Query 021224
Match_columns 316
No_of_seqs 277 out of 1412
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 08:34:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021224.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021224hhsearch_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 3.4E-65 7.5E-70 479.6 7.5 245 59-315 21-267 (276)
2 PF14599 zinc_ribbon_6: Zinc-r 99.9 6E-27 1.3E-31 176.1 0.0 61 253-313 1-61 (61)
3 PF05495 zf-CHY: CHY zinc fing 99.9 2.2E-22 4.8E-27 155.2 4.3 68 73-154 1-71 (71)
4 COG4357 Zinc finger domain con 99.5 6.8E-15 1.5E-19 119.4 2.3 71 70-144 12-92 (105)
5 PF13639 zf-RING_2: Ring finge 99.3 1.6E-12 3.5E-17 90.5 2.0 44 205-250 1-44 (44)
6 PF12861 zf-Apc11: Anaphase-pr 99.1 3.5E-11 7.6E-16 96.2 4.0 51 202-254 30-82 (85)
7 PF12678 zf-rbx1: RING-H2 zinc 99.0 6.3E-10 1.4E-14 86.1 4.1 47 203-250 18-73 (73)
8 KOG4628 Predicted E3 ubiquitin 98.9 9.1E-10 2E-14 107.7 3.2 50 205-255 230-279 (348)
9 cd00162 RING RING-finger (Real 98.9 1.9E-09 4.2E-14 72.3 3.8 45 206-253 1-45 (45)
10 PF13923 zf-C3HC4_2: Zinc fing 98.8 2.2E-09 4.8E-14 73.1 3.0 39 207-249 1-39 (39)
11 PF15227 zf-C3HC4_4: zinc fing 98.8 4.8E-09 1E-13 73.3 3.3 39 207-249 1-42 (42)
12 PHA02929 N1R/p28-like protein; 98.7 1E-08 2.2E-13 96.0 4.5 54 201-255 171-228 (238)
13 PF13920 zf-C3HC4_3: Zinc fing 98.7 1.1E-08 2.5E-13 73.0 3.2 47 204-255 2-49 (50)
14 PF00097 zf-C3HC4: Zinc finger 98.7 1.4E-08 3E-13 69.2 3.2 40 207-249 1-41 (41)
15 COG5243 HRD1 HRD ubiquitin lig 98.7 9.2E-09 2E-13 101.1 2.5 56 201-257 284-349 (491)
16 KOG1493 Anaphase-promoting com 98.6 7.2E-09 1.6E-13 81.5 -0.1 51 202-254 29-81 (84)
17 smart00184 RING Ring finger. E 98.6 3.5E-08 7.7E-13 63.9 3.1 39 207-249 1-39 (39)
18 PF13445 zf-RING_UBOX: RING-ty 98.6 2.7E-08 5.9E-13 70.1 2.5 40 207-247 1-43 (43)
19 PF14634 zf-RING_5: zinc-RING 98.5 6.6E-08 1.4E-12 67.6 3.4 44 206-251 1-44 (44)
20 COG5540 RING-finger-containing 98.5 6.2E-08 1.3E-12 93.3 3.5 55 199-254 318-372 (374)
21 PLN03208 E3 ubiquitin-protein 98.5 1.3E-07 2.9E-12 86.0 4.5 55 197-255 11-80 (193)
22 COG5194 APC11 Component of SCF 98.4 1.4E-07 3.1E-12 74.8 3.2 50 204-254 31-81 (88)
23 KOG0804 Cytoplasmic Zn-finger 98.3 3E-07 6.5E-12 92.2 2.7 81 205-313 176-258 (493)
24 PHA02926 zinc finger-like prot 98.3 4.9E-07 1.1E-11 84.0 3.5 56 200-255 166-231 (242)
25 smart00504 Ubox Modified RING 98.3 1E-06 2.2E-11 64.7 4.0 45 205-254 2-46 (63)
26 KOG0802 E3 ubiquitin ligase [P 98.0 1.6E-06 3.6E-11 89.3 1.5 54 200-254 287-341 (543)
27 KOG0320 Predicted E3 ubiquitin 98.0 3.7E-06 8.1E-11 75.7 2.9 48 204-254 131-178 (187)
28 KOG2177 Predicted E3 ubiquitin 98.0 1.1E-05 2.3E-10 71.6 5.7 44 203-251 12-55 (386)
29 KOG0317 Predicted E3 ubiquitin 97.9 6.1E-06 1.3E-10 79.0 2.1 47 204-255 239-285 (293)
30 TIGR00599 rad18 DNA repair pro 97.8 1.2E-05 2.7E-10 80.4 3.4 46 204-254 26-71 (397)
31 KOG0823 Predicted E3 ubiquitin 97.8 1.4E-05 2.9E-10 74.6 3.3 50 202-255 45-96 (230)
32 TIGR00570 cdk7 CDK-activating 97.8 2.4E-05 5.2E-10 76.0 4.2 52 204-255 3-55 (309)
33 smart00744 RINGv The RING-vari 97.7 2.5E-05 5.5E-10 56.3 3.0 43 206-250 1-49 (49)
34 PF04564 U-box: U-box domain; 97.7 7.6E-05 1.6E-09 57.5 5.3 48 204-255 4-51 (73)
35 PF11793 FANCL_C: FANCL C-term 97.6 1.7E-05 3.8E-10 61.0 0.2 51 204-254 2-66 (70)
36 KOG2930 SCF ubiquitin ligase, 97.5 2.1E-05 4.5E-10 65.4 0.2 33 221-254 76-108 (114)
37 KOG0828 Predicted E3 ubiquitin 97.4 6E-05 1.3E-09 76.9 1.5 51 204-254 571-634 (636)
38 KOG0287 Postreplication repair 97.4 0.00011 2.5E-09 72.1 3.1 46 205-255 24-69 (442)
39 KOG2164 Predicted E3 ubiquitin 97.4 0.0001 2.2E-09 75.3 2.9 50 202-255 184-237 (513)
40 KOG0827 Predicted E3 ubiquitin 97.2 0.00015 3.2E-09 72.2 1.8 46 204-250 4-52 (465)
41 COG5574 PEX10 RING-finger-cont 97.1 0.00027 5.8E-09 67.3 2.1 47 204-254 215-262 (271)
42 PF14835 zf-RING_6: zf-RING of 97.1 0.00027 6E-09 54.1 1.7 56 205-266 8-64 (65)
43 KOG4172 Predicted E3 ubiquitin 96.9 0.00021 4.5E-09 53.4 0.0 51 203-257 6-57 (62)
44 COG5432 RAD18 RING-finger-cont 96.7 0.00086 1.9E-08 64.9 2.5 45 205-254 26-70 (391)
45 KOG4265 Predicted E3 ubiquitin 96.6 0.0015 3.2E-08 64.5 2.9 49 202-255 288-337 (349)
46 KOG1734 Predicted RING-contain 96.5 0.00078 1.7E-08 64.5 0.4 52 203-254 223-281 (328)
47 KOG0978 E3 ubiquitin ligase in 96.5 0.00081 1.8E-08 71.4 0.4 47 205-255 644-690 (698)
48 PF14570 zf-RING_4: RING/Ubox 96.4 0.0024 5.2E-08 46.3 2.4 47 207-253 1-47 (48)
49 KOG1039 Predicted E3 ubiquitin 96.3 0.00099 2.2E-08 65.8 -0.2 80 202-283 159-250 (344)
50 PF11789 zf-Nse: Zinc-finger o 96.2 0.0043 9.3E-08 46.2 2.9 44 202-248 9-53 (57)
51 KOG1941 Acetylcholine receptor 96.2 0.00097 2.1E-08 66.7 -1.0 57 195-252 357-414 (518)
52 KOG0311 Predicted E3 ubiquitin 96.1 0.0012 2.7E-08 65.1 -0.4 48 204-254 43-90 (381)
53 KOG1785 Tyrosine kinase negati 96.1 0.0018 4E-08 64.9 0.5 54 197-254 362-416 (563)
54 KOG2879 Predicted E3 ubiquitin 95.9 0.0067 1.4E-07 58.3 3.2 54 201-257 236-290 (298)
55 KOG0824 Predicted E3 ubiquitin 95.7 0.0057 1.2E-07 59.4 2.1 49 202-254 5-53 (324)
56 COG5219 Uncharacterized conser 95.5 0.0069 1.5E-07 66.3 2.0 53 202-254 1467-1523(1525)
57 PF12906 RINGv: RING-variant d 94.9 0.019 4.1E-07 41.0 2.1 41 207-249 1-47 (47)
58 KOG1645 RING-finger-containing 94.7 0.035 7.5E-07 56.1 4.3 49 205-253 5-55 (463)
59 KOG0825 PHD Zn-finger protein 94.7 0.01 2.2E-07 63.9 0.6 50 204-255 123-172 (1134)
60 PF10367 Vps39_2: Vacuolar sor 94.5 0.019 4E-07 45.8 1.5 33 202-236 76-108 (109)
61 PF14447 Prok-RING_4: Prokaryo 94.5 0.015 3.2E-07 43.4 0.8 33 220-255 19-51 (55)
62 KOG1428 Inhibitor of type V ad 94.4 0.037 8.1E-07 63.1 3.8 74 173-254 3462-3544(3738)
63 KOG3800 Predicted E3 ubiquitin 94.2 0.036 7.8E-07 53.7 3.0 49 206-254 2-51 (300)
64 KOG4185 Predicted E3 ubiquitin 93.9 0.054 1.2E-06 51.4 3.6 49 205-254 4-55 (296)
65 KOG4159 Predicted E3 ubiquitin 93.7 0.064 1.4E-06 54.1 3.8 49 202-255 82-130 (398)
66 PRK14890 putative Zn-ribbon RN 93.3 0.056 1.2E-06 40.9 2.0 43 120-169 6-56 (59)
67 KOG1571 Predicted E3 ubiquitin 93.1 0.058 1.3E-06 53.5 2.4 48 199-254 300-347 (355)
68 KOG0297 TNF receptor-associate 93.1 0.057 1.2E-06 54.1 2.3 48 204-255 21-68 (391)
69 COG5175 MOT2 Transcriptional r 93.0 0.032 7E-07 55.3 0.5 57 204-260 14-70 (480)
70 KOG4445 Uncharacterized conser 92.5 0.041 8.8E-07 53.8 0.4 52 203-255 114-187 (368)
71 KOG3268 Predicted E3 ubiquitin 92.5 0.077 1.7E-06 48.5 2.1 32 223-254 187-228 (234)
72 PF05883 Baculo_RING: Baculovi 92.2 0.07 1.5E-06 46.4 1.4 35 204-239 26-66 (134)
73 KOG2817 Predicted E3 ubiquitin 91.9 0.12 2.7E-06 51.8 2.9 47 205-252 335-383 (394)
74 KOG4275 Predicted E3 ubiquitin 91.9 0.029 6.3E-07 54.6 -1.4 54 193-255 286-343 (350)
75 KOG1814 Predicted E3 ubiquitin 91.8 0.19 4.1E-06 50.9 4.2 53 196-250 177-236 (445)
76 COG5152 Uncharacterized conser 91.8 0.095 2.1E-06 48.7 1.8 59 204-267 196-254 (259)
77 KOG3002 Zn finger protein [Gen 91.7 0.21 4.5E-06 48.7 4.3 60 204-274 48-109 (299)
78 KOG1813 Predicted E3 ubiquitin 91.7 0.12 2.6E-06 50.3 2.5 62 202-268 239-300 (313)
79 KOG3970 Predicted E3 ubiquitin 91.5 0.26 5.7E-06 46.6 4.5 51 203-255 49-106 (299)
80 TIGR00100 hypA hydrogenase nic 91.0 0.16 3.5E-06 42.6 2.3 35 280-316 68-102 (115)
81 PF04641 Rtf2: Rtf2 RING-finge 90.5 0.26 5.6E-06 46.6 3.5 51 201-254 110-161 (260)
82 PF12773 DZR: Double zinc ribb 90.1 0.28 6E-06 34.6 2.6 20 124-143 1-23 (50)
83 PRK00564 hypA hydrogenase nick 89.8 0.23 5.1E-06 41.8 2.3 36 279-316 68-104 (117)
84 PF07800 DUF1644: Protein of u 89.5 0.37 7.9E-06 43.2 3.4 33 204-240 2-47 (162)
85 PRK03824 hypA hydrogenase nick 89.4 0.27 5.9E-06 42.4 2.5 37 280-316 68-123 (135)
86 KOG1002 Nucleotide excision re 88.8 0.17 3.8E-06 52.8 1.0 53 198-254 530-586 (791)
87 KOG2660 Locus-specific chromos 88.7 0.12 2.6E-06 50.9 -0.3 49 202-254 13-61 (331)
88 PRK12380 hydrogenase nickel in 88.6 0.31 6.7E-06 40.8 2.2 35 280-316 68-102 (113)
89 PRK03681 hypA hydrogenase nick 88.6 0.32 7E-06 40.8 2.3 36 280-316 68-103 (114)
90 PF07191 zinc-ribbons_6: zinc- 88.2 0.11 2.5E-06 40.5 -0.6 65 205-298 2-69 (70)
91 KOG3039 Uncharacterized conser 87.9 0.53 1.2E-05 45.1 3.5 53 202-256 219-272 (303)
92 COG5236 Uncharacterized conser 87.9 0.51 1.1E-05 47.2 3.5 66 185-254 42-108 (493)
93 KOG2114 Vacuolar assembly/sort 87.8 0.38 8.3E-06 52.5 2.8 43 205-254 841-883 (933)
94 PHA02862 5L protein; Provision 87.2 0.45 9.8E-06 42.1 2.4 46 204-254 2-53 (156)
95 COG2888 Predicted Zn-ribbon RN 86.1 0.46 9.9E-06 36.1 1.6 43 121-169 9-58 (61)
96 PF01155 HypA: Hydrogenase exp 86.0 0.24 5.2E-06 41.3 0.1 35 280-316 68-102 (113)
97 PRK04023 DNA polymerase II lar 86.0 0.63 1.4E-05 51.9 3.3 48 132-188 626-673 (1121)
98 PF03854 zf-P11: P-11 zinc fin 85.8 0.36 7.9E-06 35.2 1.0 32 223-255 15-47 (50)
99 PF07191 zinc-ribbons_6: zinc- 85.6 0.35 7.6E-06 37.8 0.8 33 120-152 16-58 (70)
100 PHA02825 LAP/PHD finger-like p 85.2 0.84 1.8E-05 40.9 3.1 47 203-254 7-59 (162)
101 PF08746 zf-RING-like: RING-li 84.9 0.57 1.2E-05 32.9 1.6 42 207-249 1-43 (43)
102 KOG3161 Predicted E3 ubiquitin 84.4 0.39 8.4E-06 51.2 0.8 43 205-251 12-54 (861)
103 PF13248 zf-ribbon_3: zinc-rib 84.4 0.45 9.8E-06 29.8 0.8 22 121-142 2-26 (26)
104 PRK00762 hypA hydrogenase nick 83.9 0.73 1.6E-05 39.2 2.1 36 280-316 68-108 (124)
105 PF09538 FYDLN_acid: Protein o 83.7 0.68 1.5E-05 38.8 1.8 26 132-169 9-34 (108)
106 COG5222 Uncharacterized conser 82.8 0.78 1.7E-05 45.2 2.1 44 205-251 275-318 (427)
107 KOG0309 Conserved WD40 repeat- 82.8 0.82 1.8E-05 49.7 2.4 48 198-248 1022-1069(1081)
108 COG0375 HybF Zn finger protein 82.5 1 2.2E-05 38.3 2.4 36 279-316 67-102 (115)
109 KOG4739 Uncharacterized protei 81.2 0.62 1.3E-05 44.0 0.7 37 215-254 12-48 (233)
110 PRK14714 DNA polymerase II lar 80.5 1.6 3.4E-05 49.9 3.7 31 122-152 668-700 (1337)
111 KOG4692 Predicted E3 ubiquitin 80.3 1.1 2.5E-05 44.9 2.3 51 200-255 418-468 (489)
112 PRK14559 putative protein seri 79.7 1.2 2.6E-05 47.7 2.4 30 122-151 2-34 (645)
113 PHA03096 p28-like protein; Pro 79.6 1 2.2E-05 43.6 1.7 47 205-251 179-231 (284)
114 PHA00626 hypothetical protein 79.2 1.6 3.4E-05 33.0 2.2 29 134-169 2-31 (59)
115 PRK14714 DNA polymerase II lar 78.8 1.7 3.7E-05 49.6 3.3 33 133-169 668-700 (1337)
116 PF13240 zinc_ribbon_2: zinc-r 78.4 1 2.3E-05 27.7 0.9 19 124-142 2-23 (23)
117 PF10571 UPF0547: Uncharacteri 78.3 1.5 3.3E-05 27.8 1.6 21 123-143 2-25 (26)
118 KOG2034 Vacuolar sorting prote 78.3 0.99 2.1E-05 49.6 1.2 36 203-240 816-851 (911)
119 COG5220 TFB3 Cdk activating ki 77.2 0.84 1.8E-05 43.7 0.3 51 204-254 10-64 (314)
120 KOG1001 Helicase-like transcri 76.6 1.3 2.8E-05 47.7 1.5 45 205-254 455-500 (674)
121 COG5109 Uncharacterized conser 76.5 1.8 3.9E-05 42.9 2.4 45 205-250 337-383 (396)
122 PRK04023 DNA polymerase II lar 76.5 2.2 4.8E-05 47.8 3.3 49 120-173 625-675 (1121)
123 KOG4367 Predicted Zn-finger pr 75.3 1.5 3.3E-05 45.1 1.6 33 204-240 4-36 (699)
124 KOG1952 Transcription factor N 72.0 2.2 4.7E-05 46.9 1.8 48 204-254 191-247 (950)
125 PF02891 zf-MIZ: MIZ/SP-RING z 71.4 5.5 0.00012 28.7 3.3 42 205-252 3-50 (50)
126 TIGR02300 FYDLN_acid conserved 69.6 2.9 6.4E-05 36.2 1.8 26 132-169 9-34 (129)
127 KOG3053 Uncharacterized conser 69.3 2 4.3E-05 41.4 0.8 71 199-269 15-104 (293)
128 PF12773 DZR: Double zinc ribb 65.2 4.6 0.0001 28.3 1.8 22 121-142 12-39 (50)
129 PF05290 Baculo_IE-1: Baculovi 64.3 4.7 0.0001 35.3 2.0 49 204-256 80-134 (140)
130 COG1198 PriA Primosomal protei 64.3 6.8 0.00015 42.7 3.7 48 115-168 428-482 (730)
131 PF07282 OrfB_Zn_ribbon: Putat 63.3 6 0.00013 29.5 2.2 27 132-169 28-54 (69)
132 PF14446 Prok-RING_1: Prokaryo 62.6 8.2 0.00018 28.8 2.7 35 203-238 4-39 (54)
133 KOG1812 Predicted E3 ubiquitin 62.2 3.6 7.8E-05 41.4 1.1 50 204-253 146-202 (384)
134 KOG2462 C2H2-type Zn-finger pr 61.2 7.7 0.00017 37.7 3.0 96 139-258 125-230 (279)
135 KOG2068 MOT2 transcription fac 60.7 6.6 0.00014 38.9 2.6 52 203-255 248-299 (327)
136 PF14569 zf-UDP: Zinc-binding 60.7 8.8 0.00019 30.7 2.8 53 202-254 7-62 (80)
137 TIGR00595 priA primosomal prot 60.1 7.3 0.00016 40.4 2.9 47 82-141 214-262 (505)
138 PRK14890 putative Zn-ribbon RN 60.0 5.9 0.00013 30.1 1.6 33 120-152 24-56 (59)
139 PRK14559 putative protein seri 59.5 5 0.00011 43.1 1.6 33 121-153 15-50 (645)
140 KOG2462 C2H2-type Zn-finger pr 58.1 9.1 0.0002 37.2 2.9 67 119-190 159-255 (279)
141 PF14353 CpXC: CpXC protein 54.9 2.5 5.5E-05 35.4 -1.2 56 244-301 2-57 (128)
142 PF03107 C1_2: C1 domain; Int 54.9 9.3 0.0002 24.6 1.7 20 166-185 2-22 (30)
143 PRK14873 primosome assembly pr 54.8 9.7 0.00021 41.0 2.8 49 81-142 383-432 (665)
144 KOG2907 RNA polymerase I trans 53.6 4.9 0.00011 34.2 0.3 19 298-316 72-94 (116)
145 KOG2066 Vacuolar assembly/sort 52.8 5.4 0.00012 43.7 0.5 45 204-250 784-831 (846)
146 PRK00398 rpoP DNA-directed RNA 52.3 13 0.00029 25.9 2.3 8 161-168 21-28 (46)
147 KOG1701 Focal adhesion adaptor 52.3 2.5 5.3E-05 43.3 -2.0 97 143-254 322-438 (468)
148 smart00659 RPOLCX RNA polymera 51.9 8 0.00017 27.4 1.1 9 133-141 20-28 (44)
149 PRK00398 rpoP DNA-directed RNA 51.7 11 0.00025 26.2 1.9 31 281-311 2-32 (46)
150 KOG0827 Predicted E3 ubiquitin 51.4 1.4 2.9E-05 44.8 -3.9 53 202-255 194-246 (465)
151 COG1198 PriA Primosomal protei 50.7 14 0.00031 40.3 3.3 52 81-145 435-488 (730)
152 smart00249 PHD PHD zinc finger 49.7 7 0.00015 25.7 0.5 41 207-249 2-47 (47)
153 PF08271 TF_Zn_Ribbon: TFIIB z 49.4 14 0.0003 25.4 2.0 8 134-141 2-9 (43)
154 KOG0006 E3 ubiquitin-protein l 49.1 17 0.00036 36.4 3.2 80 153-239 169-254 (446)
155 PF13453 zf-TFIIB: Transcripti 48.9 14 0.00031 25.2 2.0 26 134-168 1-26 (41)
156 PF13894 zf-C2H2_4: C2H2-type 47.8 13 0.00027 21.1 1.4 18 244-261 1-18 (24)
157 COG3809 Uncharacterized protei 47.8 14 0.00031 29.8 2.1 30 244-277 22-53 (88)
158 TIGR02605 CxxC_CxxC_SSSS putat 47.7 14 0.0003 26.1 1.8 33 282-314 5-41 (52)
159 PRK05580 primosome assembly pr 47.4 14 0.00031 39.6 2.7 49 81-142 381-431 (679)
160 PF05605 zf-Di19: Drought indu 47.0 21 0.00045 25.7 2.7 8 244-251 3-10 (54)
161 COG5183 SSM4 Protein involved 46.7 7.3 0.00016 43.1 0.4 51 202-254 10-66 (1175)
162 PF05191 ADK_lid: Adenylate ki 46.6 4.9 0.00011 27.3 -0.6 27 134-169 3-29 (36)
163 PF03833 PolC_DP2: DNA polymer 45.7 6.9 0.00015 43.3 0.0 47 132-187 655-701 (900)
164 KOG0269 WD40 repeat-containing 45.5 20 0.00043 39.4 3.3 78 159-256 751-835 (839)
165 PF04216 FdhE: Protein involve 45.4 16 0.00034 35.0 2.4 28 119-146 195-225 (290)
166 KOG1100 Predicted E3 ubiquitin 45.4 10 0.00022 35.1 1.1 39 207-254 161-200 (207)
167 COG2888 Predicted Zn-ribbon RN 44.8 13 0.00027 28.4 1.3 32 121-152 27-58 (61)
168 PRK12286 rpmF 50S ribosomal pr 44.5 23 0.00051 26.4 2.7 29 281-314 26-54 (57)
169 PF03833 PolC_DP2: DNA polymer 44.0 7.6 0.00016 43.0 0.0 44 121-169 655-700 (900)
170 PF02701 zf-Dof: Dof domain, z 43.2 12 0.00026 28.7 1.0 14 300-313 5-18 (63)
171 KOG1609 Protein involved in mR 43.1 15 0.00032 34.5 1.8 51 204-254 78-134 (323)
172 PHA00626 hypothetical protein 42.2 16 0.00034 27.7 1.4 34 122-155 1-34 (59)
173 KOG2932 E3 ubiquitin ligase in 42.1 11 0.00024 37.5 0.8 30 222-254 105-134 (389)
174 PF06524 NOA36: NOA36 protein; 42.0 10 0.00022 36.9 0.5 49 88-152 140-190 (314)
175 KOG1940 Zn-finger protein [Gen 40.1 5.1 0.00011 38.8 -1.8 29 69-98 176-204 (276)
176 PF11023 DUF2614: Protein of u 39.7 19 0.0004 30.8 1.7 26 117-142 65-95 (114)
177 PF01529 zf-DHHC: DHHC palmito 39.7 22 0.00047 30.5 2.2 49 136-190 40-88 (174)
178 PLN02189 cellulose synthase 39.4 25 0.00054 39.9 3.1 56 199-254 29-87 (1040)
179 TIGR02159 PA_CoA_Oxy4 phenylac 39.3 15 0.00032 32.3 1.1 16 300-315 105-120 (146)
180 smart00734 ZnF_Rad18 Rad18-lik 39.2 28 0.0006 21.9 2.0 20 244-264 2-21 (26)
181 KOG0298 DEAD box-containing he 38.6 11 0.00024 43.4 0.2 51 202-256 1151-1201(1394)
182 PRK00415 rps27e 30S ribosomal 38.5 21 0.00045 27.1 1.6 34 120-153 10-51 (59)
183 COG1996 RPC10 DNA-directed RNA 37.7 23 0.00049 25.9 1.7 28 142-169 4-32 (49)
184 COG1645 Uncharacterized Zn-fin 37.6 18 0.00039 31.6 1.3 20 132-151 28-51 (131)
185 TIGR00595 priA primosomal prot 37.3 36 0.00079 35.3 3.7 46 119-170 211-262 (505)
186 cd00350 rubredoxin_like Rubred 37.3 25 0.00055 23.0 1.7 25 144-169 1-25 (33)
187 KOG4185 Predicted E3 ubiquitin 37.1 6.4 0.00014 37.3 -1.7 50 204-253 207-266 (296)
188 PF00096 zf-C2H2: Zinc finger, 37.0 19 0.00042 20.9 1.0 15 244-258 1-15 (23)
189 PRK00420 hypothetical protein; 36.7 24 0.00051 30.0 1.9 21 132-152 23-48 (112)
190 KOG0826 Predicted E3 ubiquitin 36.6 29 0.00063 34.7 2.7 49 202-254 298-346 (357)
191 PF01096 TFIIS_C: Transcriptio 36.5 24 0.00053 24.1 1.6 34 134-168 2-35 (39)
192 PF05502 Dynactin_p62: Dynacti 36.5 18 0.00039 37.6 1.4 43 139-193 21-67 (483)
193 COG1656 Uncharacterized conser 36.4 24 0.00052 31.9 2.0 49 243-298 97-146 (165)
194 PRK08351 DNA-directed RNA poly 36.2 21 0.00045 27.3 1.3 20 123-142 5-25 (61)
195 smart00661 RPOL9 RNA polymeras 36.1 30 0.00064 24.2 2.0 9 160-168 19-27 (52)
196 PLN02436 cellulose synthase A 35.2 32 0.00069 39.2 3.1 56 199-254 31-89 (1094)
197 PF00643 zf-B_box: B-box zinc 34.0 33 0.00072 22.9 2.0 22 132-153 3-24 (42)
198 PF07649 C1_3: C1-like domain; 33.8 23 0.00051 22.5 1.1 20 167-186 3-23 (30)
199 PF01529 zf-DHHC: DHHC palmito 33.7 24 0.00051 30.3 1.5 36 158-199 45-80 (174)
200 PRK14873 primosome assembly pr 33.4 39 0.00085 36.5 3.3 27 115-143 376-403 (665)
201 PF04438 zf-HIT: HIT zinc fing 33.2 20 0.00044 23.4 0.7 16 135-151 5-20 (30)
202 PF05502 Dynactin_p62: Dynacti 32.9 34 0.00075 35.5 2.7 57 145-216 6-64 (483)
203 COG2051 RPS27A Ribosomal prote 32.9 21 0.00045 27.8 0.8 27 119-145 17-51 (67)
204 PF03604 DNA_RNApol_7kD: DNA d 32.7 28 0.00061 23.1 1.4 24 145-168 1-24 (32)
205 KOG4317 Predicted Zn-finger pr 32.5 20 0.00043 35.8 0.8 20 134-153 9-28 (383)
206 PRK00432 30S ribosomal protein 32.5 30 0.00064 25.1 1.6 10 160-169 36-45 (50)
207 KOG3362 Predicted BBOX Zn-fing 32.3 14 0.00031 32.8 -0.1 25 143-173 117-143 (156)
208 PF14952 zf-tcix: Putative tre 31.6 23 0.00049 25.5 0.8 13 301-313 12-24 (44)
209 smart00778 Prim_Zn_Ribbon Zinc 31.5 49 0.0011 22.7 2.4 30 133-169 4-33 (37)
210 PF15616 TerY-C: TerY-C metal 30.9 51 0.0011 28.7 3.1 21 132-153 77-98 (131)
211 PF06827 zf-FPG_IleRS: Zinc fi 30.8 37 0.0008 21.5 1.7 18 133-150 2-27 (30)
212 KOG4362 Transcriptional regula 30.7 23 0.0005 38.5 1.1 47 204-254 21-69 (684)
213 PF04710 Pellino: Pellino; In 30.6 17 0.00037 37.1 0.1 49 201-252 274-337 (416)
214 PF13717 zinc_ribbon_4: zinc-r 30.4 31 0.00066 23.2 1.3 10 82-91 3-12 (36)
215 KOG1701 Focal adhesion adaptor 30.1 32 0.00069 35.6 1.9 14 227-240 451-464 (468)
216 PF09723 Zn-ribbon_8: Zinc rib 29.9 36 0.00078 23.5 1.6 9 204-212 26-34 (42)
217 PF06677 Auto_anti-p27: Sjogre 29.7 37 0.0008 23.8 1.6 13 132-144 17-29 (41)
218 KOG1312 DHHC-type Zn-finger pr 29.6 16 0.00034 36.1 -0.4 32 165-199 149-180 (341)
219 PF12760 Zn_Tnp_IS1595: Transp 29.5 66 0.0014 22.4 2.9 10 132-141 18-27 (46)
220 TIGR01562 FdhE formate dehydro 29.3 55 0.0012 32.2 3.3 24 281-308 209-232 (305)
221 cd01675 RNR_III Class III ribo 29.3 47 0.001 35.0 3.1 30 280-314 517-546 (555)
222 KOG1815 Predicted E3 ubiquitin 29.0 34 0.00074 34.8 1.9 38 201-241 67-104 (444)
223 COG1998 RPS31 Ribosomal protei 28.8 37 0.00081 25.1 1.5 20 132-151 19-44 (51)
224 PRK00366 ispG 4-hydroxy-3-meth 28.6 74 0.0016 32.2 4.1 53 244-300 269-323 (360)
225 cd02337 ZZ_CBP Zinc finger, ZZ 28.3 38 0.00083 23.5 1.5 20 162-185 1-20 (41)
226 PF01667 Ribosomal_S27e: Ribos 28.2 31 0.00067 25.8 1.1 32 121-152 7-46 (55)
227 PF08274 PhnA_Zn_Ribbon: PhnA 27.6 34 0.00074 22.5 1.1 23 134-168 4-26 (30)
228 PRK06266 transcription initiat 27.2 36 0.00077 30.7 1.5 10 204-213 136-145 (178)
229 cd02249 ZZ Zinc finger, ZZ typ 27.0 42 0.00092 23.3 1.6 21 162-185 1-21 (46)
230 TIGR00373 conserved hypothetic 26.8 33 0.00071 30.3 1.2 8 179-186 129-136 (158)
231 PRK14810 formamidopyrimidine-D 26.1 38 0.00083 32.3 1.6 20 132-151 244-271 (272)
232 KOG0801 Predicted E3 ubiquitin 25.8 26 0.00056 32.0 0.3 29 203-232 176-204 (205)
233 KOG3842 Adaptor protein Pellin 25.7 34 0.00074 34.3 1.2 46 201-251 287-349 (429)
234 PRK14811 formamidopyrimidine-D 25.6 40 0.00087 32.1 1.6 20 132-151 235-262 (269)
235 PRK10445 endonuclease VIII; Pr 25.6 41 0.00088 32.0 1.7 20 132-151 235-262 (263)
236 PF10272 Tmpp129: Putative tra 25.6 78 0.0017 31.9 3.7 26 229-254 314-351 (358)
237 COG5595 Zn-ribbon-containing, 25.4 42 0.0009 31.6 1.6 38 244-299 219-256 (256)
238 PF15353 HECA: Headcase protei 25.4 41 0.00088 28.5 1.4 16 225-240 39-54 (107)
239 smart00451 ZnF_U1 U1-like zinc 25.3 33 0.00072 21.8 0.7 11 143-153 2-12 (35)
240 KOG4399 C2HC-type Zn-finger pr 24.9 17 0.00037 35.4 -1.0 63 123-189 240-302 (325)
241 PF06220 zf-U1: U1 zinc finger 24.9 29 0.00063 23.7 0.4 13 142-154 1-13 (38)
242 PF14319 Zn_Tnp_IS91: Transpos 24.9 42 0.0009 28.0 1.4 11 132-142 42-52 (111)
243 cd00729 rubredoxin_SM Rubredox 24.8 54 0.0012 21.8 1.7 20 122-141 3-27 (34)
244 smart00132 LIM Zinc-binding do 24.8 42 0.00091 21.1 1.1 37 207-254 2-38 (39)
245 TIGR01384 TFS_arch transcripti 24.7 57 0.0012 26.2 2.1 10 243-252 62-71 (104)
246 PF04423 Rad50_zn_hook: Rad50 24.4 46 0.001 23.9 1.4 12 245-256 22-33 (54)
247 KOG1044 Actin-binding LIM Zn-f 24.1 1.1E+02 0.0023 33.1 4.4 136 156-308 11-168 (670)
248 PRK01103 formamidopyrimidine/5 24.1 45 0.00098 31.7 1.7 20 132-151 245-272 (274)
249 PF06906 DUF1272: Protein of u 24.1 1.2E+02 0.0025 23.0 3.4 48 203-255 4-53 (57)
250 PLN02638 cellulose synthase A 24.0 64 0.0014 36.9 3.0 56 199-254 12-70 (1079)
251 COG5273 Uncharacterized protei 24.0 37 0.0008 33.2 1.1 23 133-155 98-120 (309)
252 PF13719 zinc_ribbon_5: zinc-r 23.8 45 0.00099 22.4 1.2 9 121-129 25-33 (37)
253 TIGR01031 rpmF_bact ribosomal 23.7 55 0.0012 24.2 1.7 29 281-314 25-53 (55)
254 PRK06393 rpoE DNA-directed RNA 23.5 40 0.00086 26.0 0.9 22 121-142 5-27 (64)
255 PF12172 DUF35_N: Rubredoxin-l 23.4 36 0.00077 22.6 0.6 20 121-140 11-33 (37)
256 PLN03086 PRLI-interacting fact 23.2 50 0.0011 35.2 1.9 14 117-130 403-416 (567)
257 KOG4399 C2HC-type Zn-finger pr 22.8 17 0.00038 35.3 -1.4 74 137-213 197-270 (325)
258 PF09986 DUF2225: Uncharacteri 22.5 20 0.00044 33.0 -1.0 13 243-255 5-17 (214)
259 PF14803 Nudix_N_2: Nudix N-te 22.4 82 0.0018 21.2 2.2 28 134-168 2-29 (34)
260 KOG2593 Transcription initiati 22.1 45 0.00097 34.4 1.3 11 132-142 128-138 (436)
261 PF06937 EURL: EURL protein; 21.9 71 0.0015 31.2 2.5 43 202-247 28-74 (285)
262 TIGR00577 fpg formamidopyrimid 21.8 53 0.0011 31.3 1.6 19 132-150 245-271 (272)
263 cd02345 ZZ_dah Zinc finger, ZZ 21.7 66 0.0014 23.0 1.7 26 283-311 1-26 (49)
264 PRK14892 putative transcriptio 21.6 86 0.0019 26.0 2.6 32 176-213 19-51 (99)
265 PF09297 zf-NADH-PPase: NADH p 21.6 34 0.00073 22.1 0.2 19 123-141 5-30 (32)
266 PRK02935 hypothetical protein; 21.5 61 0.0013 27.5 1.7 24 119-142 68-96 (110)
267 smart00531 TFIIE Transcription 21.2 33 0.00071 29.7 0.1 10 133-142 100-109 (147)
268 KOG1428 Inhibitor of type V ad 21.0 41 0.00089 40.2 0.8 36 115-150 3626-3662(3738)
269 PF07754 DUF1610: Domain of un 20.9 68 0.0015 20.2 1.4 9 160-168 15-23 (24)
270 PRK13945 formamidopyrimidine-D 20.7 58 0.0013 31.2 1.7 19 132-150 254-280 (282)
271 PRK06266 transcription initiat 20.7 32 0.00068 31.1 -0.1 9 134-142 119-127 (178)
272 COG5273 Uncharacterized protei 20.7 57 0.0012 31.9 1.6 31 166-199 111-141 (309)
273 smart00647 IBR In Between Ring 20.5 44 0.00095 23.8 0.6 19 220-238 39-58 (64)
274 PLN00209 ribosomal protein S27 20.4 61 0.0013 26.4 1.5 35 120-154 35-77 (86)
275 PF00130 C1_1: Phorbol esters/ 20.3 82 0.0018 21.9 2.0 12 158-169 25-36 (53)
No 1
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=100.00 E-value=3.4e-65 Score=479.65 Aligned_cols=245 Identities=52% Similarity=1.059 Sum_probs=237.6
Q ss_pred CCchhhccCCCccCCcccccCcceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCC
Q 021224 59 GSTELLRKGFMEYGCQHYRRRCRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCV 136 (316)
Q Consensus 59 ~~~~~~~~~~~~~gC~HY~r~c~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~ 136 (316)
.+.+++|++.+++||+||+|++.+++|+|++||+||+||+++. +|.++|+.|.+++|+.|+++| +++|.
T Consensus 21 ~~~~~~d~~~~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s~---------~h~~~r~~v~~~~C~~C~~~q~~~~~c~ 91 (276)
T KOG1940|consen 21 IHSDAEDEIAFPYGCPHYRRNCKSRAPCCDREITCRHCHNESE---------DHDLDRKTVYELLCMKCRKIQPVGQICS 91 (276)
T ss_pred cccccccccccccCCchhhhccccccccccceeeeEEecChhh---------hcccchhhhhhhhhhhHHhhhhhhhccc
Confidence 3457889999999999999999999999999999999999964 899999999999999999999 89999
Q ss_pred CCCCccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccceeccccccccccCCCCCCCCccccccccc
Q 021224 137 NCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFE 216 (316)
Q Consensus 137 ~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~E~~~~~~CPIClE~lf~ 216 (316)
+|+..+|+|||.+|+||||+++ +||||+.|||||+|++++||||++|+.|++..+.+.|+|+|++++.+||||.|++|+
T Consensus 92 ~c~~~~g~~~c~~C~l~dd~~~-~~~hC~~C~icr~g~~~~~fhc~~c~~c~~~~~~~~H~c~e~~~~~ncPic~e~l~~ 170 (276)
T KOG1940|consen 92 NCHVELGEYYCLICKLFDDDPS-KQYHCDLCGICREGLGLDFFHCKKCKACLSAYLSNWHKCVERSSEFNCPICKEYLFL 170 (276)
T ss_pred cchhhhhhhcCccccccccccc-ceeccccccccccccccchhHHhhhHhHHhhhcccccchhhhcccCCCchhHHHhcc
Confidence 9999999999999999999998 999999999999999999999999999999999999999999999999999999999
Q ss_pred CCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEEcCCCCCCccccc
Q 021224 217 TRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQF 296 (316)
Q Consensus 217 s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~IlCnDC~~~s~~~f 296 (316)
+...+..|+|||++|..|++++...+ |+||+|.+ +.||+.+|+++|.+|+++|||++|++++++|+||||+..++++|
T Consensus 171 s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y~~~~~~i~cndC~~~~~~k~ 248 (276)
T KOG1940|consen 171 SFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK-PGDMSHYFRKLDKELAGSPMPEEYKNKTQDILCNDCGSGTNVKY 248 (276)
T ss_pred ccccCCccCcccchHHHHHHHHhccC-CCCCcccc-hHHHHHHHHHHHHHHhcCCCCchhhchhheeeccCCCCCCccce
Confidence 99999999999999999999998865 99999999 99999999999999999999999999999999999999999999
Q ss_pred eeeeecCCCCCCccccccC
Q 021224 297 HVLAQKCPNCKSYNTRLTR 315 (316)
Q Consensus 297 H~lg~kC~~C~SyNT~~~~ 315 (316)
|||++||+.|+|||||+++
T Consensus 249 ~~l~~kc~~c~~~~~r~~~ 267 (276)
T KOG1940|consen 249 HILYHKCGKCGSYNTRMIS 267 (276)
T ss_pred ehhhhhCCCcccceeeecc
Confidence 9999999999999999985
No 2
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=99.92 E-value=6e-27 Score=176.07 Aligned_cols=61 Identities=66% Similarity=1.160 Sum_probs=22.6
Q ss_pred ccchhHHHHHhHHHHHcCCCChhhhcCcceEEcCCCCCCccccceeeeecCCCCCCccccc
Q 021224 253 VCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRL 313 (316)
Q Consensus 253 ~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~ 313 (316)
+.||+.+|+.||++|+++|||++|++++++|+||||+++|+|+||||||||++|+||||||
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 4689999999999999999999999999999999999999999999999999999999997
No 3
>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=99.86 E-value=2.2e-22 Score=155.20 Aligned_cols=68 Identities=47% Similarity=1.148 Sum_probs=50.4
Q ss_pred CcccccC-cceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCCCCCCccceeecCc
Q 021224 73 CQHYRRR-CRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVCMGEYFCES 149 (316)
Q Consensus 73 C~HY~r~-c~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~~Cg~~f~~YfC~~ 149 (316)
|+||+|+ |+|+||||++|||||+||||+. +|+++|+.+++|+||.|+++| ++. +|+ ++|+|++
T Consensus 1 C~HY~~~~~~~~~~cC~~~y~C~~CHde~~---------~H~~~~~~~~~v~Cg~C~~~~~~~~~--~c~---~~~~C~~ 66 (71)
T PF05495_consen 1 CKHYHRSLCAIRFPCCGKYYPCRFCHDELE---------DHPFDRWPVKRVICGKCRTEQPIDEY--SCG---ADYFCPI 66 (71)
T ss_dssp -SS---S-EEEEETTTTEEESSHHHHHHCS---------SS---TTT--EEEETTT--EEES-SB--TT-----SEEETT
T ss_pred CCCCCCCcEEEECCcccCeecHHHHHHHhc---------cCccccccccCeECCCCCCccChhhh--hcC---CCccCcC
Confidence 8999999 9999999999999999999964 899999999999999999999 444 777 9999999
Q ss_pred ccccc
Q 021224 150 CKLFD 154 (316)
Q Consensus 150 C~l~d 154 (316)
|++||
T Consensus 67 C~~~~ 71 (71)
T PF05495_consen 67 CGLYF 71 (71)
T ss_dssp TTEEE
T ss_pred cCCCC
Confidence 99986
No 4
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=99.50 E-value=6.8e-15 Score=119.42 Aligned_cols=71 Identities=23% Similarity=0.594 Sum_probs=63.2
Q ss_pred ccCCcccccC---cceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc-------cCCCCCCC
Q 021224 70 EYGCQHYRRR---CRIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ-------KQVCVNCG 139 (316)
Q Consensus 70 ~~gC~HY~r~---c~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q-------~~~C~~Cg 139 (316)
+.||.||++. ++|||.+|++||+|++||||++.|+ ++.|+++....+.||||.|.++. ...||+|.
T Consensus 12 etRC~Hyht~~Diialkc~~C~kyYaCy~CHdel~~Hp----f~p~~~~~~~~~~iiCGvC~~~LT~~EY~~~~~Cp~C~ 87 (105)
T COG4357 12 ETRCLHYHTPLDIIALKCKCCQKYYACYHCHDELEDHP----FEPWGLQEFNPKAIICGVCRKLLTRAEYGMCGSCPYCQ 87 (105)
T ss_pred cceeeEecCccceEeeeechhhhhhhHHHHHhHHhcCC----CccCChhhcCCccEEhhhhhhhhhHHHHhhcCCCCCcC
Confidence 4589999996 7899999999999999999999886 57888888889999999999873 57899999
Q ss_pred Cccce
Q 021224 140 VCMGE 144 (316)
Q Consensus 140 ~~f~~ 144 (316)
.+||.
T Consensus 88 spFNp 92 (105)
T COG4357 88 SPFNP 92 (105)
T ss_pred CCCCc
Confidence 99973
No 5
>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=99.27 E-value=1.6e-12 Score=90.48 Aligned_cols=44 Identities=39% Similarity=1.061 Sum_probs=36.8
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCC
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 250 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCr 250 (316)
++||||++.+. ..+.++.|+|||.||.+||.+|++. +.+||+||
T Consensus 1 d~C~IC~~~~~-~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFE-DGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHH-TTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCCcCCChhhc-CCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 46999999754 4667889999999999999999986 58999997
No 6
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.14 E-value=3.5e-11 Score=96.21 Aligned_cols=51 Identities=20% Similarity=0.471 Sum_probs=41.1
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC--CCCCCCCCcccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVC 254 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~--~~~CPiCrks~~ 254 (316)
+++..||.|..+ ...-+++...|+|.||.+||.+|++.. +.+||+||.++.
T Consensus 30 ~fdg~Cp~Ck~P--gd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 30 PFDGCCPDCKFP--GDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred ccccCCCCccCC--CCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 556789999964 334567788999999999999999853 467999998875
No 7
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.95 E-value=6.3e-10 Score=86.13 Aligned_cols=47 Identities=28% Similarity=0.786 Sum_probs=36.1
Q ss_pred CCCCCcccccccccC---------CceeEEcCCCCccchhHHHHHHhcCCCCCCCCC
Q 021224 203 MHHDCPVCCEYLFET---------RQDVIVLPCGHTIHKNCLKEMREHHQYACPICS 250 (316)
Q Consensus 203 ~~~~CPIClE~lf~s---------~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCr 250 (316)
.+++|+||++.|.+. ..+++.++|||.||..||.+||+. +.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence 356799999987332 245567799999999999999985 46999998
No 8
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=9.1e-10 Score=107.67 Aligned_cols=50 Identities=28% Similarity=0.824 Sum_probs=44.9
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
..|+||||+ |..++.++.|||+|.||..|++.||...+..||+|+.++.+
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 599999996 88899999999999999999999998665669999998864
No 9
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.87 E-value=1.9e-09 Score=72.34 Aligned_cols=45 Identities=33% Similarity=1.041 Sum_probs=36.9
Q ss_pred CCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccc
Q 021224 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253 (316)
Q Consensus 206 ~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~ 253 (316)
.|+||++.+ ..++.+++|||.||..|+..|++..+.+||+|++.+
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 499999964 235666779999999999999986567899999764
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=98.84 E-value=2.2e-09 Score=73.13 Aligned_cols=39 Identities=41% Similarity=1.110 Sum_probs=32.6
Q ss_pred CcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCC
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiC 249 (316)
||||++.+.+ ++++++|||+|+.+|+.+|++. +.+||+|
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 8999996433 6689999999999999999987 6899998
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.78 E-value=4.8e-09 Score=73.28 Aligned_cols=39 Identities=38% Similarity=1.199 Sum_probs=28.9
Q ss_pred CcccccccccCCceeEEcCCCCccchhHHHHHHhcC---CCCCCCC
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH---QYACPIC 249 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~---~~~CPiC 249 (316)
||||++. |+ +++.|+|||+|+..||..|++.. .+.||+|
T Consensus 1 CpiC~~~-~~---~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDL-FK---DPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB--S---SEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchh-hC---CccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999994 55 58899999999999999988652 2579998
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.72 E-value=1e-08 Score=96.01 Aligned_cols=54 Identities=19% Similarity=0.609 Sum_probs=41.8
Q ss_pred CCCCCCCcccccccccCCc----eeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 201 GAMHHDCPVCCEYLFETRQ----DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 201 ~~~~~~CPIClE~lf~s~~----~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
.+.+..||||+|.+.+... -.++++|||.||..||.+|++. +.+||+||.++..
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~~ 228 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEeeE
Confidence 3456899999997654321 1345689999999999999985 5799999998763
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=98.70 E-value=1.1e-08 Score=72.98 Aligned_cols=47 Identities=34% Similarity=0.982 Sum_probs=38.0
Q ss_pred CCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
+..|+||++. ...++++||||. |+..|+..|++ ...+||+||+++..
T Consensus 2 ~~~C~iC~~~----~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFEN----PRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSS----BSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-SE
T ss_pred cCCCccCCcc----CCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhcC
Confidence 3579999984 235889999999 99999999998 46899999998753
No 14
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.69 E-value=1.4e-08 Score=69.18 Aligned_cols=40 Identities=43% Similarity=1.116 Sum_probs=33.3
Q ss_pred CcccccccccCCceeEEcCCCCccchhHHHHHHh-cCCCCCCCC
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE-HHQYACPIC 249 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~-~~~~~CPiC 249 (316)
||||++.+.. +..+++|||.|+..|+.+|++ ...+.||+|
T Consensus 1 C~iC~~~~~~---~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED---PVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS---EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC---CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 7999995332 446899999999999999988 556889998
No 15
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=9.2e-09 Score=101.09 Aligned_cols=56 Identities=38% Similarity=0.820 Sum_probs=47.1
Q ss_pred CCCCCCCcccccccccCC---------ceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccc-cchh
Q 021224 201 GAMHHDCPVCCEYLFETR---------QDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV-CDMS 257 (316)
Q Consensus 201 ~~~~~~CPIClE~lf~s~---------~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~-~d~~ 257 (316)
.+.+..|.||+|.|+.++ ..+..|||||.+|.+|++.|+++ +-+||+||.++ .|+.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~ifd~~ 349 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPVIFDQS 349 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCccccccC
Confidence 567889999999988765 34578999999999999999986 58999999994 4543
No 16
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=7.2e-09 Score=81.47 Aligned_cols=51 Identities=22% Similarity=0.446 Sum_probs=39.7
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc--CCCCCCCCCcccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPICSKSVC 254 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~--~~~~CPiCrks~~ 254 (316)
+++..||-|.- ....-|.++.-|.|.||..||.+|+.. ++-.||+||.++.
T Consensus 29 ~Fdg~Cp~Ck~--PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 29 PFDGCCPDCKL--PGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccCCcCCCCcC--CCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 56788999984 444456666689999999999999864 3456999998764
No 17
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.60 E-value=3.5e-08 Score=63.85 Aligned_cols=39 Identities=44% Similarity=1.130 Sum_probs=33.2
Q ss_pred CcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCC
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPIC 249 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiC 249 (316)
|+||++. ...++.++|||.||..|+..|++....+||+|
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 7999985 34688899999999999999997555789987
No 18
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.59 E-value=2.7e-08 Score=70.14 Aligned_cols=40 Identities=38% Similarity=1.053 Sum_probs=24.6
Q ss_pred CcccccccccCCceeEEcCCCCccchhHHHHHHhcC---CCCCC
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH---QYACP 247 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~---~~~CP 247 (316)
||||+| +.+...++++|+|||+|+++|+++|++.+ .++||
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 55556778999999999999999998743 46687
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.54 E-value=6.6e-08 Score=67.64 Aligned_cols=44 Identities=32% Similarity=0.839 Sum_probs=37.0
Q ss_pred CCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCc
Q 021224 206 DCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK 251 (316)
Q Consensus 206 ~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrk 251 (316)
.|+||++.+ .....+.+++|||+|+..|+..+. .....||+||+
T Consensus 1 ~C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKY-SEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccc-cCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 489999964 555678899999999999999998 34578999985
No 20
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=6.2e-08 Score=93.25 Aligned_cols=55 Identities=27% Similarity=0.671 Sum_probs=46.0
Q ss_pred cCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 199 VEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 199 ~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
+|....-+|+|||++ |...+.+++|||.|.||..|+.+|+...+.+||+||.++.
T Consensus 318 ~ea~~GveCaICms~-fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 318 VEADKGVECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred HhcCCCceEEEEhhh-hcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 344455789999997 5667789999999999999999999755678999998764
No 21
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.48 E-value=1.3e-07 Score=85.97 Aligned_cols=55 Identities=25% Similarity=0.636 Sum_probs=42.2
Q ss_pred cccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc---------------CCCCCCCCCccccc
Q 021224 197 PCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH---------------HQYACPICSKSVCD 255 (316)
Q Consensus 197 ~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~---------------~~~~CPiCrks~~d 255 (316)
+=++...+..||||++. +. ++++++|||.||..||.+|+.. ...+||+||..+..
T Consensus 11 ~~~~~~~~~~CpICld~-~~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 11 TLVDSGGDFDCNICLDQ-VR---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred eeccCCCccCCccCCCc-CC---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 33444557899999995 33 4677899999999999999842 13579999998864
No 22
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.44 E-value=1.4e-07 Score=74.82 Aligned_cols=50 Identities=20% Similarity=0.436 Sum_probs=37.9
Q ss_pred CCCCcccccccccC-CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFET-RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s-~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.+.||-|...+... .-+++...|.|.||.+||..||.. +..||++|+++.
T Consensus 31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~ 81 (88)
T COG5194 31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWV 81 (88)
T ss_pred cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeE
Confidence 35677787533222 234566789999999999999985 588999999876
No 23
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.30 E-value=3e-07 Score=92.17 Aligned_cols=81 Identities=27% Similarity=0.646 Sum_probs=65.6
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEE
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWIL 284 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~Il 284 (316)
-.||||||.|..+...++...|.|+||-.|+..|.. .+||+||....+ + +. ..-+
T Consensus 176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q~p-~---------------~v------e~~~ 230 (493)
T KOG0804|consen 176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQSP-S---------------VV------ESSL 230 (493)
T ss_pred CCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhhhcCc-c---------------hh------hhhh
Confidence 469999999999998999999999999999999953 689999954331 1 11 2346
Q ss_pred cCCCCCCccccceeeeecCC--CCCCccccc
Q 021224 285 CNDCGKTSNVQFHVLAQKCP--NCKSYNTRL 313 (316)
Q Consensus 285 CnDC~~~s~~~fH~lg~kC~--~C~SyNT~~ 313 (316)
|..|+...++ |+-+.|+ +||-|+-..
T Consensus 231 c~~c~~~~~L---wicliCg~vgcgrY~egh 258 (493)
T KOG0804|consen 231 CLACGCTEDL---WICLICGNVGCGRYKEGH 258 (493)
T ss_pred hhhhcccccE---EEEEEccceecccccchh
Confidence 9999988888 8999998 599998653
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=98.29 E-value=4.9e-07 Score=83.98 Aligned_cols=56 Identities=20% Similarity=0.536 Sum_probs=42.1
Q ss_pred CCCCCCCCcccccccccC-----CceeEEcCCCCccchhHHHHHHhcC-----CCCCCCCCccccc
Q 021224 200 EGAMHHDCPVCCEYLFET-----RQDVIVLPCGHTIHKNCLKEMREHH-----QYACPICSKSVCD 255 (316)
Q Consensus 200 E~~~~~~CPIClE~lf~s-----~~~~v~LpCGH~fH~~Ci~~wl~~~-----~~~CPiCrks~~d 255 (316)
+.+.+..|+||||.+++. +...++.+|+|.||..||..|.+.. ..+||+||..+..
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 456678999999976542 1224566999999999999998642 2459999987763
No 25
>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=98.26 E-value=1e-06 Score=64.68 Aligned_cols=45 Identities=20% Similarity=0.473 Sum_probs=38.2
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
..||||++. ++ ++++++|||+|.++||.+|++. +.+||+|++++.
T Consensus 2 ~~Cpi~~~~-~~---~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEV-MK---DPVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCc-CC---CCEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCC
Confidence 469999995 44 3578899999999999999985 678999998884
No 26
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=1.6e-06 Score=89.28 Aligned_cols=54 Identities=31% Similarity=0.644 Sum_probs=43.6
Q ss_pred CCCCCCCCcccccccccCC-ceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 200 EGAMHHDCPVCCEYLFETR-QDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 200 E~~~~~~CPIClE~lf~s~-~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
....+..|+||+|.|.... ..+..|||||.||..|+..|++. ..+||+||..+.
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLY 341 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhh
Confidence 3456889999999887632 12578999999999999999986 589999998443
No 27
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=3.7e-06 Score=75.69 Aligned_cols=48 Identities=25% Similarity=0.754 Sum_probs=38.6
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
-..|||||+.. . .+-++...|||.|+.+||+..++. ...||+|+|-+.
T Consensus 131 ~~~CPiCl~~~-s-ek~~vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt 178 (187)
T KOG0320|consen 131 TYKCPICLDSV-S-EKVPVSTKCGHVFCSQCIKDALKN-TNKCPTCRKKIT 178 (187)
T ss_pred ccCCCceecch-h-hccccccccchhHHHHHHHHHHHh-CCCCCCcccccc
Confidence 37899999963 2 333466899999999999999985 578999998654
No 28
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=1.1e-05 Score=71.56 Aligned_cols=44 Identities=39% Similarity=1.051 Sum_probs=37.2
Q ss_pred CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCc
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK 251 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrk 251 (316)
.+..||||+++ |.. + ++|||||+|+..|+..++. ....||.||.
T Consensus 12 ~~~~C~iC~~~-~~~--p-~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEY-FRE--P-VLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHH-hhc--C-ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 46789999996 442 2 8999999999999999887 5688999994
No 29
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=6.1e-06 Score=79.01 Aligned_cols=47 Identities=28% Similarity=0.718 Sum_probs=39.2
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
...|.+|||. +..+...||||.|+-.||.+|... ..-||+||..+..
T Consensus 239 ~~kC~LCLe~----~~~pSaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~p 285 (293)
T KOG0317|consen 239 TRKCSLCLEN----RSNPSATPCGHIFCWSCILEWCSE-KAECPLCREKFQP 285 (293)
T ss_pred CCceEEEecC----CCCCCcCcCcchHHHHHHHHHHcc-ccCCCcccccCCC
Confidence 4679999984 446778999999999999999975 4669999987754
No 30
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.81 E-value=1.2e-05 Score=80.37 Aligned_cols=46 Identities=24% Similarity=0.699 Sum_probs=38.8
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
...|+||++. +. .+++++|||.||..||..|+.. ...||+|+..+.
T Consensus 26 ~l~C~IC~d~-~~---~PvitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~ 71 (397)
T TIGR00599 26 SLRCHICKDF-FD---VPVLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQ 71 (397)
T ss_pred ccCCCcCchh-hh---CccCCCCCCchhHHHHHHHHhC-CCCCCCCCCccc
Confidence 5789999995 44 3567899999999999999975 468999998876
No 31
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=1.4e-05 Score=74.56 Aligned_cols=50 Identities=28% Similarity=0.662 Sum_probs=38.6
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC--CCCCCCCCccccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICSKSVCD 255 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~--~~~CPiCrks~~d 255 (316)
...-+|-||||- . +++++..|||.|+--||-+||... ...||+|+..+..
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 456899999983 2 355666699999999999999753 2348999977763
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=97.76 E-value=2.4e-05 Score=75.96 Aligned_cols=52 Identities=23% Similarity=0.568 Sum_probs=39.2
Q ss_pred CCCCcccccccccCCcee-EEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 204 HHDCPVCCEYLFETRQDV-IVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~-v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
+..||||+...+.+..-. .+-+|||.||.+|+..++..+...||+|++++..
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 457999998655554322 2227999999999999766566789999987763
No 33
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.74 E-value=2.5e-05 Score=56.30 Aligned_cols=43 Identities=28% Similarity=0.724 Sum_probs=33.4
Q ss_pred CCcccccccccCCceeEEcCCC-----CccchhHHHHHHhcC-CCCCCCCC
Q 021224 206 DCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICS 250 (316)
Q Consensus 206 ~CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~~-~~~CPiCr 250 (316)
.|-||++ +.+...+.+.||. |.+|..|+.+|+... +.+||+|+
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 3889997 3344566788994 999999999999653 45799995
No 34
>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=97.69 E-value=7.6e-05 Score=57.50 Aligned_cols=48 Identities=25% Similarity=0.551 Sum_probs=36.8
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
+..|||+++ ++. +++++|+||+|-+.+|.+|+.....+||+++.++..
T Consensus 4 ~f~CpIt~~-lM~---dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 4 EFLCPITGE-LMR---DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGB-TTTSS-B-S---SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred ccCCcCcCc-Hhh---CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 457999998 454 578899999999999999998757899999988864
No 35
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.57 E-value=1.7e-05 Score=61.02 Aligned_cols=51 Identities=27% Similarity=0.656 Sum_probs=23.4
Q ss_pred CCCCcccccccccCC-ceeEEc---CCCCccchhHHHHHHhc---CC-------CCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETR-QDVIVL---PCGHTIHKNCLKEMREH---HQ-------YACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~-~~~v~L---pCGH~fH~~Ci~~wl~~---~~-------~~CPiCrks~~ 254 (316)
+.+|+||++++.+.. .+.++- .|+..||..||.+|+.. .+ -+||.|++++.
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 467999998765232 333332 69999999999999863 11 24999998875
No 36
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.54 E-value=2.1e-05 Score=65.37 Aligned_cols=33 Identities=24% Similarity=0.509 Sum_probs=28.8
Q ss_pred eEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 221 VIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 221 ~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
++..-|.|+||..||..||+. +..||++.+.+.
T Consensus 76 VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~eW~ 108 (114)
T KOG2930|consen 76 VAWGVCNHAFHFHCISRWLKT-RNVCPLDNKEWV 108 (114)
T ss_pred EEeeecchHHHHHHHHHHHhh-cCcCCCcCccee
Confidence 456689999999999999985 589999999875
No 37
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=6e-05 Score=76.87 Aligned_cols=51 Identities=25% Similarity=0.706 Sum_probs=38.9
Q ss_pred CCCCcccccccccC-------------CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFET-------------RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s-------------~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
..+|+|||.++..- ++..++.||.|.||++|+++|+......||+||.++.
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 46899999765211 1235667999999999999999754457999998775
No 38
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.38 E-value=0.00011 Score=72.07 Aligned_cols=46 Identities=30% Similarity=0.823 Sum_probs=39.2
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
..|-||.|| |. -+++.||||+|+.-||..+|.. +..||.|+.++..
T Consensus 24 LRC~IC~ey-f~---ip~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 24 LRCGICFEY-FN---IPMITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTE 69 (442)
T ss_pred HHHhHHHHH-hc---CceeccccchHHHHHHHHHhcc-CCCCCceecccch
Confidence 469999996 54 4678899999999999999974 6899999988863
No 39
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=0.0001 Score=75.29 Aligned_cols=50 Identities=24% Similarity=0.604 Sum_probs=36.9
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC----CCCCCCCCccccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH----QYACPICSKSVCD 255 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~----~~~CPiCrks~~d 255 (316)
+++..|||||++ .. -++.+.|||.||..||.+|+... -..||+|+..+..
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 347899999986 22 23445599999999999976542 2459999977763
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.20 E-value=0.00015 Score=72.19 Aligned_cols=46 Identities=28% Similarity=0.680 Sum_probs=37.4
Q ss_pred CCCCcccccccccCCceeEEcC-CCCccchhHHHHHHhcC--CCCCCCCC
Q 021224 204 HHDCPVCCEYLFETRQDVIVLP-CGHTIHKNCLKEMREHH--QYACPICS 250 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~Lp-CGH~fH~~Ci~~wl~~~--~~~CPiCr 250 (316)
...|.|| ++++....++..+. |||+||..|+.+|+... +..||+|+
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 3579999 55787777777665 99999999999999763 24799999
No 41
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.08 E-value=0.00027 Score=67.26 Aligned_cols=47 Identities=28% Similarity=0.582 Sum_probs=37.3
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHH-HHhcCCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKE-MREHHQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~-wl~~~~~~CPiCrks~~ 254 (316)
+..|+||+|. ...+...+|||.|+..||.. |.....-.||+||.-..
T Consensus 215 d~kC~lC~e~----~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 215 DYKCFLCLEE----PEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccceeeeecc----cCCcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 5679999984 33577889999999999999 87654334999996554
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.06 E-value=0.00027 Score=54.11 Aligned_cols=56 Identities=21% Similarity=0.548 Sum_probs=26.8
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchh-HHHHHhHHH
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMS-KVWEKYDRE 266 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~-~~~~~lD~~ 266 (316)
..|++|.+.|.. ++.+..|.|.|+..|+.+-+. +.||+|+.+....+ ...+.||..
T Consensus 8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~~NrqLd~~ 64 (65)
T PF14835_consen 8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQINRQLDSM 64 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT---TB-SSS--B-S-SS----HHHHHH
T ss_pred cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHHhhhhhhcc
Confidence 469999986433 667789999999999998764 45999999885322 123445544
No 43
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00021 Score=53.36 Aligned_cols=51 Identities=25% Similarity=0.679 Sum_probs=39.1
Q ss_pred CCCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccchh
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDMS 257 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d~~ 257 (316)
..++|.||+|. .-+.++.-|||. ++.+|-...++...-.||+||.++.+.-
T Consensus 6 ~~dECTICye~----pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvI 57 (62)
T KOG4172|consen 6 WSDECTICYEH----PVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVI 57 (62)
T ss_pred cccceeeeccC----cchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHH
Confidence 34789999984 224456689998 8999988866655678999999887643
No 44
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=96.73 E-value=0.00086 Score=64.92 Aligned_cols=45 Identities=27% Similarity=0.620 Sum_probs=37.6
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
..|-||.+++. -+...+|||+|+.-||..+|. .+..||+||.+..
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 57999999632 356779999999999999997 4689999997765
No 45
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.0015 Score=64.45 Aligned_cols=49 Identities=31% Similarity=0.811 Sum_probs=39.5
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
....+|.|||.. .++.++|||-|. ++..|.+...- ....|||||.++..
T Consensus 288 ~~gkeCVIClse----~rdt~vLPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSE----SRDTVVLPCRHLCLCSGCAKSLRY-QTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecC----CcceEEecchhhehhHhHHHHHHH-hhcCCCccccchHh
Confidence 335789999974 357899999998 99999999752 34689999988864
No 46
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.49 E-value=0.00078 Score=64.55 Aligned_cols=52 Identities=23% Similarity=0.562 Sum_probs=40.4
Q ss_pred CCCCCcccccccccCC------ceeEEcCCCCccchhHHHHHH-hcCCCCCCCCCcccc
Q 021224 203 MHHDCPVCCEYLFETR------QDVIVLPCGHTIHKNCLKEMR-EHHQYACPICSKSVC 254 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~------~~~v~LpCGH~fH~~Ci~~wl-~~~~~~CPiCrks~~ 254 (316)
.++.|+||...++.+. +..-.|.|+|.||.-||.-|- -.+..+||.|++.+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 3578999988766554 245678999999999999994 335578999997664
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.47 E-value=0.00081 Score=71.45 Aligned_cols=47 Identities=28% Similarity=0.721 Sum_probs=40.8
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
..||+|-. ..++.++..|||.||..|++..+...+.+||.|..+|+.
T Consensus 644 LkCs~Cn~----R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 644 LKCSVCNT----RWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred eeCCCccC----chhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 57999995 455778889999999999999887777899999999984
No 48
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.40 E-value=0.0024 Score=46.31 Aligned_cols=47 Identities=34% Similarity=0.699 Sum_probs=25.1
Q ss_pred CcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccc
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSV 253 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~ 253 (316)
||+|.|.+..+......=+||+-+++.|+..-+...+.+||-||++.
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 79999988555444333467999999999998875568999999864
No 49
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.27 E-value=0.00099 Score=65.77 Aligned_cols=80 Identities=21% Similarity=0.480 Sum_probs=51.0
Q ss_pred CCCCCCcccccccccCC---ceeEE-cCCCCccchhHHHHHHhcCC------CCCCCCCccccch--hHHHHHhHHHHHc
Q 021224 202 AMHHDCPVCCEYLFETR---QDVIV-LPCGHTIHKNCLKEMREHHQ------YACPICSKSVCDM--SKVWEKYDREIAA 269 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~---~~~v~-LpCGH~fH~~Ci~~wl~~~~------~~CPiCrks~~d~--~~~~~~lD~~ia~ 269 (316)
..+..|-||+|.+.+.. ..-.+ ++|.|.|+..||..|.+..+ ..||+||...... +..|-.-.+ +.
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 55778999999765532 11223 46999999999999984433 5699999776532 223422212 55
Q ss_pred CCCChhhhcCcceE
Q 021224 270 TPMPEAYLNKKVWI 283 (316)
Q Consensus 270 ~pmP~ey~~~~~~I 283 (316)
++++++|...+...
T Consensus 237 ~~li~e~~~~~s~~ 250 (344)
T KOG1039|consen 237 QKLIEEYEAEMSAK 250 (344)
T ss_pred cccHHHHHHHhhcc
Confidence 56667766654433
No 50
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.19 E-value=0.0043 Score=46.19 Aligned_cols=44 Identities=27% Similarity=0.619 Sum_probs=29.4
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-CCCCCCC
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPI 248 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPi 248 (316)
.....|||-+.. +. +|++...|||+|-++.|.+|++. ....||+
T Consensus 9 ~~~~~CPiT~~~-~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQP-FE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB--S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCCh-hh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 345789999985 43 37888899999999999999943 3467998
No 51
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.15 E-value=0.00097 Score=66.72 Aligned_cols=57 Identities=35% Similarity=0.737 Sum_probs=47.8
Q ss_pred cccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-CCCCCCCCCcc
Q 021224 195 SHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKS 252 (316)
Q Consensus 195 ~H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPiCrks 252 (316)
.|.|++ +++..|-.|.|.+-...+....|||.|.||..|+.++|.. ...+||-||+-
T Consensus 357 a~~~~~-e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 357 AHECVE-ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred HHHHHH-HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 478886 6789999999987777777889999999999999998754 34679999943
No 52
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.12 E-value=0.0012 Score=65.09 Aligned_cols=48 Identities=23% Similarity=0.568 Sum_probs=39.4
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
+..|||||+-|.. ...+.-|+|.|+.+||..-+..++..||.||+.+.
T Consensus 43 ~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 43 QVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 4579999994433 34567899999999999988778889999998876
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.07 E-value=0.0018 Score=64.94 Aligned_cols=54 Identities=30% Similarity=0.765 Sum_probs=44.0
Q ss_pred cccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC-CCCCCCCCcccc
Q 021224 197 PCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH-QYACPICSKSVC 254 (316)
Q Consensus 197 ~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~-~~~CPiCrks~~ 254 (316)
.|.-+++=..|-||.| +.+++.+=||||.++..|+..|-.+. ..+||+||-.+.
T Consensus 362 YceMgsTFeLCKICae----ndKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 362 YCEMGSTFELCKICAE----NDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHccchHHHHHHhhc----cCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 4666777889999998 45678889999999999999997443 578999995553
No 54
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.86 E-value=0.0067 Score=58.30 Aligned_cols=54 Identities=28% Similarity=0.704 Sum_probs=42.3
Q ss_pred CCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHh-cCCCCCCCCCccccchh
Q 021224 201 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE-HHQYACPICSKSVCDMS 257 (316)
Q Consensus 201 ~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~-~~~~~CPiCrks~~d~~ 257 (316)
......||+|.++ +..|-+..+|||.++--|+..-.. ...++||.|+.+...+.
T Consensus 236 ~t~~~~C~~Cg~~---PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 236 GTSDTECPVCGEP---PTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred ccCCceeeccCCC---CCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 3557789999985 456778889999999999998432 23589999998877553
No 55
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.72 E-value=0.0057 Score=59.42 Aligned_cols=49 Identities=18% Similarity=0.444 Sum_probs=39.2
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.+..+|+||+... .-++.|+|+|.|+..||+--.+....+||+||.++.
T Consensus 5 ~~~~eC~IC~nt~----n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 5 TKKKECLICYNTG----NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred ccCCcceeeeccC----CcCccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 4567899999742 234899999999999999854445577999999886
No 56
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.48 E-value=0.0069 Score=66.28 Aligned_cols=53 Identities=21% Similarity=0.570 Sum_probs=37.5
Q ss_pred CCCCCCcccccccc--cCCcee-EEcCCCCccchhHHHHHHhc-CCCCCCCCCcccc
Q 021224 202 AMHHDCPVCCEYLF--ETRQDV-IVLPCGHTIHKNCLKEMREH-HQYACPICSKSVC 254 (316)
Q Consensus 202 ~~~~~CPIClE~lf--~s~~~~-v~LpCGH~fH~~Ci~~wl~~-~~~~CPiCrks~~ 254 (316)
+...+||||..-|. +..-|. .-..|.|-||..|+-+|+.+ .+.+||+||.++.
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 44789999986443 221122 22358899999999999865 4578999997664
No 57
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.88 E-value=0.019 Score=41.01 Aligned_cols=41 Identities=29% Similarity=0.759 Sum_probs=26.7
Q ss_pred CcccccccccCCceeEEcCCC-----CccchhHHHHHHhc-CCCCCCCC
Q 021224 207 CPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREH-HQYACPIC 249 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~-~~~~CPiC 249 (316)
|-||++...+ .+..+.||+ -..|.+|+.+|+.. .+.+|++|
T Consensus 1 CrIC~~~~~~--~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEE--DEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SS--SS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCC--CCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 5689885333 235677884 57899999999864 45679987
No 58
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.74 E-value=0.035 Score=56.06 Aligned_cols=49 Identities=24% Similarity=0.761 Sum_probs=37.3
Q ss_pred CCCcccccccccCC-ceeEEcCCCCccchhHHHHHHhc-CCCCCCCCCccc
Q 021224 205 HDCPVCCEYLFETR-QDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKSV 253 (316)
Q Consensus 205 ~~CPIClE~lf~s~-~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPiCrks~ 253 (316)
..|||||+..-.++ ...+.|.|||.|=.+|++.||-. ....||.|....
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 57999998765544 34567899999999999999942 124599998443
No 59
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.74 E-value=0.01 Score=63.89 Aligned_cols=50 Identities=14% Similarity=0.376 Sum_probs=39.0
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
+..||+|+.. +..+....-.+|+|.||.+||..|-.. ..+||+||+.|..
T Consensus 123 ~~~CP~Ci~s-~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 123 ENQCPNCLKS-CNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhHHHHH-HHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhhe
Confidence 5679999974 443333445689999999999999764 4789999988863
No 60
>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=94.52 E-value=0.019 Score=45.80 Aligned_cols=33 Identities=36% Similarity=0.850 Sum_probs=27.4
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHH
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLK 236 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~ 236 (316)
.....|++|...|.. ...++.||||.+|..|++
T Consensus 76 ~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence 446779999998776 367888999999999975
No 61
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.51 E-value=0.015 Score=43.36 Aligned_cols=33 Identities=39% Similarity=0.785 Sum_probs=26.6
Q ss_pred eeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 220 DVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 220 ~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
.-+++||||.+...|+.-+-. .-||+|.+++..
T Consensus 19 ~~~~~pCgH~I~~~~f~~~rY---ngCPfC~~~~~~ 51 (55)
T PF14447_consen 19 KGTVLPCGHLICDNCFPGERY---NGCPFCGTPFEF 51 (55)
T ss_pred ccccccccceeeccccChhhc---cCCCCCCCcccC
Confidence 457899999999999887632 349999998864
No 62
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=94.37 E-value=0.037 Score=63.07 Aligned_cols=74 Identities=27% Similarity=0.578 Sum_probs=53.5
Q ss_pred cCCCCeeeccCcccceeccccccccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc----C-----C
Q 021224 173 GGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----H-----Q 243 (316)
Q Consensus 173 G~~~~ffHC~~C~~C~s~~l~~~H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~----~-----~ 243 (316)
||..|-.||.-|-.|-.-.. ..-.++.|.||+-+ -.+.-|.+.|.|||.||.+|....|.. . -
T Consensus 3462 GGvkNEE~CLPCl~Cdks~t-------kQD~DDmCmICFTE-~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~F 3533 (3738)
T KOG1428|consen 3462 GGVKNEEHCLPCLHCDKSAT-------KQDADDMCMICFTE-ALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGF 3533 (3738)
T ss_pred cCccchhhcccccccChhhh-------hcccCceEEEEehh-hhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEee
Confidence 56678888888887754322 12346889999864 445567889999999999999876543 1 1
Q ss_pred CCCCCCCcccc
Q 021224 244 YACPICSKSVC 254 (316)
Q Consensus 244 ~~CPiCrks~~ 254 (316)
..||+|...+.
T Consensus 3534 isCPiC~n~In 3544 (3738)
T KOG1428|consen 3534 ISCPICKNKIN 3544 (3738)
T ss_pred eecccccchhh
Confidence 35999997765
No 63
>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=94.23 E-value=0.036 Score=53.68 Aligned_cols=49 Identities=20% Similarity=0.522 Sum_probs=39.2
Q ss_pred CCcccccccccCCceeEE-cCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 206 DCPVCCEYLFETRQDVIV-LPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 206 ~CPIClE~lf~s~~~~v~-LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.||+|.-+.+.+..-... =+|||.++.+|+...+..+.+.||.|.+.+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 599999777766432222 2999999999999998888899999998775
No 64
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.95 E-value=0.054 Score=51.36 Aligned_cols=49 Identities=31% Similarity=0.756 Sum_probs=38.6
Q ss_pred CCCcccccccccCC---ceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 205 HDCPVCCEYLFETR---QDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 205 ~~CPIClE~lf~s~---~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
..|-||-++ |.+. .-+.+|.|||+|+..|+...+......||.||.+..
T Consensus 4 ~~c~~c~~~-~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~ 55 (296)
T KOG4185|consen 4 PECEICNED-YSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTE 55 (296)
T ss_pred CceeecCcc-ccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCccc
Confidence 458888876 4443 345788999999999999998876667999999853
No 65
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.68 E-value=0.064 Score=54.13 Aligned_cols=49 Identities=27% Similarity=0.756 Sum_probs=39.3
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
..+..|-||+.- +- +++++||||+|+..|+..-+. ...-||+||-.+..
T Consensus 82 ~sef~c~vc~~~-l~---~pv~tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRA-LY---PPVVTPCGHSFCLECLDRSLD-QETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhh-cC---CCccccccccccHHHHHHHhc-cCCCCccccccccc
Confidence 557899999984 33 466779999999999999765 34679999988874
No 66
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=93.35 E-value=0.056 Score=40.86 Aligned_cols=43 Identities=37% Similarity=0.930 Sum_probs=29.8
Q ss_pred ceeecCCcCccc-------cCCCCCCCCc-cceeecCccccccCCCCCCeeecCCCCc
Q 021224 120 NQVICSLCGTEQ-------KQVCVNCGVC-MGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 120 ~~v~C~~C~~~Q-------~~~C~~Cg~~-f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
....|..|+.+- .-.|||||.. ..| |.+|+-+. ..|.|++||+
T Consensus 6 ~~~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~R--C~~CRk~~-----~~Y~CP~CGF 56 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKAVKFLCPNCGEVIIYR--CEKCRKQS-----NPYTCPKCGF 56 (59)
T ss_pred cCccccCCCCcccCCCccCEeeCCCCCCeeEee--chhHHhcC-----CceECCCCCC
Confidence 355788887652 3568899886 543 88886553 4688888885
No 67
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.11 E-value=0.058 Score=53.51 Aligned_cols=48 Identities=25% Similarity=0.611 Sum_probs=35.8
Q ss_pred cCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 199 VEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 199 ~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.|.+.+.+|.||++. ....+.+||||.-+ |..-... ...||+||..+.
T Consensus 300 ~~~~~p~lcVVcl~e----~~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDE----PKSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIR 347 (355)
T ss_pred cccCCCCceEEecCC----ccceeeecCCcEEE--chHHHhh--CCCCchhHHHHH
Confidence 345778999999984 34588999999966 6655533 356999998765
No 68
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=93.05 E-value=0.057 Score=54.10 Aligned_cols=48 Identities=29% Similarity=0.718 Sum_probs=38.8
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
+..||+|..-+- +++....|||.|+..|+.+|+.. +..||.|+..+..
T Consensus 21 ~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 21 NLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQ 68 (391)
T ss_pred cccCcccccccc---CCCCCCCCCCcccccccchhhcc-CcCCcccccccch
Confidence 578999997533 24444789999999999999986 6899999987764
No 69
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.04 E-value=0.032 Score=55.31 Aligned_cols=57 Identities=26% Similarity=0.604 Sum_probs=44.6
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHH
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVW 260 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~ 260 (316)
++.||.|+|+|.-+.+....-|||-.+++-|+....+.-+-+||-||+...+.+..|
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~ 70 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRY 70 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeE
Confidence 455999999988776666667899999999988876544678999999887654443
No 70
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=92.53 E-value=0.041 Score=53.75 Aligned_cols=52 Identities=23% Similarity=0.554 Sum_probs=40.0
Q ss_pred CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc----------------------CCCCCCCCCccccc
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----------------------HQYACPICSKSVCD 255 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~----------------------~~~~CPiCrks~~d 255 (316)
-.+.|.|||= -|.+.....+.+|-|+||..||..||.. ..-.||+||..+.+
T Consensus 114 p~gqCvICLy-gfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 114 PNGQCVICLY-GFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCceEEEEE-eecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 3578999995 4666667888999999999999887651 01349999977763
No 71
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.49 E-value=0.077 Score=48.54 Aligned_cols=32 Identities=28% Similarity=0.760 Sum_probs=25.5
Q ss_pred EcCCCCccchhHHHHHHhc-----CC-----CCCCCCCcccc
Q 021224 223 VLPCGHTIHKNCLKEMREH-----HQ-----YACPICSKSVC 254 (316)
Q Consensus 223 ~LpCGH~fH~~Ci~~wl~~-----~~-----~~CPiCrks~~ 254 (316)
-..||-.||+-|+.+||.. .+ -.||.|++++.
T Consensus 187 N~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 187 NIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred ccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 3579999999999999863 11 24999999885
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=92.22 E-value=0.07 Score=46.43 Aligned_cols=35 Identities=20% Similarity=0.514 Sum_probs=30.1
Q ss_pred CCCCcccccccccCCceeEEcCCC------CccchhHHHHHH
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCG------HTIHKNCLKEMR 239 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCG------H~fH~~Ci~~wl 239 (316)
...|.||++.+.. .+.++.+++| |.||.+|++.|-
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 4689999998766 5689999997 779999999993
No 73
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.88 E-value=0.12 Score=51.83 Aligned_cols=47 Identities=30% Similarity=0.672 Sum_probs=39.8
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCC--CCCCCCCcc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQ--YACPICSKS 252 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~--~~CPiCrks 252 (316)
..|||=.| .-+...|++.|.|||.+-++-+..+.+.+. ++||.|-..
T Consensus 335 F~CPVlKe-qtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 335 FICPVLKE-QTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred eecccchh-hccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 46999888 455667999999999999999999988766 889999753
No 74
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.87 E-value=0.029 Score=54.56 Aligned_cols=54 Identities=28% Similarity=0.693 Sum_probs=36.9
Q ss_pred cccccccCCCC---CCCCcccccccccCCceeEEcCCCCcc-chhHHHHHHhcCCCCCCCCCccccc
Q 021224 193 KNSHPCVEGAM---HHDCPVCCEYLFETRQDVIVLPCGHTI-HKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 193 ~~~H~C~E~~~---~~~CPIClE~lf~s~~~~v~LpCGH~f-H~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
+++|.+-.... +..|.||++ .+.+-+.|+|||.. +.+|-..+ ..|||||+-+..
T Consensus 286 k~~~g~~~~~s~~~~~LC~ICmD----aP~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~r 343 (350)
T KOG4275|consen 286 KGNDGEQHSRSLATRRLCAICMD----APRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIVR 343 (350)
T ss_pred hcccccccccchhHHHHHHHHhc----CCcceEEeecCcEEeehhhcccc-----ccCchHHHHHHH
Confidence 34444443333 789999997 45678999999973 55554444 269999976554
No 75
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.84 E-value=0.19 Score=50.89 Aligned_cols=53 Identities=26% Similarity=0.429 Sum_probs=38.8
Q ss_pred ccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-------CCCCCCCCC
Q 021224 196 HPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-------HQYACPICS 250 (316)
Q Consensus 196 H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-------~~~~CPiCr 250 (316)
+.+.-+ +-..|-||++. +......+.|||+|.|++.|+..|+.. ...+||-+.
T Consensus 177 ~~~F~~-slf~C~ICf~e-~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 177 LEKFVN-SLFDCCICFEE-QMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred HHHHHh-hcccceeeehh-hcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 444433 34789999984 555567889999999999999998642 235698665
No 76
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=91.77 E-value=0.095 Score=48.68 Aligned_cols=59 Identities=20% Similarity=0.453 Sum_probs=43.4
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHH
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREI 267 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~i 267 (316)
+..|.||.++ +. .+++..|||.|+..|+-.-.+ ....|-+|.+...-...+.+.+++.+
T Consensus 196 PF~C~iCKkd-y~---spvvt~CGH~FC~~Cai~~y~-kg~~C~~Cgk~t~G~f~V~~d~~kmL 254 (259)
T COG5152 196 PFLCGICKKD-YE---SPVVTECGHSFCSLCAIRKYQ-KGDECGVCGKATYGRFWVVSDLQKML 254 (259)
T ss_pred ceeehhchhh-cc---chhhhhcchhHHHHHHHHHhc-cCCcceecchhhccceeHHhhHHHHH
Confidence 4589999986 55 356788999999999888554 34789999988765443445555554
No 77
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=91.73 E-value=0.21 Score=48.69 Aligned_cols=60 Identities=25% Similarity=0.605 Sum_probs=43.8
Q ss_pred CCCCcccccccccCCceeEEcCC--CCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCCh
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPC--GHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPE 274 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpC--GH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ 274 (316)
-.+||||.++|.. + ++.| ||..+..|-.+. ...||.||.++++... +.++..+++...|=
T Consensus 48 lleCPvC~~~l~~---P--i~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~~R~--~amEkV~e~~~vpC 109 (299)
T KOG3002|consen 48 LLDCPVCFNPLSP---P--IFQCDNGHLACSSCRTKV----SNKCPTCRLPIGNIRC--RAMEKVAEAVLVPC 109 (299)
T ss_pred hccCchhhccCcc---c--ceecCCCcEehhhhhhhh----cccCCccccccccHHH--HHHHHHHHhceecc
Confidence 4689999997543 3 4556 899999998865 3679999999996532 45666677666553
No 78
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.71 E-value=0.12 Score=50.34 Aligned_cols=62 Identities=21% Similarity=0.443 Sum_probs=44.7
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHH
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIA 268 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia 268 (316)
.....|-||.++ |. .+|+..|||+|+..|...-++. ...|++|.+.+-.....-..|...+.
T Consensus 239 ~~Pf~c~icr~~-f~---~pVvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~g~~~~akeL~~~L~ 300 (313)
T KOG1813|consen 239 LLPFKCFICRKY-FY---RPVVTKCGHYFCEVCALKPYQK-GEKCYVCSQQTHGSFNVAKELLVSLK 300 (313)
T ss_pred cCCccccccccc-cc---cchhhcCCceeehhhhcccccc-CCcceecccccccccchHHHHHHHHH
Confidence 446679999996 43 4678889999999999987763 47899999988643322334444444
No 79
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.53 E-value=0.26 Score=46.62 Aligned_cols=51 Identities=31% Similarity=0.677 Sum_probs=40.2
Q ss_pred CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-------CCCCCCCCCccccc
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-------HQYACPICSKSVCD 255 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-------~~~~CPiCrks~~d 255 (316)
...+|..|.-.|- ++ +.+-|.|=|.||-.|+++|... ..|+||-|..++..
T Consensus 49 Y~pNC~LC~t~La-~g-dt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 49 YNPNCRLCNTPLA-SG-DTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCCceeCCccc-cC-cceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 4678999987643 33 5677889999999999999653 24899999988863
No 80
>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=91.00 E-value=0.16 Score=42.62 Aligned_cols=35 Identities=23% Similarity=0.601 Sum_probs=28.6
Q ss_pred cceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224 280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 316 (316)
Q Consensus 280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~ 316 (316)
.+...|++|+.......+ ...||.|||+++++++|
T Consensus 68 p~~~~C~~Cg~~~~~~~~--~~~CP~Cgs~~~~i~~G 102 (115)
T TIGR00100 68 PVECECEDCSEEVSPEID--LYRCPKCHGIMLQVRAG 102 (115)
T ss_pred CcEEEcccCCCEEecCCc--CccCcCCcCCCcEEecC
Confidence 577999999987766533 35799999999999876
No 81
>PF04641 Rtf2: Rtf2 RING-finger
Probab=90.53 E-value=0.26 Score=46.62 Aligned_cols=51 Identities=27% Similarity=0.680 Sum_probs=39.6
Q ss_pred CCCCCCCcccccccccCCceeEEc-CCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 201 GAMHHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 201 ~~~~~~CPIClE~lf~s~~~~v~L-pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
......|||-...| ......+.| ||||.|-..++.+.- ....||+|.+++.
T Consensus 110 ~~~~~~CPvt~~~~-~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEF-NGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCccc-CCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccc
Confidence 35567899999865 444455555 999999999999983 2467999999876
No 82
>PF12773 DZR: Double zinc ribbon
Probab=90.11 E-value=0.28 Score=34.62 Aligned_cols=20 Identities=35% Similarity=0.984 Sum_probs=14.4
Q ss_pred cCCcCccc---cCCCCCCCCccc
Q 021224 124 CSLCGTEQ---KQVCVNCGVCMG 143 (316)
Q Consensus 124 C~~C~~~Q---~~~C~~Cg~~f~ 143 (316)
|..|+++. +..|++||..+.
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~ 23 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLP 23 (50)
T ss_pred CCCcCCcCCccccCChhhcCChh
Confidence 55676663 677888888876
No 83
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=89.82 E-value=0.23 Score=41.81 Aligned_cols=36 Identities=31% Similarity=0.624 Sum_probs=28.8
Q ss_pred CcceEEcCCCCCCcccc-ceeeeecCCCCCCccccccCC
Q 021224 279 KKVWILCNDCGKTSNVQ-FHVLAQKCPNCKSYNTRLTRG 316 (316)
Q Consensus 279 ~~~~IlCnDC~~~s~~~-fH~lg~kC~~C~SyNT~~~~~ 316 (316)
..+.+.|++|+...... +++ .+||.|||++..+++|
T Consensus 68 vp~~~~C~~Cg~~~~~~~~~~--~~CP~Cgs~~~~i~~G 104 (117)
T PRK00564 68 EKVELECKDCSHVFKPNALDY--GVCEKCHSKNVIITQG 104 (117)
T ss_pred cCCEEEhhhCCCccccCCccC--CcCcCCCCCceEEecC
Confidence 35788999999887665 333 4799999999998876
No 84
>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=89.55 E-value=0.37 Score=43.18 Aligned_cols=33 Identities=33% Similarity=0.893 Sum_probs=23.9
Q ss_pred CCCCcccccccccCCceeEEcCCC-C------------ccchhHHHHHHh
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCG-H------------TIHKNCLKEMRE 240 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCG-H------------~fH~~Ci~~wl~ 240 (316)
+..||||||. +-..|+|-|. | .-|..||+++-+
T Consensus 2 d~~CpICme~----PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEH----PHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccC----CCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 4579999994 2356777773 3 268999999854
No 85
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=89.38 E-value=0.27 Score=42.39 Aligned_cols=37 Identities=27% Similarity=0.734 Sum_probs=27.7
Q ss_pred cceEEcCCCCCCcccc-------------cee------eeecCCCCCCccccccCC
Q 021224 280 KVWILCNDCGKTSNVQ-------------FHV------LAQKCPNCKSYNTRLTRG 316 (316)
Q Consensus 280 ~~~IlCnDC~~~s~~~-------------fH~------lg~kC~~C~SyNT~~~~~ 316 (316)
.....|.+|+...... +|+ ...+||.|||++.++++|
T Consensus 68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G 123 (135)
T PRK03824 68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIVKG 123 (135)
T ss_pred ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEecC
Confidence 4678999999766443 222 336899999999998876
No 86
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=88.77 E-value=0.17 Score=52.79 Aligned_cols=53 Identities=26% Similarity=0.597 Sum_probs=42.7
Q ss_pred ccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc----CCCCCCCCCcccc
Q 021224 198 CVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH----HQYACPICSKSVC 254 (316)
Q Consensus 198 C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~----~~~~CPiCrks~~ 254 (316)
=.|+..+..|-+|-++ .++++.-.|.|.|++-|+.+|+.. .+.+||+|...+.
T Consensus 530 ~~enk~~~~C~lc~d~----aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 530 PDENKGEVECGLCHDP----AEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred CccccCceeecccCCh----hhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 3467778899999985 246778899999999999998753 4578999998775
No 87
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=88.67 E-value=0.12 Score=50.88 Aligned_cols=49 Identities=29% Similarity=0.667 Sum_probs=39.6
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.....|++|..+|-+ +..+.-|=|+|++.||.++|.. ...||.|.-.+.
T Consensus 13 n~~itC~LC~GYliD---ATTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih 61 (331)
T KOG2660|consen 13 NPHITCRLCGGYLID---ATTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIH 61 (331)
T ss_pred ccceehhhccceeec---chhHHHHHHHHHHHHHHHHHHH-hccCCccceecc
Confidence 445689999998766 3346679999999999999985 688999996654
No 88
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=88.61 E-value=0.31 Score=40.83 Aligned_cols=35 Identities=26% Similarity=0.685 Sum_probs=27.8
Q ss_pred cceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224 280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 316 (316)
Q Consensus 280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~ 316 (316)
.....|++|+........ ...||.|||++..+++|
T Consensus 68 p~~~~C~~Cg~~~~~~~~--~~~CP~Cgs~~~~i~~G 102 (113)
T PRK12380 68 PAQAWCWDCSQVVEIHQH--DAQCPHCHGERLRVDTG 102 (113)
T ss_pred CcEEEcccCCCEEecCCc--CccCcCCCCCCcEEccC
Confidence 567899999987766532 23599999999998876
No 89
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=88.56 E-value=0.32 Score=40.78 Aligned_cols=36 Identities=17% Similarity=0.480 Sum_probs=28.1
Q ss_pred cceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224 280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 316 (316)
Q Consensus 280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~ 316 (316)
.+...|++|+......-+. ...||.|||++++.++|
T Consensus 68 p~~~~C~~Cg~~~~~~~~~-~~~CP~Cgs~~~~i~~G 103 (114)
T PRK03681 68 EAECWCETCQQYVTLLTQR-VRRCPQCHGDMLRIVAD 103 (114)
T ss_pred CcEEEcccCCCeeecCCcc-CCcCcCcCCCCcEEccC
Confidence 5678999999877664332 14699999999999877
No 90
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=88.23 E-value=0.11 Score=40.45 Aligned_cols=65 Identities=26% Similarity=0.543 Sum_probs=38.5
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEE
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWIL 284 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~Il 284 (316)
..||.|..+|-.. . ||+.+..|-..+... ..||-|..++..+.+ =..++.+
T Consensus 2 ~~CP~C~~~L~~~-------~-~~~~C~~C~~~~~~~--a~CPdC~~~Le~LkA-------------------CGAvdYF 52 (70)
T PF07191_consen 2 NTCPKCQQELEWQ-------G-GHYHCEACQKDYKKE--AFCPDCGQPLEVLKA-------------------CGAVDYF 52 (70)
T ss_dssp -B-SSS-SBEEEE-------T-TEEEETTT--EEEEE--EE-TTT-SB-EEEEE-------------------TTEEEEE
T ss_pred CcCCCCCCccEEe-------C-CEEECccccccceec--ccCCCcccHHHHHHH-------------------hccccee
Confidence 5799999864331 1 899999999987653 679999998875421 2347899
Q ss_pred cCCCCC---Ccccccee
Q 021224 285 CNDCGK---TSNVQFHV 298 (316)
Q Consensus 285 CnDC~~---~s~~~fH~ 298 (316)
|+.|.+ ++-|.|.+
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 999985 55666653
No 91
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.90 E-value=0.53 Score=45.09 Aligned_cols=53 Identities=26% Similarity=0.524 Sum_probs=43.2
Q ss_pred CCCCCCcccccccccCCceeEEc-CCCCccchhHHHHHHhcCCCCCCCCCccccch
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVCDM 256 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~L-pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~ 256 (316)
+....||||.+.| ++..+.++| ||||.+..+|.++++.. ...+|++.+++.+.
T Consensus 219 s~ryiCpvtrd~L-tNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 219 SKRYICPVTRDTL-TNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDR 272 (303)
T ss_pred ccceecccchhhh-cCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCccc
Confidence 3467899999965 455566666 99999999999999874 58899999999864
No 92
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=87.88 E-value=0.51 Score=47.24 Aligned_cols=66 Identities=23% Similarity=0.450 Sum_probs=45.1
Q ss_pred ccceeccccccccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-CCCCCCCCCcccc
Q 021224 185 RCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-HQYACPICSKSVC 254 (316)
Q Consensus 185 ~~C~s~~l~~~H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-~~~~CPiCrks~~ 254 (316)
+.|....+-++-+=..+..+..|.||.+. ..-+.++||||.++-.|......- ....||+||..+.
T Consensus 42 nlsaEPnlttsSaddtDEen~~C~ICA~~----~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 42 NLSAEPNLTTSSADDTDEENMNCQICAGS----TTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccCCccccccccccccccceeEEecCC----ceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 45555555444333334557889999984 335678999999999998775321 2356999996654
No 93
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.77 E-value=0.38 Score=52.53 Aligned_cols=43 Identities=28% Similarity=0.701 Sum_probs=32.9
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
..|..|--.|.. |.|...|||.||++|+. .+...||-|+-...
T Consensus 841 skCs~C~~~Ldl---P~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 841 SKCSACEGTLDL---PFVHFLCGHSYHQHCLE----DKEDKCPKCLPELR 883 (933)
T ss_pred eeecccCCcccc---ceeeeecccHHHHHhhc----cCcccCCccchhhh
Confidence 468888754433 77888899999999999 23478999997443
No 94
>PHA02862 5L protein; Provisional
Probab=87.16 E-value=0.45 Score=42.15 Aligned_cols=46 Identities=17% Similarity=0.466 Sum_probs=33.4
Q ss_pred CCCCcccccccccCCceeEEcCCC-----CccchhHHHHHHhcC-CCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~~-~~~CPiCrks~~ 254 (316)
...|=||.+.- .++ .-||. -..|++|+++|+... ...||+|+.++.
T Consensus 2 ~diCWIC~~~~---~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVC---DER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcC---CCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 46788999741 122 35774 569999999999753 356999998775
No 95
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=86.12 E-value=0.46 Score=36.12 Aligned_cols=43 Identities=37% Similarity=0.957 Sum_probs=30.6
Q ss_pred eeecCCcCccc-------cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224 121 QVICSLCGTEQ-------KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 121 ~v~C~~C~~~Q-------~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
...|..|+.+- .-.|||||..+ =|-|.+|+.+. .+|.|++||+
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe~~-I~Rc~~CRk~g-----~~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPNCGEVE-IYRCAKCRKLG-----NPYRCPKCGF 58 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCCCCcee-eehhhhHHHcC-----CceECCCcCc
Confidence 45788888663 45799999443 35688887663 4688888885
No 96
>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=86.00 E-value=0.24 Score=41.33 Aligned_cols=35 Identities=26% Similarity=0.552 Sum_probs=25.2
Q ss_pred cceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224 280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 316 (316)
Q Consensus 280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~ 316 (316)
.+...|.+|+..+.+..+. ..||.|+|++.++++|
T Consensus 68 p~~~~C~~Cg~~~~~~~~~--~~CP~Cgs~~~~i~~G 102 (113)
T PF01155_consen 68 PARARCRDCGHEFEPDEFD--FSCPRCGSPDVEIISG 102 (113)
T ss_dssp --EEEETTTS-EEECHHCC--HH-SSSSSS-EEEEES
T ss_pred CCcEECCCCCCEEecCCCC--CCCcCCcCCCcEEccC
Confidence 5678999999998777654 5799999999988876
No 97
>PRK04023 DNA polymerase II large subunit; Validated
Probab=85.99 E-value=0.63 Score=51.93 Aligned_cols=48 Identities=27% Similarity=0.530 Sum_probs=24.5
Q ss_pred cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccce
Q 021224 132 KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCY 188 (316)
Q Consensus 132 ~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~ 188 (316)
...|+.||......+|+.|.-. ...+|.|+.||.-..+ ..|.+||.=.
T Consensus 626 ~RfCpsCG~~t~~frCP~CG~~----Te~i~fCP~CG~~~~~-----y~CPKCG~El 673 (1121)
T PRK04023 626 RRKCPSCGKETFYRRCPFCGTH----TEPVYRCPRCGIEVEE-----DECEKCGREP 673 (1121)
T ss_pred CccCCCCCCcCCcccCCCCCCC----CCcceeCccccCcCCC-----CcCCCCCCCC
Confidence 3455555555555555555222 3456666666443221 3466666543
No 98
>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=85.84 E-value=0.36 Score=35.19 Aligned_cols=32 Identities=34% Similarity=0.760 Sum_probs=22.7
Q ss_pred EcCCC-CccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 223 VLPCG-HTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 223 ~LpCG-H~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
.+.|. |.++..|+..++.. +..||+|.+++..
T Consensus 15 Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPt 47 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPT 47 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SS-SSEETTTTEE---
T ss_pred eeeecchhHHHHHHHHHhcc-ccCCCcccCcCcc
Confidence 66785 99999999999985 5889999998764
No 99
>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=85.59 E-value=0.35 Score=37.77 Aligned_cols=33 Identities=27% Similarity=0.846 Sum_probs=20.9
Q ss_pred ceeecCCcCccc--cCCCCCCCCcc--------ceeecCcccc
Q 021224 120 NQVICSLCGTEQ--KQVCVNCGVCM--------GEYFCESCKL 152 (316)
Q Consensus 120 ~~v~C~~C~~~Q--~~~C~~Cg~~f--------~~YfC~~C~l 152 (316)
....|..|+..- ...||.||.++ +.|||..|+=
T Consensus 16 ~~~~C~~C~~~~~~~a~CPdC~~~Le~LkACGAvdYFC~~c~g 58 (70)
T PF07191_consen 16 GHYHCEACQKDYKKEAFCPDCGQPLEVLKACGAVDYFCNHCHG 58 (70)
T ss_dssp TEEEETTT--EEEEEEE-TTT-SB-EEEEETTEEEEE-TTTT-
T ss_pred CEEECccccccceecccCCCcccHHHHHHHhcccceeeccCCc
Confidence 478888888774 77899888887 5899998863
No 100
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=85.20 E-value=0.84 Score=40.93 Aligned_cols=47 Identities=28% Similarity=0.617 Sum_probs=33.4
Q ss_pred CCCCCcccccccccCCceeEEcCCC--C---ccchhHHHHHHhcC-CCCCCCCCcccc
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCG--H---TIHKNCLKEMREHH-QYACPICSKSVC 254 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCG--H---~fH~~Ci~~wl~~~-~~~CPiCrks~~ 254 (316)
++..|=||.+.. + ...-||. . ..|++|++.|+..+ ..+||+|+..+.
T Consensus 7 ~~~~CRIC~~~~---~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 7 MDKCCWICKDEY---D--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCeeEecCCCC---C--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 467899998751 1 1234764 3 57999999999753 467999997664
No 101
>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=84.95 E-value=0.57 Score=32.87 Aligned_cols=42 Identities=29% Similarity=0.698 Sum_probs=19.8
Q ss_pred CcccccccccCCceeEEcCCCCccchhHHHHHHhcCC-CCCCCC
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQ-YACPIC 249 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~-~~CPiC 249 (316)
|.+|.+ +.+-+..-....|+=.+|..|+..|+...+ .+||.|
T Consensus 1 C~~C~~-iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKE-IVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-S-B-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred Ccccch-hHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 556776 333221111124777899999999987533 369987
No 102
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.39 E-value=0.39 Score=51.24 Aligned_cols=43 Identities=28% Similarity=0.716 Sum_probs=35.6
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK 251 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrk 251 (316)
..|+||+..++.++..++.|-|||++++.|++... +-+|| |..
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly---n~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY---NASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh---hccCC-CCc
Confidence 46999987778888889999999999999999874 35688 553
No 103
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=84.36 E-value=0.45 Score=29.84 Aligned_cols=22 Identities=36% Similarity=1.007 Sum_probs=16.6
Q ss_pred eeecCCcCccc---cCCCCCCCCcc
Q 021224 121 QVICSLCGTEQ---KQVCVNCGVCM 142 (316)
Q Consensus 121 ~v~C~~C~~~Q---~~~C~~Cg~~f 142 (316)
++.|..|+++- +..|++||+.+
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred cCCCcccCCcCCcccccChhhCCCC
Confidence 46788888863 77899998764
No 104
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=83.91 E-value=0.73 Score=39.19 Aligned_cols=36 Identities=31% Similarity=0.608 Sum_probs=26.4
Q ss_pred cceEEcCCCCCCcccc-c---ee-eeecCCCCCCccccccCC
Q 021224 280 KVWILCNDCGKTSNVQ-F---HV-LAQKCPNCKSYNTRLTRG 316 (316)
Q Consensus 280 ~~~IlCnDC~~~s~~~-f---H~-lg~kC~~C~SyNT~~~~~ 316 (316)
.+...| +|+..+... + |+ ....||.|||++.++++|
T Consensus 68 p~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G 108 (124)
T PRK00762 68 PVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHILGG 108 (124)
T ss_pred CeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEecC
Confidence 577899 999875432 1 11 235799999999998876
No 105
>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=83.69 E-value=0.68 Score=38.81 Aligned_cols=26 Identities=35% Similarity=0.893 Sum_probs=19.7
Q ss_pred cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224 132 KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 132 ~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
..+|++||+.| | |.+|.+-.|+.||.
T Consensus 9 KR~Cp~CG~kF----------Y--DLnk~PivCP~CG~ 34 (108)
T PF09538_consen 9 KRTCPSCGAKF----------Y--DLNKDPIVCPKCGT 34 (108)
T ss_pred cccCCCCcchh----------c--cCCCCCccCCCCCC
Confidence 46799999966 6 45688888888874
No 106
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=82.82 E-value=0.78 Score=45.15 Aligned_cols=44 Identities=30% Similarity=0.763 Sum_probs=34.4
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSK 251 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrk 251 (316)
..||.|.- |.. .+...--|||.|+.+||..-|....+.||.|.+
T Consensus 275 LkCplc~~-Llr--np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHC-LLR--NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhh-hhh--CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 67999987 333 355565689999999999865545799999986
No 107
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=82.79 E-value=0.82 Score=49.70 Aligned_cols=48 Identities=21% Similarity=0.468 Sum_probs=33.1
Q ss_pred ccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCC
Q 021224 198 CVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPI 248 (316)
Q Consensus 198 C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPi 248 (316)
|+-......|.||--.+. +...+-+.|||.+|..|+.+|+..+ -.||.
T Consensus 1022 ~~~~~~~~~C~~C~l~V~--gss~~Cg~C~Hv~H~sc~~eWf~~g-d~Cps 1069 (1081)
T KOG0309|consen 1022 AICKGFTFQCAICHLAVR--GSSNFCGTCGHVGHTSCMMEWFRTG-DVCPS 1069 (1081)
T ss_pred cccccceeeeeeEeeEee--ccchhhccccccccHHHHHHHHhcC-CcCCC
Confidence 333344456899874332 3345667899999999999999854 57773
No 108
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=82.49 E-value=1 Score=38.32 Aligned_cols=36 Identities=31% Similarity=0.632 Sum_probs=29.6
Q ss_pred CcceEEcCCCCCCccccceeeeecCCCCCCccccccCC
Q 021224 279 KKVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLTRG 316 (316)
Q Consensus 279 ~~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~~~ 316 (316)
..+.+.|-+|+......-|.+. ||.|+|-|.++++|
T Consensus 67 ~p~~~~C~~C~~~~~~e~~~~~--CP~C~s~~~~i~~G 102 (115)
T COG0375 67 EPAECWCLDCGQEVELEELDYR--CPKCGSINLRIIGG 102 (115)
T ss_pred eccEEEeccCCCeecchhheeE--CCCCCCCceEEecC
Confidence 3578999999887766666554 99999999999876
No 109
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=81.21 E-value=0.62 Score=44.04 Aligned_cols=37 Identities=30% Similarity=0.737 Sum_probs=27.6
Q ss_pred ccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 215 FETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 215 f~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
+.+..+--++.|+|.|+..|...-.. ..||+|++++.
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 33444555778999999999887432 38999999864
No 110
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=80.47 E-value=1.6 Score=49.89 Aligned_cols=31 Identities=35% Similarity=0.889 Sum_probs=16.1
Q ss_pred eecCCcCccc-cCCCCCCCCcc-ceeecCcccc
Q 021224 122 VICSLCGTEQ-KQVCVNCGVCM-GEYFCESCKL 152 (316)
Q Consensus 122 v~C~~C~~~Q-~~~C~~Cg~~f-~~YfC~~C~l 152 (316)
..|..|+++. ...|+.||... ..|+|+.|..
T Consensus 668 rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGa 700 (1337)
T PRK14714 668 RRCPSCGTETYENRCPDCGTHTEPVYVCPDCGA 700 (1337)
T ss_pred EECCCCCCccccccCcccCCcCCCceeCccCCC
Confidence 4566666554 44566665554 2344555543
No 111
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.30 E-value=1.1 Score=44.90 Aligned_cols=51 Identities=22% Similarity=0.544 Sum_probs=40.9
Q ss_pred CCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 200 EGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 200 E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
..+.+..||||.-. ....+.-||||.-+..||.+.+.. ...|=.|+.++.+
T Consensus 418 p~sEd~lCpICyA~----pi~Avf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 418 PDSEDNLCPICYAG----PINAVFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVID 468 (489)
T ss_pred CCcccccCcceecc----cchhhccCCCCchHHHHHHHHHhc-CCeeeEecceeee
Confidence 34667899999852 234677899999999999998874 5789999988876
No 112
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=79.70 E-value=1.2 Score=47.67 Aligned_cols=30 Identities=30% Similarity=0.865 Sum_probs=20.1
Q ss_pred eecCCcCccc---cCCCCCCCCccceeecCccc
Q 021224 122 VICSLCGTEQ---KQVCVNCGVCMGEYFCESCK 151 (316)
Q Consensus 122 v~C~~C~~~Q---~~~C~~Cg~~f~~YfC~~C~ 151 (316)
++|..|+++. +..|++||..+..-.|+.|.
T Consensus 2 ~~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~CG 34 (645)
T PRK14559 2 LICPQCQFENPNNNRFCQKCGTSLTHKPCPQCG 34 (645)
T ss_pred CcCCCCCCcCCCCCccccccCCCCCCCcCCCCC
Confidence 4677777763 56777777777655666663
No 113
>PHA03096 p28-like protein; Provisional
Probab=79.61 E-value=1 Score=43.65 Aligned_cols=47 Identities=17% Similarity=0.256 Sum_probs=31.8
Q ss_pred CCCcccccccccC---CceeEEc-CCCCccchhHHHHHHhcCC--CCCCCCCc
Q 021224 205 HDCPVCCEYLFET---RQDVIVL-PCGHTIHKNCLKEMREHHQ--YACPICSK 251 (316)
Q Consensus 205 ~~CPIClE~lf~s---~~~~v~L-pCGH~fH~~Ci~~wl~~~~--~~CPiCrk 251 (316)
-.|.||+|..... .+.-..| .|.|.|+..|+..|..... .+||.||.
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 4699999876532 1222344 6999999999999986432 34666663
No 114
>PHA00626 hypothetical protein
Probab=79.20 E-value=1.6 Score=32.95 Aligned_cols=29 Identities=24% Similarity=0.637 Sum_probs=15.2
Q ss_pred CCCCCCCc-cceeecCccccccCCCCCCeeecCCCCc
Q 021224 134 VCVNCGVC-MGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 134 ~C~~Cg~~-f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
.||+||.. . +-|.+|+.+ .+.|-|++||.
T Consensus 2 ~CP~CGS~~I--vrcg~cr~~-----snrYkCkdCGY 31 (59)
T PHA00626 2 SCPKCGSGNI--AKEKTMRGW-----SDDYVCCDCGY 31 (59)
T ss_pred CCCCCCCcee--eeeceeccc-----CcceEcCCCCC
Confidence 46777763 3 245555443 23455555553
No 115
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=78.84 E-value=1.7 Score=49.60 Aligned_cols=33 Identities=30% Similarity=0.754 Sum_probs=25.8
Q ss_pred CCCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224 133 QVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 133 ~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
..||+||......||+.|.-. .+.+|+|+.||.
T Consensus 668 rkCPkCG~~t~~~fCP~CGs~----te~vy~CPsCGa 700 (1337)
T PRK14714 668 RRCPSCGTETYENRCPDCGTH----TEPVYVCPDCGA 700 (1337)
T ss_pred EECCCCCCccccccCcccCCc----CCCceeCccCCC
Confidence 689999998777799999433 345788888886
No 116
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=78.39 E-value=1 Score=27.68 Aligned_cols=19 Identities=42% Similarity=1.083 Sum_probs=13.4
Q ss_pred cCCcCccc---cCCCCCCCCcc
Q 021224 124 CSLCGTEQ---KQVCVNCGVCM 142 (316)
Q Consensus 124 C~~C~~~Q---~~~C~~Cg~~f 142 (316)
|..|+++- +..|++||+.+
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCCCcCcchhhhCCcC
Confidence 66777763 67788888764
No 117
>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=78.32 E-value=1.5 Score=27.85 Aligned_cols=21 Identities=33% Similarity=0.888 Sum_probs=16.8
Q ss_pred ecCCcCccc---cCCCCCCCCccc
Q 021224 123 ICSLCGTEQ---KQVCVNCGVCMG 143 (316)
Q Consensus 123 ~C~~C~~~Q---~~~C~~Cg~~f~ 143 (316)
.|..|+.+- +..|++||..|.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCCc
Confidence 377788773 789999999885
No 118
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.29 E-value=0.99 Score=49.64 Aligned_cols=36 Identities=31% Similarity=0.694 Sum_probs=29.2
Q ss_pred CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHh
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE 240 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~ 240 (316)
-...|-+|.-+++. ++-.+.||||.||++|+.+-..
T Consensus 816 p~d~C~~C~~~ll~--~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLI--KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred CccchHHhcchhhc--CcceeeeccchHHHHHHHHHHH
Confidence 35789999976554 4778889999999999998654
No 119
>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=77.23 E-value=0.84 Score=43.67 Aligned_cols=51 Identities=25% Similarity=0.621 Sum_probs=39.7
Q ss_pred CCCCcccccccccCCceeEEc-C-CCCccchhHHHHHHhcCCCCCC--CCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVL-P-CGHTIHKNCLKEMREHHQYACP--ICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~L-p-CGH~fH~~Ci~~wl~~~~~~CP--iCrks~~ 254 (316)
+..||||..+.+.+++-..++ | |=|.++.+|....++.+.-.|| -|.+-+.
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 458999998888876433333 6 9999999999999887777899 7875543
No 120
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=76.55 E-value=1.3 Score=47.67 Aligned_cols=45 Identities=29% Similarity=0.856 Sum_probs=35.7
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCC-CCCCCCcccc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQY-ACPICSKSVC 254 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~-~CPiCrks~~ 254 (316)
..|+||++ .+..+..+|||.|+.+|+.+.+..... .||+||..+.
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 68999998 235778899999999999997765433 5999995443
No 121
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=76.53 E-value=1.8 Score=42.88 Aligned_cols=45 Identities=33% Similarity=0.754 Sum_probs=37.6
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHHHHhcC--CCCCCCCC
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHH--QYACPICS 250 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~--~~~CPiCr 250 (316)
..|||=.| +-+...+++.|.|||.+=.+-+...-+.+ ++.||.|-
T Consensus 337 FiCPVlKe-~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKE-LCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeccccHh-hhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 46999888 57777899999999999999999986643 47799996
No 122
>PRK04023 DNA polymerase II large subunit; Validated
Probab=76.50 E-value=2.2 Score=47.79 Aligned_cols=49 Identities=27% Similarity=0.647 Sum_probs=37.4
Q ss_pred ceeecCCcCccc-cCCCCCCCCc-cceeecCccccccCCCCCCeeecCCCCcceec
Q 021224 120 NQVICSLCGTEQ-KQVCVNCGVC-MGEYFCESCKLFDDDTSKKQYHCDGCGICRIG 173 (316)
Q Consensus 120 ~~v~C~~C~~~Q-~~~C~~Cg~~-f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G 173 (316)
..-.|..|+++. ...|++||.. -..|||+.|.- .-..|.|+.||.=...
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~-----~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGI-----EVEEDECEKCGREPTP 675 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCCCCcceeCccccC-----cCCCCcCCCCCCCCCc
Confidence 355899999998 8899999974 57789999932 2335889999965443
No 123
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=75.28 E-value=1.5 Score=45.11 Aligned_cols=33 Identities=30% Similarity=0.926 Sum_probs=27.9
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHh
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMRE 240 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~ 240 (316)
+..||||.. +|. ++++|||||.+++.|...-+.
T Consensus 4 elkc~vc~~-f~~---epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 4 ELKCPVCGS-FYR---EPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccCceehh-hcc---CceEeecccHHHHHHHHhhcc
Confidence 568999998 465 678999999999999998654
No 124
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=71.95 E-value=2.2 Score=46.94 Aligned_cols=48 Identities=29% Similarity=0.672 Sum_probs=34.4
Q ss_pred CCCCcccccccccCCceeEEcCC---CCccchhHHHHHHhc------CCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPC---GHTIHKNCLKEMREH------HQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpC---GH~fH~~Ci~~wl~~------~~~~CPiCrks~~ 254 (316)
...|.||.|.+..+ .-++.| =|.||..||.+|... ...+||-|.....
T Consensus 191 ~yeCmIC~e~I~~t---~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 191 KYECMICTERIKRT---APVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred ceEEEEeeeecccc---CCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 56899999976543 224445 599999999999753 2357999994433
No 125
>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=71.45 E-value=5.5 Score=28.72 Aligned_cols=42 Identities=29% Similarity=0.649 Sum_probs=19.8
Q ss_pred CCCcccccccccCCceeEEcCCCCccchhHHHH--HHh----cCCCCCCCCCcc
Q 021224 205 HDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKE--MRE----HHQYACPICSKS 252 (316)
Q Consensus 205 ~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~--wl~----~~~~~CPiCrks 252 (316)
..|||-...+.. +++...|.|. +|++- ||+ .....||+|+++
T Consensus 3 L~CPls~~~i~~---P~Rg~~C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI---PVRGKNCKHL---QCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS---EEEETT--SS-----EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe---CccCCcCccc---ceECHHHHHHHhhccCCeECcCCcCc
Confidence 368999876543 7888899977 34433 443 244679999874
No 126
>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=69.59 E-value=2.9 Score=36.24 Aligned_cols=26 Identities=23% Similarity=0.442 Sum_probs=19.5
Q ss_pred cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224 132 KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 132 ~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
...|++||+.| | |.+|.+-.|+.||.
T Consensus 9 Kr~Cp~cg~kF----------Y--DLnk~p~vcP~cg~ 34 (129)
T TIGR02300 9 KRICPNTGSKF----------Y--DLNRRPAVSPYTGE 34 (129)
T ss_pred cccCCCcCccc----------c--ccCCCCccCCCcCC
Confidence 46799999866 6 45688888888774
No 127
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.31 E-value=2 Score=41.42 Aligned_cols=71 Identities=24% Similarity=0.502 Sum_probs=45.4
Q ss_pred cCCCCCCCCcccccccccCCceeEEcCC---C--CccchhHHHHHHhcC-------CCCCCCCCcccc----c---hhHH
Q 021224 199 VEGAMHHDCPVCCEYLFETRQDVIVLPC---G--HTIHKNCLKEMREHH-------QYACPICSKSVC----D---MSKV 259 (316)
Q Consensus 199 ~E~~~~~~CPIClE~lf~s~~~~v~LpC---G--H~fH~~Ci~~wl~~~-------~~~CPiCrks~~----d---~~~~ 259 (316)
.+...+-.|=||+..-.+.+...-+=|| | |..|.+|+..|+... .-+||.|+.... . .+.+
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~~~~~~ 94 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLGPFDRV 94 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccChHHHH
Confidence 3456678899999743333332234477 3 889999999999642 235999996554 2 2344
Q ss_pred HHHhHHHHHc
Q 021224 260 WEKYDREIAA 269 (316)
Q Consensus 260 ~~~lD~~ia~ 269 (316)
.+.+|..+..
T Consensus 95 Le~~d~~i~r 104 (293)
T KOG3053|consen 95 LERLDILIFR 104 (293)
T ss_pred HHHhhhHHhh
Confidence 5556655543
No 128
>PF12773 DZR: Double zinc ribbon
Probab=65.16 E-value=4.6 Score=28.31 Aligned_cols=22 Identities=41% Similarity=0.937 Sum_probs=11.2
Q ss_pred eeecCCcCccc------cCCCCCCCCcc
Q 021224 121 QVICSLCGTEQ------KQVCVNCGVCM 142 (316)
Q Consensus 121 ~v~C~~C~~~Q------~~~C~~Cg~~f 142 (316)
...|..|++.. ...|++||...
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~ 39 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAEN 39 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCC
Confidence 44555555442 23466666543
No 129
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=64.31 E-value=4.7 Score=35.34 Aligned_cols=49 Identities=27% Similarity=0.647 Sum_probs=34.9
Q ss_pred CCCCcccccccccCCceeEEc-C---CCCccchhHHHHHHhcC--CCCCCCCCccccch
Q 021224 204 HHDCPVCCEYLFETRQDVIVL-P---CGHTIHKNCLKEMREHH--QYACPICSKSVCDM 256 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~L-p---CGH~fH~~Ci~~wl~~~--~~~CPiCrks~~d~ 256 (316)
--.|-||.|. |. +...| | ||-.++..|....++.. ...||+|+.++-..
T Consensus 80 lYeCnIC~et---S~-ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 80 LYECNICKET---SA-EERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred ceeccCcccc---cc-hhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 3568899883 32 23444 2 89999999999965542 35699999988653
No 130
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=64.30 E-value=6.8 Score=42.73 Aligned_cols=48 Identities=27% Similarity=0.676 Sum_probs=33.0
Q ss_pred Cccc-cceeecCCcCccccCCCCCCCCcc------ceeecCccccccCCCCCCeeecCCCC
Q 021224 115 PRHE-VNQVICSLCGTEQKQVCVNCGVCM------GEYFCESCKLFDDDTSKKQYHCDGCG 168 (316)
Q Consensus 115 ~R~~-v~~v~C~~C~~~Q~~~C~~Cg~~f------~~YfC~~C~l~ddd~~k~~yHC~~Cg 168 (316)
+|+. .+.++|..|+.. ..|+||...| +...|--|.. .++.+.+|+.||
T Consensus 428 nRRGys~~l~C~~Cg~v--~~Cp~Cd~~lt~H~~~~~L~CH~Cg~----~~~~p~~Cp~Cg 482 (730)
T COG1198 428 NRRGYAPLLLCRDCGYI--AECPNCDSPLTLHKATGQLRCHYCGY----QEPIPQSCPECG 482 (730)
T ss_pred ccCCccceeecccCCCc--ccCCCCCcceEEecCCCeeEeCCCCC----CCCCCCCCCCCC
Confidence 4443 458899999884 6789998877 5566666633 245677777777
No 131
>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=63.31 E-value=6 Score=29.50 Aligned_cols=27 Identities=30% Similarity=0.759 Sum_probs=17.7
Q ss_pred cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224 132 KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 132 ~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
++.|+.||....+ ......|.|+.||.
T Consensus 28 Sq~C~~CG~~~~~-----------~~~~r~~~C~~Cg~ 54 (69)
T PF07282_consen 28 SQTCPRCGHRNKK-----------RRSGRVFTCPNCGF 54 (69)
T ss_pred ccCccCccccccc-----------ccccceEEcCCCCC
Confidence 6788888887755 23445666666664
No 132
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=62.57 E-value=8.2 Score=28.78 Aligned_cols=35 Identities=29% Similarity=0.768 Sum_probs=26.1
Q ss_pred CCCCCcccccccccCCceeEEc-CCCCccchhHHHHH
Q 021224 203 MHHDCPVCCEYLFETRQDVIVL-PCGHTIHKNCLKEM 238 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~L-pCGH~fH~~Ci~~w 238 (316)
....|++|.+.+.. .+++++= -||=.+|+.|....
T Consensus 4 ~~~~C~~Cg~~~~~-~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 4 EGCKCPVCGKKFKD-GDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred cCccChhhCCcccC-CCCEEECCCCCCcccHHHHhhC
Confidence 35679999997543 4456664 59999999997654
No 133
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.16 E-value=3.6 Score=41.37 Aligned_cols=50 Identities=30% Similarity=0.618 Sum_probs=33.2
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc-----CCCCCC--CCCccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH-----HQYACP--ICSKSV 253 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~-----~~~~CP--iCrks~ 253 (316)
...|.||+...........++.|||.|+.+|..+++.. ...+|| .|...+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l 202 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRL 202 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccC
Confidence 56899999333333223336789999999999998863 235676 344433
No 134
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=61.22 E-value=7.7 Score=37.69 Aligned_cols=96 Identities=27% Similarity=0.584 Sum_probs=57.7
Q ss_pred CCccceeecCcc-ccccCCC---CCCeeecCCCCcceecCCCCeeeccCcccceec-c-c---cccccccCCCCCCCCcc
Q 021224 139 GVCMGEYFCESC-KLFDDDT---SKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM-L-L---KNSHPCVEGAMHHDCPV 209 (316)
Q Consensus 139 g~~f~~YfC~~C-~l~ddd~---~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~-~-l---~~~H~C~E~~~~~~CPI 209 (316)
-..-++|-|+.| |-|.... .-+|+||+- .-..-|.|+.|+-=|.. - | ..+|. ....|+|
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 445578899999 5664432 347899842 12578999999987732 1 1 13443 4577999
Q ss_pred cccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCccccchhH
Q 021224 210 CCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVCDMSK 258 (316)
Q Consensus 210 ClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~d~~~ 258 (316)
|.- .|.. +-+| =||. .|. -..-|.||.|+|.|.|++.
T Consensus 193 CGK-aFSR---PWLL-QGHiRTHT-------GEKPF~C~hC~kAFADRSN 230 (279)
T KOG2462|consen 193 CGK-AFSR---PWLL-QGHIRTHT-------GEKPFSCPHCGKAFADRSN 230 (279)
T ss_pred ccc-cccc---hHHh-hccccccc-------CCCCccCCcccchhcchHH
Confidence 987 3541 1111 1221 110 0123789999999998754
No 135
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=60.74 E-value=6.6 Score=38.94 Aligned_cols=52 Identities=29% Similarity=0.604 Sum_probs=39.3
Q ss_pred CCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
-...||||-+++........-.|||+.++..|+..-.. .+.+||.||++...
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~-~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD-GDGRCPGCRKPYER 299 (327)
T ss_pred cCCCCCCCCCcccccccccccccccccchhhhhhcccc-cCCCCCccCCcccc
Confidence 35789999997644444444457899999999998876 46899999987763
No 136
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=60.67 E-value=8.8 Score=30.75 Aligned_cols=53 Identities=17% Similarity=0.434 Sum_probs=24.2
Q ss_pred CCCCCCcccccccccCCceeEEc---CCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVL---PCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~L---pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.....|.||.+.+-.....-+.. -|+--.++.|++--.+.++..||.|+....
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 34578999999875544333333 578889999999888777788999996554
No 137
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=60.07 E-value=7.3 Score=40.36 Aligned_cols=47 Identities=21% Similarity=0.634 Sum_probs=38.7
Q ss_pred eEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCCCCCCc
Q 021224 82 IRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVC 141 (316)
Q Consensus 82 ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~~Cg~~ 141 (316)
+.|.-||....|.+|.-.+.-| . ....+.|-.|+..+ ...||+||..
T Consensus 214 ~~C~~Cg~~~~C~~C~~~l~~h---------~----~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 214 LLCRSCGYILCCPNCDVSLTYH---------K----KEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred eEhhhCcCccCCCCCCCceEEe---------c----CCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 7899999999999998776532 1 23489999999987 7899999885
No 138
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=60.03 E-value=5.9 Score=30.07 Aligned_cols=33 Identities=24% Similarity=0.646 Sum_probs=22.4
Q ss_pred ceeecCCcCccccCCCCCCCCccceeecCcccc
Q 021224 120 NQVICSLCGTEQKQVCVNCGVCMGEYFCESCKL 152 (316)
Q Consensus 120 ~~v~C~~C~~~Q~~~C~~Cg~~f~~YfC~~C~l 152 (316)
....|..|+++.-..|..|....+.|-|++|-|
T Consensus 24 ~~F~CPnCG~~~I~RC~~CRk~~~~Y~CP~CGF 56 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEKCRKQSNPYTCPKCGF 56 (59)
T ss_pred CEeeCCCCCCeeEeechhHHhcCCceECCCCCC
Confidence 466777776654455777777777777777765
No 139
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=59.51 E-value=5 Score=43.11 Aligned_cols=33 Identities=30% Similarity=0.752 Sum_probs=20.3
Q ss_pred eeecCCcCccc-cCCCCCCCCcc--ceeecCccccc
Q 021224 121 QVICSLCGTEQ-KQVCVNCGVCM--GEYFCESCKLF 153 (316)
Q Consensus 121 ~v~C~~C~~~Q-~~~C~~Cg~~f--~~YfC~~C~l~ 153 (316)
.-.|..|++.. ...|++||+.. +.-||+.|-..
T Consensus 15 akFC~~CG~~l~~~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 15 NRFCQKCGTSLTHKPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CccccccCCCCCCCcCCCCCCCCCcccccccccCCc
Confidence 45677777665 46677777653 55566666433
No 140
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=58.13 E-value=9.1 Score=37.20 Aligned_cols=67 Identities=22% Similarity=0.571 Sum_probs=39.8
Q ss_pred cceeecCCcCccc---------------cCCCCCCCCccceeecCccccccC----CCCCCeeecCCCCcc-------e-
Q 021224 119 VNQVICSLCGTEQ---------------KQVCVNCGVCMGEYFCESCKLFDD----DTSKKQYHCDGCGIC-------R- 171 (316)
Q Consensus 119 v~~v~C~~C~~~Q---------------~~~C~~Cg~~f~~YfC~~C~l~dd----d~~k~~yHC~~CgiC-------R- 171 (316)
.+.-.|-.|++++ .-.|.-||+.|.|-- |+.. -+..++|-|+.||== |
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPW-----LLQGHiRTHTGEKPF~C~hC~kAFADRSNLRA 233 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPW-----LLQGHIRTHTGEKPFSCPHCGKAFADRSNLRA 233 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchH-----HhhcccccccCCCCccCCcccchhcchHHHHH
Confidence 6788999999874 446888999996531 2211 234456766655511 0
Q ss_pred ---ecCCCCeeeccCcccceec
Q 021224 172 ---IGGCDNFFHCNKCRCCYSM 190 (316)
Q Consensus 172 ---~G~~~~ffHC~~C~~C~s~ 190 (316)
.-....-|-|.+|+-=.+.
T Consensus 234 HmQTHS~~K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 234 HMQTHSDVKKHQCPRCGKSFAL 255 (279)
T ss_pred HHHhhcCCccccCcchhhHHHH
Confidence 1123456777777755544
No 141
>PF14353 CpXC: CpXC protein
Probab=54.92 E-value=2.5 Score=35.38 Aligned_cols=56 Identities=16% Similarity=0.390 Sum_probs=30.7
Q ss_pred CCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEEcCCCCCCccccceeeee
Q 021224 244 YACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVLAQ 301 (316)
Q Consensus 244 ~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~IlCnDC~~~s~~~fH~lg~ 301 (316)
.+||.|+..+... .|..++......-...-..+..-.+-|..|+.+..+.+=+|++
T Consensus 2 itCP~C~~~~~~~--v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 2 ITCPHCGHEFEFE--VWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred cCCCCCCCeeEEE--EEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEE
Confidence 5799999887631 2222221100000001123344578899999998877766665
No 142
>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=54.86 E-value=9.3 Score=24.56 Aligned_cols=20 Identities=35% Similarity=0.894 Sum_probs=13.6
Q ss_pred CCCcceecCCCC-eeeccCcc
Q 021224 166 GCGICRIGGCDN-FFHCNKCR 185 (316)
Q Consensus 166 ~CgiCR~G~~~~-ffHC~~C~ 185 (316)
.|++||.-.... +++|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC
Confidence 467776654444 88888887
No 143
>PRK14873 primosome assembly protein PriA; Provisional
Probab=54.85 E-value=9.7 Score=41.04 Aligned_cols=49 Identities=22% Similarity=0.487 Sum_probs=39.4
Q ss_pred ceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc-cCCCCCCCCcc
Q 021224 81 RIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ-KQVCVNCGVCM 142 (316)
Q Consensus 81 ~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q-~~~C~~Cg~~f 142 (316)
.+.|.-|+....|.+|.--+.-| . ....+.|-.|+..+ ...|++||...
T Consensus 383 ~l~C~~Cg~~~~C~~C~~~L~~h---------~----~~~~l~Ch~CG~~~~p~~Cp~Cgs~~ 432 (665)
T PRK14873 383 SLACARCRTPARCRHCTGPLGLP---------S----AGGTPRCRWCGRAAPDWRCPRCGSDR 432 (665)
T ss_pred eeEhhhCcCeeECCCCCCceeEe---------c----CCCeeECCCCcCCCcCccCCCCcCCc
Confidence 38999999999999999876532 1 23478999999877 78999998863
No 144
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=53.57 E-value=4.9 Score=34.22 Aligned_cols=19 Identities=47% Similarity=0.950 Sum_probs=16.0
Q ss_pred eeeecCCCCC----CccccccCC
Q 021224 298 VLAQKCPNCK----SYNTRLTRG 316 (316)
Q Consensus 298 ~lg~kC~~C~----SyNT~~~~~ 316 (316)
.|-+||+.|| +|+|+|+|+
T Consensus 72 ~I~~kCpkCghe~m~Y~T~QlRS 94 (116)
T KOG2907|consen 72 VIKHKCPKCGHEEMSYHTLQLRS 94 (116)
T ss_pred chhccCcccCCchhhhhhhhccc
Confidence 4678999997 899999973
No 145
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.81 E-value=5.4 Score=43.71 Aligned_cols=45 Identities=36% Similarity=0.680 Sum_probs=32.6
Q ss_pred CCCCcccccccccCC---ceeEEcCCCCccchhHHHHHHhcCCCCCCCCC
Q 021224 204 HHDCPVCCEYLFETR---QDVIVLPCGHTIHKNCLKEMREHHQYACPICS 250 (316)
Q Consensus 204 ~~~CPIClE~lf~s~---~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCr 250 (316)
++.|..|.++...+. ..++++.|||.||..|+.....+. .|-+|.
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 446888887665444 568899999999999999875533 255554
No 146
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=52.35 E-value=13 Score=25.87 Aligned_cols=8 Identities=38% Similarity=0.974 Sum_probs=4.1
Q ss_pred eeecCCCC
Q 021224 161 QYHCDGCG 168 (316)
Q Consensus 161 ~yHC~~Cg 168 (316)
..+|+.||
T Consensus 21 ~~~Cp~CG 28 (46)
T PRK00398 21 GVRCPYCG 28 (46)
T ss_pred ceECCCCC
Confidence 45555554
No 147
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=52.32 E-value=2.5 Score=43.34 Aligned_cols=97 Identities=31% Similarity=0.721 Sum_probs=57.9
Q ss_pred ceeecCccccccCCCCCCeeecCCCC------cceecCC---CCeeeccCcccceecc-----ccccccccC---CCCCC
Q 021224 143 GEYFCESCKLFDDDTSKKQYHCDGCG------ICRIGGC---DNFFHCNKCRCCYSML-----LKNSHPCVE---GAMHH 205 (316)
Q Consensus 143 ~~YfC~~C~l~ddd~~k~~yHC~~Cg------iCR~G~~---~~ffHC~~C~~C~s~~-----l~~~H~C~E---~~~~~ 205 (316)
++-||.-| |.|..+| |..|| |=|.-|+ -+=|.|-.|+-|+.-. ..++-.|++ +.+.-
T Consensus 322 ~k~~CE~c--yq~tlek----C~~Cg~~I~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAP 395 (468)
T KOG1701|consen 322 GKPYCEGC--YQDTLEK----CNKCGEPIMDRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAP 395 (468)
T ss_pred CcccchHH--HHHHHHH----HhhhhhHHHHHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCc
Confidence 45566666 5454444 44444 2233332 4667788888887432 224456776 56778
Q ss_pred CCcccccccccC---CceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 206 DCPVCCEYLFET---RQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 206 ~CPIClE~lf~s---~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.|.||-+.+.-. .+.+++..=+-.||.+| |+|--|+..+.
T Consensus 396 rCs~C~~PI~P~~G~~etvRvvamdr~fHv~C---------Y~CEDCg~~LS 438 (468)
T KOG1701|consen 396 RCSVCGNPILPRDGKDETVRVVAMDRDFHVNC---------YKCEDCGLLLS 438 (468)
T ss_pred chhhccCCccCCCCCcceEEEEEccccccccc---------eehhhcCcccc
Confidence 899999877422 12344444478888876 56777776554
No 148
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=51.90 E-value=8 Score=27.38 Aligned_cols=9 Identities=33% Similarity=0.803 Sum_probs=4.8
Q ss_pred CCCCCCCCc
Q 021224 133 QVCVNCGVC 141 (316)
Q Consensus 133 ~~C~~Cg~~ 141 (316)
..|++||..
T Consensus 20 irC~~CG~r 28 (44)
T smart00659 20 VRCRECGYR 28 (44)
T ss_pred eECCCCCce
Confidence 445555554
No 149
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=51.66 E-value=11 Score=26.24 Aligned_cols=31 Identities=19% Similarity=0.415 Sum_probs=19.9
Q ss_pred ceEEcCCCCCCccccceeeeecCCCCCCccc
Q 021224 281 VWILCNDCGKTSNVQFHVLAQKCPNCKSYNT 311 (316)
Q Consensus 281 ~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT 311 (316)
....|.+|++.....-.....+|+.||+.-.
T Consensus 2 ~~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 2 AEYKCARCGREVELDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred CEEECCCCCCEEEECCCCCceECCCCCCeEE
Confidence 3567888887654433333678999987543
No 150
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.37 E-value=1.4 Score=44.77 Aligned_cols=53 Identities=19% Similarity=0.417 Sum_probs=43.5
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
+.-..+.||.+.+...-.....+.|||..|..++.+||.. ...+|-|++.+..
T Consensus 194 slv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 194 SLVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPK 246 (465)
T ss_pred HHHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhh
Confidence 3346799999887665456778899999999999999975 5789999988863
No 151
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=50.71 E-value=14 Score=40.35 Aligned_cols=52 Identities=23% Similarity=0.504 Sum_probs=41.8
Q ss_pred ceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCCCCCCcccee
Q 021224 81 RIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVCMGEY 145 (316)
Q Consensus 81 ~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~~Cg~~f~~Y 145 (316)
.+.|.-||..+.|++|=.-++-|. ....+.|-.|+..+ ...||+||...=+|
T Consensus 435 ~l~C~~Cg~v~~Cp~Cd~~lt~H~-------------~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~ 488 (730)
T COG1198 435 LLLCRDCGYIAECPNCDSPLTLHK-------------ATGQLRCHYCGYQEPIPQSCPECGSEHLRA 488 (730)
T ss_pred eeecccCCCcccCCCCCcceEEec-------------CCCeeEeCCCCCCCCCCCCCCCCCCCeeEE
Confidence 389999999999999976665432 12699999999997 89999999985444
No 152
>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 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=49.41 E-value=14 Score=25.44 Aligned_cols=8 Identities=50% Similarity=1.086 Sum_probs=4.4
Q ss_pred CCCCCCCc
Q 021224 134 VCVNCGVC 141 (316)
Q Consensus 134 ~C~~Cg~~ 141 (316)
.||+||..
T Consensus 2 ~Cp~Cg~~ 9 (43)
T PF08271_consen 2 KCPNCGSK 9 (43)
T ss_dssp SBTTTSSS
T ss_pred CCcCCcCC
Confidence 35566554
No 154
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=49.13 E-value=17 Score=36.40 Aligned_cols=80 Identities=23% Similarity=0.525 Sum_probs=49.4
Q ss_pred ccCC--CCCCeeecCCCCcceecC-CCCeeeccCcccceecc-ccccccccCCCCCCCCcccccccccCCceeEEcCCC-
Q 021224 153 FDDD--TSKKQYHCDGCGICRIGG-CDNFFHCNKCRCCYSML-LKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCG- 227 (316)
Q Consensus 153 ~ddd--~~k~~yHC~~CgiCR~G~-~~~ffHC~~C~~C~s~~-l~~~H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCG- 227 (316)
|||- +.+-+-||+.| |--|. .|=||.|-.+..= .+. -...|.=..+.-...|-.|-+ -+.++.+++|.
T Consensus 169 WdDVLks~Ripg~Ces~--~~pg~fAEFfFKC~ah~~~-~k~~aa~lhli~~N~~ni~C~~Ctd----v~~~vlvf~Cns 241 (446)
T KOG0006|consen 169 WDDVLKSKRIPGVCESC--CTPGLFAEFFFKCGAHPTS-DKETAAALHLIATNSRNITCITCTD----VRSPVLVFQCNS 241 (446)
T ss_pred hhhhhhcccCccccccc--cCCcchHhheehhccCCCc-cccchhHHHHhhcccccceeEEecC----CccceEEEecCC
Confidence 8773 35677888776 33333 4666755444432 111 111243334555678999986 23478889998
Q ss_pred -CccchhHHHHHH
Q 021224 228 -HTIHKNCLKEMR 239 (316)
Q Consensus 228 -H~fH~~Ci~~wl 239 (316)
|..+..|+.-|-
T Consensus 242 ~HvtC~dCFr~yc 254 (446)
T KOG0006|consen 242 RHVTCLDCFRLYC 254 (446)
T ss_pred ceeehHHhhhhHh
Confidence 999999999653
No 155
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=48.91 E-value=14 Score=25.18 Aligned_cols=26 Identities=23% Similarity=0.566 Sum_probs=17.3
Q ss_pred CCCCCCCccceeecCccccccCCCCCCeeecCCCC
Q 021224 134 VCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCG 168 (316)
Q Consensus 134 ~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cg 168 (316)
.||.|+..|..+. + .+-.+++|+.||
T Consensus 1 ~CP~C~~~l~~~~------~---~~~~id~C~~C~ 26 (41)
T PF13453_consen 1 KCPRCGTELEPVR------L---GDVEIDVCPSCG 26 (41)
T ss_pred CcCCCCcccceEE------E---CCEEEEECCCCC
Confidence 4788888886653 2 225677777776
No 156
>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=47.84 E-value=13 Score=21.15 Aligned_cols=18 Identities=39% Similarity=0.881 Sum_probs=11.5
Q ss_pred CCCCCCCccccchhHHHH
Q 021224 244 YACPICSKSVCDMSKVWE 261 (316)
Q Consensus 244 ~~CPiCrks~~d~~~~~~ 261 (316)
|.||+|.+.+......++
T Consensus 1 ~~C~~C~~~~~~~~~l~~ 18 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQ 18 (24)
T ss_dssp EE-SSTS-EESSHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHH
Confidence 469999999987665443
No 157
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.81 E-value=14 Score=29.78 Aligned_cols=30 Identities=30% Similarity=0.565 Sum_probs=19.4
Q ss_pred CCCCCCCccccchhHHHHHhHHHHHcC--CCChhhh
Q 021224 244 YACPICSKSVCDMSKVWEKYDREIAAT--PMPEAYL 277 (316)
Q Consensus 244 ~~CPiCrks~~d~~~~~~~lD~~ia~~--pmP~ey~ 277 (316)
-.||-||..++|.. .||.+|+.+ |-|.+|.
T Consensus 22 D~CPrCrGVWLDrG----ELdKli~r~r~pqpa~ys 53 (88)
T COG3809 22 DYCPRCRGVWLDRG----ELDKLIERSRYPQPAEYS 53 (88)
T ss_pred eeCCccccEeecch----hHHHHHHHhcCCCCcccC
Confidence 36999999999875 455555543 3344443
No 158
>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=47.68 E-value=14 Score=26.12 Aligned_cols=33 Identities=27% Similarity=0.545 Sum_probs=20.8
Q ss_pred eEEcCCCCCCcccccee---eeecCCCCCCccc-ccc
Q 021224 282 WILCNDCGKTSNVQFHV---LAQKCPNCKSYNT-RLT 314 (316)
Q Consensus 282 ~IlCnDC~~~s~~~fH~---lg~kC~~C~SyNT-~~~ 314 (316)
+..|.+|+...++-..+ -...|+.|||-+. |++
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~~ 41 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRLL 41 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEEe
Confidence 45688888766553221 1237999999776 444
No 159
>PRK05580 primosome assembly protein PriA; Validated
Probab=47.40 E-value=14 Score=39.62 Aligned_cols=49 Identities=20% Similarity=0.541 Sum_probs=39.5
Q ss_pred ceEcCCCCCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCCCCCCcc
Q 021224 81 RIRAPCCNEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVCM 142 (316)
Q Consensus 81 ~ik~pCC~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~~Cg~~f 142 (316)
.+.|.-|+....|.+|.-.+.-| . ....+.|-.|+..+ ...|++||...
T Consensus 381 ~~~C~~Cg~~~~C~~C~~~l~~h---------~----~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~ 431 (679)
T PRK05580 381 FLLCRDCGWVAECPHCDASLTLH---------R----FQRRLRCHHCGYQEPIPKACPECGSTD 431 (679)
T ss_pred ceEhhhCcCccCCCCCCCceeEE---------C----CCCeEECCCCcCCCCCCCCCCCCcCCe
Confidence 38899999999999999766532 1 13589999999887 78999998874
No 160
>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=46.98 E-value=21 Score=25.66 Aligned_cols=8 Identities=50% Similarity=1.630 Sum_probs=4.2
Q ss_pred CCCCCCCc
Q 021224 244 YACPICSK 251 (316)
Q Consensus 244 ~~CPiCrk 251 (316)
|+||.|.+
T Consensus 3 f~CP~C~~ 10 (54)
T PF05605_consen 3 FTCPYCGK 10 (54)
T ss_pred cCCCCCCC
Confidence 44555555
No 161
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=46.67 E-value=7.3 Score=43.07 Aligned_cols=51 Identities=29% Similarity=0.626 Sum_probs=37.1
Q ss_pred CCCCCCcccccccccCCceeEEcCCC-----CccchhHHHHHHhcC-CCCCCCCCcccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREHH-QYACPICSKSVC 254 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~~-~~~CPiCrks~~ 254 (316)
+.+..|-||.-. +.++++..=||. -.+|++|+.+|+..+ ...|-+|..++.
T Consensus 10 ~d~~~CRICr~e--~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTE--DIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCC--CCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 445789999753 334456666885 459999999999753 456999997765
No 162
>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=46.60 E-value=4.9 Score=27.30 Aligned_cols=27 Identities=33% Similarity=0.725 Sum_probs=14.7
Q ss_pred CCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224 134 VCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 134 ~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
.|++||+.++.+| ++.|..--||.||-
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 3566666665544 34455556666664
No 163
>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=45.75 E-value=6.9 Score=43.32 Aligned_cols=47 Identities=28% Similarity=0.607 Sum_probs=0.0
Q ss_pred cCCCCCCCCccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccc
Q 021224 132 KQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCC 187 (316)
Q Consensus 132 ~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C 187 (316)
.-.|++||..--.-.|+.|.-. ....|.|+.||+ ++. -.+|++|+.=
T Consensus 655 ~r~Cp~Cg~~t~~~~Cp~CG~~----T~~~~~Cp~C~~-~~~----~~~C~~C~~~ 701 (900)
T PF03833_consen 655 RRRCPKCGKETFYNRCPECGSH----TEPVYVCPDCGI-EVE----EDECPKCGRE 701 (900)
T ss_dssp --------------------------------------------------------
T ss_pred cccCcccCCcchhhcCcccCCc----cccceecccccc-ccC----cccccccccc
Confidence 3457777776666667777433 346777777776 222 1277777754
No 164
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=45.49 E-value=20 Score=39.39 Aligned_cols=78 Identities=27% Similarity=0.484 Sum_probs=46.4
Q ss_pred CCeeecCCCCcceecCCCCeeeccCcccceeccccccccccCCCCCCCCcccccccccCCceeEEcCCCCccchhHHHHH
Q 021224 159 KKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEM 238 (316)
Q Consensus 159 k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~E~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~w 238 (316)
.-+|-|+.|+-=-+++++ --|++|- +.+ ...|.+|-..+-. ..+.---|||-.|.+++.+|
T Consensus 751 ~i~~~~~nc~a~~~~~~~--~~c~rc~---s~a------------~~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw 811 (839)
T KOG0269|consen 751 TIHYACPNCDAPMVLTKL--WQCDRCE---SRA------------SAKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSW 811 (839)
T ss_pred eeeccccccCCccccccc--eeechHH---HHh------------hcCceeecceeee--eEeecccccccccHHHHHHH
Confidence 357888888755554443 3344433 322 2359999854322 12222359999999999999
Q ss_pred HhcCCCCCCC--C-----Cccccch
Q 021224 239 REHHQYACPI--C-----SKSVCDM 256 (316)
Q Consensus 239 l~~~~~~CPi--C-----rks~~d~ 256 (316)
+.. ..-||. | +.++.|+
T Consensus 812 ~~~-~s~ca~~~C~~~c~~~~~~D~ 835 (839)
T KOG0269|consen 812 FFK-ASPCAKSICPHLCHYSSFIDT 835 (839)
T ss_pred Hhc-CCCCccccCCccccccccchh
Confidence 874 455655 4 4555554
No 165
>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=45.43 E-value=16 Score=34.98 Aligned_cols=28 Identities=39% Similarity=0.686 Sum_probs=16.4
Q ss_pred cceeecCCcCccc---cCCCCCCCCccceee
Q 021224 119 VNQVICSLCGTEQ---KQVCVNCGVCMGEYF 146 (316)
Q Consensus 119 v~~v~C~~C~~~Q---~~~C~~Cg~~f~~Yf 146 (316)
.+-..|+.|+++= -..|++||..-..-+
T Consensus 195 ~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l 225 (290)
T PF04216_consen 195 KRYLHCSLCGTEWRFVRIKCPYCGNTDHEKL 225 (290)
T ss_dssp EEEEEETTT--EEE--TTS-TTT---SS-EE
T ss_pred cEEEEcCCCCCeeeecCCCCcCCCCCCCcce
Confidence 3689999999993 678999998776544
No 166
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.36 E-value=10 Score=35.10 Aligned_cols=39 Identities=33% Similarity=0.766 Sum_probs=28.8
Q ss_pred CcccccccccCCceeEEcCCCCc-cchhHHHHHHhcCCCCCCCCCcccc
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHT-IHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~-fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
|-.|.+. ...+.+|||-|. ++..|-.. + ..||+|+.+..
T Consensus 161 Cr~C~~~----~~~VlllPCrHl~lC~~C~~~-~----~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER----EATVLLLPCRHLCLCGICDES-L----RICPICRSPKT 200 (207)
T ss_pred ceecCcC----CceEEeecccceEeccccccc-C----ccCCCCcChhh
Confidence 9999873 235888999876 77888765 2 35999996554
No 167
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=44.80 E-value=13 Score=28.44 Aligned_cols=32 Identities=25% Similarity=0.668 Sum_probs=17.7
Q ss_pred eeecCCcCccccCCCCCCCCccceeecCcccc
Q 021224 121 QVICSLCGTEQKQVCVNCGVCMGEYFCESCKL 152 (316)
Q Consensus 121 ~v~C~~C~~~Q~~~C~~Cg~~f~~YfC~~C~l 152 (316)
...|..|+.++-..|..|...=+.|-|++|-|
T Consensus 27 ~F~CPnCGe~~I~Rc~~CRk~g~~Y~Cp~CGF 58 (61)
T COG2888 27 KFPCPNCGEVEIYRCAKCRKLGNPYRCPKCGF 58 (61)
T ss_pred EeeCCCCCceeeehhhhHHHcCCceECCCcCc
Confidence 55555555555445555555555555555544
No 168
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=44.53 E-value=23 Score=26.39 Aligned_cols=29 Identities=31% Similarity=0.748 Sum_probs=22.3
Q ss_pred ceEEcCCCCCCccccceeeeecCCCCCCcccccc
Q 021224 281 VWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLT 314 (316)
Q Consensus 281 ~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~ 314 (316)
..+.|..|++. ..-| +-|+.||.|+-+++
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 45779999975 3345 45999999999885
No 169
>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=43.95 E-value=7.6 Score=42.99 Aligned_cols=44 Identities=30% Similarity=0.761 Sum_probs=0.0
Q ss_pred eeecCCcCccc-cCCCCCCCCc-cceeecCccccccCCCCCCeeecCCCCc
Q 021224 121 QVICSLCGTEQ-KQVCVNCGVC-MGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 121 ~v~C~~C~~~Q-~~~C~~Cg~~-f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
.-.|..|+++. ...|+.||.. .-.|+|+.|+.--++ -+|+.||.
T Consensus 655 ~r~Cp~Cg~~t~~~~Cp~CG~~T~~~~~Cp~C~~~~~~-----~~C~~C~~ 700 (900)
T PF03833_consen 655 RRRCPKCGKETFYNRCPECGSHTEPVYVCPDCGIEVEE-----DECPKCGR 700 (900)
T ss_dssp ---------------------------------------------------
T ss_pred cccCcccCCcchhhcCcccCCccccceeccccccccCc-----cccccccc
Confidence 45788888887 8888888866 456778888653221 17888874
No 170
>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=43.20 E-value=12 Score=28.72 Aligned_cols=14 Identities=43% Similarity=0.971 Sum_probs=12.2
Q ss_pred eecCCCCCCccccc
Q 021224 300 AQKCPNCKSYNTRL 313 (316)
Q Consensus 300 g~kC~~C~SyNT~~ 313 (316)
.++|+.|.|.||+.
T Consensus 5 ~~~CPRC~S~nTKF 18 (63)
T PF02701_consen 5 PLPCPRCDSTNTKF 18 (63)
T ss_pred CCCCCCcCCCCCEE
Confidence 36999999999975
No 171
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=43.10 E-value=15 Score=34.51 Aligned_cols=51 Identities=24% Similarity=0.523 Sum_probs=36.8
Q ss_pred CCCCcccccccccCCceeEEcCCC-----CccchhHHHHHHhc-CCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCG-----HTIHKNCLKEMREH-HQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCG-----H~fH~~Ci~~wl~~-~~~~CPiCrks~~ 254 (316)
+..|=||.+............||. ...|+.|++.|+.. ++..|.+|...+.
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 467999998654432224567883 67899999999874 3467999997654
No 172
>PHA00626 hypothetical protein
Probab=42.22 E-value=16 Score=27.70 Aligned_cols=34 Identities=21% Similarity=0.447 Sum_probs=20.2
Q ss_pred eecCCcCccccCCCCCCCCccceeecCccccccC
Q 021224 122 VICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDD 155 (316)
Q Consensus 122 v~C~~C~~~Q~~~C~~Cg~~f~~YfC~~C~l~dd 155 (316)
|.|..|+..+-..|.-|...-++|-|..|.+++.
T Consensus 1 m~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft 34 (59)
T PHA00626 1 MSCPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDS 34 (59)
T ss_pred CCCCCCCCceeeeeceecccCcceEcCCCCCeec
Confidence 3566666655335555666666777777766543
No 173
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=42.09 E-value=11 Score=37.50 Aligned_cols=30 Identities=27% Similarity=0.752 Sum_probs=23.3
Q ss_pred EEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 222 IVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 222 v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
+++||.|.|+.+|...- ....||.|.-.+.
T Consensus 105 RmIPCkHvFCl~CAr~~---~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARSD---SDKICPLCDDRVQ 134 (389)
T ss_pred cccccchhhhhhhhhcC---ccccCcCcccHHH
Confidence 57899999999998753 2357999986554
No 174
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=42.04 E-value=10 Score=36.86 Aligned_cols=49 Identities=33% Similarity=0.746 Sum_probs=28.0
Q ss_pred CCeecChhhHhhhccCcCcccccCCCCCccccceeecCCcCccc--cCCCCCCCCccceeecCcccc
Q 021224 88 NEIFDCRHCHNEAMNNINVDQKLRHDIPRHEVNQVICSLCGTEQ--KQVCVNCGVCMGEYFCESCKL 152 (316)
Q Consensus 88 ~~~Y~Cr~CHde~~~~~~~~~~~~H~~~R~~v~~v~C~~C~~~Q--~~~C~~Cg~~f~~YfC~~C~l 152 (316)
|++|.|-+|++-+... |+++ |.. .|+... ...|.+|+. +|.|.|..||.
T Consensus 140 Grif~CsfC~~flCED---DQFE-HQA-----------sCQvLe~E~~KC~SCNr-lGq~sCLRCK~ 190 (314)
T PF06524_consen 140 GRIFKCSFCDNFLCED---DQFE-HQA-----------SCQVLESETFKCQSCNR-LGQYSCLRCKI 190 (314)
T ss_pred CeEEEeecCCCeeecc---chhh-hhh-----------hhhhhhccccccccccc-ccchhhhheee
Confidence 5678888887766521 2222 211 133322 556777764 77888888774
No 175
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=40.06 E-value=5.1 Score=38.85 Aligned_cols=29 Identities=21% Similarity=0.543 Sum_probs=25.4
Q ss_pred CccCCcccccCcceEcCCCCCeecChhhHh
Q 021224 69 MEYGCQHYRRRCRIRAPCCNEIFDCRHCHN 98 (316)
Q Consensus 69 ~~~gC~HY~r~c~ik~pCC~~~Y~Cr~CHd 98 (316)
..+.|.||...=-++.++|.. |+|..||+
T Consensus 176 ~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 176 GVLKCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred CccCcccchHHHHHHHHhccC-CCCCcccc
Confidence 446799999865689999999 99999999
No 176
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=39.74 E-value=19 Score=30.75 Aligned_cols=26 Identities=27% Similarity=0.677 Sum_probs=21.5
Q ss_pred cccceeecCCcCccc-----cCCCCCCCCcc
Q 021224 117 HEVNQVICSLCGTEQ-----KQVCVNCGVCM 142 (316)
Q Consensus 117 ~~v~~v~C~~C~~~Q-----~~~C~~Cg~~f 142 (316)
.+...|.|..|+++. .+.|.+|+.++
T Consensus 65 tkav~V~CP~C~K~TKmLGr~D~CM~C~~pL 95 (114)
T PF11023_consen 65 TKAVQVECPNCGKQTKMLGRVDACMHCKEPL 95 (114)
T ss_pred ccceeeECCCCCChHhhhchhhccCcCCCcC
Confidence 345689999999885 78999999887
No 177
>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=39.69 E-value=22 Score=30.50 Aligned_cols=49 Identities=20% Similarity=0.444 Sum_probs=35.2
Q ss_pred CCCCCccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccceec
Q 021224 136 VNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSM 190 (316)
Q Consensus 136 ~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~ 190 (316)
...+......+|.+|+.+-- ....||..||.|..+ --.||.==|.|+..
T Consensus 40 ~~~~~~~~~~~C~~C~~~kp---~Rs~HC~~C~~CV~~---~DHHC~w~~~cIG~ 88 (174)
T PF01529_consen 40 PEDDENGELKYCSTCKIIKP---PRSHHCRVCNRCVLR---FDHHCPWLGNCIGR 88 (174)
T ss_pred hccccCCCCEECcccCCcCC---Ccceecccccccccc---ccccchhhcccccc
Confidence 34567788889999998833 247888888888874 34577777777653
No 178
>PLN02189 cellulose synthase
Probab=39.38 E-value=25 Score=39.89 Aligned_cols=56 Identities=18% Similarity=0.412 Sum_probs=39.0
Q ss_pred cCCCCCCCCcccccccccCC--ceeEEc-CCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 199 VEGAMHHDCPVCCEYLFETR--QDVIVL-PCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 199 ~E~~~~~~CPIClE~lf~s~--~~~v~L-pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.++.....|.||.|++-... +.-+.- -||--.|+.|++-=.+.++..||.|+....
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 34455679999999875333 333333 377889999996555667788999996554
No 179
>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=39.31 E-value=15 Score=32.27 Aligned_cols=16 Identities=38% Similarity=0.843 Sum_probs=14.1
Q ss_pred eecCCCCCCccccccC
Q 021224 300 AQKCPNCKSYNTRLTR 315 (316)
Q Consensus 300 g~kC~~C~SyNT~~~~ 315 (316)
...|+.|||-||++++
T Consensus 105 ~~~cp~c~s~~t~~~s 120 (146)
T TIGR02159 105 SVQCPRCGSADTTITS 120 (146)
T ss_pred CCcCCCCCCCCcEeec
Confidence 4699999999999875
No 180
>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=39.21 E-value=28 Score=21.89 Aligned_cols=20 Identities=25% Similarity=0.617 Sum_probs=12.8
Q ss_pred CCCCCCCccccchhHHHHHhH
Q 021224 244 YACPICSKSVCDMSKVWEKYD 264 (316)
Q Consensus 244 ~~CPiCrks~~d~~~~~~~lD 264 (316)
..||+|.+.+ .+....+-+|
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999988 3333444455
No 181
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=38.59 E-value=11 Score=43.43 Aligned_cols=51 Identities=25% Similarity=0.471 Sum_probs=38.8
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCccccch
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVCDM 256 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~ 256 (316)
..+..|+||++.+-. .-.+.-|||.++..|+..|+.. +..||+|....++.
T Consensus 1151 ~~~~~c~ic~dil~~---~~~I~~cgh~~c~~c~~~~l~~-~s~~~~~ksi~~df 1201 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRN---QGGIAGCGHEPCCRCDELWLYA-SSRCPICKSIKGDF 1201 (1394)
T ss_pred hcccchHHHHHHHHh---cCCeeeechhHhhhHHHHHHHH-hccCcchhhhhhhh
Confidence 345589999986432 2235569999999999999985 58899999666653
No 182
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=38.54 E-value=21 Score=27.15 Aligned_cols=34 Identities=32% Similarity=0.555 Sum_probs=26.2
Q ss_pred ceeecCCcCccc--------cCCCCCCCCccceeecCccccc
Q 021224 120 NQVICSLCGTEQ--------KQVCVNCGVCMGEYFCESCKLF 153 (316)
Q Consensus 120 ~~v~C~~C~~~Q--------~~~C~~Cg~~f~~YfC~~C~l~ 153 (316)
-.|.|..|+.+| ...|..||..+++-.=++-+|.
T Consensus 10 ~~VkCp~C~n~q~vFsha~t~V~C~~Cg~~L~~PtGGKa~i~ 51 (59)
T PRK00415 10 LKVKCPDCGNEQVVFSHASTVVRCLVCGKTLAEPTGGKAKIK 51 (59)
T ss_pred EEEECCCCCCeEEEEecCCcEEECcccCCCcccCCCcceeee
Confidence 479999999997 4679999999887665555443
No 183
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=37.67 E-value=23 Score=25.94 Aligned_cols=28 Identities=32% Similarity=0.716 Sum_probs=16.2
Q ss_pred cceeecCcc-ccccCCCCCCeeecCCCCc
Q 021224 142 MGEYFCESC-KLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 142 f~~YfC~~C-~l~ddd~~k~~yHC~~Cgi 169 (316)
+..|-|..| +.|+.+..+.-..|+.||.
T Consensus 4 ~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~ 32 (49)
T COG1996 4 MMEYKCARCGREVELDQETRGIRCPYCGS 32 (49)
T ss_pred eEEEEhhhcCCeeehhhccCceeCCCCCc
Confidence 345555555 3445455566677777775
No 184
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=37.63 E-value=18 Score=31.57 Aligned_cols=20 Identities=40% Similarity=1.064 Sum_probs=15.4
Q ss_pred cCCCCCCCCcc----ceeecCccc
Q 021224 132 KQVCVNCGVCM----GEYFCESCK 151 (316)
Q Consensus 132 ~~~C~~Cg~~f----~~YfC~~C~ 151 (316)
+..|+.||.++ |+-||++|-
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~ 51 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCG 51 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCC
Confidence 67899999988 555777774
No 185
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=37.30 E-value=36 Score=35.29 Aligned_cols=46 Identities=26% Similarity=0.678 Sum_probs=29.1
Q ss_pred cceeecCCcCccccCCCCCCCCccc------eeecCccccccCCCCCCeeecCCCCcc
Q 021224 119 VNQVICSLCGTEQKQVCVNCGVCMG------EYFCESCKLFDDDTSKKQYHCDGCGIC 170 (316)
Q Consensus 119 v~~v~C~~C~~~Q~~~C~~Cg~~f~------~YfC~~C~l~ddd~~k~~yHC~~CgiC 170 (316)
...++|..|+. ...|++|+..+. .-.|.-|.+ ..+.+..|+.||-=
T Consensus 211 a~~~~C~~Cg~--~~~C~~C~~~l~~h~~~~~l~Ch~Cg~----~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 211 SKNLLCRSCGY--ILCCPNCDVSLTYHKKEGKLRCHYCGY----QEPIPKTCPQCGSE 262 (505)
T ss_pred CCeeEhhhCcC--ccCCCCCCCceEEecCCCeEEcCCCcC----cCCCCCCCCCCCCC
Confidence 35678888887 467888887774 344666642 23345567777643
No 186
>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=37.30 E-value=25 Score=23.00 Aligned_cols=25 Identities=28% Similarity=0.787 Sum_probs=15.7
Q ss_pred eeecCccccccCCCCCCeeecCCCCc
Q 021224 144 EYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 144 ~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
+|-|.+|-+.=+ +.+.++.|+.||.
T Consensus 1 ~~~C~~CGy~y~-~~~~~~~CP~Cg~ 25 (33)
T cd00350 1 KYVCPVCGYIYD-GEEAPWVCPVCGA 25 (33)
T ss_pred CEECCCCCCEEC-CCcCCCcCcCCCC
Confidence 366777755433 3457778887774
No 187
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.08 E-value=6.4 Score=37.28 Aligned_cols=50 Identities=26% Similarity=0.579 Sum_probs=36.8
Q ss_pred CCCCcccccccc--cCCceeEEcC--------CCCccchhHHHHHHhcCCCCCCCCCccc
Q 021224 204 HHDCPVCCEYLF--ETRQDVIVLP--------CGHTIHKNCLKEMREHHQYACPICSKSV 253 (316)
Q Consensus 204 ~~~CPIClE~lf--~s~~~~v~Lp--------CGH~fH~~Ci~~wl~~~~~~CPiCrks~ 253 (316)
...|.||..... +....+.++. |||+.+..|++..+......||.|++..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~ 266 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCccccee
Confidence 356899976443 2234456667 9999999999998765557899999753
No 188
>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=37.05 E-value=19 Score=20.85 Aligned_cols=15 Identities=53% Similarity=1.112 Sum_probs=11.6
Q ss_pred CCCCCCCccccchhH
Q 021224 244 YACPICSKSVCDMSK 258 (316)
Q Consensus 244 ~~CPiCrks~~d~~~ 258 (316)
|.||.|.+.+.....
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 469999999887544
No 189
>PRK00420 hypothetical protein; Validated
Probab=36.73 E-value=24 Score=29.95 Aligned_cols=21 Identities=24% Similarity=0.471 Sum_probs=14.1
Q ss_pred cCCCCCCCCccc-----eeecCcccc
Q 021224 132 KQVCVNCGVCMG-----EYFCESCKL 152 (316)
Q Consensus 132 ~~~C~~Cg~~f~-----~YfC~~C~l 152 (316)
+..||.||.+|. +.||+.|.-
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg~ 48 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHGK 48 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCCC
Confidence 577888888774 356666643
No 190
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=36.59 E-value=29 Score=34.71 Aligned_cols=49 Identities=16% Similarity=0.356 Sum_probs=35.6
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
.....||||+.. ...+.+.--=|-.||-.|+..++. ...+||+=.+++.
T Consensus 298 ~~~~~CpvClk~---r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKK---RQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhc---cCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCcch
Confidence 456789999963 222333334499999999999997 4468999877664
No 191
>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=36.52 E-value=24 Score=24.06 Aligned_cols=34 Identities=26% Similarity=0.571 Sum_probs=16.5
Q ss_pred CCCCCCCccceeecCccccccCCCCCCeeecCCCC
Q 021224 134 VCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCG 168 (316)
Q Consensus 134 ~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cg 168 (316)
.|++||+.-+-|| .+=--=-|++..-.|.|-.||
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 5888988777665 000000234455666666665
No 192
>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=36.46 E-value=18 Score=37.56 Aligned_cols=43 Identities=23% Similarity=0.582 Sum_probs=23.5
Q ss_pred CCccceeecCccccccCCCCC----CeeecCCCCcceecCCCCeeeccCcccceecccc
Q 021224 139 GVCMGEYFCESCKLFDDDTSK----KQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLK 193 (316)
Q Consensus 139 g~~f~~YfC~~C~l~ddd~~k----~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~ 193 (316)
...+..|||+.|-+ +-++. ....|. .+=|-|..|..-+++...
T Consensus 21 ~~Ei~~~yCp~CL~--~~p~~e~~~~~nrC~----------r~Cf~CP~C~~~L~~~~~ 67 (483)
T PF05502_consen 21 SEEIDSYYCPNCLF--EVPSSEARSEKNRCS----------RNCFDCPICFSPLSVRAS 67 (483)
T ss_pred ccccceeECccccc--cCChhhheeccceec----------cccccCCCCCCcceeEec
Confidence 45667788888832 21111 123341 144777777777776543
No 193
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=36.44 E-value=24 Score=31.91 Aligned_cols=49 Identities=27% Similarity=0.480 Sum_probs=33.4
Q ss_pred CCCCCCCCccccchhHHHHHhHHHHHcCCCC-hhhhcCcceEEcCCCCCCcccccee
Q 021224 243 QYACPICSKSVCDMSKVWEKYDREIAATPMP-EAYLNKKVWILCNDCGKTSNVQFHV 298 (316)
Q Consensus 243 ~~~CPiCrks~~d~~~~~~~lD~~ia~~pmP-~ey~~~~~~IlCnDC~~~s~~~fH~ 298 (316)
-.+||.|+.++...+. +.+...+| ..|.+......|..|++.-+..-||
T Consensus 97 ~~RCp~CN~~L~~vs~-------eev~~~Vp~~~~~~~~~f~~C~~CgkiYW~GsHw 146 (165)
T COG1656 97 FSRCPECNGELEKVSR-------EEVKEKVPEKVYRNYEEFYRCPKCGKIYWKGSHW 146 (165)
T ss_pred cccCcccCCEeccCcH-------HHHhhccchhhhhcccceeECCCCcccccCchHH
Confidence 3579999998876432 22223334 4566666667799999988888776
No 194
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=36.24 E-value=21 Score=27.25 Aligned_cols=20 Identities=25% Similarity=0.561 Sum_probs=15.3
Q ss_pred ecCCcCccc-cCCCCCCCCcc
Q 021224 123 ICSLCGTEQ-KQVCVNCGVCM 142 (316)
Q Consensus 123 ~C~~C~~~Q-~~~C~~Cg~~f 142 (316)
.|..|...+ .+.||+||..-
T Consensus 5 AC~~C~~i~~~~~CP~Cgs~~ 25 (61)
T PRK08351 5 ACRHCHYITTEDRCPVCGSRD 25 (61)
T ss_pred hhhhCCcccCCCcCCCCcCCc
Confidence 678888877 67899998743
No 195
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=36.08 E-value=30 Score=24.16 Aligned_cols=9 Identities=33% Similarity=1.313 Sum_probs=5.7
Q ss_pred CeeecCCCC
Q 021224 160 KQYHCDGCG 168 (316)
Q Consensus 160 ~~yHC~~Cg 168 (316)
..|-|+.||
T Consensus 19 ~~~vC~~Cg 27 (52)
T smart00661 19 RRFVCRKCG 27 (52)
T ss_pred CEEECCcCC
Confidence 366666666
No 196
>PLN02436 cellulose synthase A
Probab=35.17 E-value=32 Score=39.24 Aligned_cols=56 Identities=20% Similarity=0.440 Sum_probs=39.3
Q ss_pred cCCCCCCCCcccccccccCCceeEEc---CCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 199 VEGAMHHDCPVCCEYLFETRQDVIVL---PCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 199 ~E~~~~~~CPIClE~lf~s~~~~v~L---pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
++......|.||.|++-.+.+.-... -||--.|+.|++-=.+.++..||.|+....
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 44455679999999874443333334 367779999996555666788999996554
No 197
>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=33.97 E-value=33 Score=22.88 Aligned_cols=22 Identities=23% Similarity=0.362 Sum_probs=15.8
Q ss_pred cCCCCCCCCccceeecCccccc
Q 021224 132 KQVCVNCGVCMGEYFCESCKLF 153 (316)
Q Consensus 132 ~~~C~~Cg~~f~~YfC~~C~l~ 153 (316)
...|..++....+|||..|+.+
T Consensus 3 ~~~C~~H~~~~~~~~C~~C~~~ 24 (42)
T PF00643_consen 3 EPKCPEHPEEPLSLFCEDCNEP 24 (42)
T ss_dssp SSB-SSTTTSBEEEEETTTTEE
T ss_pred CccCccCCccceEEEecCCCCc
Confidence 3568888888788888888643
No 198
>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=33.82 E-value=23 Score=22.48 Aligned_cols=20 Identities=25% Similarity=0.718 Sum_probs=6.1
Q ss_pred CCcceecCCC-CeeeccCccc
Q 021224 167 CGICRIGGCD-NFFHCNKCRC 186 (316)
Q Consensus 167 CgiCR~G~~~-~ffHC~~C~~ 186 (316)
|.+|+..+.. .+++|..|+.
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 4444444332 5666666654
No 199
>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=33.68 E-value=24 Score=30.28 Aligned_cols=36 Identities=25% Similarity=0.571 Sum_probs=24.2
Q ss_pred CCCeeecCCCCcceecCCCCeeeccCcccceecccccccccc
Q 021224 158 SKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCV 199 (316)
Q Consensus 158 ~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~ 199 (316)
....-.|.. |++-...+-.||..||.|+..- .|.|.
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 334444554 5555668899999999998743 35555
No 200
>PRK14873 primosome assembly protein PriA; Provisional
Probab=33.38 E-value=39 Score=36.54 Aligned_cols=27 Identities=33% Similarity=0.747 Sum_probs=18.8
Q ss_pred Cccc-cceeecCCcCccccCCCCCCCCccc
Q 021224 115 PRHE-VNQVICSLCGTEQKQVCVNCGVCMG 143 (316)
Q Consensus 115 ~R~~-v~~v~C~~C~~~Q~~~C~~Cg~~f~ 143 (316)
+|+. ...+.|..|+. ...|++|+..+.
T Consensus 376 nRrGyap~l~C~~Cg~--~~~C~~C~~~L~ 403 (665)
T PRK14873 376 PRRGYVPSLACARCRT--PARCRHCTGPLG 403 (665)
T ss_pred cCCCCCCeeEhhhCcC--eeECCCCCCcee
Confidence 4444 35678888877 467888887774
No 201
>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=33.15 E-value=20 Score=23.37 Aligned_cols=16 Identities=38% Similarity=1.026 Sum_probs=7.9
Q ss_pred CCCCCCccceeecCccc
Q 021224 135 CVNCGVCMGEYFCESCK 151 (316)
Q Consensus 135 C~~Cg~~f~~YfC~~C~ 151 (316)
|.-||. .++|-|+.|.
T Consensus 5 C~vC~~-~~kY~Cp~C~ 20 (30)
T PF04438_consen 5 CSVCGN-PAKYRCPRCG 20 (30)
T ss_dssp ETSSSS-EESEE-TTT-
T ss_pred CccCcC-CCEEECCCcC
Confidence 444555 5666666553
No 202
>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=32.87 E-value=34 Score=35.52 Aligned_cols=57 Identities=26% Similarity=0.652 Sum_probs=34.2
Q ss_pred eecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccceeccc--cccccccCCCCCCCCccccccccc
Q 021224 145 YFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLL--KNSHPCVEGAMHHDCPVCCEYLFE 216 (316)
Q Consensus 145 YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l--~~~H~C~E~~~~~~CPIClE~lf~ 216 (316)
|||..|.-. .|+-|-.... +.+=|..|-.=++.+. ....+|..+- .+||+|.-.|..
T Consensus 6 ~fC~~C~~i------------rc~~c~~~Ei-~~~yCp~CL~~~p~~e~~~~~nrC~r~C--f~CP~C~~~L~~ 64 (483)
T PF05502_consen 6 YFCEHCHKI------------RCPRCVSEEI-DSYYCPNCLFEVPSSEARSEKNRCSRNC--FDCPICFSPLSV 64 (483)
T ss_pred eeccccccc------------CChhhccccc-ceeECccccccCChhhheeccceecccc--ccCCCCCCccee
Confidence 888888544 2344444333 3444666666555432 3467887554 479999976644
No 203
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=32.86 E-value=21 Score=27.82 Aligned_cols=27 Identities=37% Similarity=0.758 Sum_probs=21.1
Q ss_pred cceeecCCcCccc--------cCCCCCCCCcccee
Q 021224 119 VNQVICSLCGTEQ--------KQVCVNCGVCMGEY 145 (316)
Q Consensus 119 v~~v~C~~C~~~Q--------~~~C~~Cg~~f~~Y 145 (316)
--.|.|.-|+.+| ...|..||..+++-
T Consensus 17 Fl~VkCpdC~N~q~vFshast~V~C~~CG~~l~~P 51 (67)
T COG2051 17 FLRVKCPDCGNEQVVFSHASTVVTCLICGTTLAEP 51 (67)
T ss_pred EEEEECCCCCCEEEEeccCceEEEecccccEEEec
Confidence 3488999999998 45799999887653
No 204
>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=32.73 E-value=28 Score=23.14 Aligned_cols=24 Identities=25% Similarity=0.674 Sum_probs=11.3
Q ss_pred eecCccccccCCCCCCeeecCCCC
Q 021224 145 YFCESCKLFDDDTSKKQYHCDGCG 168 (316)
Q Consensus 145 YfC~~C~l~ddd~~k~~yHC~~Cg 168 (316)
|-|+.|..--+....++-.|..||
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 444455332223344555666666
No 205
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=32.49 E-value=20 Score=35.77 Aligned_cols=20 Identities=45% Similarity=1.007 Sum_probs=14.8
Q ss_pred CCCCCCCccceeecCccccc
Q 021224 134 VCVNCGVCMGEYFCESCKLF 153 (316)
Q Consensus 134 ~C~~Cg~~f~~YfC~~C~l~ 153 (316)
.|+-||+.+.+|.|+-|+|-
T Consensus 9 ~C~ic~vq~~~YtCPRCn~~ 28 (383)
T KOG4317|consen 9 ACGICGVQKREYTCPRCNLL 28 (383)
T ss_pred eccccccccccccCCCCCcc
Confidence 46677888888888888654
No 206
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=32.46 E-value=30 Score=25.11 Aligned_cols=10 Identities=40% Similarity=1.331 Sum_probs=5.8
Q ss_pred CeeecCCCCc
Q 021224 160 KQYHCDGCGI 169 (316)
Q Consensus 160 ~~yHC~~Cgi 169 (316)
+.|+|..||.
T Consensus 36 ~r~~C~~Cgy 45 (50)
T PRK00432 36 DRWHCGKCGY 45 (50)
T ss_pred CcEECCCcCC
Confidence 4566666653
No 207
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=32.27 E-value=14 Score=32.79 Aligned_cols=25 Identities=32% Similarity=0.883 Sum_probs=15.8
Q ss_pred ceeecCccccccCCCCCCeeecCCCC--cceec
Q 021224 143 GEYFCESCKLFDDDTSKKQYHCDGCG--ICRIG 173 (316)
Q Consensus 143 ~~YfC~~C~l~ddd~~k~~yHC~~Cg--iCR~G 173 (316)
.+-||++|-+| ++|-|-.|| +|-|+
T Consensus 117 ~r~fCaVCG~~------S~ysC~~CG~kyCsv~ 143 (156)
T KOG3362|consen 117 LRKFCAVCGYD------SKYSCVNCGTKYCSVR 143 (156)
T ss_pred cchhhhhcCCC------chhHHHhcCCceeech
Confidence 35577777643 457777777 66665
No 208
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=31.58 E-value=23 Score=25.47 Aligned_cols=13 Identities=46% Similarity=1.142 Sum_probs=10.4
Q ss_pred ecCCCCCCccccc
Q 021224 301 QKCPNCKSYNTRL 313 (316)
Q Consensus 301 ~kC~~C~SyNT~~ 313 (316)
-||+.||.||-..
T Consensus 12 rkCp~CGt~NG~R 24 (44)
T PF14952_consen 12 RKCPKCGTYNGTR 24 (44)
T ss_pred ccCCcCcCccCcc
Confidence 3899999999543
No 209
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=31.54 E-value=49 Score=22.71 Aligned_cols=30 Identities=33% Similarity=0.885 Sum_probs=19.8
Q ss_pred CCCCCCCCccceeecCccccccCCCCCCeeecCCCCc
Q 021224 133 QVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGI 169 (316)
Q Consensus 133 ~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cgi 169 (316)
..||.||-.= ++ . |+|...+.-|+|..||.
T Consensus 4 ~pCP~CGG~D-rF-----r-~~d~~g~G~~~C~~Cg~ 33 (37)
T smart00778 4 GPCPNCGGSD-RF-----R-FDDKDGRGTWFCSVCGA 33 (37)
T ss_pred cCCCCCCCcc-cc-----c-cccCCCCcCEEeCCCCC
Confidence 4688887621 11 2 56666778898888864
No 210
>PF15616 TerY-C: TerY-C metal binding domain
Probab=30.93 E-value=51 Score=28.69 Aligned_cols=21 Identities=38% Similarity=0.831 Sum_probs=17.2
Q ss_pred cCCCCCCCCccceeecCcc-ccc
Q 021224 132 KQVCVNCGVCMGEYFCESC-KLF 153 (316)
Q Consensus 132 ~~~C~~Cg~~f~~YfC~~C-~l~ 153 (316)
...||.||..+|---| .| ||+
T Consensus 77 ~PgCP~CGn~~~fa~C-~CGkl~ 98 (131)
T PF15616_consen 77 APGCPHCGNQYAFAVC-GCGKLF 98 (131)
T ss_pred CCCCCCCcChhcEEEe-cCCCEE
Confidence 6889999999988888 57 555
No 211
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=30.77 E-value=37 Score=21.50 Aligned_cols=18 Identities=28% Similarity=0.920 Sum_probs=8.2
Q ss_pred CCCCCCCCcc--------ceeecCcc
Q 021224 133 QVCVNCGVCM--------GEYFCESC 150 (316)
Q Consensus 133 ~~C~~Cg~~f--------~~YfC~~C 150 (316)
+.|+.|+..+ +.|||+.|
T Consensus 2 ~~C~rC~~~~~~~~~~~r~~~~C~rC 27 (30)
T PF06827_consen 2 EKCPRCWNYIEDIGINGRSTYLCPRC 27 (30)
T ss_dssp SB-TTT--BBEEEEETTEEEEE-TTT
T ss_pred CcCccCCCcceEeEecCCCCeECcCC
Confidence 4567776655 34666665
No 212
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=30.74 E-value=23 Score=38.46 Aligned_cols=47 Identities=30% Similarity=0.678 Sum_probs=36.9
Q ss_pred CCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc--CCCCCCCCCcccc
Q 021224 204 HHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH--HQYACPICSKSVC 254 (316)
Q Consensus 204 ~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~--~~~~CPiCrks~~ 254 (316)
...||||++.+++ ++.+.|-|.|...|+..-+.. ....||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~----p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKE----PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeec----cchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 5689999997776 368899999999999985433 2346999996665
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=30.63 E-value=17 Score=37.08 Aligned_cols=49 Identities=29% Similarity=0.579 Sum_probs=0.5
Q ss_pred CCCCCCCccccccc----------ccCCceeEEcCCCCccchhHHHHHHhc-----CCCCCCCCCcc
Q 021224 201 GAMHHDCPVCCEYL----------FETRQDVIVLPCGHTIHKNCLKEMREH-----HQYACPICSKS 252 (316)
Q Consensus 201 ~~~~~~CPIClE~l----------f~s~~~~v~LpCGH~fH~~Ci~~wl~~-----~~~~CPiCrks 252 (316)
+++.-.|||=|..| .+.+.+.++|.|||.+= +-.|-.. ...+||+||..
T Consensus 274 Na~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 274 NAGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHG---YHNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp S------------------------------------------------------------------
T ss_pred hhcCCCCCcCCCccccccccccccccccCceeeccccceee---ecccccccccccccccCCCcccc
Confidence 56778899987654 34456789999998642 2246421 14679999953
No 214
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=30.39 E-value=31 Score=23.24 Aligned_cols=10 Identities=30% Similarity=0.843 Sum_probs=5.6
Q ss_pred eEcCCCCCee
Q 021224 82 IRAPCCNEIF 91 (316)
Q Consensus 82 ik~pCC~~~Y 91 (316)
|.||.|+.-|
T Consensus 3 i~Cp~C~~~y 12 (36)
T PF13717_consen 3 ITCPNCQAKY 12 (36)
T ss_pred EECCCCCCEE
Confidence 4555555555
No 215
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=30.09 E-value=32 Score=35.56 Aligned_cols=14 Identities=29% Similarity=0.548 Sum_probs=10.1
Q ss_pred CCccchhHHHHHHh
Q 021224 227 GHTIHKNCLKEMRE 240 (316)
Q Consensus 227 GH~fH~~Ci~~wl~ 240 (316)
||.|++.|-.+-+.
T Consensus 451 ~HllCk~Ch~~Rl~ 464 (468)
T KOG1701|consen 451 GHLLCKTCHLKRLQ 464 (468)
T ss_pred Cceeechhhhhhhc
Confidence 78888888766543
No 216
>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=29.91 E-value=36 Score=23.47 Aligned_cols=9 Identities=33% Similarity=0.855 Sum_probs=4.5
Q ss_pred CCCCccccc
Q 021224 204 HHDCPVCCE 212 (316)
Q Consensus 204 ~~~CPIClE 212 (316)
...||.|..
T Consensus 26 ~~~CP~Cg~ 34 (42)
T PF09723_consen 26 PVPCPECGS 34 (42)
T ss_pred CCcCCCCCC
Confidence 345555553
No 217
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=29.69 E-value=37 Score=23.79 Aligned_cols=13 Identities=23% Similarity=0.687 Sum_probs=9.4
Q ss_pred cCCCCCCCCccce
Q 021224 132 KQVCVNCGVCMGE 144 (316)
Q Consensus 132 ~~~C~~Cg~~f~~ 144 (316)
+..|+.||.++-+
T Consensus 17 ~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 17 DEHCPDCGTPLMR 29 (41)
T ss_pred cCccCCCCCeeEE
Confidence 6778888887743
No 218
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=29.59 E-value=16 Score=36.09 Aligned_cols=32 Identities=28% Similarity=0.735 Sum_probs=27.3
Q ss_pred CCCCcceecCCCCeeeccCcccceecccccccccc
Q 021224 165 DGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCV 199 (316)
Q Consensus 165 ~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~ 199 (316)
.+|..|++.+.-...||..||.|+..- .|.|+
T Consensus 149 ~kCSTCki~KPARSKHCsiCNrCV~rf---DHHCi 180 (341)
T KOG1312|consen 149 VKCSTCKIRKPARSKHCSICNRCVHRF---DHHCI 180 (341)
T ss_pred CccccccCCCccccccchHHHHHHHHh---ccceE
Confidence 578899999988999999999998743 58887
No 219
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=29.52 E-value=66 Score=22.42 Aligned_cols=10 Identities=40% Similarity=0.906 Sum_probs=6.6
Q ss_pred cCCCCCCCCc
Q 021224 132 KQVCVNCGVC 141 (316)
Q Consensus 132 ~~~C~~Cg~~ 141 (316)
+.+||.||..
T Consensus 18 g~~CP~Cg~~ 27 (46)
T PF12760_consen 18 GFVCPHCGST 27 (46)
T ss_pred CCCCCCCCCe
Confidence 4557777765
No 220
>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=29.31 E-value=55 Score=32.19 Aligned_cols=24 Identities=25% Similarity=0.865 Sum_probs=14.6
Q ss_pred ceEEcCCCCCCccccceeeeecCCCCCC
Q 021224 281 VWILCNDCGKTSNVQFHVLAQKCPNCKS 308 (316)
Q Consensus 281 ~~IlCnDC~~~s~~~fH~lg~kC~~C~S 308 (316)
..-.|.-|+ ..+|++-.||++|++
T Consensus 209 RyL~CslC~----teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 209 RYLSCSLCA----TEWHYVRVKCSHCEE 232 (305)
T ss_pred eEEEcCCCC----CcccccCccCCCCCC
Confidence 345566665 456666666666664
No 221
>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=29.30 E-value=47 Score=34.98 Aligned_cols=30 Identities=33% Similarity=0.727 Sum_probs=22.1
Q ss_pred cceEEcCCCCCCccccceeeeecCCCCCCcccccc
Q 021224 280 KVWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLT 314 (316)
Q Consensus 280 ~~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~ 314 (316)
... .|++|+.... -++.+||.|||-|+.++
T Consensus 517 p~~-~C~~CG~~~~----~~~~~CP~CGs~~~~~~ 546 (555)
T cd01675 517 PID-ICNDCGYIGE----GEGFKCPKCGSEDVEVI 546 (555)
T ss_pred CCc-cCCCCCCCCc----CCCCCCcCCCCcCceEE
Confidence 344 8999997553 34579999999886554
No 222
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.05 E-value=34 Score=34.82 Aligned_cols=38 Identities=24% Similarity=0.467 Sum_probs=30.0
Q ss_pred CCCCCCCcccccccccCCceeEEcCCCCccchhHHHHHHhc
Q 021224 201 GAMHHDCPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREH 241 (316)
Q Consensus 201 ~~~~~~CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~ 241 (316)
......|.||.+.... ....+.|||.|+..|...++..
T Consensus 67 ~~~~~~c~ic~~~~~~---~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG---EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc---hhhhcCCCcHHHHHHHHHHhhh
Confidence 3556889999984322 4677899999999999999864
No 223
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=28.79 E-value=37 Score=25.05 Aligned_cols=20 Identities=35% Similarity=1.014 Sum_probs=11.7
Q ss_pred cCCCCCCC--Ccc----ceeecCccc
Q 021224 132 KQVCVNCG--VCM----GEYFCESCK 151 (316)
Q Consensus 132 ~~~C~~Cg--~~f----~~YfC~~C~ 151 (316)
...||+|| +-| .||.|++|.
T Consensus 19 ~~~CPrCG~gvfmA~H~dR~~CGkCg 44 (51)
T COG1998 19 NRFCPRCGPGVFMADHKDRWACGKCG 44 (51)
T ss_pred cccCCCCCCcchhhhcCceeEecccc
Confidence 46788888 333 355555553
No 224
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=28.58 E-value=74 Score=32.16 Aligned_cols=53 Identities=19% Similarity=0.453 Sum_probs=42.4
Q ss_pred CCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEEc--CCCCCCccccceeee
Q 021224 244 YACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILC--NDCGKTSNVQFHVLA 300 (316)
Q Consensus 244 ~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~IlC--nDC~~~s~~~fH~lg 300 (316)
..||-|++...|.-..-.++++.+...++| -+.+..-| |-|++.....+=+.|
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 359999999999888888999999988888 34466778 899988776665544
No 225
>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=28.28 E-value=38 Score=23.48 Aligned_cols=20 Identities=30% Similarity=0.856 Sum_probs=11.3
Q ss_pred eecCCCCcceecCCCCeeeccCcc
Q 021224 162 YHCDGCGICRIGGCDNFFHCNKCR 185 (316)
Q Consensus 162 yHC~~CgiCR~G~~~~ffHC~~C~ 185 (316)
|+|+.|+- +++ ..+||..|.
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 56666655 332 566666663
No 226
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 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 include mammalian, yeast, Chlamydomonas reinhardtii and Entamoeba histolytica S27, and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0250 []. These proteins have from 62 to 87 amino acids. They contain, in their central section, a putative zinc-finger region of the type C-x(2)-C-x(14)-C-x(2)-C.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1QXF_A 3IZ6_X 2XZN_6 2XZM_6 3U5G_b 3IZB_X 3U5C_b.
Probab=28.20 E-value=31 Score=25.79 Aligned_cols=32 Identities=28% Similarity=0.499 Sum_probs=19.5
Q ss_pred eeecCCcCccc--------cCCCCCCCCccceeecCcccc
Q 021224 121 QVICSLCGTEQ--------KQVCVNCGVCMGEYFCESCKL 152 (316)
Q Consensus 121 ~v~C~~C~~~Q--------~~~C~~Cg~~f~~YfC~~C~l 152 (316)
.|.|..|..+| ...|..||..+++-.=++-+|
T Consensus 7 ~VkCp~C~~~q~vFSha~t~V~C~~Cg~~L~~PtGGKa~l 46 (55)
T PF01667_consen 7 DVKCPGCYNIQTVFSHAQTVVKCVVCGTVLAQPTGGKARL 46 (55)
T ss_dssp EEE-TTT-SEEEEETT-SS-EE-SSSTSEEEEE-SSSEEE
T ss_pred EEECCCCCCeeEEEecCCeEEEcccCCCEecCCCCcCeEE
Confidence 68888888886 456888888887765554444
No 227
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=27.60 E-value=34 Score=22.49 Aligned_cols=23 Identities=26% Similarity=0.582 Sum_probs=10.0
Q ss_pred CCCCCCCccceeecCccccccCCCCCCeeecCCCC
Q 021224 134 VCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCG 168 (316)
Q Consensus 134 ~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cg 168 (316)
.|+.|+..++- .+..+|-|+.||
T Consensus 4 ~Cp~C~se~~y------------~D~~~~vCp~C~ 26 (30)
T PF08274_consen 4 KCPLCGSEYTY------------EDGELLVCPECG 26 (30)
T ss_dssp --TTT-----E------------E-SSSEEETTTT
T ss_pred CCCCCCCccee------------ccCCEEeCCccc
Confidence 57777776643 234677787776
No 228
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=27.24 E-value=36 Score=30.73 Aligned_cols=10 Identities=40% Similarity=0.956 Sum_probs=5.1
Q ss_pred CCCCcccccc
Q 021224 204 HHDCPVCCEY 213 (316)
Q Consensus 204 ~~~CPIClE~ 213 (316)
...||+|.+.
T Consensus 136 ~F~Cp~Cg~~ 145 (178)
T PRK06266 136 GFRCPQCGEM 145 (178)
T ss_pred CCcCCCCCCC
Confidence 3455555543
No 229
>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=27.00 E-value=42 Score=23.35 Aligned_cols=21 Identities=43% Similarity=0.947 Sum_probs=10.6
Q ss_pred eecCCCCcceecCCCCeeeccCcc
Q 021224 162 YHCDGCGICRIGGCDNFFHCNKCR 185 (316)
Q Consensus 162 yHC~~CgiCR~G~~~~ffHC~~C~ 185 (316)
|.|+.|+. -+- ...|||..|.
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 44555555 222 2566666654
No 230
>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=26.82 E-value=33 Score=30.25 Aligned_cols=8 Identities=38% Similarity=1.290 Sum_probs=3.7
Q ss_pred eeccCccc
Q 021224 179 FHCNKCRC 186 (316)
Q Consensus 179 fHC~~C~~ 186 (316)
|+|+.||.
T Consensus 129 F~Cp~Cg~ 136 (158)
T TIGR00373 129 FTCPRCGA 136 (158)
T ss_pred CcCCCCCC
Confidence 44444443
No 231
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=26.13 E-value=38 Score=32.30 Aligned_cols=20 Identities=25% Similarity=0.883 Sum_probs=16.3
Q ss_pred cCCCCCCCCcc--------ceeecCccc
Q 021224 132 KQVCVNCGVCM--------GEYFCESCK 151 (316)
Q Consensus 132 ~~~C~~Cg~~f--------~~YfC~~C~ 151 (316)
+..|+.||..+ +.|||+.|.
T Consensus 244 g~pCprCG~~I~~~~~~gR~t~~CP~CQ 271 (272)
T PRK14810 244 GEPCLNCKTPIRRVVVAGRSSHYCPHCQ 271 (272)
T ss_pred CCcCCCCCCeeEEEEECCCccEECcCCc
Confidence 67899999888 578888884
No 232
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.82 E-value=26 Score=31.99 Aligned_cols=29 Identities=31% Similarity=0.560 Sum_probs=23.1
Q ss_pred CCCCCcccccccccCCceeEEcCCCCccch
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCGHTIHK 232 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCGH~fH~ 232 (316)
...+|.||||+|. .++.+..|||=-.||+
T Consensus 176 dkGECvICLEdL~-~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLE-AGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhcc-CCCceeccceEEEeec
Confidence 3578999999864 4677889999877775
No 233
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=25.67 E-value=34 Score=34.28 Aligned_cols=46 Identities=30% Similarity=0.675 Sum_probs=31.6
Q ss_pred CCCCCCCccccccc----------ccCCceeEEcCCCCc--cchhHHHHHHhc-----CCCCCCCCCc
Q 021224 201 GAMHHDCPVCCEYL----------FETRQDVIVLPCGHT--IHKNCLKEMREH-----HQYACPICSK 251 (316)
Q Consensus 201 ~~~~~~CPIClE~l----------f~s~~~~v~LpCGH~--fH~~Ci~~wl~~-----~~~~CPiCrk 251 (316)
++..-.||+=|..| .+..++.++|.|||. +| .|=.. ....||+|+.
T Consensus 287 NA~RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~H-----~WG~~e~~g~~~r~CPmC~~ 349 (429)
T KOG3842|consen 287 NAARPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGYH-----NWGVRENTGQRERECPMCRV 349 (429)
T ss_pred hccCCCCCcccceeecccccccccccccCCeEEEecccccccc-----ccccccccCcccCcCCeeee
Confidence 56678899998765 233467899999975 44 46322 1356999993
No 234
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=25.62 E-value=40 Score=32.14 Aligned_cols=20 Identities=40% Similarity=1.045 Sum_probs=16.3
Q ss_pred cCCCCCCCCcc--------ceeecCccc
Q 021224 132 KQVCVNCGVCM--------GEYFCESCK 151 (316)
Q Consensus 132 ~~~C~~Cg~~f--------~~YfC~~C~ 151 (316)
++.|+.||..+ +.|||+.|.
T Consensus 235 g~pC~~Cg~~I~~~~~~gR~ty~Cp~CQ 262 (269)
T PRK14811 235 GQPCPRCGTPIEKIVVGGRGTHFCPQCQ 262 (269)
T ss_pred cCCCCcCCCeeEEEEECCCCcEECCCCc
Confidence 56899999888 578888884
No 235
>PRK10445 endonuclease VIII; Provisional
Probab=25.59 E-value=41 Score=31.95 Aligned_cols=20 Identities=30% Similarity=0.951 Sum_probs=15.9
Q ss_pred cCCCCCCCCcc--------ceeecCccc
Q 021224 132 KQVCVNCGVCM--------GEYFCESCK 151 (316)
Q Consensus 132 ~~~C~~Cg~~f--------~~YfC~~C~ 151 (316)
++.|+.||... +.|||+.|.
T Consensus 235 g~~Cp~Cg~~I~~~~~~gR~t~~CP~CQ 262 (263)
T PRK10445 235 GEACERCGGIIEKTTLSSRPFYWCPGCQ 262 (263)
T ss_pred CCCCCCCCCEeEEEEECCCCcEECCCCc
Confidence 68899999888 567777773
No 236
>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=25.58 E-value=78 Score=31.93 Aligned_cols=26 Identities=19% Similarity=0.592 Sum_probs=18.6
Q ss_pred ccchhHHHHHHhc------------CCCCCCCCCcccc
Q 021224 229 TIHKNCLKEMREH------------HQYACPICSKSVC 254 (316)
Q Consensus 229 ~fH~~Ci~~wl~~------------~~~~CPiCrks~~ 254 (316)
.-+.+|+-+|+.+ ++-.||.||+.+.
T Consensus 314 mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 314 MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 3477888887753 2356999999875
No 237
>COG5595 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]
Probab=25.41 E-value=42 Score=31.60 Aligned_cols=38 Identities=24% Similarity=0.599 Sum_probs=27.2
Q ss_pred CCCCCCCccccchhHHHHHhHHHHHcCCCChhhhcCcceEEcCCCCCCccccceee
Q 021224 244 YACPICSKSVCDMSKVWEKYDREIAATPMPEAYLNKKVWILCNDCGKTSNVQFHVL 299 (316)
Q Consensus 244 ~~CPiCrks~~d~~~~~~~lD~~ia~~pmP~ey~~~~~~IlCnDC~~~s~~~fH~l 299 (316)
..||.|++.+.-.+..+. .-...|++|.-.|+..+|||
T Consensus 219 r~CPsC~k~Wqlk~~i~d------------------~fhfkcd~crlvsnlsw~~l 256 (256)
T COG5595 219 RCCPSCGKDWQLKNPIFD------------------TFHFKCDTCRLVSNLSWNFL 256 (256)
T ss_pred CCCCcccccceeccchhh------------------heeeecccceeecccccccC
Confidence 349999998874333221 12467999999999999986
No 238
>PF15353 HECA: Headcase protein family homologue
Probab=25.38 E-value=41 Score=28.45 Aligned_cols=16 Identities=25% Similarity=0.891 Sum_probs=13.7
Q ss_pred CCCCccchhHHHHHHh
Q 021224 225 PCGHTIHKNCLKEMRE 240 (316)
Q Consensus 225 pCGH~fH~~Ci~~wl~ 240 (316)
|-|+.+|.+||++|-.
T Consensus 39 p~~~~MH~~CF~~wE~ 54 (107)
T PF15353_consen 39 PFGQYMHRECFEKWED 54 (107)
T ss_pred CCCCchHHHHHHHHHH
Confidence 4489999999999965
No 239
>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=25.32 E-value=33 Score=21.78 Aligned_cols=11 Identities=27% Similarity=1.165 Sum_probs=7.9
Q ss_pred ceeecCccccc
Q 021224 143 GEYFCESCKLF 153 (316)
Q Consensus 143 ~~YfC~~C~l~ 153 (316)
+.|||++|+.+
T Consensus 2 ~~~~C~~C~~~ 12 (35)
T smart00451 2 GGFYCKLCNVT 12 (35)
T ss_pred cCeEccccCCc
Confidence 56888888654
No 240
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=24.94 E-value=17 Score=35.36 Aligned_cols=63 Identities=16% Similarity=0.223 Sum_probs=44.8
Q ss_pred ecCCcCccccCCCCCCCCccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCccccee
Q 021224 123 ICSLCGTEQKQVCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYS 189 (316)
Q Consensus 123 ~C~~C~~~Q~~~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s 189 (316)
+|..|-...-..|+-|.+.-+..||.||-=+|.. .-|||.|.-||--....+-||.+|..|..
T Consensus 240 ~~~~~~~~~~i~C~~~~~~A~~~~C~iC~~~~~~----R~~C~~~kA~~~~~Q~K~N~~~~~~~~~q 302 (325)
T KOG4399|consen 240 LCKKCVKPSWIHCSICNHCAVKHGCFICGELDHK----RSTCPNIKAVRKQKQRKSNKMKMETTKGQ 302 (325)
T ss_pred Hhhhhcccceeeeecccchhhhcceeeccccccc----cccCccHHHHHHHHhcccchhhhhhhhhh
Confidence 3333333333556677777788899999766542 27999999999887777888888877764
No 241
>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=24.89 E-value=29 Score=23.73 Aligned_cols=13 Identities=38% Similarity=1.076 Sum_probs=5.5
Q ss_pred cceeecCcccccc
Q 021224 142 MGEYFCESCKLFD 154 (316)
Q Consensus 142 f~~YfC~~C~l~d 154 (316)
|-+|||+-|+.|=
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 4689999998775
No 242
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=24.87 E-value=42 Score=27.99 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=5.7
Q ss_pred cCCCCCCCCcc
Q 021224 132 KQVCVNCGVCM 142 (316)
Q Consensus 132 ~~~C~~Cg~~f 142 (316)
...|++||+..
T Consensus 42 ~~~C~~Cg~~~ 52 (111)
T PF14319_consen 42 RYRCEDCGHEK 52 (111)
T ss_pred eeecCCCCceE
Confidence 44555555544
No 243
>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=24.84 E-value=54 Score=21.78 Aligned_cols=20 Identities=30% Similarity=0.838 Sum_probs=11.9
Q ss_pred eecCCcCccc-----cCCCCCCCCc
Q 021224 122 VICSLCGTEQ-----KQVCVNCGVC 141 (316)
Q Consensus 122 v~C~~C~~~Q-----~~~C~~Cg~~ 141 (316)
-+|..|+.+- ...||.||+.
T Consensus 3 ~~C~~CG~i~~g~~~p~~CP~Cg~~ 27 (34)
T cd00729 3 WVCPVCGYIHEGEEAPEKCPICGAP 27 (34)
T ss_pred EECCCCCCEeECCcCCCcCcCCCCc
Confidence 4566666552 3567777664
No 244
>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=24.83 E-value=42 Score=21.13 Aligned_cols=37 Identities=22% Similarity=0.635 Sum_probs=21.8
Q ss_pred CcccccccccCCceeEEcCCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 207 CPVCCEYLFETRQDVIVLPCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 207 CPIClE~lf~s~~~~v~LpCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
|+.|.+.+.... ..+..=|..||.+| ++|..|++++.
T Consensus 2 C~~C~~~i~~~~--~~~~~~~~~~H~~C---------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGE--LVLRALGKVWHPEC---------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCc--EEEEeCCccccccC---------CCCcccCCcCc
Confidence 777887655431 22222377777765 45777777653
No 245
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=24.69 E-value=57 Score=26.23 Aligned_cols=10 Identities=30% Similarity=0.999 Sum_probs=6.2
Q ss_pred CCCCCCCCcc
Q 021224 243 QYACPICSKS 252 (316)
Q Consensus 243 ~~~CPiCrks 252 (316)
...||.|+..
T Consensus 62 ~~~Cp~Cg~~ 71 (104)
T TIGR01384 62 RVECPKCGHK 71 (104)
T ss_pred cCCCCCCCCC
Confidence 3567777643
No 246
>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=24.42 E-value=46 Score=23.87 Aligned_cols=12 Identities=25% Similarity=1.018 Sum_probs=6.7
Q ss_pred CCCCCCccccch
Q 021224 245 ACPICSKSVCDM 256 (316)
Q Consensus 245 ~CPiCrks~~d~ 256 (316)
.||+|.+++..-
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899999999853
No 247
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=24.10 E-value=1.1e+02 Score=33.14 Aligned_cols=136 Identities=24% Similarity=0.438 Sum_probs=72.0
Q ss_pred CCCCCeeecCCCCc---ceecC-CCCeee-----ccCcccceeccccccccccCCCCCCCC-cccccccccCCceeEEcC
Q 021224 156 DTSKKQYHCDGCGI---CRIGG-CDNFFH-----CNKCRCCYSMLLKNSHPCVEGAMHHDC-PVCCEYLFETRQDVIVLP 225 (316)
Q Consensus 156 d~~k~~yHC~~Cgi---CR~G~-~~~ffH-----C~~C~~C~s~~l~~~H~C~E~~~~~~C-PIClE~lf~s~~~~v~Lp 225 (316)
...+..-||+.|+- +-|+. .+++|| |.+||.=+....+ -+++-|+ ..+ .-|.+. . +..++..
T Consensus 11 ~~~~~~i~c~~c~~kc~gevlrv~d~~fhi~cf~c~~cg~~la~~gf-f~k~~~~---~ygt~~c~~~--~--~gevvsa 82 (670)
T KOG1044|consen 11 QTGKQGIKCDKCRKKCSGEVLRVNDNHFHINCFQCKKCGRNLAEGGF-FTKPENR---LYGTDDCRAF--V--EGEVVST 82 (670)
T ss_pred cccccceehhhhCCccccceeEeeccccceeeeeccccCCCcccccc-eecccce---eecccchhhh--c--cceeEec
Confidence 34567778888872 22222 245554 5555554444332 2444442 222 334432 2 1344555
Q ss_pred CCCccchhHHHHHHhcCCCCCCCCCccccchhH-HH--HHhHHHHHcCCCChhhhcCcceEEcCCCCCCc---------c
Q 021224 226 CGHTIHKNCLKEMREHHQYACPICSKSVCDMSK-VW--EKYDREIAATPMPEAYLNKKVWILCNDCGKTS---------N 293 (316)
Q Consensus 226 CGH~fH~~Ci~~wl~~~~~~CPiCrks~~d~~~-~~--~~lD~~ia~~pmP~ey~~~~~~IlCnDC~~~s---------~ 293 (316)
=|-+||..| +.|-+|++++..-.. .+ +...-+.-.++||-.=......--|--|++.- .
T Consensus 83 ~gktyh~~c---------f~cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald 153 (670)
T KOG1044|consen 83 LGKTYHPKC---------FSCSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALD 153 (670)
T ss_pred ccceecccc---------ceecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeec
Confidence 588888765 457788887753111 11 12222333555553212223344577777522 6
Q ss_pred ccceeeeecCCCCCC
Q 021224 294 VQFHVLAQKCPNCKS 308 (316)
Q Consensus 294 ~~fH~lg~kC~~C~S 308 (316)
.++|+..-||..|..
T Consensus 154 ~qwhv~cfkc~~c~~ 168 (670)
T KOG1044|consen 154 KQWHVSCFKCKSCSA 168 (670)
T ss_pred cceeeeeeehhhhcc
Confidence 689999999998864
No 248
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=24.09 E-value=45 Score=31.72 Aligned_cols=20 Identities=30% Similarity=1.037 Sum_probs=15.6
Q ss_pred cCCCCCCCCcc--------ceeecCccc
Q 021224 132 KQVCVNCGVCM--------GEYFCESCK 151 (316)
Q Consensus 132 ~~~C~~Cg~~f--------~~YfC~~C~ 151 (316)
++.|+.||... +.|||+.|.
T Consensus 245 g~pC~~Cg~~I~~~~~~gR~t~~CP~CQ 272 (274)
T PRK01103 245 GEPCRRCGTPIEKIKQGGRSTFFCPRCQ 272 (274)
T ss_pred CCCCCCCCCeeEEEEECCCCcEECcCCC
Confidence 57899999887 567888773
No 249
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=24.08 E-value=1.2e+02 Score=23.04 Aligned_cols=48 Identities=21% Similarity=0.526 Sum_probs=33.2
Q ss_pred CCCCCcccccccccCCceeEEcCCC--CccchhHHHHHHhcCCCCCCCCCccccc
Q 021224 203 MHHDCPVCCEYLFETRQDVIVLPCG--HTIHKNCLKEMREHHQYACPICSKSVCD 255 (316)
Q Consensus 203 ~~~~CPIClE~lf~s~~~~v~LpCG--H~fH~~Ci~~wl~~~~~~CPiCrks~~d 255 (316)
+..+|-.|-.+|..+..+. .=|. -+|+..|.+..|. ..||-|+..+..
T Consensus 4 lrpnCE~C~~dLp~~s~~A--~ICSfECTFC~~C~e~~l~---~~CPNCgGelv~ 53 (57)
T PF06906_consen 4 LRPNCECCDKDLPPDSPEA--YICSFECTFCADCAETMLN---GVCPNCGGELVR 53 (57)
T ss_pred cCCCccccCCCCCCCCCcc--eEEeEeCcccHHHHHHHhc---CcCcCCCCcccc
Confidence 4557778877665433222 2243 5799999999984 579999987764
No 250
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=23.99 E-value=64 Score=36.92 Aligned_cols=56 Identities=16% Similarity=0.412 Sum_probs=38.4
Q ss_pred cCCCCCCCCcccccccccCCceeEEc---CCCCccchhHHHHHHhcCCCCCCCCCcccc
Q 021224 199 VEGAMHHDCPVCCEYLFETRQDVIVL---PCGHTIHKNCLKEMREHHQYACPICSKSVC 254 (316)
Q Consensus 199 ~E~~~~~~CPIClE~lf~s~~~~v~L---pCGH~fH~~Ci~~wl~~~~~~CPiCrks~~ 254 (316)
++......|.||.|++-...+.-... -||--.|+.|++-=.+.++..||.|+....
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 34445678999999865443333334 467779999996545556788999995443
No 251
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=23.98 E-value=37 Score=33.22 Aligned_cols=23 Identities=22% Similarity=0.571 Sum_probs=17.0
Q ss_pred CCCCCCCCccceeecCccccccC
Q 021224 133 QVCVNCGVCMGEYFCESCKLFDD 155 (316)
Q Consensus 133 ~~C~~Cg~~f~~YfC~~C~l~dd 155 (316)
..+...|.-..+-||.+|+.|--
T Consensus 98 ~~~~~~~~~~~~~~C~~C~~~KP 120 (309)
T COG5273 98 SRLLDDGKFGTENFCSTCNIYKP 120 (309)
T ss_pred hhhhhcCccccceeccccccccC
Confidence 44556778888889999988833
No 252
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=23.80 E-value=45 Score=22.41 Aligned_cols=9 Identities=44% Similarity=1.113 Sum_probs=4.5
Q ss_pred eeecCCcCc
Q 021224 121 QVICSLCGT 129 (316)
Q Consensus 121 ~v~C~~C~~ 129 (316)
.|.|+.|++
T Consensus 25 ~vrC~~C~~ 33 (37)
T PF13719_consen 25 KVRCPKCGH 33 (37)
T ss_pred EEECCCCCc
Confidence 555555543
No 253
>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=23.71 E-value=55 Score=24.18 Aligned_cols=29 Identities=31% Similarity=0.826 Sum_probs=22.1
Q ss_pred ceEEcCCCCCCccccceeeeecCCCCCCcccccc
Q 021224 281 VWILCNDCGKTSNVQFHVLAQKCPNCKSYNTRLT 314 (316)
Q Consensus 281 ~~IlCnDC~~~s~~~fH~lg~kC~~C~SyNT~~~ 314 (316)
..+.|..|++. ...| +-|+.||.|+-+++
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 45779999974 4445 46999999999886
No 254
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=23.46 E-value=40 Score=26.00 Aligned_cols=22 Identities=18% Similarity=0.314 Sum_probs=16.6
Q ss_pred eeecCCcCccc-cCCCCCCCCcc
Q 021224 121 QVICSLCGTEQ-KQVCVNCGVCM 142 (316)
Q Consensus 121 ~v~C~~C~~~Q-~~~C~~Cg~~f 142 (316)
...|..|...+ ...||+||...
T Consensus 5 ~~AC~~C~~i~~~~~Cp~Cgs~~ 27 (64)
T PRK06393 5 YRACKKCKRLTPEKTCPVHGDEK 27 (64)
T ss_pred hhhHhhCCcccCCCcCCCCCCCc
Confidence 55677888777 77889988753
No 255
>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=23.40 E-value=36 Score=22.57 Aligned_cols=20 Identities=40% Similarity=0.916 Sum_probs=9.9
Q ss_pred eeecCCcCccc---cCCCCCCCC
Q 021224 121 QVICSLCGTEQ---KQVCVNCGV 140 (316)
Q Consensus 121 ~v~C~~C~~~Q---~~~C~~Cg~ 140 (316)
.-.|..|++.+ ...|++||.
T Consensus 11 ~~rC~~Cg~~~~pPr~~Cp~C~s 33 (37)
T PF12172_consen 11 GQRCRDCGRVQFPPRPVCPHCGS 33 (37)
T ss_dssp EEE-TTT--EEES--SEETTTT-
T ss_pred EEEcCCCCCEecCCCcCCCCcCc
Confidence 45677777776 566777763
No 256
>PLN03086 PRLI-interacting factor K; Provisional
Probab=23.20 E-value=50 Score=35.22 Aligned_cols=14 Identities=29% Similarity=0.558 Sum_probs=10.3
Q ss_pred cccceeecCCcCcc
Q 021224 117 HEVNQVICSLCGTE 130 (316)
Q Consensus 117 ~~v~~v~C~~C~~~ 130 (316)
..+..|.|..|...
T Consensus 403 ~~~~~V~C~NC~~~ 416 (567)
T PLN03086 403 MDVDTVECRNCKHY 416 (567)
T ss_pred CCCCeEECCCCCCc
Confidence 44668889999754
No 257
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=22.78 E-value=17 Score=35.31 Aligned_cols=74 Identities=26% Similarity=0.589 Sum_probs=53.2
Q ss_pred CCCCccceeecCccccccCCCCCCeeecCCCCcceecCCCCeeeccCcccceeccccccccccCCCCCCCCcccccc
Q 021224 137 NCGVCMGEYFCESCKLFDDDTSKKQYHCDGCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCVEGAMHHDCPVCCEY 213 (316)
Q Consensus 137 ~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~E~~~~~~CPIClE~ 213 (316)
.=|..=+-.||..|..| .++-.-||+.|+.|..-.++.|-||.+|-.|+-.++..--.|..-+...-|-||.++
T Consensus 197 ~~~~EE~~~~~~~~~~Y---v~~~~~H~~~~~S~~~~~~~~~~H~~~~~~~~~~~~i~C~~~~~~A~~~~C~iC~~~ 270 (325)
T KOG4399|consen 197 ILPTEEGYRFCSPCQRY---VSLENQHCEHCNSCTSKDGRKWNHCFLCKKCVKPSWIHCSICNHCAVKHGCFICGEL 270 (325)
T ss_pred ecccccceEEEeehHHH---HHHHhhhchhhcccccchhHHHhHhHHhhhhcccceeeeecccchhhhcceeecccc
Confidence 34555577789999888 456778999999998777779999999999998877432222222334557777763
No 258
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=22.47 E-value=20 Score=33.01 Aligned_cols=13 Identities=31% Similarity=0.927 Sum_probs=10.9
Q ss_pred CCCCCCCCccccc
Q 021224 243 QYACPICSKSVCD 255 (316)
Q Consensus 243 ~~~CPiCrks~~d 255 (316)
..+||+|++.+..
T Consensus 5 ~~~CPvC~~~F~~ 17 (214)
T PF09986_consen 5 KITCPVCGKEFKT 17 (214)
T ss_pred ceECCCCCCeeee
Confidence 5789999998874
No 259
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=22.37 E-value=82 Score=21.16 Aligned_cols=28 Identities=25% Similarity=0.745 Sum_probs=12.3
Q ss_pred CCCCCCCccceeecCccccccCCCCCCeeecCCCC
Q 021224 134 VCVNCGVCMGEYFCESCKLFDDDTSKKQYHCDGCG 168 (316)
Q Consensus 134 ~C~~Cg~~f~~YfC~~C~l~ddd~~k~~yHC~~Cg 168 (316)
.|++||.++..- +-++| ++.-+-|+.||
T Consensus 2 fC~~CG~~l~~~------ip~gd-~r~R~vC~~Cg 29 (34)
T PF14803_consen 2 FCPQCGGPLERR------IPEGD-DRERLVCPACG 29 (34)
T ss_dssp B-TTT--B-EEE--------TT--SS-EEEETTTT
T ss_pred ccccccChhhhh------cCCCC-CccceECCCCC
Confidence 477777776432 23333 56677777776
No 260
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=22.10 E-value=45 Score=34.44 Aligned_cols=11 Identities=36% Similarity=0.603 Sum_probs=6.1
Q ss_pred cCCCCCCCCcc
Q 021224 132 KQVCVNCGVCM 142 (316)
Q Consensus 132 ~~~C~~Cg~~f 142 (316)
+..||+|+..|
T Consensus 128 ~Y~Cp~C~kky 138 (436)
T KOG2593|consen 128 GYVCPNCQKKY 138 (436)
T ss_pred cccCCccccch
Confidence 44566665554
No 261
>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=21.95 E-value=71 Score=31.19 Aligned_cols=43 Identities=26% Similarity=0.411 Sum_probs=26.2
Q ss_pred CCCCCCcccccccccCCceeEEcCCCCc----cchhHHHHHHhcCCCCCC
Q 021224 202 AMHHDCPVCCEYLFETRQDVIVLPCGHT----IHKNCLKEMREHHQYACP 247 (316)
Q Consensus 202 ~~~~~CPIClE~lf~s~~~~v~LpCGH~----fH~~Ci~~wl~~~~~~CP 247 (316)
.+-..|+||+| |...+.+-.-| =|+ =|++||++|-.-.+-.||
T Consensus 28 ~tLsfChiCfE-l~iegvpks~l--lHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 28 ETLSFCHICFE-LSIEGVPKSNL--LHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred cceeecceeec-cccccCccccc--cccccccchHHHHHHHHHHHcCCCC
Confidence 34567999998 55444333322 132 489999998332356788
No 262
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg). All proteins in the FPG family with known functions are FAPY-DNA glycosylases that function in base excision repair. Homologous to endonuclease VIII (nei). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.85 E-value=53 Score=31.31 Aligned_cols=19 Identities=37% Similarity=1.053 Sum_probs=14.8
Q ss_pred cCCCCCCCCcc--------ceeecCcc
Q 021224 132 KQVCVNCGVCM--------GEYFCESC 150 (316)
Q Consensus 132 ~~~C~~Cg~~f--------~~YfC~~C 150 (316)
++.|+.||... +.|||+.|
T Consensus 245 g~pC~~Cg~~I~~~~~~gR~t~~CP~C 271 (272)
T TIGR00577 245 GEPCRRCGTPIEKIKVGGRGTHFCPQC 271 (272)
T ss_pred CCCCCCCCCeeEEEEECCCCCEECCCC
Confidence 57899999887 45777776
No 263
>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=21.68 E-value=66 Score=22.98 Aligned_cols=26 Identities=23% Similarity=0.664 Sum_probs=17.2
Q ss_pred EEcCCCCCCccccceeeeecCCCCCCccc
Q 021224 283 ILCNDCGKTSNVQFHVLAQKCPNCKSYNT 311 (316)
Q Consensus 283 IlCnDC~~~s~~~fH~lg~kC~~C~SyNT 311 (316)
|.|+.|.+..-+.++ .+|..|..|+-
T Consensus 1 ~~C~~C~~~~i~g~R---~~C~~C~dydL 26 (49)
T cd02345 1 LSCSACRKQDISGIR---FPCQVCRDYSL 26 (49)
T ss_pred CcCCCCCCCCceEee---EECCCCCCcCc
Confidence 468888875444444 47777777764
No 264
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=21.60 E-value=86 Score=25.99 Aligned_cols=32 Identities=25% Similarity=0.562 Sum_probs=21.2
Q ss_pred CCeeeccCccc-ceeccccccccccCCCCCCCCcccccc
Q 021224 176 DNFFHCNKCRC-CYSMLLKNSHPCVEGAMHHDCPVCCEY 213 (316)
Q Consensus 176 ~~ffHC~~C~~-C~s~~l~~~H~C~E~~~~~~CPIClE~ 213 (316)
.++|+|..||. -+++.+. + +..+..||+|..+
T Consensus 19 pt~f~CP~Cge~~v~v~~~--k----~~~h~~C~~CG~y 51 (99)
T PRK14892 19 PKIFECPRCGKVSISVKIK--K----NIAIITCGNCGLY 51 (99)
T ss_pred CcEeECCCCCCeEeeeecC--C----CcceEECCCCCCc
Confidence 57888888883 2333332 2 4568899999975
No 265
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=21.56 E-value=34 Score=22.11 Aligned_cols=19 Identities=32% Similarity=0.906 Sum_probs=8.9
Q ss_pred ecCCcCccc-------cCCCCCCCCc
Q 021224 123 ICSLCGTEQ-------KQVCVNCGVC 141 (316)
Q Consensus 123 ~C~~C~~~Q-------~~~C~~Cg~~ 141 (316)
.|+.|+.+. +..|++||..
T Consensus 5 fC~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 5 FCGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp B-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred ccCcCCccccCCCCcCEeECCCCcCE
Confidence 577777653 4567777753
No 266
>PRK02935 hypothetical protein; Provisional
Probab=21.50 E-value=61 Score=27.48 Aligned_cols=24 Identities=29% Similarity=0.719 Sum_probs=19.5
Q ss_pred cceeecCCcCccc-----cCCCCCCCCcc
Q 021224 119 VNQVICSLCGTEQ-----KQVCVNCGVCM 142 (316)
Q Consensus 119 v~~v~C~~C~~~Q-----~~~C~~Cg~~f 142 (316)
..+|.|..|+++. .+.|.+|+.++
T Consensus 68 avqV~CP~C~K~TKmLGrvD~CM~C~~PL 96 (110)
T PRK02935 68 AVQVICPSCEKPTKMLGRVDACMHCNQPL 96 (110)
T ss_pred ceeeECCCCCchhhhccceeecCcCCCcC
Confidence 4588899998885 67899998877
No 267
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=21.15 E-value=33 Score=29.70 Aligned_cols=10 Identities=30% Similarity=0.554 Sum_probs=6.6
Q ss_pred CCCCCCCCcc
Q 021224 133 QVCVNCGVCM 142 (316)
Q Consensus 133 ~~C~~Cg~~f 142 (316)
-.||+||..|
T Consensus 100 Y~Cp~C~~~y 109 (147)
T smart00531 100 YKCPNCQSKY 109 (147)
T ss_pred EECcCCCCEe
Confidence 4577777655
No 268
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=21.01 E-value=41 Score=40.18 Aligned_cols=36 Identities=28% Similarity=0.646 Sum_probs=31.3
Q ss_pred CccccceeecCCcCccc-cCCCCCCCCccceeecCcc
Q 021224 115 PRHEVNQVICSLCGTEQ-KQVCVNCGVCMGEYFCESC 150 (316)
Q Consensus 115 ~R~~v~~v~C~~C~~~Q-~~~C~~Cg~~f~~YfC~~C 150 (316)
+.++..+.+||.|.... +|.||.=|..|-+|.|.-|
T Consensus 3626 ddydP~ELiCG~CSDvS~aQmCPkHGtdfLEYKCRyC 3662 (3738)
T KOG1428|consen 3626 DDYDPRELICGACSDVSRAQMCPKHGTDFLEYKCRYC 3662 (3738)
T ss_pred CCCCHHHhhhccccccccceecccccchhhhhhhhee
Confidence 55667799999999998 9999999999999977666
No 269
>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=20.86 E-value=68 Score=20.15 Aligned_cols=9 Identities=33% Similarity=1.162 Sum_probs=4.5
Q ss_pred CeeecCCCC
Q 021224 160 KQYHCDGCG 168 (316)
Q Consensus 160 ~~yHC~~Cg 168 (316)
-.|.|+.||
T Consensus 15 v~f~CPnCG 23 (24)
T PF07754_consen 15 VPFPCPNCG 23 (24)
T ss_pred ceEeCCCCC
Confidence 345555554
No 270
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=20.72 E-value=58 Score=31.19 Aligned_cols=19 Identities=26% Similarity=0.903 Sum_probs=14.8
Q ss_pred cCCCCCCCCcc--------ceeecCcc
Q 021224 132 KQVCVNCGVCM--------GEYFCESC 150 (316)
Q Consensus 132 ~~~C~~Cg~~f--------~~YfC~~C 150 (316)
++.|+.||... +.|||+.|
T Consensus 254 g~pC~~Cg~~I~~~~~~gR~t~~CP~C 280 (282)
T PRK13945 254 GKPCRKCGTPIERIKLAGRSTHWCPNC 280 (282)
T ss_pred cCCCCcCCCeeEEEEECCCccEECCCC
Confidence 57899999887 55777776
No 271
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=20.66 E-value=32 Score=31.07 Aligned_cols=9 Identities=33% Similarity=0.969 Sum_probs=4.8
Q ss_pred CCCCCCCcc
Q 021224 134 VCVNCGVCM 142 (316)
Q Consensus 134 ~C~~Cg~~f 142 (316)
.|++||..|
T Consensus 119 ~Cp~C~~ry 127 (178)
T PRK06266 119 FCPNCHIRF 127 (178)
T ss_pred ECCCCCcEE
Confidence 466666444
No 272
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=20.65 E-value=57 Score=31.91 Aligned_cols=31 Identities=29% Similarity=0.648 Sum_probs=25.5
Q ss_pred CCCcceecCCCCeeeccCcccceecccccccccc
Q 021224 166 GCGICRIGGCDNFFHCNKCRCCYSMLLKNSHPCV 199 (316)
Q Consensus 166 ~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~ 199 (316)
.|.-|+.-+.+..-||..||.|+-+- .|.|+
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 48888888899999999999998743 47666
No 273
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=20.47 E-value=44 Score=23.78 Aligned_cols=19 Identities=16% Similarity=0.415 Sum_probs=14.7
Q ss_pred eeEEc-CCCCccchhHHHHH
Q 021224 220 DVIVL-PCGHTIHKNCLKEM 238 (316)
Q Consensus 220 ~~v~L-pCGH~fH~~Ci~~w 238 (316)
..+.- .||+.|+..|..+|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 34444 68999999998888
No 274
>PLN00209 ribosomal protein S27; Provisional
Probab=20.39 E-value=61 Score=26.41 Aligned_cols=35 Identities=20% Similarity=0.320 Sum_probs=24.9
Q ss_pred ceeecCCcCccc--------cCCCCCCCCccceeecCcccccc
Q 021224 120 NQVICSLCGTEQ--------KQVCVNCGVCMGEYFCESCKLFD 154 (316)
Q Consensus 120 ~~v~C~~C~~~Q--------~~~C~~Cg~~f~~YfC~~C~l~d 154 (316)
-.|.|..|..+| ...|..||..+++-.=++.+|-+
T Consensus 35 m~VkCp~C~n~q~VFShA~t~V~C~~Cg~~L~~PTGGKa~l~~ 77 (86)
T PLN00209 35 MDVKCQGCFNITTVFSHSQTVVVCGSCQTVLCQPTGGKARLTE 77 (86)
T ss_pred EEEECCCCCCeeEEEecCceEEEccccCCEeeccCCCCeEecC
Confidence 477888888876 45688888888776666665543
No 275
>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=20.34 E-value=82 Score=21.94 Aligned_cols=12 Identities=42% Similarity=1.148 Sum_probs=5.7
Q ss_pred CCCeeecCCCCc
Q 021224 158 SKKQYHCDGCGI 169 (316)
Q Consensus 158 ~k~~yHC~~Cgi 169 (316)
.++-|+|..|++
T Consensus 25 ~~~g~~C~~C~~ 36 (53)
T PF00130_consen 25 GKQGYRCSWCGL 36 (53)
T ss_dssp SSCEEEETTTT-
T ss_pred CCCeEEECCCCC
Confidence 445555555543
Done!