
>KOG1296 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.17 E-value=88 Score=23.17 Aligned_cols=51 Identities=20% Similarity=0.290 Sum_probs=30.0
Q ss_pred hhhhcccccccCCCCCCCCcc----------------chhhhhhcCCCCCCccccccc---CCCCCCCCCC
Q 032682 79 AMYQNKMVWILCNDCGANSHV----------------QFHVIAHKCLSCKSYNTRQTR---GDTATTCSSG 130 (136)
Q Consensus 79 ~~~~~~~~~i~C~~C~~~~~~----------------~~h~~~~kC~~C~synt~~~~---~~~~~~~~~~ 130 (136)
++++ .-....|..|++.++- ..-.+.+||..|+.-|+.-|- +.+.+-++++
T Consensus 23 ~~~r-f~~kLkCtnCgE~~dkw~~I~l~E~~~~pg~Rgta~~v~KCK~C~Rensv~iv~~~~~pyt~ed~e 92 (161)
T KOG1296|consen 23 PDFR-FYLKLKCTNCGELSDKWQYITLNEEVAMPGSRGTASFVMKCKFCSRENSVTIVAFEDKPYTAEDSE 92 (161)
T ss_pred CCce-eEEEeccccccccCCceEEEEeeeeecCCCCcchhhHhhhhhhhcccCcEEEecCCCCcccccccc
Confidence 3444 3356789999763210 111367899999988887762 3444444443
No 276
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.10 E-value=41 Score=25.42 Aligned_cols=13 Identities=38% Similarity=0.764 Sum_probs=10.7
Q ss_pred cCCCCCCcccccc
Q 032682 47 YRYTCPVCSKSLW 59 (136)
Q Consensus 47 ~~~~CP~Cr~~~~ 59 (136)
..++||+|.|.+.
T Consensus 137 ~g~KCPvC~K~V~ 149 (205)
T KOG0801|consen 137 SGMKCPVCHKVVP 149 (205)
T ss_pred CCccCCccccccC
Confidence 4578999999885
No 277
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=21.09 E-value=40 Score=29.65 Aligned_cols=29 Identities=31% Similarity=0.530 Sum_probs=14.6
Q ss_pred cccCCCCCCCCccchhhhhhcCCCCCCccccccc
Q 032682 87 WILCNDCGANSHVQFHVIAHKCLSCKSYNTRQTR 120 (136)
Q Consensus 87 ~i~C~~C~~~~~~~~h~~~~kC~~C~synt~~~~ 120 (136)
.-.|.+|+..... +.+|+.||+=|+..++
T Consensus 491 ~~~C~~CG~~~~~-----~~~CP~CGs~~~~~~~ 519 (546)
T PF13597_consen 491 IDICPDCGYIGGE-----GDKCPKCGSENIEVYS 519 (546)
T ss_dssp EEEETTT---S-------EEE-CCC----EEEEB
T ss_pred cccccCCCcCCCC-----CCCCCCCCCcccceEE
Confidence 5679999976422 4589999999877764
No 278
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=20.89 E-value=98 Score=25.99 Aligned_cols=33 Identities=15% Similarity=0.315 Sum_probs=25.9
Q ss_pred CCCCcceecCcCccCCccceEEecCC--cHhhHHHHHHH
Q 032682 7 VNDNFYNFGLQFIFDTMKDITVLRCG--HTIHLECLKEM 43 (136)
Q Consensus 7 ~~~~~CpIC~e~lf~~~~~~~~L~Cg--H~fh~~Cl~~~ 43 (136)
.....|-.|-+. .+.+.+++|. |..|..|+.-|
T Consensus 219 ~~ni~C~~Ctdv----~~~vlvf~Cns~HvtC~dCFr~y 253 (446)
T KOG0006|consen 219 SRNITCITCTDV----RSPVLVFQCNSRHVTCLDCFRLY 253 (446)
T ss_pred cccceeEEecCC----ccceEEEecCCceeehHHhhhhH
Confidence 345679999887 4566678998 99999999855
No 279
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=20.82 E-value=59 Score=29.70 Aligned_cols=30 Identities=17% Similarity=0.418 Sum_probs=19.7
Q ss_pred ccccCCCCCCCCccchhhhhhcCCCCCCcc
Q 032682 86 VWILCNDCGANSHVQFHVIAHKCLSCKSYN 115 (136)
Q Consensus 86 ~~i~C~~C~~~~~~~~h~~~~kC~~C~syn 115 (136)
..-.|.+|+-.+.......+..|+.||+-+
T Consensus 640 ~~~~C~~CG~~Ge~~~~~~~~~CP~CG~~~ 669 (711)
T PRK09263 640 PIDECYECGFTGEFECTEKGFTCPKCGNHD 669 (711)
T ss_pred CCcccCCCCCCccccCCCCCCcCcCCCCCC
Confidence 356799999754332222346899999865
No 280
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=20.69 E-value=47 Score=29.85 Aligned_cols=44 Identities=18% Similarity=0.323 Sum_probs=26.6
Q ss_pred CcceecCcCccCCccceEEecCCcHhhHHHHHHHHh--h----cCCCCCCcccccc
Q 032682 10 NFYNFGLQFIFDTMKDITVLRCGHTIHLECLKEMEK--H----YRYTCPVCSKSLW 59 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L~CgH~fh~~Cl~~~~~--~----~~~~CP~Cr~~~~ 59 (136)
..|||..-.|. .+.+-+.|+|. .|++..+. . ...+||+|.+.+.
T Consensus 307 L~CPl~~~Rm~---~P~r~~~CkHl---QcFD~~~~lq~n~~~pTW~CPVC~~~~~ 356 (636)
T KOG2169|consen 307 LNCPLSKMRMS---LPARGHTCKHL---QCFDALSYLQMNEQKPTWRCPVCQKAAP 356 (636)
T ss_pred ecCCcccceee---cCCcccccccc---eecchhhhHHhccCCCeeeCccCCcccc
Confidence 56888877652 33444556643 67766322 1 2466999988763
No 281
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=20.63 E-value=45 Score=28.05 Aligned_cols=29 Identities=28% Similarity=0.716 Sum_probs=22.7
Q ss_pred cccccCCCCCCCCccchhhhhhcCCCCCCcccc
Q 032682 85 MVWILCNDCGANSHVQFHVIAHKCLSCKSYNTR 117 (136)
Q Consensus 85 ~~~i~C~~C~~~~~~~~h~~~~kC~~C~synt~ 117 (136)
+....|..|+-+.+ .++-+||+|..|.|.
T Consensus 352 ~~~YRC~~CGF~a~----~l~W~CPsC~~W~Ti 380 (389)
T COG2956 352 KPRYRCQNCGFTAH----TLYWHCPSCRAWETI 380 (389)
T ss_pred cCCceecccCCcce----eeeeeCCCccccccc
Confidence 35789999996644 466799999999875
No 282
>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay. This N-terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway [].
Probab=20.60 E-value=52 Score=25.48 Aligned_cols=13 Identities=23% Similarity=0.608 Sum_probs=8.6
Q ss_pred hhcCCCCCCcccc
Q 032682 105 AHKCLSCKSYNTR 117 (136)
Q Consensus 105 ~~kC~~C~synt~ 117 (136)
...|+.||+|-..
T Consensus 35 v~~C~~Cg~~~~~ 47 (236)
T PF04981_consen 35 VTICPKCGRYRIG 47 (236)
T ss_pred ceECCCCCCEECC
Confidence 3467778777554
No 283
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=20.41 E-value=61 Score=20.09 Aligned_cols=13 Identities=38% Similarity=0.853 Sum_probs=9.9
Q ss_pred CCCCCCcccccch
Q 032682 48 RYTCPVCSKSLWD 60 (136)
Q Consensus 48 ~~~CP~Cr~~~~~ 60 (136)
+..||+|.+++..
T Consensus 3 HkHC~~CG~~Ip~ 15 (59)
T PF09889_consen 3 HKHCPVCGKPIPP 15 (59)
T ss_pred CCcCCcCCCcCCc
Confidence 4679999888753
No 284
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=20.32 E-value=74 Score=17.77 Aligned_cols=28 Identities=18% Similarity=0.462 Sum_probs=16.9
Q ss_pred CCCCCCCCccchhhhhhcCCCCC-CcccccccC
Q 032682 90 CNDCGANSHVQFHVIAHKCLSCK-SYNTRQTRG 121 (136)
Q Consensus 90 C~~C~~~~~~~~h~~~~kC~~C~-synt~~~~~ 121 (136)
|..|+++... +..+|..|+ .|...+..+
T Consensus 1 C~~C~~~~~l----~~f~C~~C~~~FC~~HR~~ 29 (39)
T smart00154 1 CHFCRKKVGL----TGFKCRHCGNLFCGEHRLP 29 (39)
T ss_pred CcccCCcccc----cCeECCccCCccccccCCc
Confidence 5567665322 156888888 666655544
No 285
>PHA02768 hypothetical protein; Provisional
Probab=20.24 E-value=65 Score=19.71 Aligned_cols=17 Identities=24% Similarity=0.788 Sum_probs=12.9
Q ss_pred CCCCCCcccccchhhhH
Q 032682 48 RYTCPVCSKSLWDMSKL 64 (136)
Q Consensus 48 ~~~CP~Cr~~~~~~~~~ 64 (136)
.+.||.|.+.|...+.+
T Consensus 5 ~y~C~~CGK~Fs~~~~L 21 (55)
T PHA02768 5 GYECPICGEIYIKRKSM 21 (55)
T ss_pred ccCcchhCCeeccHHHH
Confidence 47899999998765543
No 286
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=20.06 E-value=74 Score=17.52 Aligned_cols=25 Identities=20% Similarity=0.178 Sum_probs=15.7
Q ss_pred CcceecCcCccCCccceEEe-cCCcH
Q 032682 10 NFYNFGLQFIFDTMKDITVL-RCGHT 34 (136)
Q Consensus 10 ~~CpIC~e~lf~~~~~~~~L-~CgH~ 34 (136)
..|++|...+|.+...-..= .|||.
T Consensus 9 ~~C~~C~~~~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 9 EPCPVCGSRWFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred CcCCCCCCeEeEccCCEEEhhhCceE
Confidence 44999998866554444333 66764
Done!