Query 027651
Match_columns 220
No_of_seqs 205 out of 658
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 13:08:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027651.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027651hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1940 Zn-finger protein [Gen 100.0 9.9E-63 2.1E-67 438.7 6.3 213 4-219 60-272 (276)
2 PF14599 zinc_ribbon_6: Zinc-r 100.0 1.6E-32 3.4E-37 195.5 1.3 61 152-212 1-61 (61)
3 PF13639 zf-RING_2: Ring finge 99.4 5.7E-14 1.2E-18 92.7 0.9 44 104-149 1-44 (44)
4 PF12678 zf-rbx1: RING-H2 zinc 99.0 1.3E-10 2.7E-15 85.2 3.2 47 102-149 18-73 (73)
5 cd00162 RING RING-finger (Real 99.0 2.3E-10 4.9E-15 72.9 3.7 45 105-152 1-45 (45)
6 COG5243 HRD1 HRD ubiquitin lig 99.0 8.8E-11 1.9E-15 109.1 2.0 57 100-157 284-350 (491)
7 KOG4628 Predicted E3 ubiquitin 99.0 1.8E-10 3.9E-15 106.5 2.7 50 104-154 230-279 (348)
8 PF05495 zf-CHY: CHY zinc fing 98.9 4.4E-10 9.6E-15 82.1 1.1 45 4-53 27-71 (71)
9 PHA02929 N1R/p28-like protein; 98.9 1.7E-09 3.7E-14 95.6 4.3 54 100-154 171-228 (238)
10 PF13923 zf-C3HC4_2: Zinc fing 98.9 1E-09 2.3E-14 70.7 1.9 39 106-148 1-39 (39)
11 PF12861 zf-Apc11: Anaphase-pr 98.8 3.4E-09 7.3E-14 80.3 3.4 48 104-153 33-82 (85)
12 smart00184 RING Ring finger. E 98.7 7.9E-09 1.7E-13 63.4 2.7 39 106-148 1-39 (39)
13 PF13920 zf-C3HC4_3: Zinc fing 98.7 5.6E-09 1.2E-13 70.6 2.1 47 103-154 2-49 (50)
14 COG5540 RING-finger-containing 98.7 7.3E-09 1.6E-13 94.3 3.1 54 99-153 319-372 (374)
15 PF00097 zf-C3HC4: Zinc finger 98.7 7.8E-09 1.7E-13 66.6 2.1 40 106-148 1-41 (41)
16 KOG0804 Cytoplasmic Zn-finger 98.7 1.2E-08 2.5E-13 96.7 3.4 83 103-213 175-259 (493)
17 PF14634 zf-RING_5: zinc-RING 98.7 1.9E-08 4.2E-13 66.5 3.4 44 105-150 1-44 (44)
18 PF15227 zf-C3HC4_4: zinc fing 98.6 4.7E-08 1E-12 64.5 2.9 39 106-148 1-42 (42)
19 PF13445 zf-RING_UBOX: RING-ty 98.5 3.2E-08 6.9E-13 66.0 1.8 40 106-146 1-43 (43)
20 PLN03208 E3 ubiquitin-protein 98.4 1.9E-07 4.2E-12 80.3 4.4 55 96-154 11-80 (193)
21 KOG0802 E3 ubiquitin ligase [P 98.4 7.7E-08 1.7E-12 93.5 1.4 54 99-153 287-341 (543)
22 PHA02926 zinc finger-like prot 98.3 4.9E-07 1.1E-11 79.5 3.1 55 99-153 166-230 (242)
23 smart00504 Ubox Modified RING 98.2 1.7E-06 3.7E-11 60.0 3.6 45 104-153 2-46 (63)
24 KOG0320 Predicted E3 ubiquitin 98.1 1.4E-06 3.1E-11 74.2 2.0 47 104-153 132-178 (187)
25 smart00744 RINGv The RING-vari 98.0 3.8E-06 8.2E-11 57.2 2.5 43 105-149 1-49 (49)
26 COG5194 APC11 Component of SCF 98.0 4.8E-06 1E-10 62.6 2.9 48 105-153 33-81 (88)
27 TIGR00599 rad18 DNA repair pro 97.9 1.4E-05 3.1E-10 75.5 4.5 47 103-154 26-72 (397)
28 KOG1493 Anaphase-promoting com 97.8 4.5E-06 9.7E-11 62.3 0.2 29 124-152 50-80 (84)
29 PF11793 FANCL_C: FANCL C-term 97.8 3.7E-06 8E-11 61.2 -0.3 51 103-153 2-66 (70)
30 KOG2177 Predicted E3 ubiquitin 97.7 2E-05 4.4E-10 66.0 2.3 44 102-150 12-55 (386)
31 KOG0317 Predicted E3 ubiquitin 97.7 1.6E-05 3.5E-10 72.1 1.7 45 104-153 240-284 (293)
32 TIGR00570 cdk7 CDK-activating 97.7 3.8E-05 8.3E-10 70.5 4.2 52 103-154 3-55 (309)
33 KOG0827 Predicted E3 ubiquitin 97.6 2.2E-05 4.7E-10 73.9 1.8 46 103-149 4-52 (465)
34 KOG0287 Postreplication repair 97.4 0.00012 2.6E-09 68.2 3.5 58 105-167 25-83 (442)
35 KOG2164 Predicted E3 ubiquitin 97.4 0.0001 2.2E-09 71.3 2.5 50 101-154 184-237 (513)
36 PF04564 U-box: U-box domain; 97.3 0.00024 5.2E-09 51.6 3.8 47 104-154 5-51 (73)
37 KOG0828 Predicted E3 ubiquitin 97.3 9.7E-05 2.1E-09 71.4 1.5 51 103-153 571-634 (636)
38 KOG0823 Predicted E3 ubiquitin 97.3 0.00018 3.9E-09 63.5 2.6 50 101-154 45-96 (230)
39 KOG1734 Predicted RING-contain 97.1 0.00011 2.5E-09 66.4 0.3 52 102-153 223-281 (328)
40 KOG1941 Acetylcholine receptor 97.1 9.5E-05 2.1E-09 69.9 -0.5 62 94-156 357-419 (518)
41 PF14835 zf-RING_6: zf-RING of 97.0 0.00041 8.9E-09 50.2 1.9 56 104-166 8-65 (65)
42 PF14570 zf-RING_4: RING/Ubox 96.9 0.00072 1.6E-08 46.2 2.6 47 106-152 1-47 (48)
43 KOG1039 Predicted E3 ubiquitin 96.7 0.00034 7.4E-09 65.2 -0.2 82 101-184 159-252 (344)
44 KOG4265 Predicted E3 ubiquitin 96.6 0.0012 2.6E-08 61.5 2.7 51 99-154 286-337 (349)
45 KOG2930 SCF ubiquitin ligase, 96.5 0.0013 2.9E-08 51.8 1.9 28 124-152 80-107 (114)
46 COG5574 PEX10 RING-finger-cont 96.5 0.0012 2.6E-08 59.5 1.8 46 103-153 215-262 (271)
47 KOG4172 Predicted E3 ubiquitin 96.5 0.00053 1.1E-08 48.4 -0.4 53 101-157 5-58 (62)
48 COG5219 Uncharacterized conser 96.4 0.0015 3.3E-08 67.5 1.9 53 101-153 1467-1523(1525)
49 KOG0825 PHD Zn-finger protein 96.4 0.001 2.2E-08 67.5 0.6 76 77-154 96-172 (1134)
50 KOG0978 E3 ubiquitin ligase in 96.4 0.00087 1.9E-08 67.3 0.1 47 104-154 644-690 (698)
51 PF11789 zf-Nse: Zinc-finger o 96.3 0.0024 5.2E-08 44.8 1.9 43 102-147 10-53 (57)
52 KOG0311 Predicted E3 ubiquitin 96.2 0.0011 2.4E-08 61.9 -0.3 49 103-154 43-91 (381)
53 KOG1645 RING-finger-containing 96.1 0.0039 8.6E-08 59.3 2.7 51 103-153 4-56 (463)
54 KOG3002 Zn finger protein [Gen 95.9 0.0067 1.5E-07 55.6 3.4 63 104-177 49-113 (299)
55 KOG1785 Tyrosine kinase negati 95.8 0.0026 5.6E-08 60.6 0.1 53 97-153 363-416 (563)
56 KOG1428 Inhibitor of type V ad 95.6 0.0088 1.9E-07 64.5 3.0 118 9-153 3408-3544(3738)
57 PF10367 Vps39_2: Vacuolar sor 95.5 0.006 1.3E-07 45.9 1.3 38 96-135 71-108 (109)
58 KOG2879 Predicted E3 ubiquitin 95.3 0.016 3.4E-07 52.8 3.3 53 101-156 237-290 (298)
59 PF12906 RINGv: RING-variant d 95.3 0.0074 1.6E-07 40.6 0.9 41 106-148 1-47 (47)
60 COG5432 RAD18 RING-finger-cont 95.1 0.013 2.9E-07 53.9 2.2 45 104-153 26-70 (391)
61 KOG3800 Predicted E3 ubiquitin 95.0 0.018 3.8E-07 52.7 2.6 48 105-153 2-51 (300)
62 KOG0824 Predicted E3 ubiquitin 94.7 0.017 3.7E-07 53.1 1.9 50 100-153 4-53 (324)
63 KOG3970 Predicted E3 ubiquitin 94.6 0.045 9.8E-07 48.9 4.3 51 101-153 48-105 (299)
64 PF14447 Prok-RING_4: Prokaryo 94.4 0.015 3.2E-07 40.9 0.6 32 119-153 19-50 (55)
65 KOG4739 Uncharacterized protei 93.8 0.039 8.5E-07 49.1 2.2 37 114-153 12-48 (233)
66 KOG4185 Predicted E3 ubiquitin 93.6 0.054 1.2E-06 48.4 2.8 48 104-152 4-54 (296)
67 TIGR00100 hypA hydrogenase nic 93.4 0.052 1.1E-06 42.9 2.1 38 177-216 66-103 (115)
68 COG5175 MOT2 Transcriptional r 93.2 0.026 5.6E-07 53.0 0.1 54 103-156 14-67 (480)
69 PRK14890 putative Zn-ribbon RN 93.1 0.077 1.7E-06 37.8 2.3 47 15-68 4-56 (59)
70 PRK00564 hypA hydrogenase nick 93.0 0.057 1.2E-06 42.9 1.8 38 177-216 67-105 (117)
71 KOG4445 Uncharacterized conser 93.0 0.024 5.1E-07 52.4 -0.4 52 102-154 114-187 (368)
72 PF05883 Baculo_RING: Baculovi 92.8 0.044 9.5E-07 45.0 0.9 36 103-139 26-67 (134)
73 PHA02862 5L protein; Provision 92.6 0.059 1.3E-06 45.0 1.4 57 102-164 1-63 (156)
74 PRK03824 hypA hydrogenase nick 92.6 0.095 2.1E-06 42.6 2.6 38 179-216 68-124 (135)
75 KOG2817 Predicted E3 ubiquitin 92.4 0.11 2.4E-06 49.3 3.1 47 105-152 336-384 (394)
76 PF04641 Rtf2: Rtf2 RING-finge 92.2 0.12 2.6E-06 46.1 3.0 50 101-153 111-161 (260)
77 KOG3268 Predicted E3 ubiquitin 92.2 0.084 1.8E-06 45.7 1.8 36 121-156 186-232 (234)
78 PRK12380 hydrogenase nickel in 92.0 0.099 2.2E-06 41.3 2.0 37 178-216 67-103 (113)
79 KOG0297 TNF receptor-associate 91.8 0.13 2.7E-06 48.7 2.8 50 102-155 20-69 (391)
80 PRK03681 hypA hydrogenase nick 91.7 0.12 2.5E-06 40.9 2.1 37 179-216 68-104 (114)
81 KOG4275 Predicted E3 ubiquitin 91.5 0.025 5.5E-07 52.0 -2.2 59 92-159 286-348 (350)
82 PF01155 HypA: Hydrogenase exp 90.7 0.086 1.9E-06 41.5 0.4 37 178-216 67-103 (113)
83 KOG1571 Predicted E3 ubiquitin 90.5 0.14 3E-06 48.1 1.7 47 99-153 301-347 (355)
84 KOG2114 Vacuolar assembly/sort 90.5 0.18 3.9E-06 52.0 2.5 43 104-153 841-883 (933)
85 KOG1813 Predicted E3 ubiquitin 90.3 0.17 3.7E-06 46.6 2.0 67 104-175 242-308 (313)
86 PHA02825 LAP/PHD finger-like p 90.2 0.23 4.9E-06 42.0 2.5 48 101-153 6-59 (162)
87 KOG2660 Locus-specific chromos 89.9 0.073 1.6E-06 49.4 -0.7 50 101-154 13-62 (331)
88 PF12773 DZR: Double zinc ribb 89.7 0.37 8E-06 32.0 2.8 22 21-42 1-23 (50)
89 KOG3039 Uncharacterized conser 89.6 0.34 7.4E-06 43.9 3.3 56 98-155 216-272 (303)
90 KOG1814 Predicted E3 ubiquitin 89.6 0.17 3.6E-06 48.5 1.4 47 103-150 184-237 (445)
91 KOG4159 Predicted E3 ubiquitin 89.5 0.43 9.4E-06 45.6 4.1 49 101-154 82-130 (398)
92 PF07191 zinc-ribbons_6: zinc- 89.4 0.064 1.4E-06 39.5 -1.2 65 104-197 2-69 (70)
93 PF07800 DUF1644: Protein of u 88.4 0.52 1.1E-05 39.8 3.4 33 103-139 2-47 (162)
94 KOG1002 Nucleotide excision re 88.2 0.16 3.5E-06 50.2 0.4 53 97-153 530-586 (791)
95 PRK00762 hypA hydrogenase nick 87.9 0.35 7.7E-06 38.7 2.0 38 178-216 67-109 (124)
96 COG5152 Uncharacterized conser 87.0 0.38 8.2E-06 42.4 1.8 57 105-166 198-254 (259)
97 KOG0309 Conserved WD40 repeat- 87.0 0.41 8.9E-06 49.2 2.3 41 104-147 1029-1069(1081)
98 COG0375 HybF Zn finger protein 86.8 0.51 1.1E-05 37.8 2.3 38 177-216 66-103 (115)
99 KOG1952 Transcription factor N 86.1 0.33 7.2E-06 50.1 1.2 53 102-155 190-249 (950)
100 KOG4692 Predicted E3 ubiquitin 86.1 0.37 8.1E-06 45.7 1.4 50 100-154 419-468 (489)
101 TIGR02605 CxxC_CxxC_SSSS putat 85.5 0.96 2.1E-05 30.3 2.9 36 181-216 5-44 (52)
102 PF14446 Prok-RING_1: Prokaryo 85.0 0.86 1.9E-05 31.9 2.5 37 101-137 3-39 (54)
103 PRK04023 DNA polymerase II lar 84.1 0.87 1.9E-05 48.1 3.1 30 19-49 627-657 (1121)
104 COG2888 Predicted Zn-ribbon RN 83.4 0.74 1.6E-05 33.0 1.6 44 19-68 10-58 (61)
105 PF14353 CpXC: CpXC protein 83.2 0.22 4.7E-06 39.5 -1.3 56 143-200 2-57 (128)
106 KOG2034 Vacuolar sorting prote 82.8 0.63 1.4E-05 48.3 1.5 43 95-139 809-851 (911)
107 COG5220 TFB3 Cdk activating ki 82.6 0.39 8.4E-06 43.4 -0.1 50 103-153 10-64 (314)
108 PF08746 zf-RING-like: RING-li 81.5 0.96 2.1E-05 29.9 1.5 25 124-148 18-43 (43)
109 PF03854 zf-P11: P-11 zinc fin 80.2 0.73 1.6E-05 31.7 0.6 31 122-153 15-46 (50)
110 KOG1701 Focal adhesion adaptor 80.2 0.27 5.8E-06 47.3 -2.0 71 57-153 294-371 (468)
111 KOG3161 Predicted E3 ubiquitin 80.1 0.64 1.4E-05 47.0 0.5 42 104-149 12-53 (861)
112 PF13248 zf-ribbon_3: zinc-rib 79.7 0.83 1.8E-05 26.9 0.7 24 18-41 2-26 (26)
113 KOG2068 MOT2 transcription fac 79.4 1.6 3.5E-05 40.7 2.8 53 101-154 247-299 (327)
114 COG5236 Uncharacterized conser 79.1 1.7 3.6E-05 41.3 2.9 66 84-153 42-108 (493)
115 PRK00398 rpoP DNA-directed RNA 77.7 2.1 4.6E-05 28.2 2.3 35 180-214 2-36 (46)
116 PF07191 zinc-ribbons_6: zinc- 77.4 1.7 3.6E-05 32.0 1.8 44 8-52 8-59 (70)
117 PF09538 FYDLN_acid: Protein o 76.4 1.6 3.5E-05 34.4 1.7 25 32-68 10-34 (108)
118 COG5109 Uncharacterized conser 75.1 2.5 5.5E-05 39.6 2.8 44 105-149 338-383 (396)
119 smart00132 LIM Zinc-binding do 74.8 1.9 4.1E-05 26.0 1.3 37 106-153 2-38 (39)
120 PRK14714 DNA polymerase II lar 74.6 3.2 6.9E-05 45.0 3.7 36 15-51 664-700 (1337)
121 smart00734 ZnF_Rad18 Rad18-lik 74.5 2.6 5.7E-05 25.0 1.8 21 143-164 2-22 (26)
122 KOG0269 WD40 repeat-containing 72.6 3.5 7.7E-05 42.4 3.3 69 59-147 752-820 (839)
123 PF02891 zf-MIZ: MIZ/SP-RING z 72.5 2.9 6.4E-05 28.3 2.0 41 105-151 4-50 (50)
124 PRK14559 putative protein seri 72.0 2.9 6.2E-05 42.4 2.6 47 19-68 2-49 (645)
125 PRK04023 DNA polymerase II lar 71.9 3.3 7.2E-05 44.0 3.0 51 29-88 624-674 (1121)
126 PF13894 zf-C2H2_4: C2H2-type 71.1 2.7 6E-05 22.6 1.3 19 143-161 1-19 (24)
127 PLN03086 PRLI-interacting fact 71.0 2.2 4.8E-05 42.6 1.5 86 13-113 402-514 (567)
128 KOG0827 Predicted E3 ubiquitin 70.0 0.36 7.8E-06 46.1 -4.0 50 103-153 196-245 (465)
129 smart00249 PHD PHD zinc finger 70.0 1.8 3.9E-05 27.0 0.4 41 106-148 2-47 (47)
130 COG5222 Uncharacterized conser 69.4 3.3 7.1E-05 38.7 2.2 44 104-150 275-318 (427)
131 PF05502 Dynactin_p62: Dynacti 69.3 2.6 5.7E-05 41.1 1.6 58 44-116 6-65 (483)
132 smart00659 RPOLCX RNA polymera 69.3 3.5 7.6E-05 27.4 1.7 27 181-208 2-28 (44)
133 PF03107 C1_2: C1 domain; Int 68.3 4.5 9.7E-05 24.5 1.9 20 65-84 2-22 (30)
134 COG1996 RPC10 DNA-directed RNA 66.7 4.5 9.7E-05 27.8 1.9 29 179-207 4-32 (49)
135 PF13240 zinc_ribbon_2: zinc-r 66.2 3.3 7.2E-05 23.9 1.0 21 21-41 2-23 (23)
136 PF07282 OrfB_Zn_ribbon: Putat 65.7 4.1 8.9E-05 28.6 1.6 28 30-68 27-54 (69)
137 KOG0801 Predicted E3 ubiquitin 65.6 2.5 5.4E-05 36.3 0.5 31 100-131 174-204 (205)
138 KOG1001 Helicase-like transcri 63.6 3.6 7.9E-05 41.8 1.4 45 104-153 455-500 (674)
139 PF14569 zf-UDP: Zinc-binding 63.5 7.8 0.00017 29.2 2.8 53 101-153 7-62 (80)
140 PRK12286 rpmF 50S ribosomal pr 63.3 7.1 0.00015 27.4 2.4 29 180-213 26-54 (57)
141 COG1656 Uncharacterized conser 63.2 5.2 0.00011 34.0 2.0 50 142-198 97-147 (165)
142 KOG4367 Predicted Zn-finger pr 61.9 4 8.7E-05 39.9 1.3 33 103-139 4-36 (699)
143 PF13597 NRDD: Anaerobic ribon 60.5 6.7 0.00014 38.8 2.6 56 154-215 465-520 (546)
144 smart00834 CxxC_CXXC_SSSS Puta 60.4 10 0.00022 23.7 2.6 27 181-207 5-34 (41)
145 KOG1812 Predicted E3 ubiquitin 60.1 4.3 9.3E-05 38.5 1.1 37 103-139 146-182 (384)
146 PF05605 zf-Di19: Drought indu 59.7 10 0.00022 25.7 2.6 19 142-161 2-20 (54)
147 KOG3053 Uncharacterized conser 59.6 3.4 7.3E-05 37.7 0.3 52 100-153 17-82 (293)
148 KOG2066 Vacuolar assembly/sort 59.4 3.2 7E-05 42.9 0.2 45 103-149 784-831 (846)
149 KOG1609 Protein involved in mR 59.4 3.6 7.8E-05 36.4 0.4 51 103-153 78-134 (323)
150 COG1996 RPC10 DNA-directed RNA 58.9 5.9 0.00013 27.3 1.3 28 41-68 4-32 (49)
151 PRK14714 DNA polymerase II lar 58.4 8.8 0.00019 41.8 3.1 34 31-68 667-700 (1337)
152 KOG0298 DEAD box-containing he 58.2 5 0.00011 43.6 1.3 53 101-157 1151-1203(1394)
153 PF09723 Zn-ribbon_8: Zinc rib 57.6 11 0.00023 24.5 2.4 32 181-212 5-39 (42)
154 PHA03096 p28-like protein; Pro 56.6 6.6 0.00014 36.0 1.7 47 104-150 179-231 (284)
155 KOG2462 C2H2-type Zn-finger pr 56.5 15 0.00032 33.7 3.9 111 38-191 125-253 (279)
156 cd01675 RNR_III Class III ribo 56.3 8.8 0.00019 38.0 2.6 56 154-215 493-548 (555)
157 cd00350 rubredoxin_like Rubred 55.7 9.2 0.0002 23.6 1.7 25 43-68 1-25 (33)
158 PRK00432 30S ribosomal protein 54.9 9.4 0.0002 26.0 1.8 24 62-85 22-45 (50)
159 PRK03564 formate dehydrogenase 54.7 15 0.00031 34.2 3.6 28 180-213 211-238 (309)
160 PF00096 zf-C2H2: Zinc finger, 54.4 7.4 0.00016 21.3 1.1 15 143-157 1-15 (23)
161 TIGR02159 PA_CoA_Oxy4 phenylac 54.3 6.8 0.00015 32.4 1.3 18 199-216 105-122 (146)
162 PF02701 zf-Dof: Dof domain, z 53.7 6.5 0.00014 28.4 0.9 14 199-212 5-18 (63)
163 PF04438 zf-HIT: HIT zinc fing 53.5 6.4 0.00014 24.1 0.7 19 32-51 3-21 (30)
164 KOG1311 DHHC-type Zn-finger pr 53.3 8 0.00017 34.7 1.7 45 38-88 108-152 (299)
165 cd02249 ZZ Zinc finger, ZZ typ 52.4 13 0.00027 24.5 2.1 21 61-84 1-21 (46)
166 PRK00366 ispG 4-hydroxy-3-meth 52.1 21 0.00046 33.8 4.3 53 143-199 269-323 (360)
167 TIGR01031 rpmF_bact ribosomal 51.6 12 0.00027 25.9 2.0 29 180-213 25-53 (55)
168 PF07649 C1_3: C1-like domain; 51.6 9.4 0.0002 22.8 1.3 20 66-85 3-23 (30)
169 PF01529 zf-DHHC: DHHC palmito 50.3 12 0.00026 30.3 2.1 48 37-90 42-89 (174)
170 TIGR00100 hypA hydrogenase nic 50.0 8.2 0.00018 30.4 1.0 14 28-41 67-80 (115)
171 KOG2462 C2H2-type Zn-finger pr 49.8 14 0.0003 33.9 2.6 107 31-159 130-260 (279)
172 TIGR02300 FYDLN_acid conserved 49.7 10 0.00022 31.1 1.5 26 32-69 10-35 (129)
173 KOG2907 RNA polymerase I trans 49.5 6 0.00013 31.8 0.2 19 197-215 72-94 (116)
174 PRK00420 hypothetical protein; 49.3 11 0.00023 30.1 1.6 29 103-153 23-51 (112)
175 PLN02189 cellulose synthase 48.9 16 0.00034 39.1 3.2 56 98-153 29-87 (1040)
176 PF05290 Baculo_IE-1: Baculovi 48.7 9.6 0.00021 31.5 1.3 48 104-155 81-134 (140)
177 TIGR01562 FdhE formate dehydro 48.7 19 0.0004 33.4 3.3 24 180-207 209-232 (305)
178 PF03833 PolC_DP2: DNA polymer 47.3 6.3 0.00014 41.2 0.0 45 32-85 656-700 (900)
179 PF15353 HECA: Headcase protei 46.7 10 0.00022 30.1 1.1 16 124-139 39-54 (107)
180 PF10058 DUF2296: Predicted in 46.3 27 0.00059 24.2 3.1 47 160-209 4-54 (54)
181 cd02337 ZZ_CBP Zinc finger, ZZ 45.7 17 0.00037 23.7 1.9 20 61-84 1-20 (41)
182 PF01529 zf-DHHC: DHHC palmito 45.4 13 0.00028 30.1 1.5 36 57-98 45-80 (174)
183 KOG4399 C2HC-type Zn-finger pr 45.2 3.8 8.2E-05 37.5 -1.7 72 38-112 199-270 (325)
184 PF14952 zf-tcix: Putative tre 44.8 11 0.00023 25.5 0.8 12 201-212 13-24 (44)
185 PF03604 DNA_RNApol_7kD: DNA d 44.7 15 0.00033 22.9 1.4 24 44-67 1-24 (32)
186 PF10122 Mu-like_Com: Mu-like 44.5 18 0.0004 25.1 2.0 35 181-215 4-40 (51)
187 PF04216 FdhE: Protein involve 43.5 8.2 0.00018 34.7 0.1 54 142-213 172-225 (290)
188 PLN02436 cellulose synthase A 43.4 22 0.00047 38.3 3.2 56 98-153 31-89 (1094)
189 PF00643 zf-B_box: B-box zinc 43.0 14 0.00031 23.2 1.2 21 32-52 4-24 (42)
190 smart00451 ZnF_U1 U1-like zinc 42.9 11 0.00023 22.6 0.6 12 41-52 1-12 (35)
191 KOG4399 C2HC-type Zn-finger pr 42.0 5.6 0.00012 36.5 -1.2 53 32-88 250-302 (325)
192 PF01907 Ribosomal_L37e: Ribos 41.9 12 0.00027 26.3 0.8 28 176-206 10-37 (55)
193 PF04423 Rad50_zn_hook: Rad50 41.1 17 0.00038 24.5 1.5 13 142-154 20-32 (54)
194 KOG4185 Predicted E3 ubiquitin 41.0 4.3 9.4E-05 36.2 -2.0 49 104-152 208-266 (296)
195 KOG1312 DHHC-type Zn-finger pr 40.5 8.9 0.00019 35.6 -0.1 32 64-98 149-180 (341)
196 COG5183 SSM4 Protein involved 40.4 16 0.00034 38.4 1.6 51 101-153 10-66 (1175)
197 KOG1100 Predicted E3 ubiquitin 39.5 13 0.00028 32.5 0.7 39 106-153 161-200 (207)
198 PF06220 zf-U1: U1 zinc finger 38.9 12 0.00027 24.0 0.4 13 41-53 1-13 (38)
199 KOG3842 Adaptor protein Pellin 38.6 33 0.00072 32.4 3.3 57 97-153 333-414 (429)
200 smart00661 RPOL9 RNA polymeras 36.7 26 0.00057 22.9 1.8 9 77-85 20-28 (52)
201 PF00412 LIM: LIM domain; Int 36.2 15 0.00032 24.3 0.5 40 106-156 1-40 (58)
202 KOG0826 Predicted E3 ubiquitin 36.2 29 0.00063 32.8 2.5 49 101-153 298-346 (357)
203 PRK00564 hypA hydrogenase nick 35.5 23 0.0005 28.0 1.6 7 62-68 90-96 (117)
204 PF10571 UPF0547: Uncharacteri 35.2 24 0.00051 21.0 1.2 23 20-42 2-25 (26)
205 PHA00626 hypothetical protein 35.0 22 0.00048 25.3 1.2 16 37-52 17-32 (59)
206 PF04710 Pellino: Pellino; In 35.0 13 0.00028 35.8 0.0 32 122-153 362-401 (416)
207 PF10272 Tmpp129: Putative tra 33.8 19 0.0004 34.2 0.9 36 106-153 316-351 (358)
208 PRK14892 putative transcriptio 33.7 35 0.00076 26.6 2.3 33 75-112 19-51 (99)
209 PF01927 Mut7-C: Mut7-C RNAse 33.4 27 0.00058 28.4 1.7 48 143-197 92-140 (147)
210 TIGR02487 NrdD anaerobic ribon 33.4 37 0.00081 33.9 3.0 54 156-215 501-554 (579)
211 COG5273 Uncharacterized protei 33.0 22 0.00048 32.7 1.2 23 30-52 96-118 (309)
212 PF11781 RRN7: RNA polymerase 32.4 33 0.00071 21.8 1.6 24 106-129 11-35 (36)
213 PF04710 Pellino: Pellino; In 32.4 16 0.00034 35.3 0.1 50 100-152 274-338 (416)
214 PRK03681 hypA hydrogenase nick 32.0 28 0.00062 27.3 1.5 12 28-39 67-78 (114)
215 PF01363 FYVE: FYVE zinc finge 31.6 32 0.00069 23.9 1.6 27 29-68 7-33 (69)
216 COG3809 Uncharacterized protei 31.4 35 0.00076 26.0 1.8 51 105-178 3-55 (88)
217 PLN02638 cellulose synthase A 31.3 43 0.00093 36.1 3.1 56 98-153 12-70 (1079)
218 KOG3113 Uncharacterized conser 31.1 37 0.00081 31.1 2.3 49 101-153 109-158 (293)
219 PRK07111 anaerobic ribonucleos 30.9 53 0.0011 33.9 3.6 52 157-215 658-709 (735)
220 PF13824 zf-Mss51: Zinc-finger 30.4 51 0.0011 23.2 2.4 21 141-161 13-33 (55)
221 TIGR01206 lysW lysine biosynth 29.8 47 0.001 23.1 2.2 31 143-192 3-33 (54)
222 cd02341 ZZ_ZZZ3 Zinc finger, Z 29.8 44 0.00096 22.5 2.0 22 61-84 1-22 (48)
223 PRK08271 anaerobic ribonucleos 28.7 37 0.0008 34.4 2.1 55 154-214 541-595 (623)
224 PRK04136 rpl40e 50S ribosomal 28.4 29 0.00064 23.8 0.9 26 14-39 10-36 (48)
225 PF01096 TFIIS_C: Transcriptio 28.0 30 0.00066 22.1 0.9 34 33-67 2-35 (39)
226 smart00531 TFIIE Transcription 28.0 19 0.0004 29.4 -0.1 8 78-85 124-131 (147)
227 PRK01110 rpmF 50S ribosomal pr 27.7 56 0.0012 23.0 2.3 30 181-216 27-56 (60)
228 PF05191 ADK_lid: Adenylate ki 27.7 31 0.00067 21.9 0.9 27 33-68 3-29 (36)
229 PRK06266 transcription initiat 27.4 86 0.0019 26.6 3.8 27 141-167 135-163 (178)
230 cd02345 ZZ_dah Zinc finger, ZZ 27.4 52 0.0011 22.0 2.0 28 182-212 1-28 (49)
231 COG1144 Pyruvate:ferredoxin ox 27.1 28 0.0006 26.9 0.7 15 75-89 63-77 (91)
232 PF14354 Lar_restr_allev: Rest 27.1 17 0.00038 24.7 -0.4 10 180-189 28-37 (61)
233 PRK00415 rps27e 30S ribosomal 27.0 40 0.00086 24.1 1.4 38 15-52 8-51 (59)
234 PRK09263 anaerobic ribonucleos 26.5 32 0.00069 35.3 1.2 29 181-209 641-669 (711)
235 smart00355 ZnF_C2H2 zinc finge 26.4 67 0.0015 16.8 2.1 15 143-157 1-15 (26)
236 PF01194 RNA_pol_N: RNA polyme 25.5 72 0.0016 22.8 2.5 23 143-168 5-27 (60)
237 PF06937 EURL: EURL protein; 25.2 54 0.0012 30.1 2.3 46 100-146 27-74 (285)
238 PF12675 DUF3795: Protein of u 25.2 35 0.00075 24.9 0.9 36 31-66 34-69 (78)
239 PF12756 zf-C2H2_2: C2H2 type 25.0 48 0.001 23.7 1.6 19 142-160 50-68 (100)
240 PF12874 zf-met: Zinc-finger o 24.8 36 0.00077 18.8 0.7 15 143-157 1-15 (25)
241 KOG1829 Uncharacterized conser 24.7 25 0.00054 35.4 0.1 39 16-54 323-377 (580)
242 KOG1311 DHHC-type Zn-finger pr 24.7 38 0.00081 30.4 1.2 34 59-98 112-145 (299)
243 PF12171 zf-C2H2_jaz: Zinc-fin 24.5 58 0.0013 18.6 1.6 14 143-156 2-15 (27)
244 COG5273 Uncharacterized protei 24.5 36 0.00077 31.4 1.0 31 65-98 111-141 (309)
245 PF13453 zf-TFIIB: Transcripti 24.4 44 0.00095 21.3 1.2 10 58-67 17-26 (41)
246 KOG4317 Predicted Zn-finger pr 24.4 34 0.00073 32.3 0.8 20 33-52 9-28 (383)
247 KOG1044 Actin-binding LIM Zn-f 24.4 99 0.0022 31.5 4.1 135 56-207 12-168 (670)
248 TIGR00373 conserved hypothetic 24.1 94 0.002 25.7 3.4 28 141-168 127-156 (158)
249 PF08271 TF_Zn_Ribbon: TFIIB z 23.7 34 0.00074 22.0 0.5 7 79-85 21-27 (43)
250 PF13465 zf-H2C2_2: Zinc-finge 23.1 40 0.00087 19.4 0.7 10 58-67 12-21 (26)
251 PLN02400 cellulose synthase 23.0 56 0.0012 35.3 2.2 56 98-153 31-89 (1085)
252 KOG4275 Predicted E3 ubiquitin 22.7 26 0.00057 32.7 -0.2 33 18-52 300-340 (350)
253 KOG0802 E3 ubiquitin ligase [P 22.3 51 0.0011 32.5 1.7 44 101-153 477-520 (543)
254 PF00130 C1_1: Phorbol esters/ 22.0 61 0.0013 21.2 1.5 11 75-85 26-36 (53)
255 PRK00418 DNA gyrase inhibitor; 21.9 46 0.001 23.9 1.0 12 142-153 6-17 (62)
256 PF13717 zinc_ribbon_4: zinc-r 21.7 62 0.0013 20.4 1.4 9 19-27 3-11 (36)
257 PF03833 PolC_DP2: DNA polymer 21.6 31 0.00067 36.3 0.0 53 12-70 649-702 (900)
258 KOG1829 Uncharacterized conser 21.6 31 0.00067 34.7 0.0 26 120-149 532-557 (580)
259 PF01753 zf-MYND: MYND finger; 21.4 64 0.0014 19.9 1.5 22 21-47 1-22 (37)
260 KOG3579 Predicted E3 ubiquitin 21.3 72 0.0016 29.8 2.3 58 103-169 268-339 (352)
261 PF07754 DUF1610: Domain of un 21.2 56 0.0012 19.2 1.1 10 58-67 14-23 (24)
262 KOG0269 WD40 repeat-containing 20.9 47 0.001 34.6 1.1 52 30-90 752-806 (839)
263 PRK11788 tetratricopeptide rep 20.7 53 0.0011 29.3 1.3 25 29-53 352-378 (389)
264 PF00628 PHD: PHD-finger; Int 20.7 36 0.00077 22.1 0.2 42 106-149 2-49 (51)
265 PF11405 Inhibitor_I67: Bromel 20.7 39 0.00085 21.8 0.3 22 26-47 10-31 (41)
266 PRK11788 tetratricopeptide rep 20.6 1.2E+02 0.0025 27.1 3.5 26 183-212 356-381 (389)
267 PRK14704 anaerobic ribonucleos 20.5 74 0.0016 32.2 2.4 43 160-209 540-582 (618)
268 cd00729 rubredoxin_SM Rubredox 20.5 76 0.0016 19.7 1.6 25 43-68 2-26 (34)
269 PF12172 DUF35_N: Rubredoxin-l 20.3 85 0.0018 19.4 1.8 30 177-210 7-36 (37)
270 PLN02915 cellulose synthase A 20.0 91 0.002 33.7 3.0 53 101-153 13-68 (1044)
No 1
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=100.00 E-value=9.9e-63 Score=438.73 Aligned_cols=213 Identities=49% Similarity=1.023 Sum_probs=207.0
Q ss_pred CcCCCccccccccceEEeCCCCCCCcccccccccCcccceecCCccccccCCCCCCcccCCCCCccccCCccceeecCCc
Q 027651 4 NPYDRHELVRQDVKQVICSVCDTEQPVAQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRC 83 (220)
Q Consensus 4 d~~~~H~l~R~~v~~i~C~~C~~~q~~~~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C 83 (220)
+++++|.+||+.|.+|+|+.|.++|++++.|.+|+..+|+|||.+|+||||+++ +||||+.|||||+|++++||||++|
T Consensus 60 ~~s~~h~~~r~~v~~~~C~~C~~~q~~~~~c~~c~~~~g~~~c~~C~l~dd~~~-~~~hC~~C~icr~g~~~~~fhc~~c 138 (276)
T KOG1940|consen 60 NESEDHDLDRKTVYELLCMKCRKIQPVGQICSNCHVELGEYYCLICKLFDDDPS-KQYHCDLCGICREGLGLDFFHCKKC 138 (276)
T ss_pred ChhhhcccchhhhhhhhhhhHHhhhhhhhccccchhhhhhhcCccccccccccc-ceeccccccccccccccchhHHhhh
Confidence 556799999999999999999999999999999999999999999999999988 9999999999999999999999999
Q ss_pred CccccccccCcceeecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchhHHHHHHH
Q 027651 84 GSCYSTSLRNNHLCIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRID 163 (220)
Q Consensus 84 ~~C~s~~l~~~H~CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~~~~~lD 163 (220)
+.|++..+.++|+|+|++++.+||||.|+||++...+.+|+|||.+|..||+++...+ |+||+|.+ ++||+.+|+++|
T Consensus 139 ~~c~~~~~~~~H~c~e~~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~-~~d~~~~~~~~d 216 (276)
T KOG1940|consen 139 KACLSAYLSNWHKCVERSSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK-PGDMSHYFRKLD 216 (276)
T ss_pred HhHHhhhcccccchhhhcccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc-hHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999866 99999999 999999999999
Q ss_pred HHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCCCCCC
Q 027651 164 EEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAPPVLP 219 (220)
Q Consensus 164 ~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~~~~~ 219 (220)
.+|+++|||++|++++++|+||||+..++++|||||+||+.|+|||||+++.|..+
T Consensus 217 ~~l~~~~~p~~y~~~~~~i~cndC~~~~~~k~~~l~~kc~~c~~~~~r~~~~~~~~ 272 (276)
T KOG1940|consen 217 KELAGSPMPEEYKNKTQDILCNDCGSGTNVKYHILYHKCGKCGSYNTRMISDPSKY 272 (276)
T ss_pred HHHhcCCCCchhhchhheeeccCCCCCCccceehhhhhCCCcccceeeeccCCCcc
Confidence 99999999999999999999999999999999999999999999999999877654
No 2
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=99.97 E-value=1.6e-32 Score=195.47 Aligned_cols=61 Identities=67% Similarity=1.267 Sum_probs=22.6
Q ss_pred ccchhHHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCccccc
Q 027651 152 VIDMSRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRS 212 (220)
Q Consensus 152 i~dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~ 212 (220)
|+||+.+|++||++|+++|||++|++++|+|+||||+++|+|+||||||||++|+||||||
T Consensus 1 v~dM~~~w~~LD~~i~~~pmP~~Y~~~~v~IlCNDC~~~s~v~fH~lg~KC~~C~SYNT~q 61 (61)
T PF14599_consen 1 VVDMSAYWRMLDAEIAATPMPEEYRNKKVWILCNDCNAKSEVPFHFLGHKCSHCGSYNTRQ 61 (61)
T ss_dssp ---------------------------EEEEEESSS--EEEEE--TT----TTTS---EEE
T ss_pred CCCHHHHHHHHHHHHHhCCCCHHHhCCEEEEECCCCCCccceeeeHhhhcCCCCCCcccCC
Confidence 5799999999999999999999999999999999999999999999999999999999997
No 3
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.40 E-value=5.7e-14 Score=92.67 Aligned_cols=44 Identities=39% Similarity=0.937 Sum_probs=37.2
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCC
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICS 149 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCr 149 (220)
.+||||++++.+ .+.+..|+|||.||.+|+.+|+++ +.+||+||
T Consensus 1 d~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 379999999644 577889999999999999999985 68999996
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.04 E-value=1.3e-10 Score=85.16 Aligned_cols=47 Identities=32% Similarity=0.711 Sum_probs=35.8
Q ss_pred CCCCCccchhhcccc---------CCceEEccCCCccChHHHHHHhcCCCCCCCCCC
Q 027651 102 MHHHCPICYEYLFDS---------LRNTTVMKCGHTMHCECYHEMIKRDKYCCPICS 149 (220)
Q Consensus 102 ~~~~CPICle~lf~s---------~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCr 149 (220)
.+.+|+||+++|.+. .-++...+|||.||..|+.+||. .+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~-~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLK-QNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHT-TSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHh-cCCcCCCCC
Confidence 356799999997443 12345569999999999999998 467999997
No 5
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.03 E-value=2.3e-10 Score=72.89 Aligned_cols=45 Identities=31% Similarity=0.866 Sum_probs=37.8
Q ss_pred CCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCc
Q 027651 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSV 152 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi 152 (220)
.|+||++.+ ...+..++|||.||..|++.|+.....+||+|++.+
T Consensus 1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999986 345666789999999999999985578999999764
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.02 E-value=8.8e-11 Score=109.13 Aligned_cols=57 Identities=26% Similarity=0.742 Sum_probs=49.4
Q ss_pred CCCCCCCccchhhccccC---------CceEEccCCCccChHHHHHHhcCCCCCCCCCCcC-ccchhH
Q 027651 100 NSMHHHCPICYEYLFDSL---------RNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKS-VIDMSR 157 (220)
Q Consensus 100 ~s~~~~CPICle~lf~s~---------~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrks-i~dm~~ 157 (220)
.+.+..|.||+|+||.++ ..++.|||||.+|.+|+..|++ .+.+|||||.+ +.||++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~E-RqQTCPICr~p~ifd~~~ 350 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE-RQQTCPICRRPVIFDQSS 350 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHH-hccCCCcccCccccccCC
Confidence 567889999999998875 2368999999999999999999 57899999999 568765
No 7
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=1.8e-10 Score=106.46 Aligned_cols=50 Identities=22% Similarity=0.762 Sum_probs=44.6
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
..|.||||+ |..++.+++|||+|.||..|++.||......||+|+..+..
T Consensus 230 ~~CaIClEd-Y~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLED-YEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecc-cccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 589999999 77788999999999999999999998655569999998874
No 8
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 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. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=98.89 E-value=4.4e-10 Score=82.08 Aligned_cols=45 Identities=44% Similarity=0.993 Sum_probs=32.4
Q ss_pred CcCCCccccccccceEEeCCCCCCCcccccccccCcccceecCCcccccc
Q 027651 4 NPYDRHELVRQDVKQVICSVCDTEQPVAQVCTNCGVNMGEYFCDICKFYD 53 (220)
Q Consensus 4 d~~~~H~l~R~~v~~i~C~~C~~~q~~~~~C~~Cg~~~a~yfC~~C~l~d 53 (220)
||.++|+++|.++++|+|+.|.++|++++. +|| |+|||++|++||
T Consensus 27 de~~~H~~~~~~~~~v~Cg~C~~~~~~~~~--~c~---~~~~C~~C~~~~ 71 (71)
T PF05495_consen 27 DELEDHPFDRWPVKRVICGKCRTEQPIDEY--SCG---ADYFCPICGLYF 71 (71)
T ss_dssp HHCSSS---TTT--EEEETTT--EEES-SB--TT-----SEEETTTTEEE
T ss_pred HHhccCccccccccCeECCCCCCccChhhh--hcC---CCccCcCcCCCC
Confidence 567799999999999999999999999998 888 999999999986
No 9
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.87 E-value=1.7e-09 Score=95.65 Aligned_cols=54 Identities=30% Similarity=0.664 Sum_probs=42.5
Q ss_pred CCCCCCCccchhhccccCC---c-eEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 100 NSMHHHCPICYEYLFDSLR---N-TTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 100 ~s~~~~CPICle~lf~s~~---~-v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
.+.+..||||+|.+.+... . .+.++|||.||..|+.+|+. .+.+||+||..+..
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~-~~~tCPlCR~~~~~ 228 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK-EKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh-cCCCCCCCCCEeeE
Confidence 3556899999999765321 1 23458999999999999998 57899999998873
No 10
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.86 E-value=1e-09 Score=70.70 Aligned_cols=39 Identities=38% Similarity=0.987 Sum_probs=33.0
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCC
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPIC 148 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiC 148 (220)
||||++.+.+ ++++++|||+|+..|+.+|++. +.+||+|
T Consensus 1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccC---cCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 8999998543 6688999999999999999996 7999998
No 11
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.80 E-value=3.4e-09 Score=80.27 Aligned_cols=48 Identities=25% Similarity=0.414 Sum_probs=33.9
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcC--CCCCCCCCCcCcc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKR--DKYCCPICSKSVI 153 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~--~~~~CPiCrksi~ 153 (220)
..||.|..+-. +-+++.-.|+|.||..||.+||.. ++.+||+||.+..
T Consensus 33 g~Cp~Ck~Pgd--~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 33 GCCPDCKFPGD--DCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred cCCCCccCCCC--CCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 44666665521 123344479999999999999985 3579999998653
No 12
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.73 E-value=7.9e-09 Score=63.42 Aligned_cols=39 Identities=44% Similarity=1.076 Sum_probs=33.6
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCC
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPIC 148 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiC 148 (220)
||||++. ...+..++|||.||..|++.|+.....+||+|
T Consensus 1 C~iC~~~----~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE----LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC----CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7999987 24677889999999999999998556889987
No 13
>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=98.72 E-value=5.6e-09 Score=70.55 Aligned_cols=47 Identities=36% Similarity=0.918 Sum_probs=38.5
Q ss_pred CCCCccchhhccccCCceEEccCCCc-cChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHT-MHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~-~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
+..|+||++.. ..+..+||||. |...|+.+|+. ...+||+||++|.+
T Consensus 2 ~~~C~iC~~~~----~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENP----RDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSB----SSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-SE
T ss_pred cCCCccCCccC----CceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhcC
Confidence 35799999973 35788899999 99999999998 67999999998863
No 14
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=7.3e-09 Score=94.33 Aligned_cols=54 Identities=24% Similarity=0.574 Sum_probs=46.7
Q ss_pred cCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 99 ENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 99 E~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
|....-+|.|||++ |...+.+++|||.|.||..|+++|+...+.+||+||..+-
T Consensus 319 ea~~GveCaICms~-fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 319 EADKGVECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred hcCCCceEEEEhhh-hcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 44556799999999 6777889999999999999999999866789999997763
No 15
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.70 E-value=7.8e-09 Score=66.64 Aligned_cols=40 Identities=30% Similarity=0.896 Sum_probs=34.2
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhc-CCCCCCCCC
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIK-RDKYCCPIC 148 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~-~~~~~CPiC 148 (220)
||||++.+. +++..++|||.|+..|+.+|++ ....+||+|
T Consensus 1 C~iC~~~~~---~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFE---DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCS---SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCcccc---CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999853 3456889999999999999998 667899998
No 16
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.67 E-value=1.2e-08 Score=96.74 Aligned_cols=83 Identities=27% Similarity=0.610 Sum_probs=67.5
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchhHHHHHHHHHHHhcCCChhhhcCeeEE
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRIDEEIEATVMPEDYRHKKVWI 182 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y~~~~v~I 182 (220)
-..||||||.|.+++..+....|.|+||..|+..| ...+||+||.... |+. ...-
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w---~~~scpvcR~~q~------------------p~~----ve~~ 229 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW---WDSSCPVCRYCQS------------------PSV----VESS 229 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhc---ccCcChhhhhhcC------------------cch----hhhh
Confidence 35899999999998888888899999999999999 4579999994433 111 1246
Q ss_pred EccCCCCcceeeeeEeeecCCC--CCCcccccc
Q 027651 183 LCNDCNDTTEVYFHIIGQKCSH--CKSYNTRSI 213 (220)
Q Consensus 183 ~CnDC~~~s~~~~H~lg~kC~~--C~SyNT~~~ 213 (220)
+|.+|+...++ |+-+.|++ ||.|+-...
T Consensus 230 ~c~~c~~~~~L---wicliCg~vgcgrY~eghA 259 (493)
T KOG0804|consen 230 LCLACGCTEDL---WICLICGNVGCGRYKEGHA 259 (493)
T ss_pred hhhhhcccccE---EEEEEccceecccccchhH
Confidence 79999988877 89999987 999987654
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.67 E-value=1.9e-08 Score=66.52 Aligned_cols=44 Identities=34% Similarity=0.848 Sum_probs=37.6
Q ss_pred CCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCc
Q 027651 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSK 150 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrk 150 (220)
.|+||.+.+ +......+++|||+|...|+..+.. ....||+|++
T Consensus 1 ~C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~~-~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKY-SEERRPRLTSCGHIFCEKCLKKLKG-KSVKCPICRK 44 (44)
T ss_pred CCcCcCccc-cCCCCeEEcccCCHHHHHHHHhhcC-CCCCCcCCCC
Confidence 489999985 5456788889999999999999983 5789999986
No 18
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.56 E-value=4.7e-08 Score=64.54 Aligned_cols=39 Identities=31% Similarity=0.996 Sum_probs=28.9
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhcCCC---CCCCCC
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDK---YCCPIC 148 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~---~~CPiC 148 (220)
||||++.| . ..+.|+|||+|-..|+.+|.+... +.||+|
T Consensus 1 CpiC~~~~-~---~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF-K---DPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB--S---SEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh-C---CccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999975 3 477899999999999999987532 579987
No 19
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.55 E-value=3.2e-08 Score=65.98 Aligned_cols=40 Identities=33% Similarity=0.890 Sum_probs=24.5
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhcCC---CCCCC
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRD---KYCCP 146 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~---~~~CP 146 (220)
||||.| +.+...+.++|+|||+|-++|+++|+.++ .++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 55556678889999999999999999843 57787
No 20
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.44 E-value=1.9e-07 Score=80.29 Aligned_cols=55 Identities=24% Similarity=0.626 Sum_probs=42.1
Q ss_pred eeecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcC---------------CCCCCCCCCcCccc
Q 027651 96 LCIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKR---------------DKYCCPICSKSVID 154 (220)
Q Consensus 96 ~CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~---------------~~~~CPiCrksi~d 154 (220)
+=++...+..||||++.+ . ..++++|||.|+..|+.+|+.. ...+||+|+..+..
T Consensus 11 ~~~~~~~~~~CpICld~~-~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 11 TLVDSGGDFDCNICLDQV-R---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred eeccCCCccCCccCCCcC-C---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 334445567899999974 2 3456799999999999999842 23689999999964
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=7.7e-08 Score=93.51 Aligned_cols=54 Identities=24% Similarity=0.554 Sum_probs=44.6
Q ss_pred cCCCCCCCccchhhccccC-CceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 99 ENSMHHHCPICYEYLFDSL-RNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 99 E~s~~~~CPICle~lf~s~-~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
+......|+||+|.|+.+. ..+..|||||+||..|+.+|++ ...+||+||..+.
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~e-r~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFE-RQQTCPTCRTVLY 341 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHH-HhCcCCcchhhhh
Confidence 3455788999999997743 2367899999999999999999 4899999999443
No 22
>PHA02926 zinc finger-like protein; Provisional
Probab=98.28 E-value=4.9e-07 Score=79.48 Aligned_cols=55 Identities=25% Similarity=0.567 Sum_probs=41.9
Q ss_pred cCCCCCCCccchhhccccC----Cc-eEEccCCCccChHHHHHHhcCC-----CCCCCCCCcCcc
Q 027651 99 ENSMHHHCPICYEYLFDSL----RN-TTVMKCGHTMHCECYHEMIKRD-----KYCCPICSKSVI 153 (220)
Q Consensus 99 E~s~~~~CPICle~lf~s~----~~-v~~LpCGH~~H~~C~~~~l~~~-----~~~CPiCrksi~ 153 (220)
..+.+..|+||+|.++... .. ....+|+|.|+..|+..|.... ..+||+||..+.
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4567889999999876531 11 3344999999999999998742 356999998876
No 23
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.18 E-value=1.7e-06 Score=59.96 Aligned_cols=45 Identities=18% Similarity=0.369 Sum_probs=38.2
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
-.||||++.|.+ .+.++|||+|-+.|+.+|+.. +.+||+|++.+.
T Consensus 2 ~~Cpi~~~~~~~----Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKD----PVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCC----CEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCC
Confidence 469999998532 456799999999999999985 789999999884
No 24
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1.4e-06 Score=74.15 Aligned_cols=47 Identities=30% Similarity=0.802 Sum_probs=38.2
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
..|||||+. +. ....+.-.|||+|.++|+...+. ....||+|+|.|.
T Consensus 132 ~~CPiCl~~-~s-ek~~vsTkCGHvFC~~Cik~alk-~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 132 YKCPICLDS-VS-EKVPVSTKCGHVFCSQCIKDALK-NTNKCPTCRKKIT 178 (187)
T ss_pred cCCCceecc-hh-hccccccccchhHHHHHHHHHHH-hCCCCCCcccccc
Confidence 689999998 33 22234469999999999999998 4689999999665
No 25
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.01 E-value=3.8e-06 Score=57.25 Aligned_cols=43 Identities=28% Similarity=0.617 Sum_probs=33.2
Q ss_pred CCccchhhccccCCceEEccCC-----CccChHHHHHHhcCC-CCCCCCCC
Q 027651 105 HCPICYEYLFDSLRNTTVMKCG-----HTMHCECYHEMIKRD-KYCCPICS 149 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCG-----H~~H~~C~~~~l~~~-~~~CPiCr 149 (220)
.|-||++ +.+.....++||. |++|..|+..|+... +.+||+|+
T Consensus 1 ~CrIC~~--~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD--EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC--CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3889998 3334556678984 999999999999643 56899995
No 26
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.99 E-value=4.8e-06 Score=62.65 Aligned_cols=48 Identities=23% Similarity=0.483 Sum_probs=34.0
Q ss_pred CCccchhhccccCCceEEc-cCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 105 HCPICYEYLFDSLRNTTVM-KCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~L-pCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
.||-|+-.+...++-+.+- .|.|+||..|+..||. .+..||+++++..
T Consensus 33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~-Tk~~CPld~q~w~ 81 (88)
T COG5194 33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLD-TKGVCPLDRQTWV 81 (88)
T ss_pred cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHh-hCCCCCCCCceeE
Confidence 3555554443333323333 6999999999999998 5789999998765
No 27
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.86 E-value=1.4e-05 Score=75.51 Aligned_cols=47 Identities=21% Similarity=0.594 Sum_probs=38.9
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
...||||++.+.. + ++++|||.|+..|+..|+.. ...||+|+..+..
T Consensus 26 ~l~C~IC~d~~~~---P-vitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 26 SLRCHICKDFFDV---P-VLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQE 72 (397)
T ss_pred ccCCCcCchhhhC---c-cCCCCCCchhHHHHHHHHhC-CCCCCCCCCcccc
Confidence 4689999997532 3 46899999999999999984 5689999998863
No 28
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=4.5e-06 Score=62.32 Aligned_cols=29 Identities=24% Similarity=0.707 Sum_probs=24.8
Q ss_pred cCCCccChHHHHHHhcC--CCCCCCCCCcCc
Q 027651 124 KCGHTMHCECYHEMIKR--DKYCCPICSKSV 152 (220)
Q Consensus 124 pCGH~~H~~C~~~~l~~--~~~~CPiCrksi 152 (220)
.|-|.||..|+.+|+.. ++..||+||.+.
T Consensus 50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred HHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 59999999999999964 357799999764
No 29
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.81 E-value=3.7e-06 Score=61.18 Aligned_cols=51 Identities=31% Similarity=0.656 Sum_probs=24.2
Q ss_pred CCCCccchhhcccc-CCceEEc---cCCCccChHHHHHHhcC---C-------CCCCCCCCcCcc
Q 027651 103 HHHCPICYEYLFDS-LRNTTVM---KCGHTMHCECYHEMIKR---D-------KYCCPICSKSVI 153 (220)
Q Consensus 103 ~~~CPICle~lf~s-~~~v~~L---pCGH~~H~~C~~~~l~~---~-------~~~CPiCrksi~ 153 (220)
+.+|+||.+++.+. ..+..+- .|+..||..|+.+||.. . ..+||.|++.|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 45799999986522 2333332 69999999999999973 1 136999999885
No 30
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=2e-05 Score=65.97 Aligned_cols=44 Identities=30% Similarity=0.845 Sum_probs=37.8
Q ss_pred CCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCc
Q 027651 102 MHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSK 150 (220)
Q Consensus 102 ~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrk 150 (220)
.+..||||++++.. + ++|||||+|-..|+..++. ....||.|+.
T Consensus 12 ~~~~C~iC~~~~~~---p-~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFRE---P-VLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhhc---C-ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 45689999998533 3 7889999999999999988 6799999995
No 31
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=1.6e-05 Score=72.07 Aligned_cols=45 Identities=29% Similarity=0.729 Sum_probs=38.4
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
..|.+|||.. ......||||.|.-.|+.+|.. .+..||+||..+-
T Consensus 240 ~kC~LCLe~~----~~pSaTpCGHiFCWsCI~~w~~-ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 240 RKCSLCLENR----SNPSATPCGHIFCWSCILEWCS-EKAECPLCREKFQ 284 (293)
T ss_pred CceEEEecCC----CCCCcCcCcchHHHHHHHHHHc-cccCCCcccccCC
Confidence 4799999984 3566889999999999999998 4678999997765
No 32
>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=97.69 E-value=3.8e-05 Score=70.47 Aligned_cols=52 Identities=25% Similarity=0.547 Sum_probs=39.3
Q ss_pred CCCCccchhhccccCCc-eEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 103 HHHCPICYEYLFDSLRN-TTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~-v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
+..||||......+..- ..+.+|||.|..+|++.++..+...||+|++++..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 35799999964444321 22238999999999999877677899999998863
No 33
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=2.2e-05 Score=73.90 Aligned_cols=46 Identities=28% Similarity=0.633 Sum_probs=38.6
Q ss_pred CCCCccchhhccccCCceEEc-cCCCccChHHHHHHhcCC--CCCCCCCC
Q 027651 103 HHHCPICYEYLFDSLRNTTVM-KCGHTMHCECYHEMIKRD--KYCCPICS 149 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~L-pCGH~~H~~C~~~~l~~~--~~~CPiCr 149 (220)
...|.|| +++|.....+..+ .|||+||..|+.+|+... +..||||+
T Consensus 4 ~A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 4579999 7778877777777 499999999999999853 35899999
No 34
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.41 E-value=0.00012 Score=68.17 Aligned_cols=58 Identities=29% Similarity=0.700 Sum_probs=45.0
Q ss_pred CCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccch-hHHHHHHHHHHH
Q 027651 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDM-SRTWKRIDEEIE 167 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm-~~~~~~lD~~i~ 167 (220)
.|-||.|+| . -.++.||||+|..-|+..+|. .+..||.|..++..- ...-++||++|+
T Consensus 25 RC~IC~eyf-~---ip~itpCsHtfCSlCIR~~L~-~~p~CP~C~~~~~Es~Lr~n~il~Eiv~ 83 (442)
T KOG0287|consen 25 RCGICFEYF-N---IPMITPCSHTFCSLCIRKFLS-YKPQCPTCCVTVTESDLRNNRILDEIVK 83 (442)
T ss_pred HHhHHHHHh-c---CceeccccchHHHHHHHHHhc-cCCCCCceecccchhhhhhhhHHHHHHH
Confidence 599999984 3 345668999999999999998 689999999998732 223356777654
No 35
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.36 E-value=0.0001 Score=71.34 Aligned_cols=50 Identities=28% Similarity=0.618 Sum_probs=38.5
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCC----CCCCCCCCcCccc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRD----KYCCPICSKSVID 154 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~----~~~CPiCrksi~d 154 (220)
++...|||||++ .. -...+.|||+|.-.|+-+|+..+ ...||||+..|.-
T Consensus 184 ~t~~~CPICL~~-~~---~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 184 STDMQCPICLEP-PS---VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CcCCcCCcccCC-CC---cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 447899999998 22 23334699999999999987643 3679999999873
No 36
>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=97.35 E-value=0.00024 Score=51.64 Aligned_cols=47 Identities=17% Similarity=0.369 Sum_probs=35.9
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
-.|||..+-|. ..+++|+||+|=+.++.+|+.....+||+++..+..
T Consensus 5 f~CpIt~~lM~----dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 5 FLCPITGELMR----DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GB-TTTSSB-S----SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cCCcCcCcHhh----CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 46999999753 366789999999999999999668999999988874
No 37
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=9.7e-05 Score=71.44 Aligned_cols=51 Identities=22% Similarity=0.523 Sum_probs=37.9
Q ss_pred CCCCccchhhccc--cCCc-----------eEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 103 HHHCPICYEYLFD--SLRN-----------TTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 103 ~~~CPICle~lf~--s~~~-----------v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
..+|+|||.++-- .+.+ ..+.||.|.||+.|+.+|+...+..||+||..+-
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 4589999987521 1111 2334999999999999999866778999998764
No 38
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00018 Score=63.53 Aligned_cols=50 Identities=24% Similarity=0.630 Sum_probs=39.2
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCC--CCCCCCCCcCccc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRD--KYCCPICSKSVID 154 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~--~~~CPiCrksi~d 154 (220)
...-+|-||||- . ++.++..|||.|.-.||.+||... +..||+|+..|.+
T Consensus 45 ~~~FdCNICLd~---a-kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 45 GGFFDCNICLDL---A-KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCceeeeeeccc---c-CCCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 445689999985 2 356666799999999999999742 3568999988874
No 39
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.14 E-value=0.00011 Score=66.40 Aligned_cols=52 Identities=27% Similarity=0.515 Sum_probs=42.1
Q ss_pred CCCCCccchhhccccCC------ceEEccCCCccChHHHHHHhc-CCCCCCCCCCcCcc
Q 027651 102 MHHHCPICYEYLFDSLR------NTTVMKCGHTMHCECYHEMIK-RDKYCCPICSKSVI 153 (220)
Q Consensus 102 ~~~~CPICle~lf~s~~------~v~~LpCGH~~H~~C~~~~l~-~~~~~CPiCrksi~ 153 (220)
.++.|.||...++.+.+ ..-.|.|+|.||+-|+.-|-- ..+.+||.|++.+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 35679999999877652 356789999999999999953 35689999998875
No 40
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.11 E-value=9.5e-05 Score=69.85 Aligned_cols=62 Identities=26% Similarity=0.573 Sum_probs=50.5
Q ss_pred cceeecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcC-CCCCCCCCCcCccchh
Q 027651 94 NHLCIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKR-DKYCCPICSKSVIDMS 156 (220)
Q Consensus 94 ~H~CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~-~~~~CPiCrksi~dm~ 156 (220)
.|.|++ .++-.|-.|.|.+-...+....|||.|+||..|+.++|.+ +..+||-|||....|+
T Consensus 357 a~~~~~-e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs~~ 419 (518)
T KOG1941|consen 357 AHECVE-ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSSMK 419 (518)
T ss_pred HHHHHH-HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhhcc
Confidence 455654 4678999999998777778899999999999999999864 4578999997666554
No 41
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.99 E-value=0.00041 Score=50.19 Aligned_cols=56 Identities=25% Similarity=0.629 Sum_probs=28.6
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc--chhHHHHHHHHHH
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI--DMSRTWKRIDEEI 166 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~--dm~~~~~~lD~~i 166 (220)
..|++|.+.|. ++|..-.|.|.|.+.|+.+-+. +.||+|+.+.. |+.. -+.||..|
T Consensus 8 LrCs~C~~~l~---~pv~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~~-NrqLd~~i 65 (65)
T PF14835_consen 8 LRCSICFDILK---EPVCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQI-NRQLDSMI 65 (65)
T ss_dssp TS-SSS-S--S---S-B---SSS--B-TTTGGGGTT---TB-SSS--B-S-SS-----HHHHHHH
T ss_pred cCCcHHHHHhc---CCceeccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHHh-hhhhhccC
Confidence 36999999863 3566669999999999988765 46999999985 4433 36777664
No 42
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.93 E-value=0.00072 Score=46.23 Aligned_cols=47 Identities=28% Similarity=0.711 Sum_probs=25.1
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCc
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSV 152 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi 152 (220)
||+|.|+|..++....--+||+-+-+.|+...++....+||-||+.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 79999998444333333367999999999999876678999999875
No 43
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.00034 Score=65.20 Aligned_cols=82 Identities=23% Similarity=0.489 Sum_probs=57.8
Q ss_pred CCCCCCccchhhccccC---CceEE-ccCCCccChHHHHHHhcCC------CCCCCCCCcCcc--chhHHHHHHHHHHHh
Q 027651 101 SMHHHCPICYEYLFDSL---RNTTV-MKCGHTMHCECYHEMIKRD------KYCCPICSKSVI--DMSRTWKRIDEEIEA 168 (220)
Q Consensus 101 s~~~~CPICle~lf~s~---~~v~~-LpCGH~~H~~C~~~~l~~~------~~~CPiCrksi~--dm~~~~~~lD~~i~~ 168 (220)
+.+..|-||+|.+.... ..-.+ ++|.|+|...|+..|-... ...||+||.... .-+.+|..-.+ +.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~Wv~t~~--~k 236 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFWVETKE--EK 236 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccceeeeecc--cc
Confidence 66789999999876643 11223 4699999999999998432 378999998875 34456743222 66
Q ss_pred cCCChhhhcCeeEEEc
Q 027651 169 TVMPEDYRHKKVWILC 184 (220)
Q Consensus 169 ~pmP~~y~~~~v~I~C 184 (220)
++++++|+..+....|
T Consensus 237 ~~li~e~~~~~s~~~c 252 (344)
T KOG1039|consen 237 QKLIEEYEAEMSAKDC 252 (344)
T ss_pred cccHHHHHHHhhccch
Confidence 7788888877665444
No 44
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.65 E-value=0.0012 Score=61.54 Aligned_cols=51 Identities=27% Similarity=0.655 Sum_probs=41.2
Q ss_pred cCCCCCCCccchhhccccCCceEEccCCCc-cChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 99 ENSMHHHCPICYEYLFDSLRNTTVMKCGHT-MHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 99 E~s~~~~CPICle~lf~s~~~v~~LpCGH~-~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
|.....+|.|||.+ ..++.+|||-|. +...|.+.+.- ...+|||||..+..
T Consensus 286 ~~~~gkeCVIClse----~rdt~vLPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 286 ESESGKECVICLSE----SRDTVVLPCRHLCLCSGCAKSLRY-QTNNCPICRQPIEE 337 (349)
T ss_pred cccCCCeeEEEecC----CcceEEecchhhehhHhHHHHHHH-hhcCCCccccchHh
Confidence 33446789999987 356889999996 89999998864 46789999998874
No 45
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.0013 Score=51.78 Aligned_cols=28 Identities=29% Similarity=0.734 Sum_probs=25.3
Q ss_pred cCCCccChHHHHHHhcCCCCCCCCCCcCc
Q 027651 124 KCGHTMHCECYHEMIKRDKYCCPICSKSV 152 (220)
Q Consensus 124 pCGH~~H~~C~~~~l~~~~~~CPiCrksi 152 (220)
-|.|+||..|+..||+ .+..||++.+.-
T Consensus 80 ~CNHaFH~hCisrWlk-tr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLK-TRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHh-hcCcCCCcCcce
Confidence 6999999999999999 578999999764
No 46
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.0012 Score=59.47 Aligned_cols=46 Identities=30% Similarity=0.670 Sum_probs=36.8
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHH-HhcCCCCC-CCCCCcCcc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHE-MIKRDKYC-CPICSKSVI 153 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~-~l~~~~~~-CPiCrksi~ 153 (220)
+..|+||+|.. ......+|||.|...|+.. |.. .++. ||+||.-+.
T Consensus 215 d~kC~lC~e~~----~~ps~t~CgHlFC~~Cl~~~~t~-~k~~~CplCRak~~ 262 (271)
T COG5574 215 DYKCFLCLEEP----EVPSCTPCGHLFCLSCLLISWTK-KKYEFCPLCRAKVY 262 (271)
T ss_pred ccceeeeeccc----CCcccccccchhhHHHHHHHHHh-hccccCchhhhhcc
Confidence 34699999984 3466789999999999999 876 4555 999997654
No 47
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.00053 Score=48.42 Aligned_cols=53 Identities=34% Similarity=0.778 Sum_probs=38.5
Q ss_pred CCCCCCccchhhccccCCceEEccCCCc-cChHHHHHHhcCCCCCCCCCCcCccchhH
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHT-MHCECYHEMIKRDKYCCPICSKSVIDMSR 157 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~-~H~~C~~~~l~~~~~~CPiCrksi~dm~~ 157 (220)
+...+|.||+|.-.+ .+.-.|||. |.-.|..+.++..+-.|||||.+|.|.-.
T Consensus 5 ~~~dECTICye~pvd----sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIk 58 (62)
T KOG4172|consen 5 QWSDECTICYEHPVD----SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIK 58 (62)
T ss_pred ccccceeeeccCcch----HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHH
Confidence 345789999997322 233489996 67788777666578899999999876543
No 48
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.42 E-value=0.0015 Score=67.54 Aligned_cols=53 Identities=26% Similarity=0.637 Sum_probs=39.1
Q ss_pred CCCCCCccchhhcc--ccCCceEE-ccCCCccChHHHHHHhcC-CCCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLF--DSLRNTTV-MKCGHTMHCECYHEMIKR-DKYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf--~s~~~v~~-LpCGH~~H~~C~~~~l~~-~~~~CPiCrksi~ 153 (220)
+...+||||.--|. +..-|... -.|.|-||..|+.+|++. ++.+||+||.++-
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 55789999987664 22222222 257899999999999985 4689999997663
No 49
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.40 E-value=0.001 Score=67.55 Aligned_cols=76 Identities=14% Similarity=0.294 Sum_probs=54.1
Q ss_pred eeecCCcCccccccccCcceeec-CCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 77 YFHCKRCGSCYSTSLRNNHLCIE-NSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 77 ~fHC~~C~~C~s~~l~~~H~CiE-~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
--.|..|-.+.|.-.-..-.|+- +-....||+|+-.. .........+|+|+||..||..|-+ ...+||+|++.++.
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~-~DqL~~~~k~c~H~FC~~Ci~sWsR-~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSC-NDQLEESEKHTAHYFCEECVGSWSR-CAQTCPVDRGEFGE 172 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHH-HHHhhccccccccccHHHHhhhhhh-hcccCchhhhhhhe
Confidence 44566777777764333444542 33456799999874 3333344569999999999999987 57899999999873
No 50
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.00087 Score=67.34 Aligned_cols=47 Identities=23% Similarity=0.635 Sum_probs=40.8
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
-.||+|-.. ...+++..|||.|...|+...+.....+||.|+.+++.
T Consensus 644 LkCs~Cn~R----~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 644 LKCSVCNTR----WKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred eeCCCccCc----hhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 479999865 34577789999999999999998888999999999983
No 51
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.31 E-value=0.0024 Score=44.84 Aligned_cols=43 Identities=28% Similarity=0.615 Sum_probs=29.8
Q ss_pred CCCCCccchhhccccCCceEEccCCCccChHHHHHHhc-CCCCCCCC
Q 027651 102 MHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIK-RDKYCCPI 147 (220)
Q Consensus 102 ~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~-~~~~~CPi 147 (220)
....|||-+.+| . ++|+...|||+|=++.+.+||. ++..+||+
T Consensus 10 ~~~~CPiT~~~~-~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPF-E--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB--S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChh-h--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 356799999985 3 5888889999999999999993 35688998
No 52
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.20 E-value=0.0011 Score=61.91 Aligned_cols=49 Identities=27% Similarity=0.688 Sum_probs=41.9
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
+-.|||||+-|.. .....-|+|-|...||..-++.++..||.|||.++.
T Consensus 43 ~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 43 QVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 4579999997643 456778999999999999888889999999999984
No 53
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.09 E-value=0.0039 Score=59.29 Aligned_cols=51 Identities=25% Similarity=0.702 Sum_probs=40.3
Q ss_pred CCCCccchhhccccCCc-eEEccCCCccChHHHHHHhcC-CCCCCCCCCcCcc
Q 027651 103 HHHCPICYEYLFDSLRN-TTVMKCGHTMHCECYHEMIKR-DKYCCPICSKSVI 153 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~-v~~LpCGH~~H~~C~~~~l~~-~~~~CPiCrksi~ 153 (220)
...||||++.+..+.+. ++.|.|||.|-+.|++.||-. ...+||.|.-...
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 46799999998766655 456799999999999999952 2467999985543
No 54
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.92 E-value=0.0067 Score=55.61 Aligned_cols=63 Identities=22% Similarity=0.630 Sum_probs=48.1
Q ss_pred CCCccchhhccccCCceEEccC--CCccChHHHHHHhcCCCCCCCCCCcCccchhHHHHHHHHHHHhcCCChhhhc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKC--GHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRIDEEIEATVMPEDYRH 177 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpC--GH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y~~ 177 (220)
.+||||.++|.. -++.| ||.....|-.+. ..+||.|+.++++... +.++..+++...|=.|.+
T Consensus 49 leCPvC~~~l~~-----Pi~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~~R~--~amEkV~e~~~vpC~~~~ 113 (299)
T KOG3002|consen 49 LDCPVCFNPLSP-----PIFQCDNGHLACSSCRTKV----SNKCPTCRLPIGNIRC--RAMEKVAEAVLVPCKNAK 113 (299)
T ss_pred ccCchhhccCcc-----cceecCCCcEehhhhhhhh----cccCCccccccccHHH--HHHHHHHHhceecccccc
Confidence 589999999733 34556 899999998754 4799999999997543 467777888877766554
No 55
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=95.78 E-value=0.0026 Score=60.57 Aligned_cols=53 Identities=26% Similarity=0.619 Sum_probs=44.3
Q ss_pred eecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCC-CCCCCCCCcCcc
Q 027651 97 CIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRD-KYCCPICSKSVI 153 (220)
Q Consensus 97 CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~-~~~CPiCrksi~ 153 (220)
|.-+++-..|-||-|. +++|++=||||.+...|+..|-... ..+||.||-.|-
T Consensus 363 ceMgsTFeLCKICaen----dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 363 CEMGSTFELCKICAEN----DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHccchHHHHHHhhcc----CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 4446777899999986 5678888999999999999998543 689999998875
No 56
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.57 E-value=0.0088 Score=64.46 Aligned_cols=118 Identities=24% Similarity=0.588 Sum_probs=76.0
Q ss_pred ccccccccceEEeCCCCCC-----Ccccccccc--cCcccceecCCc---cccccCCCCCCcccCCCCCccccCCcccee
Q 027651 9 HELVRQDVKQVICSVCDTE-----QPVAQVCTN--CGVNMGEYFCDI---CKFYDDDIEKGQFHCDDCGICRIGGRENYF 78 (220)
Q Consensus 9 H~l~R~~v~~i~C~~C~~~-----q~~~~~C~~--Cg~~~a~yfC~~---C~l~dd~~~k~~yHC~~CgiCR~G~~~~~f 78 (220)
|++--.....--|.+|+.. |.++.+|.. | +..|+--|++ |..+ -||.+|-.
T Consensus 3408 ~T~~PTtsS~~aCRFCGs~~~tE~sav~~vCs~aDC-~eYAK~ACs~~H~C~H~------------------CGGvkNEE 3468 (3738)
T KOG1428|consen 3408 HTGKPTTSSSEACRFCGSRSGTELSAVGSVCSDADC-QEYAKIACSKTHPCGHP------------------CGGVKNEE 3468 (3738)
T ss_pred hcCCCCccchhHhhhccCCCCcchhcccCccccHHH-HHHHHHHHhccCcCCCc------------------ccCccchh
Confidence 3333333334478888654 456677764 3 2344444443 2222 15667888
Q ss_pred ecCCcCccccccccCcceeecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCC---------CCCCCCCC
Q 027651 79 HCKRCGSCYSTSLRNNHLCIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRD---------KYCCPICS 149 (220)
Q Consensus 79 HC~~C~~C~s~~l~~~H~CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~---------~~~CPiCr 149 (220)
||--|-.|-.-.. ....+..|.||.-+ .-+-.+.+.|.|||.||..|....|++. -..||||.
T Consensus 3469 ~CLPCl~Cdks~t-------kQD~DDmCmICFTE-~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~ 3540 (3738)
T KOG1428|consen 3469 HCLPCLHCDKSAT-------KQDADDMCMICFTE-ALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICK 3540 (3738)
T ss_pred hcccccccChhhh-------hcccCceEEEEehh-hhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeeccccc
Confidence 8887776643221 22346679999876 4456788999999999999998877642 26899999
Q ss_pred cCcc
Q 027651 150 KSVI 153 (220)
Q Consensus 150 ksi~ 153 (220)
..|.
T Consensus 3541 n~In 3544 (3738)
T KOG1428|consen 3541 NKIN 3544 (3738)
T ss_pred chhh
Confidence 8886
No 57
>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=95.54 E-value=0.006 Score=45.93 Aligned_cols=38 Identities=24% Similarity=0.528 Sum_probs=29.7
Q ss_pred eeecCCCCCCCccchhhccccCCceEEccCCCccChHHHH
Q 027651 96 LCIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYH 135 (220)
Q Consensus 96 ~CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~ 135 (220)
..+.=..+..|+||...|.. ....+.||||.+|..|++
T Consensus 71 ~~v~i~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 71 RSVVITESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ceEEECCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence 33444556789999999876 467778999999999974
No 58
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.31 E-value=0.016 Score=52.80 Aligned_cols=53 Identities=25% Similarity=0.589 Sum_probs=42.5
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcC-CCCCCCCCCcCccchh
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKR-DKYCCPICSKSVIDMS 156 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~-~~~~CPiCrksi~dm~ 156 (220)
+...+||+|.|+ .+.|.+..+|||.+.--|+..-+.. ..++||.|+.++..|.
T Consensus 237 t~~~~C~~Cg~~---PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 237 TSDTECPVCGEP---PTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred cCCceeeccCCC---CCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 446789999997 4567777899999999999886552 2589999999887654
No 59
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.27 E-value=0.0074 Score=40.65 Aligned_cols=41 Identities=29% Similarity=0.704 Sum_probs=26.5
Q ss_pred CccchhhccccCCceEEccC---C--CccChHHHHHHhcC-CCCCCCCC
Q 027651 106 CPICYEYLFDSLRNTTVMKC---G--HTMHCECYHEMIKR-DKYCCPIC 148 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpC---G--H~~H~~C~~~~l~~-~~~~CPiC 148 (220)
|-||++.-.++ ...+.|| | -..|.+|+.+|+.. ++.+|++|
T Consensus 1 CrIC~~~~~~~--~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEED--EPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSS--S-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCC--CceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 56888873332 2445677 3 68999999999974 45789987
No 60
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=95.07 E-value=0.013 Score=53.89 Aligned_cols=45 Identities=24% Similarity=0.577 Sum_probs=37.0
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
..|-||-++|. -...-+|||+|..-|+..+|. .+..||+|+....
T Consensus 26 lrC~IC~~~i~----ip~~TtCgHtFCslCIR~hL~-~qp~CP~Cr~~~~ 70 (391)
T COG5432 26 LRCRICDCRIS----IPCETTCGHTFCSLCIRRHLG-TQPFCPVCREDPC 70 (391)
T ss_pred HHhhhhhheee----cceecccccchhHHHHHHHhc-CCCCCccccccHH
Confidence 46999999852 234559999999999999998 5799999997764
No 61
>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=94.96 E-value=0.018 Score=52.71 Aligned_cols=48 Identities=23% Similarity=0.546 Sum_probs=38.7
Q ss_pred CCccchhhccccCCceEEc--cCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 105 HCPICYEYLFDSLRNTTVM--KCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~L--pCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
.||+|.-+...+.+ +.+| +|||.+.++|++..+..+.+.||.|++.+.
T Consensus 2 ~Cp~CKt~~Y~np~-lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPD-LKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCcc-ceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 48999776554433 3333 999999999999999988999999999886
No 62
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.72 E-value=0.017 Score=53.15 Aligned_cols=50 Identities=24% Similarity=0.505 Sum_probs=41.3
Q ss_pred CCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 100 NSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 100 ~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
..+..+|+||+-.. ...+.|+|+|.|.-.|+.--..+...+||+||.+|-
T Consensus 4 ~~~~~eC~IC~nt~----n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 4 RTKKKECLICYNTG----NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred cccCCcceeeeccC----CcCccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 35678999999874 234789999999999998876667788999999986
No 63
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.65 E-value=0.045 Score=48.86 Aligned_cols=51 Identities=29% Similarity=0.693 Sum_probs=42.4
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcC-------CCCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKR-------DKYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~-------~~~~CPiCrksi~ 153 (220)
....+|.+|.-.|... +.+.|-|=|.||-+|+++|... ..|+||-|+..|.
T Consensus 48 DY~pNC~LC~t~La~g--dt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASG--DTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCCceeCCccccC--cceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 3467999999987553 4678899999999999999763 2499999999987
No 64
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.43 E-value=0.015 Score=40.92 Aligned_cols=32 Identities=28% Similarity=0.669 Sum_probs=26.2
Q ss_pred ceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 119 NTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 119 ~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
.-.+|||||.+-..|++-+- -..||+|.+.+.
T Consensus 19 ~~~~~pCgH~I~~~~f~~~r---YngCPfC~~~~~ 50 (55)
T PF14447_consen 19 KGTVLPCGHLICDNCFPGER---YNGCPFCGTPFE 50 (55)
T ss_pred ccccccccceeeccccChhh---ccCCCCCCCccc
Confidence 35678999999999998763 357999999886
No 65
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=93.78 E-value=0.039 Score=49.07 Aligned_cols=37 Identities=27% Similarity=0.546 Sum_probs=27.7
Q ss_pred cccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 114 FDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 114 f~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
|.+.++-.+..|+|+|...|...-.. ..||+|++++-
T Consensus 12 ~~~~~~f~LTaC~HvfC~~C~k~~~~---~~C~lCkk~ir 48 (233)
T KOG4739|consen 12 FPSQDPFFLTACRHVFCEPCLKASSP---DVCPLCKKSIR 48 (233)
T ss_pred cCCCCceeeeechhhhhhhhcccCCc---cccccccceee
Confidence 44444455669999999999965432 39999999975
No 66
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.58 E-value=0.054 Score=48.40 Aligned_cols=48 Identities=31% Similarity=0.784 Sum_probs=40.2
Q ss_pred CCCccchhhccccCC---ceEEccCCCccChHHHHHHhcCCCCCCCCCCcCc
Q 027651 104 HHCPICYEYLFDSLR---NTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSV 152 (220)
Q Consensus 104 ~~CPICle~lf~s~~---~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi 152 (220)
..|-||-++ |++.+ .++.|.|||++-..|+...+.++...||.||.+.
T Consensus 4 ~~c~~c~~~-~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNED-YSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCcc-ccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 568899998 44442 3677899999999999999988788899999995
No 67
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=93.39 E-value=0.052 Score=42.94 Aligned_cols=38 Identities=18% Similarity=0.362 Sum_probs=29.3
Q ss_pred cCeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCCC
Q 027651 177 HKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 177 ~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~~ 216 (220)
...+...|++|+.......+ ...||.|||++++.++|.
T Consensus 66 ~~p~~~~C~~Cg~~~~~~~~--~~~CP~Cgs~~~~i~~G~ 103 (115)
T TIGR00100 66 DEPVECECEDCSEEVSPEID--LYRCPKCHGIMLQVRAGK 103 (115)
T ss_pred eeCcEEEcccCCCEEecCCc--CccCcCCcCCCcEEecCC
Confidence 34567999999987766432 357999999999998763
No 68
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.19 E-value=0.026 Score=53.02 Aligned_cols=54 Identities=24% Similarity=0.485 Sum_probs=43.6
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchh
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMS 156 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~ 156 (220)
+.-||+|+|+|.-++..-.--|||=-+.+-|+....+.-+.+||-||+.+.+-.
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 344999999987766555555889999999999887766789999999998633
No 69
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=93.08 E-value=0.077 Score=37.81 Aligned_cols=47 Identities=28% Similarity=0.769 Sum_probs=32.3
Q ss_pred ccceEEeCCCCCCCc-----ccccccccCcc-cceecCCccccccCCCCCCcccCCCCCc
Q 027651 15 DVKQVICSVCDTEQP-----VAQVCTNCGVN-MGEYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 15 ~v~~i~C~~C~~~q~-----~~~~C~~Cg~~-~a~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
.++..+|..|+.+-. +.-.|.|||.. ..| |.+|+-+. ..|.|++||+
T Consensus 4 ~~~~~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~R--C~~CRk~~-----~~Y~CP~CGF 56 (59)
T PRK14890 4 MMEPPKCTSCGIEIAPREKAVKFLCPNCGEVIIYR--CEKCRKQS-----NPYTCPKCGF 56 (59)
T ss_pred cccCccccCCCCcccCCCccCEeeCCCCCCeeEee--chhHHhcC-----CceECCCCCC
Confidence 344557888875432 44578889885 444 88887764 4689999985
No 70
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=93.04 E-value=0.057 Score=42.89 Aligned_cols=38 Identities=24% Similarity=0.434 Sum_probs=29.2
Q ss_pred cCeeEEEccCCCCcceee-eeEeeecCCCCCCccccccCCC
Q 027651 177 HKKVWILCNDCNDTTEVY-FHIIGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 177 ~~~v~I~CnDC~~~s~~~-~H~lg~kC~~C~SyNT~~~~~~ 216 (220)
...+.+.|++|+..+... +++ .+||.|||++...++|.
T Consensus 67 ~vp~~~~C~~Cg~~~~~~~~~~--~~CP~Cgs~~~~i~~G~ 105 (117)
T PRK00564 67 DEKVELECKDCSHVFKPNALDY--GVCEKCHSKNVIITQGN 105 (117)
T ss_pred ecCCEEEhhhCCCccccCCccC--CcCcCCCCCceEEecCC
Confidence 345678999999877664 333 37999999999988763
No 71
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=93.00 E-value=0.024 Score=52.37 Aligned_cols=52 Identities=29% Similarity=0.594 Sum_probs=40.6
Q ss_pred CCCCCccchhhccccCCceEEccCCCccChHHHHHHhcC----------------------CCCCCCCCCcCccc
Q 027651 102 MHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKR----------------------DKYCCPICSKSVID 154 (220)
Q Consensus 102 ~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~----------------------~~~~CPiCrksi~d 154 (220)
-...|.|||-- |.+.....+-+|-|+||..||..+|.. ..--||||+-.|.+
T Consensus 114 p~gqCvICLyg-fa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 114 PNGQCVICLYG-FASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCceEEEEEe-ecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 35689999988 555556788899999999999888761 11349999988874
No 72
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=92.81 E-value=0.044 Score=44.99 Aligned_cols=36 Identities=14% Similarity=0.418 Sum_probs=31.3
Q ss_pred CCCCccchhhccccCCceEEccCC------CccChHHHHHHhc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCG------HTMHCECYHEMIK 139 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCG------H~~H~~C~~~~l~ 139 (220)
..+|.||++.+-+ ...++.+++| |.||..|+..|-+
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 4689999999877 6789999997 9999999999943
No 73
>PHA02862 5L protein; Provisional
Probab=92.59 E-value=0.059 Score=44.96 Aligned_cols=57 Identities=21% Similarity=0.427 Sum_probs=39.1
Q ss_pred CCCCCccchhhccccCCceEEccC-----CCccChHHHHHHhcC-CCCCCCCCCcCccchhHHHHHHHH
Q 027651 102 MHHHCPICYEYLFDSLRNTTVMKC-----GHTMHCECYHEMIKR-DKYCCPICSKSVIDMSRTWKRIDE 164 (220)
Q Consensus 102 ~~~~CPICle~lf~s~~~v~~LpC-----GH~~H~~C~~~~l~~-~~~~CPiCrksi~dm~~~~~~lD~ 164 (220)
|...|=||.+. - ++. .-|| --..|++|+.+|+.. ++..||+|+..+. +...|+.+.+
T Consensus 1 ~~diCWIC~~~-~--~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~-Ik~~yKpf~k 63 (156)
T PHA02862 1 MSDICWICNDV-C--DER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN-IKKTYVSFKK 63 (156)
T ss_pred CCCEEEEecCc-C--CCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE-EEEccccHHH
Confidence 35678899986 2 222 2455 278999999999975 3578999999986 3444444433
No 74
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=92.58 E-value=0.095 Score=42.64 Aligned_cols=38 Identities=18% Similarity=0.435 Sum_probs=28.2
Q ss_pred eeEEEccCCCCcceee-------------eeE------eeecCCCCCCccccccCCC
Q 027651 179 KVWILCNDCNDTTEVY-------------FHI------IGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 179 ~v~I~CnDC~~~s~~~-------------~H~------lg~kC~~C~SyNT~~~~~~ 216 (220)
.....|++||...... +|+ ...+||.|||++.+.++|.
T Consensus 68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G~ 124 (135)
T PRK03824 68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIVKGR 124 (135)
T ss_pred ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEecCc
Confidence 3678999999766543 222 3368999999999988763
No 75
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.43 E-value=0.11 Score=49.31 Aligned_cols=47 Identities=21% Similarity=0.555 Sum_probs=40.3
Q ss_pred CCccchhhccccCCceEEccCCCccChHHHHHHhcCCC--CCCCCCCcCc
Q 027651 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDK--YCCPICSKSV 152 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~--~~CPiCrksi 152 (220)
.|||=-|. .+...|++.|.|||++-+.-++.+.+++. ++||.|-...
T Consensus 336 ~CPVlKeq-tsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 336 ICPVLKEQ-TSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ecccchhh-ccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 69998876 66667899999999999999999998877 8999997543
No 76
>PF04641 Rtf2: Rtf2 RING-finger
Probab=92.24 E-value=0.12 Score=46.07 Aligned_cols=50 Identities=18% Similarity=0.459 Sum_probs=40.2
Q ss_pred CCCCCCccchhhccccCCceEEc-cCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVM-KCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~L-pCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
...-.|||-...| ++....++| ||||+|=..++.+.- ....||+|.+++.
T Consensus 111 ~~~~~CPvt~~~~-~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEF-NGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCccc-CCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccc
Confidence 4456799999996 444566666 999999999999983 3568999999986
No 77
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.18 E-value=0.084 Score=45.69 Aligned_cols=36 Identities=28% Similarity=0.668 Sum_probs=28.8
Q ss_pred EEccCCCccChHHHHHHhcCC-----C-----CCCCCCCcCcc-chh
Q 027651 121 TVMKCGHTMHCECYHEMIKRD-----K-----YCCPICSKSVI-DMS 156 (220)
Q Consensus 121 ~~LpCGH~~H~~C~~~~l~~~-----~-----~~CPiCrksi~-dm~ 156 (220)
.-..||-.||.-|+.+||+.- + ..||.|++++. .|+
T Consensus 186 dN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS 232 (234)
T KOG3268|consen 186 DNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS 232 (234)
T ss_pred cccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence 446899999999999999831 1 57999999986 454
No 78
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=92.03 E-value=0.099 Score=41.27 Aligned_cols=37 Identities=27% Similarity=0.529 Sum_probs=28.2
Q ss_pred CeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCCC
Q 027651 178 KKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 178 ~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~~ 216 (220)
....+.|++|+........ ...||.|||++...++|.
T Consensus 67 vp~~~~C~~Cg~~~~~~~~--~~~CP~Cgs~~~~i~~G~ 103 (113)
T PRK12380 67 KPAQAWCWDCSQVVEIHQH--DAQCPHCHGERLRVDTGD 103 (113)
T ss_pred eCcEEEcccCCCEEecCCc--CccCcCCCCCCcEEccCC
Confidence 3457899999987766422 235999999999998764
No 79
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=91.81 E-value=0.13 Score=48.73 Aligned_cols=50 Identities=26% Similarity=0.664 Sum_probs=40.7
Q ss_pred CCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccch
Q 027651 102 MHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDM 155 (220)
Q Consensus 102 ~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm 155 (220)
.+..||+|...+- +++....|||.|...|+.+|+.. +..||.|+..+..-
T Consensus 20 ~~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 20 ENLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQA 69 (391)
T ss_pred ccccCcccccccc---CCCCCCCCCCcccccccchhhcc-CcCCcccccccchh
Confidence 3567999998753 34545799999999999999985 89999998888743
No 80
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=91.75 E-value=0.12 Score=40.95 Aligned_cols=37 Identities=16% Similarity=0.458 Sum_probs=28.1
Q ss_pred eeEEEccCCCCcceeeeeEeeecCCCCCCccccccCCC
Q 027651 179 KVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 179 ~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~~ 216 (220)
.+...|++|+.......+.+ ..||.|||++++.++|.
T Consensus 68 p~~~~C~~Cg~~~~~~~~~~-~~CP~Cgs~~~~i~~G~ 104 (114)
T PRK03681 68 EAECWCETCQQYVTLLTQRV-RRCPQCHGDMLRIVADD 104 (114)
T ss_pred CcEEEcccCCCeeecCCccC-CcCcCcCCCCcEEccCC
Confidence 45789999998766543321 46999999999998864
No 81
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.48 E-value=0.025 Score=51.98 Aligned_cols=59 Identities=25% Similarity=0.644 Sum_probs=39.6
Q ss_pred cCcceeecCCC---CCCCccchhhccccCCceEEccCCCcc-ChHHHHHHhcCCCCCCCCCCcCccchhHHH
Q 027651 92 RNNHLCIENSM---HHHCPICYEYLFDSLRNTTVMKCGHTM-HCECYHEMIKRDKYCCPICSKSVIDMSRTW 159 (220)
Q Consensus 92 ~~~H~CiE~s~---~~~CPICle~lf~s~~~v~~LpCGH~~-H~~C~~~~l~~~~~~CPiCrksi~dm~~~~ 159 (220)
++.|.+.-..+ +..|.||++- ..+..+|+|||.. ..+|-..+ ..|||||+-|...-.+|
T Consensus 286 k~~~g~~~~~s~~~~~LC~ICmDa----P~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~rvvrif 348 (350)
T KOG4275|consen 286 KGNDGEQHSRSLATRRLCAICMDA----PRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIVRVVRIF 348 (350)
T ss_pred hcccccccccchhHHHHHHHHhcC----CcceEEeecCcEEeehhhcccc-----ccCchHHHHHHHHHhhh
Confidence 34555544333 7789999975 4678899999975 33343222 48999998887654444
No 82
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=90.73 E-value=0.086 Score=41.51 Aligned_cols=37 Identities=22% Similarity=0.306 Sum_probs=25.7
Q ss_pred CeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCCC
Q 027651 178 KKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 178 ~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~~ 216 (220)
..+...|++|+..+.+..+. ..||.|+|++.+.++|.
T Consensus 67 ~p~~~~C~~Cg~~~~~~~~~--~~CP~Cgs~~~~i~~G~ 103 (113)
T PF01155_consen 67 VPARARCRDCGHEFEPDEFD--FSCPRCGSPDVEIISGR 103 (113)
T ss_dssp E--EEEETTTS-EEECHHCC--HH-SSSSSS-EEEEESS
T ss_pred cCCcEECCCCCCEEecCCCC--CCCcCCcCCCcEEccCC
Confidence 34578999999988766554 57999999998888763
No 83
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.49 E-value=0.14 Score=48.06 Aligned_cols=47 Identities=21% Similarity=0.531 Sum_probs=34.7
Q ss_pred cCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 99 ENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 99 E~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
|.+...+|.||++. + ...+.+||||+-- |..-... ..+||+||.+|.
T Consensus 301 ~~~~p~lcVVcl~e-~---~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDE-P---KSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCC-c---cceeeecCCcEEE--chHHHhh--CCCCchhHHHHH
Confidence 45667899999997 2 3478899999955 5544432 467999998775
No 84
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.46 E-value=0.18 Score=52.03 Aligned_cols=43 Identities=26% Similarity=0.567 Sum_probs=33.6
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
+.|..|--.| +-|.+-..|||.||..|+. . +...||-|.-.+.
T Consensus 841 skCs~C~~~L---dlP~VhF~CgHsyHqhC~e---~-~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 841 SKCSACEGTL---DLPFVHFLCGHSYHQHCLE---D-KEDKCPKCLPELR 883 (933)
T ss_pred eeecccCCcc---ccceeeeecccHHHHHhhc---c-CcccCCccchhhh
Confidence 3677887665 3477788999999999998 3 5689999998443
No 85
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.33 E-value=0.17 Score=46.57 Aligned_cols=67 Identities=24% Similarity=0.438 Sum_probs=48.0
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchhHHHHHHHHHHHhcCCChhh
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRIDEEIEATVMPEDY 175 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y 175 (220)
..|-||.++ |. ..++..|||+|...|...-++ ...+|+||.+.+-.....-..|...+...++-.||
T Consensus 242 f~c~icr~~-f~---~pVvt~c~h~fc~~ca~~~~q-k~~~c~vC~~~t~g~~~~akeL~~~L~~kks~~E~ 308 (313)
T KOG1813|consen 242 FKCFICRKY-FY---RPVVTKCGHYFCEVCALKPYQ-KGEKCYVCSQQTHGSFNVAKELLVSLKLKKSDSEY 308 (313)
T ss_pred ccccccccc-cc---cchhhcCCceeehhhhccccc-cCCcceecccccccccchHHHHHHHHHhhhhhccc
Confidence 459999998 44 356779999999999988877 45899999998864333223555555555544443
No 86
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=90.22 E-value=0.23 Score=41.97 Aligned_cols=48 Identities=29% Similarity=0.546 Sum_probs=34.9
Q ss_pred CCCCCCccchhhccccCCceEEccC--CC---ccChHHHHHHhcCC-CCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKC--GH---TMHCECYHEMIKRD-KYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpC--GH---~~H~~C~~~~l~~~-~~~CPiCrksi~ 153 (220)
.++..|=||.++- + .. .-|| .. ..|++|++.|+..+ ..+||+|+..+.
T Consensus 6 ~~~~~CRIC~~~~-~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEY-D--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCC-C--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 3466899998872 1 11 2465 34 67999999999753 578999999885
No 87
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=89.92 E-value=0.073 Score=49.43 Aligned_cols=50 Identities=28% Similarity=0.663 Sum_probs=41.3
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
.....|++|..+|-+.+ .+.-|=|+|.++|+-.+|.. ...||+|...+..
T Consensus 13 n~~itC~LC~GYliDAT---TI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDAT---TITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHK 62 (331)
T ss_pred ccceehhhccceeecch---hHHHHHHHHHHHHHHHHHHH-hccCCccceeccC
Confidence 34568999999986643 35679999999999999995 7899999998874
No 88
>PF12773 DZR: Double zinc ribbon
Probab=89.73 E-value=0.37 Score=31.98 Aligned_cols=22 Identities=36% Similarity=0.970 Sum_probs=17.1
Q ss_pred eCCCCCCCcc-cccccccCcccc
Q 027651 21 CSVCDTEQPV-AQVCTNCGVNMG 42 (220)
Q Consensus 21 C~~C~~~q~~-~~~C~~Cg~~~a 42 (220)
|..|+++.+. +..|.+||+.+.
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~ 23 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLP 23 (50)
T ss_pred CCCcCCcCCccccCChhhcCChh
Confidence 5678877554 678999999887
No 89
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.62 E-value=0.34 Score=43.85 Aligned_cols=56 Identities=25% Similarity=0.475 Sum_probs=46.1
Q ss_pred ecCCCCCCCccchhhccccCCceEEc-cCCCccChHHHHHHhcCCCCCCCCCCcCccch
Q 027651 98 IENSMHHHCPICYEYLFDSLRNTTVM-KCGHTMHCECYHEMIKRDKYCCPICSKSVIDM 155 (220)
Q Consensus 98 iE~s~~~~CPICle~lf~s~~~v~~L-pCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm 155 (220)
+-.+....|||+.+.|.. ..+..+| ||||++-..|+..+++ ..--+|++.+.+-+.
T Consensus 216 ~a~s~ryiCpvtrd~LtN-t~~ca~Lr~sg~Vv~~ecvEklir-~D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 216 IAASKRYICPVTRDTLTN-TTPCAVLRPSGHVVTKECVEKLIR-KDMVDPVTDKPLKDR 272 (303)
T ss_pred hhhccceecccchhhhcC-ccceEEeccCCcEeeHHHHHHhcc-ccccccCCCCcCccc
Confidence 334456789999999766 4566666 9999999999999998 578999999999864
No 90
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.61 E-value=0.17 Score=48.53 Aligned_cols=47 Identities=19% Similarity=0.383 Sum_probs=37.5
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhcC-------CCCCCCCCCc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKR-------DKYCCPICSK 150 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~-------~~~~CPiCrk 150 (220)
--.|-||++. +........|||+|+|.+.|+..++.. +..+||-++-
T Consensus 184 lf~C~ICf~e-~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 184 LFDCCICFEE-QMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred cccceeeehh-hcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 4589999997 665567888999999999999998762 2478987653
No 91
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.51 E-value=0.43 Score=45.56 Aligned_cols=49 Identities=24% Similarity=0.747 Sum_probs=39.7
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
..+-.|-||+.-|. +++.+||||+|-..|++.-+. ...-||+||..+..
T Consensus 82 ~sef~c~vc~~~l~----~pv~tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALY----PPVVTPCGHSFCLECLDRSLD-QETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcC----CCccccccccccHHHHHHHhc-cCCCCccccccccc
Confidence 45668999988653 355669999999999999776 56889999999984
No 92
>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=89.37 E-value=0.064 Score=39.47 Aligned_cols=65 Identities=26% Similarity=0.498 Sum_probs=38.2
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchhHHHHHHHHHHHhcCCChhhhcCeeEEE
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRIDEEIEATVMPEDYRHKKVWIL 183 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~ 183 (220)
..||.|..+|.... ||+....|-..+.. ...||-|..++....+ -+ -++++
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~~~~--~a~CPdC~~~Le~LkA------------------CG-AvdYF 52 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKDYKK--EAFCPDCGQPLEVLKA------------------CG-AVDYF 52 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--EEEE--EEE-TTT-SB-EEEEE------------------TT-EEEEE
T ss_pred CcCCCCCCccEEeC--------CEEECcccccccee--cccCCCcccHHHHHHH------------------hc-cccee
Confidence 47999999875432 67777778877765 4789999988875322 12 37899
Q ss_pred ccCCCC---cceeeeeE
Q 027651 184 CNDCND---TTEVYFHI 197 (220)
Q Consensus 184 CnDC~~---~s~~~~H~ 197 (220)
||.|++ |+.|.|.+
T Consensus 53 C~~c~gLiSKkrV~f~~ 69 (70)
T PF07191_consen 53 CNHCHGLISKKRVRFEF 69 (70)
T ss_dssp -TTTT-EE-TTTSEEEE
T ss_pred eccCCceeecceEEEEe
Confidence 999995 55666654
No 93
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=88.38 E-value=0.52 Score=39.83 Aligned_cols=33 Identities=30% Similarity=0.712 Sum_probs=23.0
Q ss_pred CCCCccchhhccccCCceEEccCC-------------CccChHHHHHHhc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCG-------------HTMHCECYHEMIK 139 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCG-------------H~~H~~C~~~~l~ 139 (220)
+..||||||.= -..+.|.|. =.-|+.||+++-+
T Consensus 2 d~~CpICme~P----HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHP----HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCC----CceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 45799999962 235556652 2459999999865
No 94
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=88.24 E-value=0.16 Score=50.23 Aligned_cols=53 Identities=21% Similarity=0.487 Sum_probs=43.1
Q ss_pred eecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhc----CCCCCCCCCCcCcc
Q 027651 97 CIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIK----RDKYCCPICSKSVI 153 (220)
Q Consensus 97 CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~----~~~~~CPiCrksi~ 153 (220)
=+|+..+..|-+|-++- ++.....|.|.|.+.|+.+++. +.+.+||+|.+.+.
T Consensus 530 ~~enk~~~~C~lc~d~a----ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 530 PDENKGEVECGLCHDPA----EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred CccccCceeecccCChh----hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 35777788999999882 3566779999999999988875 34689999998875
No 95
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=87.89 E-value=0.35 Score=38.74 Aligned_cols=38 Identities=21% Similarity=0.300 Sum_probs=26.9
Q ss_pred CeeEEEccCCCCcceee-e---eE-eeecCCCCCCccccccCCC
Q 027651 178 KKVWILCNDCNDTTEVY-F---HI-IGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 178 ~~v~I~CnDC~~~s~~~-~---H~-lg~kC~~C~SyNT~~~~~~ 216 (220)
......| +|+..+... + |+ ....||.|||++.+.++|.
T Consensus 67 vp~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G~ 109 (124)
T PRK00762 67 IPVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHILGGR 109 (124)
T ss_pred cCeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEecCC
Confidence 3467899 999875432 1 11 2357999999999988763
No 96
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=86.97 E-value=0.38 Score=42.36 Aligned_cols=57 Identities=19% Similarity=0.479 Sum_probs=41.3
Q ss_pred CCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchhHHHHHHHHHH
Q 027651 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRIDEEI 166 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~~~~~lD~~i 166 (220)
.|-||-++ +. .+++..|||.|...|+-.-.+ ...+|-+|.+..--.-.+-..||.++
T Consensus 198 ~C~iCKkd-y~---spvvt~CGH~FC~~Cai~~y~-kg~~C~~Cgk~t~G~f~V~~d~~kmL 254 (259)
T COG5152 198 LCGICKKD-YE---SPVVTECGHSFCSLCAIRKYQ-KGDECGVCGKATYGRFWVVSDLQKML 254 (259)
T ss_pred eehhchhh-cc---chhhhhcchhHHHHHHHHHhc-cCCcceecchhhccceeHHhhHHHHH
Confidence 79999998 44 355778999999999977666 35799999987754322224555544
No 97
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=86.97 E-value=0.41 Score=49.18 Aligned_cols=41 Identities=27% Similarity=0.580 Sum_probs=30.0
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCC
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPI 147 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPi 147 (220)
..|.||--.+.. ....-..|||.+|..|+.+|++. .-.||.
T Consensus 1029 ~~C~~C~l~V~g--ss~~Cg~C~Hv~H~sc~~eWf~~-gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVRG--SSNFCGTCGHVGHTSCMMEWFRT-GDVCPS 1069 (1081)
T ss_pred eeeeeEeeEeec--cchhhccccccccHHHHHHHHhc-CCcCCC
Confidence 348888654332 34455689999999999999995 457884
No 98
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=86.80 E-value=0.51 Score=37.85 Aligned_cols=38 Identities=26% Similarity=0.390 Sum_probs=30.1
Q ss_pred cCeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCCC
Q 027651 177 HKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 177 ~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~~ 216 (220)
...+.+.|.||+......-|.+. ||.|+|-|.++++|.
T Consensus 66 ~~p~~~~C~~C~~~~~~e~~~~~--CP~C~s~~~~i~~G~ 103 (115)
T COG0375 66 EEPAECWCLDCGQEVELEELDYR--CPKCGSINLRIIGGD 103 (115)
T ss_pred EeccEEEeccCCCeecchhheeE--CCCCCCCceEEecCC
Confidence 44568999999887766555554 999999999998874
No 99
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=86.15 E-value=0.33 Score=50.14 Aligned_cols=53 Identities=23% Similarity=0.516 Sum_probs=39.1
Q ss_pred CCCCCccchhhccccCCceEE-ccCCCccChHHHHHHhcC------CCCCCCCCCcCccch
Q 027651 102 MHHHCPICYEYLFDSLRNTTV-MKCGHTMHCECYHEMIKR------DKYCCPICSKSVIDM 155 (220)
Q Consensus 102 ~~~~CPICle~lf~s~~~v~~-LpCGH~~H~~C~~~~l~~------~~~~CPiCrksi~dm 155 (220)
...+|.||.|.+..+ .++.. -.|=|+||..||.+|.+. ...+||-|..+...+
T Consensus 190 ~~yeCmIC~e~I~~t-~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~ 249 (950)
T KOG1952|consen 190 RKYECMICTERIKRT-APVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTV 249 (950)
T ss_pred CceEEEEeeeecccc-CCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccC
Confidence 345899999997654 33333 367899999999999864 247899999555543
No 100
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.09 E-value=0.37 Score=45.67 Aligned_cols=50 Identities=30% Similarity=0.628 Sum_probs=41.1
Q ss_pred CCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 100 NSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 100 ~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
.+.+..||||... ....+.-||||--...|+.+.+. +...|=.|+.++.+
T Consensus 419 ~sEd~lCpICyA~----pi~Avf~PC~H~SC~~CI~qHlm-N~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAG----PINAVFAPCSHRSCYGCITQHLM-NCKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceecc----cchhhccCCCCchHHHHHHHHHh-cCCeeeEecceeee
Confidence 4667889999864 23455669999999999999998 56899999999986
No 101
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=85.47 E-value=0.96 Score=30.27 Aligned_cols=36 Identities=19% Similarity=0.369 Sum_probs=25.2
Q ss_pred EEEccCCCCcceeeeeE---eeecCCCCCCccc-cccCCC
Q 027651 181 WILCNDCNDTTEVYFHI---IGQKCSHCKSYNT-RSIAPP 216 (220)
Q Consensus 181 ~I~CnDC~~~s~~~~H~---lg~kC~~C~SyNT-~~~~~~ 216 (220)
...|++|+...++-..+ -...|+.|||-+. |++++|
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~~s~~ 44 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRLLSAV 44 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEEeccc
Confidence 46799999877654322 1247999999886 666655
No 102
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=84.97 E-value=0.86 Score=31.94 Aligned_cols=37 Identities=22% Similarity=0.528 Sum_probs=28.1
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHH
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEM 137 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~ 137 (220)
-+...|++|.+.|.+.++-|+-.-||=.+|+.|.+..
T Consensus 3 ~~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 3 YEGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred ccCccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 3467899999997665544444579999999998654
No 103
>PRK04023 DNA polymerase II large subunit; Validated
Probab=84.09 E-value=0.87 Score=48.12 Aligned_cols=30 Identities=30% Similarity=0.737 Sum_probs=14.6
Q ss_pred EEeCCCCCCCcccccccccCcc-cceecCCcc
Q 027651 19 VICSVCDTEQPVAQVCTNCGVN-MGEYFCDIC 49 (220)
Q Consensus 19 i~C~~C~~~q~~~~~C~~Cg~~-~a~yfC~~C 49 (220)
-+|..|+++. +...|.+||.. ..-|||+.|
T Consensus 627 RfCpsCG~~t-~~frCP~CG~~Te~i~fCP~C 657 (1121)
T PRK04023 627 RKCPSCGKET-FYRRCPFCGTHTEPVYRCPRC 657 (1121)
T ss_pred ccCCCCCCcC-CcccCCCCCCCCCcceeCccc
Confidence 3555555553 44455555542 333444444
No 104
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=83.36 E-value=0.74 Score=32.96 Aligned_cols=44 Identities=32% Similarity=0.854 Sum_probs=30.8
Q ss_pred EEeCCCCCCCc-----ccccccccCcccceecCCccccccCCCCCCcccCCCCCc
Q 027651 19 VICSVCDTEQP-----VAQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 19 i~C~~C~~~q~-----~~~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
..|..|+.+-. +.-.|.|||..+ =|-|.+|+.+.+ +|-|++||+
T Consensus 10 ~~CtSCg~~i~p~e~~v~F~CPnCGe~~-I~Rc~~CRk~g~-----~Y~Cp~CGF 58 (61)
T COG2888 10 PVCTSCGREIAPGETAVKFPCPNCGEVE-IYRCAKCRKLGN-----PYRCPKCGF 58 (61)
T ss_pred ceeccCCCEeccCCceeEeeCCCCCcee-eehhhhHHHcCC-----ceECCCcCc
Confidence 47888877653 345688888543 366888887744 688988885
No 105
>PF14353 CpXC: CpXC protein
Probab=83.21 E-value=0.22 Score=39.45 Aligned_cols=56 Identities=13% Similarity=0.374 Sum_probs=34.5
Q ss_pred CCCCCCCcCccchhHHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeee
Q 027651 143 YCCPICSKSVIDMSRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQ 200 (220)
Q Consensus 143 ~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~ 200 (220)
.+||.|++++.- ..|..+|......-...-..+..-.+.|..||.+..+.+=+|++
T Consensus 2 itCP~C~~~~~~--~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 2 ITCPHCGHEFEF--EVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred cCCCCCCCeeEE--EEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEE
Confidence 689999998862 24544442111111122235556689999999998777666664
No 106
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.81 E-value=0.63 Score=48.32 Aligned_cols=43 Identities=21% Similarity=0.382 Sum_probs=32.5
Q ss_pred ceeecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhc
Q 027651 95 HLCIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIK 139 (220)
Q Consensus 95 H~CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~ 139 (220)
+.+.--.-...|-+|.-+|+. ++-.+.||||.||+.|+..-..
T Consensus 809 ~ry~v~ep~d~C~~C~~~ll~--~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 809 QRYRVLEPQDSCDHCGRPLLI--KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cceEEecCccchHHhcchhhc--CcceeeeccchHHHHHHHHHHH
Confidence 334333345689999998765 4677789999999999988765
No 107
>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=82.56 E-value=0.39 Score=43.41 Aligned_cols=50 Identities=24% Similarity=0.586 Sum_probs=40.8
Q ss_pred CCCCccchhhccccCCceEEc--c-CCCccChHHHHHHhcCCCCCCC--CCCcCcc
Q 027651 103 HHHCPICYEYLFDSLRNTTVM--K-CGHTMHCECYHEMIKRDKYCCP--ICSKSVI 153 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~L--p-CGH~~H~~C~~~~l~~~~~~CP--iCrksi~ 153 (220)
+..||||..+.+-+.+ +++| | |=|-|.++|++..+..+.-.|| -|.|.+.
T Consensus 10 d~~CPvCksDrYLnPd-ik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPD-IKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCC-eEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 4579999988776654 4444 6 9999999999999998888999 7887665
No 108
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=81.46 E-value=0.96 Score=29.86 Aligned_cols=25 Identities=24% Similarity=0.858 Sum_probs=15.7
Q ss_pred cCCCccChHHHHHHhcCCCC-CCCCC
Q 027651 124 KCGHTMHCECYHEMIKRDKY-CCPIC 148 (220)
Q Consensus 124 pCGH~~H~~C~~~~l~~~~~-~CPiC 148 (220)
.|+=.+|..|++.++++... +||.|
T Consensus 18 ~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 18 DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 47778999999999985433 69987
No 109
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=80.24 E-value=0.73 Score=31.68 Aligned_cols=31 Identities=32% Similarity=0.780 Sum_probs=22.6
Q ss_pred EccCC-CccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 122 VMKCG-HTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 122 ~LpCG-H~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
.+.|. |++...|+..++. .+..||||.+++-
T Consensus 15 Li~C~dHYLCl~CLt~ml~-~s~~C~iC~~~LP 46 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLS-RSDRCPICGKPLP 46 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-S-SSSEETTTTEE--
T ss_pred eeeecchhHHHHHHHHHhc-cccCCCcccCcCc
Confidence 45785 9999999999998 5689999998764
No 110
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=80.19 E-value=0.27 Score=47.33 Aligned_cols=71 Identities=27% Similarity=0.775 Sum_probs=41.1
Q ss_pred CCCccc--CCCCCccccCC-ccceeecCC---cCccccccccCcceeecCCCCCCCccchhhccccCCceEEc-cCCCcc
Q 027651 57 EKGQFH--CDDCGICRIGG-RENYFHCKR---CGSCYSTSLRNNHLCIENSMHHHCPICYEYLFDSLRNTTVM-KCGHTM 129 (220)
Q Consensus 57 ~k~~yH--C~~CgiCR~G~-~~~~fHC~~---C~~C~s~~l~~~H~CiE~s~~~~CPICle~lf~s~~~v~~L-pCGH~~ 129 (220)
.+++|| |=.|+.||.-. +..|+-=+. |--||..+| ..|-.|.+.+.+ ++| .+|-+|
T Consensus 294 m~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tl------------ekC~~Cg~~I~d-----~iLrA~Gkay 356 (468)
T KOG1701|consen 294 MDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTL------------EKCNKCGEPIMD-----RILRALGKAY 356 (468)
T ss_pred hhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHH------------HHHhhhhhHHHH-----HHHHhccccc
Confidence 567888 66778887765 344443321 333443332 357777776533 133 577777
Q ss_pred ChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 130 HCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 130 H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
|-.|| +|=+|.+.+.
T Consensus 357 Hp~CF---------~Cv~C~r~ld 371 (468)
T KOG1701|consen 357 HPGCF---------TCVVCARCLD 371 (468)
T ss_pred CCCce---------EEEEeccccC
Confidence 77665 5666666665
No 111
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.14 E-value=0.64 Score=47.04 Aligned_cols=42 Identities=24% Similarity=0.613 Sum_probs=35.7
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCC
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICS 149 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCr 149 (220)
.+|+||+..+|.++-..+.|.|||++..+|+.... +.+|| |.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly---n~scp-~~ 53 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY---NASCP-TK 53 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh---hccCC-CC
Confidence 47999998888888888999999999999998764 46888 54
No 112
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=79.66 E-value=0.83 Score=26.91 Aligned_cols=24 Identities=38% Similarity=1.063 Sum_probs=17.6
Q ss_pred eEEeCCCCCC-CcccccccccCccc
Q 027651 18 QVICSVCDTE-QPVAQVCTNCGVNM 41 (220)
Q Consensus 18 ~i~C~~C~~~-q~~~~~C~~Cg~~~ 41 (220)
++.|..|+++ .+-+..|.+||..+
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred cCCCcccCCcCCcccccChhhCCCC
Confidence 4678888886 45567799888753
No 113
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=79.37 E-value=1.6 Score=40.69 Aligned_cols=53 Identities=30% Similarity=0.498 Sum_probs=40.6
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVID 154 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~d 154 (220)
+-...||||.+++...+....--|||+-++..|+..... ++.+||.|++.+..
T Consensus 247 ~v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~-~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 247 SVPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD-GDGRCPGCRKPYER 299 (327)
T ss_pred ccCCCCCCCCCcccccccccccccccccchhhhhhcccc-cCCCCCccCCcccc
Confidence 345789999999744434444447899999999988877 57999999988763
No 114
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=79.14 E-value=1.7 Score=41.31 Aligned_cols=66 Identities=17% Similarity=0.350 Sum_probs=43.8
Q ss_pred CccccccccCcceeecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHhc-CCCCCCCCCCcCcc
Q 027651 84 GSCYSTSLRNNHLCIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIK-RDKYCCPICSKSVI 153 (220)
Q Consensus 84 ~~C~s~~l~~~H~CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~-~~~~~CPiCrksi~ 153 (220)
+.|....+-++-.=.......+|-||.+.+ +.+.++||||-+.-.|.-.... .....||+|+..-.
T Consensus 42 nlsaEPnlttsSaddtDEen~~C~ICA~~~----TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 42 NLSAEPNLTTSSADDTDEENMNCQICAGST----TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccCCccccccccccccccceeEEecCCc----eEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 344444444443333344567899999975 3466889999999999865422 13568999997643
No 115
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=77.67 E-value=2.1 Score=28.19 Aligned_cols=35 Identities=17% Similarity=0.197 Sum_probs=24.1
Q ss_pred eEEEccCCCCcceeeeeEeeecCCCCCCccccccC
Q 027651 180 VWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIA 214 (220)
Q Consensus 180 v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~ 214 (220)
..+.|.+||+.....-.....+|+.||+.-....+
T Consensus 2 ~~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~~~~ 36 (46)
T PRK00398 2 AEYKCARCGREVELDEYGTGVRCPYCGYRILFKER 36 (46)
T ss_pred CEEECCCCCCEEEECCCCCceECCCCCCeEEEccC
Confidence 35789999986654434336899999986654433
No 116
>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=77.40 E-value=1.7 Score=32.05 Aligned_cols=44 Identities=27% Similarity=0.714 Sum_probs=26.3
Q ss_pred CccccccccceEEeCCCCCCCcccccccccCccc--------ceecCCccccc
Q 027651 8 RHELVRQDVKQVICSVCDTEQPVAQVCTNCGVNM--------GEYFCDICKFY 52 (220)
Q Consensus 8 ~H~l~R~~v~~i~C~~C~~~q~~~~~C~~Cg~~~--------a~yfC~~C~l~ 52 (220)
..+|++.. ....|..|+..-.....|..||..+ +.|||..|+=+
T Consensus 8 ~~~L~~~~-~~~~C~~C~~~~~~~a~CPdC~~~Le~LkACGAvdYFC~~c~gL 59 (70)
T PF07191_consen 8 QQELEWQG-GHYHCEACQKDYKKEAFCPDCGQPLEVLKACGAVDYFCNHCHGL 59 (70)
T ss_dssp -SBEEEET-TEEEETTT--EEEEEEE-TTT-SB-EEEEETTEEEEE-TTTT-E
T ss_pred CCccEEeC-CEEECccccccceecccCCCcccHHHHHHHhcccceeeccCCce
Confidence 34566666 7778888888777777888776653 57888887644
No 117
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=76.39 E-value=1.6 Score=34.44 Aligned_cols=25 Identities=44% Similarity=1.101 Sum_probs=18.4
Q ss_pred ccccccCcccceecCCccccccCCCCCCcccCCCCCc
Q 027651 32 QVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 32 ~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
.+|.+||+ ||||- +|.+-.|++||.
T Consensus 10 R~Cp~CG~----------kFYDL--nk~PivCP~CG~ 34 (108)
T PF09538_consen 10 RTCPSCGA----------KFYDL--NKDPIVCPKCGT 34 (108)
T ss_pred ccCCCCcc----------hhccC--CCCCccCCCCCC
Confidence 56777777 45754 678888998885
No 118
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=75.07 E-value=2.5 Score=39.60 Aligned_cols=44 Identities=23% Similarity=0.631 Sum_probs=36.8
Q ss_pred CCccchhhccccCCceEEccCCCccChHHHHHHhcCC--CCCCCCCC
Q 027651 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRD--KYCCPICS 149 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~--~~~CPiCr 149 (220)
.|||=-|. -+...++..|.|||++-.+-++..-+++ .++||.|-
T Consensus 338 iCPVlKe~-~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 338 ICPVLKEL-CTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eccccHhh-hcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 68887775 6666788999999999999999987765 48899996
No 119
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=74.75 E-value=1.9 Score=26.01 Aligned_cols=37 Identities=24% Similarity=0.499 Sum_probs=23.0
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
|+.|.+.+..... .+..=|..||..|+ +|..|++++.
T Consensus 2 C~~C~~~i~~~~~--~~~~~~~~~H~~Cf---------~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGEL--VLRALGKVWHPECF---------KCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcE--EEEeCCccccccCC---------CCcccCCcCc
Confidence 7778887655312 22222678887664 7778887764
No 120
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=74.63 E-value=3.2 Score=44.96 Aligned_cols=36 Identities=31% Similarity=0.707 Sum_probs=21.9
Q ss_pred ccceEEeCCCCCCCcccccccccCccc-ceecCCcccc
Q 027651 15 DVKQVICSVCDTEQPVAQVCTNCGVNM-GEYFCDICKF 51 (220)
Q Consensus 15 ~v~~i~C~~C~~~q~~~~~C~~Cg~~~-a~yfC~~C~l 51 (220)
.|...+|..|+++-+. ..|.+||... ..|+|..|..
T Consensus 664 EV~~rkCPkCG~~t~~-~fCP~CGs~te~vy~CPsCGa 700 (1337)
T PRK14714 664 EVGRRRCPSCGTETYE-NRCPDCGTHTEPVYVCPDCGA 700 (1337)
T ss_pred EEEEEECCCCCCcccc-ccCcccCCcCCCceeCccCCC
Confidence 3445677777776543 4777777654 3455666655
No 121
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=74.51 E-value=2.6 Score=24.95 Aligned_cols=21 Identities=24% Similarity=0.539 Sum_probs=15.3
Q ss_pred CCCCCCCcCccchhHHHHHHHH
Q 027651 143 YCCPICSKSVIDMSRTWKRIDE 164 (220)
Q Consensus 143 ~~CPiCrksi~dm~~~~~~lD~ 164 (220)
..||||.+.+ .+....+.||.
T Consensus 2 v~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHHH
Confidence 4799999998 55555667773
No 122
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=72.57 E-value=3.5 Score=42.43 Aligned_cols=69 Identities=20% Similarity=0.417 Sum_probs=43.5
Q ss_pred CcccCCCCCccccCCccceeecCCcCccccccccCcceeecCCCCCCCccchhhccccCCceEEccCCCccChHHHHHHh
Q 027651 59 GQFHCDDCGICRIGGRENYFHCKRCGSCYSTSLRNNHLCIENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMI 138 (220)
Q Consensus 59 ~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s~~l~~~H~CiE~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l 138 (220)
-+|-|+.|+-=-++++. --|++|-.+-+ ..|.+|-..+-. ..+.---|||..|..++.+|+
T Consensus 752 i~~~~~nc~a~~~~~~~--~~c~rc~s~a~---------------~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~ 812 (839)
T KOG0269|consen 752 IHYACPNCDAPMVLTKL--WQCDRCESRAS---------------AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWF 812 (839)
T ss_pred eeccccccCCccccccc--eeechHHHHhh---------------cCceeecceeee--eEeecccccccccHHHHHHHH
Confidence 46777777655555443 33444433322 358888766432 223334699999999999999
Q ss_pred cCCCCCCCC
Q 027651 139 KRDKYCCPI 147 (220)
Q Consensus 139 ~~~~~~CPi 147 (220)
. ....||.
T Consensus 813 ~-~~s~ca~ 820 (839)
T KOG0269|consen 813 F-KASPCAK 820 (839)
T ss_pred h-cCCCCcc
Confidence 8 4566765
No 123
>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=72.48 E-value=2.9 Score=28.32 Aligned_cols=41 Identities=27% Similarity=0.830 Sum_probs=19.6
Q ss_pred CCccchhhccccCCceEEccCCCccChHHHH--HHhc----CCCCCCCCCCcC
Q 027651 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYH--EMIK----RDKYCCPICSKS 151 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCGH~~H~~C~~--~~l~----~~~~~CPiCrks 151 (220)
.|||-...|. .+++-..|.|. .||| .||. ....+||+|+++
T Consensus 4 ~CPls~~~i~---~P~Rg~~C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIR---IPVRGKNCKHL---QCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-S---SEEEETT--SS-----EEHHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEE---eCccCCcCccc---ceECHHHHHHHhhccCCeECcCCcCc
Confidence 5888887753 47888899977 4654 3544 345789999874
No 124
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=71.98 E-value=2.9 Score=42.36 Aligned_cols=47 Identities=30% Similarity=0.779 Sum_probs=31.3
Q ss_pred EEeCCCCCCCcc-cccccccCcccceecCCccccccCCCCCCcccCCCCCc
Q 027651 19 VICSVCDTEQPV-AQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 19 i~C~~C~~~q~~-~~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
++|..|+.+-+. +..|.+||..+..-.|..|.---. .+.-.|+.||-
T Consensus 2 ~~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~CG~~~~---~~~~fC~~CG~ 49 (645)
T PRK14559 2 LICPQCQFENPNNNRFCQKCGTSLTHKPCPQCGTEVP---VDEAHCPNCGA 49 (645)
T ss_pred CcCCCCCCcCCCCCccccccCCCCCCCcCCCCCCCCC---cccccccccCC
Confidence 579999998655 567999999987666666654322 22235555553
No 125
>PRK04023 DNA polymerase II large subunit; Validated
Probab=71.93 E-value=3.3 Score=43.97 Aligned_cols=51 Identities=24% Similarity=0.522 Sum_probs=37.6
Q ss_pred cccccccccCcccceecCCccccccCCCCCCcccCCCCCccccCCccceeecCCcCcccc
Q 027651 29 PVAQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRCGSCYS 88 (220)
Q Consensus 29 ~~~~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s 88 (220)
.....|.+||......+|+.|.-. ...+|.|+.||.-..+ ..|.+||.=.+
T Consensus 624 Vg~RfCpsCG~~t~~frCP~CG~~----Te~i~fCP~CG~~~~~-----y~CPKCG~El~ 674 (1121)
T PRK04023 624 IGRRKCPSCGKETFYRRCPFCGTH----TEPVYRCPRCGIEVEE-----DECEKCGREPT 674 (1121)
T ss_pred ccCccCCCCCCcCCcccCCCCCCC----CCcceeCccccCcCCC-----CcCCCCCCCCC
Confidence 345679999999888899999654 5688999999665433 44888876444
No 126
>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=71.11 E-value=2.7 Score=22.58 Aligned_cols=19 Identities=37% Similarity=0.732 Sum_probs=12.6
Q ss_pred CCCCCCCcCccchhHHHHH
Q 027651 143 YCCPICSKSVIDMSRTWKR 161 (220)
Q Consensus 143 ~~CPiCrksi~dm~~~~~~ 161 (220)
+.||+|++++.+....+.-
T Consensus 1 ~~C~~C~~~~~~~~~l~~H 19 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQH 19 (24)
T ss_dssp EE-SSTS-EESSHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHH
Confidence 4799999999987665543
No 127
>PLN03086 PRLI-interacting factor K; Provisional
Probab=71.04 E-value=2.2 Score=42.58 Aligned_cols=86 Identities=27% Similarity=0.625 Sum_probs=49.3
Q ss_pred ccccceEEeCCCCCCCccc-------------ccccc--cCcccceecCCccccccCCCCCCcccCCCCCccccCCcc--
Q 027651 13 RQDVKQVICSVCDTEQPVA-------------QVCTN--CGVNMGEYFCDICKFYDDDIEKGQFHCDDCGICRIGGRE-- 75 (220)
Q Consensus 13 R~~v~~i~C~~C~~~q~~~-------------~~C~~--Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~-- 75 (220)
-..+..+.|..|....+.. ..|.+ ||..|.+ ..-+..+||+.||- .++..+
T Consensus 402 s~~~~~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r-----------~el~~H~~C~~Cgk-~f~~s~Le 469 (567)
T PLN03086 402 SMDVDTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRV-----------EEAKNHVHCEKCGQ-AFQQGEME 469 (567)
T ss_pred cCCCCeEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeec-----------cccccCccCCCCCC-ccchHHHH
Confidence 3567789999998877654 22432 6665522 22345678888875 333211
Q ss_pred -------ceeecCCcCccccccccCcce---eecCCCCCCCccchhhc
Q 027651 76 -------NYFHCKRCGSCYSTSLRNNHL---CIENSMHHHCPICYEYL 113 (220)
Q Consensus 76 -------~~fHC~~C~~C~s~~l~~~H~---CiE~s~~~~CPICle~l 113 (220)
.-+-|. ||.-+.......|. |.++ ...|+.|...+
T Consensus 470 kH~~~~Hkpv~Cp-Cg~~~~R~~L~~H~~thCp~K--pi~C~fC~~~v 514 (567)
T PLN03086 470 KHMKVFHEPLQCP-CGVVLEKEQMVQHQASTCPLR--LITCRFCGDMV 514 (567)
T ss_pred HHHHhcCCCccCC-CCCCcchhHHHhhhhccCCCC--ceeCCCCCCcc
Confidence 123466 76555444455664 4332 35788887653
No 128
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.05 E-value=0.36 Score=46.13 Aligned_cols=50 Identities=22% Similarity=0.436 Sum_probs=43.0
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
-..+.||.+.|...-+....+.|||..|..++.+||.. ..++|.|+..+.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhh
Confidence 34789999988765566788999999999999999994 789999999886
No 129
>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 COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=69.39 E-value=3.3 Score=38.69 Aligned_cols=44 Identities=32% Similarity=0.710 Sum_probs=35.8
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSK 150 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrk 150 (220)
..||.|..-|- .+++.--|||.|...|+..-|....+.||.|..
T Consensus 275 LkCplc~~Llr---np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLR---NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhh---CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 57999988653 456665689999999999877667899999987
No 131
>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=69.30 E-value=2.6 Score=41.08 Aligned_cols=58 Identities=28% Similarity=0.643 Sum_probs=30.0
Q ss_pred ecCCccccccCCCCCCcccCCCCCccccCCccceeecCCcCccccccc--cCcceeecCCCCCCCccchhhcccc
Q 027651 44 YFCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRCGSCYSTSL--RNNHLCIENSMHHHCPICYEYLFDS 116 (220)
Q Consensus 44 yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s~~l--~~~H~CiE~s~~~~CPICle~lf~s 116 (220)
|||..|.-. .|+.|-....+ .+=|..|-.=++.+. .++.+|..+- -+||+|.-.|...
T Consensus 6 ~fC~~C~~i------------rc~~c~~~Ei~-~~yCp~CL~~~p~~e~~~~~nrC~r~C--f~CP~C~~~L~~~ 65 (483)
T PF05502_consen 6 YFCEHCHKI------------RCPRCVSEEID-SYYCPNCLFEVPSSEARSEKNRCSRNC--FDCPICFSPLSVR 65 (483)
T ss_pred eeccccccc------------CChhhcccccc-eeECccccccCChhhheeccceecccc--ccCCCCCCcceeE
Confidence 788888655 12233333222 333555544444332 2456665332 3688888777543
No 132
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=69.26 E-value=3.5 Score=27.44 Aligned_cols=27 Identities=19% Similarity=0.516 Sum_probs=18.9
Q ss_pred EEEccCCCCcceeeeeEeeecCCCCCCc
Q 027651 181 WILCNDCNDTTEVYFHIIGQKCSHCKSY 208 (220)
Q Consensus 181 ~I~CnDC~~~s~~~~H~lg~kC~~C~Sy 208 (220)
...|.+||...+.. ---+.+|+.||+.
T Consensus 2 ~Y~C~~Cg~~~~~~-~~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIK-SKDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecC-CCCceECCCCCce
Confidence 46788898866554 2355789988873
No 133
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=68.26 E-value=4.5 Score=24.46 Aligned_cols=20 Identities=30% Similarity=0.853 Sum_probs=14.0
Q ss_pred CCCccccCCccc-eeecCCcC
Q 027651 65 DCGICRIGGREN-YFHCKRCG 84 (220)
Q Consensus 65 ~CgiCR~G~~~~-~fHC~~C~ 84 (220)
.|++|+.-.... +++|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC
Confidence 467776655444 88888887
No 134
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=66.71 E-value=4.5 Score=27.83 Aligned_cols=29 Identities=24% Similarity=0.491 Sum_probs=23.1
Q ss_pred eeEEEccCCCCcceeeeeEeeecCCCCCC
Q 027651 179 KVWILCNDCNDTTEVYFHIIGQKCSHCKS 207 (220)
Q Consensus 179 ~v~I~CnDC~~~s~~~~H~lg~kC~~C~S 207 (220)
+..+.|.+|++.-+...---|.+|+.|||
T Consensus 4 ~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~ 32 (49)
T COG1996 4 MMEYKCARCGREVELDQETRGIRCPYCGS 32 (49)
T ss_pred eEEEEhhhcCCeeehhhccCceeCCCCCc
Confidence 45688999998876555667889999987
No 135
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=66.23 E-value=3.3 Score=23.86 Aligned_cols=21 Identities=38% Similarity=0.999 Sum_probs=14.6
Q ss_pred eCCCCCC-CcccccccccCccc
Q 027651 21 CSVCDTE-QPVAQVCTNCGVNM 41 (220)
Q Consensus 21 C~~C~~~-q~~~~~C~~Cg~~~ 41 (220)
|..|+.+ .+.++.|.+||..+
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCCCcCcchhhhCCcC
Confidence 6777665 55567788888753
No 136
>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=65.70 E-value=4.1 Score=28.59 Aligned_cols=28 Identities=29% Similarity=0.746 Sum_probs=18.1
Q ss_pred ccccccccCcccceecCCccccccCCCCCCcccCCCCCc
Q 027651 30 VAQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 30 ~~~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
-++.|..||....+ ......|.|+.||.
T Consensus 27 TSq~C~~CG~~~~~-----------~~~~r~~~C~~Cg~ 54 (69)
T PF07282_consen 27 TSQTCPRCGHRNKK-----------RRSGRVFTCPNCGF 54 (69)
T ss_pred CccCccCccccccc-----------ccccceEEcCCCCC
Confidence 46778888776655 23456677777664
No 137
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.64 E-value=2.5 Score=36.26 Aligned_cols=31 Identities=23% Similarity=0.301 Sum_probs=24.4
Q ss_pred CCCCCCCccchhhccccCCceEEccCCCccCh
Q 027651 100 NSMHHHCPICYEYLFDSLRNTTVMKCGHTMHC 131 (220)
Q Consensus 100 ~s~~~~CPICle~lf~s~~~v~~LpCGH~~H~ 131 (220)
.....+|.||||+|.. .+.+..|||==++|+
T Consensus 174 ~ddkGECvICLEdL~~-GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEA-GDTIARLPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccC-CCceeccceEEEeec
Confidence 3457899999999865 467888999777775
No 138
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=63.57 E-value=3.6 Score=41.83 Aligned_cols=45 Identities=31% Similarity=0.855 Sum_probs=36.0
Q ss_pred CCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCC-CCCCCCcCcc
Q 027651 104 HHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKY-CCPICSKSVI 153 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~-~CPiCrksi~ 153 (220)
..|+||++ .+...+-+|||.|-..|+.+.+..... .||+|+..+.
T Consensus 455 ~~c~ic~~-----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc-----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 78999999 245677799999999999998875444 4999995543
No 139
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=63.49 E-value=7.8 Score=29.22 Aligned_cols=53 Identities=19% Similarity=0.368 Sum_probs=24.8
Q ss_pred CCCCCCccchhhccccCCceEE---ccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTV---MKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~---LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
.....|-||.+++-...+.-.+ .-|+-.+.+.|++.-.+.++..||-|+..+-
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 3456799999986443332222 3689999999999888888899999997665
No 140
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=63.25 E-value=7.1 Score=27.40 Aligned_cols=29 Identities=24% Similarity=0.688 Sum_probs=22.6
Q ss_pred eEEEccCCCCcceeeeeEeeecCCCCCCcccccc
Q 027651 180 VWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSI 213 (220)
Q Consensus 180 v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~ 213 (220)
..+.|..||.. ..-| +-|+.||.|+-+++
T Consensus 26 ~l~~C~~CG~~--~~~H---~vC~~CG~Y~gr~v 54 (57)
T PRK12286 26 GLVECPNCGEP--KLPH---RVCPSCGYYKGREV 54 (57)
T ss_pred cceECCCCCCc--cCCe---EECCCCCcCCCEEe
Confidence 45789999974 4446 45999999999886
No 141
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=63.16 E-value=5.2 Score=34.03 Aligned_cols=50 Identities=24% Similarity=0.365 Sum_probs=35.7
Q ss_pred CCCCCCCCcCccchhHHHHHHHHHHHhcCCC-hhhhcCeeEEEccCCCCcceeeeeEe
Q 027651 142 KYCCPICSKSVIDMSRTWKRIDEEIEATVMP-EDYRHKKVWILCNDCNDTTEVYFHII 198 (220)
Q Consensus 142 ~~~CPiCrksi~dm~~~~~~lD~~i~~~pmP-~~y~~~~v~I~CnDC~~~s~~~~H~l 198 (220)
-.+||.|+.++...+. +.....+| ..|.+......|.-|++.-+..-||=
T Consensus 97 ~~RCp~CN~~L~~vs~-------eev~~~Vp~~~~~~~~~f~~C~~CgkiYW~GsHw~ 147 (165)
T COG1656 97 FSRCPECNGELEKVSR-------EEVKEKVPEKVYRNYEEFYRCPKCGKIYWKGSHWR 147 (165)
T ss_pred cccCcccCCEeccCcH-------HHHhhccchhhhhcccceeECCCCcccccCchHHH
Confidence 4789999999886543 23333444 44777777888999999887777763
No 142
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=61.87 E-value=4 Score=39.93 Aligned_cols=33 Identities=18% Similarity=0.773 Sum_probs=27.7
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIK 139 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~ 139 (220)
+..||||... |. ++++|||||.+.+.|....+.
T Consensus 4 elkc~vc~~f-~~---epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 4 ELKCPVCGSF-YR---EPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccCceehhh-cc---CceEeecccHHHHHHHHhhcc
Confidence 4679999986 43 578999999999999988765
No 143
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=60.46 E-value=6.7 Score=38.79 Aligned_cols=56 Identities=23% Similarity=0.297 Sum_probs=25.4
Q ss_pred chhHHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCC
Q 027651 154 DMSRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAP 215 (220)
Q Consensus 154 dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~ 215 (220)
+.++.+..++.......+|-.--+. ..-.|++||....- +-+||.|||-|+.++++
T Consensus 465 n~~al~~lv~~~~~~~~i~Y~~in~-~~~~C~~CG~~~~~-----~~~CP~CGs~~~~~~~R 520 (546)
T PF13597_consen 465 NPEALEKLVRYAMENTGIPYFTINP-PIDICPDCGYIGGE-----GDKCPKCGSENIEVYSR 520 (546)
T ss_dssp -HHHHHHHHHHHHH--H-SEEEEE---EEEETTT---S-------EEE-CCC----EEEEB-
T ss_pred CHHHHHHHHHHHHHhCCCCeEEEec-CcccccCCCcCCCC-----CCCCCCCCCcccceEEE
Confidence 4455555666655545555332222 35679999987653 56899999999888765
No 144
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=60.38 E-value=10 Score=23.69 Aligned_cols=27 Identities=33% Similarity=0.587 Sum_probs=17.9
Q ss_pred EEEccCCCCcceeeeeE---eeecCCCCCC
Q 027651 181 WILCNDCNDTTEVYFHI---IGQKCSHCKS 207 (220)
Q Consensus 181 ~I~CnDC~~~s~~~~H~---lg~kC~~C~S 207 (220)
...|.+||...++..-+ ....|+.||+
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EEEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 45788888866544322 2467888988
No 145
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.10 E-value=4.3 Score=38.46 Aligned_cols=37 Identities=27% Similarity=0.608 Sum_probs=27.1
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIK 139 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~ 139 (220)
...|+||..+.........++.|||.|...|..+++.
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 5689999933333322233678999999999999887
No 146
>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=59.71 E-value=10 Score=25.65 Aligned_cols=19 Identities=26% Similarity=0.602 Sum_probs=11.5
Q ss_pred CCCCCCCCcCccchhHHHHH
Q 027651 142 KYCCPICSKSVIDMSRTWKR 161 (220)
Q Consensus 142 ~~~CPiCrksi~dm~~~~~~ 161 (220)
.|+||.|++ -.+..+.++-
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H 20 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEH 20 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHH
Confidence 477888888 4554444443
No 147
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.55 E-value=3.4 Score=37.70 Aligned_cols=52 Identities=25% Similarity=0.558 Sum_probs=36.5
Q ss_pred CCCCCCCccchhhccccCCce--EEccC-----CCccChHHHHHHhcCC-------CCCCCCCCcCcc
Q 027651 100 NSMHHHCPICYEYLFDSLRNT--TVMKC-----GHTMHCECYHEMIKRD-------KYCCPICSKSVI 153 (220)
Q Consensus 100 ~s~~~~CPICle~lf~s~~~v--~~LpC-----GH~~H~~C~~~~l~~~-------~~~CPiCrksi~ 153 (220)
...+.-|=||++. +++... -+=|| -|..|.+|+..|+... .-+||.|+..+.
T Consensus 17 ~e~eR~CWiCF~T--deDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 17 QELERCCWICFAT--DEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred cccceeEEEEecc--CcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 3446679999875 222222 23366 3999999999999742 257999999886
No 148
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.44 E-value=3.2 Score=42.87 Aligned_cols=45 Identities=33% Similarity=0.626 Sum_probs=31.7
Q ss_pred CCCCccchhhccccC---CceEEccCCCccChHHHHHHhcCCCCCCCCCC
Q 027651 103 HHHCPICYEYLFDSL---RNTTVMKCGHTMHCECYHEMIKRDKYCCPICS 149 (220)
Q Consensus 103 ~~~CPICle~lf~s~---~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCr 149 (220)
++.|..|.++.-.+. ..++++.|||.||+.|+.....++ +|-+|.
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~--~~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN--ACNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc--ccChhh
Confidence 346777777765444 568899999999999997665433 255554
No 149
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=59.36 E-value=3.6 Score=36.37 Aligned_cols=51 Identities=24% Similarity=0.374 Sum_probs=38.3
Q ss_pred CCCCccchhhccccCCceEEccC-----CCccChHHHHHHhcC-CCCCCCCCCcCcc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKC-----GHTMHCECYHEMIKR-DKYCCPICSKSVI 153 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpC-----GH~~H~~C~~~~l~~-~~~~CPiCrksi~ 153 (220)
+..|=||.++.+.+.......|| ....|+.|++.|+.. ++..|.+|...+.
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 46799999986654332345577 288899999999973 4688999998765
No 150
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=58.94 E-value=5.9 Score=27.25 Aligned_cols=28 Identities=36% Similarity=0.667 Sum_probs=20.3
Q ss_pred cceecCCcc-ccccCCCCCCcccCCCCCc
Q 027651 41 MGEYFCDIC-KFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 41 ~a~yfC~~C-~l~dd~~~k~~yHC~~Cgi 68 (220)
+..|-|..| +.++.+....-.-|++||.
T Consensus 4 ~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~ 32 (49)
T COG1996 4 MMEYKCARCGREVELDQETRGIRCPYCGS 32 (49)
T ss_pred eEEEEhhhcCCeeehhhccCceeCCCCCc
Confidence 456777777 4556566778889999985
No 151
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=58.35 E-value=8.8 Score=41.76 Aligned_cols=34 Identities=29% Similarity=0.703 Sum_probs=24.3
Q ss_pred cccccccCcccceecCCccccccCCCCCCcccCCCCCc
Q 027651 31 AQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 31 ~~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
...|.+||...-..||+.|.-. .+.+|+|+.||.
T Consensus 667 ~rkCPkCG~~t~~~fCP~CGs~----te~vy~CPsCGa 700 (1337)
T PRK14714 667 RRRCPSCGTETYENRCPDCGTH----TEPVYVCPDCGA 700 (1337)
T ss_pred EEECCCCCCccccccCcccCCc----CCCceeCccCCC
Confidence 3679999986666688888644 235678877776
No 152
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=58.17 E-value=5 Score=43.60 Aligned_cols=53 Identities=30% Similarity=0.636 Sum_probs=42.2
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchhH
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSR 157 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~ 157 (220)
+....|+||++-|-. .-.+..|||.+-..|+..|+. .+..||+|....+|...
T Consensus 1151 ~~~~~c~ic~dil~~---~~~I~~cgh~~c~~c~~~~l~-~~s~~~~~ksi~~dfg~ 1203 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRN---QGGIAGCGHEPCCRCDELWLY-ASSRCPICKSIKGDFGT 1203 (1394)
T ss_pred hcccchHHHHHHHHh---cCCeeeechhHhhhHHHHHHH-HhccCcchhhhhhhhcc
Confidence 445589999998743 233558999999999999998 57999999988876443
No 153
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=57.62 E-value=11 Score=24.55 Aligned_cols=32 Identities=28% Similarity=0.491 Sum_probs=21.3
Q ss_pred EEEccCCCCcceeeeeE---eeecCCCCCCccccc
Q 027651 181 WILCNDCNDTTEVYFHI---IGQKCSHCKSYNTRS 212 (220)
Q Consensus 181 ~I~CnDC~~~s~~~~H~---lg~kC~~C~SyNT~~ 212 (220)
...|.+||...++-..+ ....|+.||+-+.++
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r 39 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISEDDPVPCPECGSTEVRR 39 (42)
T ss_pred EEEeCCCCCEEEEEEEcCCCCCCcCCCCCCCceEE
Confidence 36788999776544333 346899999955543
No 154
>PHA03096 p28-like protein; Provisional
Probab=56.62 E-value=6.6 Score=35.95 Aligned_cols=47 Identities=17% Similarity=0.328 Sum_probs=32.1
Q ss_pred CCCccchhhccccC---CceEEc-cCCCccChHHHHHHhcCC--CCCCCCCCc
Q 027651 104 HHCPICYEYLFDSL---RNTTVM-KCGHTMHCECYHEMIKRD--KYCCPICSK 150 (220)
Q Consensus 104 ~~CPICle~lf~s~---~~v~~L-pCGH~~H~~C~~~~l~~~--~~~CPiCrk 150 (220)
-.|.||+|...... ..-..| .|-|.|...|+..|.... ..+||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 57999999865431 122345 799999999999998642 244555553
No 155
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=56.52 E-value=15 Score=33.68 Aligned_cols=111 Identities=24% Similarity=0.521 Sum_probs=66.2
Q ss_pred CcccceecCCcc-ccccCCC---CCCcccCCCCCccccCCccceeecCCcCcccccc-cc----CcceeecCCCCCCCcc
Q 027651 38 GVNMGEYFCDIC-KFYDDDI---EKGQFHCDDCGICRIGGRENYFHCKRCGSCYSTS-LR----NNHLCIENSMHHHCPI 108 (220)
Q Consensus 38 g~~~a~yfC~~C-~l~dd~~---~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s~~-l~----~~H~CiE~s~~~~CPI 108 (220)
.+.-++|-|..| |-|.... .-+|+||+- .-...|.|..||-=|..- .. .+|. ..-.|+|
T Consensus 125 ~~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~-------~s~ka~~C~~C~K~YvSmpALkMHirTH~-----l~c~C~i 192 (279)
T KOG2462|consen 125 AAKHPRYKCPECGKSYSTSSNLSRHKQTHRSL-------DSKKAFSCKYCGKVYVSMPALKMHIRTHT-----LPCECGI 192 (279)
T ss_pred cccCCceeccccccccccccccchhhcccccc-------cccccccCCCCCceeeehHHHhhHhhccC-----CCccccc
Confidence 345567778888 6664432 237777743 124577888888766531 11 2333 3456888
Q ss_pred chhhccccCCceEEccCCCccChHHHHHHhcCC---------CCCCCCCCcCccchhHHHHHHHHHHHhcCCChhhhcCe
Q 027651 109 CYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRD---------KYCCPICSKSVIDMSRTWKRIDEEIEATVMPEDYRHKK 179 (220)
Q Consensus 109 Cle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~---------~~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y~~~~ 179 (220)
|... |+- .||..+ -|.||.|+|.+.|.+. |.+-++.. .+.+
T Consensus 193 CGKa-FSR-------------------PWLLQGHiRTHTGEKPF~C~hC~kAFADRSN----LRAHmQTH------S~~K 242 (279)
T KOG2462|consen 193 CGKA-FSR-------------------PWLLQGHIRTHTGEKPFSCPHCGKAFADRSN----LRAHMQTH------SDVK 242 (279)
T ss_pred cccc-ccc-------------------hHHhhcccccccCCCCccCCcccchhcchHH----HHHHHHhh------cCCc
Confidence 8876 541 366532 3899999999999764 33333322 2343
Q ss_pred eEEEccCCCCcc
Q 027651 180 VWILCNDCNDTT 191 (220)
Q Consensus 180 v~I~CnDC~~~s 191 (220)
..-|--|+++.
T Consensus 243 -~~qC~~C~KsF 253 (279)
T KOG2462|consen 243 -KHQCPRCGKSF 253 (279)
T ss_pred -cccCcchhhHH
Confidence 56687888654
No 156
>cd01675 RNR_III Class III ribonucleotide reductase. Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and bacteriophage, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in strict or facultative anaerobic bacteria, bacteriophage, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). The class III enzyme from phage T4 consists of two subunits, this model covers the larger subunit w
Probab=56.32 E-value=8.8 Score=38.01 Aligned_cols=56 Identities=21% Similarity=0.310 Sum_probs=35.7
Q ss_pred chhHHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCC
Q 027651 154 DMSRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAP 215 (220)
Q Consensus 154 dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~ 215 (220)
+-++.+..++.......++-. -++.+. .|++||.... -++.+||.|||-|+.++++
T Consensus 493 n~~al~~lv~~a~~~~~~y~~-~~~p~~-~C~~CG~~~~----~~~~~CP~CGs~~~~~~~R 548 (555)
T cd01675 493 NPEALEALVKKAAKRGVIYFG-INTPID-ICNDCGYIGE----GEGFKCPKCGSEDVEVISR 548 (555)
T ss_pred CHHHHHHHHHHHHHcCCceEE-EecCCc-cCCCCCCCCc----CCCCCCcCCCCcCceEEEe
Confidence 344555555555444344433 344455 9999997553 3458999999998777654
No 157
>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=55.68 E-value=9.2 Score=23.58 Aligned_cols=25 Identities=32% Similarity=0.894 Sum_probs=17.4
Q ss_pred eecCCccccccCCCCCCcccCCCCCc
Q 027651 43 EYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 43 ~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
.|-|.+|-+.=+ +.+.++.|+.||.
T Consensus 1 ~~~C~~CGy~y~-~~~~~~~CP~Cg~ 25 (33)
T cd00350 1 KYVCPVCGYIYD-GEEAPWVCPVCGA 25 (33)
T ss_pred CEECCCCCCEEC-CCcCCCcCcCCCC
Confidence 367888866533 3458888988875
No 158
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=54.90 E-value=9.4 Score=26.04 Aligned_cols=24 Identities=29% Similarity=0.844 Sum_probs=11.6
Q ss_pred cCCCCCccccCCccceeecCCcCc
Q 027651 62 HCDDCGICRIGGRENYFHCKRCGS 85 (220)
Q Consensus 62 HC~~CgiCR~G~~~~~fHC~~C~~ 85 (220)
.||.||---+...++.++|.+||.
T Consensus 22 fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 22 FCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred cCcCCCcchheccCCcEECCCcCC
Confidence 455555432222345566666653
No 159
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=54.67 E-value=15 Score=34.18 Aligned_cols=28 Identities=29% Similarity=0.841 Sum_probs=20.7
Q ss_pred eEEEccCCCCcceeeeeEeeecCCCCCCcccccc
Q 027651 180 VWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSI 213 (220)
Q Consensus 180 v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~ 213 (220)
-...|+-|+ ..+|+.-.||++||+ +..+
T Consensus 211 RyL~CslC~----teW~~~R~~C~~Cg~--~~~l 238 (309)
T PRK03564 211 RYLHCNLCE----SEWHVVRVKCSNCEQ--SGKL 238 (309)
T ss_pred eEEEcCCCC----CcccccCccCCCCCC--CCce
Confidence 468888888 567788888888884 5443
No 160
>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=54.43 E-value=7.4 Score=21.29 Aligned_cols=15 Identities=53% Similarity=1.006 Sum_probs=11.7
Q ss_pred CCCCCCCcCccchhH
Q 027651 143 YCCPICSKSVIDMSR 157 (220)
Q Consensus 143 ~~CPiCrksi~dm~~ 157 (220)
|+||+|++++.+.+.
T Consensus 1 y~C~~C~~~f~~~~~ 15 (23)
T PF00096_consen 1 YKCPICGKSFSSKSN 15 (23)
T ss_dssp EEETTTTEEESSHHH
T ss_pred CCCCCCCCccCCHHH
Confidence 579999999987543
No 161
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=54.32 E-value=6.8 Score=32.37 Aligned_cols=18 Identities=22% Similarity=0.374 Sum_probs=15.6
Q ss_pred eecCCCCCCccccccCCC
Q 027651 199 GQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 199 g~kC~~C~SyNT~~~~~~ 216 (220)
...|+.|||-||++++..
T Consensus 105 ~~~cp~c~s~~t~~~s~f 122 (146)
T TIGR02159 105 SVQCPRCGSADTTITSIF 122 (146)
T ss_pred CCcCCCCCCCCcEeecCC
Confidence 369999999999999854
No 162
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=53.71 E-value=6.5 Score=28.39 Aligned_cols=14 Identities=36% Similarity=0.648 Sum_probs=12.4
Q ss_pred eecCCCCCCccccc
Q 027651 199 GQKCSHCKSYNTRS 212 (220)
Q Consensus 199 g~kC~~C~SyNT~~ 212 (220)
.++|+.|.|.||+.
T Consensus 5 ~~~CPRC~S~nTKF 18 (63)
T PF02701_consen 5 PLPCPRCDSTNTKF 18 (63)
T ss_pred CCCCCCcCCCCCEE
Confidence 36999999999986
No 163
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=53.52 E-value=6.4 Score=24.12 Aligned_cols=19 Identities=32% Similarity=0.883 Sum_probs=11.1
Q ss_pred ccccccCcccceecCCcccc
Q 027651 32 QVCTNCGVNMGEYFCDICKF 51 (220)
Q Consensus 32 ~~C~~Cg~~~a~yfC~~C~l 51 (220)
..|.-||. .|+|-|+.|.+
T Consensus 3 ~~C~vC~~-~~kY~Cp~C~~ 21 (30)
T PF04438_consen 3 KLCSVCGN-PAKYRCPRCGA 21 (30)
T ss_dssp EEETSSSS-EESEE-TTT--
T ss_pred CCCccCcC-CCEEECCCcCC
Confidence 34666777 77777777754
No 164
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=53.34 E-value=8 Score=34.69 Aligned_cols=45 Identities=27% Similarity=0.719 Sum_probs=27.9
Q ss_pred CcccceecCCccccccCCCCCCcccCCCCCccccCCccceeecCCcCcccc
Q 027651 38 GVNMGEYFCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRCGSCYS 88 (220)
Q Consensus 38 g~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s 88 (220)
|....-.||+.|+++ ..+...||.-||.|-.+ -=-||.==|.|+-
T Consensus 108 ~~~~~~~~C~~C~~~---rPpRs~HCsvC~~CV~r---fDHHC~WvnnCVG 152 (299)
T KOG1311|consen 108 GIQVEWKYCDTCQLY---RPPRSSHCSVCNNCVLR---FDHHCPWLNNCIG 152 (299)
T ss_pred CcccceEEcCcCccc---CCCCcccchhhcccccc---cCCCCCCccceEC
Confidence 344556899999998 34566677777777554 1135555555554
No 165
>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=52.41 E-value=13 Score=24.45 Aligned_cols=21 Identities=33% Similarity=0.800 Sum_probs=11.8
Q ss_pred ccCCCCCccccCCccceeecCCcC
Q 027651 61 FHCDDCGICRIGGRENYFHCKRCG 84 (220)
Q Consensus 61 yHC~~CgiCR~G~~~~~fHC~~C~ 84 (220)
|.|+.|+. -+- ...|||.+|.
T Consensus 1 ~~C~~C~~-~i~--g~r~~C~~C~ 21 (46)
T cd02249 1 YSCDGCLK-PIV--GVRYHCLVCE 21 (46)
T ss_pred CCCcCCCC-CCc--CCEEECCCCC
Confidence 45666666 222 2577776654
No 166
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=52.08 E-value=21 Score=33.85 Aligned_cols=53 Identities=25% Similarity=0.523 Sum_probs=43.5
Q ss_pred CCCCCCCcCccchhHHHHHHHHHHHhcCCChhhhcCeeEEEc--cCCCCcceeeeeEee
Q 027651 143 YCCPICSKSVIDMSRTWKRIDEEIEATVMPEDYRHKKVWILC--NDCNDTTEVYFHIIG 199 (220)
Q Consensus 143 ~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~C--nDC~~~s~~~~H~lg 199 (220)
.+||.|++...|.-..-..+|+.+...++| -+....=| |.|+......+=+.|
T Consensus 269 isCPgCgR~~~D~~~la~~vee~~~~~~~P----lkIAVmGC~VNgpGEa~~aDIGIaG 323 (360)
T PRK00366 269 ISCPTCGRTEFDVIQELAEVEQRLEHIKMP----LKVAVMGCVVNGPGEAKEADIGIAG 323 (360)
T ss_pred EECCCCCCCcccHHHHHHHHHHHhcCCCCC----cEEEEeCCCCCCCCchhhCcEeEec
Confidence 689999999999888888999999999998 45567779 999987776655554
No 167
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=51.61 E-value=12 Score=25.94 Aligned_cols=29 Identities=24% Similarity=0.752 Sum_probs=22.3
Q ss_pred eEEEccCCCCcceeeeeEeeecCCCCCCcccccc
Q 027651 180 VWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSI 213 (220)
Q Consensus 180 v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~ 213 (220)
..+.|..||+. ...| +-|+.||.|+-+++
T Consensus 25 ~l~~C~~cG~~--~~~H---~vc~~cG~Y~gr~v 53 (55)
T TIGR01031 25 TLVVCPNCGEF--KLPH---RVCPSCGYYKGRQV 53 (55)
T ss_pred cceECCCCCCc--ccCe---eECCccCeECCEEc
Confidence 45789999973 4456 45999999998875
No 168
>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=51.58 E-value=9.4 Score=22.85 Aligned_cols=20 Identities=20% Similarity=0.667 Sum_probs=6.9
Q ss_pred CCccccCCcc-ceeecCCcCc
Q 027651 66 CGICRIGGRE-NYFHCKRCGS 85 (220)
Q Consensus 66 CgiCR~G~~~-~~fHC~~C~~ 85 (220)
|.+|+..+.. .+++|..|+.
T Consensus 3 C~~C~~~~~~~~~Y~C~~Cdf 23 (30)
T PF07649_consen 3 CDACGKPIDGGWFYRCSECDF 23 (30)
T ss_dssp -TTTS----S--EEE-TTT--
T ss_pred CCcCCCcCCCCceEECccCCC
Confidence 4555554433 6777777764
No 169
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 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 DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=50.26 E-value=12 Score=30.25 Aligned_cols=48 Identities=25% Similarity=0.562 Sum_probs=35.0
Q ss_pred cCcccceecCCccccccCCCCCCcccCCCCCccccCCccceeecCCcCcccccc
Q 027651 37 CGVNMGEYFCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRCGSCYSTS 90 (220)
Q Consensus 37 Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s~~ 90 (220)
.+......+|.+|+.+- ..+.+||..||.|-.+ --.||.-=|.|+...
T Consensus 42 ~~~~~~~~~C~~C~~~k---p~Rs~HC~~C~~CV~~---~DHHC~w~~~cIG~~ 89 (174)
T PF01529_consen 42 DDENGELKYCSTCKIIK---PPRSHHCRVCNRCVLR---FDHHCPWLGNCIGRR 89 (174)
T ss_pred cccCCCCEECcccCCcC---CCcceecccccccccc---ccccchhhccccccc
Confidence 55778888999999883 2357788888888776 234777777777643
No 170
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=49.99 E-value=8.2 Score=30.42 Aligned_cols=14 Identities=29% Similarity=0.821 Sum_probs=7.1
Q ss_pred CcccccccccCccc
Q 027651 28 QPVAQVCTNCGVNM 41 (220)
Q Consensus 28 q~~~~~C~~Cg~~~ 41 (220)
.|+...|.+||..|
T Consensus 67 ~p~~~~C~~Cg~~~ 80 (115)
T TIGR00100 67 EPVECECEDCSEEV 80 (115)
T ss_pred eCcEEEcccCCCEE
Confidence 34445555555444
No 171
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=49.78 E-value=14 Score=33.91 Aligned_cols=107 Identities=24% Similarity=0.437 Sum_probs=67.5
Q ss_pred cccccccCcccceec---------CCccccccCCCCCCcccCCCCCccccCCc---------cceeecCCcCcccccc-c
Q 027651 31 AQVCTNCGVNMGEYF---------CDICKFYDDDIEKGQFHCDDCGICRIGGR---------ENYFHCKRCGSCYSTS-L 91 (220)
Q Consensus 31 ~~~C~~Cg~~~a~yf---------C~~C~l~dd~~~k~~yHC~~CgiCR~G~~---------~~~fHC~~C~~C~s~~-l 91 (220)
--.|..||+..+.+- |+. .+++.|.|..||.=-|..+ .--+-|..||-=.|.- |
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~-------~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWL 202 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSL-------DSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWL 202 (279)
T ss_pred ceeccccccccccccccchhhcccccc-------cccccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHH
Confidence 345777888877765 332 2489999999998766421 3366788888877753 4
Q ss_pred cCcceeecCCC-CCCCccchhhccccCCceEEccCCCccChHHHHHHhc----CCCCCCCCCCcCccchhHHH
Q 027651 92 RNNHLCIENSM-HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIK----RDKYCCPICSKSVIDMSRTW 159 (220)
Q Consensus 92 ~~~H~CiE~s~-~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~----~~~~~CPiCrksi~dm~~~~ 159 (220)
...|.=---.. --.||.|.-- |..+.. +...++ ..+|+|+.|.|++.-|+-.-
T Consensus 203 LQGHiRTHTGEKPF~C~hC~kA-FADRSN--------------LRAHmQTHS~~K~~qC~~C~KsFsl~SyLn 260 (279)
T KOG2462|consen 203 LQGHIRTHTGEKPFSCPHCGKA-FADRSN--------------LRAHMQTHSDVKKHQCPRCGKSFALKSYLN 260 (279)
T ss_pred hhcccccccCCCCccCCcccch-hcchHH--------------HHHHHHhhcCCccccCcchhhHHHHHHHHH
Confidence 44444322111 2369999887 443332 222222 24699999999999887543
No 172
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=49.71 E-value=10 Score=31.07 Aligned_cols=26 Identities=31% Similarity=0.594 Sum_probs=18.5
Q ss_pred ccccccCcccceecCCccccccCCCCCCcccCCCCCcc
Q 027651 32 QVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGIC 69 (220)
Q Consensus 32 ~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiC 69 (220)
..|.+||+ |||| .+|.+-.|++||.=
T Consensus 10 r~Cp~cg~----------kFYD--Lnk~p~vcP~cg~~ 35 (129)
T TIGR02300 10 RICPNTGS----------KFYD--LNRRPAVSPYTGEQ 35 (129)
T ss_pred ccCCCcCc----------cccc--cCCCCccCCCcCCc
Confidence 45777776 4574 46888899988864
No 173
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=49.48 E-value=6 Score=31.76 Aligned_cols=19 Identities=37% Similarity=0.835 Sum_probs=16.2
Q ss_pred EeeecCCCCC----CccccccCC
Q 027651 197 IIGQKCSHCK----SYNTRSIAP 215 (220)
Q Consensus 197 ~lg~kC~~C~----SyNT~~~~~ 215 (220)
.|-+||+.|| ||+|+|++-
T Consensus 72 ~I~~kCpkCghe~m~Y~T~QlRS 94 (116)
T KOG2907|consen 72 VIKHKCPKCGHEEMSYHTLQLRS 94 (116)
T ss_pred chhccCcccCCchhhhhhhhccc
Confidence 4678999998 899999974
No 174
>PRK00420 hypothetical protein; Validated
Probab=49.30 E-value=11 Score=30.12 Aligned_cols=29 Identities=38% Similarity=0.819 Sum_probs=22.5
Q ss_pred CCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
...||+|.-+||.. ..+...||.|+..+.
T Consensus 23 ~~~CP~Cg~pLf~l----------------------k~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 23 SKHCPVCGLPLFEL----------------------KDGEVVCPVHGKVYI 51 (112)
T ss_pred cCCCCCCCCcceec----------------------CCCceECCCCCCeee
Confidence 46799999998862 236788999999776
No 175
>PLN02189 cellulose synthase
Probab=48.86 E-value=16 Score=39.11 Aligned_cols=56 Identities=20% Similarity=0.403 Sum_probs=41.4
Q ss_pred ecCCCCCCCccchhhccccC--CceEEc-cCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 98 IENSMHHHCPICYEYLFDSL--RNTTVM-KCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 98 iE~s~~~~CPICle~lf~s~--~~v~~L-pCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
.++.....|.||.|++-... +.-++- -||=-+.+.|++.=.+.++..||-|+..+-
T Consensus 29 ~~~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 29 LRNLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cccccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 34455678999999965332 222333 478889999997666678899999999886
No 176
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=48.69 E-value=9.6 Score=31.54 Aligned_cols=48 Identities=29% Similarity=0.623 Sum_probs=35.5
Q ss_pred CCCccchhhccccCCceEEc-c---CCCccChHHHHHHhcC--CCCCCCCCCcCccch
Q 027651 104 HHCPICYEYLFDSLRNTTVM-K---CGHTMHCECYHEMIKR--DKYCCPICSKSVIDM 155 (220)
Q Consensus 104 ~~CPICle~lf~s~~~v~~L-p---CGH~~H~~C~~~~l~~--~~~~CPiCrksi~dm 155 (220)
-+|-||.|- | .+.+.| | ||=.+...|+.++.+. ....||+|+.|+-..
T Consensus 81 YeCnIC~et---S-~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 81 YECNICKET---S-AEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred eeccCcccc---c-chhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 468899885 2 234566 3 8999999999886553 347899999998753
No 177
>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=48.68 E-value=19 Score=33.39 Aligned_cols=24 Identities=33% Similarity=0.902 Sum_probs=18.8
Q ss_pred eEEEccCCCCcceeeeeEeeecCCCCCC
Q 027651 180 VWILCNDCNDTTEVYFHIIGQKCSHCKS 207 (220)
Q Consensus 180 v~I~CnDC~~~s~~~~H~lg~kC~~C~S 207 (220)
-...|+-|+ ..+|+.-.||++||+
T Consensus 209 RyL~CslC~----teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 209 RYLSCSLCA----TEWHYVRVKCSHCEE 232 (305)
T ss_pred eEEEcCCCC----CcccccCccCCCCCC
Confidence 367888887 567788888888885
No 178
>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=47.26 E-value=6.3 Score=41.21 Aligned_cols=45 Identities=29% Similarity=0.723 Sum_probs=0.0
Q ss_pred ccccccCcccceecCCccccccCCCCCCcccCCCCCccccCCccceeecCCcCc
Q 027651 32 QVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRCGS 85 (220)
Q Consensus 32 ~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C~~ 85 (220)
..|.+||..--.-.|+.|.-. ....|.|+.||+ ++.. .+|.+|+.
T Consensus 656 r~Cp~Cg~~t~~~~Cp~CG~~----T~~~~~Cp~C~~-~~~~----~~C~~C~~ 700 (900)
T PF03833_consen 656 RRCPKCGKETFYNRCPECGSH----TEPVYVCPDCGI-EVEE----DECPKCGR 700 (900)
T ss_dssp ------------------------------------------------------
T ss_pred ccCcccCCcchhhcCcccCCc----cccceecccccc-ccCc----cccccccc
Confidence 456667766666667766544 346777777776 2221 16666654
No 179
>PF15353 HECA: Headcase protein family homologue
Probab=46.70 E-value=10 Score=30.14 Aligned_cols=16 Identities=31% Similarity=0.650 Sum_probs=13.8
Q ss_pred cCCCccChHHHHHHhc
Q 027651 124 KCGHTMHCECYHEMIK 139 (220)
Q Consensus 124 pCGH~~H~~C~~~~l~ 139 (220)
|-|++||+.||++|-.
T Consensus 39 p~~~~MH~~CF~~wE~ 54 (107)
T PF15353_consen 39 PFGQYMHRECFEKWED 54 (107)
T ss_pred CCCCchHHHHHHHHHH
Confidence 4499999999999965
No 180
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=46.27 E-value=27 Score=24.16 Aligned_cols=47 Identities=19% Similarity=0.422 Sum_probs=30.7
Q ss_pred HHHHHHHHhcCCChhhhcCeeEEEccCCCCcc----eeeeeEeeecCCCCCCcc
Q 027651 160 KRIDEEIEATVMPEDYRHKKVWILCNDCNDTT----EVYFHIIGQKCSHCKSYN 209 (220)
Q Consensus 160 ~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s----~~~~H~lg~kC~~C~SyN 209 (220)
+.+|-++.+-|+.++ ++. -+.|.-|.... ...|-.+--+|++|+..|
T Consensus 4 ki~d~L~G~d~~~~~--~r~-aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 4 KILDVLLGDDPTSPS--NRY-ALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred HHHHHHhCCCCcccc--Cce-eEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 466777777774333 333 35599998644 233445678999999887
No 181
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=45.65 E-value=17 Score=23.69 Aligned_cols=20 Identities=25% Similarity=0.861 Sum_probs=12.5
Q ss_pred ccCCCCCccccCCccceeecCCcC
Q 027651 61 FHCDDCGICRIGGRENYFHCKRCG 84 (220)
Q Consensus 61 yHC~~CgiCR~G~~~~~fHC~~C~ 84 (220)
|+|+.|+- +++ ..+||..|.
T Consensus 1 y~C~~C~~--~~~--~r~~C~~C~ 20 (41)
T cd02337 1 YTCNECKH--HVE--TRWHCTVCE 20 (41)
T ss_pred CcCCCCCC--cCC--CceECCCCc
Confidence 56777765 332 677777664
No 182
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 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 DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=45.38 E-value=13 Score=30.05 Aligned_cols=36 Identities=25% Similarity=0.591 Sum_probs=25.2
Q ss_pred CCCcccCCCCCccccCCccceeecCCcCccccccccCcceee
Q 027651 57 EKGQFHCDDCGICRIGGRENYFHCKRCGSCYSTSLRNNHLCI 98 (220)
Q Consensus 57 ~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s~~l~~~H~Ci 98 (220)
....-.|.. |++-......||..||.|+-.- +|-|.
T Consensus 45 ~~~~~~C~~---C~~~kp~Rs~HC~~C~~CV~~~---DHHC~ 80 (174)
T PF01529_consen 45 NGELKYCST---CKIIKPPRSHHCRVCNRCVLRF---DHHCP 80 (174)
T ss_pred CCCCEECcc---cCCcCCCcceeccccccccccc---cccch
Confidence 334444544 6666667899999999999864 67664
No 183
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=45.17 E-value=3.8 Score=37.52 Aligned_cols=72 Identities=28% Similarity=0.669 Sum_probs=54.0
Q ss_pred CcccceecCCccccccCCCCCCcccCCCCCccccCCccceeecCCcCccccccccCcceeecCCCCCCCccchhh
Q 027651 38 GVNMGEYFCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRCGSCYSTSLRNNHLCIENSMHHHCPICYEY 112 (220)
Q Consensus 38 g~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s~~l~~~H~CiE~s~~~~CPICle~ 112 (220)
|+.-+-.||+.|..| ..+-.-||..|+.|-.-.++.|-||..|-.|+-.++-.--.|-.-+...-|-||.|.
T Consensus 199 ~~EE~~~~~~~~~~Y---v~~~~~H~~~~~S~~~~~~~~~~H~~~~~~~~~~~~i~C~~~~~~A~~~~C~iC~~~ 270 (325)
T KOG4399|consen 199 PTEEGYRFCSPCQRY---VSLENQHCEHCNSCTSKDGRKWNHCFLCKKCVKPSWIHCSICNHCAVKHGCFICGEL 270 (325)
T ss_pred ccccceEEEeehHHH---HHHHhhhchhhcccccchhHHHhHhHHhhhhcccceeeeecccchhhhcceeecccc
Confidence 566677789999988 456777999999998877778999999999998887322222223445568888875
No 184
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=44.77 E-value=11 Score=25.49 Aligned_cols=12 Identities=42% Similarity=1.046 Sum_probs=10.4
Q ss_pred cCCCCCCccccc
Q 027651 201 KCSHCKSYNTRS 212 (220)
Q Consensus 201 kC~~C~SyNT~~ 212 (220)
||+.||.||-.+
T Consensus 13 kCp~CGt~NG~R 24 (44)
T PF14952_consen 13 KCPKCGTYNGTR 24 (44)
T ss_pred cCCcCcCccCcc
Confidence 899999999654
No 185
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=44.67 E-value=15 Score=22.90 Aligned_cols=24 Identities=25% Similarity=0.671 Sum_probs=13.1
Q ss_pred ecCCccccccCCCCCCcccCCCCC
Q 027651 44 YFCDICKFYDDDIEKGQFHCDDCG 67 (220)
Q Consensus 44 yfC~~C~l~dd~~~k~~yHC~~Cg 67 (220)
|-|..|..--+.+..++-.|+.||
T Consensus 1 Y~C~~Cg~~~~~~~~~~irC~~CG 24 (32)
T PF03604_consen 1 YICGECGAEVELKPGDPIRCPECG 24 (32)
T ss_dssp EBESSSSSSE-BSTSSTSSBSSSS
T ss_pred CCCCcCCCeeEcCCCCcEECCcCC
Confidence 445555433333455566788887
No 186
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=44.54 E-value=18 Score=25.07 Aligned_cols=35 Identities=26% Similarity=0.445 Sum_probs=22.3
Q ss_pred EEEccCCCCccee--eeeEeeecCCCCCCccccccCC
Q 027651 181 WILCNDCNDTTEV--YFHIIGQKCSHCKSYNTRSIAP 215 (220)
Q Consensus 181 ~I~CnDC~~~s~~--~~H~lg~kC~~C~SyNT~~~~~ 215 (220)
.|.|-.|++.-.. .|-.|-.||+.|+..|......
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN~~~a~~ 40 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTINHVRATS 40 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccceEeccC
Confidence 3666666653211 2335778999999999876554
No 187
>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=43.51 E-value=8.2 Score=34.74 Aligned_cols=54 Identities=20% Similarity=0.594 Sum_probs=23.6
Q ss_pred CCCCCCCCcCccchhHHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCcccccc
Q 027651 142 KYCCPICSKSVIDMSRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSI 213 (220)
Q Consensus 142 ~~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~ 213 (220)
+..||+|+..-. |+. |.. .+. .+. -...|.-|+ ..+|+.-.+|++||+-+-..+
T Consensus 172 ~g~CPvCGs~P~-~s~----l~~-------~~~-~G~-R~L~Cs~C~----t~W~~~R~~Cp~Cg~~~~~~l 225 (290)
T PF04216_consen 172 RGYCPVCGSPPV-LSV----LRG-------GER-EGK-RYLHCSLCG----TEWRFVRIKCPYCGNTDHEKL 225 (290)
T ss_dssp -SS-TTT---EE-EEE----EE--------------E-EEEEETTT------EEE--TTS-TTT---SS-EE
T ss_pred CCcCCCCCCcCc-eEE----Eec-------CCC-Ccc-EEEEcCCCC----CeeeecCCCCcCCCCCCCcce
Confidence 369999997643 111 000 111 133 478999998 678889999999998776554
No 188
>PLN02436 cellulose synthase A
Probab=43.35 E-value=22 Score=38.29 Aligned_cols=56 Identities=16% Similarity=0.427 Sum_probs=40.8
Q ss_pred ecCCCCCCCccchhhccccCCc--eEEc-cCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 98 IENSMHHHCPICYEYLFDSLRN--TTVM-KCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 98 iE~s~~~~CPICle~lf~s~~~--v~~L-pCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
+.....+.|.||.+++-.+.+. -++- -||=-+.+.|++.=.+.++..||-|+..+-
T Consensus 31 ~~~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 31 VQELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3444566899999997443332 2333 478889999997666668899999999886
No 189
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=42.98 E-value=14 Score=23.20 Aligned_cols=21 Identities=19% Similarity=0.363 Sum_probs=14.0
Q ss_pred ccccccCcccceecCCccccc
Q 027651 32 QVCTNCGVNMGEYFCDICKFY 52 (220)
Q Consensus 32 ~~C~~Cg~~~a~yfC~~C~l~ 52 (220)
..|..++...+.|||..|+.+
T Consensus 4 ~~C~~H~~~~~~~~C~~C~~~ 24 (42)
T PF00643_consen 4 PKCPEHPEEPLSLFCEDCNEP 24 (42)
T ss_dssp SB-SSTTTSBEEEEETTTTEE
T ss_pred ccCccCCccceEEEecCCCCc
Confidence 456777777777887777654
No 190
>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=42.92 E-value=11 Score=22.65 Aligned_cols=12 Identities=25% Similarity=1.129 Sum_probs=8.8
Q ss_pred cceecCCccccc
Q 027651 41 MGEYFCDICKFY 52 (220)
Q Consensus 41 ~a~yfC~~C~l~ 52 (220)
++.|||++|+.+
T Consensus 1 ~~~~~C~~C~~~ 12 (35)
T smart00451 1 TGGFYCKLCNVT 12 (35)
T ss_pred CcCeEccccCCc
Confidence 367888888665
No 191
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=41.97 E-value=5.6 Score=36.47 Aligned_cols=53 Identities=17% Similarity=0.149 Sum_probs=41.4
Q ss_pred ccccccCcccceecCCccccccCCCCCCcccCCCCCccccCCccceeecCCcCcccc
Q 027651 32 QVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRCGSCYS 88 (220)
Q Consensus 32 ~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s 88 (220)
..|+-|+...+.-||.||--||-. . -|||.|.-||--.+..+-||+.|..|..
T Consensus 250 i~C~~~~~~A~~~~C~iC~~~~~~---R-~~C~~~kA~~~~~Q~K~N~~~~~~~~~q 302 (325)
T KOG4399|consen 250 IHCSICNHCAVKHGCFICGELDHK---R-STCPNIKAVRKQKQRKSNKMKMETTKGQ 302 (325)
T ss_pred eeeecccchhhhcceeeccccccc---c-ccCccHHHHHHHHhcccchhhhhhhhhh
Confidence 457777777788899999888652 2 6999999998877777888888877765
No 192
>PF01907 Ribosomal_L37e: Ribosomal protein L37e; InterPro: IPR001569 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families consists of proteins of 56 to 96 amino-acid residues that share a highly conserved region located in the N-terminal part.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A19_A 4A1D_A 4A18_A 4A1B_A 1S1I_Y 3O5H_d 3IZS_l 3O58_d 2ZKR_2 3IZR_l ....
Probab=41.91 E-value=12 Score=26.30 Aligned_cols=28 Identities=36% Similarity=0.869 Sum_probs=21.1
Q ss_pred hcCeeEEEccCCCCcceeeeeEeeecCCCCC
Q 027651 176 RHKKVWILCNDCNDTTEVYFHIIGQKCSHCK 206 (220)
Q Consensus 176 ~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~ 206 (220)
++.+..|+|.-||. ..||+--..|..||
T Consensus 10 r~~ktH~~CrRCG~---~syH~qK~~CasCG 37 (55)
T PF01907_consen 10 RHNKTHTLCRRCGR---RSYHIQKKTCASCG 37 (55)
T ss_dssp S-S-SEEE-TTTSS---EEEETTTTEETTTB
T ss_pred cCCccEeeecccCC---eeeecCCCcccccC
Confidence 35568999999997 56788888999998
No 193
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=41.12 E-value=17 Score=24.51 Aligned_cols=13 Identities=38% Similarity=1.237 Sum_probs=7.1
Q ss_pred CCCCCCCCcCccc
Q 027651 142 KYCCPICSKSVID 154 (220)
Q Consensus 142 ~~~CPiCrksi~d 154 (220)
...||+|++++..
T Consensus 20 ~~~CPlC~r~l~~ 32 (54)
T PF04423_consen 20 KGCCPLCGRPLDE 32 (54)
T ss_dssp SEE-TTT--EE-H
T ss_pred CCcCCCCCCCCCH
Confidence 3499999999985
No 194
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.03 E-value=4.3 Score=36.17 Aligned_cols=49 Identities=27% Similarity=0.531 Sum_probs=37.5
Q ss_pred CCCccchhhccc--cCCceEEcc--------CCCccChHHHHHHhcCCCCCCCCCCcCc
Q 027651 104 HHCPICYEYLFD--SLRNTTVMK--------CGHTMHCECYHEMIKRDKYCCPICSKSV 152 (220)
Q Consensus 104 ~~CPICle~lf~--s~~~v~~Lp--------CGH~~H~~C~~~~l~~~~~~CPiCrksi 152 (220)
..|.||...+.. ......++. |||++-..|.+..+......||.|++..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~ 266 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCccccee
Confidence 569999887552 233445666 9999999999999875558999999864
No 195
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=40.45 E-value=8.9 Score=35.63 Aligned_cols=32 Identities=31% Similarity=0.782 Sum_probs=27.7
Q ss_pred CCCCccccCCccceeecCCcCccccccccCcceee
Q 027651 64 DDCGICRIGGRENYFHCKRCGSCYSTSLRNNHLCI 98 (220)
Q Consensus 64 ~~CgiCR~G~~~~~fHC~~C~~C~s~~l~~~H~Ci 98 (220)
-+|-.|++.+.-...||..||.|+..- +|.|+
T Consensus 149 ~kCSTCki~KPARSKHCsiCNrCV~rf---DHHCi 180 (341)
T KOG1312|consen 149 VKCSTCKIRKPARSKHCSICNRCVHRF---DHHCI 180 (341)
T ss_pred CccccccCCCccccccchHHHHHHHHh---ccceE
Confidence 578889999888899999999999864 78886
No 196
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=40.36 E-value=16 Score=38.43 Aligned_cols=51 Identities=24% Similarity=0.431 Sum_probs=35.6
Q ss_pred CCCCCCccchhhccccCCceEEccC---C--CccChHHHHHHhcCC-CCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKC---G--HTMHCECYHEMIKRD-KYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpC---G--H~~H~~C~~~~l~~~-~~~CPiCrksi~ 153 (220)
..+..|-||..+ -. .+..-.=|| | -.+|++|+-+|+..+ .-+|-||...+.
T Consensus 10 ~d~~~CRICr~e-~~-~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTE-DI-RDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCC-CC-CCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 335679999765 22 222333366 3 689999999999864 477999998775
No 197
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.53 E-value=13 Score=32.46 Aligned_cols=39 Identities=26% Similarity=0.537 Sum_probs=28.2
Q ss_pred CccchhhccccCCceEEccCCCcc-ChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTM-HCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~-H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
|-+|.+. ...|..|||.|.. ...|-.. ...||+|+....
T Consensus 161 Cr~C~~~----~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER----EATVLLLPCRHLCLCGICDES-----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC----CceEEeecccceEeccccccc-----CccCCCCcChhh
Confidence 9999886 3458888998754 5566543 356999997765
No 198
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=38.88 E-value=12 Score=23.98 Aligned_cols=13 Identities=54% Similarity=1.196 Sum_probs=5.6
Q ss_pred cceecCCcccccc
Q 027651 41 MGEYFCDICKFYD 53 (220)
Q Consensus 41 ~a~yfC~~C~l~d 53 (220)
|.+|||+-|+.|-
T Consensus 1 m~ryyCdyC~~~~ 13 (38)
T PF06220_consen 1 MPRYYCDYCKKYL 13 (38)
T ss_dssp --S-B-TTT--B-
T ss_pred CcCeeccccccee
Confidence 4689999998885
No 199
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=38.64 E-value=33 Score=32.45 Aligned_cols=57 Identities=25% Similarity=0.480 Sum_probs=38.1
Q ss_pred eecCCC--CCCCccchhh-----c---------cccCCceEEc-cCCCccChHHHHHHhcC--------CCCCCCCCCcC
Q 027651 97 CIENSM--HHHCPICYEY-----L---------FDSLRNTTVM-KCGHTMHCECYHEMIKR--------DKYCCPICSKS 151 (220)
Q Consensus 97 CiE~s~--~~~CPICle~-----l---------f~s~~~v~~L-pCGH~~H~~C~~~~l~~--------~~~~CPiCrks 151 (220)
+.|++. +..||+|++. | .++..+...+ ||||+--++=...|-+- -+-.||.|-..
T Consensus 333 ~~e~~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~ 412 (429)
T KOG3842|consen 333 VRENTGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQ 412 (429)
T ss_pred cccccCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhh
Confidence 445544 7789999753 1 1222333444 99999999999999651 24679999876
Q ss_pred cc
Q 027651 152 VI 153 (220)
Q Consensus 152 i~ 153 (220)
+.
T Consensus 413 L~ 414 (429)
T KOG3842|consen 413 LA 414 (429)
T ss_pred hc
Confidence 65
No 200
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=36.66 E-value=26 Score=22.91 Aligned_cols=9 Identities=44% Similarity=1.342 Sum_probs=4.2
Q ss_pred eeecCCcCc
Q 027651 77 YFHCKRCGS 85 (220)
Q Consensus 77 ~fHC~~C~~ 85 (220)
.+-|..||.
T Consensus 20 ~~vC~~Cg~ 28 (52)
T smart00661 20 RFVCRKCGY 28 (52)
T ss_pred EEECCcCCC
Confidence 444444443
No 201
>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=36.25 E-value=15 Score=24.34 Aligned_cols=40 Identities=25% Similarity=0.615 Sum_probs=27.4
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchh
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMS 156 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~ 156 (220)
|+.|.+.+.. ..+.+..=|..+|..| ++|-.|++++.+..
T Consensus 1 C~~C~~~I~~--~~~~~~~~~~~~H~~C---------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYG--TEIVIKAMGKFWHPEC---------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESS--SSEEEEETTEEEETTT---------SBETTTTCBTTTSS
T ss_pred CCCCCCCccC--cEEEEEeCCcEEEccc---------cccCCCCCccCCCe
Confidence 6677777653 2333335678888766 48999999988643
No 202
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=36.24 E-value=29 Score=32.75 Aligned_cols=49 Identities=16% Similarity=0.367 Sum_probs=37.2
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
.....||||+...- .+.+.---|=+|.-.|+.+++. ...+||+=++++.
T Consensus 298 ~~~~~CpvClk~r~---Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQ---NPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhccC---CCceEEecceEEeHHHHHHHHH-hcCCCCccCCcch
Confidence 34578999997632 2333346799999999999998 5789999887765
No 203
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=35.49 E-value=23 Score=27.97 Aligned_cols=7 Identities=29% Similarity=0.999 Sum_probs=3.8
Q ss_pred cCCCCCc
Q 027651 62 HCDDCGI 68 (220)
Q Consensus 62 HC~~Cgi 68 (220)
+||.||-
T Consensus 90 ~CP~Cgs 96 (117)
T PRK00564 90 VCEKCHS 96 (117)
T ss_pred cCcCCCC
Confidence 4666653
No 204
>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=35.17 E-value=24 Score=20.98 Aligned_cols=23 Identities=35% Similarity=0.959 Sum_probs=16.4
Q ss_pred EeCCCCCCCcc-cccccccCcccc
Q 027651 20 ICSVCDTEQPV-AQVCTNCGVNMG 42 (220)
Q Consensus 20 ~C~~C~~~q~~-~~~C~~Cg~~~a 42 (220)
.|-.|+.+-+. +..|.+||-.|.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCCc
Confidence 36677776555 567999988775
No 205
>PHA00626 hypothetical protein
Probab=34.99 E-value=22 Score=25.27 Aligned_cols=16 Identities=19% Similarity=0.399 Sum_probs=6.8
Q ss_pred cCcccceecCCccccc
Q 027651 37 CGVNMGEYFCDICKFY 52 (220)
Q Consensus 37 Cg~~~a~yfC~~C~l~ 52 (220)
|...-.+|-|..|.++
T Consensus 17 cr~~snrYkCkdCGY~ 32 (59)
T PHA00626 17 MRGWSDDYVCCDCGYN 32 (59)
T ss_pred ecccCcceEcCCCCCe
Confidence 3333444444444443
No 206
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=34.97 E-value=13 Score=35.83 Aligned_cols=32 Identities=19% Similarity=0.451 Sum_probs=0.0
Q ss_pred EccCCCccChHHHHHHhc----CC----CCCCCCCCcCcc
Q 027651 122 VMKCGHTMHCECYHEMIK----RD----KYCCPICSKSVI 153 (220)
Q Consensus 122 ~LpCGH~~H~~C~~~~l~----~~----~~~CPiCrksi~ 153 (220)
+-||||+.=++-...|-. ++ +..||.|-..+.
T Consensus 362 F~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 362 FNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ----------------------------------------
T ss_pred ecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 449999999999999965 22 368999998876
No 207
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=33.81 E-value=19 Score=34.17 Aligned_cols=36 Identities=25% Similarity=0.537 Sum_probs=25.0
Q ss_pred CccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 106 CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
|--||...|.|.++-. |. +.||. ++-.||+||+.+-
T Consensus 316 C~~Cm~kwFasrQd~~--------~~---~~Wl~-~~~~CPtCRa~FC 351 (358)
T PF10272_consen 316 CLECMGKWFASRQDQQ--------HP---ETWLS-GKCPCPTCRAKFC 351 (358)
T ss_pred HHHHHHHHhhhcCCCC--------Ch---hhhhc-CCCCCCCCcccce
Confidence 5667777777765322 22 57887 6789999999865
No 208
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=33.73 E-value=35 Score=26.57 Aligned_cols=33 Identities=33% Similarity=0.635 Sum_probs=22.1
Q ss_pred cceeecCCcCccccccccCcceeecCCCCCCCccchhh
Q 027651 75 ENYFHCKRCGSCYSTSLRNNHLCIENSMHHHCPICYEY 112 (220)
Q Consensus 75 ~~~fHC~~C~~C~s~~l~~~H~CiE~s~~~~CPICle~ 112 (220)
..+|+|..||. .+++..-.+ +..+..||+|..+
T Consensus 19 pt~f~CP~Cge-~~v~v~~~k----~~~h~~C~~CG~y 51 (99)
T PRK14892 19 PKIFECPRCGK-VSISVKIKK----NIAIITCGNCGLY 51 (99)
T ss_pred CcEeECCCCCC-eEeeeecCC----CcceEECCCCCCc
Confidence 57899999993 333322222 4667889999987
No 209
>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=33.45 E-value=27 Score=28.38 Aligned_cols=48 Identities=21% Similarity=0.335 Sum_probs=30.0
Q ss_pred CCCCCCCcCccchhHHHHHHHHHHHhcCCChh-hhcCeeEEEccCCCCcceeeeeE
Q 027651 143 YCCPICSKSVIDMSRTWKRIDEEIEATVMPED-YRHKKVWILCNDCNDTTEVYFHI 197 (220)
Q Consensus 143 ~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~-y~~~~v~I~CnDC~~~s~~~~H~ 197 (220)
.+||.|+..+...++ +-....+|+. |+....--.|..|++.-+..-||
T Consensus 92 sRC~~CN~~L~~v~~-------~~v~~~vp~~v~~~~~~f~~C~~C~kiyW~GsH~ 140 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSK-------EEVKDRVPPYVYETYDEFWRCPGCGKIYWEGSHW 140 (147)
T ss_pred CccCCCCcEeeechh-------hccccccCccccccCCeEEECCCCCCEecccccH
Confidence 689999997775432 1122224444 44444567899999877666665
No 210
>TIGR02487 NrdD anaerobic ribonucleoside-triphosphate reductase. This model represents the oxygen-sensitive (anaerobic, class III) ribonucleotide reductase. The mechanism of the enzyme involves a glycine-centered radical, a C-terminal zinc binding site, and a set of conserved active site cysteines and asparagines. This enzyme requires an activating component, NrdG, a radical-SAM domain containing enzyme (TIGR02491). Together the two form an alpha-2/beta-2 heterodimer.
Probab=33.39 E-value=37 Score=33.87 Aligned_cols=54 Identities=19% Similarity=0.255 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCC
Q 027651 156 SRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAP 215 (220)
Q Consensus 156 ~~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~ 215 (220)
++.+..++...... ++-.--+. ..-.|++||..... +.-+||.|||-|..++++
T Consensus 501 eal~~lv~~a~~~~-i~Y~~~n~-~~~~C~~CG~~g~~----~~~~CP~Cgs~~~~~~~R 554 (579)
T TIGR02487 501 EALKDITKKAMKNG-IGYFGINP-PVDVCEDCGYTGEG----LNDKCPKCGSHDIEVISR 554 (579)
T ss_pred HHHHHHHHHHHhcC-CceEEecc-CCccCCCCCCCCCC----CCCcCcCCCCccceehhh
Confidence 34444444443332 44432233 34569999974432 235899999988666553
No 211
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=32.96 E-value=22 Score=32.73 Aligned_cols=23 Identities=26% Similarity=0.472 Sum_probs=17.9
Q ss_pred ccccccccCcccceecCCccccc
Q 027651 30 VAQVCTNCGVNMGEYFCDICKFY 52 (220)
Q Consensus 30 ~~~~C~~Cg~~~a~yfC~~C~l~ 52 (220)
....+...|.-..+-||.+|+.|
T Consensus 96 ~~~~~~~~~~~~~~~~C~~C~~~ 118 (309)
T COG5273 96 TISRLLDDGKFGTENFCSTCNIY 118 (309)
T ss_pred hhhhhhhcCccccceeccccccc
Confidence 33556667888888899999998
No 212
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=32.39 E-value=33 Score=21.80 Aligned_cols=24 Identities=33% Similarity=0.683 Sum_probs=18.7
Q ss_pred CccchhhccccCCceEEc-cCCCcc
Q 027651 106 CPICYEYLFDSLRNTTVM-KCGHTM 129 (220)
Q Consensus 106 CPICle~lf~s~~~v~~L-pCGH~~ 129 (220)
|++|...+|.+.+....- .|||.+
T Consensus 11 C~~C~~~~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 11 CPVCGSRWFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred CCCCCCeEeEccCCEEEhhhCceEc
Confidence 999999888777666665 888864
No 213
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=32.38 E-value=16 Score=35.25 Aligned_cols=50 Identities=26% Similarity=0.557 Sum_probs=0.5
Q ss_pred CCCCCCCccchhhc----------cccCCceEEccCCCccChHHHHHHhcC-----CCCCCCCCCcCc
Q 027651 100 NSMHHHCPICYEYL----------FDSLRNTTVMKCGHTMHCECYHEMIKR-----DKYCCPICSKSV 152 (220)
Q Consensus 100 ~s~~~~CPICle~l----------f~s~~~v~~LpCGH~~H~~C~~~~l~~-----~~~~CPiCrksi 152 (220)
|++...|||=|-.| -+..++.+.|.|||+.- +..|-.. ...+||+|+..-
T Consensus 274 Na~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 274 NAGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHG---YHNWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp S-------------------------------------------------------------------
T ss_pred hhcCCCCCcCCCccccccccccccccccCceeeccccceee---ecccccccccccccccCCCccccC
Confidence 57788899987655 22344578899999876 3466431 247899999654
No 214
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=32.00 E-value=28 Score=27.33 Aligned_cols=12 Identities=25% Similarity=0.506 Sum_probs=6.5
Q ss_pred CcccccccccCc
Q 027651 28 QPVAQVCTNCGV 39 (220)
Q Consensus 28 q~~~~~C~~Cg~ 39 (220)
.|+.-.|.+||.
T Consensus 67 ~p~~~~C~~Cg~ 78 (114)
T PRK03681 67 QEAECWCETCQQ 78 (114)
T ss_pred eCcEEEcccCCC
Confidence 345555666654
No 215
>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=31.59 E-value=32 Score=23.90 Aligned_cols=27 Identities=30% Similarity=0.712 Sum_probs=12.7
Q ss_pred cccccccccCcccceecCCccccccCCCCCCcccCCCCCc
Q 027651 29 PVAQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 29 ~~~~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
..+..|..|++.|+- -+..+||-.||.
T Consensus 7 ~~~~~C~~C~~~F~~-------------~~rrhhCr~CG~ 33 (69)
T PF01363_consen 7 SEASNCMICGKKFSL-------------FRRRHHCRNCGR 33 (69)
T ss_dssp GG-SB-TTT--B-BS-------------SS-EEE-TTT--
T ss_pred CCCCcCcCcCCcCCC-------------ceeeEccCCCCC
Confidence 345678888888852 267889988886
No 216
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.40 E-value=35 Score=25.95 Aligned_cols=51 Identities=31% Similarity=0.555 Sum_probs=32.5
Q ss_pred CCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCccchhHHHHHHHHHHHhc--CCChhhhcC
Q 027651 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRIDEEIEAT--VMPEDYRHK 178 (220)
Q Consensus 105 ~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~~~~~lD~~i~~~--pmP~~y~~~ 178 (220)
.||||.-.|-.+...-+. --.||-||-.-+|. ..||.+|+.. |-|.+|+..
T Consensus 3 lCP~C~v~l~~~~rs~vE-------------------iD~CPrCrGVWLDr----GELdKli~r~r~pqpa~ys~~ 55 (88)
T COG3809 3 LCPICGVELVMSVRSGVE-------------------IDYCPRCRGVWLDR----GELDKLIERSRYPQPAEYSQP 55 (88)
T ss_pred ccCcCCceeeeeeecCce-------------------eeeCCccccEeecc----hhHHHHHHHhcCCCCcccCCc
Confidence 599998887654321111 24799999777764 5677777765 445556543
No 217
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=31.31 E-value=43 Score=36.12 Aligned_cols=56 Identities=18% Similarity=0.416 Sum_probs=40.5
Q ss_pred ecCCCCCCCccchhhccccCCc--eEEc-cCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 98 IENSMHHHCPICYEYLFDSLRN--TTVM-KCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 98 iE~s~~~~CPICle~lf~s~~~--v~~L-pCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
++....+.|-||.+++-.+.+. -++- -||=-..+.|++.=.+.++..||-|+..+-
T Consensus 12 ~~~~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 12 MKHGGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ccccCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3445567899999995433322 2222 577789999997766778899999998876
No 218
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.11 E-value=37 Score=31.05 Aligned_cols=49 Identities=14% Similarity=0.306 Sum_probs=37.4
Q ss_pred CCCCCCccchhhccccCCceEEc-cCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVM-KCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~L-pCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
...-.|||=.-+|.. ...-.+| +|||+|-..-+.+.- ...|++|+..+.
T Consensus 109 ~a~fiCPvtgleMng-~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~ 158 (293)
T KOG3113|consen 109 RARFICPVTGLEMNG-KYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQ 158 (293)
T ss_pred cceeecccccceecc-eEEEEEEeccceeccHHHHHHhh---hccccccCCccc
Confidence 445679998877544 3334445 999999999999883 579999998886
No 219
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=30.87 E-value=53 Score=33.90 Aligned_cols=52 Identities=17% Similarity=0.197 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCccccccCC
Q 027651 157 RTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAP 215 (220)
Q Consensus 157 ~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~ 215 (220)
+.+..++. +..+.||-.--+.. .-.|++||.... +| .+||.|||-|+.++++
T Consensus 658 al~~lvk~-~~~~~i~Y~sin~~-~~~C~~CG~~~~--~~---~~CP~CG~~~~~~~~R 709 (735)
T PRK07111 658 AFEIIVKA-MKNTNIGYGSINHP-VDRCPVCGYLGV--IE---DKCPKCGSTNIQRIRR 709 (735)
T ss_pred HHHHHHHH-HHhCCCceEEeCCC-CeecCCCCCCCC--cC---ccCcCCCCccceeeeh
Confidence 33333333 44555665433333 456999996543 23 6999999977666554
No 220
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=30.44 E-value=51 Score=23.19 Aligned_cols=21 Identities=19% Similarity=0.542 Sum_probs=16.5
Q ss_pred CCCCCCCCCcCccchhHHHHH
Q 027651 141 DKYCCPICSKSVIDMSRTWKR 161 (220)
Q Consensus 141 ~~~~CPiCrksi~dm~~~~~~ 161 (220)
.++.||.|+-++---...|+.
T Consensus 13 v~~~Cp~cGipthcS~ehw~~ 33 (55)
T PF13824_consen 13 VNFECPDCGIPTHCSEEHWED 33 (55)
T ss_pred cCCcCCCCCCcCccCHHHHHH
Confidence 579999999999866667753
No 221
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=29.80 E-value=47 Score=23.09 Aligned_cols=31 Identities=19% Similarity=0.670 Sum_probs=21.0
Q ss_pred CCCCCCCcCccchhHHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcce
Q 027651 143 YCCPICSKSVIDMSRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTE 192 (220)
Q Consensus 143 ~~CPiCrksi~dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~ 192 (220)
++||.|..+|. +|....+. .+-|.+||..-.
T Consensus 3 ~~CP~CG~~ie-----------------v~~~~~Ge--iV~Cp~CGaele 33 (54)
T TIGR01206 3 FECPDCGAEIE-----------------LENPELGE--LVICDECGAELE 33 (54)
T ss_pred cCCCCCCCEEe-----------------cCCCccCC--EEeCCCCCCEEE
Confidence 68999998774 23333433 578999997554
No 222
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=29.79 E-value=44 Score=22.53 Aligned_cols=22 Identities=45% Similarity=1.173 Sum_probs=10.9
Q ss_pred ccCCCCCccccCCccceeecCCcC
Q 027651 61 FHCDDCGICRIGGRENYFHCKRCG 84 (220)
Q Consensus 61 yHC~~CgiCR~G~~~~~fHC~~C~ 84 (220)
|.|+.||.--+- .--|||..|.
T Consensus 1 y~Cd~C~~~pI~--G~R~~C~~C~ 22 (48)
T cd02341 1 FKCDSCGIEPIP--GTRYHCSECD 22 (48)
T ss_pred CCCCCCCCCccc--cceEECCCCC
Confidence 456666553333 2245665554
No 223
>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=28.69 E-value=37 Score=34.41 Aligned_cols=55 Identities=20% Similarity=0.252 Sum_probs=32.6
Q ss_pred chhHHHHHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCccccccC
Q 027651 154 DMSRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIA 214 (220)
Q Consensus 154 dm~~~~~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~ 214 (220)
+.++.+..++... .+.+|=.--+. ..-.|++||.... ..+..||.|||-|+.+++
T Consensus 541 n~eal~~lv~~~~-~~~i~Yf~in~-~~~iC~~CG~~~~----g~~~~CP~CGs~~~ev~~ 595 (623)
T PRK08271 541 SEEGYRKLLNIAA-KTGCNYFAFNV-KITICNDCHHIDK----RTGKRCPICGSENIDYYT 595 (623)
T ss_pred CHHHHHHHHHHHH-HcCCceEEeCC-CCccCCCCCCcCC----CCCcCCcCCCCcchhHHH
Confidence 4444545555443 35555443333 3456999997522 145799999998865543
No 224
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=28.38 E-value=29 Score=23.77 Aligned_cols=26 Identities=31% Similarity=0.790 Sum_probs=20.0
Q ss_pred cccceEEeCCCCCCCcc-cccccccCc
Q 027651 14 QDVKQVICSVCDTEQPV-AQVCTNCGV 39 (220)
Q Consensus 14 ~~v~~i~C~~C~~~q~~-~~~C~~Cg~ 39 (220)
+....++|+.|...-|+ +..|..||-
T Consensus 10 ~~~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 10 RVFNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred HhhcccchhcccCCCCccccccccCCC
Confidence 34467899999998777 566888874
No 225
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 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 motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=28.04 E-value=30 Score=22.10 Aligned_cols=34 Identities=29% Similarity=0.629 Sum_probs=14.6
Q ss_pred cccccCcccceecCCccccccCCCCCCcccCCCCC
Q 027651 33 VCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCG 67 (220)
Q Consensus 33 ~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~Cg 67 (220)
.|.+||..-+.|| .+=--=-|++..-.|.|-+||
T Consensus 2 ~Cp~Cg~~~a~~~-~~Q~rsaDE~~T~fy~C~~C~ 35 (39)
T PF01096_consen 2 KCPKCGHNEAVFF-QIQTRSADEPMTLFYVCCNCG 35 (39)
T ss_dssp --SSS-SSEEEEE-EESSSSSSSSSEEEEEESSST
T ss_pred CCcCCCCCeEEEE-EeeccCCCCCCeEEEEeCCCC
Confidence 4677777766665 100000233444555555554
No 226
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=28.00 E-value=19 Score=29.36 Aligned_cols=8 Identities=63% Similarity=1.688 Sum_probs=4.8
Q ss_pred eecCCcCc
Q 027651 78 FHCKRCGS 85 (220)
Q Consensus 78 fHC~~C~~ 85 (220)
|.|..||.
T Consensus 124 f~Cp~Cg~ 131 (147)
T smart00531 124 FTCPRCGE 131 (147)
T ss_pred EECCCCCC
Confidence 66666654
No 227
>PRK01110 rpmF 50S ribosomal protein L32; Validated
Probab=27.73 E-value=56 Score=23.05 Aligned_cols=30 Identities=10% Similarity=0.073 Sum_probs=22.1
Q ss_pred EEEccCCCCcceeeeeEeeecCCCCCCccccccCCC
Q 027651 181 WILCNDCNDTTEVYFHIIGQKCSHCKSYNTRSIAPP 216 (220)
Q Consensus 181 ~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~~~~~ 216 (220)
.+.|..||.. ...|-+ |+ ||.||.+++-.+
T Consensus 27 ~~~c~~cg~~--~~pH~v---c~-cG~Y~gr~v~~~ 56 (60)
T PRK01110 27 LSVDKTTGEY--HLPHHV---SP-KGYYKGRKVLKK 56 (60)
T ss_pred eeEcCCCCce--ecccee---cC-CcccCCeEeecc
Confidence 5789999864 444544 89 999999997543
No 228
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=27.69 E-value=31 Score=21.92 Aligned_cols=27 Identities=33% Similarity=0.671 Sum_probs=13.9
Q ss_pred cccccCcccceecCCccccccCCCCCCcccCCCCCc
Q 027651 33 VCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 33 ~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
.|.+||..+-.+| ++.|..=-||.||-
T Consensus 3 ~C~~Cg~~Yh~~~---------~pP~~~~~Cd~cg~ 29 (36)
T PF05191_consen 3 ICPKCGRIYHIEF---------NPPKVEGVCDNCGG 29 (36)
T ss_dssp EETTTTEEEETTT---------B--SSTTBCTTTTE
T ss_pred CcCCCCCcccccc---------CCCCCCCccCCCCC
Confidence 3555555554333 34555556777764
No 229
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=27.40 E-value=86 Score=26.57 Aligned_cols=27 Identities=26% Similarity=0.549 Sum_probs=17.9
Q ss_pred CCCCCCCCCcCccc--hhHHHHHHHHHHH
Q 027651 141 DKYCCPICSKSVID--MSRTWKRIDEEIE 167 (220)
Q Consensus 141 ~~~~CPiCrksi~d--m~~~~~~lD~~i~ 167 (220)
..++||.|+..+.. .+.....|+..|+
T Consensus 135 ~~F~Cp~Cg~~L~~~dn~~~~~~l~~~I~ 163 (178)
T PRK06266 135 YGFRCPQCGEMLEEYDNSELIKELKEQIK 163 (178)
T ss_pred cCCcCCCCCCCCeecccHHHHHHHHHHHH
Confidence 46999999999974 3334455554443
No 230
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=27.40 E-value=52 Score=22.04 Aligned_cols=28 Identities=18% Similarity=0.516 Sum_probs=18.3
Q ss_pred EEccCCCCcceeeeeEeeecCCCCCCccccc
Q 027651 182 ILCNDCNDTTEVYFHIIGQKCSHCKSYNTRS 212 (220)
Q Consensus 182 I~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~ 212 (220)
|.|+-|.+..-+.++ .+|..|..|+.-+
T Consensus 1 ~~C~~C~~~~i~g~R---~~C~~C~dydLC~ 28 (49)
T cd02345 1 LSCSACRKQDISGIR---FPCQVCRDYSLCL 28 (49)
T ss_pred CcCCCCCCCCceEee---EECCCCCCcCchH
Confidence 468888875444444 4787877777544
No 231
>COG1144 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]
Probab=27.13 E-value=28 Score=26.94 Aligned_cols=15 Identities=40% Similarity=0.906 Sum_probs=12.7
Q ss_pred cceeecCCcCccccc
Q 027651 75 ENYFHCKRCGSCYST 89 (220)
Q Consensus 75 ~~~fHC~~C~~C~s~ 89 (220)
.||-+|+.||+|..+
T Consensus 63 idYdyCKGCGICa~v 77 (91)
T COG1144 63 IDYDYCKGCGICANV 77 (91)
T ss_pred eEcccccCceechhh
Confidence 588999999999765
No 232
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=27.08 E-value=17 Score=24.73 Aligned_cols=10 Identities=30% Similarity=1.052 Sum_probs=8.6
Q ss_pred eEEEccCCCC
Q 027651 180 VWILCNDCND 189 (220)
Q Consensus 180 v~I~CnDC~~ 189 (220)
..|.|.+|+.
T Consensus 28 ~~V~C~~Cga 37 (61)
T PF14354_consen 28 YYVECTDCGA 37 (61)
T ss_pred EEEEcCCCCC
Confidence 6799999987
No 233
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=27.03 E-value=40 Score=24.05 Aligned_cols=38 Identities=29% Similarity=0.450 Sum_probs=27.6
Q ss_pred ccceEEeCCCCCCCcc------cccccccCcccceecCCccccc
Q 027651 15 DVKQVICSVCDTEQPV------AQVCTNCGVNMGEYFCDICKFY 52 (220)
Q Consensus 15 ~v~~i~C~~C~~~q~~------~~~C~~Cg~~~a~yfC~~C~l~ 52 (220)
.--.|+|..|..+|-+ ...|..||...++=.=.+-+|.
T Consensus 8 ~F~~VkCp~C~n~q~vFsha~t~V~C~~Cg~~L~~PtGGKa~i~ 51 (59)
T PRK00415 8 RFLKVKCPDCGNEQVVFSHASTVVRCLVCGKTLAEPTGGKAKIK 51 (59)
T ss_pred eEEEEECCCCCCeEEEEecCCcEEECcccCCCcccCCCcceeee
Confidence 3446899999999953 3569999998887655555544
No 234
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=26.48 E-value=32 Score=35.34 Aligned_cols=29 Identities=24% Similarity=0.417 Sum_probs=21.3
Q ss_pred EEEccCCCCcceeeeeEeeecCCCCCCcc
Q 027651 181 WILCNDCNDTTEVYFHIIGQKCSHCKSYN 209 (220)
Q Consensus 181 ~I~CnDC~~~s~~~~H~lg~kC~~C~SyN 209 (220)
.-.|++||..++...--.|..||.|||-|
T Consensus 641 ~~~C~~CG~~Ge~~~~~~~~~CP~CG~~~ 669 (711)
T PRK09263 641 IDECYECGFTGEFECTEKGFTCPKCGNHD 669 (711)
T ss_pred CcccCCCCCCccccCCCCCCcCcCCCCCC
Confidence 45699999865543333457899999987
No 235
>smart00355 ZnF_C2H2 zinc finger.
Probab=26.42 E-value=67 Score=16.80 Aligned_cols=15 Identities=40% Similarity=0.773 Sum_probs=11.3
Q ss_pred CCCCCCCcCccchhH
Q 027651 143 YCCPICSKSVIDMSR 157 (220)
Q Consensus 143 ~~CPiCrksi~dm~~ 157 (220)
+.|+.|.+++...+.
T Consensus 1 ~~C~~C~~~f~~~~~ 15 (26)
T smart00355 1 YRCPECGKVFKSKSA 15 (26)
T ss_pred CCCCCCcchhCCHHH
Confidence 579999998876443
No 236
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=25.53 E-value=72 Score=22.80 Aligned_cols=23 Identities=26% Similarity=0.580 Sum_probs=16.0
Q ss_pred CCCCCCCcCccchhHHHHHHHHHHHh
Q 027651 143 YCCPICSKSVIDMSRTWKRIDEEIEA 168 (220)
Q Consensus 143 ~~CPiCrksi~dm~~~~~~lD~~i~~ 168 (220)
.+|+.|+|.+++ .|+...+.+++
T Consensus 5 VRCFTCGkvi~~---~~e~y~~~~~~ 27 (60)
T PF01194_consen 5 VRCFTCGKVIGN---KWEEYLERLEN 27 (60)
T ss_dssp SS-STTTSBTCG---HHHHHHHHHHT
T ss_pred eecCCCCCChhH---hHHHHHHHHHc
Confidence 589999999996 46555555554
No 237
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=25.22 E-value=54 Score=30.14 Aligned_cols=46 Identities=17% Similarity=0.332 Sum_probs=27.3
Q ss_pred CCCCCCCccchhhccccCCceEEcc-C-CCccChHHHHHHhcCCCCCCC
Q 027651 100 NSMHHHCPICYEYLFDSLRNTTVMK-C-GHTMHCECYHEMIKRDKYCCP 146 (220)
Q Consensus 100 ~s~~~~CPICle~lf~s~~~v~~Lp-C-GH~~H~~C~~~~l~~~~~~CP 146 (220)
..+-..|+||+|- ...+.+-..|. = .=-=|+.||..|-.-.+..||
T Consensus 27 ~~tLsfChiCfEl-~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 27 TETLSFCHICFEL-SIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred ccceeecceeecc-ccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 4455679999884 54443332221 1 012389999999443467899
No 238
>PF12675 DUF3795: Protein of unknown function (DUF3795); InterPro: IPR024227 This family of proteins is functionally uncharacterised and is found in bacteria and archaea. Proteins in this family are typically between 99 and 171 amino acids in length. These proteins are likely to be zinc binding given the conserved cysteines.
Probab=25.20 E-value=35 Score=24.90 Aligned_cols=36 Identities=31% Similarity=0.677 Sum_probs=22.6
Q ss_pred cccccccCcccceecCCccccccCCCCCCcccCCCC
Q 027651 31 AQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDC 66 (220)
Q Consensus 31 ~~~C~~Cg~~~a~yfC~~C~l~dd~~~k~~yHC~~C 66 (220)
...|.+|...-....+..|.+.+=-.+|++-||-.|
T Consensus 34 ~~~C~GCr~~~~~~~~~~C~i~~C~~ekgv~~C~eC 69 (78)
T PF12675_consen 34 KIRCPGCRSGGGKCCCKSCKIRQCAKEKGVDFCGEC 69 (78)
T ss_pred CCcCcCCcCCCCCcCCCCCCcCcHHhhCCCCeeecC
Confidence 344777766555567777777655556676666555
No 239
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=25.02 E-value=48 Score=23.66 Aligned_cols=19 Identities=21% Similarity=0.558 Sum_probs=13.3
Q ss_pred CCCCCCCCcCccchhHHHH
Q 027651 142 KYCCPICSKSVIDMSRTWK 160 (220)
Q Consensus 142 ~~~CPiCrksi~dm~~~~~ 160 (220)
.++|++|.+.+.+++....
T Consensus 50 ~~~C~~C~~~f~s~~~l~~ 68 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQE 68 (100)
T ss_dssp SEEBSSSS-EESSHHHHHH
T ss_pred CCCCCccCCCCcCHHHHHH
Confidence 4889999999887554433
No 240
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=24.78 E-value=36 Score=18.81 Aligned_cols=15 Identities=33% Similarity=0.771 Sum_probs=11.4
Q ss_pred CCCCCCCcCccchhH
Q 027651 143 YCCPICSKSVIDMSR 157 (220)
Q Consensus 143 ~~CPiCrksi~dm~~ 157 (220)
+.|.+|.+++.+...
T Consensus 1 ~~C~~C~~~f~s~~~ 15 (25)
T PF12874_consen 1 FYCDICNKSFSSENS 15 (25)
T ss_dssp EEETTTTEEESSHHH
T ss_pred CCCCCCCCCcCCHHH
Confidence 468999999887543
No 241
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=24.70 E-value=25 Score=35.39 Aligned_cols=39 Identities=31% Similarity=0.686 Sum_probs=29.7
Q ss_pred cceEEeCCCCCCCcccc--cccccCcccc--------------eecCCccccccC
Q 027651 16 VKQVICSVCDTEQPVAQ--VCTNCGVNMG--------------EYFCDICKFYDD 54 (220)
Q Consensus 16 v~~i~C~~C~~~q~~~~--~C~~Cg~~~a--------------~yfC~~C~l~dd 54 (220)
+-++.++..-...-.+| .|..||..++ .|||+.|+=.+.
T Consensus 323 i~~~~~~~~re~gL~aQ~~~CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~~~~ 377 (580)
T KOG1829|consen 323 IFHIHPAIPREKGLDAQNFRCAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQNDK 377 (580)
T ss_pred hhhcccCcchhhhhhccCceecccCCCcccccccchhHhhhhhhhhCchhcccCc
Confidence 34567777777766767 7999999887 789999986654
No 242
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=24.69 E-value=38 Score=30.37 Aligned_cols=34 Identities=26% Similarity=0.609 Sum_probs=24.5
Q ss_pred CcccCCCCCccccCCccceeecCCcCccccccccCcceee
Q 027651 59 GQFHCDDCGICRIGGRENYFHCKRCGSCYSTSLRNNHLCI 98 (220)
Q Consensus 59 ~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s~~l~~~H~Ci 98 (220)
+...|+.|..= ...-..||..||.|+..- +|.|.
T Consensus 112 ~~~~C~~C~~~---rPpRs~HCsvC~~CV~rf---DHHC~ 145 (299)
T KOG1311|consen 112 EWKYCDTCQLY---RPPRSSHCSVCNNCVLRF---DHHCP 145 (299)
T ss_pred ceEEcCcCccc---CCCCcccchhhccccccc---CCCCC
Confidence 45667666554 456789999999999864 67663
No 243
>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=24.51 E-value=58 Score=18.63 Aligned_cols=14 Identities=21% Similarity=0.610 Sum_probs=11.6
Q ss_pred CCCCCCCcCccchh
Q 027651 143 YCCPICSKSVIDMS 156 (220)
Q Consensus 143 ~~CPiCrksi~dm~ 156 (220)
+.|++|.+.+.+..
T Consensus 2 ~~C~~C~k~f~~~~ 15 (27)
T PF12171_consen 2 FYCDACDKYFSSEN 15 (27)
T ss_dssp CBBTTTTBBBSSHH
T ss_pred CCcccCCCCcCCHH
Confidence 68999999998743
No 244
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=24.47 E-value=36 Score=31.35 Aligned_cols=31 Identities=29% Similarity=0.668 Sum_probs=26.5
Q ss_pred CCCccccCCccceeecCCcCccccccccCcceee
Q 027651 65 DCGICRIGGRENYFHCKRCGSCYSTSLRNNHLCI 98 (220)
Q Consensus 65 ~CgiCR~G~~~~~fHC~~C~~C~s~~l~~~H~Ci 98 (220)
.|.-|+.-+.+..-||..||.|+-+- +|.|+
T Consensus 111 ~C~~C~~~KP~RS~HC~~Cn~CV~k~---DHHC~ 141 (309)
T COG5273 111 FCSTCNIYKPPRSHHCSICNRCVLKF---DHHCP 141 (309)
T ss_pred eccccccccCCCCccchhhcchhhcc---CccCc
Confidence 58888888888999999999999864 68775
No 245
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=24.43 E-value=44 Score=21.30 Aligned_cols=10 Identities=30% Similarity=0.617 Sum_probs=5.3
Q ss_pred CCcccCCCCC
Q 027651 58 KGQFHCDDCG 67 (220)
Q Consensus 58 k~~yHC~~Cg 67 (220)
-.+++|+.||
T Consensus 17 ~~id~C~~C~ 26 (41)
T PF13453_consen 17 VEIDVCPSCG 26 (41)
T ss_pred EEEEECCCCC
Confidence 4555555554
No 246
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=24.39 E-value=34 Score=32.27 Aligned_cols=20 Identities=40% Similarity=0.989 Sum_probs=15.3
Q ss_pred cccccCcccceecCCccccc
Q 027651 33 VCTNCGVNMGEYFCDICKFY 52 (220)
Q Consensus 33 ~C~~Cg~~~a~yfC~~C~l~ 52 (220)
.|--||+++++|.|+-|+|.
T Consensus 9 ~C~ic~vq~~~YtCPRCn~~ 28 (383)
T KOG4317|consen 9 ACGICGVQKREYTCPRCNLL 28 (383)
T ss_pred eccccccccccccCCCCCcc
Confidence 45667888888888888775
No 247
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=24.36 E-value=99 Score=31.46 Aligned_cols=135 Identities=21% Similarity=0.414 Sum_probs=68.8
Q ss_pred CCCCcccCCCCCccccCC----ccceee-----cCCcCccccccccCcceeecCCCCCCCc-cchhhccccCCceEEccC
Q 027651 56 IEKGQFHCDDCGICRIGG----RENYFH-----CKRCGSCYSTSLRNNHLCIENSMHHHCP-ICYEYLFDSLRNTTVMKC 125 (220)
Q Consensus 56 ~~k~~yHC~~CgiCR~G~----~~~~fH-----C~~C~~C~s~~l~~~H~CiE~s~~~~CP-ICle~lf~s~~~v~~LpC 125 (220)
..+..-||+.|+-==-|. .+++|| |++||.=+....+ -+++-|+ .-++ -|.+. .+..+++.=
T Consensus 12 ~~~~~i~c~~c~~kc~gevlrv~d~~fhi~cf~c~~cg~~la~~gf-f~k~~~~---~ygt~~c~~~----~~gevvsa~ 83 (670)
T KOG1044|consen 12 TGKQGIKCDKCRKKCSGEVLRVNDNHFHINCFQCKKCGRNLAEGGF-FTKPENR---LYGTDDCRAF----VEGEVVSTL 83 (670)
T ss_pred ccccceehhhhCCccccceeEeeccccceeeeeccccCCCcccccc-eecccce---eecccchhhh----ccceeEecc
Confidence 456667888877543332 356665 4444433332221 2333332 2222 12221 123344444
Q ss_pred CCccChHHHHHHhcCCCCCCCCCCcCccchhH-HHH--HHHHHHHhcCCChhhhcCeeEEEccCCCCcc---------ee
Q 027651 126 GHTMHCECYHEMIKRDKYCCPICSKSVIDMSR-TWK--RIDEEIEATVMPEDYRHKKVWILCNDCNDTT---------EV 193 (220)
Q Consensus 126 GH~~H~~C~~~~l~~~~~~CPiCrksi~dm~~-~~~--~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s---------~~ 193 (220)
|-++|.+|+ .|-+|++++-.-+. .|. ..-.+.-.++||-.=.....--.|--|+..- ..
T Consensus 84 gktyh~~cf---------~cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~ 154 (670)
T KOG1044|consen 84 GKTYHPKCF---------SCSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDK 154 (670)
T ss_pred cceeccccc---------eecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeecc
Confidence 788887765 66677777753211 111 1112334566654422223345677777421 57
Q ss_pred eeeEeeecCCCCCC
Q 027651 194 YFHIIGQKCSHCKS 207 (220)
Q Consensus 194 ~~H~lg~kC~~C~S 207 (220)
++|+..-||..|..
T Consensus 155 qwhv~cfkc~~c~~ 168 (670)
T KOG1044|consen 155 QWHVSCFKCKSCSA 168 (670)
T ss_pred ceeeeeeehhhhcc
Confidence 89999999998864
No 248
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=24.08 E-value=94 Score=25.72 Aligned_cols=28 Identities=21% Similarity=0.539 Sum_probs=19.5
Q ss_pred CCCCCCCCCcCccch--hHHHHHHHHHHHh
Q 027651 141 DKYCCPICSKSVIDM--SRTWKRIDEEIEA 168 (220)
Q Consensus 141 ~~~~CPiCrksi~dm--~~~~~~lD~~i~~ 168 (220)
..++||.|+..+..+ +..-..|++.|+.
T Consensus 127 ~~F~Cp~Cg~~L~~~dn~~~i~~l~~~i~~ 156 (158)
T TIGR00373 127 LNFTCPRCGAMLDYLDNSEAIEKLEEQIKF 156 (158)
T ss_pred cCCcCCCCCCEeeeccCHHHHHHHHHHHHh
Confidence 369999999999743 3445666666643
No 249
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=23.69 E-value=34 Score=22.01 Aligned_cols=7 Identities=43% Similarity=1.198 Sum_probs=2.3
Q ss_pred ecCCcCc
Q 027651 79 HCKRCGS 85 (220)
Q Consensus 79 HC~~C~~ 85 (220)
-|..||.
T Consensus 21 vC~~CG~ 27 (43)
T PF08271_consen 21 VCPNCGL 27 (43)
T ss_dssp EETTT-B
T ss_pred ECCCCCC
Confidence 3333433
No 250
>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=23.09 E-value=40 Score=19.41 Aligned_cols=10 Identities=30% Similarity=1.056 Sum_probs=6.8
Q ss_pred CCcccCCCCC
Q 027651 58 KGQFHCDDCG 67 (220)
Q Consensus 58 k~~yHC~~Cg 67 (220)
.++|.|+.||
T Consensus 12 ~k~~~C~~C~ 21 (26)
T PF13465_consen 12 EKPYKCPYCG 21 (26)
T ss_dssp SSSEEESSSS
T ss_pred CCCCCCCCCc
Confidence 4567777775
No 251
>PLN02400 cellulose synthase
Probab=23.03 E-value=56 Score=35.30 Aligned_cols=56 Identities=21% Similarity=0.452 Sum_probs=40.3
Q ss_pred ecCCCCCCCccchhhccccCCce--EE-ccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 98 IENSMHHHCPICYEYLFDSLRNT--TV-MKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 98 iE~s~~~~CPICle~lf~s~~~v--~~-LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
+++...+.|-||.|++-...+.- ++ --||=-..+.|++.=.+.++..||-|+..+-
T Consensus 31 ~~~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 31 LKNLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ccccCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 34445668999999964433222 22 3678889999996666667899999998886
No 252
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.67 E-value=26 Score=32.66 Aligned_cols=33 Identities=33% Similarity=0.885 Sum_probs=22.8
Q ss_pred eEEeCCCCCCCc--------ccccccccCcccceecCCccccc
Q 027651 18 QVICSVCDTEQP--------VAQVCTNCGVNMGEYFCDICKFY 52 (220)
Q Consensus 18 ~i~C~~C~~~q~--------~~~~C~~Cg~~~a~yfC~~C~l~ 52 (220)
+-+|..|...-. -...|..||+.|+ +|+||+-|
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~--eCPICRqy 340 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRMN--ECPICRQY 340 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccccc--cCchHHHH
Confidence 556666643221 2367888999999 99999765
No 253
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.31 E-value=51 Score=32.46 Aligned_cols=44 Identities=23% Similarity=0.704 Sum_probs=34.1
Q ss_pred CCCCCCccchhhccccCCceEEccCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~v~~LpCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
..+.+|.||.+.+ ..+.-+|- |..|+.+|+. .+..||+|++.+.
T Consensus 477 ~~~~~~~~~~~~~-----~~~~~~~~---~~~~l~~~~~-~~~~~pl~~~~~~ 520 (543)
T KOG0802|consen 477 EPNDVCAICYQEM-----SARITPCS---HALCLRKWLY-VQEVCPLCHTYMK 520 (543)
T ss_pred cccCcchHHHHHH-----Hhcccccc---chhHHHhhhh-hccccCCCchhhh
Confidence 3467999999986 23334455 9999999998 5789999998776
No 254
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=22.05 E-value=61 Score=21.21 Aligned_cols=11 Identities=27% Similarity=0.897 Sum_probs=4.3
Q ss_pred cceeecCCcCc
Q 027651 75 ENYFHCKRCGS 85 (220)
Q Consensus 75 ~~~fHC~~C~~ 85 (220)
..-+.|..|+.
T Consensus 26 ~~g~~C~~C~~ 36 (53)
T PF00130_consen 26 KQGYRCSWCGL 36 (53)
T ss_dssp SCEEEETTTT-
T ss_pred CCeEEECCCCC
Confidence 33444444443
No 255
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=21.91 E-value=46 Score=23.92 Aligned_cols=12 Identities=42% Similarity=0.886 Sum_probs=10.2
Q ss_pred CCCCCCCCcCcc
Q 027651 142 KYCCPICSKSVI 153 (220)
Q Consensus 142 ~~~CPiCrksi~ 153 (220)
..+||+|+|.+.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 478999999975
No 256
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=21.68 E-value=62 Score=20.36 Aligned_cols=9 Identities=22% Similarity=0.977 Sum_probs=4.0
Q ss_pred EEeCCCCCC
Q 027651 19 VICSVCDTE 27 (220)
Q Consensus 19 i~C~~C~~~ 27 (220)
|.|-.|++.
T Consensus 3 i~Cp~C~~~ 11 (36)
T PF13717_consen 3 ITCPNCQAK 11 (36)
T ss_pred EECCCCCCE
Confidence 344445443
No 257
>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=21.64 E-value=31 Score=36.35 Aligned_cols=53 Identities=23% Similarity=0.616 Sum_probs=0.0
Q ss_pred cccccceEEeCCCCCCCcccccccccCcc-cceecCCccccccCCCCCCcccCCCCCccc
Q 027651 12 VRQDVKQVICSVCDTEQPVAQVCTNCGVN-MGEYFCDICKFYDDDIEKGQFHCDDCGICR 70 (220)
Q Consensus 12 ~R~~v~~i~C~~C~~~q~~~~~C~~Cg~~-~a~yfC~~C~l~dd~~~k~~yHC~~CgiCR 70 (220)
..-.|-.-+|..|+++ .....|..||.. .-.|+|..|+.--++. +|+.||.=-
T Consensus 649 i~vei~~r~Cp~Cg~~-t~~~~Cp~CG~~T~~~~~Cp~C~~~~~~~-----~C~~C~~~~ 702 (900)
T PF03833_consen 649 IEVEIGRRRCPKCGKE-TFYNRCPECGSHTEPVYVCPDCGIEVEED-----ECPKCGRET 702 (900)
T ss_dssp ------------------------------------------------------------
T ss_pred eEEeeecccCcccCCc-chhhcCcccCCccccceeccccccccCcc-----ccccccccC
Confidence 3445566789999877 556789999875 6688899997753321 899888643
No 258
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=21.60 E-value=31 Score=34.75 Aligned_cols=26 Identities=27% Similarity=0.775 Sum_probs=19.5
Q ss_pred eEEccCCCccChHHHHHHhcCCCCCCCCCC
Q 027651 120 TTVMKCGHTMHCECYHEMIKRDKYCCPICS 149 (220)
Q Consensus 120 v~~LpCGH~~H~~C~~~~l~~~~~~CPiCr 149 (220)
.+-..||++||.+|+.. .+..||.|-
T Consensus 532 ~rC~~C~avfH~~C~~r----~s~~CPrC~ 557 (580)
T KOG1829|consen 532 RRCSTCLAVFHKKCLRR----KSPCCPRCE 557 (580)
T ss_pred eeHHHHHHHHHHHHHhc----cCCCCCchH
Confidence 44568999999999854 334499885
No 259
>PF01753 zf-MYND: MYND finger; InterPro: IPR002893 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 MYND-type zinc finger domains. The MYND domain (myeloid, Nervy, and DEAF-1) is present in a large group of proteins that includes RP-8 (PDCD2), Nervy, and predicted proteins from Drosophila, mammals, Caenorhabditis elegans, yeast, and plants [, , ]. The MYND domain consists of a cluster of cysteine and histidine residues, arranged with an invariant spacing to form a potential zinc-binding motif []. Mutating conserved cysteine residues in the DEAF-1 MYND domain does not abolish DNA binding, which suggests that the MYND domain might be involved in protein-protein interactions []. Indeed, the MYND domain of ETO/MTG8 interacts directly with the N-CoR and SMRT co-repressors [, ]. Aberrant recruitment of co-repressor complexes and inappropriate transcriptional repression is believed to be a general mechanism of leukemogenesis caused by the t(8;21) translocations that fuse ETO with the acute myelogenous leukemia 1 (AML1) protein. ETO has been shown to be a co-repressor recruited by the promyelocytic leukemia zinc finger (PLZF) protein []. A divergent MYND domain present in the adenovirus E1A binding protein BS69 was also shown to interact with N-CoR and mediate transcriptional repression []. The current evidence suggests that the MYND motif in mammalian proteins constitutes a protein-protein interaction domain that functions as a co-repressor-recruiting interface. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3QWW_A 3QWV_A 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3RU0_A ....
Probab=21.37 E-value=64 Score=19.90 Aligned_cols=22 Identities=36% Similarity=1.197 Sum_probs=11.1
Q ss_pred eCCCCCCCcccccccccCcccceecCC
Q 027651 21 CSVCDTEQPVAQVCTNCGVNMGEYFCD 47 (220)
Q Consensus 21 C~~C~~~q~~~~~C~~Cg~~~a~yfC~ 47 (220)
|..|+. +....|..|+.. |||+
T Consensus 1 C~~C~~--~~~~~C~~C~~~---~YCs 22 (37)
T PF01753_consen 1 CAVCGK--PALKRCSRCKSV---YYCS 22 (37)
T ss_dssp -TTTSS--CSSEEETTTSSS---EESS
T ss_pred CcCCCC--CcCCcCCCCCCE---EecC
Confidence 445555 333366666443 5665
No 260
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.32 E-value=72 Score=29.78 Aligned_cols=58 Identities=31% Similarity=0.640 Sum_probs=41.2
Q ss_pred CCCCccchhhccccCCceEEccC----CCccChHHHHHHhcCC----------CCCCCCCCcCccchhHHHHHHHHHHHh
Q 027651 103 HHHCPICYEYLFDSLRNTTVMKC----GHTMHCECYHEMIKRD----------KYCCPICSKSVIDMSRTWKRIDEEIEA 168 (220)
Q Consensus 103 ~~~CPICle~lf~s~~~v~~LpC----GH~~H~~C~~~~l~~~----------~~~CPiCrksi~dm~~~~~~lD~~i~~ 168 (220)
..-|.+|.|.|-+ ..+..| +|-|..-|-.+.++.. .-+||+=+..| -|.-+..||+.
T Consensus 268 pLcCTLC~ERLED----THFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~v-----PWAFMQGEIat 338 (352)
T KOG3579|consen 268 PLCCTLCHERLED----THFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNV-----PWAFMQGEIAT 338 (352)
T ss_pred ceeehhhhhhhcc----CceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCcc-----cHHHhhhhHHH
Confidence 3579999999844 445556 7999999999998742 24666544333 48888888875
Q ss_pred c
Q 027651 169 T 169 (220)
Q Consensus 169 ~ 169 (220)
+
T Consensus 339 I 339 (352)
T KOG3579|consen 339 I 339 (352)
T ss_pred H
Confidence 4
No 261
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=21.20 E-value=56 Score=19.21 Aligned_cols=10 Identities=40% Similarity=1.102 Sum_probs=6.6
Q ss_pred CCcccCCCCC
Q 027651 58 KGQFHCDDCG 67 (220)
Q Consensus 58 k~~yHC~~Cg 67 (220)
--.|.|+.||
T Consensus 14 ~v~f~CPnCG 23 (24)
T PF07754_consen 14 AVPFPCPNCG 23 (24)
T ss_pred CceEeCCCCC
Confidence 3567777776
No 262
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=20.94 E-value=47 Score=34.62 Aligned_cols=52 Identities=27% Similarity=0.550 Sum_probs=40.5
Q ss_pred ccccccccCccccee---cCCccccccCCCCCCcccCCCCCccccCCccceeecCCcCcccccc
Q 027651 30 VAQVCTNCGVNMGEY---FCDICKFYDDDIEKGQFHCDDCGICRIGGRENYFHCKRCGSCYSTS 90 (220)
Q Consensus 30 ~~~~C~~Cg~~~a~y---fC~~C~l~dd~~~k~~yHC~~CgiCR~G~~~~~fHC~~C~~C~s~~ 90 (220)
+.-.|.+|++.+..- .|.+|.--.- .+|-+|+.+.+..+++|..|+-+.-.+
T Consensus 752 i~~~~~nc~a~~~~~~~~~c~rc~s~a~---------~~CtVC~~vi~G~~~~c~~C~H~gH~s 806 (839)
T KOG0269|consen 752 IHYACPNCDAPMVLTKLWQCDRCESRAS---------AKCTVCDLVIRGVDVWCQVCGHGGHDS 806 (839)
T ss_pred eeccccccCCccccccceeechHHHHhh---------cCceeecceeeeeEeecccccccccHH
Confidence 345688898877654 8888876533 268899999999999999999886654
No 263
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=20.68 E-value=53 Score=29.27 Aligned_cols=25 Identities=28% Similarity=0.781 Sum_probs=14.9
Q ss_pred cccccccccCcccceec--CCcccccc
Q 027651 29 PVAQVCTNCGVNMGEYF--CDICKFYD 53 (220)
Q Consensus 29 ~~~~~C~~Cg~~~a~yf--C~~C~l~d 53 (220)
.+...|.+||.....|+ |+.|+-|+
T Consensus 352 ~p~~~c~~cg~~~~~~~~~c~~c~~~~ 378 (389)
T PRK11788 352 KPRYRCRNCGFTARTLYWHCPSCKAWE 378 (389)
T ss_pred CCCEECCCCCCCCccceeECcCCCCcc
Confidence 34466777776666555 55555553
No 264
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=20.67 E-value=36 Score=22.10 Aligned_cols=42 Identities=29% Similarity=0.600 Sum_probs=27.3
Q ss_pred CccchhhccccCCceEE-ccCCCccChHHHHHHhc-----CCCCCCCCCC
Q 027651 106 CPICYEYLFDSLRNTTV-MKCGHTMHCECYHEMIK-----RDKYCCPICS 149 (220)
Q Consensus 106 CPICle~lf~s~~~v~~-LpCGH~~H~~C~~~~l~-----~~~~~CPiCr 149 (220)
|+||... .+ ...++. -.|+-.||..|+..-.. ...+.||.|+
T Consensus 2 C~vC~~~-~~-~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQS-DD-DGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTSS-CT-TSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CcCCCCc-CC-CCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 7888883 22 223333 37999999999965433 1357888775
No 265
>PF11405 Inhibitor_I67: Bromelain inhibitor VI; InterPro: IPR022713 Bromelain inhibitor VI is a double-chain inhibitor consisting of an 11-residue and a 41-residue chain. This protein is the 41-residue heavy chain which is joined to the 11-residue chain by disulphide bonds. The inhibitor acts to inhibit the cysteine proteinase bromelain. ; PDB: 2BI6_H 1BI6_H.
Probab=20.66 E-value=39 Score=21.84 Aligned_cols=22 Identities=27% Similarity=0.726 Sum_probs=13.4
Q ss_pred CCCcccccccccCcccceecCC
Q 027651 26 TEQPVAQVCTNCGVNMGEYFCD 47 (220)
Q Consensus 26 ~~q~~~~~C~~Cg~~~a~yfC~ 47 (220)
+...-...|..|.+.||+|.|-
T Consensus 10 tysdcpgfcktckaefgkyicl 31 (41)
T PF11405_consen 10 TYSDCPGFCKTCKAEFGKYICL 31 (41)
T ss_dssp --SS--TT-SSEEEETTEEEE-
T ss_pred ccccCchHHHHHHHHhcceEEE
Confidence 3444456788899999999874
No 266
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=20.63 E-value=1.2e+02 Score=27.09 Aligned_cols=26 Identities=27% Similarity=0.668 Sum_probs=19.6
Q ss_pred EccCCCCcceeeeeEeeecCCCCCCccccc
Q 027651 183 LCNDCNDTTEVYFHIIGQKCSHCKSYNTRS 212 (220)
Q Consensus 183 ~CnDC~~~s~~~~H~lg~kC~~C~SyNT~~ 212 (220)
.|.-||-++.. | ...|++|+|.+|-.
T Consensus 356 ~c~~cg~~~~~---~-~~~c~~c~~~~~~~ 381 (389)
T PRK11788 356 RCRNCGFTART---L-YWHCPSCKAWETIK 381 (389)
T ss_pred ECCCCCCCCcc---c-eeECcCCCCccCcC
Confidence 38888877653 2 35799999999965
No 267
>PRK14704 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=20.51 E-value=74 Score=32.23 Aligned_cols=43 Identities=14% Similarity=0.297 Sum_probs=27.2
Q ss_pred HHHHHHHHhcCCChhhhcCeeEEEccCCCCcceeeeeEeeecCCCCCCcc
Q 027651 160 KRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYN 209 (220)
Q Consensus 160 ~~lD~~i~~~pmP~~y~~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyN 209 (220)
..++. +..+.||-.--+.. .-.|++||..+. ++.+||.|||-+
T Consensus 540 ~lvk~-~~~~~i~Y~sin~~-~~~C~~CGy~g~-----~~~~CP~CG~~d 582 (618)
T PRK14704 540 QIVQA-MAEHGVGYGSINHP-VDRCKCCSYHGV-----IGNECPSCGNED 582 (618)
T ss_pred HHHHH-HHhcCCceEEeCCC-CeecCCCCCCCC-----cCccCcCCCCCC
Confidence 33344 34455665433443 456999997554 237999999976
No 268
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, 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), 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=20.49 E-value=76 Score=19.72 Aligned_cols=25 Identities=24% Similarity=0.804 Sum_probs=13.9
Q ss_pred eecCCccccccCCCCCCcccCCCCCc
Q 027651 43 EYFCDICKFYDDDIEKGQFHCDDCGI 68 (220)
Q Consensus 43 ~yfC~~C~l~dd~~~k~~yHC~~Cgi 68 (220)
.|-|.+|-+.-+. ++.+..|+-||.
T Consensus 2 ~~~C~~CG~i~~g-~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEG-EEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeEC-CcCCCcCcCCCC
Confidence 3667777655221 235556666653
No 269
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=20.31 E-value=85 Score=19.39 Aligned_cols=30 Identities=23% Similarity=0.404 Sum_probs=14.2
Q ss_pred cCeeEEEccCCCCcceeeeeEeeecCCCCCCccc
Q 027651 177 HKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNT 210 (220)
Q Consensus 177 ~~~v~I~CnDC~~~s~~~~H~lg~kC~~C~SyNT 210 (220)
.....-.|.+|+.... .--..|++|+|-|.
T Consensus 7 ~~l~~~rC~~Cg~~~~----pPr~~Cp~C~s~~l 36 (37)
T PF12172_consen 7 GRLLGQRCRDCGRVQF----PPRPVCPHCGSDEL 36 (37)
T ss_dssp T-EEEEE-TTT--EEE----S--SEETTTT----
T ss_pred CEEEEEEcCCCCCEec----CCCcCCCCcCcccc
Confidence 4556778999996532 23357899988653
No 270
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=20.04 E-value=91 Score=33.66 Aligned_cols=53 Identities=19% Similarity=0.444 Sum_probs=39.0
Q ss_pred CCCCCCccchhhccccCCc--eEEc-cCCCccChHHHHHHhcCCCCCCCCCCcCcc
Q 027651 101 SMHHHCPICYEYLFDSLRN--TTVM-KCGHTMHCECYHEMIKRDKYCCPICSKSVI 153 (220)
Q Consensus 101 s~~~~CPICle~lf~s~~~--v~~L-pCGH~~H~~C~~~~l~~~~~~CPiCrksi~ 153 (220)
.....|-||.|++-.+.+. -++- -||-.+.+.|++.=.+.++..||-|+..+.
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3567899999986443322 2222 577789999997666778899999998886
Done!