Query 011117
Match_columns 493
No_of_seqs 69 out of 71
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 08:18:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011117.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011117hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2932 E3 ubiquitin ligase in 100.0 3E-66 6.5E-71 510.9 20.6 306 1-358 17-344 (389)
2 COG5222 Uncharacterized conser 98.1 1.8E-06 4E-11 87.8 2.7 95 24-118 228-328 (427)
3 PF13920 zf-C3HC4_3: Zinc fing 98.1 1.3E-06 2.9E-11 64.6 1.1 43 70-113 3-50 (50)
4 PF00097 zf-C3HC4: Zinc finger 98.0 3.5E-06 7.5E-11 59.4 1.7 35 72-106 1-41 (41)
5 PF13923 zf-C3HC4_2: Zinc fing 97.9 4.4E-06 9.6E-11 59.3 1.6 35 72-106 1-39 (39)
6 cd00162 RING RING-finger (Real 97.9 5.4E-06 1.2E-10 56.3 1.5 40 71-110 1-45 (45)
7 KOG2879 Predicted E3 ubiquitin 97.9 4E-06 8.8E-11 83.9 1.1 51 64-114 234-290 (298)
8 PHA02929 N1R/p28-like protein; 97.8 6.7E-06 1.5E-10 80.0 1.9 48 68-115 173-231 (238)
9 PF13639 zf-RING_2: Ring finge 97.8 6E-06 1.3E-10 59.5 1.1 37 71-107 2-44 (44)
10 KOG2164 Predicted E3 ubiquitin 97.8 1.7E-05 3.7E-10 84.3 4.8 81 26-112 147-237 (513)
11 smart00504 Ubox Modified RING 97.7 1.8E-05 3.9E-10 59.4 1.5 41 70-111 2-46 (63)
12 TIGR00599 rad18 DNA repair pro 97.7 1.8E-05 3.8E-10 82.0 1.8 44 68-112 25-72 (397)
13 KOG0320 Predicted E3 ubiquitin 97.7 1.6E-05 3.5E-10 75.6 1.4 48 67-114 129-181 (187)
14 PLN03208 E3 ubiquitin-protein 97.5 4.8E-05 1E-09 72.6 2.2 44 69-113 18-81 (193)
15 KOG2177 Predicted E3 ubiquitin 97.4 4.3E-05 9.4E-10 66.0 1.0 42 65-107 9-54 (386)
16 PF14634 zf-RING_5: zinc-RING 97.3 7.1E-05 1.5E-09 54.6 1.0 38 71-108 1-44 (44)
17 smart00184 RING Ring finger. E 97.3 0.00014 3.1E-09 47.6 1.7 34 72-106 1-39 (39)
18 PHA02926 zinc finger-like prot 97.3 8.2E-05 1.8E-09 73.1 0.7 46 69-114 170-233 (242)
19 PF15227 zf-C3HC4_4: zinc fing 97.2 0.00015 3.2E-09 53.3 1.7 34 72-106 1-42 (42)
20 COG5432 RAD18 RING-finger-cont 97.2 0.00016 3.5E-09 73.7 1.7 64 69-148 25-92 (391)
21 KOG0978 E3 ubiquitin ligase in 97.2 0.0001 2.3E-09 80.9 0.2 41 69-110 643-688 (698)
22 PF14835 zf-RING_6: zf-RING of 97.1 6.9E-05 1.5E-09 61.3 -0.9 48 67-114 5-56 (65)
23 COG5574 PEX10 RING-finger-cont 97.0 0.00025 5.5E-09 70.7 1.4 46 65-111 211-262 (271)
24 KOG0317 Predicted E3 ubiquitin 97.0 0.00026 5.6E-09 71.3 1.1 46 65-111 235-284 (293)
25 KOG0824 Predicted E3 ubiquitin 96.7 0.00054 1.2E-08 69.7 1.0 42 68-110 6-52 (324)
26 KOG0287 Postreplication repair 96.7 0.0003 6.6E-09 72.9 -1.2 96 69-178 23-127 (442)
27 TIGR00570 cdk7 CDK-activating 96.3 0.002 4.2E-08 65.5 2.0 45 70-114 4-57 (309)
28 PF12678 zf-rbx1: RING-H2 zinc 96.3 0.0018 3.9E-08 52.3 1.3 37 71-107 21-73 (73)
29 KOG0823 Predicted E3 ubiquitin 96.2 0.0018 4E-08 63.6 1.2 47 69-116 47-100 (230)
30 KOG1813 Predicted E3 ubiquitin 96.2 0.0017 3.8E-08 65.9 1.0 42 70-112 242-287 (313)
31 KOG4265 Predicted E3 ubiquitin 95.7 0.0039 8.4E-08 64.4 1.0 51 67-118 288-343 (349)
32 PF13445 zf-RING_UBOX: RING-ty 95.6 0.0049 1.1E-07 46.3 1.0 25 72-98 1-29 (43)
33 KOG0802 E3 ubiquitin ligase [P 95.4 0.0051 1.1E-07 65.1 0.8 42 69-110 291-340 (543)
34 PF04641 Rtf2: Rtf2 RING-finge 95.4 0.0079 1.7E-07 58.3 2.0 50 67-116 111-166 (260)
35 KOG1039 Predicted E3 ubiquitin 95.4 0.0052 1.1E-07 63.1 0.7 47 68-114 160-224 (344)
36 COG5243 HRD1 HRD ubiquitin lig 95.4 0.0067 1.4E-07 63.9 1.4 52 64-115 282-349 (491)
37 KOG4739 Uncharacterized protei 95.3 0.0059 1.3E-07 60.1 0.8 47 70-117 4-53 (233)
38 PF04564 U-box: U-box domain; 95.3 0.0077 1.7E-07 48.2 1.3 44 69-113 4-52 (73)
39 KOG0311 Predicted E3 ubiquitin 95.2 0.0027 5.9E-08 65.9 -2.0 50 69-118 43-97 (381)
40 COG5236 Uncharacterized conser 95.1 0.019 4.1E-07 60.2 3.5 114 61-176 53-214 (493)
41 KOG1734 Predicted RING-contain 95.0 0.013 2.8E-07 59.6 2.0 62 50-112 202-282 (328)
42 KOG2660 Locus-specific chromos 94.9 0.0051 1.1E-07 63.1 -1.0 43 69-111 15-61 (331)
43 KOG4172 Predicted E3 ubiquitin 94.3 0.018 3.9E-07 46.9 1.0 48 66-115 4-58 (62)
44 COG5540 RING-finger-containing 94.3 0.013 2.9E-07 60.3 0.3 42 69-110 323-371 (374)
45 KOG4692 Predicted E3 ubiquitin 93.9 0.021 4.5E-07 60.1 0.7 43 69-113 422-469 (489)
46 COG5152 Uncharacterized conser 93.8 0.025 5.4E-07 55.8 0.9 45 65-110 191-240 (259)
47 KOG4628 Predicted E3 ubiquitin 93.7 0.02 4.4E-07 59.1 0.2 41 71-111 231-278 (348)
48 KOG0297 TNF receptor-associate 93.2 0.043 9.2E-07 56.6 1.6 78 68-146 20-111 (391)
49 KOG3039 Uncharacterized conser 93.1 0.039 8.5E-07 55.7 1.3 46 68-113 220-272 (303)
50 KOG1100 Predicted E3 ubiquitin 92.9 0.047 1E-06 52.4 1.3 40 72-112 161-201 (207)
51 KOG1001 Helicase-like transcri 92.6 0.06 1.3E-06 59.5 1.9 43 70-114 455-503 (674)
52 KOG1571 Predicted E3 ubiquitin 92.5 0.06 1.3E-06 56.0 1.6 45 70-115 306-351 (355)
53 PF11789 zf-Nse: Zinc-finger o 92.5 0.061 1.3E-06 42.4 1.2 30 69-98 11-40 (57)
54 COG5189 SFP1 Putative transcri 92.3 0.082 1.8E-06 55.1 2.3 43 119-161 346-388 (423)
55 PF13894 zf-C2H2_4: C2H2-type 92.2 0.1 2.2E-06 31.9 1.7 24 123-148 1-24 (24)
56 PF00096 zf-C2H2: Zinc finger, 91.9 0.11 2.3E-06 32.8 1.7 23 123-148 1-23 (23)
57 KOG1785 Tyrosine kinase negati 91.7 0.05 1.1E-06 58.0 -0.1 49 68-117 368-422 (563)
58 PF10367 Vps39_2: Vacuolar sor 91.6 0.076 1.7E-06 43.1 0.9 30 69-98 78-108 (109)
59 KOG0825 PHD Zn-finger protein 91.5 0.068 1.5E-06 60.6 0.8 56 70-125 124-187 (1134)
60 KOG1002 Nucleotide excision re 91.1 0.08 1.7E-06 58.1 0.8 42 69-111 536-586 (791)
61 KOG4159 Predicted E3 ubiquitin 90.7 0.099 2.1E-06 54.9 0.9 44 68-112 83-130 (398)
62 KOG4275 Predicted E3 ubiquitin 89.6 0.1 2.2E-06 53.8 0.0 47 69-117 300-348 (350)
63 PHA03096 p28-like protein; Pro 89.3 0.15 3.3E-06 51.3 1.0 48 70-117 179-243 (284)
64 KOG3002 Zn finger protein [Gen 88.7 0.11 2.3E-06 52.7 -0.6 70 65-135 44-121 (299)
65 KOG1941 Acetylcholine receptor 87.9 0.18 4E-06 53.8 0.5 81 64-144 360-453 (518)
66 KOG0804 Cytoplasmic Zn-finger 87.2 0.34 7.3E-06 52.2 2.0 78 69-148 175-267 (493)
67 PF02891 zf-MIZ: MIZ/SP-RING z 86.5 0.32 7E-06 37.3 1.0 39 70-108 3-49 (50)
68 KOG4185 Predicted E3 ubiquitin 85.1 0.37 8.1E-06 46.6 0.9 42 69-110 3-54 (296)
69 PF07975 C1_4: TFIIH C1-like d 84.9 0.58 1.3E-05 37.0 1.7 26 82-107 21-50 (51)
70 PF13912 zf-C2H2_6: C2H2-type 84.6 0.54 1.2E-05 30.6 1.3 25 122-148 1-25 (27)
71 PF12861 zf-Apc11: Anaphase-pr 83.2 0.65 1.4E-05 40.1 1.5 41 70-110 33-81 (85)
72 PF14447 Prok-RING_4: Prokaryo 83.1 0.42 9E-06 38.5 0.3 42 70-112 8-51 (55)
73 PF14570 zf-RING_4: RING/Ubox 82.6 0.83 1.8E-05 35.8 1.8 38 72-109 1-46 (48)
74 KOG0826 Predicted E3 ubiquitin 81.9 0.43 9.4E-06 49.8 -0.0 48 69-116 300-353 (357)
75 smart00355 ZnF_C2H2 zinc finge 81.7 0.74 1.6E-05 28.0 1.0 20 129-149 5-24 (26)
76 KOG4362 Transcriptional regula 80.9 0.65 1.4E-05 52.0 0.9 59 67-126 19-96 (684)
77 COG5220 TFB3 Cdk activating ki 79.7 0.8 1.7E-05 46.6 1.0 49 69-117 10-70 (314)
78 PF12756 zf-C2H2_2: C2H2 type 78.8 1.2 2.6E-05 35.0 1.6 28 122-151 50-78 (100)
79 PRK03564 formate dehydrogenase 78.1 1.4 3E-05 45.2 2.2 70 64-134 182-265 (309)
80 KOG2462 C2H2-type Zn-finger pr 77.8 1.8 3.8E-05 44.3 2.7 76 69-146 130-237 (279)
81 COG5219 Uncharacterized conser 76.7 0.68 1.5E-05 54.1 -0.6 44 69-112 1469-1524(1525)
82 KOG2114 Vacuolar assembly/sort 76.2 1.3 2.7E-05 51.0 1.4 43 69-111 840-883 (933)
83 KOG2231 Predicted E3 ubiquitin 75.5 1.3 2.7E-05 49.8 1.1 103 47-150 53-208 (669)
84 KOG3800 Predicted E3 ubiquitin 74.8 1.7 3.7E-05 44.7 1.8 42 71-114 2-54 (300)
85 TIGR01562 FdhE formate dehydro 74.7 2.3 5E-05 43.5 2.6 52 66-118 181-241 (305)
86 KOG3970 Predicted E3 ubiquitin 74.6 1.2 2.6E-05 45.0 0.6 64 69-140 50-127 (299)
87 PF05605 zf-Di19: Drought indu 74.6 2.3 4.9E-05 32.4 2.0 12 138-149 43-54 (54)
88 KOG3113 Uncharacterized conser 74.2 1.6 3.5E-05 44.5 1.4 52 69-120 111-167 (293)
89 PF12874 zf-met: Zinc-finger o 72.9 2.5 5.4E-05 27.0 1.6 17 129-145 5-21 (25)
90 PF07191 zinc-ribbons_6: zinc- 72.9 0.84 1.8E-05 38.3 -0.8 51 70-127 2-55 (70)
91 KOG2807 RNA polymerase II tran 72.3 1.4 3E-05 46.3 0.4 40 69-108 330-375 (378)
92 KOG1814 Predicted E3 ubiquitin 72.1 1.3 2.8E-05 47.5 0.2 30 69-98 184-215 (445)
93 smart00064 FYVE Protein presen 71.3 2.7 5.8E-05 32.6 1.7 30 69-98 10-42 (68)
94 PF04216 FdhE: Protein involve 70.6 2.2 4.8E-05 41.9 1.4 67 69-135 172-252 (290)
95 KOG0828 Predicted E3 ubiquitin 69.6 1.5 3.4E-05 48.1 0.1 42 69-110 571-633 (636)
96 PF05605 zf-Di19: Drought indu 68.3 2.6 5.7E-05 32.1 1.1 26 123-151 3-28 (54)
97 PF10235 Cript: Microtubule-as 68.2 2.4 5.3E-05 37.0 1.0 57 55-117 30-86 (90)
98 TIGR00622 ssl1 transcription f 68.2 2.7 5.8E-05 37.9 1.3 39 70-108 56-111 (112)
99 PRK14559 putative protein seri 68.1 2.3 5.1E-05 47.2 1.1 35 69-112 15-53 (645)
100 PF06906 DUF1272: Protein of u 66.6 2.7 5.8E-05 34.3 0.9 40 71-111 7-52 (57)
101 KOG0825 PHD Zn-finger protein 66.5 3.2 6.9E-05 48.0 1.7 46 70-115 100-158 (1134)
102 COG4049 Uncharacterized protei 63.0 6.1 0.00013 32.8 2.3 34 118-152 12-45 (65)
103 KOG0956 PHD finger protein AF1 62.6 2.9 6.3E-05 47.6 0.5 56 100-168 117-172 (900)
104 PF12171 zf-C2H2_jaz: Zinc-fin 62.3 2.2 4.8E-05 28.3 -0.3 19 128-146 5-23 (27)
105 COG3813 Uncharacterized protei 59.7 4.6 0.0001 34.9 1.1 25 88-112 27-53 (84)
106 PF14353 CpXC: CpXC protein 59.5 1 2.2E-05 39.1 -2.9 43 113-156 28-70 (128)
107 PRK04023 DNA polymerase II lar 59.2 6 0.00013 46.7 2.2 49 67-116 624-679 (1121)
108 KOG3623 Homeobox transcription 57.6 4.1 8.8E-05 46.8 0.6 78 69-151 894-977 (1007)
109 PRK14559 putative protein seri 57.4 4.6 9.9E-05 45.0 0.9 35 70-111 2-38 (645)
110 KOG2231 Predicted E3 ubiquitin 57.3 9.7 0.00021 43.0 3.4 21 132-152 122-142 (669)
111 PTZ00303 phosphatidylinositol 57.1 2.2 4.8E-05 49.3 -1.5 58 69-126 460-545 (1374)
112 KOG1924 RhoA GTPase effector D 56.5 18 0.0004 42.2 5.3 12 347-358 508-519 (1102)
113 PF12773 DZR: Double zinc ribb 56.1 6.9 0.00015 28.9 1.4 39 64-106 7-49 (50)
114 KOG3161 Predicted E3 ubiquitin 55.3 3.5 7.6E-05 46.7 -0.4 35 69-104 11-51 (861)
115 PF10571 UPF0547: Uncharacteri 54.9 7.2 0.00016 27.0 1.2 22 71-92 2-24 (26)
116 KOG2113 Predicted RNA binding 52.8 7.1 0.00015 41.2 1.4 44 69-113 343-389 (394)
117 KOG3608 Zn finger proteins [Ge 52.5 4.4 9.5E-05 43.4 -0.2 19 64-82 202-220 (467)
118 PF13240 zinc_ribbon_2: zinc-r 50.2 8.7 0.00019 25.7 1.0 10 72-81 2-11 (23)
119 KOG4367 Predicted Zn-finger pr 49.6 6.3 0.00014 43.3 0.4 31 67-98 2-32 (699)
120 PHA00616 hypothetical protein 49.5 9.9 0.00021 29.5 1.4 25 127-151 4-28 (44)
121 KOG1812 Predicted E3 ubiquitin 49.5 8.2 0.00018 40.3 1.2 41 67-107 304-352 (384)
122 PF00412 LIM: LIM domain; Int 47.3 11 0.00023 27.8 1.2 48 72-124 1-49 (58)
123 PRK12495 hypothetical protein; 46.8 6.7 0.00015 39.2 0.1 29 69-112 42-70 (226)
124 PF01363 FYVE: FYVE zinc finge 46.2 5.9 0.00013 30.8 -0.3 32 67-98 7-41 (69)
125 PF01485 IBR: IBR domain; Int 46.1 9.6 0.00021 28.3 0.8 30 69-98 18-56 (64)
126 PRK14890 putative Zn-ribbon RN 45.2 12 0.00026 30.8 1.3 12 70-81 8-19 (59)
127 cd02249 ZZ Zinc finger, ZZ typ 44.3 15 0.00033 27.3 1.6 10 71-80 2-11 (46)
128 PF14369 zf-RING_3: zinc-finge 43.4 9.2 0.0002 27.9 0.3 19 91-109 3-30 (35)
129 PLN02189 cellulose synthase 43.3 13 0.00029 43.9 1.7 46 69-114 34-90 (1040)
130 PF04134 DUF393: Protein of un 42.8 18 0.00039 30.0 2.0 28 100-127 4-31 (114)
131 PF14471 DUF4428: Domain of un 42.2 14 0.0003 28.8 1.2 24 102-126 1-24 (51)
132 PRK14890 putative Zn-ribbon RN 42.1 8.7 0.00019 31.6 0.1 29 69-107 25-55 (59)
133 smart00647 IBR In Between Ring 40.2 19 0.00042 26.8 1.7 31 68-98 17-56 (64)
134 COG5151 SSL1 RNA polymerase II 39.3 11 0.00024 39.9 0.3 40 69-108 362-418 (421)
135 PF13465 zf-H2C2_2: Zinc-finge 39.2 14 0.0003 24.7 0.7 18 63-80 8-25 (26)
136 COG5175 MOT2 Transcriptional r 39.1 17 0.00037 38.9 1.7 40 71-110 16-63 (480)
137 PF03119 DNA_ligase_ZBD: NAD-d 37.9 12 0.00027 26.0 0.3 26 102-131 1-27 (28)
138 KOG3183 Predicted Zn-finger pr 37.7 20 0.00044 36.4 1.9 58 77-138 22-114 (250)
139 PLN03086 PRLI-interacting fact 37.6 15 0.00032 40.8 1.0 69 69-149 407-477 (567)
140 PF13913 zf-C2HC_2: zinc-finge 37.5 17 0.00037 24.5 0.9 18 128-146 6-23 (25)
141 PF14569 zf-UDP: Zinc-binding 37.0 22 0.00047 30.9 1.7 49 68-116 8-67 (80)
142 PHA00733 hypothetical protein 37.0 10 0.00022 34.0 -0.3 27 122-150 99-125 (128)
143 PF13248 zf-ribbon_3: zinc-rib 36.6 20 0.00043 24.2 1.1 11 71-81 4-14 (26)
144 KOG0132 RNA polymerase II C-te 36.4 8.2E+02 0.018 29.3 16.9 19 108-126 446-464 (894)
145 PF05290 Baculo_IE-1: Baculovi 36.3 26 0.00056 33.1 2.2 48 65-112 76-133 (140)
146 KOG1701 Focal adhesion adaptor 36.3 5.3 0.00012 43.3 -2.5 33 90-123 323-356 (468)
147 PLN02638 cellulose synthase A 36.2 20 0.00044 42.6 1.8 48 67-114 15-73 (1079)
148 KOG0827 Predicted E3 ubiquitin 36.0 15 0.00033 39.7 0.8 37 71-107 6-52 (465)
149 KOG0314 Predicted E3 ubiquitin 35.9 3.2E+02 0.0069 30.2 10.4 42 68-109 218-264 (448)
150 KOG1984 Vesicle coat complex C 35.8 8.8E+02 0.019 29.5 19.3 17 219-235 16-32 (1007)
151 PF02318 FYVE_2: FYVE-type zin 35.4 17 0.00036 31.8 0.8 31 68-98 53-87 (118)
152 PLN03086 PRLI-interacting fact 35.2 23 0.0005 39.4 1.9 22 128-150 545-566 (567)
153 COG5189 SFP1 Putative transcri 35.1 11 0.00025 39.9 -0.3 27 120-148 396-422 (423)
154 PF14768 RPA_interact_C: Repli 34.3 29 0.00064 28.9 2.0 44 102-150 1-47 (82)
155 KOG2930 SCF ubiquitin ligase, 33.2 16 0.00034 33.4 0.3 24 87-110 80-107 (114)
156 COG5236 Uncharacterized conser 33.2 46 0.001 36.0 3.7 50 101-151 245-308 (493)
157 PF01927 Mut7-C: Mut7-C RNAse 32.9 15 0.00032 33.1 0.1 34 101-136 92-136 (147)
158 PF06689 zf-C4_ClpX: ClpX C4-t 32.7 16 0.00034 27.2 0.2 26 101-126 2-28 (41)
159 PF04981 NMD3: NMD3 family ; 31.6 23 0.00051 34.1 1.2 21 72-98 1-21 (236)
160 KOG1280 Uncharacterized conser 31.1 31 0.00066 36.9 2.0 81 69-151 8-106 (381)
161 PLN03238 probable histone acet 30.7 30 0.00066 35.8 1.8 28 119-148 45-72 (290)
162 smart00249 PHD PHD zinc finger 30.5 21 0.00047 24.3 0.5 7 72-78 2-8 (47)
163 KOG1703 Adaptor protein Enigma 30.4 28 0.0006 37.1 1.6 72 69-144 330-408 (479)
164 PRK11019 hypothetical protein; 29.8 33 0.00072 29.8 1.7 32 66-98 33-65 (88)
165 PF14319 Zn_Tnp_IS91: Transpos 29.6 27 0.00058 30.7 1.1 32 64-98 37-68 (111)
166 PLN02400 cellulose synthase 29.5 26 0.00057 41.7 1.3 47 68-114 35-92 (1085)
167 smart00451 ZnF_U1 U1-like zinc 29.1 34 0.00075 23.1 1.4 26 123-150 4-30 (35)
168 KOG4323 Polycomb-like PHD Zn-f 29.1 17 0.00037 39.6 -0.2 64 88-152 194-273 (464)
169 KOG1493 Anaphase-promoting com 28.9 15 0.00032 32.1 -0.6 24 88-111 51-81 (84)
170 PHA00080 DksA-like zinc finger 28.8 39 0.00084 28.1 1.8 35 63-98 25-60 (72)
171 KOG1645 RING-finger-containing 28.7 26 0.00057 38.1 1.1 44 69-112 4-57 (463)
172 PLN02436 cellulose synthase A 28.7 31 0.00068 41.1 1.7 47 68-114 35-92 (1094)
173 KOG4445 Uncharacterized conser 28.3 13 0.00028 39.2 -1.2 42 70-111 116-186 (368)
174 KOG0132 RNA polymerase II C-te 28.1 7.7E+02 0.017 29.5 12.2 7 304-310 627-633 (894)
175 cd00065 FYVE FYVE domain; Zinc 28.1 37 0.00081 25.3 1.5 29 70-98 3-34 (57)
176 KOG2169 Zn-finger transcriptio 28.0 27 0.00057 38.9 1.0 44 69-112 306-357 (636)
177 KOG2747 Histone acetyltransfer 27.9 37 0.00081 36.5 2.0 30 119-150 155-184 (396)
178 KOG3608 Zn finger proteins [Ge 27.9 29 0.00062 37.5 1.2 81 68-150 73-161 (467)
179 COG5194 APC11 Component of SCF 27.9 24 0.00051 31.1 0.5 23 88-110 54-80 (88)
180 PF06827 zf-FPG_IleRS: Zinc fi 27.7 19 0.00041 24.6 -0.1 24 101-126 2-25 (30)
181 PLN00104 MYST -like histone ac 27.5 37 0.00081 37.0 1.9 29 119-149 195-223 (450)
182 PF07282 OrfB_Zn_ribbon: Putat 27.0 40 0.00087 26.3 1.6 40 99-146 27-66 (69)
183 PF06463 Mob_synth_C: Molybden 26.8 25 0.00054 31.3 0.4 9 90-98 69-77 (128)
184 PF13453 zf-TFIIB: Transcripti 26.6 50 0.0011 24.1 1.9 39 102-144 1-39 (41)
185 KOG1819 FYVE finger-containing 26.5 19 0.00042 40.4 -0.4 35 64-98 896-933 (990)
186 PTZ00064 histone acetyltransfe 26.5 42 0.00092 37.4 2.1 29 119-149 277-305 (552)
187 KOG0129 Predicted RNA-binding 26.3 39 0.00085 37.4 1.9 36 69-104 455-496 (520)
188 PRK11595 DNA utilization prote 25.9 43 0.00092 32.0 1.8 33 71-109 7-43 (227)
189 COG1997 RPL43A Ribosomal prote 25.6 37 0.00081 30.0 1.2 22 101-126 36-57 (89)
190 KOG2034 Vacuolar sorting prote 25.2 30 0.00065 40.5 0.8 35 64-98 812-847 (911)
191 PF13901 DUF4206: Domain of un 25.2 46 0.001 31.8 1.9 45 64-109 147-198 (202)
192 COG1499 NMD3 NMD protein affec 24.5 27 0.00058 36.8 0.2 33 69-107 6-50 (355)
193 KOG0298 DEAD box-containing he 24.5 17 0.00037 44.0 -1.3 39 70-108 1154-1196(1394)
194 PF05502 Dynactin_p62: Dynacti 24.4 31 0.00068 37.2 0.7 13 101-113 53-65 (483)
195 PF00569 ZZ: Zinc finger, ZZ t 24.2 48 0.0011 24.8 1.5 31 68-98 3-36 (46)
196 KOG3476 Microtubule-associated 24.2 18 0.0004 32.2 -0.9 48 64-117 49-96 (100)
197 KOG1814 Predicted E3 ubiquitin 24.2 36 0.00079 37.0 1.1 45 63-112 362-406 (445)
198 PF10186 Atg14: UV radiation r 24.2 42 0.0009 31.8 1.4 20 71-99 1-20 (302)
199 TIGR00595 priA primosomal prot 24.2 38 0.00082 36.4 1.2 20 90-109 240-262 (505)
200 PF03833 PolC_DP2: DNA polymer 24.1 26 0.00056 41.0 0.0 43 70-113 656-705 (900)
201 COG2888 Predicted Zn-ribbon RN 24.1 23 0.00051 29.4 -0.2 25 102-126 29-54 (61)
202 KOG4317 Predicted Zn-finger pr 23.5 29 0.00064 36.8 0.3 23 92-114 9-33 (383)
203 KOG2236 Uncharacterized conser 23.1 5E+02 0.011 29.1 9.2 9 116-124 277-285 (483)
204 COG1198 PriA Primosomal protei 23.1 43 0.00094 38.3 1.5 38 69-109 444-484 (730)
205 PF09889 DUF2116: Uncharacteri 23.0 46 0.001 27.1 1.3 10 71-80 5-14 (59)
206 KOG1815 Predicted E3 ubiquitin 22.9 36 0.00077 35.9 0.8 32 65-96 222-260 (444)
207 PRK14714 DNA polymerase II lar 22.9 47 0.001 40.4 1.8 34 69-111 667-703 (1337)
208 PF07649 C1_3: C1-like domain; 22.7 45 0.00098 22.8 1.0 27 71-97 2-30 (30)
209 cd00350 rubredoxin_like Rubred 22.5 58 0.0013 23.0 1.5 14 99-112 16-29 (33)
210 PF10497 zf-4CXXC_R1: Zinc-fin 22.3 60 0.0013 28.6 1.9 20 89-108 37-69 (105)
211 PRK12775 putative trifunctiona 22.1 46 0.00099 38.8 1.5 50 69-118 796-856 (1006)
212 KOG2923 Uncharacterized conser 22.0 43 0.00093 28.3 0.9 20 64-83 39-58 (67)
213 PLN03239 histone acetyltransfe 21.6 68 0.0015 34.1 2.5 26 119-146 103-128 (351)
214 COG1328 NrdD Oxygen-sensitive 21.5 41 0.0009 38.4 1.0 52 91-146 642-698 (700)
215 PF08274 PhnA_Zn_Ribbon: PhnA 21.3 40 0.00087 24.3 0.5 21 101-126 3-23 (30)
216 KOG3241 Uncharacterized conser 21.2 15 0.00033 36.3 -2.1 46 69-124 67-113 (227)
217 COG5082 AIR1 Arginine methyltr 20.9 45 0.00098 32.7 1.0 50 64-116 55-113 (190)
218 cd02338 ZZ_PCMF_like Zinc fing 20.7 65 0.0014 24.6 1.6 28 71-98 2-32 (49)
219 PF01258 zf-dskA_traR: Prokary 20.3 42 0.00092 23.9 0.5 27 71-98 5-32 (36)
220 KOG0153 Predicted RNA-binding 20.2 35 0.00075 36.5 0.0 38 69-106 41-83 (377)
221 KOG4080 Mitochondrial ribosoma 20.2 57 0.0012 31.8 1.5 28 63-98 85-114 (176)
No 1
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3e-66 Score=510.93 Aligned_cols=306 Identities=52% Similarity=0.934 Sum_probs=256.1
Q ss_pred CceeeeecCCCCCCCCCCC----CCCcceEEeecCCeEEEecCccccccccchh-hhhhhhhhhhhhhhcCcccccccCC
Q 011117 1 MLQIRLKKVPSSESGGAVK----PLPVETVTVACPDHLVLADLPVAKGIGAATA-ASLVKTVGRRSRRQLGERVHFCVRC 75 (493)
Q Consensus 1 mlqirl~~~~~~~~~~~~~----~~~pesVtVnc~Dh~VIA~~pvae~~gaats-s~~~k~~GrrSkrqlgEKvhFCdIC 75 (493)
|+||||+++...+.+.+.. +.+.|+|||+|.||||+++.++.++++..|- -+.++.++++.+|++++++||||+|
T Consensus 17 lg~i~~rr~~p~~t~~~q~nkaaPpp~e~~tv~~e~~~~~~~~p~f~~~~r~pphl~w~~~V~~~gek~l~p~VHfCd~C 96 (389)
T KOG2932|consen 17 LGQIRLRRDSPTETGNGQRNKAAPPPTETVTVACEDHLVLADLPVFKGIGRVPPHLTWIKPVGRRGEKQLGPRVHFCDRC 96 (389)
T ss_pred ccceeecccCCccccchhhcccCCCCcceeeeccchhhhhcCCchhcccccCCCceeeeeecccccccccCcceEeeccc
Confidence 6899999999999988765 8899999999999999999999999987776 5566999999999999999999999
Q ss_pred Cccccccccccccccccchhhhh--CCCCcccchHhHhhheeeecCCcEEEec-CCchhhhhcChhHHHHhhhhhhcccc
Q 011117 76 DYPIAIYGRLNPCEHVFCLDCAR--SDSMCYLCDERIQKIQTIKLMEGIFICA-APHCLKSFLKKTEFEAHIHVSHADLL 152 (493)
Q Consensus 76 dlPI~iygRmIPCKHVFCydCA~--sDktCP~Cna~VqrIEri~p~esIFIC~-~~gCkRtYLSqRDLQAHInhrH~~l~ 152 (493)
|+||+||||||||||||||+||+ .||+|++|+++|++||+| .+|+||||+ +.+|+|||||+|||||||||||..|
T Consensus 97 d~PI~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~VqrIeq~-~~g~iFmC~~~~GC~RTyLsqrDlqAHInhrH~~~- 174 (389)
T KOG2932|consen 97 DFPIAIYGRMIPCKHVFCLECARSDSDKICPLCDDRVQRIEQI-MMGGIFMCAAPHGCLRTYLSQRDLQAHINHRHGSL- 174 (389)
T ss_pred CCcceeeecccccchhhhhhhhhcCccccCcCcccHHHHHHHh-cccceEEeecchhHHHHHhhHHHHHHHhhhhhccc-
Confidence 99999999999999999999999 568999999999999999 589999999 5779999999999999999999999
Q ss_pred CCccccccc-cc--cccc-ccCCCcCCccccCCCCcCCCCCcccccchhHHHhhhCCCCCCCCCCCCCCCC--CCccCcc
Q 011117 153 LQPNAEKED-NE--SESA-KQPTVSESSVRAPPRPVFSPGQNSQLNDRDDKARWQQPREQPPPRAGLLPKQ--PPVFGQL 226 (493)
Q Consensus 153 Lqpn~~ke~-ne--~q~~-~~~~~~~s~arap~~~~~sP~~~S~~~~~~d~~r~q~~r~q~~~r~~~~~~~--p~~~~~~ 226 (493)
|++.++||| |- +|.+ .+++++.++.|++.+ ||++ ++|..+-+.+ -+.+-++
T Consensus 175 ~~p~~~~e~~~pp~~qp~~q~s~~~e~p~~~~l~--------s~~~---------------~s~~i~~s~a~~qs~p~~~ 231 (389)
T KOG2932|consen 175 LQPDAEKEDGNPPDVQPTMQQSSASESPLRAPLR--------SQLQ---------------QSREINRSAAKSQSGPSQV 231 (389)
T ss_pred cCCchhhhcCCCCCCCCccccchhhcCCcccchh--------cccc---------------cccccccCccccccCchhh
Confidence 999999999 44 5555 567778888888777 4431 2222222222 2456778
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCcccccccCCCCCcccccccccCcCCCCCCCCC-CCCCCCCCceeeecCCCCCCCCC
Q 011117 227 QNYQSDAQPDGSLPPGFERPGPHNRFQQSFDMQGTPQQESSQQQGILSETQFPEYP-PMHPMQPPNFVVPMNSNPLLTPP 305 (493)
Q Consensus 227 ~~~~~~~~~~n~~p~gf~rp~~~~~~~~~~~~~~~~~~~s~~~q~~~~~~~~~~~p-~mh~~qp~n~~~~~n~np~~~~~ 305 (493)
+|||.|. +|..|.||+..- |+- ++-..|+.|+ +|.-++++|+.++||+|+-..++
T Consensus 232 ~n~P~~~--~~~~p~~~~~ap-------------Ppp---------vs~~~f~~~~~~hs~l~~~~l~~~~N~na~ep~q 287 (389)
T KOG2932|consen 232 QNYPPDS--DNSRPPGFETAP-------------PPP---------VSGIRFPDYPQPHSLLQPPSLPVPMNQNAGEPQQ 287 (389)
T ss_pred ccCCCcc--cCCCCcccccCC-------------CCC---------ccccccccCCCCccccccCCcCCcccCCcCCCCC
Confidence 8999987 888888887653 221 4455899999 88889999999999999988776
Q ss_pred --CCCCCC---CCCCCccC-CCCCCCCCCCCccccccccccCCCCC-CCCCCCCCCCCCC
Q 011117 306 --FPPFPT---EGSQQFYG-APFGMPRPDSVTEVGSEQASLLGFPP-GPPGGVNFPPSYS 358 (493)
Q Consensus 306 --~p~~~~---~g~~~f~~-ap~~m~~~ds~~d~g~~q~s~~g~~p-~p~~~~nf~~~~~ 358 (493)
||.|++ -..+.||. +.|.|.|+.+ .|++|+|+||+|| .+.++.||+++|.
T Consensus 288 ~~~p~y~~~~~~s~~h~~~~~q~h~t~~~~---~~s~~Ss~l~~pp~aagtp~~~~~~~p 344 (389)
T KOG2932|consen 288 FGFPSYPTTESGSSQHFFNGAQYHMTRTES---GGSEQSSLLGYPPPAAGTPLNFQGSYP 344 (389)
T ss_pred CCCCcCCccccccccccccCCcccccCCCC---CCcccccccCCCCCCCCCCccCCCCCC
Confidence 788887 34678876 8999999976 6899999999865 4445667777665
No 2
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.07 E-value=1.8e-06 Score=87.76 Aligned_cols=95 Identities=17% Similarity=0.228 Sum_probs=71.0
Q ss_pred ceEEeecCCeEEEecCccccccccchhhhhhhhhhhh-hhhhcCcccccccCCCccccccccccccccccchhhhh----
Q 011117 24 ETVTVACPDHLVLADLPVAKGIGAATAASLVKTVGRR-SRRQLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR---- 98 (493)
Q Consensus 24 esVtVnc~Dh~VIA~~pvae~~gaatss~~~k~~Grr-SkrqlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~---- 98 (493)
.-||++..+.||++.++|.+-.....-.+..+.+++. =|-+.-.-.+.|+.|+..+....++-+|.|.||..|+.
T Consensus 228 a~imit~EG~yVv~qpdvqsWe~Yq~r~~a~~~~~Dqv~k~~~~~i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~ 307 (427)
T COG5222 228 AAIMITPEGGYVVAQPDVQSWEKYQQRTKAVAEIPDQVYKMQPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALL 307 (427)
T ss_pred cceEEcCCCCeEEeccchHHHHHHHHHHHhhhhCchhhhccCCCCccccCcchhhhhhCcccCccccchHHHHHHhhhhh
Confidence 4589999999999999999544432222233344442 12222222589999999999999999999999999998
Q ss_pred -CCCCcccchHhHhhheeeec
Q 011117 99 -SDSMCYLCDERIQKIQTIKL 118 (493)
Q Consensus 99 -sDktCP~Cna~VqrIEri~p 118 (493)
+|++||.|..+-+.|+-+.+
T Consensus 308 dsDf~CpnC~rkdvlld~l~p 328 (427)
T COG5222 308 DSDFKCPNCSRKDVLLDGLTP 328 (427)
T ss_pred hccccCCCcccccchhhccCc
Confidence 88999999988777776654
No 3
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.06 E-value=1.3e-06 Score=64.61 Aligned_cols=43 Identities=30% Similarity=0.665 Sum_probs=34.8
Q ss_pred ccccCCCccccccccccccccc-cchhhhh----CCCCcccchHhHhhh
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHV-FCLDCAR----SDSMCYLCDERIQKI 113 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHV-FCydCA~----sDktCP~Cna~VqrI 113 (493)
..|.||...... ..+.||+|. ||++|+. ...+||.|++.|++|
T Consensus 3 ~~C~iC~~~~~~-~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~V 50 (50)
T PF13920_consen 3 EECPICFENPRD-VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIESV 50 (50)
T ss_dssp SB-TTTSSSBSS-EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SEE
T ss_pred CCCccCCccCCc-eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcCC
Confidence 579999877655 568899999 9999998 458999999999875
No 4
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=97.97 E-value=3.5e-06 Score=59.37 Aligned_cols=35 Identities=43% Similarity=0.864 Sum_probs=31.3
Q ss_pred ccCCCccccccccccccccccchhhhh------CCCCcccc
Q 011117 72 CVRCDYPIAIYGRLNPCEHVFCLDCAR------SDSMCYLC 106 (493)
Q Consensus 72 CdICdlPI~iygRmIPCKHVFCydCA~------sDktCP~C 106 (493)
|.||...+....++++|+|.||++|+. ...+||+|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 889999999999999999999999998 33679987
No 5
>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=97.92 E-value=4.4e-06 Score=59.28 Aligned_cols=35 Identities=29% Similarity=0.765 Sum_probs=29.7
Q ss_pred ccCCCccccccccccccccccchhhhh----CCCCcccc
Q 011117 72 CVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLC 106 (493)
Q Consensus 72 CdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~C 106 (493)
|+||...+..+..+++|+|+||++|+. ...+||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 889999999988899999999999998 55789987
No 6
>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=97.88 E-value=5.4e-06 Score=56.30 Aligned_cols=40 Identities=38% Similarity=0.688 Sum_probs=33.7
Q ss_pred cccCCCccccccccccccccccchhhhh----C-CCCcccchHhH
Q 011117 71 FCVRCDYPIAIYGRLNPCEHVFCLDCAR----S-DSMCYLCDERI 110 (493)
Q Consensus 71 FCdICdlPI~iygRmIPCKHVFCydCA~----s-DktCP~Cna~V 110 (493)
.|.||...+.....+.+|+|+||.+|+. . ..+||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4899998887888888899999999998 2 46799998753
No 7
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=4e-06 Score=83.86 Aligned_cols=51 Identities=29% Similarity=0.652 Sum_probs=45.4
Q ss_pred hcCcccccccCCCccccccccccccccccchhhhh----CC--CCcccchHhHhhhe
Q 011117 64 QLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SD--SMCYLCDERIQKIQ 114 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~----sD--ktCP~Cna~VqrIE 114 (493)
-.++-...|++|+++=+++.-+-+|.|+|||.|++ .| .+||+|.+.+..++
T Consensus 234 s~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred ccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 45666899999999999999999999999999998 23 69999999998877
No 8
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.84 E-value=6.7e-06 Score=80.02 Aligned_cols=48 Identities=25% Similarity=0.641 Sum_probs=39.4
Q ss_pred ccccccCCCcccccc-------ccccccccccchhhhh----CCCCcccchHhHhhhee
Q 011117 68 RVHFCVRCDYPIAIY-------GRLNPCEHVFCLDCAR----SDSMCYLCDERIQKIQT 115 (493)
Q Consensus 68 KvhFCdICdlPI~iy-------gRmIPCKHVFCydCA~----sDktCP~Cna~VqrIEr 115 (493)
+...|+||...+... +.+.+|.|+||.+|+. ...+||+|+..+..|..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~ 231 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIK 231 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEee
Confidence 468999999877642 4577899999999997 55799999999987764
No 9
>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=97.83 E-value=6e-06 Score=59.55 Aligned_cols=37 Identities=27% Similarity=0.555 Sum_probs=30.9
Q ss_pred cccCCCcccc--ccccccccccccchhhhh----CCCCcccch
Q 011117 71 FCVRCDYPIA--IYGRLNPCEHVFCLDCAR----SDSMCYLCD 107 (493)
Q Consensus 71 FCdICdlPI~--iygRmIPCKHVFCydCA~----sDktCP~Cn 107 (493)
.|.||...|. .....++|+|+||++|+. ...+||.|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999998884 567788899999999998 557999996
No 10
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=1.7e-05 Score=84.27 Aligned_cols=81 Identities=21% Similarity=0.357 Sum_probs=55.4
Q ss_pred EEeecCCeEEEecCccccccccchhhhhh-hhhhhhhhhhcCcccccccCCCccccccccccccccccchhhhh-----C
Q 011117 26 VTVACPDHLVLADLPVAKGIGAATAASLV-KTVGRRSRRQLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR-----S 99 (493)
Q Consensus 26 VtVnc~Dh~VIA~~pvae~~gaatss~~~-k~~GrrSkrqlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~-----s 99 (493)
..|++.+.+||-+-+.+.- +..+.+.+. +++-+ .++-+.+.|+||-.+..+..|+. |+|+||..|+. +
T Consensus 147 ~f~~any~fvv~~gd~~~q-n~dpD~p~~~e~i~q----v~~~t~~~CPICL~~~~~p~~t~-CGHiFC~~CiLqy~~~s 220 (513)
T KOG2164|consen 147 TFLNANYRFVVDEGDYVLQ-NTDPDAPVDWEDIFQ----VYGSTDMQCPICLEPPSVPVRTN-CGHIFCGPCILQYWNYS 220 (513)
T ss_pred hhhccchheeecccchhhh-ccCCccccchHHhhh----hhcCcCCcCCcccCCCCcccccc-cCceeeHHHHHHHHhhh
Confidence 5678888888874333321 222222222 22221 23334899999999999999999 99999999997 1
Q ss_pred ----CCCcccchHhHhh
Q 011117 100 ----DSMCYLCDERIQK 112 (493)
Q Consensus 100 ----DktCP~Cna~Vqr 112 (493)
-..||+|...|..
T Consensus 221 ~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 221 AIKGPCSCPICRSTITL 237 (513)
T ss_pred cccCCccCCchhhhccc
Confidence 1579999999964
No 11
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=97.67 E-value=1.8e-05 Score=59.38 Aligned_cols=41 Identities=7% Similarity=-0.028 Sum_probs=35.6
Q ss_pred ccccCCCccccccccccccccccchhhhh----CCCCcccchHhHh
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERIQ 111 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~Vq 111 (493)
++|+||...+..++. .+|+|+||..|+. ...+||.|+..+.
T Consensus 2 ~~Cpi~~~~~~~Pv~-~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDPVI-LPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCCEE-CCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 589999999999865 5899999999998 5578999998763
No 12
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.66 E-value=1.8e-05 Score=81.97 Aligned_cols=44 Identities=30% Similarity=0.598 Sum_probs=37.7
Q ss_pred ccccccCCCccccccccccccccccchhhhh----CCCCcccchHhHhh
Q 011117 68 RVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERIQK 112 (493)
Q Consensus 68 KvhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~Vqr 112 (493)
..+.|.||...+..++ +++|.|+||..|+. ....||.|+..+..
T Consensus 25 ~~l~C~IC~d~~~~Pv-itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 25 TSLRCHICKDFFDVPV-LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cccCCCcCchhhhCcc-CCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 4689999999888876 68999999999998 34679999998864
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=1.6e-05 Score=75.60 Aligned_cols=48 Identities=27% Similarity=0.556 Sum_probs=38.5
Q ss_pred cccccccCCCccccccc-cccccccccchhhhh----CCCCcccchHhHhhhe
Q 011117 67 ERVHFCVRCDYPIAIYG-RLNPCEHVFCLDCAR----SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 67 EKvhFCdICdlPI~iyg-RmIPCKHVFCydCA~----sDktCP~Cna~VqrIE 114 (493)
|..+-|+||-..+.... ...=|+|+||-.||+ ...+||.|+.+|+.=+
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 33699999998777665 446699999999999 4578999999886544
No 14
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.50 E-value=4.8e-05 Score=72.63 Aligned_cols=44 Identities=20% Similarity=0.482 Sum_probs=36.1
Q ss_pred cccccCCCccccccccccccccccchhhhhC--------------------CCCcccchHhHhhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCARS--------------------DSMCYLCDERIQKI 113 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~s--------------------DktCP~Cna~VqrI 113 (493)
...|+||...++.++. ++|.|+||..|+.. ..+||.|+..|..-
T Consensus 18 ~~~CpICld~~~dPVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 18 DFDCNICLDQVRDPVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred ccCCccCCCcCCCcEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 6899999998888764 67999999999961 14799999998653
No 15
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.44 E-value=4.3e-05 Score=65.99 Aligned_cols=42 Identities=26% Similarity=0.490 Sum_probs=36.6
Q ss_pred cCcccccccCCCccccccccccccccccchhhhh--CC--CCcccch
Q 011117 65 LGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR--SD--SMCYLCD 107 (493)
Q Consensus 65 lgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~--sD--ktCP~Cn 107 (493)
.-+....|+||...+... +++||.|.||..|+. .+ ..||.|+
T Consensus 9 ~~~~~~~C~iC~~~~~~p-~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREP-VLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred hccccccChhhHHHhhcC-ccccccchHhHHHHHHhcCCCcCCcccC
Confidence 344578999999999999 999999999999998 22 6899999
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.35 E-value=7.1e-05 Score=54.62 Aligned_cols=38 Identities=29% Similarity=0.740 Sum_probs=32.1
Q ss_pred cccCCCccc--cccccccccccccchhhhhC----CCCcccchH
Q 011117 71 FCVRCDYPI--AIYGRLNPCEHVFCLDCARS----DSMCYLCDE 108 (493)
Q Consensus 71 FCdICdlPI--~iygRmIPCKHVFCydCA~s----DktCP~Cna 108 (493)
.|.+|-..+ ....++..|.|+||..|+.. ...||.|+.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 488999888 56788999999999999993 458999973
No 17
>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=97.27 E-value=0.00014 Score=47.58 Aligned_cols=34 Identities=32% Similarity=0.867 Sum_probs=26.5
Q ss_pred ccCCCccccccccccccccccchhhhh-----CCCCcccc
Q 011117 72 CVRCDYPIAIYGRLNPCEHVFCLDCAR-----SDSMCYLC 106 (493)
Q Consensus 72 CdICdlPI~iygRmIPCKHVFCydCA~-----sDktCP~C 106 (493)
|.||...+. ..++++|.|+||+.|+. ...+||.|
T Consensus 1 C~iC~~~~~-~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK-DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC-CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 778877644 56677899999999998 34678887
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=97.26 E-value=8.2e-05 Score=73.08 Aligned_cols=46 Identities=28% Similarity=0.773 Sum_probs=36.2
Q ss_pred cccccCCCccccc--------cccccccccccchhhhh---C-------CCCcccchHhHhhhe
Q 011117 69 VHFCVRCDYPIAI--------YGRLNPCEHVFCLDCAR---S-------DSMCYLCDERIQKIQ 114 (493)
Q Consensus 69 vhFCdICdlPI~i--------ygRmIPCKHVFCydCA~---s-------DktCP~Cna~VqrIE 114 (493)
...|.||-..+.. +|-+.+|.|+||.+|++ . ...||+|+.....|.
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~ 233 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT 233 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence 5789999876632 47788999999999998 1 135999999876554
No 19
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.24 E-value=0.00015 Score=53.34 Aligned_cols=34 Identities=29% Similarity=0.603 Sum_probs=24.8
Q ss_pred ccCCCccccccccccccccccchhhhh-----CC---CCcccc
Q 011117 72 CVRCDYPIAIYGRLNPCEHVFCLDCAR-----SD---SMCYLC 106 (493)
Q Consensus 72 CdICdlPI~iygRmIPCKHVFCydCA~-----sD---ktCP~C 106 (493)
|+||...+..++. ++|.|+||..|+. .+ ..||.|
T Consensus 1 CpiC~~~~~~Pv~-l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVS-LPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccc-cCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999988885 5799999999998 11 468887
No 20
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.17 E-value=0.00016 Score=73.71 Aligned_cols=64 Identities=27% Similarity=0.468 Sum_probs=48.4
Q ss_pred cccccCCCccccccccccccccccchhhhh----CCCCcccchHhHhhheeeecCCcEEEecCCchhhhhcChhHHHHhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERIQKIQTIKLMEGIFICAAPHCLKSFLKKTEFEAHI 144 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~VqrIEri~p~esIFIC~~~gCkRtYLSqRDLQAHI 144 (493)
.+-|-||+.-|.++. ..+|.|.||+=||+ ..-.||.|++.-..+. + ++.|++..+++.|.
T Consensus 25 ~lrC~IC~~~i~ip~-~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esr-l--------------r~~s~~~ei~es~~ 88 (391)
T COG5432 25 MLRCRICDCRISIPC-ETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESR-L--------------RGSSGSREINESHA 88 (391)
T ss_pred HHHhhhhhheeecce-ecccccchhHHHHHHHhcCCCCCccccccHHhhh-c--------------ccchhHHHHHHhhh
Confidence 578999999999987 56799999999999 3478999999876554 1 24566666666666
Q ss_pred hhhh
Q 011117 145 HVSH 148 (493)
Q Consensus 145 nhrH 148 (493)
..+-
T Consensus 89 ~~r~ 92 (391)
T COG5432 89 RNRD 92 (391)
T ss_pred hccH
Confidence 4443
No 21
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.0001 Score=80.89 Aligned_cols=41 Identities=24% Similarity=0.637 Sum_probs=34.7
Q ss_pred cccccCCCccccccccccccccccchhhhh-----CCCCcccchHhH
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR-----SDSMCYLCDERI 110 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~-----sDktCP~Cna~V 110 (493)
.+.|+.|+.-.+..+ ++=|+|+||+.|+. .+.+||.|++.-
T Consensus 643 ~LkCs~Cn~R~Kd~v-I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAV-ITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred ceeCCCccCchhhHH-HHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 589999997777765 55599999999998 678999999864
No 22
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.15 E-value=6.9e-05 Score=61.35 Aligned_cols=48 Identities=35% Similarity=0.622 Sum_probs=26.1
Q ss_pred cccccccCCCccccccccccccccccchhhhh--CCCCcccchHhH--hhhe
Q 011117 67 ERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR--SDSMCYLCDERI--QKIQ 114 (493)
Q Consensus 67 EKvhFCdICdlPI~iygRmIPCKHVFCydCA~--sDktCP~Cna~V--qrIE 114 (493)
|+.+-|.+|..-+++++-+-=|.|+||..|++ ..+.||.|+.+. ++|.
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQ 56 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS--
T ss_pred HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHH
Confidence 45789999999999999999999999999998 346799999887 4444
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.01 E-value=0.00025 Score=70.74 Aligned_cols=46 Identities=26% Similarity=0.595 Sum_probs=38.0
Q ss_pred cCcccccccCCCccccccccccccccccchhhhhC------CCCcccchHhHh
Q 011117 65 LGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCARS------DSMCYLCDERIQ 111 (493)
Q Consensus 65 lgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~s------DktCP~Cna~Vq 111 (493)
+.+..+.|.+|...+.... +.||.|+||..|+.. -..||+|++++.
T Consensus 211 ip~~d~kC~lC~e~~~~ps-~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 211 IPLADYKCFLCLEEPEVPS-CTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccccccceeeeecccCCcc-cccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 4567899999998888876 556999999999983 246999999984
No 24
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.98 E-value=0.00026 Score=71.34 Aligned_cols=46 Identities=33% Similarity=0.706 Sum_probs=36.7
Q ss_pred cCcccccccCCCccccccccccccccccchhhhh---CC-CCcccchHhHh
Q 011117 65 LGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR---SD-SMCYLCDERIQ 111 (493)
Q Consensus 65 lgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~---sD-ktCP~Cna~Vq 111 (493)
+-|.+..|.+|-.....+ ...||+|+||-.|+. ++ .-||+|+++.+
T Consensus 235 i~~a~~kC~LCLe~~~~p-SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSNP-SATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCCCCCceEEEecCCCCC-CcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 444578999997777664 478899999999998 33 45999999874
No 25
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.71 E-value=0.00054 Score=69.71 Aligned_cols=42 Identities=26% Similarity=0.497 Sum_probs=33.7
Q ss_pred ccccccCCCccccccccccccccccchhhhh----CC-CCcccchHhH
Q 011117 68 RVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SD-SMCYLCDERI 110 (493)
Q Consensus 68 KvhFCdICdlPI~iygRmIPCKHVFCydCA~----sD-ktCP~Cna~V 110 (493)
+.-.|.||.---..+ ...+|+|.|||-|++ .+ ++|++|+.+|
T Consensus 6 ~~~eC~IC~nt~n~P-v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pi 52 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP-VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPI 52 (324)
T ss_pred cCCcceeeeccCCcC-ccccccchhhhhhhcchhhcCCCCCceecCCC
Confidence 367899998666666 456699999999999 34 5699999988
No 26
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=96.67 E-value=0.0003 Score=72.85 Aligned_cols=96 Identities=25% Similarity=0.358 Sum_probs=59.7
Q ss_pred cccccCCCccccccccccccccccchhhhh---C-CCCcccchHhHhhheeeecCCcEEEecCCchhhhhcChhHHHHhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR---S-DSMCYLCDERIQKIQTIKLMEGIFICAAPHCLKSFLKKTEFEAHI 144 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~---s-DktCP~Cna~VqrIEri~p~esIFIC~~~gCkRtYLSqRDLQAHI 144 (493)
.+-|-||..=|+++. ++||.|.||-=||+ . ...||.|...++.-. ++ ++ || +.-=.+.|..-|
T Consensus 23 lLRC~IC~eyf~ip~-itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~-Lr-~n--~i--l~Eiv~S~~~~R------ 89 (442)
T KOG0287|consen 23 LLRCGICFEYFNIPM-ITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESD-LR-NN--RI--LDEIVKSLNFAR------ 89 (442)
T ss_pred HHHHhHHHHHhcCce-eccccchHHHHHHHHHhccCCCCCceecccchhh-hh-hh--hH--HHHHHHHHHHHH------
Confidence 578999987777765 88899999999999 3 367999999886543 21 12 11 111233333333
Q ss_pred hhhhccccCCccccccccc-cc----ccccCCCcCCccc
Q 011117 145 HVSHADLLLQPNAEKEDNE-SE----SAKQPTVSESSVR 178 (493)
Q Consensus 145 nhrH~~l~Lqpn~~ke~ne-~q----~~~~~~~~~s~ar 178 (493)
+|--.+| +.+++-+.+++ +. ++-.+.+++|.-.
T Consensus 90 ~~Ll~fl-~~~~~p~P~~~~~p~~~ve~~~~~~S~s~~~ 127 (442)
T KOG0287|consen 90 NHLLQFL-LESPAPSPASSSSPNLAVEVYTPVASRSSLK 127 (442)
T ss_pred HHHHHHH-hcCCCCCcccccCCccceeeecccccccchh
Confidence 5666677 55667666654 44 3334445554433
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=96.30 E-value=0.002 Score=65.50 Aligned_cols=45 Identities=27% Similarity=0.566 Sum_probs=31.7
Q ss_pred ccccCCCcc--ccccc--cccccccccchhhhh-----CCCCcccchHhHhhhe
Q 011117 70 HFCVRCDYP--IAIYG--RLNPCEHVFCLDCAR-----SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 70 hFCdICdlP--I~iyg--RmIPCKHVFCydCA~-----sDktCP~Cna~VqrIE 114 (493)
..|++|..- +.-.. .+.+|+|.||..|+. ....||.|+..+..-+
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 579999853 22222 122799999999998 2368999988776544
No 28
>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=96.29 E-value=0.0018 Score=52.29 Aligned_cols=37 Identities=30% Similarity=0.777 Sum_probs=28.6
Q ss_pred cccCCCccc------------cccccccccccccchhhhh----CCCCcccch
Q 011117 71 FCVRCDYPI------------AIYGRLNPCEHVFCLDCAR----SDSMCYLCD 107 (493)
Q Consensus 71 FCdICdlPI------------~iygRmIPCKHVFCydCA~----sDktCP~Cn 107 (493)
.|.||..+| ...+.+.+|+|+|...|+. ...+||+|+
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 399999888 3444666899999999998 447999996
No 29
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.21 E-value=0.0018 Score=63.57 Aligned_cols=47 Identities=19% Similarity=0.388 Sum_probs=38.8
Q ss_pred cccccCCCccccccccccccccccchhhhh-------CCCCcccchHhHhhheee
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR-------SDSMCYLCDERIQKIQTI 116 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~-------sDktCP~Cna~VqrIEri 116 (493)
.+.|-||-...+.++.+ +|.|.||--|+. ..+.||.|+.+|+.-+-+
T Consensus 47 ~FdCNICLd~akdPVvT-lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vv 100 (230)
T KOG0823|consen 47 FFDCNICLDLAKDPVVT-LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVV 100 (230)
T ss_pred ceeeeeeccccCCCEEe-ecccceehHHHHHHHhhcCCCeeCCccccccccceEE
Confidence 68999998888888854 599999999998 336799999999665544
No 30
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.18 E-value=0.0017 Score=65.92 Aligned_cols=42 Identities=26% Similarity=0.589 Sum_probs=36.1
Q ss_pred ccccCCCccccccccccccccccchhhhhC----CCCcccchHhHhh
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFCLDCARS----DSMCYLCDERIQK 112 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFCydCA~s----DktCP~Cna~Vqr 112 (493)
+-|.||..++..+++.- |+|.||..|+.+ ...|++|...+..
T Consensus 242 f~c~icr~~f~~pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred ccccccccccccchhhc-CCceeehhhhccccccCCcceeccccccc
Confidence 55999999999999888 999999999982 3679999987643
No 31
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.0039 Score=64.38 Aligned_cols=51 Identities=27% Similarity=0.595 Sum_probs=42.1
Q ss_pred cccccccCCCccccccccccccccc-cchhhhh----CCCCcccchHhHhhheeeec
Q 011117 67 ERVHFCVRCDYPIAIYGRLNPCEHV-FCLDCAR----SDSMCYLCDERIQKIQTIKL 118 (493)
Q Consensus 67 EKvhFCdICdlPI~iygRmIPCKHV-FCydCA~----sDktCP~Cna~VqrIEri~p 118 (493)
|....|.||....+.-. +.||.|. .|-+|++ ....||+|+..|...=.|..
T Consensus 288 ~~gkeCVIClse~rdt~-vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i~~ 343 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTV-VLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEIYV 343 (349)
T ss_pred cCCCeeEEEecCCcceE-EecchhhehhHhHHHHHHHhhcCCCccccchHhhheecc
Confidence 55789999998888744 7889999 9999999 45789999999987665554
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=95.63 E-value=0.0049 Score=46.28 Aligned_cols=25 Identities=40% Similarity=0.894 Sum_probs=15.3
Q ss_pred ccCCCccccc----cccccccccccchhhhh
Q 011117 72 CVRCDYPIAI----YGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 72 CdICdlPI~i----ygRmIPCKHVFCydCA~ 98 (493)
|+||.. +.. +++ ++|.|+||.+|+.
T Consensus 1 CpIc~e-~~~~~n~P~~-L~CGH~~c~~cl~ 29 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMV-LPCGHVFCKDCLQ 29 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEHHHHH
T ss_pred CCcccc-ccCCCCCCEE-EeCccHHHHHHHH
Confidence 889987 766 555 5599999999997
No 33
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.0051 Score=65.07 Aligned_cols=42 Identities=24% Similarity=0.572 Sum_probs=36.4
Q ss_pred cccccCCCcccccc----ccccccccccchhhhh----CCCCcccchHhH
Q 011117 69 VHFCVRCDYPIAIY----GRLNPCEHVFCLDCAR----SDSMCYLCDERI 110 (493)
Q Consensus 69 vhFCdICdlPI~iy----gRmIPCKHVFCydCA~----sDktCP~Cna~V 110 (493)
...|.||-..+..- .+..||.|+||..|.+ .+.+||.|+..+
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 68999999888775 6777899999999998 679999999933
No 34
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.43 E-value=0.0079 Score=58.27 Aligned_cols=50 Identities=20% Similarity=0.395 Sum_probs=39.7
Q ss_pred cccccccCCCccccc---cccccccccccchhhhh--C-CCCcccchHhHhhheee
Q 011117 67 ERVHFCVRCDYPIAI---YGRLNPCEHVFCLDCAR--S-DSMCYLCDERIQKIQTI 116 (493)
Q Consensus 67 EKvhFCdICdlPI~i---ygRmIPCKHVFCydCA~--s-DktCP~Cna~VqrIEri 116 (493)
+-.+.|+++++.|.- .+-+.||+||||+.|+. . +..|+.|.......+-|
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTEEDII 166 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccccCCEE
Confidence 346899999999854 44467999999999998 4 66899999998654433
No 35
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.39 E-value=0.0052 Score=63.11 Aligned_cols=47 Identities=28% Similarity=0.569 Sum_probs=36.5
Q ss_pred ccccccCCCccccccc-------cccccccccchhhhh------C-----CCCcccchHhHhhhe
Q 011117 68 RVHFCVRCDYPIAIYG-------RLNPCEHVFCLDCAR------S-----DSMCYLCDERIQKIQ 114 (493)
Q Consensus 68 KvhFCdICdlPI~iyg-------RmIPCKHVFCydCA~------s-----DktCP~Cna~VqrIE 114 (493)
+..+|.||...|.... -+.+|+|+||..||+ . .+.||.|+.....|-
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~ 224 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN 224 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence 3689999998776654 235699999999998 2 267999998886554
No 36
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=95.38 E-value=0.0067 Score=63.86 Aligned_cols=52 Identities=23% Similarity=0.479 Sum_probs=42.0
Q ss_pred hcCcccccccCCCccccccc------------cccccccccchhhhh----CCCCcccchHhHhhhee
Q 011117 64 QLGERVHFCVRCDYPIAIYG------------RLNPCEHVFCLDCAR----SDSMCYLCDERIQKIQT 115 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iyg------------RmIPCKHVFCydCA~----sDktCP~Cna~VqrIEr 115 (493)
|++-...+|.||.....-.. +-.||+|.|=+.|.+ ...+||+|+..|..-++
T Consensus 282 ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~ 349 (491)
T COG5243 282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQS 349 (491)
T ss_pred hhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence 45666899999997744444 678899999999998 67999999999866554
No 37
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.34 E-value=0.0059 Score=60.12 Aligned_cols=47 Identities=30% Similarity=0.723 Sum_probs=36.2
Q ss_pred ccccCCC-ccccccccccccccccchhhhhCC--CCcccchHhHhhheeee
Q 011117 70 HFCVRCD-YPIAIYGRLNPCEHVFCLDCARSD--SMCYLCDERIQKIQTIK 117 (493)
Q Consensus 70 hFCdICd-lPI~iygRmIPCKHVFCydCA~sD--ktCP~Cna~VqrIEri~ 117 (493)
..|-.|. ++=.+.-.+.-|.||||..|.... -.|++|+.. ++|.++.
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~-ir~i~l~ 53 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPDVCPLCKKS-IRIIQLN 53 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCccccccccce-eeeeecc
Confidence 3477777 455788888889999999999943 389999999 4555554
No 38
>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=95.33 E-value=0.0077 Score=48.23 Aligned_cols=44 Identities=9% Similarity=0.054 Sum_probs=32.9
Q ss_pred cccccCCCccccccccccccccccchhhhh----C-CCCcccchHhHhhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----S-DSMCYLCDERIQKI 113 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~----s-DktCP~Cna~VqrI 113 (493)
.+.|+||...+..++++ ||.|+||..|+. . ..+||.|+..+..-
T Consensus 4 ~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 47899999999999965 688999999998 3 58999998887643
No 39
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.21 E-value=0.0027 Score=65.89 Aligned_cols=50 Identities=20% Similarity=0.555 Sum_probs=42.7
Q ss_pred cccccCCCccccccccccccccccchhhhh-----CCCCcccchHhHhhheeeec
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR-----SDSMCYLCDERIQKIQTIKL 118 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~-----sDktCP~Cna~VqrIEri~p 118 (493)
...|+||-..|+.-...-=|.|.||.+||- ..+.||-|+.....=..|..
T Consensus 43 ~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~ 97 (381)
T KOG0311|consen 43 QVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRI 97 (381)
T ss_pred hhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCC
Confidence 578999998888888888899999999997 56899999999876665654
No 40
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.06 E-value=0.019 Score=60.24 Aligned_cols=114 Identities=25% Similarity=0.404 Sum_probs=82.4
Q ss_pred hhhhcCcccccccCCCccccccccccccccccchhhhh------CCCCcccchHhHhhheeeec--------------CC
Q 011117 61 SRRQLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR------SDSMCYLCDERIQKIQTIKL--------------ME 120 (493)
Q Consensus 61 SkrqlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~------sDktCP~Cna~VqrIEri~p--------------~e 120 (493)
|+..-.|..-.|-||..-| +|..+.||.|-.|.-|+- ..+.|++|+.+-..|-.... +|
T Consensus 53 SaddtDEen~~C~ICA~~~-TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI~D~~~~k~~~E 131 (493)
T COG5236 53 SADDTDEENMNCQICAGST-TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADITDRRQWKGREE 131 (493)
T ss_pred cccccccccceeEEecCCc-eEEEeccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcchhHhhhccccc
Confidence 3445566678999997665 578899999999999996 55889999987554433221 11
Q ss_pred --cE----------------EEecCCchhhhhcChhHHHHhhhhhhccccCCccccc--cc--cc------ccccccCCC
Q 011117 121 --GI----------------FICAAPHCLKSFLKKTEFEAHIHVSHADLLLQPNAEK--ED--NE------SESAKQPTV 172 (493)
Q Consensus 121 --sI----------------FIC~~~gCkRtYLSqRDLQAHInhrH~~l~Lqpn~~k--e~--ne------~q~~~~~~~ 172 (493)
+| |-|...-|.++--...+|+.|.+-.|.++ +=..|.+ .+ +| .++++--++
T Consensus 132 K~GI~y~~E~v~~E~~~LL~F~CP~skc~~~C~~~k~lk~H~K~~H~~~-~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~ 210 (493)
T COG5236 132 KVGIFYEGEDVRDEMEDLLSFKCPKSKCHRRCGSLKELKKHYKAQHGFV-LCSECIGNKKDFWNEIRLFRSSTLRDHKNG 210 (493)
T ss_pred ceeeeecchHHHHHHHHHHHhcCCchhhhhhhhhHHHHHHHHHhhcCcE-EhHhhhcCcccCccceeeeecccccccccC
Confidence 12 47888999999999999999999999998 5566643 33 55 455555566
Q ss_pred cCCc
Q 011117 173 SESS 176 (493)
Q Consensus 173 ~~s~ 176 (493)
+++-
T Consensus 211 G~~e 214 (493)
T COG5236 211 GLEE 214 (493)
T ss_pred Cccc
Confidence 6544
No 41
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.98 E-value=0.013 Score=59.61 Aligned_cols=62 Identities=27% Similarity=0.560 Sum_probs=43.7
Q ss_pred hhhhhhhhhhhhhhhcCcc---cccccCCCccccccc----------cccccccccchhhhh------CCCCcccchHhH
Q 011117 50 AASLVKTVGRRSRRQLGER---VHFCVRCDYPIAIYG----------RLNPCEHVFCLDCAR------SDSMCYLCDERI 110 (493)
Q Consensus 50 ss~~~k~~GrrSkrqlgEK---vhFCdICdlPI~iyg----------RmIPCKHVFCydCA~------sDktCP~Cna~V 110 (493)
|...|.++|=-|+..+-.| ...|.+|+.-|.+-. ++. |.|+|=+.||+ +..+||-|+++|
T Consensus 202 sd~mAs~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 202 SDYMASTIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred HHHHHHHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHh
Confidence 3444455555554443333 688999997765433 444 99999999999 568999999998
Q ss_pred hh
Q 011117 111 QK 112 (493)
Q Consensus 111 qr 112 (493)
..
T Consensus 281 dl 282 (328)
T KOG1734|consen 281 DL 282 (328)
T ss_pred hH
Confidence 53
No 42
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=94.91 E-value=0.0051 Score=63.12 Aligned_cols=43 Identities=26% Similarity=0.525 Sum_probs=37.3
Q ss_pred cccccCCCccccccccccccccccchhhhh----CCCCcccchHhHh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERIQ 111 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~Vq 111 (493)
-..|.+|+--|...--++=|.|.||-.|+. ..+.||.|+..|.
T Consensus 15 ~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 15 HITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred ceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 467889998888888888899999999998 5689999998774
No 43
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.34 E-value=0.018 Score=46.92 Aligned_cols=48 Identities=25% Similarity=0.657 Sum_probs=35.3
Q ss_pred CcccccccCCC-ccccccccccccccc-cchhhhh-----CCCCcccchHhHhhhee
Q 011117 66 GERVHFCVRCD-YPIAIYGRLNPCEHV-FCLDCAR-----SDSMCYLCDERIQKIQT 115 (493)
Q Consensus 66 gEKvhFCdICd-lPI~iygRmIPCKHV-FCydCA~-----sDktCP~Cna~VqrIEr 115 (493)
++-.-.|.||- .|+.. .+--|.|. .||+|.. ....||+|++.|.+|-+
T Consensus 4 ~~~~dECTICye~pvds--VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIk 58 (62)
T KOG4172|consen 4 GQWSDECTICYEHPVDS--VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIK 58 (62)
T ss_pred cccccceeeeccCcchH--HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHH
Confidence 34457899996 34332 34459998 9999998 23689999999998743
No 44
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.32 E-value=0.013 Score=60.33 Aligned_cols=42 Identities=26% Similarity=0.534 Sum_probs=35.0
Q ss_pred cccccCCCccc--cccccccccccccchhhhh---C--CCCcccchHhH
Q 011117 69 VHFCVRCDYPI--AIYGRLNPCEHVFCLDCAR---S--DSMCYLCDERI 110 (493)
Q Consensus 69 vhFCdICdlPI--~iygRmIPCKHVFCydCA~---s--DktCP~Cna~V 110 (493)
+-.|.||-.-+ ...++..||+|+|=-.|+. . ...||.|+.+|
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence 68999998544 4678999999999999998 3 36899999876
No 45
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.87 E-value=0.021 Score=60.07 Aligned_cols=43 Identities=26% Similarity=0.746 Sum_probs=36.0
Q ss_pred cccccCCC-ccccccccccccccccchhhhh----CCCCcccchHhHhhh
Q 011117 69 VHFCVRCD-YPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERIQKI 113 (493)
Q Consensus 69 vhFCdICd-lPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~VqrI 113 (493)
...|+||= .||.. ...||+|.-||+||. ..+.|-.|+..|+.+
T Consensus 422 d~lCpICyA~pi~A--vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~ 469 (489)
T KOG4692|consen 422 DNLCPICYAGPINA--VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDV 469 (489)
T ss_pred cccCcceecccchh--hccCCCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence 46677886 88876 467999999999998 568999999999874
No 46
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=93.75 E-value=0.025 Score=55.80 Aligned_cols=45 Identities=27% Similarity=0.546 Sum_probs=36.6
Q ss_pred cCcc-cccccCCCccccccccccccccccchhhhh----CCCCcccchHhH
Q 011117 65 LGER-VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERI 110 (493)
Q Consensus 65 lgEK-vhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~V 110 (493)
.+|+ -+.|.||.+-+..++.+. |.|.||..|+. ...+|-.|....
T Consensus 191 ~~e~IPF~C~iCKkdy~spvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 191 PGEKIPFLCGICKKDYESPVVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred CCCCCceeehhchhhccchhhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence 3444 368999999999998777 99999999998 336799998765
No 47
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.66 E-value=0.02 Score=59.13 Aligned_cols=41 Identities=27% Similarity=0.650 Sum_probs=33.8
Q ss_pred cccCCCccc--cccccccccccccchhhhh----CC-CCcccchHhHh
Q 011117 71 FCVRCDYPI--AIYGRLNPCEHVFCLDCAR----SD-SMCYLCDERIQ 111 (493)
Q Consensus 71 FCdICdlPI--~iygRmIPCKHVFCydCA~----sD-ktCP~Cna~Vq 111 (493)
.|.||-..+ ....|.+||+|.|=-.|+. .. ++||+|+..|-
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred eEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 899998554 5678999999999999998 22 66999998663
No 48
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=93.17 E-value=0.043 Score=56.58 Aligned_cols=78 Identities=18% Similarity=0.415 Sum_probs=56.2
Q ss_pred ccccccCCCccccccccccccccccchhhhh----CCCCcccchHhHhhheeeecC--------C--cEEEecCCchhhh
Q 011117 68 RVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERIQKIQTIKLM--------E--GIFICAAPHCLKS 133 (493)
Q Consensus 68 KvhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~VqrIEri~p~--------e--sIFIC~~~gCkRt 133 (493)
..+.|.+|...+..+....-|.|.||..|+. ....|+.|+..+.-.+.+... + -+.+++..+|...
T Consensus 20 ~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~GC~~~ 99 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASRGCRAD 99 (391)
T ss_pred ccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCCCcccc
Confidence 3689999999999999877799999999998 336899998877766655310 1 1234456777665
Q ss_pred hcChhHHHHhhhh
Q 011117 134 FLKKTEFEAHIHV 146 (493)
Q Consensus 134 YLSqRDLQAHInh 146 (493)
+..+.|+.|...
T Consensus 100 -~~l~~~~~Hl~~ 111 (391)
T KOG0297|consen 100 -LELEALQGHLST 111 (391)
T ss_pred -ccHHHHHhHhcc
Confidence 455666667433
No 49
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.15 E-value=0.039 Score=55.73 Aligned_cols=46 Identities=17% Similarity=0.299 Sum_probs=37.4
Q ss_pred ccccccCCCcccccc---ccccccccccchhhhh----CCCCcccchHhHhhh
Q 011117 68 RVHFCVRCDYPIAIY---GRLNPCEHVFCLDCAR----SDSMCYLCDERIQKI 113 (493)
Q Consensus 68 KvhFCdICdlPI~iy---gRmIPCKHVFCydCA~----sDktCP~Cna~VqrI 113 (493)
+-+.|++|..-+..- ..+-||+||||++|++ .|.+||+|+.+..+-
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR 272 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence 468999998665543 3467999999999998 789999999987643
No 50
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.85 E-value=0.047 Score=52.43 Aligned_cols=40 Identities=30% Similarity=0.660 Sum_probs=34.1
Q ss_pred ccCCCccccccccccccccc-cchhhhhCCCCcccchHhHhh
Q 011117 72 CVRCDYPIAIYGRLNPCEHV-FCLDCARSDSMCYLCDERIQK 112 (493)
Q Consensus 72 CdICdlPI~iygRmIPCKHV-FCydCA~sDktCP~Cna~Vqr 112 (493)
|-+|.+-=.. +-+.||.|. +|..|..+-.+||.|+..++.
T Consensus 161 Cr~C~~~~~~-VlllPCrHl~lC~~C~~~~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGEREAT-VLLLPCRHLCLCGICDESLRICPICRSPKTS 201 (207)
T ss_pred ceecCcCCce-EEeecccceEecccccccCccCCCCcChhhc
Confidence 9999855444 789999998 999999988889999988754
No 51
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.62 E-value=0.06 Score=59.51 Aligned_cols=43 Identities=26% Similarity=0.679 Sum_probs=36.7
Q ss_pred ccccCCCccccccccccccccccchhhhh------CCCCcccchHhHhhhe
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFCLDCAR------SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFCydCA~------sDktCP~Cna~VqrIE 114 (493)
++|.+|.. ....-.++|+|.||++|.. .+..|++|+..+..-+
T Consensus 455 ~~c~ic~~--~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD--LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc--cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 99999988 7777789999999999998 3357999999986544
No 52
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.53 E-value=0.06 Score=55.98 Aligned_cols=45 Identities=29% Similarity=0.685 Sum_probs=35.0
Q ss_pred ccccCCCccccccccccccccccc-hhhhhCCCCcccchHhHhhhee
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFC-LDCARSDSMCYLCDERIQKIQT 115 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFC-ydCA~sDktCP~Cna~VqrIEr 115 (493)
.-|.+|...... ...+||.|+-| -.|++...+||.|+.+|+.+-+
T Consensus 306 ~lcVVcl~e~~~-~~fvpcGh~ccct~cs~~l~~CPvCR~rI~~~~k 351 (355)
T KOG1571|consen 306 DLCVVCLDEPKS-AVFVPCGHVCCCTLCSKHLPQCPVCRQRIRLVRK 351 (355)
T ss_pred CceEEecCCccc-eeeecCCcEEEchHHHhhCCCCchhHHHHHHHHH
Confidence 569999977766 67899999954 4445566779999999987653
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=92.46 E-value=0.061 Score=42.39 Aligned_cols=30 Identities=17% Similarity=0.145 Sum_probs=23.8
Q ss_pred cccccCCCccccccccccccccccchhhhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~ 98 (493)
.+.|+|...+|..+++..-|+|+|..+.+.
T Consensus 11 ~~~CPiT~~~~~~PV~s~~C~H~fek~aI~ 40 (57)
T PF11789_consen 11 SLKCPITLQPFEDPVKSKKCGHTFEKEAIL 40 (57)
T ss_dssp -SB-TTTSSB-SSEEEESSS--EEEHHHHH
T ss_pred ccCCCCcCChhhCCcCcCCCCCeecHHHHH
Confidence 689999999999999999999999999887
No 54
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=92.32 E-value=0.082 Score=55.14 Aligned_cols=43 Identities=19% Similarity=0.351 Sum_probs=37.5
Q ss_pred CCcEEEecCCchhhhhcChhHHHHhhhhhhccccCCccccccc
Q 011117 119 MEGIFICAAPHCLKSFLKKTEFEAHIHVSHADLLLQPNAEKED 161 (493)
Q Consensus 119 ~esIFIC~~~gCkRtYLSqRDLQAHInhrH~~l~Lqpn~~ke~ 161 (493)
+|..|.|.+.+|.|+|.|+.-|+||..|-|..-+|.++..-|-
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~ 388 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEK 388 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccc
Confidence 4689999999999999999999999999999888877764433
No 55
>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=92.17 E-value=0.1 Score=31.94 Aligned_cols=24 Identities=42% Similarity=0.818 Sum_probs=19.5
Q ss_pred EEecCCchhhhhcChhHHHHhhhhhh
Q 011117 123 FICAAPHCLKSFLKKTEFEAHIHVSH 148 (493)
Q Consensus 123 FIC~~~gCkRtYLSqRDLQAHInhrH 148 (493)
|.|.. |.++|.+..+|+.|+...|
T Consensus 1 ~~C~~--C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPI--CGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SS--TS-EESSHHHHHHHHHHHS
T ss_pred CCCcC--CCCcCCcHHHHHHHHHhhC
Confidence 67777 9999999999999998766
No 56
>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=91.90 E-value=0.11 Score=32.76 Aligned_cols=23 Identities=35% Similarity=0.745 Sum_probs=20.3
Q ss_pred EEecCCchhhhhcChhHHHHhhhhhh
Q 011117 123 FICAAPHCLKSFLKKTEFEAHIHVSH 148 (493)
Q Consensus 123 FIC~~~gCkRtYLSqRDLQAHInhrH 148 (493)
|.|. .|.|.|.+..+|+.||+. |
T Consensus 1 y~C~--~C~~~f~~~~~l~~H~~~-H 23 (23)
T PF00096_consen 1 YKCP--ICGKSFSSKSNLKRHMRR-H 23 (23)
T ss_dssp EEET--TTTEEESSHHHHHHHHHH-H
T ss_pred CCCC--CCCCccCCHHHHHHHHhH-C
Confidence 5666 799999999999999987 5
No 57
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=91.67 E-value=0.05 Score=58.00 Aligned_cols=49 Identities=24% Similarity=0.633 Sum_probs=37.9
Q ss_pred ccccccCCCccccccccccccccccchhhhh----CC--CCcccchHhHhhheeee
Q 011117 68 RVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SD--SMCYLCDERIQKIQTIK 117 (493)
Q Consensus 68 KvhFCdICdlPI~iygRmIPCKHVFCydCA~----sD--ktCP~Cna~VqrIEri~ 117 (493)
....|-||..-=+. +++-||.|..|-.|.. +| .+||.|+.+|..-|.+.
T Consensus 368 TFeLCKICaendKd-vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~vi 422 (563)
T KOG1785|consen 368 TFELCKICAENDKD-VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVI 422 (563)
T ss_pred hHHHHHHhhccCCC-cccccccchHHHHHHHhhcccCCCCCCCceeeEecccccee
Confidence 35779999744333 5668999999999997 33 78999999998777664
No 58
>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=91.55 E-value=0.076 Score=43.09 Aligned_cols=30 Identities=27% Similarity=0.593 Sum_probs=25.2
Q ss_pred cccccCCCcccc-ccccccccccccchhhhh
Q 011117 69 VHFCVRCDYPIA-IYGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 69 vhFCdICdlPI~-iygRmIPCKHVFCydCA~ 98 (493)
.-.|.+|+++|. ....+.||.|+|.+.|++
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 567999998887 455678999999999985
No 59
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=91.53 E-value=0.068 Score=60.64 Aligned_cols=56 Identities=16% Similarity=0.377 Sum_probs=38.0
Q ss_pred ccccCCCcccccc--ccccccccccchhhhh----CCCCcccchHhHhhheeeec--CCcEEEe
Q 011117 70 HFCVRCDYPIAIY--GRLNPCEHVFCLDCAR----SDSMCYLCDERIQKIQTIKL--MEGIFIC 125 (493)
Q Consensus 70 hFCdICdlPI~iy--gRmIPCKHVFCydCA~----sDktCP~Cna~VqrIEri~p--~esIFIC 125 (493)
.+|++|-+-+... +.-++|.|.||..|+. ...+||+|+.+..+|.-+.- .+.||-|
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~~~~vR~ 187 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGIEANVRC 187 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeeeccccccceeEe
Confidence 5788886555432 3457899999999998 45899999988766553321 2246664
No 60
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=91.15 E-value=0.08 Score=58.12 Aligned_cols=42 Identities=26% Similarity=0.616 Sum_probs=35.8
Q ss_pred cccccCCCccccccccccccccccchhhhh---------CCCCcccchHhHh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR---------SDSMCYLCDERIQ 111 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~---------sDktCP~Cna~Vq 111 (493)
...|-+|+.|...|+..- |.|+||--|+. .+-+||.|.....
T Consensus 536 ~~~C~lc~d~aed~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 536 EVECGLCHDPAEDYIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ceeecccCChhhhhHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 689999999999999776 99999999996 2368999986653
No 61
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.69 E-value=0.099 Score=54.88 Aligned_cols=44 Identities=27% Similarity=0.699 Sum_probs=36.6
Q ss_pred ccccccCCCccccccccccccccccchhhhh----CCCCcccchHhHhh
Q 011117 68 RVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERIQK 112 (493)
Q Consensus 68 KvhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~Vqr 112 (493)
+.+.|.+|..-+-.++.+ ||.|.||..|+. ...-||.|++.+..
T Consensus 83 sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 83 SEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred chhhhhhhHhhcCCCccc-cccccccHHHHHHHhccCCCCccccccccc
Confidence 468999998877777777 999999999976 34679999998865
No 62
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.64 E-value=0.1 Score=53.82 Aligned_cols=47 Identities=23% Similarity=0.590 Sum_probs=38.5
Q ss_pred cccccCCC-ccccccccccccccc-cchhhhhCCCCcccchHhHhhheeee
Q 011117 69 VHFCVRCD-YPIAIYGRLNPCEHV-FCLDCARSDSMCYLCDERIQKIQTIK 117 (493)
Q Consensus 69 vhFCdICd-lPI~iygRmIPCKHV-FCydCA~sDktCP~Cna~VqrIEri~ 117 (493)
...|.||- .||-. ..++|.|- -|+.|-+....||+|+..|+++.+|.
T Consensus 300 ~~LC~ICmDaP~DC--vfLeCGHmVtCt~CGkrm~eCPICRqyi~rvvrif 348 (350)
T KOG4275|consen 300 RRLCAICMDAPRDC--VFLECGHMVTCTKCGKRMNECPICRQYIVRVVRIF 348 (350)
T ss_pred HHHHHHHhcCCcce--EEeecCcEEeehhhccccccCchHHHHHHHHHhhh
Confidence 46799996 44433 47889995 89999998889999999999998875
No 63
>PHA03096 p28-like protein; Provisional
Probab=89.31 E-value=0.15 Score=51.29 Aligned_cols=48 Identities=25% Similarity=0.396 Sum_probs=36.5
Q ss_pred ccccCCCccccc-------cccccccccccchhhhh----------CCCCcccchHhHhhheeee
Q 011117 70 HFCVRCDYPIAI-------YGRLNPCEHVFCLDCAR----------SDSMCYLCDERIQKIQTIK 117 (493)
Q Consensus 70 hFCdICdlPI~i-------ygRmIPCKHVFCydCA~----------sDktCP~Cna~VqrIEri~ 117 (493)
..|.||...+.. ++-+-=|+|+||..|++ ....|+.|+.-+..|+...
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~~~v~~~~ 243 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVIVFIEKIN 243 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHHHHHhhcc
Confidence 789999977663 45566899999999998 1256778888887776554
No 64
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=88.75 E-value=0.11 Score=52.74 Aligned_cols=70 Identities=26% Similarity=0.374 Sum_probs=52.9
Q ss_pred cCcccccccCCCccccccccccccccccchhhhh-CCCCcccchHhHhhheeeecCC-----cEEEecC--Cchhhhhc
Q 011117 65 LGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR-SDSMCYLCDERIQKIQTIKLME-----GIFICAA--PHCLKSFL 135 (493)
Q Consensus 65 lgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~-sDktCP~Cna~VqrIEri~p~e-----sIFIC~~--~gCkRtYL 135 (493)
.--.++.||+|-..|.+++.-=.=.|.-|.+|.. ..+.||.|+-.|..|.-+ .+| .++.|.+ -||.++|-
T Consensus 44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~-amEkV~e~~~vpC~~~~~GC~~~~~ 121 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCR-AMEKVAEAVLVPCKNAKLGCTKSFP 121 (299)
T ss_pred cchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHHH-HHHHHHHhceecccccccCCceeec
Confidence 3334799999999988888766668999999995 778999999999877533 234 4778873 56666553
No 65
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=87.86 E-value=0.18 Score=53.77 Aligned_cols=81 Identities=17% Similarity=0.403 Sum_probs=55.3
Q ss_pred hcCcccccccCCCcccccc---ccccccccccchhhhh------CCCCcccchHhHhhheeeecCCcEEEec--CCchh-
Q 011117 64 QLGERVHFCVRCDYPIAIY---GRLNPCEHVFCLDCAR------SDSMCYLCDERIQKIQTIKLMEGIFICA--APHCL- 131 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iy---gRmIPCKHVFCydCA~------sDktCP~Cna~VqrIEri~p~esIFIC~--~~gCk- 131 (493)
...|-.++|-.|+.-|..+ .-.+||-|+|=..|+. .+.+||.|+..+..|.+-+--+++-.=+ ..+|.
T Consensus 360 ~~~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs~~rpgfvgs~~Vesest~~~vT 439 (518)
T KOG1941|consen 360 CVEETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSSMKRPGFVGSVPVESESTDRCVT 439 (518)
T ss_pred HHHHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhhccCCCCcCCCcccccccccccc
Confidence 3555689999999887654 4578999999999997 5689999998888888655434433211 24443
Q ss_pred -hhhcChhHHHHhh
Q 011117 132 -KSFLKKTEFEAHI 144 (493)
Q Consensus 132 -RtYLSqRDLQAHI 144 (493)
..-+|-++|+-.|
T Consensus 440 aasTfntnSls~d~ 453 (518)
T KOG1941|consen 440 AASTFNTNSLSVDG 453 (518)
T ss_pred hhhhccccchhhhh
Confidence 2344555565554
No 66
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=87.22 E-value=0.34 Score=52.24 Aligned_cols=78 Identities=21% Similarity=0.297 Sum_probs=52.7
Q ss_pred cccccCCCccc---cccccccccccccchhhhh--CCCCcccchHhHh-------hheeeecCCcEEEe---cCCchhhh
Q 011117 69 VHFCVRCDYPI---AIYGRLNPCEHVFCLDCAR--SDSMCYLCDERIQ-------KIQTIKLMEGIFIC---AAPHCLKS 133 (493)
Q Consensus 69 vhFCdICdlPI---~iygRmIPCKHVFCydCA~--sDktCP~Cna~Vq-------rIEri~p~esIFIC---~~~gCkRt 133 (493)
.-.|++|-.-. ..-++.|.|-|.|=-.|.. .+.+||.|+---+ ..-.|...++|+|| .+-+|.|+
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q~p~~ve~~~c~~c~~~~~LwicliCg~vgcgrY 254 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQSPSVVESSLCLACGCTEDLWICLICGNVGCGRY 254 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhcCcchhhhhhhhhhcccccEEEEEEccceecccc
Confidence 46899997443 3345889999999999998 6789999985433 12223345676654 57999986
Q ss_pred hcChhHHHHhhhhhh
Q 011117 134 FLKKTEFEAHIHVSH 148 (493)
Q Consensus 134 YLSqRDLQAHInhrH 148 (493)
+......|-.+.|
T Consensus 255 --~eghA~rHweet~ 267 (493)
T KOG0804|consen 255 --KEGHARRHWEETG 267 (493)
T ss_pred --cchhHHHHHHhhc
Confidence 3444566654443
No 67
>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=86.52 E-value=0.32 Score=37.30 Aligned_cols=39 Identities=26% Similarity=0.456 Sum_probs=23.8
Q ss_pred ccccCCCccccccccccccccccchhhhh--------CCCCcccchH
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFCLDCAR--------SDSMCYLCDE 108 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFCydCA~--------sDktCP~Cna 108 (493)
+.|++....|.+++|-.-|+|.-|+|=.. ..-.||.|++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcC
Confidence 57999999999999999999999887544 2257999986
No 68
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.10 E-value=0.37 Score=46.57 Aligned_cols=42 Identities=29% Similarity=0.640 Sum_probs=32.1
Q ss_pred cccccCCCcccccc-----ccccccccccchhhhh-----CCCCcccchHhH
Q 011117 69 VHFCVRCDYPIAIY-----GRLNPCEHVFCLDCAR-----SDSMCYLCDERI 110 (493)
Q Consensus 69 vhFCdICdlPI~iy-----gRmIPCKHVFCydCA~-----sDktCP~Cna~V 110 (493)
...|.||++.+..- -|++=|+|.||..|+. ..-.||.|+..+
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 45799999877543 3455599999999998 335799999883
No 69
>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=84.90 E-value=0.58 Score=36.95 Aligned_cols=26 Identities=31% Similarity=0.722 Sum_probs=15.2
Q ss_pred cccccccccccchhhhh----CCCCcccch
Q 011117 82 YGRLNPCEHVFCLDCAR----SDSMCYLCD 107 (493)
Q Consensus 82 ygRmIPCKHVFCydCA~----sDktCP~Cn 107 (493)
+++--=|++.||.||=. .-..||.|.
T Consensus 21 ~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp EE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred eEECCCCCCccccCcChhhhccccCCcCCC
Confidence 35566689999999987 447899996
No 70
>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=84.64 E-value=0.54 Score=30.63 Aligned_cols=25 Identities=24% Similarity=0.453 Sum_probs=20.1
Q ss_pred EEEecCCchhhhhcChhHHHHhhhhhh
Q 011117 122 IFICAAPHCLKSFLKKTEFEAHIHVSH 148 (493)
Q Consensus 122 IFIC~~~gCkRtYLSqRDLQAHInhrH 148 (493)
+|.|. .|.++|.+..+|.+|++..|
T Consensus 1 ~~~C~--~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECD--ECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEET--TTTEEESSHHHHHHHHCTTT
T ss_pred CCCCC--ccCCccCChhHHHHHhHHhc
Confidence 35654 49999999999999986554
No 71
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=83.15 E-value=0.65 Score=40.07 Aligned_cols=41 Identities=24% Similarity=0.585 Sum_probs=27.3
Q ss_pred ccccCCCcccccc-ccccccccccchhhhh-------CCCCcccchHhH
Q 011117 70 HFCVRCDYPIAIY-GRLNPCEHVFCLDCAR-------SDSMCYLCDERI 110 (493)
Q Consensus 70 hFCdICdlPI~iy-gRmIPCKHVFCydCA~-------sDktCP~Cna~V 110 (493)
-.|+.|.+|-... ...=-|.|.|-..|+. +...||+|+...
T Consensus 33 g~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 33 GCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred cCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 3477776642221 1111299999999998 247899999865
No 72
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=83.11 E-value=0.42 Score=38.53 Aligned_cols=42 Identities=26% Similarity=0.683 Sum_probs=31.7
Q ss_pred ccccCCCccccccccccccccccchhhhh-CC-CCcccchHhHhh
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFCLDCAR-SD-SMCYLCDERIQK 112 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFCydCA~-sD-ktCP~Cna~Vqr 112 (493)
..|-.|++--+. +.+.||.|+.|..|.- .+ +-||.|..++..
T Consensus 8 ~~~~~~~~~~~~-~~~~pCgH~I~~~~f~~~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 8 QPCVFCGFVGTK-GTVLPCGHLICDNCFPGERYNGCPFCGTPFEF 51 (55)
T ss_pred eeEEEccccccc-cccccccceeeccccChhhccCCCCCCCcccC
Confidence 456666654444 6788999999999998 33 569999988753
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=82.65 E-value=0.83 Score=35.77 Aligned_cols=38 Identities=24% Similarity=0.501 Sum_probs=18.3
Q ss_pred ccCCCccccccccc-c--ccccccchhhhh-----CCCCcccchHh
Q 011117 72 CVRCDYPIAIYGRL-N--PCEHVFCLDCAR-----SDSMCYLCDER 109 (493)
Q Consensus 72 CdICdlPI~iygRm-I--PCKHVFCydCA~-----sDktCP~Cna~ 109 (493)
|++|+.++...++. . +|.+-+|..|+. .+..||.|++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 78888777555532 3 467889999986 35799999874
No 74
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=81.94 E-value=0.43 Score=49.78 Aligned_cols=48 Identities=17% Similarity=0.296 Sum_probs=36.5
Q ss_pred cccccCCCccccccccccccccccchhhhh----CCCCccc--chHhHhhheee
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYL--CDERIQKIQTI 116 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~--Cna~VqrIEri 116 (493)
.-.|++|-+-+...-.+.--+-||||.|+. ..+.||. |-..|..+.++
T Consensus 300 ~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl 353 (357)
T KOG0826|consen 300 REVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRL 353 (357)
T ss_pred cccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHH
Confidence 478999998877766666668899999998 4588986 66666655544
No 75
>smart00355 ZnF_C2H2 zinc finger.
Probab=81.71 E-value=0.74 Score=28.02 Aligned_cols=20 Identities=30% Similarity=0.644 Sum_probs=17.6
Q ss_pred chhhhhcChhHHHHhhhhhhc
Q 011117 129 HCLKSFLKKTEFEAHIHVSHA 149 (493)
Q Consensus 129 gCkRtYLSqRDLQAHInhrH~ 149 (493)
.|.++|.+..+|+.|++ .|.
T Consensus 5 ~C~~~f~~~~~l~~H~~-~H~ 24 (26)
T smart00355 5 ECGKVFKSKSALKEHMR-THX 24 (26)
T ss_pred CCcchhCCHHHHHHHHH-Hhc
Confidence 49999999999999987 664
No 76
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=80.91 E-value=0.65 Score=52.01 Aligned_cols=59 Identities=20% Similarity=0.403 Sum_probs=43.8
Q ss_pred cccccccCCCccccccccccccccccchhhhh-------CCCCcccchHhHh------------hheeeecCCcEEEec
Q 011117 67 ERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR-------SDSMCYLCDERIQ------------KIQTIKLMEGIFICA 126 (493)
Q Consensus 67 EKvhFCdICdlPI~iygRmIPCKHVFCydCA~-------sDktCP~Cna~Vq------------rIEri~p~esIFIC~ 126 (493)
.|...|+||-..++.+. +.=|.|.||..|.. ..+-|++|+..+. .|++....-.+|-|.
T Consensus 19 ~k~lEc~ic~~~~~~p~-~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~Es~r~sq~vqe~lk~k~~~~~~ 96 (684)
T KOG4362|consen 19 QKILECPICLEHVKEPS-LLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRESPRFSQLSKESLKTKSASQCD 96 (684)
T ss_pred hhhccCCceeEEeeccc-hhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccccchHHHHHHHhcCCccccccc
Confidence 46899999999999985 44599999999998 2467999995443 344444455667666
No 77
>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=79.72 E-value=0.8 Score=46.60 Aligned_cols=49 Identities=31% Similarity=0.581 Sum_probs=35.4
Q ss_pred cccccCCCccc----cccccccc-cccccchhhhh-----CCCCcc--cchHhHhhheeee
Q 011117 69 VHFCVRCDYPI----AIYGRLNP-CEHVFCLDCAR-----SDSMCY--LCDERIQKIQTIK 117 (493)
Q Consensus 69 vhFCdICdlPI----~iygRmIP-CKHVFCydCA~-----sDktCP--~Cna~VqrIEri~ 117 (493)
.--|++|...+ .+..-+.| |+|..|..|.- .-..|| .|+....++..++
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf~~ 70 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKFIK 70 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcccc
Confidence 34799997432 22233467 99999999986 457899 9999888777653
No 78
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=78.79 E-value=1.2 Score=35.02 Aligned_cols=28 Identities=25% Similarity=0.579 Sum_probs=21.4
Q ss_pred EEEecCCchhhhhcChhHHHHhhhh-hhccc
Q 011117 122 IFICAAPHCLKSFLKKTEFEAHIHV-SHADL 151 (493)
Q Consensus 122 IFIC~~~gCkRtYLSqRDLQAHInh-rH~~l 151 (493)
-|.|.+ |.+.|-+...|+.|++. .|..+
T Consensus 50 ~~~C~~--C~~~f~s~~~l~~Hm~~~~H~~~ 78 (100)
T PF12756_consen 50 SFRCPY--CNKTFRSREALQEHMRSKHHKKR 78 (100)
T ss_dssp SEEBSS--SS-EESSHHHHHHHHHHTTTTC-
T ss_pred CCCCCc--cCCCCcCHHHHHHHHcCccCCCc
Confidence 467655 99999999999999985 57776
No 79
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=78.13 E-value=1.4 Score=45.18 Aligned_cols=70 Identities=21% Similarity=0.442 Sum_probs=42.6
Q ss_pred hcCcccccccCCC-ccccccccc---cccccccchhhhh----CCCCcccchHhHhhheeeecCC-----cEEEec-CCc
Q 011117 64 QLGERVHFCVRCD-YPIAIYGRL---NPCEHVFCLDCAR----SDSMCYLCDERIQKIQTIKLME-----GIFICA-APH 129 (493)
Q Consensus 64 qlgEKvhFCdICd-lPI~iygRm---IPCKHVFCydCA~----sDktCP~Cna~VqrIEri~p~e-----sIFIC~-~~g 129 (493)
..++.-++|++|+ .|....++. -==.+.+|.-|.. .-.+|+.|.+ -.+|+-+...+ .+..|. ..+
T Consensus 182 ~~~~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~-~~~l~y~~~~~~~~~~r~e~C~~C~~ 260 (309)
T PRK03564 182 EYGEQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ-SGKLHYWSLDSEQAAVKAESCGDCGT 260 (309)
T ss_pred ccccCCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC-CCceeeeeecCCCcceEeeecccccc
Confidence 4456679999999 554332222 1126678999998 4478999997 35666543322 356665 244
Q ss_pred hhhhh
Q 011117 130 CLKSF 134 (493)
Q Consensus 130 CkRtY 134 (493)
..|++
T Consensus 261 YlK~~ 265 (309)
T PRK03564 261 YLKIL 265 (309)
T ss_pred cceec
Confidence 44444
No 80
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=77.76 E-value=1.8 Score=44.29 Aligned_cols=76 Identities=21% Similarity=0.461 Sum_probs=54.2
Q ss_pred cccccCCCcccccccccc---------ccccc-cchhhhh----------------CCCCcccchHhHh------hheee
Q 011117 69 VHFCVRCDYPIAIYGRLN---------PCEHV-FCLDCAR----------------SDSMCYLCDERIQ------KIQTI 116 (493)
Q Consensus 69 vhFCdICdlPI~iygRmI---------PCKHV-FCydCA~----------------sDktCP~Cna~Vq------rIEri 116 (493)
.+.|+.|++.+.+..-+- ==+++ -|.+|-+ .--.|.+|..... .--|.
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRT 209 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRT 209 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhccccc
Confidence 577888888877765111 00233 4667755 1247999998655 44567
Q ss_pred ecCCcEEEecCCchhhhhcChhHHHHhhhh
Q 011117 117 KLMEGIFICAAPHCLKSFLKKTEFEAHIHV 146 (493)
Q Consensus 117 ~p~esIFIC~~~gCkRtYLSqRDLQAHInh 146 (493)
|..|.=|.|. +|.|.|-....|.||++.
T Consensus 210 HTGEKPF~C~--hC~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 210 HTGEKPFSCP--HCGKAFADRSNLRAHMQT 237 (279)
T ss_pred ccCCCCccCC--cccchhcchHHHHHHHHh
Confidence 8889999987 899999999999999953
No 81
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=76.69 E-value=0.68 Score=54.05 Aligned_cols=44 Identities=25% Similarity=0.477 Sum_probs=33.8
Q ss_pred cccccCCCcccccccccc------ccccccchhhhh------CCCCcccchHhHhh
Q 011117 69 VHFCVRCDYPIAIYGRLN------PCEHVFCLDCAR------SDSMCYLCDERIQK 112 (493)
Q Consensus 69 vhFCdICdlPI~iygRmI------PCKHVFCydCA~------sDktCP~Cna~Vqr 112 (493)
.-.|.||=..+..--|.. -|||-|=..|.- ...+||+|+.+|+.
T Consensus 1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 468999977666444444 499999999986 45899999988864
No 82
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.23 E-value=1.3 Score=51.03 Aligned_cols=43 Identities=19% Similarity=0.440 Sum_probs=38.5
Q ss_pred cccccCCCccccccccccccccccchhhhh-CCCCcccchHhHh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR-SDSMCYLCDERIQ 111 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~-sDktCP~Cna~Vq 111 (493)
+-.|..|+..+-++..-.-|+|.|=-+|.. ++..||.|..+..
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLEDKEDKCPKCLPELR 883 (933)
T ss_pred eeeecccCCccccceeeeecccHHHHHhhccCcccCCccchhhh
Confidence 358999999999999999999999999998 7799999998443
No 83
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.46 E-value=1.3 Score=49.76 Aligned_cols=103 Identities=22% Similarity=0.419 Sum_probs=66.0
Q ss_pred cchhhhhhhhhhhhh---hhhcCcccccccCCCccccccccccccccccchhhhh------CCCCcccchHhHhhheee-
Q 011117 47 AATAASLVKTVGRRS---RRQLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR------SDSMCYLCDERIQKIQTI- 116 (493)
Q Consensus 47 aatss~~~k~~GrrS---krqlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~------sDktCP~Cna~VqrIEri- 116 (493)
++.......++|-.+ +...-+-...|+||=.--..|-++-+|.|-+|-.|.+ .++.|..| .+...++.|
T Consensus 53 ~~s~~~~~~~~~t~~~~~~~~~~~~e~~~~if~~d~~~y~~~~~~~~~~C~~C~~~~~~~~~~~~~~~c-~~~~s~~~Lk 131 (669)
T KOG2231|consen 53 TKSNGDSSDAVGTFPEGRKCDFDEHEDTCVIFFADKLTYTKLEACLHHSCHICDRRFRALYNKKECLHC-TEFKSVENLK 131 (669)
T ss_pred eeccccccccccccccccccccccccceeeeeeccccHHHHHHHHHhhhcCccccchhhhcccCCCccc-cchhHHHHHH
Confidence 333333444444433 3444555678888866667888999999999999998 34679999 443322221
Q ss_pred ---------------ecCCcEEEec----------------------------CCchhhhhcChhHHHHhhhhhhcc
Q 011117 117 ---------------KLMEGIFICA----------------------------APHCLKSFLKKTEFEAHIHVSHAD 150 (493)
Q Consensus 117 ---------------~p~esIFIC~----------------------------~~gCkRtYLSqRDLQAHInhrH~~ 150 (493)
.-+..||||- ...|+.-||.+-+|..|.++.|.+
T Consensus 132 ~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~ 208 (669)
T KOG2231|consen 132 NHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDHEF 208 (669)
T ss_pred HHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccceeh
Confidence 2245677665 036778888888888887765554
No 84
>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=74.79 E-value=1.7 Score=44.74 Aligned_cols=42 Identities=21% Similarity=0.562 Sum_probs=30.4
Q ss_pred cccCCC------ccccccccccccccccchhhhh-----CCCCcccchHhHhhhe
Q 011117 71 FCVRCD------YPIAIYGRLNPCEHVFCLDCAR-----SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 71 FCdICd------lPI~iygRmIPCKHVFCydCA~-----sDktCP~Cna~VqrIE 114 (493)
-|++|. --++.+++ +|+|..|..|.- .+.-||-|+....+..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in--~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMIN--ECGHRLCESCVDRIFSLGPAQCPECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeec--cccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence 477775 23344444 999999999996 6689999987665443
No 85
>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=74.73 E-value=2.3 Score=43.50 Aligned_cols=52 Identities=25% Similarity=0.485 Sum_probs=34.3
Q ss_pred CcccccccCCC-cccccccccc----ccccccchhhhh----CCCCcccchHhHhhheeeec
Q 011117 66 GERVHFCVRCD-YPIAIYGRLN----PCEHVFCLDCAR----SDSMCYLCDERIQKIQTIKL 118 (493)
Q Consensus 66 gEKvhFCdICd-lPI~iygRmI----PCKHVFCydCA~----sDktCP~Cna~VqrIEri~p 118 (493)
++.-.+|++|+ .|....++.- ==++.+|.-|.. .-.+|+.|.+. ..|+-+..
T Consensus 181 ~~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~-~~l~y~~~ 241 (305)
T TIGR01562 181 RESRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES-KHLAYLSL 241 (305)
T ss_pred cCCCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC-CceeeEee
Confidence 33456999999 6654333321 125778999997 44789999986 56665543
No 86
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.59 E-value=1.2 Score=45.04 Aligned_cols=64 Identities=25% Similarity=0.475 Sum_probs=46.9
Q ss_pred cccccCCCcccc--ccccccccccccchhhhh------------CCCCcccchHhHhhheeeecCCcEEEecCCchhhhh
Q 011117 69 VHFCVRCDYPIA--IYGRLNPCEHVFCLDCAR------------SDSMCYLCDERIQKIQTIKLMEGIFICAAPHCLKSF 134 (493)
Q Consensus 69 vhFCdICdlPI~--iygRmIPCKHVFCydCA~------------sDktCP~Cna~VqrIEri~p~esIFIC~~~gCkRtY 134 (493)
.--|..|+.++. +..|++ |+|+|=.+|.. .-+.||-|+.+| ++.-++.. .+-.-+|.|
T Consensus 50 ~pNC~LC~t~La~gdt~RLv-CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei------FPp~Nlvs-Pva~aLre~ 121 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV-CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI------FPPINLVS-PVAEALREQ 121 (299)
T ss_pred CCCCceeCCccccCcceeeh-hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc------CCCccccc-hhHHHHHHH
Confidence 457999996665 567888 99999999987 237899999887 33333332 356688999
Q ss_pred cChhHH
Q 011117 135 LKKTEF 140 (493)
Q Consensus 135 LSqRDL 140 (493)
|++...
T Consensus 122 L~qvNW 127 (299)
T KOG3970|consen 122 LKQVNW 127 (299)
T ss_pred HHhhhH
Confidence 988743
No 87
>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=74.57 E-value=2.3 Score=32.43 Aligned_cols=12 Identities=17% Similarity=0.396 Sum_probs=9.6
Q ss_pred hHHHHhhhhhhc
Q 011117 138 TEFEAHIHVSHA 149 (493)
Q Consensus 138 RDLQAHInhrH~ 149 (493)
++|..|++.+|.
T Consensus 43 ~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 43 DNLIRHLNSQHR 54 (54)
T ss_pred hHHHHHHHHhcC
Confidence 488889988884
No 88
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.24 E-value=1.6 Score=44.53 Aligned_cols=52 Identities=23% Similarity=0.330 Sum_probs=42.7
Q ss_pred cccccCCCcccccccc---ccccccccchhhhh--CCCCcccchHhHhhheeeecCC
Q 011117 69 VHFCVRCDYPIAIYGR---LNPCEHVFCLDCAR--SDSMCYLCDERIQKIQTIKLME 120 (493)
Q Consensus 69 vhFCdICdlPI~iygR---mIPCKHVFCydCA~--sDktCP~Cna~VqrIEri~p~e 120 (493)
-++|+|=++++...+| +.+|.|||-+.=.. ...+|..|.+..+.-+-|..++
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeikas~C~~C~a~y~~~dvIvlNg 167 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKASVCHVCGAAYQEDDVIVLNG 167 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHhhhccccccCCcccccCeEeeCC
Confidence 5899999999988776 67999999998887 6789999999987666554443
No 89
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=72.91 E-value=2.5 Score=27.03 Aligned_cols=17 Identities=29% Similarity=0.593 Sum_probs=15.7
Q ss_pred chhhhhcChhHHHHhhh
Q 011117 129 HCLKSFLKKTEFEAHIH 145 (493)
Q Consensus 129 gCkRtYLSqRDLQAHIn 145 (493)
-|.++|.++..|+.|++
T Consensus 5 ~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 5 ICNKSFSSENSLRQHLR 21 (25)
T ss_dssp TTTEEESSHHHHHHHHT
T ss_pred CCCCCcCCHHHHHHHHC
Confidence 49999999999999985
No 90
>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=72.85 E-value=0.84 Score=38.26 Aligned_cols=51 Identities=18% Similarity=0.596 Sum_probs=32.4
Q ss_pred ccccCCCccccccccccccccccchhhhh---CCCCcccchHhHhhheeeecCCcEEEecC
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFCLDCAR---SDSMCYLCDERIQKIQTIKLMEGIFICAA 127 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFCydCA~---sDktCP~Cna~VqrIEri~p~esIFIC~~ 127 (493)
+.|++|+.++.-.+ .|.+|..|.. ....||-|.++++.+..+. ---|.|-.
T Consensus 2 ~~CP~C~~~L~~~~-----~~~~C~~C~~~~~~~a~CPdC~~~Le~LkACG--AvdYFC~~ 55 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-----GHYHCEACQKDYKKEAFCPDCGQPLEVLKACG--AVDYFCNH 55 (70)
T ss_dssp -B-SSS-SBEEEET-----TEEEETTT--EEEEEEE-TTT-SB-EEEEETT--EEEEE-TT
T ss_pred CcCCCCCCccEEeC-----CEEECccccccceecccCCCcccHHHHHHHhc--ccceeecc
Confidence 47999999987766 7899999998 5578999999988777663 23577653
No 91
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=72.32 E-value=1.4 Score=46.32 Aligned_cols=40 Identities=35% Similarity=0.744 Sum_probs=30.1
Q ss_pred cccccCCC--ccccccccccccccccchhhhh----CCCCcccchH
Q 011117 69 VHFCVRCD--YPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDE 108 (493)
Q Consensus 69 vhFCdICd--lPI~iygRmIPCKHVFCydCA~----sDktCP~Cna 108 (493)
..+|=.|. +.=.-.||---||++||.||-. +-..||.|.-
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 45688894 3334566677799999999987 4578999973
No 92
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.15 E-value=1.3 Score=47.50 Aligned_cols=30 Identities=30% Similarity=0.666 Sum_probs=24.8
Q ss_pred cccccCCCcccc--ccccccccccccchhhhh
Q 011117 69 VHFCVRCDYPIA--IYGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 69 vhFCdICdlPI~--iygRmIPCKHVFCydCA~ 98 (493)
.|.|.||=.... +.....||.||||..|.+
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~k 215 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLK 215 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHH
Confidence 588889974443 577789999999999998
No 93
>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 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=70.57 E-value=2.2 Score=41.93 Aligned_cols=67 Identities=18% Similarity=0.349 Sum_probs=32.5
Q ss_pred cccccCCC-ccccccccccc---cccccchhhhh----CCCCcccchHhHh-hheeeec----CCcEEEecC-Cchhhhh
Q 011117 69 VHFCVRCD-YPIAIYGRLNP---CEHVFCLDCAR----SDSMCYLCDERIQ-KIQTIKL----MEGIFICAA-PHCLKSF 134 (493)
Q Consensus 69 vhFCdICd-lPI~iygRmIP---CKHVFCydCA~----sDktCP~Cna~Vq-rIEri~p----~esIFIC~~-~gCkRtY 134 (493)
-..|++|+ .|....++--. =+|.+|.-|.. .-.+|+.|.+.-. +++.+.. ...|+.|.. .+..|++
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~YlK~v 251 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGSYLKTV 251 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EEE--------SEEEEEETTTTEEEEEE
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccchHHHH
Confidence 47999999 55555554442 48889999998 4478999987633 3333311 224888873 5555555
Q ss_pred c
Q 011117 135 L 135 (493)
Q Consensus 135 L 135 (493)
-
T Consensus 252 d 252 (290)
T PF04216_consen 252 D 252 (290)
T ss_dssp E
T ss_pred h
Confidence 4
No 95
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.62 E-value=1.5 Score=48.13 Aligned_cols=42 Identities=33% Similarity=0.782 Sum_probs=32.7
Q ss_pred cccccCCCccccccc----------------cccccccccchhhhh--CC--C-CcccchHhH
Q 011117 69 VHFCVRCDYPIAIYG----------------RLNPCEHVFCLDCAR--SD--S-MCYLCDERI 110 (493)
Q Consensus 69 vhFCdICdlPI~iyg----------------RmIPCKHVFCydCA~--sD--k-tCP~Cna~V 110 (493)
..-|.||.-+|-+|. .+.||.|+|=-.|.. -| + .||.|+..+
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence 577999998887764 455888889999998 23 3 699998754
No 96
>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=68.26 E-value=2.6 Score=32.07 Aligned_cols=26 Identities=23% Similarity=0.410 Sum_probs=21.9
Q ss_pred EEecCCchhhhhcChhHHHHhhhhhhccc
Q 011117 123 FICAAPHCLKSFLKKTEFEAHIHVSHADL 151 (493)
Q Consensus 123 FIC~~~gCkRtYLSqRDLQAHInhrH~~l 151 (493)
|-|++ |.+ +++..+|..|++..|..-
T Consensus 3 f~CP~--C~~-~~~~~~L~~H~~~~H~~~ 28 (54)
T PF05605_consen 3 FTCPY--CGK-GFSESSLVEHCEDEHRSE 28 (54)
T ss_pred cCCCC--CCC-ccCHHHHHHHHHhHCcCC
Confidence 45554 999 899999999999999864
No 97
>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=68.23 E-value=2.4 Score=36.97 Aligned_cols=57 Identities=18% Similarity=0.480 Sum_probs=40.8
Q ss_pred hhhhhhhhhhcCcccccccCCCccccccccccccccccchhhhhCCCCcccchHhHhhheeee
Q 011117 55 KTVGRRSRRQLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCARSDSMCYLCDERIQKIQTIK 117 (493)
Q Consensus 55 k~~GrrSkrqlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~sDktCP~Cna~VqrIEri~ 117 (493)
+++..+.+-..+....-|.||.--++-. .|-||-.||-....|.+|-..|.++...+
T Consensus 30 KlLs~~~~nPy~~~~~~C~~CK~~v~q~------g~~YCq~CAYkkGiCamCGKki~dtk~yk 86 (90)
T PF10235_consen 30 KLLSKKKKNPYAPYSSKCKICKTKVHQP------GAKYCQTCAYKKGICAMCGKKILDTKNYK 86 (90)
T ss_pred eeecccccCcccccCccccccccccccC------CCccChhhhcccCcccccCCeeccccccc
Confidence 3333333333333367899998776663 57899999999999999999997776554
No 98
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=68.17 E-value=2.7 Score=37.95 Aligned_cols=39 Identities=33% Similarity=0.707 Sum_probs=30.4
Q ss_pred ccccCCCccccc-------------cccccccccccchhhhh----CCCCcccchH
Q 011117 70 HFCVRCDYPIAI-------------YGRLNPCEHVFCLDCAR----SDSMCYLCDE 108 (493)
Q Consensus 70 hFCdICdlPI~i-------------ygRmIPCKHVFCydCA~----sDktCP~Cna 108 (493)
..|--|..+|.. +++-.=|++.||.||-. .-..||.|..
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 458889887764 35567799999999987 4478999974
No 99
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=68.15 E-value=2.3 Score=47.22 Aligned_cols=35 Identities=23% Similarity=0.694 Sum_probs=19.3
Q ss_pred cccccCCCccccccccccccccccchhhhh----CCCCcccchHhHhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDERIQK 112 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna~Vqr 112 (493)
..||+.|+.++. +.+|-.|-. ..+.|+.|..++..
T Consensus 15 akFC~~CG~~l~---------~~~Cp~CG~~~~~~~~fC~~CG~~~~~ 53 (645)
T PRK14559 15 NRFCQKCGTSLT---------HKPCPQCGTEVPVDEAHCPNCGAETGT 53 (645)
T ss_pred CccccccCCCCC---------CCcCCCCCCCCCcccccccccCCcccc
Confidence 456666665553 234666655 33566666665543
No 100
>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=66.61 E-value=2.7 Score=34.34 Aligned_cols=40 Identities=28% Similarity=0.649 Sum_probs=26.6
Q ss_pred cccCCCccc--cccccccccc--cccchhhhh--CCCCcccchHhHh
Q 011117 71 FCVRCDYPI--AIYGRLNPCE--HVFCLDCAR--SDSMCYLCDERIQ 111 (493)
Q Consensus 71 FCdICdlPI--~iygRmIPCK--HVFCydCA~--sDktCP~Cna~Vq 111 (493)
.|..|+..+ ......| |- -+||-+|+. ...+||.|..+.+
T Consensus 7 nCE~C~~dLp~~s~~A~I-CSfECTFC~~C~e~~l~~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI-CSFECTFCADCAETMLNGVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceE-EeEeCcccHHHHHHHhcCcCcCCCCccc
Confidence 366676433 3323444 44 469999998 3689999987764
No 101
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=66.46 E-value=3.2 Score=47.98 Aligned_cols=46 Identities=17% Similarity=0.413 Sum_probs=26.1
Q ss_pred ccccCCCccccccccccc---cccccchhhhh----------CCCCcccchHhHhhhee
Q 011117 70 HFCVRCDYPIAIYGRLNP---CEHVFCLDCAR----------SDSMCYLCDERIQKIQT 115 (493)
Q Consensus 70 hFCdICdlPI~iygRmIP---CKHVFCydCA~----------sDktCP~Cna~VqrIEr 115 (493)
..|-+|..+=..---+.| |.|.||+.|+. ....|+.|.+-|..+.+
T Consensus 100 ~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR 158 (1134)
T KOG0825|consen 100 PVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR 158 (1134)
T ss_pred chhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh
Confidence 455555544111122334 99999999998 12346776665554443
No 102
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=63.02 E-value=6.1 Score=32.79 Aligned_cols=34 Identities=21% Similarity=0.441 Sum_probs=27.4
Q ss_pred cCCcEEEecCCchhhhhcChhHHHHhhhhhhcccc
Q 011117 118 LMEGIFICAAPHCLKSFLKKTEFEAHIHVSHADLL 152 (493)
Q Consensus 118 p~esIFIC~~~gCkRtYLSqRDLQAHInhrH~~l~ 152 (493)
+++++|. ..+.|.+.|..++|+..|+|..|--+.
T Consensus 12 RDGE~~l-rCPRC~~~FR~~K~Y~RHVNKaH~~~~ 45 (65)
T COG4049 12 RDGEEFL-RCPRCGMVFRRRKDYIRHVNKAHGWLF 45 (65)
T ss_pred cCCceee-eCCchhHHHHHhHHHHHHhhHHhhhhh
Confidence 4455554 357899999999999999999998774
No 103
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=62.63 E-value=2.9 Score=47.62 Aligned_cols=56 Identities=25% Similarity=0.533 Sum_probs=35.4
Q ss_pred CCCcccchHhHhhheeeecCCcEEEecCCchhhhhcChhHHHHhhhhhhccccCCcccccccccccccc
Q 011117 100 DSMCYLCDERIQKIQTIKLMEGIFICAAPHCLKSFLKKTEFEAHIHVSHADLLLQPNAEKEDNESESAK 168 (493)
Q Consensus 100 DktCP~Cna~VqrIEri~p~esIFIC~~~gCkRtYLSqRDLQAHInhrH~~l~Lqpn~~ke~ne~q~~~ 168 (493)
+|+|++|++.-.--+.- .+--.-|-.-+||+.| |+--.+..-| +||.|-|++.+||
T Consensus 117 nKtCYIC~E~GrpnkA~--~GACMtCNKs~CkqaF--------HVTCAQ~~GL---LCEE~gn~~dNVK 172 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAA--KGACMTCNKSGCKQAF--------HVTCAQRAGL---LCEEEGNISDNVK 172 (900)
T ss_pred cceeeeecccCCccccc--cccceecccccchhhh--------hhhHhhhhcc---ceeccccccccce
Confidence 37899998765333321 2445567789999988 8766665553 3555547766663
No 104
>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=62.27 E-value=2.2 Score=28.30 Aligned_cols=19 Identities=21% Similarity=0.471 Sum_probs=16.5
Q ss_pred CchhhhhcChhHHHHhhhh
Q 011117 128 PHCLKSFLKKTEFEAHIHV 146 (493)
Q Consensus 128 ~gCkRtYLSqRDLQAHInh 146 (493)
..|.|.|.++..|+.|++-
T Consensus 5 ~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 5 DACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp TTTTBBBSSHHHHHCCTTS
T ss_pred ccCCCCcCCHHHHHHHHcc
Confidence 3499999999999999864
No 105
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.73 E-value=4.6 Score=34.86 Aligned_cols=25 Identities=32% Similarity=0.757 Sum_probs=20.8
Q ss_pred cccccchhhhh--CCCCcccchHhHhh
Q 011117 88 CEHVFCLDCAR--SDSMCYLCDERIQK 112 (493)
Q Consensus 88 CKHVFCydCA~--sDktCP~Cna~Vqr 112 (493)
-.++||-+|++ ....||.|..+.++
T Consensus 27 fEcTFCadCae~~l~g~CPnCGGelv~ 53 (84)
T COG3813 27 FECTFCADCAENRLHGLCPNCGGELVA 53 (84)
T ss_pred EeeehhHhHHHHhhcCcCCCCCchhhc
Confidence 36899999998 56899999887753
No 106
>PF14353 CpXC: CpXC protein
Probab=59.55 E-value=1 Score=39.10 Aligned_cols=43 Identities=16% Similarity=0.194 Sum_probs=35.8
Q ss_pred heeeecCCcEEEecCCchhhhhcChhHHHHhhhhhhccccCCcc
Q 011117 113 IQTIKLMEGIFICAAPHCLKSFLKKTEFEAHIHVSHADLLLQPN 156 (493)
Q Consensus 113 IEri~p~esIFIC~~~gCkRtYLSqRDLQAHInhrH~~l~Lqpn 156 (493)
.++|. ++++|..+.+.|.+.|.-.-.|-||-..++-.+.+-|.
T Consensus 28 ~e~il-~g~l~~~~CP~Cg~~~~~~~p~lY~D~~~~~~i~~~P~ 70 (128)
T PF14353_consen 28 KEKIL-DGSLFSFTCPSCGHKFRLEYPLLYHDPEKKFMIYYFPD 70 (128)
T ss_pred HHHHH-cCCcCEEECCCCCCceecCCCEEEEcCCCCEEEEEcCC
Confidence 55564 78999999999999999999999998777666667676
No 107
>PRK04023 DNA polymerase II large subunit; Validated
Probab=59.15 E-value=6 Score=46.68 Aligned_cols=49 Identities=18% Similarity=0.375 Sum_probs=32.5
Q ss_pred cccccccCCCcccccccccccccc-----ccchhhhh--CCCCcccchHhHhhheee
Q 011117 67 ERVHFCVRCDYPIAIYGRLNPCEH-----VFCLDCAR--SDSMCYLCDERIQKIQTI 116 (493)
Q Consensus 67 EKvhFCdICdlPI~iygRmIPCKH-----VFCydCA~--sDktCP~Cna~VqrIEri 116 (493)
....||+.|+... ..-+..=|.. .||.+|-. ...+||.|..++......
T Consensus 624 Vg~RfCpsCG~~t-~~frCP~CG~~Te~i~fCP~CG~~~~~y~CPKCG~El~~~s~~ 679 (1121)
T PRK04023 624 IGRRKCPSCGKET-FYRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREPTPYSKR 679 (1121)
T ss_pred ccCccCCCCCCcC-CcccCCCCCCCCCcceeCccccCcCCCCcCCCCCCCCCccceE
Confidence 3368999999874 3233333763 48999876 236799998887654443
No 108
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=57.62 E-value=4.1 Score=46.82 Aligned_cols=78 Identities=19% Similarity=0.430 Sum_probs=58.8
Q ss_pred cccccCCCccccccccccccccccchhhhhCCCCcccchHh------HhhheeeecCCcEEEecCCchhhhhcChhHHHH
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCARSDSMCYLCDER------IQKIQTIKLMEGIFICAAPHCLKSFLKKTEFEA 142 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~sDktCP~Cna~------VqrIEri~p~esIFIC~~~gCkRtYLSqRDLQA 142 (493)
-+-||.||+-|..--.+. .|-|=.. -..-..|-+|... ++...|||-.|.=|-|+ -|+|-|.-.-++--
T Consensus 894 myaCDqCDK~FqKqSSLa--RHKYEHs-GqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCd--KClKRFSHSGSYSQ 968 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLA--RHKYEHS-GQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCD--KCLKRFSHSGSYSQ 968 (1007)
T ss_pred cchHHHHHHHHHhhHHHH--Hhhhhhc-CCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhh--hhhhhcccccchHh
Confidence 589999999998766655 3432000 0023678888764 55777899989999986 49999999999999
Q ss_pred hhhhhhccc
Q 011117 143 HIHVSHADL 151 (493)
Q Consensus 143 HInhrH~~l 151 (493)
|+|||-.--
T Consensus 969 HMNHRYSYC 977 (1007)
T KOG3623|consen 969 HMNHRYSYC 977 (1007)
T ss_pred hhccchhcc
Confidence 999997765
No 109
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=57.41 E-value=4.6 Score=45.03 Aligned_cols=35 Identities=23% Similarity=0.697 Sum_probs=28.8
Q ss_pred ccccCCCccccccccccccccccchhhhhC--CCCcccchHhHh
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFCLDCARS--DSMCYLCDERIQ 111 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFCydCA~s--DktCP~Cna~Vq 111 (493)
.+|+.|+..+.. .+.||-.|-.+ .++|+.|.+.+.
T Consensus 2 ~~Cp~Cg~~n~~-------~akFC~~CG~~l~~~~Cp~CG~~~~ 38 (645)
T PRK14559 2 LICPQCQFENPN-------NNRFCQKCGTSLTHKPCPQCGTEVP 38 (645)
T ss_pred CcCCCCCCcCCC-------CCccccccCCCCCCCcCCCCCCCCC
Confidence 479999988655 88899999873 378999999963
No 110
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.32 E-value=9.7 Score=43.03 Aligned_cols=21 Identities=19% Similarity=0.278 Sum_probs=17.7
Q ss_pred hhhcChhHHHHhhhhhhcccc
Q 011117 132 KSFLKKTEFEAHIHVSHADLL 152 (493)
Q Consensus 132 RtYLSqRDLQAHInhrH~~l~ 152 (493)
-+|.+...|+-|+.+.|+..+
T Consensus 122 ~~~~s~~~Lk~H~~~~H~~~~ 142 (669)
T KOG2231|consen 122 TEFKSVENLKNHMRDQHKLHL 142 (669)
T ss_pred cchhHHHHHHHHHHHhhhhhc
Confidence 455689999999999999873
No 111
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=57.07 E-value=2.2 Score=49.27 Aligned_cols=58 Identities=19% Similarity=0.516 Sum_probs=44.2
Q ss_pred cccccCCCccccccc-----c---ccccccccchhhhhC---------------C-----CCcccchHhHhhheeeecCC
Q 011117 69 VHFCVRCDYPIAIYG-----R---LNPCEHVFCLDCARS---------------D-----SMCYLCDERIQKIQTIKLME 120 (493)
Q Consensus 69 vhFCdICdlPI~iyg-----R---mIPCKHVFCydCA~s---------------D-----ktCP~Cna~VqrIEri~p~e 120 (493)
.+.|-+|+..|..-. | .--|..+||..|-.. + .+|-.|-++...+.+++.++
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs~yp~aKLpKPgsseE~ppRRVCD~CYdq~EnLlQm~LLc 539 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRAHYSFAKLAKPGSSDEAEERLVCDTCYKEYETVSQLHYLG 539 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCccccCccccCCcccCcccccCCCCCcccccccchhHHHHHHHHhHHhhHHHH
Confidence 377999999885321 1 456999999999961 1 38999998888888887777
Q ss_pred cEEEec
Q 011117 121 GIFICA 126 (493)
Q Consensus 121 sIFIC~ 126 (493)
.+|.|.
T Consensus 540 alf~la 545 (1374)
T PTZ00303 540 ALFAFA 545 (1374)
T ss_pred HHHHHc
Confidence 888766
No 112
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=56.50 E-value=18 Score=42.17 Aligned_cols=12 Identities=0% Similarity=-0.064 Sum_probs=6.1
Q ss_pred CCCCCCCCCCCC
Q 011117 347 PPGGVNFPPSYS 358 (493)
Q Consensus 347 p~~~~nf~~~~~ 358 (493)
++..+++..-..
T Consensus 508 ~ae~~al~s~~~ 519 (1102)
T KOG1924|consen 508 EAEKQALSSPSQ 519 (1102)
T ss_pred chhhhhccCccc
Confidence 355556554433
No 113
>PF12773 DZR: Double zinc ribbon
Probab=56.09 E-value=6.9 Score=28.89 Aligned_cols=39 Identities=21% Similarity=0.633 Sum_probs=21.5
Q ss_pred hcCcccccccCCCccccccccccccccccchhhhh----CCCCcccc
Q 011117 64 QLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLC 106 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~C 106 (493)
++.+...||+.|+.++..... ..++|-.|-. ..+.|+.|
T Consensus 7 ~~~~~~~fC~~CG~~l~~~~~----~~~~C~~Cg~~~~~~~~fC~~C 49 (50)
T PF12773_consen 7 PNPDDAKFCPHCGTPLPPPDQ----SKKICPNCGAENPPNAKFCPNC 49 (50)
T ss_pred cCCccccCChhhcCChhhccC----CCCCCcCCcCCCcCCcCccCcc
Confidence 345557888888877771100 2245555655 23455555
No 114
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.30 E-value=3.5 Score=46.73 Aligned_cols=35 Identities=23% Similarity=0.525 Sum_probs=26.0
Q ss_pred cccccCCCcccc----ccccccccccccchhhhh--CCCCcc
Q 011117 69 VHFCVRCDYPIA----IYGRLNPCEHVFCLDCAR--SDSMCY 104 (493)
Q Consensus 69 vhFCdICdlPI~----iygRmIPCKHVFCydCA~--sDktCP 104 (493)
++.|+||-..|. .++.++ |.|+.|..|+. -+.+|+
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~-cghtic~~c~~~lyn~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQ-CGHTICGHCVQLLYNASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCccccc-ccchHHHHHHHhHhhccCC
Confidence 689999943332 345566 99999999998 457787
No 115
>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=54.89 E-value=7.2 Score=26.99 Aligned_cols=22 Identities=23% Similarity=0.594 Sum_probs=13.9
Q ss_pred cccCCCccccccccccc-ccccc
Q 011117 71 FCVRCDYPIAIYGRLNP-CEHVF 92 (493)
Q Consensus 71 FCdICdlPI~iygRmIP-CKHVF 92 (493)
.|+.|+..|..-.+.=| |.|.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 47777777766555555 66655
No 116
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=52.78 E-value=7.1 Score=41.24 Aligned_cols=44 Identities=7% Similarity=-0.077 Sum_probs=34.9
Q ss_pred cccccCCCccccccccccccccc-cchhhhh--CCCCcccchHhHhhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHV-FCLDCAR--SDSMCYLCDERIQKI 113 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHV-FCydCA~--sDktCP~Cna~VqrI 113 (493)
...|-.|++-...-. ..+|.|. ||..||. .+.+|+.|+..+--+
T Consensus 343 ~~~~~~~~~~~~st~-~~~~~~n~~~~~~a~~s~~~~~~~c~~~~~~~ 389 (394)
T KOG2113|consen 343 SLKGTSAGFGLLSTI-WSGGNMNLSPGSLASASASPTSSTCDHNDHTL 389 (394)
T ss_pred hcccccccCceeeeE-eecCCcccChhhhhhcccCCccccccccceee
Confidence 478999997665543 7889997 9999998 678999999876433
No 117
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=52.53 E-value=4.4 Score=43.36 Aligned_cols=19 Identities=21% Similarity=0.343 Sum_probs=11.1
Q ss_pred hcCcccccccCCCcccccc
Q 011117 64 QLGERVHFCVRCDYPIAIY 82 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iy 82 (493)
--+||+.-|+-|+..|...
T Consensus 202 Hs~eKvvACp~Cg~~F~~~ 220 (467)
T KOG3608|consen 202 HSNEKVVACPHCGELFRTK 220 (467)
T ss_pred cCCCeEEecchHHHHhccc
Confidence 3566666666666555443
No 118
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=50.16 E-value=8.7 Score=25.74 Aligned_cols=10 Identities=30% Similarity=0.637 Sum_probs=4.6
Q ss_pred ccCCCccccc
Q 011117 72 CVRCDYPIAI 81 (493)
Q Consensus 72 CdICdlPI~i 81 (493)
|+.|+..|..
T Consensus 2 Cp~CG~~~~~ 11 (23)
T PF13240_consen 2 CPNCGAEIED 11 (23)
T ss_pred CcccCCCCCC
Confidence 4444444443
No 119
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=49.58 E-value=6.3 Score=43.26 Aligned_cols=31 Identities=32% Similarity=0.560 Sum_probs=26.0
Q ss_pred cccccccCCCccccccccccccccccchhhhh
Q 011117 67 ERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 67 EKvhFCdICdlPI~iygRmIPCKHVFCydCA~ 98 (493)
|..+.|++|..-+..++ ++||.|..|-.||+
T Consensus 2 eeelkc~vc~~f~~epi-il~c~h~lc~~ca~ 32 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPI-ILPCSHNLCQACAR 32 (699)
T ss_pred cccccCceehhhccCce-EeecccHHHHHHHH
Confidence 45678999997777766 67899999999998
No 120
>PHA00616 hypothetical protein
Probab=49.50 E-value=9.9 Score=29.48 Aligned_cols=25 Identities=28% Similarity=0.317 Sum_probs=21.1
Q ss_pred CCchhhhhcChhHHHHhhhhhhccc
Q 011117 127 APHCLKSFLKKTEFEAHIHVSHADL 151 (493)
Q Consensus 127 ~~gCkRtYLSqRDLQAHInhrH~~l 151 (493)
...|.+.|.+.++|..|++..|..-
T Consensus 4 C~~CG~~F~~~s~l~~H~r~~hg~~ 28 (44)
T PHA00616 4 CLRCGGIFRKKKEVIEHLLSVHKQN 28 (44)
T ss_pred cchhhHHHhhHHHHHHHHHHhcCCC
Confidence 3569999999999999998777653
No 121
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.45 E-value=8.2 Score=40.31 Aligned_cols=41 Identities=29% Similarity=0.832 Sum_probs=26.1
Q ss_pred cccccccCCCccccccc---ccc-ccccccchhhhh----CCCCcccch
Q 011117 67 ERVHFCVRCDYPIAIYG---RLN-PCEHVFCLDCAR----SDSMCYLCD 107 (493)
Q Consensus 67 EKvhFCdICdlPI~iyg---RmI-PCKHVFCydCA~----sDktCP~Cn 107 (493)
+++.-|++|..-|.-+. .|. -|+|-|||.|.. .+..|..|-
T Consensus 304 ~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 304 KRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred HhcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCcc
Confidence 56899999998764432 111 278888888884 234455443
No 122
>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=47.31 E-value=11 Score=27.83 Aligned_cols=48 Identities=19% Similarity=0.370 Sum_probs=28.6
Q ss_pred ccCCCcccccccccc-ccccccchhhhhCCCCcccchHhHhhheeeecCCcEEE
Q 011117 72 CVRCDYPIAIYGRLN-PCEHVFCLDCARSDSMCYLCDERIQKIQTIKLMEGIFI 124 (493)
Q Consensus 72 CdICdlPI~iygRmI-PCKHVFCydCA~sDktCP~Cna~VqrIEri~p~esIFI 124 (493)
|..|+++|......+ --...|-.+|. +|-.|+..+..-..... ++-..
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf----~C~~C~~~l~~~~~~~~-~~~~~ 49 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECF----KCSKCGKPLNDGDFYEK-DGKPY 49 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTS----BETTTTCBTTTSSEEEE-TTEEE
T ss_pred CCCCCCCccCcEEEEEeCCcEEEcccc----ccCCCCCccCCCeeEeE-CCEEE
Confidence 778888888555442 33444554443 56778877776664433 44445
No 123
>PRK12495 hypothetical protein; Provisional
Probab=46.75 E-value=6.7 Score=39.23 Aligned_cols=29 Identities=21% Similarity=0.555 Sum_probs=20.3
Q ss_pred cccccCCCccccccccccccccccchhhhhCCCCcccchHhHhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCARSDSMCYLCDERIQK 112 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~sDktCP~Cna~Vqr 112 (493)
.++|..|+.||-. +.....|+.|...|..
T Consensus 42 a~hC~~CG~PIpa---------------~pG~~~Cp~CQ~~~~~ 70 (226)
T PRK12495 42 NAHCDECGDPIFR---------------HDGQEFCPTCQQPVTE 70 (226)
T ss_pred hhhcccccCcccC---------------CCCeeECCCCCCcccc
Confidence 6899999999982 1244567777766653
No 124
>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=46.20 E-value=5.9 Score=30.81 Aligned_cols=32 Identities=22% Similarity=0.685 Sum_probs=16.3
Q ss_pred cccccccCCCcccccccc---ccccccccchhhhh
Q 011117 67 ERVHFCVRCDYPIAIYGR---LNPCEHVFCLDCAR 98 (493)
Q Consensus 67 EKvhFCdICdlPI~iygR---mIPCKHVFCydCA~ 98 (493)
+....|.+|+..|..--| ---|+++||.+|..
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~ 41 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSS 41 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhC
Confidence 346889999988865333 23588899999986
No 125
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=46.09 E-value=9.6 Score=28.32 Aligned_cols=30 Identities=30% Similarity=0.883 Sum_probs=16.5
Q ss_pred cccccC--CCccccccccccc-------cccccchhhhh
Q 011117 69 VHFCVR--CDYPIAIYGRLNP-------CEHVFCLDCAR 98 (493)
Q Consensus 69 vhFCdI--CdlPI~iygRmIP-------CKHVFCydCA~ 98 (493)
...|+. |+..|........ |++.||..|-.
T Consensus 18 ~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~ 56 (64)
T PF01485_consen 18 IRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGE 56 (64)
T ss_dssp CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTS
T ss_pred ccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCc
Confidence 458987 9977665544333 88888888875
No 126
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=45.21 E-value=12 Score=30.77 Aligned_cols=12 Identities=33% Similarity=0.587 Sum_probs=6.3
Q ss_pred ccccCCCccccc
Q 011117 70 HFCVRCDYPIAI 81 (493)
Q Consensus 70 hFCdICdlPI~i 81 (493)
..|..|+..|.-
T Consensus 8 ~~CtSCg~~i~~ 19 (59)
T PRK14890 8 PKCTSCGIEIAP 19 (59)
T ss_pred ccccCCCCcccC
Confidence 445555555543
No 127
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=44.33 E-value=15 Score=27.32 Aligned_cols=10 Identities=40% Similarity=0.730 Sum_probs=7.5
Q ss_pred cccCCCcccc
Q 011117 71 FCVRCDYPIA 80 (493)
Q Consensus 71 FCdICdlPI~ 80 (493)
.|+.|..+|.
T Consensus 2 ~C~~C~~~i~ 11 (46)
T cd02249 2 SCDGCLKPIV 11 (46)
T ss_pred CCcCCCCCCc
Confidence 5888887765
No 128
>PF14369 zf-RING_3: zinc-finger
Probab=43.36 E-value=9.2 Score=27.86 Aligned_cols=19 Identities=26% Similarity=0.781 Sum_probs=12.9
Q ss_pred ccchhhhh--------CC-CCcccchHh
Q 011117 91 VFCLDCAR--------SD-SMCYLCDER 109 (493)
Q Consensus 91 VFCydCA~--------sD-ktCP~Cna~ 109 (493)
.+||.|.+ .+ .+||.|+..
T Consensus 3 ywCh~C~~~V~~~~~~~~~~~CP~C~~g 30 (35)
T PF14369_consen 3 YWCHQCNRFVRIAPSPDSDVACPRCHGG 30 (35)
T ss_pred EeCccCCCEeEeCcCCCCCcCCcCCCCc
Confidence 57888876 12 349999864
No 129
>PLN02189 cellulose synthase
Probab=43.26 E-value=13 Score=43.86 Aligned_cols=46 Identities=22% Similarity=0.585 Sum_probs=29.0
Q ss_pred cccccCCCcccc------ccccccccccccchhhhh-----CCCCcccchHhHhhhe
Q 011117 69 VHFCVRCDYPIA------IYGRLNPCEHVFCLDCAR-----SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 69 vhFCdICdlPI~------iygRmIPCKHVFCydCA~-----sDktCP~Cna~VqrIE 114 (493)
.+.|-||+..|. .++...=|.--.|-.|++ ..+.||.|+.+-.++.
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~k 90 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLK 90 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 557777775544 222233355556777776 4588999998877544
No 130
>PF04134 DUF393: Protein of unknown function, DUF393; InterPro: IPR007263 The DCC family, named after the conserved N-terminal DxxCxxC motif, encompasses COG3011 from COG. Proteins in this family are predicted to have a thioredoxin-like fold which, together with the presence of an invariant catalytic cysteine residue, suggests that they are a novel group of thiol-disulphide oxidoreductases []. As some of the bacterial proteins are encoded near penicillin-binding proteins, it has been suggested that these may be involved in redox regulation of cell wall biosynthesis [].
Probab=42.77 E-value=18 Score=30.04 Aligned_cols=28 Identities=14% Similarity=0.263 Sum_probs=22.9
Q ss_pred CCCcccchHhHhhheeeecCCcEEEecC
Q 011117 100 DSMCYLCDERIQKIQTIKLMEGIFICAA 127 (493)
Q Consensus 100 DktCP~Cna~VqrIEri~p~esIFIC~~ 127 (493)
|..|++|+..|+.+++....+.|-.++.
T Consensus 4 Dg~C~lC~~~~~~l~~~d~~~~l~~~~~ 31 (114)
T PF04134_consen 4 DGDCPLCRREVRFLRRRDRGGRLRFVDI 31 (114)
T ss_pred CCCCHhHHHHHHHHHhcCCCCCEEEEEC
Confidence 6789999999999999865566777654
No 131
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=42.16 E-value=14 Score=28.84 Aligned_cols=24 Identities=29% Similarity=0.895 Sum_probs=14.2
Q ss_pred CcccchHhHhhheeeecCCcEEEec
Q 011117 102 MCYLCDERIQKIQTIKLMEGIFICA 126 (493)
Q Consensus 102 tCP~Cna~VqrIEri~p~esIFIC~ 126 (493)
.|.+|..+|-.+.+.+..++ |||.
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~ 24 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICK 24 (51)
T ss_pred CCCccccccccccceeccCc-cchH
Confidence 36666666666666554444 6643
No 132
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=42.15 E-value=8.7 Score=31.56 Aligned_cols=29 Identities=24% Similarity=0.648 Sum_probs=20.2
Q ss_pred cccccCCCccccccccccccccccchhhhh--CCCCcccch
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR--SDSMCYLCD 107 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~--sDktCP~Cn 107 (493)
.+.|+.|+..+..+ |..|-+ ..++||.|.
T Consensus 25 ~F~CPnCG~~~I~R----------C~~CRk~~~~Y~CP~CG 55 (59)
T PRK14890 25 KFLCPNCGEVIIYR----------CEKCRKQSNPYTCPKCG 55 (59)
T ss_pred EeeCCCCCCeeEee----------chhHHhcCCceECCCCC
Confidence 57788888764443 777877 347888874
No 133
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=40.20 E-value=19 Score=26.76 Aligned_cols=31 Identities=26% Similarity=0.784 Sum_probs=19.3
Q ss_pred cccccc--CCCcccccc----c-ccc--ccccccchhhhh
Q 011117 68 RVHFCV--RCDYPIAIY----G-RLN--PCEHVFCLDCAR 98 (493)
Q Consensus 68 KvhFCd--ICdlPI~iy----g-RmI--PCKHVFCydCA~ 98 (493)
+...|+ .|+..|..- . .+. -|.+.||..|-.
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCC
Confidence 467899 998655442 1 222 267788887765
No 134
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=39.33 E-value=11 Score=39.94 Aligned_cols=40 Identities=25% Similarity=0.618 Sum_probs=31.8
Q ss_pred cccccCCCccc-------------cccccccccccccchhhhh----CCCCcccchH
Q 011117 69 VHFCVRCDYPI-------------AIYGRLNPCEHVFCLDCAR----SDSMCYLCDE 108 (493)
Q Consensus 69 vhFCdICdlPI-------------~iygRmIPCKHVFCydCA~----sDktCP~Cna 108 (493)
.--|=.|..|| .-+|+.--||..||.||-. .-..|+.|.-
T Consensus 362 s~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 362 STHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred CccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 45688999766 5578888899999999987 3478999963
No 135
>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=39.19 E-value=14 Score=24.71 Aligned_cols=18 Identities=22% Similarity=0.468 Sum_probs=14.5
Q ss_pred hhcCcccccccCCCcccc
Q 011117 63 RQLGERVHFCVRCDYPIA 80 (493)
Q Consensus 63 rqlgEKvhFCdICdlPI~ 80 (493)
.=.+||-+.|++|++-|.
T Consensus 8 ~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 8 THTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHSSSSSEEESSSSEEES
T ss_pred hcCCCCCCCCCCCcCeeC
Confidence 346889999999998664
No 136
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=39.14 E-value=17 Score=38.94 Aligned_cols=40 Identities=25% Similarity=0.637 Sum_probs=29.8
Q ss_pred cccCCCcccccccccc---ccccccchhhhh-----CCCCcccchHhH
Q 011117 71 FCVRCDYPIAIYGRLN---PCEHVFCLDCAR-----SDSMCYLCDERI 110 (493)
Q Consensus 71 FCdICdlPI~iygRmI---PCKHVFCydCA~-----sDktCP~Cna~V 110 (493)
.|+.|-.||-|--+.+ ||.-..|--|+. .+..||.|+..-
T Consensus 16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred cCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 3999999998876654 666666666665 458999999765
No 137
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=37.91 E-value=12 Score=26.04 Aligned_cols=26 Identities=23% Similarity=0.600 Sum_probs=14.0
Q ss_pred CcccchHhHhhheeeecCCcEEEecCC-chh
Q 011117 102 MCYLCDERIQKIQTIKLMEGIFICAAP-HCL 131 (493)
Q Consensus 102 tCP~Cna~VqrIEri~p~esIFIC~~~-gCk 131 (493)
.||.|++++.+.+ +|-++.|... .|.
T Consensus 1 ~CP~C~s~l~~~~----~ev~~~C~N~l~Cp 27 (28)
T PF03119_consen 1 TCPVCGSKLVREE----GEVDIRCPNPLSCP 27 (28)
T ss_dssp B-TTT--BEEE-C----CTTCEEE--CGC-H
T ss_pred CcCCCCCEeEcCC----CCEeEECCCCCcCC
Confidence 5999999986544 4668889877 774
No 138
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=37.66 E-value=20 Score=36.41 Aligned_cols=58 Identities=26% Similarity=0.700 Sum_probs=37.0
Q ss_pred ccccccccccccccccchhh--------hh---CC---CCcccchHhHh-----------------hhee--eecCCcEE
Q 011117 77 YPIAIYGRLNPCEHVFCLDC--------AR---SD---SMCYLCDERIQ-----------------KIQT--IKLMEGIF 123 (493)
Q Consensus 77 lPI~iygRmIPCKHVFCydC--------A~---sD---ktCP~Cna~Vq-----------------rIEr--i~p~esIF 123 (493)
+||+.-+ |+++||.+= -. .+ .+|+.|...|. ++++ -.....+|
T Consensus 22 LPf~Cd~----C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~~~~de~~~~~v~~h~~~dC~~~~~~~~~k~~ 97 (250)
T KOG3183|consen 22 LPFKCDG----CSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVPTKKDEAPDKVVEPHISNDCDRHPEQKKRKVF 97 (250)
T ss_pred cceeeCC----ccchhhhccchHhhcCCCcccccceeecccCCCCCCCCCCCCcchhhhhchhhccccccCchhhhcccc
Confidence 6777655 899999864 33 22 78999987663 1111 00123566
Q ss_pred E--ecCCchhhhhcChh
Q 011117 124 I--CAAPHCLKSFLKKT 138 (493)
Q Consensus 124 I--C~~~gCkRtYLSqR 138 (493)
. |+++.|+++-.-..
T Consensus 98 t~kc~~~~c~k~~~~~~ 114 (250)
T KOG3183|consen 98 TNKCPVPRCKKTLTLAN 114 (250)
T ss_pred cccCCchhhHHHHHHHH
Confidence 5 99999999875553
No 139
>PLN03086 PRLI-interacting factor K; Provisional
Probab=37.58 E-value=15 Score=40.81 Aligned_cols=69 Identities=23% Similarity=0.424 Sum_probs=38.2
Q ss_pred cccccCCCccccccccccccccccchhhhhCCCCccc--chHhHhhheeeecCCcEEEecCCchhhhhcChhHHHHhhhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCARSDSMCYL--CDERIQKIQTIKLMEGIFICAAPHCLKSFLKKTEFEAHIHV 146 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~sDktCP~--Cna~VqrIEri~p~esIFIC~~~gCkRtYLSqRDLQAHInh 146 (493)
...|..|..-|...--. .|- ..|.+....|+. |...+.+-+ .++-+.|.. |.+.|- ..+|+.|++.
T Consensus 407 ~V~C~NC~~~i~l~~l~---lHe--~~C~r~~V~Cp~~~Cg~v~~r~e----l~~H~~C~~--Cgk~f~-~s~LekH~~~ 474 (567)
T PLN03086 407 TVECRNCKHYIPSRSIA---LHE--AYCSRHNVVCPHDGCGIVLRVEE----AKNHVHCEK--CGQAFQ-QGEMEKHMKV 474 (567)
T ss_pred eEECCCCCCccchhHHH---HHH--hhCCCcceeCCcccccceeeccc----cccCccCCC--CCCccc-hHHHHHHHHh
Confidence 45788888666543211 343 344455556663 666663222 244456553 766663 5667777766
Q ss_pred hhc
Q 011117 147 SHA 149 (493)
Q Consensus 147 rH~ 149 (493)
.|.
T Consensus 475 ~Hk 477 (567)
T PLN03086 475 FHE 477 (567)
T ss_pred cCC
Confidence 563
No 140
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=37.47 E-value=17 Score=24.54 Aligned_cols=18 Identities=28% Similarity=0.650 Sum_probs=15.1
Q ss_pred CchhhhhcChhHHHHhhhh
Q 011117 128 PHCLKSFLKKTEFEAHIHV 146 (493)
Q Consensus 128 ~gCkRtYLSqRDLQAHInh 146 (493)
+.|.|+| +...|+.|++.
T Consensus 6 ~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 6 PICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CCCCCEE-CHHHHHHHHHh
Confidence 6799999 77789999865
No 141
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=37.04 E-value=22 Score=30.91 Aligned_cols=49 Identities=16% Similarity=0.497 Sum_probs=16.5
Q ss_pred ccccccCCCccccccc------cccccccccchhhhh-----CCCCcccchHhHhhheee
Q 011117 68 RVHFCVRCDYPIAIYG------RLNPCEHVFCLDCAR-----SDSMCYLCDERIQKIQTI 116 (493)
Q Consensus 68 KvhFCdICdlPI~iyg------RmIPCKHVFCydCA~-----sDktCP~Cna~VqrIEri 116 (493)
...+|-||+..|..-. ...=|.--.|-.|++ ..+.|+.|+.+-.++...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kgs 67 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKGS 67 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccCC
Confidence 3566777765443211 122244445777876 458999999777665543
No 142
>PHA00733 hypothetical protein
Probab=37.00 E-value=10 Score=33.95 Aligned_cols=27 Identities=22% Similarity=0.335 Sum_probs=23.5
Q ss_pred EEEecCCchhhhhcChhHHHHhhhhhhcc
Q 011117 122 IFICAAPHCLKSFLKKTEFEAHIHVSHAD 150 (493)
Q Consensus 122 IFIC~~~gCkRtYLSqRDLQAHInhrH~~ 150 (493)
-|.|. .|.|.|.+...|..|+...|..
T Consensus 99 ~~~C~--~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 99 SKVCP--VCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CccCC--CCCCccCCHHHHHHHHHHhcCc
Confidence 47765 6999999999999999999975
No 143
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=36.57 E-value=20 Score=24.22 Aligned_cols=11 Identities=36% Similarity=0.818 Sum_probs=6.0
Q ss_pred cccCCCccccc
Q 011117 71 FCVRCDYPIAI 81 (493)
Q Consensus 71 FCdICdlPI~i 81 (493)
+|+.|+..|..
T Consensus 4 ~Cp~Cg~~~~~ 14 (26)
T PF13248_consen 4 FCPNCGAEIDP 14 (26)
T ss_pred CCcccCCcCCc
Confidence 56666654433
No 144
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=36.43 E-value=8.2e+02 Score=29.29 Aligned_cols=19 Identities=32% Similarity=0.186 Sum_probs=13.5
Q ss_pred HhHhhheeeecCCcEEEec
Q 011117 108 ERIQKIQTIKLMEGIFICA 126 (493)
Q Consensus 108 a~VqrIEri~p~esIFIC~ 126 (493)
.+|++|..|+.++-.|||-
T Consensus 446 GeiqSi~li~~R~cAfI~M 464 (894)
T KOG0132|consen 446 GEIQSIILIPPRGCAFIKM 464 (894)
T ss_pred ccceeEeeccCCceeEEEE
Confidence 3566777777777777776
No 145
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=36.33 E-value=26 Score=33.10 Aligned_cols=48 Identities=19% Similarity=0.371 Sum_probs=34.1
Q ss_pred cCcccccccCCCcccccccc---ccccccccchhhhh-----C--CCCcccchHhHhh
Q 011117 65 LGERVHFCVRCDYPIAIYGR---LNPCEHVFCLDCAR-----S--DSMCYLCDERIQK 112 (493)
Q Consensus 65 lgEKvhFCdICdlPI~iygR---mIPCKHVFCydCA~-----s--DktCP~Cna~Vqr 112 (493)
+..+++.|.||..--.+.-= .-+|.-..|+.|+. . --+||.|+..-..
T Consensus 76 ~d~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred cCCCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 44568999999755444322 34699999999998 2 2689999876543
No 146
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=36.29 E-value=5.3 Score=43.25 Aligned_cols=33 Identities=18% Similarity=0.514 Sum_probs=19.0
Q ss_pred cccchhhhh-CCCCcccchHhHhhheeeecCCcEE
Q 011117 90 HVFCLDCAR-SDSMCYLCDERIQKIQTIKLMEGIF 123 (493)
Q Consensus 90 HVFCydCA~-sDktCP~Cna~VqrIEri~p~esIF 123 (493)
.+||+.|+. .-.+|-.|...|.+.= |..++..|
T Consensus 323 k~~CE~cyq~tlekC~~Cg~~I~d~i-LrA~Gkay 356 (468)
T KOG1701|consen 323 KPYCEGCYQDTLEKCNKCGEPIMDRI-LRALGKAY 356 (468)
T ss_pred cccchHHHHHHHHHHhhhhhHHHHHH-HHhccccc
Confidence 344555554 2357888888886432 44456555
No 147
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=36.21 E-value=20 Score=42.58 Aligned_cols=48 Identities=15% Similarity=0.465 Sum_probs=33.3
Q ss_pred cccccccCCCccccc------cccccccccccchhhhh-----CCCCcccchHhHhhhe
Q 011117 67 ERVHFCVRCDYPIAI------YGRLNPCEHVFCLDCAR-----SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 67 EKvhFCdICdlPI~i------ygRmIPCKHVFCydCA~-----sDktCP~Cna~VqrIE 114 (493)
-..+.|-||+..|.+ .+...=|.--.|-.|++ ..+.||.|+.+-.++.
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~k 73 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRHK 73 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhc
Confidence 347899999865432 22344466668888887 4589999998887544
No 148
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.02 E-value=15 Score=39.70 Aligned_cols=37 Identities=27% Similarity=0.498 Sum_probs=25.6
Q ss_pred cccCCC--ccccccccccc-cccccchhhhh-------CCCCcccch
Q 011117 71 FCVRCD--YPIAIYGRLNP-CEHVFCLDCAR-------SDSMCYLCD 107 (493)
Q Consensus 71 FCdICd--lPI~iygRmIP-CKHVFCydCA~-------sDktCP~Cn 107 (493)
.|.||. +|-..-.-.|= |.|+|=..|.. ++..||.|+
T Consensus 6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 477774 44333333333 99999999998 346899999
No 149
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.91 E-value=3.2e+02 Score=30.16 Aligned_cols=42 Identities=21% Similarity=0.455 Sum_probs=30.2
Q ss_pred ccccccCCCcccccccccc--ccccccchhhhh---CCCCcccchHh
Q 011117 68 RVHFCVRCDYPIAIYGRLN--PCEHVFCLDCAR---SDSMCYLCDER 109 (493)
Q Consensus 68 KvhFCdICdlPI~iygRmI--PCKHVFCydCA~---sDktCP~Cna~ 109 (493)
..++|..|++.+-.--+++ .|...||-.|++ -.+.|..|.+-
T Consensus 218 e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~~~~~~c~~~ 264 (448)
T KOG0314|consen 218 EGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALISKSMCVCGAS 264 (448)
T ss_pred ccccCceecchhhHHHHHhhhhhcccCCccccccccccccCCcchhh
Confidence 3799999976655444444 789999999998 33667666653
No 150
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.84 E-value=8.8e+02 Score=29.45 Aligned_cols=17 Identities=29% Similarity=0.524 Sum_probs=9.2
Q ss_pred CCCccCccCCCCCCCCC
Q 011117 219 QPPVFGQLQNYQSDAQP 235 (493)
Q Consensus 219 ~p~~~~~~~~~~~~~~~ 235 (493)
+|.|+|-.++.-.+++.
T Consensus 16 ~~~~~~g~~~~~a~~~~ 32 (1007)
T KOG1984|consen 16 PPNFYGGSSNSLAQAMP 32 (1007)
T ss_pred CCCcCCCCCchhhhhcc
Confidence 56666665554444433
No 151
>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=35.37 E-value=17 Score=31.83 Aligned_cols=31 Identities=26% Similarity=0.633 Sum_probs=16.0
Q ss_pred ccccccCCCccccc----cccccccccccchhhhh
Q 011117 68 RVHFCVRCDYPIAI----YGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 68 KvhFCdICdlPI~i----ygRmIPCKHVFCydCA~ 98 (493)
..+.|.+|..+|.. -..-.=|+|.+|-.|-.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~ 87 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGV 87 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEE
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCC
Confidence 46899999877542 11222355555555554
No 152
>PLN03086 PRLI-interacting factor K; Provisional
Probab=35.24 E-value=23 Score=39.43 Aligned_cols=22 Identities=23% Similarity=0.363 Sum_probs=12.2
Q ss_pred CchhhhhcChhHHHHhhhhhhcc
Q 011117 128 PHCLKSFLKKTEFEAHIHVSHAD 150 (493)
Q Consensus 128 ~gCkRtYLSqRDLQAHInhrH~~ 150 (493)
..|.|. ...||+++|.-..|++
T Consensus 545 ~~Cgk~-Vrlrdm~~H~~~~h~~ 566 (567)
T PLN03086 545 DSCGRS-VMLKEMDIHQIAVHQK 566 (567)
T ss_pred cccCCe-eeehhHHHHHHHhhcC
Confidence 455443 3456666666666653
No 153
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=35.12 E-value=11 Score=39.94 Aligned_cols=27 Identities=22% Similarity=0.453 Sum_probs=24.2
Q ss_pred CcEEEecCCchhhhhcChhHHHHhhhhhh
Q 011117 120 EGIFICAAPHCLKSFLKKTEFEAHIHVSH 148 (493)
Q Consensus 120 esIFIC~~~gCkRtYLSqRDLQAHInhrH 148 (493)
+.=|-|.+ |.|-|.|..-|+||++|.|
T Consensus 396 ~KPYrCev--C~KRYKNlNGLKYHr~Hsh 422 (423)
T COG5189 396 DKPYRCEV--CDKRYKNLNGLKYHRKHSH 422 (423)
T ss_pred CCceeccc--cchhhccCccceecccccC
Confidence 34588888 9999999999999999988
No 154
>PF14768 RPA_interact_C: Replication protein A interacting C-terminal
Probab=34.30 E-value=29 Score=28.90 Aligned_cols=44 Identities=14% Similarity=0.354 Sum_probs=31.4
Q ss_pred CcccchHhHhhheeeecCCcEEEecCCchhhhh---cChhHHHHhhhhhhcc
Q 011117 102 MCYLCDERIQKIQTIKLMEGIFICAAPHCLKSF---LKKTEFEAHIHVSHAD 150 (493)
Q Consensus 102 tCP~Cna~VqrIEri~p~esIFIC~~~gCkRtY---LSqRDLQAHInhrH~~ 150 (493)
.||+|.... +....++..|+...-.++- ++..+|+.++...+..
T Consensus 1 iCPVC~~~~-----L~~~~~~i~C~Cgl~l~~~~~~~tl~~l~~~L~~~~~~ 47 (82)
T PF14768_consen 1 ICPVCQKGN-----LRENSNVISCSCGLRLNTQQDELTLEELRQLLEEAVTE 47 (82)
T ss_pred CCCccCCCc-----ccccCCeEECCCccEEecCCCCCCHHHHHHHHHHHHHH
Confidence 499998877 4446788999876556666 7778888887555443
No 155
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=33.19 E-value=16 Score=33.39 Aligned_cols=24 Identities=25% Similarity=0.697 Sum_probs=20.4
Q ss_pred ccccccchhhhh----CCCCcccchHhH
Q 011117 87 PCEHVFCLDCAR----SDSMCYLCDERI 110 (493)
Q Consensus 87 PCKHVFCydCA~----sDktCP~Cna~V 110 (493)
-|-|+|=+.|+. ...+||+|+.+=
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 499999999998 568999998753
No 156
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=33.19 E-value=46 Score=35.98 Aligned_cols=50 Identities=20% Similarity=0.337 Sum_probs=35.5
Q ss_pred CCcccchHhH----------hhheeeecCCcEEEecCCchhh----hhcChhHHHHhhhhhhccc
Q 011117 101 SMCYLCDERI----------QKIQTIKLMEGIFICAAPHCLK----SFLKKTEFEAHIHVSHADL 151 (493)
Q Consensus 101 ktCP~Cna~V----------qrIEri~p~esIFIC~~~gCkR----tYLSqRDLQAHInhrH~~l 151 (493)
..|.+|+.-- ..+++-. .-+-|.|+++.|+- .|...-.|++||-.-|...
T Consensus 245 E~ChICD~v~p~~~QYFK~Y~~Le~HF-~~~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~~ 308 (493)
T COG5236 245 EACHICDMVGPIRYQYFKSYEDLEAHF-RNAHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHKVN 308 (493)
T ss_pred hhhhhhhccCccchhhhhCHHHHHHHh-hcCceEEEEEEEecCcEEEeccHHHHHHHHHHHhhcc
Confidence 5688887432 2444433 35678999888875 4778889999998888775
No 157
>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=32.93 E-value=15 Score=33.13 Aligned_cols=34 Identities=21% Similarity=0.607 Sum_probs=22.2
Q ss_pred CCcccchHhHhhheeeec-----------CCcEEEecCCchhhhhcC
Q 011117 101 SMCYLCDERIQKIQTIKL-----------MEGIFICAAPHCLKSFLK 136 (493)
Q Consensus 101 ktCP~Cna~VqrIEri~p-----------~esIFIC~~~gCkRtYLS 136 (493)
+.|+.||..+..|+.-.. .+.++.| ++|+|-|=.
T Consensus 92 sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C--~~C~kiyW~ 136 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRC--PGCGKIYWE 136 (147)
T ss_pred CccCCCCcEeeechhhccccccCccccccCCeEEEC--CCCCCEecc
Confidence 578999888776654321 2356775 468888754
No 158
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 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 ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=32.73 E-value=16 Score=27.20 Aligned_cols=26 Identities=19% Similarity=0.544 Sum_probs=18.2
Q ss_pred CCcccchHhHhhheeeecCC-cEEEec
Q 011117 101 SMCYLCDERIQKIQTIKLME-GIFICA 126 (493)
Q Consensus 101 ktCP~Cna~VqrIEri~p~e-sIFIC~ 126 (493)
..|..|......+.++-... ++|||.
T Consensus 2 ~~CSFCgr~~~~v~~li~g~~~~~IC~ 28 (41)
T PF06689_consen 2 KRCSFCGRPESEVGRLISGPNGAYICD 28 (41)
T ss_dssp -B-TTT--BTTTSSSEEEES-SEEEEH
T ss_pred CCccCCCCCHHHHhceecCCCCcEECH
Confidence 57899999998888887666 799987
No 159
>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=31.64 E-value=23 Score=34.15 Aligned_cols=21 Identities=33% Similarity=0.646 Sum_probs=14.1
Q ss_pred ccCCCccccccccccccccccchhhhh
Q 011117 72 CVRCDYPIAIYGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 72 CdICdlPI~iygRmIPCKHVFCydCA~ 98 (493)
|++|+.++..-. .-.|.+|+.
T Consensus 1 C~~CG~~~~~~~------~~lC~~C~~ 21 (236)
T PF04981_consen 1 CPRCGREIEPLI------DGLCPDCYL 21 (236)
T ss_pred CCCCCCCCCCcc------cccChHHhc
Confidence 888988775422 246777776
No 160
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=31.08 E-value=31 Score=36.91 Aligned_cols=81 Identities=15% Similarity=0.219 Sum_probs=49.0
Q ss_pred cccccCCCcccc--ccccccccccc-cchhhhhCC-------CCcccchHhH-hhheeeecCCcEEEec-------CCch
Q 011117 69 VHFCVRCDYPIA--IYGRLNPCEHV-FCLDCARSD-------SMCYLCDERI-QKIQTIKLMEGIFICA-------APHC 130 (493)
Q Consensus 69 vhFCdICdlPI~--iygRmIPCKHV-FCydCA~sD-------ktCP~Cna~V-qrIEri~p~esIFIC~-------~~gC 130 (493)
...|+-|++--. -+||.+=|... .|.+|+..+ ..=|+|..-+ .++| +. .++=+||- .+-|
T Consensus 8 ~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPmqcil~~~dfe-L~-f~Ge~i~~y~~qSftCPyC 85 (381)
T KOG1280|consen 8 GVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYENGATTPIHDEDHPMQCILSRVDFE-LY-FGGEPISHYDPQSFTCPYC 85 (381)
T ss_pred CceeccccccceeeeeeEeeeecchhHHHHHhhcCCCCcccCCCCceeEEeecccee-eE-ecCccccccccccccCCcc
Confidence 567999985332 23444446655 899999832 1122222222 1222 22 13333333 3679
Q ss_pred hhhhcChhHHHHhhhhhhccc
Q 011117 131 LKSFLKKTEFEAHIHVSHADL 151 (493)
Q Consensus 131 kRtYLSqRDLQAHInhrH~~l 151 (493)
++.=+++++|+.|+--.|-.+
T Consensus 86 ~~~Gfte~~f~~Hv~s~Hpda 106 (381)
T KOG1280|consen 86 GIMGFTERQFGTHVLSQHPEA 106 (381)
T ss_pred cccccchhHHHHHhhhcCccc
Confidence 999999999999998888776
No 161
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=30.65 E-value=30 Score=35.79 Aligned_cols=28 Identities=29% Similarity=0.565 Sum_probs=23.6
Q ss_pred CCcEEEecCCchhhhhcChhHHHHhhhhhh
Q 011117 119 MEGIFICAAPHCLKSFLKKTEFEAHIHVSH 148 (493)
Q Consensus 119 ~esIFIC~~~gCkRtYLSqRDLQAHInhrH 148 (493)
.+.||||. .|+|.|.+.++|..|...+-
T Consensus 45 ~~~lyiCe--~Clky~~~~~~l~~H~~~C~ 72 (290)
T PLN03238 45 CTKLYICE--YCLKYMRKKKSLLRHLAKCD 72 (290)
T ss_pred CCeEEEcC--CCcchhCCHHHHHHHHHhCC
Confidence 47899975 59999999999999986543
No 162
>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 KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=30.43 E-value=28 Score=37.09 Aligned_cols=72 Identities=22% Similarity=0.380 Sum_probs=47.9
Q ss_pred cccccCCCccccccccccccccccchhhhh--CCCCcccchHhHhh-----heeeecCCcEEEecCCchhhhhcChhHHH
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR--SDSMCYLCDERIQK-----IQTIKLMEGIFICAAPHCLKSFLKKTEFE 141 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~--sDktCP~Cna~Vqr-----IEri~p~esIFIC~~~gCkRtYLSqRDLQ 141 (493)
...|..|...|..-....-=.+.+|.+|+. ..-+|..|...|.. +.+. -..+=|.|. .| ++.|..+.+-
T Consensus 330 ~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~~v~a~~~~-wH~~cf~C~--~C-~~~~~~~~~~ 405 (479)
T KOG1703|consen 330 HFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEEGVCALGRL-WHPECFVCA--DC-GKPLKNSSFF 405 (479)
T ss_pred ceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHhHhhhccCe-echhceeee--cc-cCCCCCCccc
Confidence 357778877776665544457778999998 45789999988863 2221 235678888 78 5555555555
Q ss_pred Hhh
Q 011117 142 AHI 144 (493)
Q Consensus 142 AHI 144 (493)
.|.
T Consensus 406 ~~~ 408 (479)
T KOG1703|consen 406 ESD 408 (479)
T ss_pred ccC
Confidence 554
No 164
>PRK11019 hypothetical protein; Provisional
Probab=29.78 E-value=33 Score=29.79 Aligned_cols=32 Identities=28% Similarity=0.648 Sum_probs=24.7
Q ss_pred CcccccccCCCccccc-cccccccccccchhhhh
Q 011117 66 GERVHFCVRCDYPIAI-YGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 66 gEKvhFCdICdlPI~i-ygRmIPCKHVFCydCA~ 98 (493)
++...+|..|+.+|-. +-.++| .-.+|-+|..
T Consensus 33 g~syg~C~~CG~~Ip~~Rl~A~P-~a~~Cv~Cq~ 65 (88)
T PRK11019 33 GESLTECEECGEPIPEARRKAIP-GVRLCVACQQ 65 (88)
T ss_pred CCcCCeeCcCCCcCcHHHHhhcC-CccccHHHHH
Confidence 4445799999999986 666777 5668888876
No 165
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=29.64 E-value=27 Score=30.73 Aligned_cols=32 Identities=25% Similarity=0.568 Sum_probs=23.9
Q ss_pred hcCcccccccCCCccccccccccccccccchhhhh
Q 011117 64 QLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~ 98 (493)
.+|-....|+.|+..-.+ ..-|||.||-.|-.
T Consensus 37 ~~G~~~~~C~~Cg~~~~~---~~SCk~R~CP~C~~ 68 (111)
T PF14319_consen 37 ALGFHRYRCEDCGHEKIV---YNSCKNRHCPSCQA 68 (111)
T ss_pred cCCcceeecCCCCceEEe---cCcccCcCCCCCCC
Confidence 467778999999976655 44588888877765
No 166
>PLN02400 cellulose synthase
Probab=29.50 E-value=26 Score=41.73 Aligned_cols=47 Identities=19% Similarity=0.557 Sum_probs=29.0
Q ss_pred ccccccCCCccccc------cccccccccccchhhhh-----CCCCcccchHhHhhhe
Q 011117 68 RVHFCVRCDYPIAI------YGRLNPCEHVFCLDCAR-----SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 68 KvhFCdICdlPI~i------ygRmIPCKHVFCydCA~-----sDktCP~Cna~VqrIE 114 (493)
+.+.|-||+..|.+ .+...=|.--.|--|++ ..+.||.|+.+-.+..
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~K 92 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRHK 92 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccccc
Confidence 35677777754322 11223344446778887 4488999998877554
No 167
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=29.15 E-value=34 Score=23.08 Aligned_cols=26 Identities=31% Similarity=0.631 Sum_probs=19.2
Q ss_pred EEecCCchhhhhcChhHHHHhhhh-hhcc
Q 011117 123 FICAAPHCLKSFLKKTEFEAHIHV-SHAD 150 (493)
Q Consensus 123 FIC~~~gCkRtYLSqRDLQAHInh-rH~~ 150 (493)
|.|. .|.++|.+...+..|++- +|..
T Consensus 4 ~~C~--~C~~~~~~~~~~~~H~~gk~H~~ 30 (35)
T smart00451 4 FYCK--LCNVTFTDEISVEAHLKGKKHKK 30 (35)
T ss_pred eEcc--ccCCccCCHHHHHHHHChHHHHH
Confidence 5554 499999999999999943 3443
No 168
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=29.05 E-value=17 Score=39.62 Aligned_cols=64 Identities=20% Similarity=0.301 Sum_probs=41.9
Q ss_pred cccccchhhhh-----CC----CCcccchHhHhhheeeecCC---cEEEecC---CchhhhhcChh-HHHHhhhhhhccc
Q 011117 88 CEHVFCLDCAR-----SD----SMCYLCDERIQKIQTIKLME---GIFICAA---PHCLKSFLKKT-EFEAHIHVSHADL 151 (493)
Q Consensus 88 CKHVFCydCA~-----sD----ktCP~Cna~VqrIEri~p~e---sIFIC~~---~gCkRtYLSqR-DLQAHInhrH~~l 151 (493)
++|--|-.|.. .| ..|-.|+.....|.++.. . .+=+|.+ ..|++-|-++. |+-.-+++.|-.|
T Consensus 194 ~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~r~t~-~~~dv~~lal~~~~~~~~~k~~~~~~ei~~f~e~~~~sl 272 (464)
T KOG4323|consen 194 WYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVPRLTL-RWADVLHLALYNLKPMLKKKYFKSLVEILLFCEESWPSL 272 (464)
T ss_pred HHHHHhccCCCCHhhccCccceEeehhhccchhhcccccc-ccccccchhhhhhhhhhccCCcccHHHHHHHHhhccccc
Confidence 36778888887 22 579999999999988753 3 2222221 34555444444 8888888888777
Q ss_pred c
Q 011117 152 L 152 (493)
Q Consensus 152 ~ 152 (493)
.
T Consensus 273 p 273 (464)
T KOG4323|consen 273 P 273 (464)
T ss_pred c
Confidence 4
No 169
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=28.90 E-value=15 Score=32.09 Aligned_cols=24 Identities=33% Similarity=0.771 Sum_probs=19.8
Q ss_pred cccccchhhhh-------CCCCcccchHhHh
Q 011117 88 CEHVFCLDCAR-------SDSMCYLCDERIQ 111 (493)
Q Consensus 88 CKHVFCydCA~-------sDktCP~Cna~Vq 111 (493)
|+|.|=..|+. +...||+|+..-+
T Consensus 51 C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 51 CLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred HHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 99999999997 3367999998654
No 170
>PHA00080 DksA-like zinc finger domain containing protein
Probab=28.83 E-value=39 Score=28.05 Aligned_cols=35 Identities=20% Similarity=0.453 Sum_probs=24.2
Q ss_pred hhcCcccccccCCCcccccc-ccccccccccchhhhh
Q 011117 63 RQLGERVHFCVRCDYPIAIY-GRLNPCEHVFCLDCAR 98 (493)
Q Consensus 63 rqlgEKvhFCdICdlPI~iy-gRmIPCKHVFCydCA~ 98 (493)
+..+....+|..|+.+|-.. -..+| .-++|-+|..
T Consensus 25 ~~~~~~~~~C~~Cg~~Ip~~Rl~a~P-~~~~Cv~Cq~ 60 (72)
T PHA00080 25 KYQAPSATHCEECGDPIPEARREAVP-GCRTCVSCQE 60 (72)
T ss_pred cccCCCCCEecCCCCcCcHHHHHhCC-CccCcHHHHH
Confidence 34455567999999999653 33566 5567888865
No 171
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.72 E-value=26 Score=38.12 Aligned_cols=44 Identities=23% Similarity=0.410 Sum_probs=33.7
Q ss_pred cccccCCCccccc----cccccccccccchhhhh------CCCCcccchHhHhh
Q 011117 69 VHFCVRCDYPIAI----YGRLNPCEHVFCLDCAR------SDSMCYLCDERIQK 112 (493)
Q Consensus 69 vhFCdICdlPI~i----ygRmIPCKHVFCydCA~------sDktCP~Cna~Vqr 112 (493)
+..|+||-..|.. +....=|.|.|=.+|++ ....||.|+.+..+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katk 57 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATK 57 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHH
Confidence 4689999866554 44556799999999998 23679999988753
No 172
>PLN02436 cellulose synthase A
Probab=28.71 E-value=31 Score=41.13 Aligned_cols=47 Identities=23% Similarity=0.594 Sum_probs=28.6
Q ss_pred ccccccCCCccccc------cccccccccccchhhhh-----CCCCcccchHhHhhhe
Q 011117 68 RVHFCVRCDYPIAI------YGRLNPCEHVFCLDCAR-----SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 68 KvhFCdICdlPI~i------ygRmIPCKHVFCydCA~-----sDktCP~Cna~VqrIE 114 (493)
..+.|-||+..|.+ .+...=|.--.|-.|++ ..+.||.|+.+-.++.
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 35677777755421 12223355556777776 4488999998877444
No 173
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=28.35 E-value=13 Score=39.20 Aligned_cols=42 Identities=31% Similarity=0.717 Sum_probs=28.6
Q ss_pred ccccCCCccccc--cccccccccccchhhhh------------------------C---CCCcccchHhHh
Q 011117 70 HFCVRCDYPIAI--YGRLNPCEHVFCLDCAR------------------------S---DSMCYLCDERIQ 111 (493)
Q Consensus 70 hFCdICdlPI~i--ygRmIPCKHVFCydCA~------------------------s---DktCP~Cna~Vq 111 (493)
-.|.||-.=|.. ..-..+|.|.|=..|.. . ..+||.|+.+|.
T Consensus 116 gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 116 GQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 568888643332 22356899998777764 1 257999999984
No 174
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=28.12 E-value=7.7e+02 Score=29.49 Aligned_cols=7 Identities=43% Similarity=1.450 Sum_probs=2.9
Q ss_pred CCCCCCC
Q 011117 304 PPFPPFP 310 (493)
Q Consensus 304 ~~~p~~~ 310 (493)
|.|+|++
T Consensus 627 Pg~np~~ 633 (894)
T KOG0132|consen 627 PGYNPYP 633 (894)
T ss_pred CCCCCCC
Confidence 3344433
No 175
>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=28.09 E-value=37 Score=25.25 Aligned_cols=29 Identities=28% Similarity=0.850 Sum_probs=21.4
Q ss_pred ccccCCCcccccccc---ccccccccchhhhh
Q 011117 70 HFCVRCDYPIAIYGR---LNPCEHVFCLDCAR 98 (493)
Q Consensus 70 hFCdICdlPI~iygR---mIPCKHVFCydCA~ 98 (493)
..|.+|++.|...-| ---|.++||.+|..
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~ 34 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSS 34 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcC
Confidence 468888877766433 34578899999987
No 176
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=28.03 E-value=27 Score=38.90 Aligned_cols=44 Identities=18% Similarity=0.424 Sum_probs=37.1
Q ss_pred cccccCCCccccccccccccccccchhhhh--------CCCCcccchHhHhh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR--------SDSMCYLCDERIQK 112 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~--------sDktCP~Cna~Vqr 112 (493)
.+.|+++..-|..+.|-.=|||.=|.|=.. -...||.|+..+..
T Consensus 306 SL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~ 357 (636)
T KOG2169|consen 306 SLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPF 357 (636)
T ss_pred EecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccc
Confidence 489999999999999999999999998776 12579999887743
No 177
>KOG2747 consensus Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=27.94 E-value=37 Score=36.49 Aligned_cols=30 Identities=23% Similarity=0.661 Sum_probs=24.9
Q ss_pred CCcEEEecCCchhhhhcChhHHHHhhhhhhcc
Q 011117 119 MEGIFICAAPHCLKSFLKKTEFEAHIHVSHAD 150 (493)
Q Consensus 119 ~esIFIC~~~gCkRtYLSqRDLQAHInhrH~~ 150 (493)
...||||. .|+|++-++.+|+.|...+-.+
T Consensus 155 ~~~lYiCE--fCLkY~~s~~~l~rH~~kC~~r 184 (396)
T KOG2747|consen 155 LDKLYICE--FCLKYMKSRTSLQRHLKKCKLR 184 (396)
T ss_pred CCeEEEeh--HHHhHhchHHHHHHHHHhcCCC
Confidence 35799975 5999999999999999776554
No 178
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=27.94 E-value=29 Score=37.53 Aligned_cols=81 Identities=19% Similarity=0.210 Sum_probs=62.2
Q ss_pred ccccccCCCcc-ccccccccccccccchhhhh-------CCCCcccchHhHhhheeeecCCcEEEecCCchhhhhcChhH
Q 011117 68 RVHFCVRCDYP-IAIYGRLNPCEHVFCLDCAR-------SDSMCYLCDERIQKIQTIKLMEGIFICAAPHCLKSFLKKTE 139 (493)
Q Consensus 68 KvhFCdICdlP-I~iygRmIPCKHVFCydCA~-------sDktCP~Cna~VqrIEri~p~esIFIC~~~gCkRtYLSqRD 139 (493)
++..|+.|.+- |..-.|-+ ..|+|=.+|.. ...-=..|....+..+.|...+..|.|.-.+|.+.|.|-..
T Consensus 73 ~w~~C~f~~~~~s~~l~RHv-y~H~y~~~l~q~G~~al~~~~dig~c~~~f~~~~~ip~~g~~f~C~WedCe~~F~s~~e 151 (467)
T KOG3608|consen 73 TWNSCDFRTENSSADLIRHV-YFHCYHTKLKQQGKLALDLHPDIGACTAPFRLMEKIPALGQNFRCGWEDCEREFVSIVE 151 (467)
T ss_pred EeccCCccccchHHHHHhhh-hhhhhHHHHHHHHHHHHhcCCCcCcccCCcchhhccccchhhhccChhhcCCcccCHHH
Confidence 36789999866 67777766 67777777765 11224567777888888888889999999999999999999
Q ss_pred HHHhhhhhhcc
Q 011117 140 FEAHIHVSHAD 150 (493)
Q Consensus 140 LQAHInhrH~~ 150 (493)
|+.||-+ |..
T Consensus 152 f~dHV~~-H~l 161 (467)
T KOG3608|consen 152 FQDHVVK-HAL 161 (467)
T ss_pred HHHHHHH-hhh
Confidence 9999743 443
No 179
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=27.87 E-value=24 Score=31.08 Aligned_cols=23 Identities=26% Similarity=0.610 Sum_probs=19.8
Q ss_pred cccccchhhhh----CCCCcccchHhH
Q 011117 88 CEHVFCLDCAR----SDSMCYLCDERI 110 (493)
Q Consensus 88 CKHVFCydCA~----sDktCP~Cna~V 110 (493)
|+|+|=..||. ....||+|+.+-
T Consensus 54 CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 54 CNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred cchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 99999999998 447899998764
No 180
>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=27.67 E-value=19 Score=24.64 Aligned_cols=24 Identities=21% Similarity=0.454 Sum_probs=15.0
Q ss_pred CCcccchHhHhhheeeecCCcEEEec
Q 011117 101 SMCYLCDERIQKIQTIKLMEGIFICA 126 (493)
Q Consensus 101 ktCP~Cna~VqrIEri~p~esIFIC~ 126 (493)
.+|++|...|.+|... ..+.|+|.
T Consensus 2 ~~C~rC~~~~~~~~~~--~r~~~~C~ 25 (30)
T PF06827_consen 2 EKCPRCWNYIEDIGIN--GRSTYLCP 25 (30)
T ss_dssp SB-TTT--BBEEEEET--TEEEEE-T
T ss_pred CcCccCCCcceEeEec--CCCCeECc
Confidence 4799999998887753 46788876
No 181
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=27.53 E-value=37 Score=36.97 Aligned_cols=29 Identities=21% Similarity=0.589 Sum_probs=23.7
Q ss_pred CCcEEEecCCchhhhhcChhHHHHhhhhhhc
Q 011117 119 MEGIFICAAPHCLKSFLKKTEFEAHIHVSHA 149 (493)
Q Consensus 119 ~esIFIC~~~gCkRtYLSqRDLQAHInhrH~ 149 (493)
.+.||||. .|+|.|.+..+|..|+..+..
T Consensus 195 ~~~lyiCe--~Cl~y~~~~~~~~~H~~~C~~ 223 (450)
T PLN00104 195 CSKLYFCE--FCLKFMKRKEQLQRHMKKCDL 223 (450)
T ss_pred CCeEEEch--hhhhhhcCHHHHHHHHhcCCC
Confidence 45799975 599999999999999865543
No 182
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.95 E-value=40 Score=26.26 Aligned_cols=40 Identities=23% Similarity=0.518 Sum_probs=29.0
Q ss_pred CCCCcccchHhHhhheeeecCCcEEEecCCchhhhhcChhHHHHhhhh
Q 011117 99 SDSMCYLCDERIQKIQTIKLMEGIFICAAPHCLKSFLKKTEFEAHIHV 146 (493)
Q Consensus 99 sDktCP~Cna~VqrIEri~p~esIFIC~~~gCkRtYLSqRDLQAHInh 146 (493)
..++|+.|...+.. ...+.+|.|.. |. |.-.||+.+=+|.
T Consensus 27 TSq~C~~CG~~~~~----~~~~r~~~C~~--Cg--~~~~rD~naA~NI 66 (69)
T PF07282_consen 27 TSQTCPRCGHRNKK----RRSGRVFTCPN--CG--FEMDRDVNAARNI 66 (69)
T ss_pred CccCccCccccccc----ccccceEEcCC--CC--CEECcHHHHHHHH
Confidence 44789999998877 34577999876 54 4467888776664
No 183
>PF06463 Mob_synth_C: Molybdenum Cofactor Synthesis C; InterPro: IPR010505 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cis-dithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism [, ]. In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which converts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner []. MoCF is the active co-factor in eukaryotic and some prokaryotic molybdo-enzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdo-enzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF []. Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 (Q39054 from SWISSPROT) of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) []. This entry represents MoaA, which belongs to a family of enzymes involved in the synthesis of metallo-cofactors (IPR000385 from INTERPRO). Each subunit of the MoaA dimer is comprised of an N-terminal SAM domain (IPR007197 from INTERPRO) that contains the [4Fe-4S] cluster typical for this family of enzymes, as well as an additional [4Fe-4S] cluster in the C-terminal domain that is unique to MoaA proteins []. The unique Fe site of the C-terminal [4Fe-4S] cluster is thought to be involved in the binding and activation of 5'-GTP. Mutations in the human MoCF biosynthesis proteins MOCS1, MOCS2 or GEPH cause MoCF Deficiency type A (MOCOD), causing the loss of activity of MoCF-containing enzymes, resulting in neurological abnormalities and death [].; GO: 0051539 4 iron, 4 sulfur cluster binding, 0006777 Mo-molybdopterin cofactor biosynthetic process, 0019008 molybdopterin synthase complex; PDB: 2FB2_A 2FB3_A 1TV8_B 1TV7_A.
Probab=26.84 E-value=25 Score=31.29 Aligned_cols=9 Identities=44% Similarity=1.191 Sum_probs=2.6
Q ss_pred cccchhhhh
Q 011117 90 HVFCLDCAR 98 (493)
Q Consensus 90 HVFCydCA~ 98 (493)
|-||.+|-+
T Consensus 69 ~~FC~~CNR 77 (128)
T PF06463_consen 69 NPFCSSCNR 77 (128)
T ss_dssp S--GGG--E
T ss_pred CCCCCcCCE
Confidence 336666544
No 184
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=26.57 E-value=50 Score=24.09 Aligned_cols=39 Identities=18% Similarity=0.399 Sum_probs=27.2
Q ss_pred CcccchHhHhhheeeecCCcEEEecCCchhhhhcChhHHHHhh
Q 011117 102 MCYLCDERIQKIQTIKLMEGIFICAAPHCLKSFLKKTEFEAHI 144 (493)
Q Consensus 102 tCP~Cna~VqrIEri~p~esIFIC~~~gCkRtYLSqRDLQAHI 144 (493)
.||.|+.....++. ..-.|+.|. .|.-.+|...+|++=+
T Consensus 1 ~CP~C~~~l~~~~~--~~~~id~C~--~C~G~W~d~~el~~~~ 39 (41)
T PF13453_consen 1 KCPRCGTELEPVRL--GDVEIDVCP--SCGGIWFDAGELEKLL 39 (41)
T ss_pred CcCCCCcccceEEE--CCEEEEECC--CCCeEEccHHHHHHHH
Confidence 59999996655543 223455654 8999999998887643
No 185
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=26.53 E-value=19 Score=40.35 Aligned_cols=35 Identities=26% Similarity=0.692 Sum_probs=27.4
Q ss_pred hcCcccccccCCCccccccccc---cccccccchhhhh
Q 011117 64 QLGERVHFCVRCDYPIAIYGRL---NPCEHVFCLDCAR 98 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iygRm---IPCKHVFCydCA~ 98 (493)
...|+.-.|-.|..||...-|- --|.-+||..|..
T Consensus 896 ipd~~a~~cmacq~pf~afrrrhhcrncggifcg~cs~ 933 (990)
T KOG1819|consen 896 IPDEDAEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSC 933 (990)
T ss_pred CCCCcchhhhhccCcHHHHHHhhhhcccCceeeccccc
Confidence 4566778899999999876553 3478899999976
No 186
>PTZ00064 histone acetyltransferase; Provisional
Probab=26.51 E-value=42 Score=37.41 Aligned_cols=29 Identities=21% Similarity=0.481 Sum_probs=24.3
Q ss_pred CCcEEEecCCchhhhhcChhHHHHhhhhhhc
Q 011117 119 MEGIFICAAPHCLKSFLKKTEFEAHIHVSHA 149 (493)
Q Consensus 119 ~esIFIC~~~gCkRtYLSqRDLQAHInhrH~ 149 (493)
.+.||||. .|+|.|.+..+|..|+..+-.
T Consensus 277 ~d~LYICE--fCLkY~~s~~~l~rH~~~C~~ 305 (552)
T PTZ00064 277 VDTLHFCE--YCLDFFCFEDELIRHLSRCQL 305 (552)
T ss_pred CCeEEEcc--chhhhhCCHHHHHHHHhcCCC
Confidence 57899975 599999999999999875543
No 187
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=26.29 E-value=39 Score=37.45 Aligned_cols=36 Identities=17% Similarity=0.345 Sum_probs=25.1
Q ss_pred cccccCCCc------cccccccccccccccchhhhhCCCCcc
Q 011117 69 VHFCVRCDY------PIAIYGRLNPCEHVFCLDCARSDSMCY 104 (493)
Q Consensus 69 vhFCdICdl------PI~iygRmIPCKHVFCydCA~sDktCP 104 (493)
.-.|++|+- ..--+.|.+.|...||..|-.....|+
T Consensus 455 Dq~CdeC~g~~c~~q~aPfFC~n~~C~QYYCe~CWa~~HS~~ 496 (520)
T KOG0129|consen 455 DQLCDECGGRRCGGQFAPFFCRNATCFQYYCESCWAKIHSGP 496 (520)
T ss_pred ccchhhhcCeeccCccCCcccCCccHHhhhchHHHHHhhcCC
Confidence 356999985 223366888888888888887554443
No 188
>PRK11595 DNA utilization protein GntX; Provisional
Probab=25.87 E-value=43 Score=32.01 Aligned_cols=33 Identities=27% Similarity=0.721 Sum_probs=18.2
Q ss_pred cccCCCccccccccccccccccchhhhhC----CCCcccchHh
Q 011117 71 FCVRCDYPIAIYGRLNPCEHVFCLDCARS----DSMCYLCDER 109 (493)
Q Consensus 71 FCdICdlPI~iygRmIPCKHVFCydCA~s----DktCP~Cna~ 109 (493)
.|..|+.+|... +...|..|... ...|+.|..+
T Consensus 7 ~C~~C~~~~~~~------~~~lC~~C~~~l~~~~~~C~~Cg~~ 43 (227)
T PRK11595 7 LCWLCRMPLALS------HWGICSVCSRALRTLKTCCPQCGLP 43 (227)
T ss_pred cCccCCCccCCC------CCcccHHHHhhCCcccCcCccCCCc
Confidence 477887766421 12356666651 2346666654
No 189
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=25.56 E-value=37 Score=30.01 Aligned_cols=22 Identities=27% Similarity=0.827 Sum_probs=11.2
Q ss_pred CCcccchHhHhhheeeecCCcEEEec
Q 011117 101 SMCYLCDERIQKIQTIKLMEGIFICA 126 (493)
Q Consensus 101 ktCP~Cna~VqrIEri~p~esIFIC~ 126 (493)
..||.|... .|+++. .+|+.|.
T Consensus 36 ~~Cp~C~~~--~VkR~a--~GIW~C~ 57 (89)
T COG1997 36 HVCPFCGRT--TVKRIA--TGIWKCR 57 (89)
T ss_pred CcCCCCCCc--ceeeec--cCeEEcC
Confidence 445555544 344443 4566665
No 190
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.22 E-value=30 Score=40.52 Aligned_cols=35 Identities=31% Similarity=0.571 Sum_probs=28.3
Q ss_pred hcCcccccccCCCcccccc-ccccccccccchhhhh
Q 011117 64 QLGERVHFCVRCDYPIAIY-GRLNPCEHVFCLDCAR 98 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iy-gRmIPCKHVFCydCA~ 98 (493)
.+-|..-.|.+|+.+|.+. --+.||.|.|=-+|+.
T Consensus 812 ~v~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~ 847 (911)
T KOG2034|consen 812 RVLEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLI 847 (911)
T ss_pred EEecCccchHHhcchhhcCcceeeeccchHHHHHHH
Confidence 3556678999999887654 4578999999999987
No 191
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=25.18 E-value=46 Score=31.77 Aligned_cols=45 Identities=29% Similarity=0.601 Sum_probs=27.9
Q ss_pred hcCcccccccCCCc-----cccc--cccccccccccchhhhhCCCCcccchHh
Q 011117 64 QLGERVHFCVRCDY-----PIAI--YGRLNPCEHVFCLDCARSDSMCYLCDER 109 (493)
Q Consensus 64 qlgEKvhFCdICdl-----PI~i--ygRmIPCKHVFCydCA~sDktCP~Cna~ 109 (493)
+...|+++|.+|+. ||.+ -.|--=|+-+|=-.|... ..||+|...
T Consensus 147 lC~~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-~~CpkC~R~ 198 (202)
T PF13901_consen 147 LCQQKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-KSCPKCARR 198 (202)
T ss_pred HHHhCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-CCCCCcHhH
Confidence 45667999999993 3333 222333555555555555 789999754
No 192
>COG1499 NMD3 NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]
Probab=24.49 E-value=27 Score=36.76 Aligned_cols=33 Identities=33% Similarity=0.809 Sum_probs=24.2
Q ss_pred cccccCCCccccccccccccccccchhhhhC--------C----CCcccch
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCARS--------D----SMCYLCD 107 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~s--------D----ktCP~Cn 107 (493)
..+|..|+.++- |=.+..|.+|+.. + ..|..|.
T Consensus 6 ~~~C~~CGr~~~------~~~~~lC~dC~~~~~~~~~ip~~~~v~~C~~Cg 50 (355)
T COG1499 6 TILCVRCGRSVD------PLIDGLCGDCYVETTPLIEIPDEVNVEVCRHCG 50 (355)
T ss_pred ccEeccCCCcCc------hhhccccHHHHhccCccccCCCceEEEECCcCC
Confidence 468999998886 2357889999871 1 4688888
No 193
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=24.49 E-value=17 Score=43.98 Aligned_cols=39 Identities=26% Similarity=0.610 Sum_probs=33.0
Q ss_pred ccccCCCccccccccccccccccchhhhh----CCCCcccchH
Q 011117 70 HFCVRCDYPIAIYGRLNPCEHVFCLDCAR----SDSMCYLCDE 108 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCKHVFCydCA~----sDktCP~Cna 108 (493)
.+|.||...+..++-.+=|.|-+|-.|.. ...+|+.|+.
T Consensus 1154 ~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 48999998888677777799999999998 4478999983
No 194
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=24.40 E-value=31 Score=37.23 Aligned_cols=13 Identities=15% Similarity=0.273 Sum_probs=9.0
Q ss_pred CCcccchHhHhhh
Q 011117 101 SMCYLCDERIQKI 113 (493)
Q Consensus 101 ktCP~Cna~VqrI 113 (493)
..||.|...+.-.
T Consensus 53 f~CP~C~~~L~~~ 65 (483)
T PF05502_consen 53 FDCPICFSPLSVR 65 (483)
T ss_pred ccCCCCCCcceeE
Confidence 5689998766433
No 195
>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=24.25 E-value=48 Score=24.84 Aligned_cols=31 Identities=26% Similarity=0.523 Sum_probs=19.6
Q ss_pred ccccccCCCc-c-ccccccccccccc-cchhhhh
Q 011117 68 RVHFCVRCDY-P-IAIYGRLNPCEHV-FCLDCAR 98 (493)
Q Consensus 68 KvhFCdICdl-P-I~iygRmIPCKHV-FCydCA~ 98 (493)
+...|+.|+. + +..+++-.-|... +|.+|+.
T Consensus 3 ~~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~ 36 (46)
T PF00569_consen 3 HGYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFS 36 (46)
T ss_dssp SSCE-SSS-SSSEESSEEEESSSSS-EEEHHHHH
T ss_pred CCeECcCCCCCcCcCCeEECCCCCCCchhhHHHh
Confidence 4678999996 5 4666766667655 7777775
No 196
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=24.21 E-value=18 Score=32.20 Aligned_cols=48 Identities=23% Similarity=0.594 Sum_probs=38.9
Q ss_pred hcCcccccccCCCccccccccccccccccchhhhhCCCCcccchHhHhhheeee
Q 011117 64 QLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCARSDSMCYLCDERIQKIQTIK 117 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~sDktCP~Cna~VqrIEri~ 117 (493)
.+|-+.-.|-||...++..+. -||..||-+...|.+|...|..-.-++
T Consensus 49 p~gt~~~kC~iCk~~vHQ~Gs------hYC~tCAY~KgiCAMCGKki~nTK~yk 96 (100)
T KOG3476|consen 49 PYGTALAKCRICKQLVHQPGS------HYCQTCAYKKGICAMCGKKILNTKNYK 96 (100)
T ss_pred ccccccchhHHHHHHhcCCcc------hhHhHhhhhhhHHHHhhhHhhcccccc
Confidence 466667889999988888663 489999999999999999997655443
No 197
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.21 E-value=36 Score=37.03 Aligned_cols=45 Identities=22% Similarity=0.658 Sum_probs=28.7
Q ss_pred hhcCcccccccCCCccccccccccccccccchhhhhCCCCcccchHhHhh
Q 011117 63 RQLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCARSDSMCYLCDERIQK 112 (493)
Q Consensus 63 rqlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~sDktCP~Cna~Vqr 112 (493)
+-++++.+-|++|+.+|..- ==|.|--|..|.. ..|.+|...+..
T Consensus 362 kwl~~N~krCP~C~v~IEr~---eGCnKM~C~~c~~--~fc~~c~~~l~~ 406 (445)
T KOG1814|consen 362 KWLESNSKRCPKCKVVIERS---EGCNKMHCTKCGT--YFCWICAELLYP 406 (445)
T ss_pred HHHHhcCCCCCcccceeecC---CCccceeeccccc--cceeehhhhcCC
Confidence 34556689999999888642 2256666666543 366666666543
No 198
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=24.19 E-value=42 Score=31.78 Aligned_cols=20 Identities=25% Similarity=0.835 Sum_probs=16.2
Q ss_pred cccCCCccccccccccccccccchhhhhC
Q 011117 71 FCVRCDYPIAIYGRLNPCEHVFCLDCARS 99 (493)
Q Consensus 71 FCdICdlPI~iygRmIPCKHVFCydCA~s 99 (493)
.|++|+ ...++.+|-.|++.
T Consensus 1 ~C~iC~---------~~~~~~~C~~C~~~ 20 (302)
T PF10186_consen 1 QCPICH---------NSRRRFYCANCVNN 20 (302)
T ss_pred CCCCCC---------CCCCCeECHHHHHH
Confidence 499998 34688899999983
No 199
>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=24.17 E-value=38 Score=36.40 Aligned_cols=20 Identities=20% Similarity=0.570 Sum_probs=14.9
Q ss_pred cccchhhhhC---CCCcccchHh
Q 011117 90 HVFCLDCARS---DSMCYLCDER 109 (493)
Q Consensus 90 HVFCydCA~s---DktCP~Cna~ 109 (493)
...|-.|-.. ...||.|...
T Consensus 240 ~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 240 KLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred eEEcCCCcCcCCCCCCCCCCCCC
Confidence 3578888873 4789999775
No 200
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=24.10 E-value=26 Score=41.00 Aligned_cols=43 Identities=23% Similarity=0.615 Sum_probs=0.0
Q ss_pred ccccCCCccccccccccccc-----cccchhhhh--CCCCcccchHhHhhh
Q 011117 70 HFCVRCDYPIAIYGRLNPCE-----HVFCLDCAR--SDSMCYLCDERIQKI 113 (493)
Q Consensus 70 hFCdICdlPI~iygRmIPCK-----HVFCydCA~--sDktCP~Cna~VqrI 113 (493)
..|+.|+..- .+.+.-=|. +.+|-+|-. ....|+.|..+.+..
T Consensus 656 r~Cp~Cg~~t-~~~~Cp~CG~~T~~~~~Cp~C~~~~~~~~C~~C~~~~~~~ 705 (900)
T PF03833_consen 656 RRCPKCGKET-FYNRCPECGSHTEPVYVCPDCGIEVEEDECPKCGRETTSY 705 (900)
T ss_dssp ---------------------------------------------------
T ss_pred ccCcccCCcc-hhhcCcccCCccccceeccccccccCccccccccccCccc
Confidence 4688887542 211111132 235555554 224555555555433
No 201
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=24.09 E-value=23 Score=29.42 Aligned_cols=25 Identities=16% Similarity=0.410 Sum_probs=13.0
Q ss_pred Ccccch-HhHhhheeeecCCcEEEec
Q 011117 102 MCYLCD-ERIQKIQTIKLMEGIFICA 126 (493)
Q Consensus 102 tCP~Cn-a~VqrIEri~p~esIFIC~ 126 (493)
.||.|- +.|.+-+++...+..|.|.
T Consensus 29 ~CPnCGe~~I~Rc~~CRk~g~~Y~Cp 54 (61)
T COG2888 29 PCPNCGEVEIYRCAKCRKLGNPYRCP 54 (61)
T ss_pred eCCCCCceeeehhhhHHHcCCceECC
Confidence 355555 4444555555555566653
No 202
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=23.50 E-value=29 Score=36.81 Aligned_cols=23 Identities=17% Similarity=0.395 Sum_probs=16.7
Q ss_pred cchhhhh--CCCCcccchHhHhhhe
Q 011117 92 FCLDCAR--SDSMCYLCDERIQKIQ 114 (493)
Q Consensus 92 FCydCA~--sDktCP~Cna~VqrIE 114 (493)
||.-|-. ..++||+||..--.|.
T Consensus 9 ~C~ic~vq~~~YtCPRCn~~YCsl~ 33 (383)
T KOG4317|consen 9 ACGICGVQKREYTCPRCNLLYCSLK 33 (383)
T ss_pred eccccccccccccCCCCCccceeee
Confidence 5666665 5589999998775555
No 203
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.13 E-value=5e+02 Score=29.08 Aligned_cols=9 Identities=22% Similarity=0.390 Sum_probs=5.0
Q ss_pred eecCCcEEE
Q 011117 116 IKLMEGIFI 124 (493)
Q Consensus 116 i~p~esIFI 124 (493)
|+..+.+|+
T Consensus 277 i~ig~~vy~ 285 (483)
T KOG2236|consen 277 ICIGEKVYY 285 (483)
T ss_pred cccCCeeEe
Confidence 344566666
No 204
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=23.06 E-value=43 Score=38.30 Aligned_cols=38 Identities=21% Similarity=0.557 Sum_probs=26.4
Q ss_pred cccccCCCccccccccccccccccchhhhhC---CCCcccchHh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCARS---DSMCYLCDER 109 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~s---DktCP~Cna~ 109 (493)
+..|+.||.++...-.. ...+|-.|-.. -..||.|...
T Consensus 444 v~~Cp~Cd~~lt~H~~~---~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 444 IAECPNCDSPLTLHKAT---GQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred cccCCCCCcceEEecCC---CeeEeCCCCCCCCCCCCCCCCCCC
Confidence 35677777665443332 45689999984 2789999988
No 205
>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=22.97 E-value=46 Score=27.12 Aligned_cols=10 Identities=40% Similarity=0.966 Sum_probs=4.6
Q ss_pred cccCCCcccc
Q 011117 71 FCVRCDYPIA 80 (493)
Q Consensus 71 FCdICdlPI~ 80 (493)
.|..|+++|.
T Consensus 5 HC~~CG~~Ip 14 (59)
T PF09889_consen 5 HCPVCGKPIP 14 (59)
T ss_pred cCCcCCCcCC
Confidence 3444444443
No 206
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.88 E-value=36 Score=35.87 Aligned_cols=32 Identities=34% Similarity=0.785 Sum_probs=0.0
Q ss_pred cCcccccccCCCccccccccccc-------cccccchhh
Q 011117 65 LGERVHFCVRCDYPIAIYGRLNP-------CEHVFCLDC 96 (493)
Q Consensus 65 lgEKvhFCdICdlPI~iygRmIP-------CKHVFCydC 96 (493)
+..+...|++|..+|..-.-..= |+|.||..|
T Consensus 222 i~~ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~C 260 (444)
T KOG1815|consen 222 ILANTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVC 260 (444)
T ss_pred hhccCccCCCcccchhccCCccccccccCCcCCeeceee
No 207
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=22.86 E-value=47 Score=40.42 Aligned_cols=34 Identities=21% Similarity=0.440 Sum_probs=21.5
Q ss_pred cccccCCCccccccccccccccccchhhhhC---CCCcccchHhHh
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEHVFCLDCARS---DSMCYLCDERIQ 111 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKHVFCydCA~s---DktCP~Cna~Vq 111 (493)
...|+.|+..+.. .||-.|-.. ..+|+.|..++.
T Consensus 667 ~rkCPkCG~~t~~---------~fCP~CGs~te~vy~CPsCGaev~ 703 (1337)
T PRK14714 667 RRRCPSCGTETYE---------NRCPDCGTHTEPVYVCPDCGAEVP 703 (1337)
T ss_pred EEECCCCCCcccc---------ccCcccCCcCCCceeCccCCCccC
Confidence 3789999986533 166666652 245666666654
No 208
>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=22.71 E-value=45 Score=22.84 Aligned_cols=27 Identities=30% Similarity=0.636 Sum_probs=8.5
Q ss_pred cccCCCccccc--cccccccccccchhhh
Q 011117 71 FCVRCDYPIAI--YGRLNPCEHVFCLDCA 97 (493)
Q Consensus 71 FCdICdlPI~i--ygRmIPCKHVFCydCA 97 (493)
.|++|++++.. .|+-..|.-++...||
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 46667766663 5555556555555554
No 209
>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=22.53 E-value=58 Score=23.00 Aligned_cols=14 Identities=21% Similarity=0.515 Sum_probs=10.0
Q ss_pred CCCCcccchHhHhh
Q 011117 99 SDSMCYLCDERIQK 112 (493)
Q Consensus 99 sDktCP~Cna~Vqr 112 (493)
.+.+||.|.+.-..
T Consensus 16 ~~~~CP~Cg~~~~~ 29 (33)
T cd00350 16 APWVCPVCGAPKDK 29 (33)
T ss_pred CCCcCcCCCCcHHH
Confidence 55789999875543
No 210
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=22.33 E-value=60 Score=28.56 Aligned_cols=20 Identities=30% Similarity=0.685 Sum_probs=15.0
Q ss_pred ccccchhhhh-------------CCCCcccchH
Q 011117 89 EHVFCLDCAR-------------SDSMCYLCDE 108 (493)
Q Consensus 89 KHVFCydCA~-------------sDktCP~Cna 108 (493)
.-.||+.|.. .+-+||.|+.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 6679999965 2246999887
No 211
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=22.11 E-value=46 Score=38.84 Aligned_cols=50 Identities=26% Similarity=0.574 Sum_probs=40.6
Q ss_pred cccccCCCcccccccccccccc----ccchhhhh----CC---CCcccchHhHhhheeeec
Q 011117 69 VHFCVRCDYPIAIYGRLNPCEH----VFCLDCAR----SD---SMCYLCDERIQKIQTIKL 118 (493)
Q Consensus 69 vhFCdICdlPI~iygRmIPCKH----VFCydCA~----sD---ktCP~Cna~VqrIEri~p 118 (493)
+-.|++|+.|+----..++|-. .-|.+|.+ .+ .+||-|..+.+-+++-+.
T Consensus 796 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 856 (1006)
T PRK12775 796 VATCPKCHRPLEGDEEYVCCATSELQWRCDDCGKVSEGFAFPYGMCPACGGKLQALDRRKV 856 (1006)
T ss_pred CccCcccCCCCCCCceeEEecCcceeeehhhhccccccccCCcCcCcccccchhhhhccCc
Confidence 4689999999988888888864 47999998 22 589999999988876553
No 212
>KOG2923 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.99 E-value=43 Score=28.35 Aligned_cols=20 Identities=30% Similarity=0.479 Sum_probs=16.4
Q ss_pred hcCcccccccCCCccccccc
Q 011117 64 QLGERVHFCVRCDYPIAIYG 83 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iyg 83 (493)
..||.+--|+.|.+.|.+-+
T Consensus 39 ~~ge~Va~CpsCSL~I~ViY 58 (67)
T KOG2923|consen 39 ENGEDVARCPSCSLIIRVIY 58 (67)
T ss_pred hCCCeeecCCCceEEEEEEe
Confidence 57888999999999887643
No 213
>PLN03239 histone acetyltransferase; Provisional
Probab=21.62 E-value=68 Score=34.11 Aligned_cols=26 Identities=15% Similarity=0.423 Sum_probs=22.2
Q ss_pred CCcEEEecCCchhhhhcChhHHHHhhhh
Q 011117 119 MEGIFICAAPHCLKSFLKKTEFEAHIHV 146 (493)
Q Consensus 119 ~esIFIC~~~gCkRtYLSqRDLQAHInh 146 (493)
.+.|||| +.|+|.|.+..+|..|..+
T Consensus 103 ~~~lYiC--E~Clky~~~~~~l~~H~~~ 128 (351)
T PLN03239 103 IDVLYVC--EFSFGFFARKSELLRFQAK 128 (351)
T ss_pred CceEEEe--ccchhhhcCHHHHHHHHHh
Confidence 4689998 5699999999999999754
No 214
>COG1328 NrdD Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]
Probab=21.54 E-value=41 Score=38.36 Aligned_cols=52 Identities=15% Similarity=0.294 Sum_probs=31.8
Q ss_pred ccchhhhhC----CCCcccchHh-HhhheeeecCCcEEEecCCchhhhhcChhHHHHhhhh
Q 011117 91 VFCLDCARS----DSMCYLCDER-IQKIQTIKLMEGIFICAAPHCLKSFLKKTEFEAHIHV 146 (493)
Q Consensus 91 VFCydCA~s----DktCP~Cna~-VqrIEri~p~esIFIC~~~gCkRtYLSqRDLQAHInh 146 (493)
..|++|-.. ...||.|... |.-+.|+.. |+|....|-..=-+++..+.|++|
T Consensus 642 ~~C~~cg~~~~~~~~~Cp~CG~~dve~~~Ri~G----Yl~~~~~~~~~~gk~~e~~~r~~~ 698 (700)
T COG1328 642 SVCNRCGYSGEGLRTRCPKCGSEDVEVFSRITG----YLQNPSARPFNRGKQKELKDRVKH 698 (700)
T ss_pred eeeccCCcccccccccCCCCCCccceeeeeecc----cccCcccCCcccccHHHHHhhhcc
Confidence 468888872 3559999977 555555543 666655544444455555555543
No 215
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=21.25 E-value=40 Score=24.25 Aligned_cols=21 Identities=19% Similarity=0.526 Sum_probs=9.7
Q ss_pred CCcccchHhHhhheeeecCCcEEEec
Q 011117 101 SMCYLCDERIQKIQTIKLMEGIFICA 126 (493)
Q Consensus 101 ktCP~Cna~VqrIEri~p~esIFIC~ 126 (493)
..|+.|.+.-+- .++.+|+|.
T Consensus 3 p~Cp~C~se~~y-----~D~~~~vCp 23 (30)
T PF08274_consen 3 PKCPLCGSEYTY-----EDGELLVCP 23 (30)
T ss_dssp ---TTT-----E-----E-SSSEEET
T ss_pred CCCCCCCCccee-----ccCCEEeCC
Confidence 468999888754 468899986
No 216
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.19 E-value=15 Score=36.32 Aligned_cols=46 Identities=22% Similarity=0.625 Sum_probs=32.1
Q ss_pred cccccCCCc-cccccccccccccccchhhhhCCCCcccchHhHhhheeeecCCcEEE
Q 011117 69 VHFCVRCDY-PIAIYGRLNPCEHVFCLDCARSDSMCYLCDERIQKIQTIKLMEGIFI 124 (493)
Q Consensus 69 vhFCdICdl-PI~iygRmIPCKHVFCydCA~sDktCP~Cna~VqrIEri~p~esIFI 124 (493)
...|.+|-+ -++. -+|+.|-+||...++|..|-..+..|- .++||-
T Consensus 67 akkC~kC~~r~Vk~------aYH~~Cr~CA~e~~vCAKC~ks~~~i~----i~d~~p 113 (227)
T KOG3241|consen 67 AKKCQKCTKRNVKQ------AYHKLCRGCAKEQKVCAKCCKSVDQIL----IRDIYP 113 (227)
T ss_pred hHHHHHHHHHHHHH------HHHHhcccHHHHHHHHHHHhccHHHhh----hcCCCC
Confidence 356777752 2222 379999999999999999988776553 245554
No 217
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=20.95 E-value=45 Score=32.73 Aligned_cols=50 Identities=22% Similarity=0.545 Sum_probs=34.8
Q ss_pred hcCcccccccCCCccccccccccccccccchhhhh---------CCCCcccchHhHhhheee
Q 011117 64 QLGERVHFCVRCDYPIAIYGRLNPCEHVFCLDCAR---------SDSMCYLCDERIQKIQTI 116 (493)
Q Consensus 64 qlgEKvhFCdICdlPI~iygRmIPCKHVFCydCA~---------sDktCP~Cna~VqrIEri 116 (493)
.+-|..-+|-+|+.-=++.. =|=|+.||.|.. .-++|++|.+.--...+|
T Consensus 55 ~~~~~~~~C~nCg~~GH~~~---DCP~~iC~~C~~~~H~s~~C~~~~~C~~Cg~~GH~~~dC 113 (190)
T COG5082 55 AIREENPVCFNCGQNGHLRR---DCPHSICYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDC 113 (190)
T ss_pred cccccccccchhcccCcccc---cCChhHhhhcCCCCcccccCCcccccccccccCcccccc
Confidence 45566889999985444422 266999999953 125788888877666666
No 218
>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=20.70 E-value=65 Score=24.64 Aligned_cols=28 Identities=21% Similarity=0.438 Sum_probs=16.8
Q ss_pred cccCCC-cccc-ccccccccccc-cchhhhh
Q 011117 71 FCVRCD-YPIA-IYGRLNPCEHV-FCLDCAR 98 (493)
Q Consensus 71 FCdICd-lPI~-iygRmIPCKHV-FCydCA~ 98 (493)
.|+.|. .+|. .+++-.=|.-. .|.+|+.
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~ 32 (49)
T cd02338 2 SCDGCGKSNFTGRRYKCLICYDYDLCADCYD 32 (49)
T ss_pred CCCCCcCCCcEEeeEEeCCCCCCccchhHHh
Confidence 588888 6666 44554445443 5666655
No 219
>PF01258 zf-dskA_traR: Prokaryotic dksA/traR C4-type zinc finger; InterPro: IPR000962 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 domains identified in zinc finger-containing members of the DksA/TraR family. DksA is a critical component of the rRNA transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP. In delta-dksA mutants, rRNA promoters are unresponsive to changes in amino acid availability, growth rate, or growth phase. In vitro, DksA binds to RNAP, reduces open complex lifetime, inhibits rRNA promoter activity, and amplifies effects of ppGpp and the initiating NTP on rRNA transcription [, ]. The dksA gene product suppresses the temperature-sensitive growth and filamentation of a dnaK deletion mutant of Escherichia coli. Gene knockout [] and deletion [] experiments have shown the gene to be non-essential, mutations causing a mild sensitivity to UV light, but not affecting DNA recombination []. In Pseudomonas aeruginosa, dksA is a novel regulator involved in the post-transcriptional control of extracellular virulence factor production []. The proteins contain a C-terminal region thought to fold into a 4-cysteine zinc finger. Other proteins found to contain a similar zinc finger domain include: the traR gene products encoded on the E. coli F and R100 plasmids [, ] the traR gene products encoded on Salmonella spp. plasmids pED208 and pSLT the dnaK suppressor hypothetical proteins from bacteria and bacteriophage FHL4, LIM proteins from Homo sapiens (Human) and Mus musculus (Mouse) [] More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2GVI_A 2KQ9_A 2KGO_A 1TJL_I.
Probab=20.27 E-value=42 Score=23.88 Aligned_cols=27 Identities=26% Similarity=0.648 Sum_probs=18.6
Q ss_pred cccCCCccccc-cccccccccccchhhhh
Q 011117 71 FCVRCDYPIAI-YGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 71 FCdICdlPI~i-ygRmIPCKHVFCydCA~ 98 (493)
+|..|+.+|-. +.+++| .-.+|.+|+.
T Consensus 5 ~C~~CGe~I~~~Rl~~~p-~~~~C~~C~~ 32 (36)
T PF01258_consen 5 ICEDCGEPIPEERLVAVP-GATLCVECQE 32 (36)
T ss_dssp B-TTTSSBEEHHHHHHCT-TECS-HHHHH
T ss_pred CccccCChHHHHHHHhCC-CcEECHHHhC
Confidence 49999988865 456666 6678888875
No 220
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=20.22 E-value=35 Score=36.51 Aligned_cols=38 Identities=24% Similarity=0.586 Sum_probs=22.4
Q ss_pred cccccCCCccccccc-----cccccccccchhhhhCCCCcccc
Q 011117 69 VHFCVRCDYPIAIYG-----RLNPCEHVFCLDCARSDSMCYLC 106 (493)
Q Consensus 69 vhFCdICdlPI~iyg-----RmIPCKHVFCydCA~sDktCP~C 106 (493)
+..|-||.+||.++- ++-.=|--.|-.|++...+|-.|
T Consensus 41 gkECKICtrPfT~Frw~pgr~~r~kKTeICqtCaklKNvCQ~C 83 (377)
T KOG0153|consen 41 GKECKICTRPFTIFRWCPGRGARFKKTEICQTCAKLKNVCQTC 83 (377)
T ss_pred CCccceecCcceEEEeccccccccccchHHHHHHHHHhHHHHh
Confidence 789999999998842 11212333566666544444444
No 221
>KOG4080 consensus Mitochondrial ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=20.19 E-value=57 Score=31.85 Aligned_cols=28 Identities=25% Similarity=0.571 Sum_probs=19.9
Q ss_pred hhcCcc--cccccCCCccccccccccccccccchhhhh
Q 011117 63 RQLGER--VHFCVRCDYPIAIYGRLNPCEHVFCLDCAR 98 (493)
Q Consensus 63 rqlgEK--vhFCdICdlPI~iygRmIPCKHVFCydCA~ 98 (493)
+++.+| ...|++|+. |+- .|+.|-.|+.
T Consensus 85 k~Lk~k~nl~~CP~CGh-~k~-------a~~LC~~Cy~ 114 (176)
T KOG4080|consen 85 KLLKPKDNLNTCPACGH-IKP-------AHTLCDYCYA 114 (176)
T ss_pred ccccchhccccCcccCc-ccc-------ccccHHHHHH
Confidence 355555 588999974 232 6889999987
Done!