Query 037529
Match_columns 133
No_of_seqs 139 out of 1710
Neff 9.5
Searched_HMMs 46136
Date Fri Mar 29 13:10:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037529.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037529hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.9 2.8E-23 6.1E-28 150.2 7.1 77 48-125 203-283 (348)
2 PF13639 zf-RING_2: Ring finge 99.8 1.9E-20 4.1E-25 98.9 1.9 44 72-116 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.6 1.4E-16 3E-21 111.0 4.8 72 50-121 148-228 (238)
4 COG5540 RING-finger-containing 99.6 5.9E-17 1.3E-21 114.4 1.7 52 69-121 321-373 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.6 2.1E-16 4.4E-21 91.9 3.4 46 70-116 18-73 (73)
6 COG5243 HRD1 HRD ubiquitin lig 99.5 3.5E-15 7.6E-20 108.1 3.9 62 57-119 272-344 (491)
7 KOG0317 Predicted E3 ubiquitin 99.5 2.2E-14 4.8E-19 100.9 5.8 50 71-124 239-288 (293)
8 PF13920 zf-C3HC4_3: Zinc fing 99.5 2.2E-14 4.8E-19 77.5 3.2 47 71-121 2-49 (50)
9 PF13923 zf-C3HC4_2: Zinc fing 99.4 8E-14 1.7E-18 71.5 2.7 39 74-115 1-39 (39)
10 KOG1734 Predicted RING-contain 99.4 3.3E-14 7.2E-19 99.1 1.7 63 69-132 222-293 (328)
11 PLN03208 E3 ubiquitin-protein 99.4 1.1E-13 2.4E-18 93.1 3.8 52 69-124 16-83 (193)
12 cd00162 RING RING-finger (Real 99.4 1.9E-13 4.1E-18 71.7 3.0 44 73-119 1-45 (45)
13 KOG0320 Predicted E3 ubiquitin 99.4 4.7E-13 1E-17 88.2 3.2 53 71-125 131-183 (187)
14 PF14634 zf-RING_5: zinc-RING 99.3 6E-13 1.3E-17 69.9 2.7 44 73-117 1-44 (44)
15 PHA02926 zinc finger-like prot 99.3 1.1E-12 2.3E-17 89.6 3.6 53 69-121 168-231 (242)
16 KOG0802 E3 ubiquitin ligase [P 99.3 1.4E-12 3.1E-17 101.3 3.0 49 70-119 290-340 (543)
17 KOG0823 Predicted E3 ubiquitin 99.3 3.1E-12 6.7E-17 87.7 3.9 53 68-124 44-99 (230)
18 PF12861 zf-Apc11: Anaphase-pr 99.3 3.2E-12 6.9E-17 75.2 3.1 51 70-120 20-82 (85)
19 PF00097 zf-C3HC4: Zinc finger 99.3 3.5E-12 7.6E-17 66.0 2.4 39 74-115 1-41 (41)
20 PF15227 zf-C3HC4_4: zinc fing 99.2 4.9E-12 1.1E-16 65.6 2.5 38 74-115 1-42 (42)
21 KOG0828 Predicted E3 ubiquitin 99.2 1.6E-11 3.5E-16 92.0 4.8 50 71-121 571-635 (636)
22 smart00184 RING Ring finger. E 99.2 2E-11 4.4E-16 61.7 2.9 38 74-115 1-39 (39)
23 smart00504 Ubox Modified RING 99.1 4.4E-11 9.4E-16 67.4 3.4 47 72-122 2-48 (63)
24 TIGR00599 rad18 DNA repair pro 99.1 1.5E-10 3.2E-15 86.3 4.3 52 67-122 22-73 (397)
25 COG5194 APC11 Component of SCF 99.1 1.2E-10 2.6E-15 66.9 2.8 32 92-123 53-84 (88)
26 PF13445 zf-RING_UBOX: RING-ty 99.0 2.8E-10 6E-15 59.1 2.5 38 74-113 1-43 (43)
27 COG5574 PEX10 RING-finger-cont 98.9 3.5E-10 7.7E-15 79.0 2.3 50 70-123 214-265 (271)
28 KOG2930 SCF ubiquitin ligase, 98.9 2.5E-10 5.4E-15 68.8 1.2 51 70-120 45-108 (114)
29 KOG2164 Predicted E3 ubiquitin 98.9 7.4E-10 1.6E-14 83.6 2.4 48 71-122 186-238 (513)
30 smart00744 RINGv The RING-vari 98.9 1.2E-09 2.7E-14 58.4 2.5 42 73-116 1-49 (49)
31 TIGR00570 cdk7 CDK-activating 98.8 5.6E-09 1.2E-13 75.2 3.8 54 70-124 2-58 (309)
32 KOG1493 Anaphase-promoting com 98.8 2.8E-09 6.1E-14 60.8 1.5 51 70-120 19-81 (84)
33 KOG0287 Postreplication repair 98.8 2.4E-09 5.1E-14 77.4 1.4 50 71-124 23-72 (442)
34 KOG4265 Predicted E3 ubiquitin 98.7 7.4E-09 1.6E-13 75.3 2.6 51 69-123 288-339 (349)
35 KOG0804 Cytoplasmic Zn-finger 98.7 6.1E-09 1.3E-13 77.6 2.0 49 69-120 173-222 (493)
36 PF04564 U-box: U-box domain; 98.7 1.6E-08 3.4E-13 58.7 3.3 51 70-124 3-54 (73)
37 PF11793 FANCL_C: FANCL C-term 98.6 4.4E-09 9.5E-14 60.5 -0.9 52 71-122 2-68 (70)
38 KOG0827 Predicted E3 ubiquitin 98.6 2.2E-08 4.9E-13 73.5 2.3 51 72-123 5-59 (465)
39 KOG2177 Predicted E3 ubiquitin 98.6 2E-08 4.3E-13 72.1 1.9 44 69-116 11-54 (386)
40 COG5432 RAD18 RING-finger-cont 98.6 3.3E-08 7.2E-13 70.2 2.2 49 70-122 24-72 (391)
41 KOG4172 Predicted E3 ubiquitin 98.5 2.7E-08 6E-13 53.2 1.1 46 72-121 8-55 (62)
42 COG5219 Uncharacterized conser 98.5 4.9E-08 1.1E-12 78.7 1.5 53 69-121 1467-1524(1525)
43 KOG1645 RING-finger-containing 98.4 1.1E-07 2.4E-12 70.3 2.6 51 70-120 3-56 (463)
44 KOG0824 Predicted E3 ubiquitin 98.4 1.1E-07 2.4E-12 67.8 2.0 53 71-127 7-60 (324)
45 PF14835 zf-RING_6: zf-RING of 98.4 3.9E-08 8.5E-13 54.7 -0.5 47 72-123 8-54 (65)
46 KOG0311 Predicted E3 ubiquitin 98.3 7.2E-08 1.6E-12 70.1 -0.5 53 69-124 41-94 (381)
47 KOG1039 Predicted E3 ubiquitin 98.3 3.3E-07 7.2E-12 67.4 2.1 51 69-119 159-220 (344)
48 KOG4445 Uncharacterized conser 98.3 2.6E-07 5.7E-12 65.9 1.1 50 71-121 115-187 (368)
49 KOG0825 PHD Zn-finger protein 98.3 2.4E-07 5.2E-12 73.5 0.6 50 72-122 124-173 (1134)
50 KOG0978 E3 ubiquitin ligase in 98.2 4.3E-07 9.3E-12 71.8 1.6 50 71-124 643-693 (698)
51 KOG2879 Predicted E3 ubiquitin 98.0 8.2E-06 1.8E-10 57.7 4.2 56 65-123 233-290 (298)
52 KOG1785 Tyrosine kinase negati 97.9 3.3E-06 7.1E-11 62.7 1.4 44 72-119 370-415 (563)
53 KOG4159 Predicted E3 ubiquitin 97.9 6.9E-06 1.5E-10 61.7 2.7 49 69-121 82-130 (398)
54 PF05883 Baculo_RING: Baculovi 97.9 4.5E-06 9.8E-11 53.3 0.8 36 71-107 26-67 (134)
55 KOG0826 Predicted E3 ubiquitin 97.8 9.7E-05 2.1E-09 53.7 7.3 49 69-120 298-346 (357)
56 PF11789 zf-Nse: Zinc-finger o 97.8 7.5E-06 1.6E-10 45.1 1.2 41 71-114 11-53 (57)
57 KOG1941 Acetylcholine receptor 97.8 8.4E-06 1.8E-10 60.4 1.8 46 71-117 365-413 (518)
58 KOG1428 Inhibitor of type V ad 97.7 1.9E-05 4.1E-10 66.8 2.6 55 69-124 3484-3548(3738)
59 KOG0297 TNF receptor-associate 97.7 1.8E-05 3.9E-10 59.7 2.0 54 68-124 18-71 (391)
60 KOG3970 Predicted E3 ubiquitin 97.7 2.9E-05 6.4E-10 53.6 2.7 51 71-123 50-108 (299)
61 COG5152 Uncharacterized conser 97.6 4.4E-05 9.6E-10 51.8 2.4 46 70-119 195-240 (259)
62 PF14570 zf-RING_4: RING/Ubox 97.6 0.0001 2.2E-09 38.9 2.9 44 74-118 1-46 (48)
63 KOG1952 Transcription factor N 97.5 2.9E-05 6.3E-10 62.4 0.8 48 70-117 190-244 (950)
64 KOG2660 Locus-specific chromos 97.5 3.6E-05 7.8E-10 55.9 0.9 52 69-123 13-64 (331)
65 KOG4692 Predicted E3 ubiquitin 97.5 0.0001 2.2E-09 54.2 3.1 49 69-121 420-468 (489)
66 KOG0801 Predicted E3 ubiquitin 97.5 3.7E-05 8E-10 50.5 0.7 29 70-99 176-204 (205)
67 PF12906 RINGv: RING-variant d 97.4 6.5E-05 1.4E-09 39.7 1.4 40 74-115 1-47 (47)
68 PHA02862 5L protein; Provision 97.4 0.00014 2.9E-09 47.0 2.6 45 71-120 2-53 (156)
69 KOG3039 Uncharacterized conser 97.4 0.00015 3.2E-09 50.8 2.8 53 72-124 222-274 (303)
70 KOG0827 Predicted E3 ubiquitin 97.4 8.7E-06 1.9E-10 60.2 -3.5 55 71-126 196-251 (465)
71 KOG1571 Predicted E3 ubiquitin 97.3 0.00013 2.9E-09 53.6 2.4 50 65-121 299-348 (355)
72 PF10367 Vps39_2: Vacuolar sor 97.3 7.2E-05 1.6E-09 46.2 0.7 33 69-103 76-108 (109)
73 KOG4275 Predicted E3 ubiquitin 97.2 4.3E-05 9.4E-10 54.7 -1.1 42 71-120 300-342 (350)
74 KOG1814 Predicted E3 ubiquitin 97.2 0.00017 3.7E-09 53.9 1.8 47 70-117 183-237 (445)
75 PF14447 Prok-RING_4: Prokaryo 97.2 0.00018 3.8E-09 38.9 1.1 46 72-123 8-53 (55)
76 PHA03096 p28-like protein; Pro 97.2 0.00022 4.8E-09 51.5 1.9 46 72-117 179-231 (284)
77 PHA02825 LAP/PHD finger-like p 97.1 0.00071 1.5E-08 44.5 3.9 48 69-121 6-60 (162)
78 COG5236 Uncharacterized conser 97.1 0.00061 1.3E-08 50.1 3.8 49 69-121 59-109 (493)
79 KOG4739 Uncharacterized protei 97.1 0.00012 2.5E-09 51.2 0.1 45 73-121 5-49 (233)
80 KOG4185 Predicted E3 ubiquitin 97.1 0.00038 8.2E-09 50.6 2.3 48 71-119 3-54 (296)
81 KOG1002 Nucleotide excision re 97.0 0.00034 7.4E-09 54.0 1.9 50 69-122 534-588 (791)
82 KOG1940 Zn-finger protein [Gen 97.0 0.00036 7.8E-09 50.0 1.8 46 71-117 158-204 (276)
83 KOG1813 Predicted E3 ubiquitin 97.0 0.00032 7E-09 50.3 1.1 47 71-121 241-287 (313)
84 PF04641 Rtf2: Rtf2 RING-finge 96.9 0.0011 2.3E-08 47.6 3.5 54 69-123 111-164 (260)
85 PF08746 zf-RING-like: RING-li 96.8 0.00086 1.9E-08 34.7 1.8 41 74-115 1-43 (43)
86 COG5175 MOT2 Transcriptional r 96.5 0.0026 5.6E-08 46.8 2.9 53 68-121 11-65 (480)
87 PF14446 Prok-RING_1: Prokaryo 96.3 0.0044 9.5E-08 33.5 2.6 34 71-104 5-38 (54)
88 KOG3268 Predicted E3 ubiquitin 96.2 0.0038 8.3E-08 41.9 2.4 31 93-123 190-231 (234)
89 KOG0309 Conserved WD40 repeat- 96.2 0.0034 7.4E-08 50.6 2.3 40 73-114 1030-1069(1081)
90 COG5222 Uncharacterized conser 96.1 0.0039 8.5E-08 45.1 2.0 43 72-117 275-318 (427)
91 KOG1001 Helicase-like transcri 96.0 0.0027 5.9E-08 51.1 1.0 47 72-123 455-503 (674)
92 KOG2114 Vacuolar assembly/sort 95.9 0.0033 7.1E-08 51.1 1.2 40 72-117 841-880 (933)
93 KOG2034 Vacuolar sorting prote 95.6 0.0053 1.2E-07 50.2 1.3 36 69-106 815-850 (911)
94 PF10272 Tmpp129: Putative tra 95.6 0.022 4.8E-07 42.6 4.4 27 94-120 312-351 (358)
95 KOG2932 E3 ubiquitin ligase in 95.3 0.0067 1.5E-07 44.1 0.8 42 73-119 92-133 (389)
96 KOG2817 Predicted E3 ubiquitin 95.3 0.016 3.5E-07 43.4 2.7 48 69-117 332-382 (394)
97 COG5220 TFB3 Cdk activating ki 95.1 0.0044 9.6E-08 43.5 -0.5 48 70-117 9-61 (314)
98 KOG0298 DEAD box-containing he 95.1 0.0061 1.3E-07 51.6 0.1 48 69-119 1151-1198(1394)
99 KOG1812 Predicted E3 ubiquitin 95.0 0.011 2.4E-07 44.7 1.3 38 70-108 145-183 (384)
100 KOG3161 Predicted E3 ubiquitin 95.0 0.009 2E-07 47.4 0.7 45 71-119 11-56 (861)
101 KOG1100 Predicted E3 ubiquitin 94.8 0.0092 2E-07 41.4 0.3 41 74-122 161-202 (207)
102 KOG3800 Predicted E3 ubiquitin 94.7 0.028 6E-07 40.6 2.5 47 73-120 2-51 (300)
103 PF03854 zf-P11: P-11 zinc fin 94.4 0.019 4.2E-07 30.0 0.9 29 93-121 18-47 (50)
104 KOG3002 Zn finger protein [Gen 94.4 0.026 5.7E-07 41.3 1.9 47 69-121 46-92 (299)
105 PF07800 DUF1644: Protein of u 94.4 0.046 1E-06 36.1 2.8 35 71-106 2-46 (162)
106 KOG3053 Uncharacterized conser 94.3 0.024 5.3E-07 40.2 1.5 53 68-121 17-83 (293)
107 PF05290 Baculo_IE-1: Baculovi 93.3 0.08 1.7E-06 34.0 2.4 52 71-122 80-134 (140)
108 KOG3899 Uncharacterized conser 93.3 0.05 1.1E-06 39.4 1.6 28 93-120 325-365 (381)
109 KOG1609 Protein involved in mR 93.1 0.078 1.7E-06 38.7 2.4 49 71-120 78-134 (323)
110 KOG0802 E3 ubiquitin ligase [P 92.6 0.095 2.1E-06 41.5 2.4 48 70-125 478-525 (543)
111 KOG4362 Transcriptional regula 92.4 0.034 7.3E-07 44.7 -0.2 48 71-122 21-71 (684)
112 PF13901 DUF4206: Domain of un 91.9 0.1 2.2E-06 36.0 1.6 41 71-117 152-197 (202)
113 KOG1815 Predicted E3 ubiquitin 90.9 0.17 3.8E-06 39.0 2.2 53 69-124 68-130 (444)
114 KOG1829 Uncharacterized conser 90.9 0.087 1.9E-06 41.8 0.5 43 71-117 511-558 (580)
115 COG5109 Uncharacterized conser 90.7 1.2 2.5E-05 32.9 6.1 47 69-116 334-383 (396)
116 COG5183 SSM4 Protein involved 89.8 0.58 1.2E-05 38.7 4.3 51 69-121 10-67 (1175)
117 PF02009 Rifin_STEVOR: Rifin/s 89.3 0.72 1.6E-05 33.9 4.1 28 5-32 258-285 (299)
118 PF15050 SCIMP: SCIMP protein 89.1 0.7 1.5E-05 29.1 3.4 29 4-32 9-37 (133)
119 KOG3113 Uncharacterized conser 89.1 0.34 7.4E-06 34.5 2.3 51 71-123 111-161 (293)
120 KOG0825 PHD Zn-finger protein 88.6 0.28 6.1E-06 40.3 1.8 50 71-120 96-154 (1134)
121 TIGR00622 ssl1 transcription f 87.7 0.61 1.3E-05 29.1 2.5 46 72-117 56-111 (112)
122 KOG2066 Vacuolar assembly/sort 87.5 0.15 3.3E-06 41.6 -0.2 45 69-115 782-830 (846)
123 PF07975 C1_4: TFIIH C1-like d 87.2 0.44 9.6E-06 25.5 1.5 42 74-116 2-50 (51)
124 KOG4718 Non-SMC (structural ma 86.7 0.36 7.8E-06 33.5 1.2 44 71-117 181-224 (235)
125 PF02439 Adeno_E3_CR2: Adenovi 86.6 2.7 5.9E-05 20.9 4.1 13 6-18 9-21 (38)
126 PF10571 UPF0547: Uncharacteri 86.1 0.47 1E-05 21.6 1.1 23 73-97 2-24 (26)
127 PF02891 zf-MIZ: MIZ/SP-RING z 86.1 0.49 1.1E-05 25.1 1.3 40 73-118 4-50 (50)
128 smart00249 PHD PHD zinc finger 85.6 0.46 9.9E-06 23.9 1.1 31 73-104 1-31 (47)
129 KOG0269 WD40 repeat-containing 85.6 0.63 1.4E-05 38.1 2.2 41 72-114 780-820 (839)
130 PF13717 zinc_ribbon_4: zinc-r 84.9 0.48 1E-05 23.3 0.8 14 72-85 3-16 (36)
131 PF04423 Rad50_zn_hook: Rad50 84.2 0.34 7.4E-06 26.0 0.1 14 110-123 21-34 (54)
132 smart00132 LIM Zinc-binding do 84.1 0.68 1.5E-05 22.3 1.2 37 74-120 2-38 (39)
133 PF00412 LIM: LIM domain; Int 84.0 0.44 9.6E-06 25.5 0.6 40 74-123 1-40 (58)
134 KOG4367 Predicted Zn-finger pr 83.7 0.5 1.1E-05 36.4 0.9 34 70-107 3-36 (699)
135 TIGR01477 RIFIN variant surfac 82.6 2.6 5.6E-05 31.7 4.2 27 5-31 312-338 (353)
136 PTZ00046 rifin; Provisional 81.7 2.9 6.4E-05 31.5 4.2 27 5-31 317-343 (358)
137 KOG2807 RNA polymerase II tran 81.6 1.1 2.3E-05 33.3 1.9 46 71-117 330-375 (378)
138 KOG2068 MOT2 transcription fac 81.6 1.8 3.9E-05 32.1 3.0 50 72-122 250-300 (327)
139 PTZ00370 STEVOR; Provisional 81.5 2.6 5.6E-05 30.7 3.7 23 11-33 262-284 (296)
140 PF01363 FYVE: FYVE zinc finge 80.7 0.54 1.2E-05 26.4 0.1 37 69-105 7-43 (69)
141 cd00065 FYVE FYVE domain; Zinc 80.5 1.7 3.8E-05 23.2 2.1 36 72-107 3-38 (57)
142 PF12273 RCR: Chitin synthesis 79.5 3.3 7.2E-05 26.4 3.5 18 16-33 9-26 (130)
143 PF00628 PHD: PHD-finger; Int 79.4 0.59 1.3E-05 24.5 -0.0 44 73-117 1-50 (51)
144 smart00064 FYVE Protein presen 79.2 2.9 6.2E-05 23.3 2.8 37 71-107 10-46 (68)
145 PF06844 DUF1244: Protein of u 79.1 1.4 3.1E-05 24.7 1.4 11 97-107 12-22 (68)
146 PF06906 DUF1272: Protein of u 78.5 2.5 5.4E-05 23.0 2.2 45 72-121 6-53 (57)
147 PF06024 DUF912: Nucleopolyhed 78.2 0.87 1.9E-05 27.9 0.4 17 8-24 67-83 (101)
148 cd00350 rubredoxin_like Rubred 76.1 1.1 2.5E-05 21.4 0.4 19 93-117 7-25 (33)
149 KOG3005 GIY-YIG type nuclease 75.6 1.9 4.1E-05 31.1 1.6 48 72-119 183-242 (276)
150 PF05715 zf-piccolo: Piccolo Z 75.5 1.8 3.9E-05 23.8 1.1 11 109-119 2-12 (61)
151 PF13719 zinc_ribbon_5: zinc-r 74.8 1.6 3.4E-05 21.5 0.8 14 72-85 3-16 (37)
152 PF04710 Pellino: Pellino; In 74.4 1 2.2E-05 34.2 0.0 43 72-118 278-337 (416)
153 PF12606 RELT: Tumour necrosis 74.0 9.8 0.00021 20.2 3.7 15 2-16 2-16 (50)
154 KOG1812 Predicted E3 ubiquitin 73.5 1.7 3.6E-05 33.2 1.0 46 71-117 306-353 (384)
155 PF07649 C1_3: C1-like domain; 72.7 2.5 5.3E-05 19.6 1.2 29 73-102 2-30 (30)
156 PF14569 zf-UDP: Zinc-binding 72.0 8.6 0.00019 22.4 3.4 52 70-121 8-63 (80)
157 smart00734 ZnF_Rad18 Rad18-lik 71.5 0.92 2E-05 20.6 -0.5 11 111-121 3-13 (26)
158 KOG3842 Adaptor protein Pellin 70.1 7.4 0.00016 29.0 3.6 51 70-121 340-415 (429)
159 PF14169 YdjO: Cold-inducible 69.8 2.2 4.8E-05 23.5 0.7 15 109-123 39-53 (59)
160 KOG3039 Uncharacterized conser 69.8 5.3 0.00012 28.6 2.7 34 69-106 41-74 (303)
161 PF10497 zf-4CXXC_R1: Zinc-fin 67.9 6.8 0.00015 24.2 2.7 24 94-117 37-69 (105)
162 PF01102 Glycophorin_A: Glycop 67.5 15 0.00034 23.3 4.3 8 9-16 70-77 (122)
163 PF11023 DUF2614: Protein of u 67.0 21 0.00045 22.4 4.6 16 107-122 83-98 (114)
164 PF15102 TMEM154: TMEM154 prot 66.8 1.3 2.9E-05 28.9 -0.7 6 102-107 130-135 (146)
165 COG4736 CcoQ Cbb3-type cytochr 66.0 7.4 0.00016 21.5 2.3 16 15-30 14-29 (60)
166 PF13832 zf-HC5HC2H_2: PHD-zin 65.9 5.4 0.00012 24.4 2.0 34 71-105 55-88 (110)
167 PF09723 Zn-ribbon_8: Zinc rib 65.8 0.75 1.6E-05 23.4 -1.6 24 93-117 11-34 (42)
168 PF06750 DiS_P_DiS: Bacterial 64.9 4.1 8.8E-05 24.5 1.2 39 71-122 33-71 (92)
169 PF06679 DUF1180: Protein of u 64.9 12 0.00027 25.0 3.6 25 9-33 97-121 (163)
170 PF14311 DUF4379: Domain of un 64.1 4.5 9.7E-05 21.6 1.2 22 93-115 34-55 (55)
171 PRK05978 hypothetical protein; 63.9 5.3 0.00011 26.3 1.7 24 95-123 43-66 (148)
172 PF15050 SCIMP: SCIMP protein 62.9 11 0.00024 23.9 2.9 39 17-55 17-55 (133)
173 PF15179 Myc_target_1: Myc tar 61.3 30 0.00066 23.7 4.9 17 2-18 22-38 (197)
174 PF07191 zinc-ribbons_6: zinc- 60.9 2.3 5E-05 24.3 -0.3 41 72-121 2-42 (70)
175 PF05605 zf-Di19: Drought indu 60.8 1.6 3.4E-05 23.3 -1.0 39 71-120 2-42 (54)
176 PF06937 EURL: EURL protein; 60.1 11 0.00024 27.3 2.8 51 72-124 31-83 (285)
177 PF15176 LRR19-TM: Leucine-ric 58.6 40 0.00087 20.7 5.0 15 24-38 39-53 (102)
178 COG1545 Predicted nucleic-acid 58.4 5.1 0.00011 26.0 0.9 20 92-119 34-53 (140)
179 KOG1729 FYVE finger containing 58.4 1.9 4.1E-05 31.6 -1.2 38 72-110 215-252 (288)
180 COG3492 Uncharacterized protei 57.4 6.3 0.00014 23.7 1.1 12 96-107 42-53 (104)
181 KOG4185 Predicted E3 ubiquitin 57.3 1.7 3.7E-05 31.6 -1.6 48 71-118 207-265 (296)
182 KOG2071 mRNA cleavage and poly 56.7 8.2 0.00018 31.0 1.9 36 69-105 511-556 (579)
183 PF15353 HECA: Headcase protei 56.3 8.2 0.00018 23.9 1.5 13 93-105 40-52 (107)
184 KOG2979 Protein involved in DN 56.2 7.8 0.00017 27.9 1.6 41 72-115 177-219 (262)
185 PF05399 EVI2A: Ectropic viral 56.0 25 0.00054 24.6 3.9 17 8-24 139-155 (227)
186 PLN02189 cellulose synthase 55.7 9.9 0.00021 32.7 2.3 51 70-120 33-87 (1040)
187 PF15176 LRR19-TM: Leucine-ric 54.3 49 0.0011 20.3 5.1 39 2-40 20-58 (102)
188 PF07282 OrfB_Zn_ribbon: Putat 53.8 12 0.00026 20.8 1.9 35 70-104 27-63 (69)
189 COG3813 Uncharacterized protei 53.3 9.1 0.0002 22.0 1.2 25 94-120 28-52 (84)
190 PF04216 FdhE: Protein involve 53.1 1.2 2.7E-05 32.4 -2.9 47 71-118 172-220 (290)
191 PF07406 NICE-3: NICE-3 protei 52.1 7.4 0.00016 26.6 0.9 9 98-106 125-133 (186)
192 PF13913 zf-C2HC_2: zinc-finge 51.6 3.8 8.3E-05 18.2 -0.4 12 111-122 4-15 (25)
193 PF09237 GAGA: GAGA factor; I 50.6 4.5 9.9E-05 21.6 -0.2 10 111-120 26-35 (54)
194 KOG0956 PHD finger protein AF1 50.4 8.4 0.00018 31.7 1.1 51 72-122 118-184 (900)
195 PF00558 Vpu: Vpu protein; In 50.4 32 0.00069 20.2 3.3 10 16-25 16-25 (81)
196 KOG2231 Predicted E3 ubiquitin 50.2 17 0.00037 29.9 2.7 49 73-125 2-57 (669)
197 PF02318 FYVE_2: FYVE-type zin 49.9 7.4 0.00016 24.4 0.6 46 70-118 53-103 (118)
198 PF13771 zf-HC5HC2H: PHD-like 49.9 10 0.00022 22.2 1.2 33 71-104 36-68 (90)
199 KOG0824 Predicted E3 ubiquitin 49.6 6.7 0.00015 28.9 0.4 51 69-122 103-153 (324)
200 PF06024 DUF912: Nucleopolyhed 49.4 15 0.00033 22.4 2.0 22 9-30 64-85 (101)
201 cd00730 rubredoxin Rubredoxin; 48.0 19 0.00041 19.1 1.9 11 108-118 33-43 (50)
202 PLN02638 cellulose synthase A 47.7 17 0.00038 31.5 2.6 51 70-120 16-70 (1079)
203 PF03884 DUF329: Domain of unk 47.4 8.2 0.00018 21.1 0.5 11 111-121 4-14 (57)
204 PF10083 DUF2321: Uncharacteri 46.8 11 0.00023 25.1 1.0 46 75-123 8-53 (158)
205 COG4357 Zinc finger domain con 46.4 16 0.00036 22.2 1.7 29 93-122 65-93 (105)
206 smart00647 IBR In Between Ring 45.8 2.5 5.4E-05 22.9 -1.8 17 89-105 42-58 (64)
207 PF08274 PhnA_Zn_Ribbon: PhnA 45.7 11 0.00023 17.8 0.6 24 73-96 4-28 (30)
208 PLN02436 cellulose synthase A 45.7 21 0.00046 31.0 2.7 51 70-120 35-89 (1094)
209 TIGR00686 phnA alkylphosphonat 45.6 12 0.00027 23.2 1.1 27 72-98 3-30 (109)
210 PRK11088 rrmA 23S rRNA methylt 45.4 13 0.00027 26.7 1.3 26 72-98 3-28 (272)
211 PRK03564 formate dehydrogenase 45.1 8.1 0.00018 28.6 0.3 46 71-117 187-234 (309)
212 PF00301 Rubredoxin: Rubredoxi 44.8 20 0.00044 18.7 1.7 10 109-118 34-43 (47)
213 TIGR02736 cbb3_Q_epsi cytochro 44.6 52 0.0011 17.8 3.5 24 10-33 5-28 (56)
214 COG1622 CyoA Heme/copper-type 44.3 69 0.0015 23.0 4.9 10 102-111 216-225 (247)
215 KOG1538 Uncharacterized conser 44.0 10 0.00023 31.3 0.8 31 90-120 1047-1077(1081)
216 KOG4577 Transcription factor L 43.6 6.7 0.00015 28.7 -0.3 42 71-122 92-133 (383)
217 PF14654 Epiglycanin_C: Mucin, 43.5 63 0.0014 19.8 3.8 19 8-26 24-42 (106)
218 KOG2113 Predicted RNA binding 43.5 22 0.00048 26.5 2.3 44 70-119 342-386 (394)
219 PRK00418 DNA gyrase inhibitor; 43.5 14 0.0003 20.6 1.0 11 110-120 7-17 (62)
220 PF08113 CoxIIa: Cytochrome c 43.2 41 0.00088 16.2 4.2 12 12-23 16-27 (34)
221 PF05454 DAG1: Dystroglycan (D 43.0 8 0.00017 28.4 0.0 21 6-26 150-170 (290)
222 PF09943 DUF2175: Uncharacteri 42.8 20 0.00043 22.1 1.7 33 73-107 4-36 (101)
223 PRK01343 zinc-binding protein; 42.3 12 0.00025 20.5 0.6 12 109-120 9-20 (57)
224 PF03119 DNA_ligase_ZBD: NAD-d 41.9 10 0.00022 17.4 0.3 10 111-120 1-10 (28)
225 PLN02248 cellulose synthase-li 41.9 30 0.00065 30.3 3.1 29 93-121 150-178 (1135)
226 KOG1245 Chromatin remodeling c 41.7 10 0.00022 33.9 0.4 49 70-119 1107-1159(1404)
227 COG3357 Predicted transcriptio 41.1 9.8 0.00021 22.9 0.2 22 93-118 64-85 (97)
228 PF07172 GRP: Glycine rich pro 41.0 82 0.0018 19.0 4.2 13 10-22 7-19 (95)
229 KOG3579 Predicted E3 ubiquitin 40.9 16 0.00034 26.8 1.2 49 72-120 269-328 (352)
230 PF12768 Rax2: Cortical protei 40.7 36 0.00078 24.9 3.0 6 7-12 234-239 (281)
231 PF07095 IgaA: Intracellular g 40.4 70 0.0015 26.5 4.8 10 24-33 19-28 (705)
232 TIGR02098 MJ0042_CXXC MJ0042 f 40.2 7.6 0.00017 18.9 -0.3 12 72-83 3-14 (38)
233 PLN02915 cellulose synthase A 39.8 25 0.00054 30.5 2.3 51 70-120 14-68 (1044)
234 PF05502 Dynactin_p62: Dynacti 39.7 13 0.00029 29.3 0.8 41 71-125 26-68 (483)
235 PF12292 DUF3624: Protein of u 39.6 78 0.0017 18.4 3.9 26 6-31 49-74 (77)
236 TIGR00627 tfb4 transcription f 39.6 20 0.00043 26.2 1.6 9 110-118 270-278 (279)
237 PF15361 RIC3: Resistance to i 39.4 1.1E+02 0.0024 20.2 5.3 11 50-60 126-136 (152)
238 PTZ00208 65 kDa invariant surf 38.9 25 0.00055 27.1 2.1 19 5-23 388-406 (436)
239 PF13994 PgaD: PgaD-like prote 38.7 93 0.002 20.0 4.5 10 51-60 111-120 (138)
240 PF13453 zf-TFIIB: Transcripti 38.3 13 0.00028 18.5 0.3 14 111-124 1-14 (41)
241 PF06676 DUF1178: Protein of u 37.7 11 0.00025 24.7 0.1 21 93-118 10-41 (148)
242 TIGR01562 FdhE formate dehydro 37.7 6.6 0.00014 29.0 -1.1 47 71-118 184-233 (305)
243 KOG1818 Membrane trafficking a 37.5 17 0.00038 29.6 1.1 50 67-116 161-218 (634)
244 PF10577 UPF0560: Uncharacteri 37.4 98 0.0021 26.2 5.2 6 53-58 327-332 (807)
245 PRK10220 hypothetical protein; 37.3 23 0.00051 22.0 1.4 26 72-97 4-30 (111)
246 PHA02902 putative IMV membrane 37.2 78 0.0017 17.7 5.3 6 52-57 54-59 (70)
247 PF10146 zf-C4H2: Zinc finger- 36.9 26 0.00056 24.9 1.8 21 98-118 197-217 (230)
248 PF08209 Sgf11: Sgf11 (transcr 36.1 12 0.00025 18.0 -0.0 13 111-123 6-18 (33)
249 PF14205 Cys_rich_KTR: Cystein 35.4 24 0.00052 19.1 1.1 9 110-118 29-37 (55)
250 PF03839 Sec62: Translocation 35.0 1E+02 0.0022 21.8 4.4 24 8-31 148-171 (224)
251 smart00531 TFIIE Transcription 34.6 36 0.00078 22.1 2.1 41 69-123 97-137 (147)
252 PF11682 DUF3279: Protein of u 34.6 21 0.00046 22.9 1.0 19 93-120 103-121 (128)
253 PF15018 InaF-motif: TRP-inter 34.6 65 0.0014 16.0 2.5 14 15-28 19-32 (38)
254 COG3115 ZipA Cell division pro 34.5 87 0.0019 23.3 4.1 25 9-33 6-30 (324)
255 KOG4451 Uncharacterized conser 34.0 28 0.00062 24.7 1.6 21 99-119 253-273 (286)
256 PF05915 DUF872: Eukaryotic pr 33.7 1E+02 0.0022 19.3 3.9 19 5-23 44-62 (115)
257 PF11014 DUF2852: Protein of u 33.7 1.1E+02 0.0024 19.3 4.0 22 5-26 14-35 (115)
258 TIGR02605 CxxC_CxxC_SSSS putat 33.3 7.1 0.00015 20.4 -1.2 24 93-117 11-34 (52)
259 KOG1512 PHD Zn-finger protein 33.0 17 0.00036 26.8 0.3 32 72-104 315-346 (381)
260 PF10883 DUF2681: Protein of u 32.7 97 0.0021 18.5 3.5 13 13-25 10-22 (87)
261 PRK14584 hmsS hemin storage sy 32.5 1.5E+02 0.0033 19.7 5.0 10 51-60 109-118 (153)
262 PHA02849 putative transmembran 32.1 1.1E+02 0.0024 17.9 4.3 19 7-25 20-38 (82)
263 PF04906 Tweety: Tweety; Inte 31.9 1.6E+02 0.0035 22.7 5.5 17 9-25 25-41 (406)
264 COG4847 Uncharacterized protei 31.9 48 0.001 20.1 2.1 34 72-107 7-40 (103)
265 COG5627 MMS21 DNA repair prote 31.6 30 0.00064 24.8 1.3 40 71-113 189-230 (275)
266 PF12773 DZR: Double zinc ribb 31.3 44 0.00096 17.0 1.8 13 110-122 30-42 (50)
267 PF05810 NinF: NinF protein; 31.2 46 0.00099 18.1 1.7 11 97-107 34-44 (58)
268 PF12907 zf-met2: Zinc-binding 31.0 12 0.00026 18.9 -0.5 11 110-120 2-12 (40)
269 PF09356 Phage_BR0599: Phage c 30.8 43 0.00093 19.5 1.8 24 81-105 41-64 (80)
270 PHA02657 hypothetical protein; 30.7 1.2E+02 0.0027 18.0 3.8 18 8-25 31-48 (95)
271 KOG4443 Putative transcription 30.1 29 0.00063 28.4 1.2 47 72-119 19-72 (694)
272 PF05795 Plasmodium_Vir: Plasm 29.8 59 0.0013 23.8 2.8 15 10-24 289-303 (354)
273 PF06044 DRP: Dam-replacing fa 29.6 13 0.00028 26.6 -0.6 16 103-118 25-40 (254)
274 PLN02195 cellulose synthase A 29.5 54 0.0012 28.4 2.7 52 69-120 4-59 (977)
275 PF00096 zf-C2H2: Zinc finger, 29.4 18 0.0004 15.0 0.0 11 111-121 2-12 (23)
276 smart00109 C1 Protein kinase C 28.9 63 0.0014 15.9 2.1 33 71-104 11-44 (49)
277 COG3809 Uncharacterized protei 28.9 23 0.0005 20.7 0.4 11 73-83 3-13 (88)
278 PRK04778 septation ring format 28.9 81 0.0018 25.4 3.6 8 3-10 3-10 (569)
279 PF00130 C1_1: Phorbol esters/ 28.2 27 0.00058 18.1 0.6 34 70-104 10-45 (53)
280 CHL00008 petG cytochrome b6/f 28.1 85 0.0019 15.4 3.9 8 24-31 24-31 (37)
281 PF13894 zf-C2H2_4: C2H2-type 28.0 24 0.00051 14.4 0.3 10 111-120 2-11 (24)
282 PRK00665 petG cytochrome b6-f 27.8 87 0.0019 15.4 3.9 8 24-31 24-31 (37)
283 PF12088 DUF3565: Protein of u 27.4 31 0.00068 19.0 0.7 15 83-98 8-22 (61)
284 KOG3653 Transforming growth fa 27.4 1.7E+02 0.0036 23.5 4.8 13 97-109 289-302 (534)
285 COG4306 Uncharacterized protei 27.1 34 0.00073 22.0 0.9 25 96-123 29-53 (160)
286 PF15145 DUF4577: Domain of un 27.1 1E+02 0.0022 19.4 2.9 7 52-58 104-110 (128)
287 TIGR02523 type_IV_pilV type IV 27.0 1.8E+02 0.0039 18.8 4.5 24 2-25 6-29 (139)
288 KOG1701 Focal adhesion adaptor 26.8 11 0.00023 29.2 -1.6 13 111-123 362-374 (468)
289 PF14851 FAM176: FAM176 family 26.7 1.9E+02 0.0041 19.2 4.4 15 11-25 29-43 (153)
290 PF15446 zf-PHD-like: PHD/FYVE 26.7 31 0.00068 23.3 0.8 30 74-104 2-34 (175)
291 PF05191 ADK_lid: Adenylate ki 26.2 26 0.00055 17.1 0.2 27 92-120 6-32 (36)
292 PTZ00303 phosphatidylinositol 26.1 43 0.00093 28.5 1.6 32 72-106 461-500 (1374)
293 PRK13665 hypothetical protein; 26.1 1.9E+02 0.0041 21.3 4.6 7 25-31 27-33 (316)
294 KOG3352 Cytochrome c oxidase, 26.0 39 0.00085 22.3 1.1 6 74-80 114-119 (153)
295 PF02148 zf-UBP: Zn-finger in 25.7 35 0.00076 18.6 0.8 24 74-100 1-24 (63)
296 cd00029 C1 Protein kinase C co 25.6 34 0.00075 17.2 0.7 33 71-104 11-45 (50)
297 PRK00398 rpoP DNA-directed RNA 25.2 43 0.00092 17.0 1.0 12 110-121 22-33 (46)
298 PF02529 PetG: Cytochrome B6-F 25.2 1E+02 0.0022 15.2 4.4 25 7-31 7-31 (37)
299 PF13248 zf-ribbon_3: zinc-rib 25.2 44 0.00096 14.7 0.9 8 110-117 17-24 (26)
300 PF15106 TMEM156: TMEM156 prot 25.1 1.6E+02 0.0035 20.8 3.9 19 7-25 179-197 (226)
301 PRK10525 cytochrome o ubiquino 25.1 44 0.00096 24.9 1.4 10 99-108 228-237 (315)
302 PF10013 DUF2256: Uncharacteri 24.8 37 0.00081 17.3 0.7 12 109-120 8-19 (42)
303 PRK11827 hypothetical protein; 24.8 28 0.00061 19.2 0.3 19 104-122 3-21 (60)
304 PF06679 DUF1180: Protein of u 24.7 2E+02 0.0043 19.4 4.3 26 8-33 99-124 (163)
305 PF03107 C1_2: C1 domain; Int 24.7 28 0.00061 16.0 0.2 28 73-101 2-29 (30)
306 PF12768 Rax2: Cortical protei 24.7 41 0.00089 24.6 1.1 22 10-31 234-255 (281)
307 KOG2907 RNA polymerase I trans 24.5 32 0.00069 21.6 0.5 31 91-121 78-114 (116)
308 COG2093 DNA-directed RNA polym 24.3 16 0.00034 20.4 -0.8 15 110-124 19-34 (64)
309 KOG3726 Uncharacterized conser 24.3 50 0.0011 27.3 1.6 43 71-117 654-697 (717)
310 PF13706 PepSY_TM_3: PepSY-ass 24.3 1E+02 0.0022 14.9 3.4 15 5-19 13-27 (37)
311 PLN02400 cellulose synthase 24.2 44 0.00095 29.2 1.4 51 70-120 35-89 (1085)
312 PRK02935 hypothetical protein; 24.1 1.9E+02 0.0041 18.0 5.9 15 108-122 85-99 (110)
313 KOG3637 Vitronectin receptor, 24.1 73 0.0016 27.9 2.6 22 3-24 979-1000(1030)
314 PF12660 zf-TFIIIC: Putative z 24.1 11 0.00024 23.0 -1.7 50 72-122 15-68 (99)
315 COG2835 Uncharacterized conser 23.9 32 0.0007 19.0 0.4 10 111-120 10-19 (60)
316 PF06365 CD34_antigen: CD34/Po 23.8 55 0.0012 22.8 1.6 18 16-33 112-129 (202)
317 COG3671 Predicted membrane pro 23.7 2.1E+02 0.0045 18.3 4.5 19 4-22 76-94 (125)
318 PF12172 DUF35_N: Rubredoxin-l 23.4 31 0.00068 16.6 0.2 17 93-117 17-33 (37)
319 PF11337 DUF3139: Protein of u 23.3 36 0.00077 19.9 0.5 13 49-61 46-58 (85)
320 COG4967 PilV Tfp pilus assembl 23.2 2.4E+02 0.0052 18.9 4.5 22 2-23 14-35 (162)
321 PF03967 PRCH: Photosynthetic 22.8 1.3E+02 0.0028 19.6 3.0 17 16-32 17-33 (136)
322 PRK06432 NADH dehydrogenase su 22.8 1.8E+02 0.004 19.1 3.7 23 53-75 48-70 (144)
323 KOG3799 Rab3 effector RIM1 and 22.8 29 0.00062 22.6 0.0 44 68-119 62-117 (169)
324 TIGR00985 3a0801s04tom mitocho 22.8 1.7E+02 0.0037 19.3 3.7 24 12-35 11-34 (148)
325 PTZ00045 apical membrane antig 22.7 1.4E+02 0.003 24.4 3.7 10 21-30 531-540 (595)
326 PRK11595 DNA utilization prote 22.6 69 0.0015 22.4 1.9 39 72-119 6-44 (227)
327 PF01485 IBR: IBR domain; Int 22.5 5.5 0.00012 21.4 -3.0 33 72-105 19-58 (64)
328 KOG4323 Polycomb-like PHD Zn-f 22.3 27 0.00059 27.4 -0.2 54 71-124 168-230 (464)
329 PHA02669 hypothetical protein; 22.3 70 0.0015 21.5 1.8 8 6-13 6-13 (210)
330 PF03850 Tfb4: Transcription f 22.1 53 0.0012 23.9 1.3 14 70-83 252-265 (276)
331 PF15298 AJAP1_PANP_C: AJAP1/P 22.0 1E+02 0.0023 21.4 2.6 18 8-25 107-124 (205)
332 PF10235 Cript: Microtubule-as 21.9 58 0.0013 19.6 1.2 38 71-121 44-81 (90)
333 PF08882 Acetone_carb_G: Aceto 21.8 33 0.00072 21.4 0.2 14 111-124 76-89 (112)
334 PHA03171 UL37 tegument protein 21.8 1.4E+02 0.003 23.3 3.4 27 5-31 446-472 (499)
335 PF15179 Myc_target_1: Myc tar 21.8 2.8E+02 0.0061 19.1 5.4 24 11-34 28-51 (197)
336 PF02132 RecR: RecR protein; 21.8 25 0.00053 17.6 -0.3 12 69-80 27-38 (41)
337 COG2824 PhnA Uncharacterized Z 21.5 27 0.00059 21.7 -0.2 28 72-106 4-31 (112)
338 KOG4430 Topoisomerase I-bindin 21.5 34 0.00074 27.5 0.2 53 70-122 259-311 (553)
339 PF02009 Rifin_STEVOR: Rifin/s 20.8 1.3E+02 0.0028 22.3 3.1 20 13-32 263-282 (299)
340 PF06170 DUF983: Protein of un 20.8 42 0.0009 19.9 0.4 19 105-123 4-22 (86)
341 TIGR02183 GRXA Glutaredoxin, G 20.7 34 0.00073 19.8 0.1 10 109-118 7-16 (86)
342 PRK04023 DNA polymerase II lar 20.6 77 0.0017 27.7 2.0 49 69-123 624-677 (1121)
343 PHA03013 hypothetical protein; 20.6 1.1E+02 0.0023 18.4 2.1 23 2-24 2-24 (109)
344 TIGR00869 sec62 protein transl 20.5 2.8E+02 0.0061 19.8 4.5 18 13-30 161-178 (232)
345 cd00729 rubredoxin_SM Rubredox 20.4 83 0.0018 15.0 1.4 8 110-117 19-26 (34)
346 PRK14758 hypothetical protein; 20.3 1.1E+02 0.0024 13.8 2.7 12 6-17 10-21 (27)
347 PRK13130 H/ACA RNA-protein com 20.3 93 0.002 16.9 1.7 15 109-123 17-31 (56)
348 KOG2041 WD40 repeat protein [G 20.2 46 0.00099 28.0 0.7 26 92-121 1161-1186(1189)
349 KOG1140 N-end rule pathway, re 20.1 78 0.0017 29.2 2.1 15 93-107 1151-1165(1738)
350 TIGR01367 pyrE_Therm orotate p 20.1 49 0.0011 22.5 0.7 15 109-123 169-183 (187)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=2.8e-23 Score=150.20 Aligned_cols=77 Identities=31% Similarity=0.694 Sum_probs=64.1
Q ss_pred cCCCCCHHHHhhCCCcccCCCCCc---ccccccccccccCCCccccCCCCccccHHHHHHHHhCC-Cccccccccccccc
Q 037529 48 AEGGLSASELDKLPKISGKELVMG---TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKH-SVCPVCRAKLDSHF 123 (133)
Q Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~---~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~-~~CP~Cr~~v~~~~ 123 (133)
...++.++.++++|...+....+. ++|+||||+|++||+++.|| |+|.||..||++||.+. ..||+||+++....
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 445677888889888876665444 39999999999999999999 99999999999999876 56999999875544
Q ss_pred cc
Q 037529 124 FN 125 (133)
Q Consensus 124 ~~ 125 (133)
..
T Consensus 282 ~~ 283 (348)
T KOG4628|consen 282 GS 283 (348)
T ss_pred CC
Confidence 33
No 2
>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=99.80 E-value=1.9e-20 Score=98.86 Aligned_cols=44 Identities=43% Similarity=1.120 Sum_probs=40.5
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCR 116 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr 116 (133)
++|+||++++.+++.+..++ |||.||.+|+.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 47999999999999999999 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.65 E-value=1.4e-16 Score=111.00 Aligned_cols=72 Identities=29% Similarity=0.689 Sum_probs=54.9
Q ss_pred CCCCHHHHhhCCCcccC-----CCCCcccccccccccccCCC----ccccCCCCccccHHHHHHHHhCCCcccccccccc
Q 037529 50 GGLSASELDKLPKISGK-----ELVMGTECAVCLDEVESEQP----ARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 50 ~~~~~~~~~~~~~~~~~-----~~~~~~~C~ICl~~~~~~~~----~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
++.++..++++|....+ +.+.+.+|+||++.+.++.. +.+++.|||.||.+||.+|++.+.+||+||..+.
T Consensus 148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 45577778888876432 22456899999999876431 2344449999999999999999999999999876
Q ss_pred c
Q 037529 121 S 121 (133)
Q Consensus 121 ~ 121 (133)
.
T Consensus 228 ~ 228 (238)
T PHA02929 228 S 228 (238)
T ss_pred E
Confidence 4
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.63 E-value=5.9e-17 Score=114.36 Aligned_cols=52 Identities=38% Similarity=0.993 Sum_probs=47.8
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHh-CCCccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS-KHSVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~v~~ 121 (133)
..+.+|+|||++|..+|.+++|| |.|.||..|+++|+. .+..||+||+.+++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 44689999999999999999999 999999999999988 67899999998865
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.63 E-value=2.1e-16 Score=91.89 Aligned_cols=46 Identities=37% Similarity=1.015 Sum_probs=36.1
Q ss_pred CcccccccccccccC----------CCccccCCCCccccHHHHHHHHhCCCcccccc
Q 037529 70 MGTECAVCLDEVESE----------QPARLVPGCNHGFHLQCADSWLSKHSVCPVCR 116 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~----------~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr 116 (133)
.++.|+||++++.+. -.+...+ |||.||..||.+|++.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 345699999999332 2334455 999999999999999999999998
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=3.5e-15 Score=108.09 Aligned_cols=62 Identities=29% Similarity=0.849 Sum_probs=47.8
Q ss_pred HhhCCCcccCCC-CCccccccccccc-ccC---------CCccccCCCCccccHHHHHHHHhCCCccccccccc
Q 037529 57 LDKLPKISGKEL-VMGTECAVCLDEV-ESE---------QPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 57 ~~~~~~~~~~~~-~~~~~C~ICl~~~-~~~---------~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
-+-++....+.. .++..|.||++++ ..+ .+...|| |||++|-+|+..|++++++||+||+++
T Consensus 272 ~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 272 NAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred HhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 334444444333 5678999999994 433 2446788 999999999999999999999999984
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.52 E-value=2.2e-14 Score=100.87 Aligned_cols=50 Identities=30% Similarity=0.804 Sum_probs=43.9
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHFF 124 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~~ 124 (133)
...|.+|||..++ ...+| |||+||.+||..|...+..||+||+.+.++..
T Consensus 239 ~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 239 TRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 4789999998766 55778 99999999999999999999999998877654
No 8
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.49 E-value=2.2e-14 Score=77.49 Aligned_cols=47 Identities=34% Similarity=0.929 Sum_probs=40.0
Q ss_pred cccccccccccccCCCccccCCCCcc-ccHHHHHHHHhCCCccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHG-FHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
+..|.||++...+ ...+| |||. |+.+|+..|+..+..||+||+++..
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 4689999998654 77888 9999 9999999999999999999998864
No 9
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.43 E-value=8e-14 Score=71.45 Aligned_cols=39 Identities=44% Similarity=1.186 Sum_probs=32.8
Q ss_pred ccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVC 115 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~C 115 (133)
|+||++.+.+ .+..++ |||.|+.+|+.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999776 345677 99999999999999999999998
No 10
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=3.3e-14 Score=99.10 Aligned_cols=63 Identities=29% Similarity=0.670 Sum_probs=54.1
Q ss_pred CCcccccccccccccCC-------CccccCCCCccccHHHHHHH--HhCCCccccccccccccccccCCCCCC
Q 037529 69 VMGTECAVCLDEVESEQ-------PARLVPGCNHGFHLQCADSW--LSKHSVCPVCRAKLDSHFFNALESDNP 132 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~-------~~~~lp~C~H~fh~~Ci~~w--l~~~~~CP~Cr~~v~~~~~~~~~~~~p 132 (133)
.++..|+||-..+..+. ++..|. |+|+||+.||..| +.++++||.|+..++.+.....+++.|
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnpWekp 293 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNPWEKP 293 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCccccc
Confidence 45688999999887665 778898 9999999999999 457889999999999988888777766
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.43 E-value=1.1e-13 Score=93.08 Aligned_cols=52 Identities=27% Similarity=0.703 Sum_probs=41.4
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhC----------------CCcccccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK----------------HSVCPVCRAKLDSHFF 124 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~----------------~~~CP~Cr~~v~~~~~ 124 (133)
.++.+|+||++.+++ ..+++ |||.||..||.+|+.. ...||+||+.+.....
T Consensus 16 ~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 16 GGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred CCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 346889999999865 34577 9999999999999852 2479999998876443
No 12
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.40 E-value=1.9e-13 Score=71.65 Aligned_cols=44 Identities=43% Similarity=1.174 Sum_probs=36.9
Q ss_pred cccccccccccCCCccccCCCCccccHHHHHHHHhC-CCccccccccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK-HSVCPVCRAKL 119 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v 119 (133)
+|+||++.+ .+.....+ |||.||.+|+..|+.. +..||.||+.+
T Consensus 1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998 34455666 9999999999999997 67899999754
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=4.7e-13 Score=88.24 Aligned_cols=53 Identities=34% Similarity=0.765 Sum_probs=44.4
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHFFN 125 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~~~ 125 (133)
...|+|||+.+.....+ -+. |||+||..||...++....||+||+.|+...+.
T Consensus 131 ~~~CPiCl~~~sek~~v-sTk-CGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPV-STK-CGHVFCSQCIKDALKNTNKCPTCRKKITHKQFH 183 (187)
T ss_pred ccCCCceecchhhcccc-ccc-cchhHHHHHHHHHHHhCCCCCCcccccchhhhe
Confidence 46799999998865433 344 999999999999999999999999998876554
No 14
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.35 E-value=6e-13 Score=69.93 Aligned_cols=44 Identities=32% Similarity=0.830 Sum_probs=38.6
Q ss_pred cccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
.|+||+++|.+.....+++ |||+|+.+|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4999999996666788888 9999999999999866779999985
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.33 E-value=1.1e-12 Score=89.58 Aligned_cols=53 Identities=30% Similarity=0.782 Sum_probs=40.4
Q ss_pred CCcccccccccccccC-----CCccccCCCCccccHHHHHHHHhCC------Cccccccccccc
Q 037529 69 VMGTECAVCLDEVESE-----QPARLVPGCNHGFHLQCADSWLSKH------SVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~-----~~~~~lp~C~H~fh~~Ci~~wl~~~------~~CP~Cr~~v~~ 121 (133)
+.+.+|+||+|..-++ ....+|++|+|.||..||..|...+ .+||+||..+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 4568999999986432 1234566699999999999998753 359999997653
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=1.4e-12 Score=101.32 Aligned_cols=49 Identities=37% Similarity=0.945 Sum_probs=44.2
Q ss_pred CcccccccccccccCCC--ccccCCCCccccHHHHHHHHhCCCccccccccc
Q 037529 70 MGTECAVCLDEVESEQP--ARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~--~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
.+..|+||+|++..+++ ...+| |||+||..|+..|++++++||+||..+
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhh
Confidence 46889999999998765 67888 999999999999999999999999944
No 17
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.28 E-value=3.1e-12 Score=87.73 Aligned_cols=53 Identities=28% Similarity=0.613 Sum_probs=41.9
Q ss_pred CCCcccccccccccccCCCccccCCCCccccHHHHHHHHhC---CCcccccccccccccc
Q 037529 68 LVMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK---HSVCPVCRAKLDSHFF 124 (133)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~~~~~ 124 (133)
.....+|.|||+.-++ .+++. |||.||.-||-+||.. ++.||+||..|+....
T Consensus 44 ~~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 4556899999998554 34555 9999999999999985 4479999998876543
No 18
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.27 E-value=3.2e-12 Score=75.15 Aligned_cols=51 Identities=27% Similarity=0.736 Sum_probs=38.2
Q ss_pred Cccccccccccccc--------CCC-ccccCCCCccccHHHHHHHHhC---CCcccccccccc
Q 037529 70 MGTECAVCLDEVES--------EQP-ARLVPGCNHGFHLQCADSWLSK---HSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~~~--------~~~-~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~ 120 (133)
+++.|.||...|.. ++. ..++..|+|.||..||.+|+.+ +..||+||+...
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 47889999988862 222 1123349999999999999986 468999998653
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.26 E-value=3.5e-12 Score=65.97 Aligned_cols=39 Identities=38% Similarity=1.071 Sum_probs=33.3
Q ss_pred ccccccccccCCCccccCCCCccccHHHHHHHHh--CCCccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS--KHSVCPVC 115 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~--~~~~CP~C 115 (133)
|+||++.+.++. ..++ |||.||.+|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987644 4677 999999999999999 45689988
No 20
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.24 E-value=4.9e-12 Score=65.64 Aligned_cols=38 Identities=32% Similarity=0.861 Sum_probs=29.2
Q ss_pred ccccccccccCCCccccCCCCccccHHHHHHHHhCC----Cccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKH----SVCPVC 115 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~----~~CP~C 115 (133)
|+||++.|++ ...++ |||.|+.+||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999987 55677 99999999999999764 369987
No 21
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=1.6e-11 Score=92.01 Aligned_cols=50 Identities=34% Similarity=0.893 Sum_probs=39.2
Q ss_pred ccccccccccccc---CC-----------CccccCCCCccccHHHHHHHHh-CCCccccccccccc
Q 037529 71 GTECAVCLDEVES---EQ-----------PARLVPGCNHGFHLQCADSWLS-KHSVCPVCRAKLDS 121 (133)
Q Consensus 71 ~~~C~ICl~~~~~---~~-----------~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~v~~ 121 (133)
..+|+||+.++.- +. ....+| |.|+||..|+.+|+. .+-.||.||+.+.+
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4679999988631 11 123567 999999999999999 56699999998764
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.18 E-value=2e-11 Score=61.71 Aligned_cols=38 Identities=37% Similarity=1.123 Sum_probs=32.2
Q ss_pred ccccccccccCCCccccCCCCccccHHHHHHHHh-CCCccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS-KHSVCPVC 115 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~C 115 (133)
|+||++. ......++ |||.||.+|++.|+. .+..||+|
T Consensus 1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899998 34477788 999999999999998 56679987
No 23
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.14 E-value=4.4e-11 Score=67.42 Aligned_cols=47 Identities=19% Similarity=0.483 Sum_probs=40.8
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
..|+||.+.++++ ..++ |||+|+.+||.+|+..+..||+|++.++..
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 4699999998873 4667 999999999999999988999999988543
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.06 E-value=1.5e-10 Score=86.27 Aligned_cols=52 Identities=31% Similarity=0.643 Sum_probs=43.8
Q ss_pred CCCCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 67 ELVMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 67 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
.......|+||++.|... .+++ |||.||..||..|+.....||+||..+...
T Consensus 22 ~Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred ccccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 445568999999998763 3677 999999999999999888999999987643
No 25
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.06 E-value=1.2e-10 Score=66.92 Aligned_cols=32 Identities=38% Similarity=0.739 Sum_probs=28.3
Q ss_pred CCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 92 GCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 92 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
.|+|.||..||..||.++..||++|++.....
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 39999999999999999999999999765443
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.00 E-value=2.8e-10 Score=59.12 Aligned_cols=38 Identities=32% Similarity=0.849 Sum_probs=22.4
Q ss_pred ccccccccccCC-CccccCCCCccccHHHHHHHHhCC----Cccc
Q 037529 74 CAVCLDEVESEQ-PARLVPGCNHGFHLQCADSWLSKH----SVCP 113 (133)
Q Consensus 74 C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~~~----~~CP 113 (133)
|+||.| |.+++ ...+|+ |||+|+.+|+++++.++ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 86655 446798 99999999999999843 2576
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=3.5e-10 Score=79.00 Aligned_cols=50 Identities=38% Similarity=0.792 Sum_probs=41.1
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHH-HHhCCCc-cccccccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADS-WLSKHSV-CPVCRAKLDSHF 123 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~-wl~~~~~-CP~Cr~~v~~~~ 123 (133)
.+..|+||++.... ...++ |||+||..||.. |=.++.. ||+||+.+.++.
T Consensus 214 ~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 214 ADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 36789999998665 55777 999999999999 8666665 999999876654
No 28
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.94 E-value=2.5e-10 Score=68.79 Aligned_cols=51 Identities=31% Similarity=0.738 Sum_probs=38.2
Q ss_pred Cccccccccccc-------------ccCCCccccCCCCccccHHHHHHHHhCCCcccccccccc
Q 037529 70 MGTECAVCLDEV-------------ESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~-------------~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
..+.|+||...+ ..++-......|+|.||..||..||+++..||+|.+.-.
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 357799987554 122333344459999999999999999999999988643
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=7.4e-10 Score=83.62 Aligned_cols=48 Identities=23% Similarity=0.624 Sum_probs=38.8
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCC-----Ccccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKH-----SVCPVCRAKLDSH 122 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~-----~~CP~Cr~~v~~~ 122 (133)
+..|||||++... ...+. |||+||..||-++|... ..||+||..|...
T Consensus 186 ~~~CPICL~~~~~---p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCc---ccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 6889999998554 33444 99999999999998754 3799999998773
No 30
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.88 E-value=1.2e-09 Score=58.39 Aligned_cols=42 Identities=29% Similarity=0.888 Sum_probs=33.0
Q ss_pred cccccccccccCCCccccCCCC-----ccccHHHHHHHHhCC--Ccccccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCN-----HGFHLQCADSWLSKH--SVCPVCR 116 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~-----H~fh~~Ci~~wl~~~--~~CP~Cr 116 (133)
.|-||++. .+++...+.| |. |.+|.+|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48899993 3444555788 86 999999999999754 4899995
No 31
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.78 E-value=5.6e-09 Score=75.25 Aligned_cols=54 Identities=20% Similarity=0.484 Sum_probs=39.9
Q ss_pred Ccccccccccc-cccCC-CccccCCCCccccHHHHHHHHhC-CCcccccccccccccc
Q 037529 70 MGTECAVCLDE-VESEQ-PARLVPGCNHGFHLQCADSWLSK-HSVCPVCRAKLDSHFF 124 (133)
Q Consensus 70 ~~~~C~ICl~~-~~~~~-~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~~~~~ 124 (133)
++..||+|..+ |..++ .+.+.+ |||.||.+|++..+.. ...||.|+..+....+
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~f 58 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNF 58 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhc
Confidence 35689999986 33333 344446 9999999999996654 5689999998866543
No 32
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=2.8e-09 Score=60.84 Aligned_cols=51 Identities=25% Similarity=0.679 Sum_probs=36.4
Q ss_pred Cccccccccccccc--------CCC-ccccCCCCccccHHHHHHHHhC---CCcccccccccc
Q 037529 70 MGTECAVCLDEVES--------EQP-ARLVPGCNHGFHLQCADSWLSK---HSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~~~--------~~~-~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~ 120 (133)
.++.|-||.-.|.. +|. ..++..|.|.||..||.+|+.. +..||+||++..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 34578888877742 221 1233349999999999999985 347999998754
No 33
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.76 E-value=2.4e-09 Score=77.39 Aligned_cols=50 Identities=24% Similarity=0.643 Sum_probs=43.7
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHFF 124 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~~ 124 (133)
-..|-||.|-|.. ..++| |+|.||.-||..+|..+..||.|+.++.+...
T Consensus 23 lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 23 LLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence 4579999999987 45777 99999999999999999999999988876543
No 34
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=7.4e-09 Score=75.30 Aligned_cols=51 Identities=31% Similarity=0.765 Sum_probs=43.5
Q ss_pred CCcccccccccccccCCCccccCCCCcc-ccHHHHHHHHhCCCccccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHG-FHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
.++.+|.|||.+-++ ..+|| |.|. .|.+|.+..--+...||+||+.+....
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll 339 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELL 339 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhh
Confidence 446899999999665 78999 9997 999999998777889999999886643
No 35
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.70 E-value=6.1e-09 Score=77.59 Aligned_cols=49 Identities=37% Similarity=0.780 Sum_probs=39.7
Q ss_pred CCcccccccccccccCC-CccccCCCCccccHHHHHHHHhCCCcccccccccc
Q 037529 69 VMGTECAVCLDEVESEQ-PARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
.+..+||+|||.+.+.- .++... |.|.||..|+..| ...+||+||.-..
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 44588999999998654 445555 9999999999999 6789999997544
No 36
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.70 E-value=1.6e-08 Score=58.73 Aligned_cols=51 Identities=16% Similarity=0.354 Sum_probs=39.2
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHhC-CCcccccccccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK-HSVCPVCRAKLDSHFF 124 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~~~~~ 124 (133)
+...|+|+.+-+.+ ..++| +||+|.+++|..|+.+ +..||++++.+.....
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence 35689999999987 55778 9999999999999999 7899999998876543
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.61 E-value=4.4e-09 Score=60.50 Aligned_cols=52 Identities=25% Similarity=0.703 Sum_probs=24.7
Q ss_pred cccccccccccccCCCc--ccc--CCCCccccHHHHHHHHhC---C--------Ccccccccccccc
Q 037529 71 GTECAVCLDEVESEQPA--RLV--PGCNHGFHLQCADSWLSK---H--------SVCPVCRAKLDSH 122 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~--~~l--p~C~H~fh~~Ci~~wl~~---~--------~~CP~Cr~~v~~~ 122 (133)
+.+|.||++...+++.+ .+- +.|++.||..|+.+|+.. . ..||.|+++|.-.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 36799999987633322 121 248999999999999862 1 1599999988643
No 38
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=2.2e-08 Score=73.49 Aligned_cols=51 Identities=27% Similarity=0.748 Sum_probs=36.6
Q ss_pred ccccccccccccC-CCccccCCCCccccHHHHHHHHhCC---Cccccccccccccc
Q 037529 72 TECAVCLDEVESE-QPARLVPGCNHGFHLQCADSWLSKH---SVCPVCRAKLDSHF 123 (133)
Q Consensus 72 ~~C~ICl~~~~~~-~~~~~lp~C~H~fh~~Ci~~wl~~~---~~CP~Cr~~v~~~~ 123 (133)
..|.|| +++.+. ..+.-...|||+||..|+.+|+... ..||+||-.+....
T Consensus 5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~ 59 (465)
T KOG0827|consen 5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERH 59 (465)
T ss_pred ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccccee
Confidence 579999 555433 3444443499999999999999863 47999995554433
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.59 E-value=2e-08 Score=72.13 Aligned_cols=44 Identities=32% Similarity=0.739 Sum_probs=39.2
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCR 116 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr 116 (133)
.+...|+||++.|.++ .++| |||.||..|+..++.....||.||
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 4567899999999987 7888 999999999999988556899999
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.56 E-value=3.3e-08 Score=70.23 Aligned_cols=49 Identities=24% Similarity=0.531 Sum_probs=41.1
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
.-..|-||-+.+.. ...++ |||.||.-||...|.++..||+||.+..+.
T Consensus 24 s~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 24 SMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred hHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 34679999999876 33566 999999999999999999999999865443
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=2.7e-08 Score=53.21 Aligned_cols=46 Identities=26% Similarity=0.699 Sum_probs=34.6
Q ss_pred ccccccccccccCCCccccCCCCcc-ccHHHHHHHHh-CCCccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHG-FHLQCADSWLS-KHSVCPVCRAKLDS 121 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~-~~~~CP~Cr~~v~~ 121 (133)
++|.||+|.-.+ .+..+ |||. .+.+|-...++ .+..||+||+++..
T Consensus 8 dECTICye~pvd--sVlYt--CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 8 DECTICYEHPVD--SVLYT--CGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred cceeeeccCcch--HHHHH--cchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 889999998443 23232 9996 99999666555 78899999997743
No 42
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.48 E-value=4.9e-08 Score=78.67 Aligned_cols=53 Identities=26% Similarity=0.767 Sum_probs=38.7
Q ss_pred CCcccccccccccc-cCCCc--cccCCCCccccHHHHHHHHhC--CCccccccccccc
Q 037529 69 VMGTECAVCLDEVE-SEQPA--RLVPGCNHGFHLQCADSWLSK--HSVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~-~~~~~--~~lp~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~v~~ 121 (133)
+...+||||..-.. .+... ..-+.|.|-||..|+.+|++. +++||+||..++.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 55689999998765 22111 111238899999999999986 4689999987753
No 43
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=1.1e-07 Score=70.27 Aligned_cols=51 Identities=35% Similarity=0.813 Sum_probs=38.9
Q ss_pred Cccccccccccccc-CCCccccCCCCccccHHHHHHHHhC--CCcccccccccc
Q 037529 70 MGTECAVCLDEVES-EQPARLVPGCNHGFHLQCADSWLSK--HSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~~~-~~~~~~lp~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~v~ 120 (133)
.+.+|+|||+++.. +++-.+.+.|||.|-.+||+.|+.+ ...||.|...-+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 46789999999974 4433333349999999999999974 347999986543
No 44
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.42 E-value=1.1e-07 Score=67.83 Aligned_cols=53 Identities=25% Similarity=0.481 Sum_probs=43.3
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCC-CccccccccccccccccC
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKH-SVCPVCRAKLDSHFFNAL 127 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~-~~CP~Cr~~v~~~~~~~~ 127 (133)
..+|+||+.....+ ..|+ |+|.||..||..-..++ .+|++||.++++.....+
T Consensus 7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~p 60 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEP 60 (324)
T ss_pred CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchhcch
Confidence 57899999986553 5677 99999999999977665 569999999988776554
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.40 E-value=3.9e-08 Score=54.69 Aligned_cols=47 Identities=28% Similarity=0.646 Sum_probs=23.4
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
-.|++|.+-++++. .+.+|+|+|+..||..-+. ..||+|+.+...+.
T Consensus 8 LrCs~C~~~l~~pv---~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKEPV---CLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS-B------SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcCCc---eeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 46999999987632 3335999999999988544 45999998764443
No 46
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=7.2e-08 Score=70.09 Aligned_cols=53 Identities=28% Similarity=0.551 Sum_probs=42.7
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhC-CCcccccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK-HSVCPVCRAKLDSHFF 124 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~~~~~ 124 (133)
..+..|+|||+-++. .+.++.|.|-||.+||..-++. +..||.||+.+.+...
T Consensus 41 ~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs 94 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS 94 (381)
T ss_pred hhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence 346889999999876 3344469999999999998875 6799999998876543
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=3.3e-07 Score=67.39 Aligned_cols=51 Identities=29% Similarity=0.885 Sum_probs=39.4
Q ss_pred CCcccccccccccccCC----CccccCCCCccccHHHHHHHH--hC-----CCccccccccc
Q 037529 69 VMGTECAVCLDEVESEQ----PARLVPGCNHGFHLQCADSWL--SK-----HSVCPVCRAKL 119 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~----~~~~lp~C~H~fh~~Ci~~wl--~~-----~~~CP~Cr~~v 119 (133)
..+.+|.||++...+.. ...++|+|.|.||.+||..|- .+ .+.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 44689999999876543 133567899999999999996 33 46899999754
No 48
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.27 E-value=2.6e-07 Score=65.95 Aligned_cols=50 Identities=30% Similarity=0.802 Sum_probs=42.0
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHh-----------------------CCCccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS-----------------------KHSVCPVCRAKLDS 121 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-----------------------~~~~CP~Cr~~v~~ 121 (133)
...|.|||-.|.+++.+.+++ |.|.||..|+..+|. .+..||+||..+..
T Consensus 115 ~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 367999999999999999998 999999999988862 12369999997744
No 49
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.25 E-value=2.4e-07 Score=73.45 Aligned_cols=50 Identities=24% Similarity=0.517 Sum_probs=41.1
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
..|++|+..+.++.....-+ |+|.||..|+..|-+...+||+||..+...
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 45888888777666555666 999999999999999999999999876543
No 50
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=4.3e-07 Score=71.79 Aligned_cols=50 Identities=24% Similarity=0.564 Sum_probs=40.5
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhC-CCcccccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK-HSVCPVCRAKLDSHFF 124 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~~~~~ 124 (133)
--.|+.|-...++ ..++. |||+||.+|+..-+.. ...||.|.+.+.....
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~k-C~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVITK-CGHVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred ceeCCCccCchhh---HHHHh-cchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 3569999977665 44554 9999999999999886 5689999999877654
No 51
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=8.2e-06 Score=57.75 Aligned_cols=56 Identities=20% Similarity=0.380 Sum_probs=41.9
Q ss_pred cCCCCCcccccccccccccCCCccccCCCCccccHHHHHHHHhCC--Cccccccccccccc
Q 037529 65 GKELVMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKH--SVCPVCRAKLDSHF 123 (133)
Q Consensus 65 ~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~--~~CP~Cr~~v~~~~ 123 (133)
.+...++.+|++|-+.-..+ -...+ |||+||..||..-+... .+||.|..++.+..
T Consensus 233 ss~~t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 233 SSTGTSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred cccccCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 33446678999999985543 33445 99999999999976644 68999999887543
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.95 E-value=3.3e-06 Score=62.69 Aligned_cols=44 Identities=25% Similarity=0.837 Sum_probs=36.8
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhC--CCccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK--HSVCPVCRAKL 119 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~v 119 (133)
.-|-||-|.- .++.+-| |||..|..|+..|=.. .+.||.||..+
T Consensus 370 eLCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 4599999873 4488898 9999999999999543 46899999876
No 53
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=6.9e-06 Score=61.69 Aligned_cols=49 Identities=35% Similarity=0.785 Sum_probs=42.1
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
..+.+|.||+.-+.+ ...+| |||.|+..||+.-+..+..||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 557899999887766 55668 99999999999988888999999998765
No 54
>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=97.87 E-value=4.5e-06 Score=53.29 Aligned_cols=36 Identities=22% Similarity=0.621 Sum_probs=30.3
Q ss_pred cccccccccccccCCCccccCCCC------ccccHHHHHHHHh
Q 037529 71 GTECAVCLDEVESEQPARLVPGCN------HGFHLQCADSWLS 107 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~------H~fh~~Ci~~wl~ 107 (133)
..+|.||++.+.+++.+..++ || |.||.+|+..|=+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 578999999999866666666 76 9999999999943
No 55
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=9.7e-05 Score=53.66 Aligned_cols=49 Identities=20% Similarity=0.356 Sum_probs=37.8
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
.+...||+|+..-.++-.+.+ -|-+||..|+-.++.+.+.||+=..+..
T Consensus 298 ~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 445789999998766433322 6999999999999999999998655443
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.83 E-value=7.5e-06 Score=45.07 Aligned_cols=41 Identities=22% Similarity=0.579 Sum_probs=27.1
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhC--CCcccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK--HSVCPV 114 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~--~~~CP~ 114 (133)
...|||.+..|+++ ++... |||+|-++.|.+|+.+ ...||.
T Consensus 11 ~~~CPiT~~~~~~P--V~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDP--VKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSE--EEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCC--cCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 47899999998863 33344 9999999999999944 447998
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.83 E-value=8.4e-06 Score=60.40 Aligned_cols=46 Identities=30% Similarity=0.790 Sum_probs=38.8
Q ss_pred ccccccccccccc-CCCccccCCCCccccHHHHHHHHhCC--Cccccccc
Q 037529 71 GTECAVCLDEVES-EQPARLVPGCNHGFHLQCADSWLSKH--SVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~~~~-~~~~~~lp~C~H~fh~~Ci~~wl~~~--~~CP~Cr~ 117 (133)
+-.|-.|-+.+.- ++.+.-|| |.|+||..|....|.++ .+||-||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 4569999999874 45677899 99999999999999875 48999994
No 58
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.74 E-value=1.9e-05 Score=66.82 Aligned_cols=55 Identities=33% Similarity=0.735 Sum_probs=44.2
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCC-----C-----cccccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKH-----S-----VCPVCRAKLDSHFF 124 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~-----~-----~CP~Cr~~v~~~~~ 124 (133)
+.++.|.||+.+--.......|. |+|+||-.|...-|+++ . +||+|+.++.....
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~L 3548 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVL 3548 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHH
Confidence 45788999998877777888998 99999999988766542 1 69999998865443
No 59
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.71 E-value=1.8e-05 Score=59.68 Aligned_cols=54 Identities=30% Similarity=0.586 Sum_probs=43.5
Q ss_pred CCCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccccc
Q 037529 68 LVMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHFF 124 (133)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~~ 124 (133)
...+..|++|...+.++-.. +. |||.||..|+..|+..+..||.|++.++....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred CcccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhhc
Confidence 34567899999998764432 34 99999999999999999999999988765443
No 60
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=2.9e-05 Score=53.61 Aligned_cols=51 Identities=27% Similarity=0.664 Sum_probs=42.1
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhC--------CCccccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK--------HSVCPVCRAKLDSHF 123 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~--------~~~CP~Cr~~v~~~~ 123 (133)
...|..|-..+..+|.++.. |.|+||..|+..|-.+ ..+||-|...|.+..
T Consensus 50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 45699999999999988764 9999999999999643 347999999886644
No 61
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.60 E-value=4.4e-05 Score=51.79 Aligned_cols=46 Identities=28% Similarity=0.558 Sum_probs=38.4
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
-...|.||-++|+. .+++. |||.||..|...=++....|-+|.+..
T Consensus 195 IPF~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 195 IPFLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred Cceeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence 34689999999987 33554 999999999999888889999998754
No 62
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.55 E-value=0.0001 Score=38.90 Aligned_cols=44 Identities=23% Similarity=0.555 Sum_probs=23.0
Q ss_pred ccccccccccCC-CccccCCCCccccHHHHHHHHh-CCCcccccccc
Q 037529 74 CAVCLDEVESEQ-PARLVPGCNHGFHLQCADSWLS-KHSVCPVCRAK 118 (133)
Q Consensus 74 C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~ 118 (133)
|++|.+++...+ ...--+ ||+.++..|...-++ .+..||-||+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 789999985443 333344 889999999999886 47799999985
No 63
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.52 E-value=2.9e-05 Score=62.39 Aligned_cols=48 Identities=29% Similarity=0.831 Sum_probs=37.0
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHhCCC-------ccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS-------VCPVCRA 117 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~-------~CP~Cr~ 117 (133)
...+|.||.+.+...+.+---..|.|+||-.||..|-.+.. .||.|..
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 34789999999987775543333889999999999976411 6999984
No 64
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.49 E-value=3.6e-05 Score=55.86 Aligned_cols=52 Identities=19% Similarity=0.466 Sum_probs=43.0
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
....+|.+|-.-+.+.-.+. .|-|.||++||...+.....||.|...+....
T Consensus 13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 44678999999888754443 39999999999999999999999998776553
No 65
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=0.0001 Score=54.22 Aligned_cols=49 Identities=20% Similarity=0.482 Sum_probs=42.0
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
+++..|+||... +......| |+|.-|..||.+-+-+.+.|=.|++++..
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 567889999876 33466778 99999999999999999999999998763
No 66
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=3.7e-05 Score=50.52 Aligned_cols=29 Identities=28% Similarity=0.669 Sum_probs=26.5
Q ss_pred CcccccccccccccCCCccccCCCCccccH
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHL 99 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~ 99 (133)
+.-+|.||||++..++.+..|| |--+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 3468999999999999999999 9999995
No 67
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.45 E-value=6.5e-05 Score=39.68 Aligned_cols=40 Identities=28% Similarity=0.944 Sum_probs=27.2
Q ss_pred ccccccccccCCCccccCCCC-----ccccHHHHHHHHhC--CCccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCN-----HGFHLQCADSWLSK--HSVCPVC 115 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~-----H~fh~~Ci~~wl~~--~~~CP~C 115 (133)
|-||+++-.+++ ..+.| |+ -..|.+|+..|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 668999877655 33556 75 47999999999974 5679887
No 68
>PHA02862 5L protein; Provisional
Probab=97.40 E-value=0.00014 Score=47.00 Aligned_cols=45 Identities=22% Similarity=0.672 Sum_probs=33.8
Q ss_pred cccccccccccccCCCccccCCCC-----ccccHHHHHHHHhC--CCcccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCN-----HGFHLQCADSWLSK--HSVCPVCRAKLD 120 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~v~ 120 (133)
++.|=||+++-+++ .-| |+ -.-|.+|+.+|+.. +..||+|+.+..
T Consensus 2 ~diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 46799999985332 244 64 57999999999975 458999998753
No 69
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.37 E-value=0.00015 Score=50.84 Aligned_cols=53 Identities=21% Similarity=0.355 Sum_probs=47.4
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHFF 124 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~~ 124 (133)
..||+|.+.+.+.-.+.+|..|||+|..+|++..+.....||+|-+++.....
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence 56999999999988888887799999999999999999999999998876544
No 70
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=8.7e-06 Score=60.20 Aligned_cols=55 Identities=20% Similarity=0.509 Sum_probs=47.8
Q ss_pred cccccccccccccC-CCccccCCCCccccHHHHHHHHhCCCcccccccccccccccc
Q 037529 71 GTECAVCLDEVESE-QPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHFFNA 126 (133)
Q Consensus 71 ~~~C~ICl~~~~~~-~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~~~~ 126 (133)
...|+||.+.++.. +++..+. |||.+|.+|+.+||.....||.||+.++...+..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e~ 251 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNGFEE 251 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhhHHH
Confidence 46799999999877 7777787 9999999999999999999999999987765443
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=0.00013 Score=53.56 Aligned_cols=50 Identities=40% Similarity=0.723 Sum_probs=34.7
Q ss_pred cCCCCCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccc
Q 037529 65 GKELVMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 65 ~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
..+....+.|.||+++..+ ...+| |||+-+ |..-- +...+||+||+.+..
T Consensus 299 ~~~~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 299 FRELPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIRL 348 (355)
T ss_pred ccccCCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHHH
Confidence 3344556789999999776 66788 999855 33332 123459999998754
No 72
>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=97.32 E-value=7.2e-05 Score=46.16 Aligned_cols=33 Identities=27% Similarity=0.635 Sum_probs=27.9
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHH
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCAD 103 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~ 103 (133)
.++..|++|-..+.. ....+.| |||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 556789999999987 5577788 99999999974
No 73
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.24 E-value=4.3e-05 Score=54.67 Aligned_cols=42 Identities=26% Similarity=0.717 Sum_probs=32.8
Q ss_pred cccccccccccccCCCccccCCCCcc-ccHHHHHHHHhCCCcccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHG-FHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
..-|+||++...+ ...|+ |||. -|.+|-... ..||+||+.+-
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence 4679999997544 88898 9994 899995442 38999998764
No 74
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.22 E-value=0.00017 Score=53.91 Aligned_cols=47 Identities=21% Similarity=0.603 Sum_probs=37.5
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHhC--------CCccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK--------HSVCPVCRA 117 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~--------~~~CP~Cr~ 117 (133)
.-..|.||+++..-......+| |+|+||..|...++.. .-.||-++-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 3478999999987768888999 9999999999999752 226876543
No 75
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.17 E-value=0.00018 Score=38.89 Aligned_cols=46 Identities=20% Similarity=0.451 Sum_probs=33.3
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
..|..|... +.+-.++| |||+.+..|.+.+ +-+-||+|.+++....
T Consensus 8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence 445555544 33455788 9999999998875 5568999999886543
No 76
>PHA03096 p28-like protein; Provisional
Probab=97.16 E-value=0.00022 Score=51.51 Aligned_cols=46 Identities=20% Similarity=0.622 Sum_probs=33.7
Q ss_pred ccccccccccccC----CCccccCCCCccccHHHHHHHHhC---CCccccccc
Q 037529 72 TECAVCLDEVESE----QPARLVPGCNHGFHLQCADSWLSK---HSVCPVCRA 117 (133)
Q Consensus 72 ~~C~ICl~~~~~~----~~~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~Cr~ 117 (133)
.+|.||++..... ..-..|++|.|.|+..|+..|-.. ..+||.||.
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 6799999987643 234467789999999999999753 234555544
No 77
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.15 E-value=0.00071 Score=44.49 Aligned_cols=48 Identities=25% Similarity=0.681 Sum_probs=35.1
Q ss_pred CCcccccccccccccCCCccccCCCC--c---cccHHHHHHHHhCC--Cccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCN--H---GFHLQCADSWLSKH--SVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~--H---~fh~~Ci~~wl~~~--~~CP~Cr~~v~~ 121 (133)
..+..|=||.++..+ . .-| |. . .-|.+|++.|+..+ ..|++|+.+..-
T Consensus 6 ~~~~~CRIC~~~~~~--~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 6 LMDKCCWICKDEYDV--V--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCeeEecCCCCCC--c--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 346789999988432 2 234 54 4 57999999999864 479999997643
No 78
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.13 E-value=0.00061 Score=50.14 Aligned_cols=49 Identities=24% Similarity=0.608 Sum_probs=38.1
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHH--HhCCCccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSW--LSKHSVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~w--l~~~~~CP~Cr~~v~~ 121 (133)
.+...|.||-+.++- ..++| |+|..|.-|.-.. |-..+.||+||+.-..
T Consensus 59 Een~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 59 EENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred cccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 345679999998765 55788 9999999997654 5578899999986433
No 79
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.12 E-value=0.00012 Score=51.19 Aligned_cols=45 Identities=27% Similarity=0.673 Sum_probs=33.1
Q ss_pred cccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
.|.-|.-.-. ++....+. |+|+||..|...- ....||+||+++-.
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRI 49 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeee
Confidence 4666665544 67777776 9999999997763 22389999998643
No 80
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.06 E-value=0.00038 Score=50.59 Aligned_cols=48 Identities=31% Similarity=0.742 Sum_probs=39.0
Q ss_pred cccccccccccccCC---CccccCCCCccccHHHHHHHHhCC-Cccccccccc
Q 037529 71 GTECAVCLDEVESEQ---PARLVPGCNHGFHLQCADSWLSKH-SVCPVCRAKL 119 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~---~~~~lp~C~H~fh~~Ci~~wl~~~-~~CP~Cr~~v 119 (133)
-.+|-||-++|...+ ..+.|. |||.++..|+.+.+... ..||.||...
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 357999999998764 344565 99999999999988765 4799999873
No 81
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.03 E-value=0.00034 Score=54.03 Aligned_cols=50 Identities=28% Similarity=0.630 Sum_probs=38.6
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhC-----CCcccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK-----HSVCPVCRAKLDSH 122 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~v~~~ 122 (133)
.+..+|-+|.+.-++ ..... |.|.||.-|+..++.. +-+||.|...++-.
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 446789999997544 55666 9999999999998752 45899999876543
No 82
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=97.02 E-value=0.00036 Score=50.04 Aligned_cols=46 Identities=22% Similarity=0.618 Sum_probs=38.6
Q ss_pred cccccccccccccCC-CccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 71 GTECAVCLDEVESEQ-PARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
...||||.+.+.... .+..++ |||.-|..|.......+.+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 455999999876554 556777 9999999999999887899999998
No 83
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.95 E-value=0.00032 Score=50.35 Aligned_cols=47 Identities=23% Similarity=0.414 Sum_probs=39.2
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
.+.|-||-..|.. -+++. |||.||..|...=++....|++|.+....
T Consensus 241 Pf~c~icr~~f~~---pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYR---PVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Ccccccccccccc---chhhc-CCceeehhhhccccccCCcceeccccccc
Confidence 3569999999987 33555 99999999999988888999999987644
No 84
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.92 E-value=0.0011 Score=47.56 Aligned_cols=54 Identities=19% Similarity=0.279 Sum_probs=42.6
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
.....|||...+|........+..|||+|-..++..- .....||+|-.++....
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 4457899999999766666555449999999999997 23568999999887553
No 85
>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=96.83 E-value=0.00086 Score=34.69 Aligned_cols=41 Identities=29% Similarity=0.676 Sum_probs=23.9
Q ss_pred ccccccccccCCCccccCCCCccccHHHHHHHHhCCC--ccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS--VCPVC 115 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~--~CP~C 115 (133)
|.+|.+-...|+...... |+=.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence 567777766666554444 888999999999998765 79987
No 86
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.48 E-value=0.0026 Score=46.78 Aligned_cols=53 Identities=21% Similarity=0.485 Sum_probs=37.9
Q ss_pred CCCcccccccccccccCCCc-cccCCCCccccHHHHHHHHh-CCCccccccccccc
Q 037529 68 LVMGTECAVCLDEVESEQPA-RLVPGCNHGFHLQCADSWLS-KHSVCPVCRAKLDS 121 (133)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~~-~~lp~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~v~~ 121 (133)
+++++.|+.|+|++...|+- .--| ||-..|.-|...--+ -+..||-||+..+.
T Consensus 11 edeed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 34456699999999877744 3455 998888877555422 26689999997654
No 87
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=96.33 E-value=0.0044 Score=33.47 Aligned_cols=34 Identities=24% Similarity=0.670 Sum_probs=30.1
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHH
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADS 104 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~ 104 (133)
...|++|-+.|++++.+.+-|.||=.+|++|.+.
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4679999999998888888888999999999655
No 88
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.0038 Score=41.87 Aligned_cols=31 Identities=29% Similarity=0.838 Sum_probs=25.1
Q ss_pred CCccccHHHHHHHHhC----CC-------ccccccccccccc
Q 037529 93 CNHGFHLQCADSWLSK----HS-------VCPVCRAKLDSHF 123 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~----~~-------~CP~Cr~~v~~~~ 123 (133)
||.-||.-|+..||+. ++ .||.|..++....
T Consensus 190 CgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 190 CGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred cCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 9999999999999863 11 5999998886543
No 89
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=96.17 E-value=0.0034 Score=50.57 Aligned_cols=40 Identities=30% Similarity=0.666 Sum_probs=29.6
Q ss_pred cccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPV 114 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~ 114 (133)
.|+||--.+.- ....... |+|+-|.+|...|+.+...||.
T Consensus 1030 ~C~~C~l~V~g-ss~~Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRG-SSNFCGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEeec-cchhhcc-ccccccHHHHHHHHhcCCcCCC
Confidence 36666655443 2333454 9999999999999999999984
No 90
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.07 E-value=0.0039 Score=45.13 Aligned_cols=43 Identities=26% Similarity=0.610 Sum_probs=33.5
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHh-CCCccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS-KHSVCPVCRA 117 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~Cr~ 117 (133)
..|+.|..-....-+. |-|||.|+++||..-|. ....||.|.+
T Consensus 275 LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCccc
Confidence 5699998876654333 44999999999997755 5779999987
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.99 E-value=0.0027 Score=51.12 Aligned_cols=47 Identities=26% Similarity=0.669 Sum_probs=37.4
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCC--Cccccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKH--SVCPVCRAKLDSHF 123 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~--~~CP~Cr~~v~~~~ 123 (133)
..|.||++ .+.....+ |||.|+.+|+..-+... ..||+||..+....
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 78999999 34466666 99999999999987753 36999999775543
No 92
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.93 E-value=0.0033 Score=51.10 Aligned_cols=40 Identities=25% Similarity=0.761 Sum_probs=31.2
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
..|..|-....-+. + -.. |||.||..|.. .+...||-|+.
T Consensus 841 skCs~C~~~LdlP~-V-hF~-CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDLPF-V-HFL-CGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeecccCCccccce-e-eee-cccHHHHHhhc---cCcccCCccch
Confidence 57999988876533 2 222 99999999999 46678999987
No 93
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.63 E-value=0.0053 Score=50.15 Aligned_cols=36 Identities=25% Similarity=0.526 Sum_probs=29.7
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHH
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWL 106 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 106 (133)
..+++|.+|.-.+... ...+-| |||.||.+|+..-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 4578899999988764 466777 99999999998874
No 94
>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=95.60 E-value=0.022 Score=42.57 Aligned_cols=27 Identities=33% Similarity=0.872 Sum_probs=20.1
Q ss_pred CccccHHHHHHHHhC-------------CCcccccccccc
Q 037529 94 NHGFHLQCADSWLSK-------------HSVCPVCRAKLD 120 (133)
Q Consensus 94 ~H~fh~~Ci~~wl~~-------------~~~CP~Cr~~v~ 120 (133)
.-..|-+|+.+|+.. +-.||+||+.+-
T Consensus 312 RPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 312 RPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred cchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 345688999999853 226999999763
No 95
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=95.31 E-value=0.0067 Score=44.12 Aligned_cols=42 Identities=33% Similarity=0.851 Sum_probs=29.0
Q ss_pred cccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
.|--|=-.+. .--+..| |.|+||.+|... ...+.||.|-..|
T Consensus 92 fCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 3555544332 2335677 999999999766 3567999997765
No 96
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.26 E-value=0.016 Score=43.41 Aligned_cols=48 Identities=21% Similarity=0.411 Sum_probs=40.6
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCC---ccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS---VCPVCRA 117 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~---~CP~Cr~ 117 (133)
-+-..|||=-+.-.++.....|. |||+...+-+....++.. .||+|=.
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 34588999999988888888898 999999999999987654 6999953
No 97
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=95.14 E-value=0.0044 Score=43.48 Aligned_cols=48 Identities=25% Similarity=0.596 Sum_probs=36.9
Q ss_pred Ccccccccccc-ccc-CCCccccCCCCccccHHHHHHHHhCC-Cccc--cccc
Q 037529 70 MGTECAVCLDE-VES-EQPARLVPGCNHGFHLQCADSWLSKH-SVCP--VCRA 117 (133)
Q Consensus 70 ~~~~C~ICl~~-~~~-~~~~~~lp~C~H~fh~~Ci~~wl~~~-~~CP--~Cr~ 117 (133)
.+..||+|..+ |-. +.++.+-|.|.|-.|.+|.+.-+... ..|| -|.+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 45689999976 333 34556666799999999999998875 4899 7765
No 98
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=95.09 E-value=0.0061 Score=51.63 Aligned_cols=48 Identities=27% Similarity=0.636 Sum_probs=38.8
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
.....|.||++.+..--.+.. |||.++..|...|+..+..||.|+...
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~~---cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAG---CGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred hcccchHHHHHHHHhcCCeee---echhHhhhHHHHHHHHhccCcchhhhh
Confidence 345689999999875333332 999999999999999999999998543
No 99
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.01 E-value=0.011 Score=44.70 Aligned_cols=38 Identities=26% Similarity=0.596 Sum_probs=28.6
Q ss_pred Cccccccccccc-ccCCCccccCCCCccccHHHHHHHHhC
Q 037529 70 MGTECAVCLDEV-ESEQPARLVPGCNHGFHLQCADSWLSK 108 (133)
Q Consensus 70 ~~~~C~ICl~~~-~~~~~~~~lp~C~H~fh~~Ci~~wl~~ 108 (133)
...+|.||..+. ...+...+.. |+|.||.+|..+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~-C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhhh
Confidence 357899999444 4445555555 9999999999998763
No 100
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.97 E-value=0.009 Score=47.43 Aligned_cols=45 Identities=18% Similarity=0.423 Sum_probs=33.6
Q ss_pred cccccccccccccCCCc-cccCCCCccccHHHHHHHHhCCCccccccccc
Q 037529 71 GTECAVCLDEVESEQPA-RLVPGCNHGFHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~-~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
-.-|.||+..|-...-. +.+. |||+.|..|.+.. .+.+|| |+++=
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~-cghtic~~c~~~l--yn~scp-~~~De 56 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQ-CGHTICGHCVQLL--YNASCP-TKRDE 56 (861)
T ss_pred HhhchHHHHHHHHHhcCccccc-ccchHHHHHHHhH--hhccCC-CCccc
Confidence 35699999888765533 3444 9999999999986 667898 66543
No 101
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.77 E-value=0.0092 Score=41.37 Aligned_cols=41 Identities=34% Similarity=0.796 Sum_probs=30.7
Q ss_pred ccccccccccCCCccccCCCCcc-ccHHHHHHHHhCCCcccccccccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCNHG-FHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
|-.|-+. +..+..+| |.|. +|..|-.. -..||+|+......
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s~ 202 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTSS 202 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhce
Confidence 7777776 45588999 9986 99999554 45699999766543
No 102
>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=94.70 E-value=0.028 Score=40.56 Aligned_cols=47 Identities=23% Similarity=0.529 Sum_probs=34.9
Q ss_pred cccccccc-cccCC-CccccCCCCccccHHHHHHHHhCC-Ccccccccccc
Q 037529 73 ECAVCLDE-VESEQ-PARLVPGCNHGFHLQCADSWLSKH-SVCPVCRAKLD 120 (133)
Q Consensus 73 ~C~ICl~~-~~~~~-~~~~lp~C~H~fh~~Ci~~wl~~~-~~CP~Cr~~v~ 120 (133)
.||+|-.+ |..++ .+.+-+ |||..|.+|.+.-+..+ ..||.|..-+-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 48999865 44444 333445 99999999999988764 58999987543
No 103
>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=94.45 E-value=0.019 Score=30.00 Aligned_cols=29 Identities=34% Similarity=0.812 Sum_probs=22.0
Q ss_pred CC-ccccHHHHHHHHhCCCccccccccccc
Q 037529 93 CN-HGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 93 C~-H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
|+ |..+-.|+...+..+..||+|..+++.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 76 999999999999999999999988764
No 104
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.41 E-value=0.026 Score=41.26 Aligned_cols=47 Identities=19% Similarity=0.429 Sum_probs=34.9
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
.+-.+||||.+.+..+.. +-+ =||+-|.+|-.+ ....||.||-.++.
T Consensus 46 ~~lleCPvC~~~l~~Pi~--QC~-nGHlaCssC~~~---~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIF--QCD-NGHLACSSCRTK---VSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCcccce--ecC-CCcEehhhhhhh---hcccCCcccccccc
Confidence 344789999999886442 211 379999999764 46789999988873
No 105
>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=94.39 E-value=0.046 Score=36.07 Aligned_cols=35 Identities=17% Similarity=0.442 Sum_probs=22.4
Q ss_pred cccccccccccccCCCcc---------ccCCCCc-cccHHHHHHHH
Q 037529 71 GTECAVCLDEVESEQPAR---------LVPGCNH-GFHLQCADSWL 106 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~---------~lp~C~H-~fh~~Ci~~wl 106 (133)
+..|+||||--.+..-+. --= |+- .=|.+|++++-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHH
Confidence 568999999865432221 111 553 46899999984
No 106
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.28 E-value=0.024 Score=40.19 Aligned_cols=53 Identities=23% Similarity=0.616 Sum_probs=36.8
Q ss_pred CCCcccccccccccccCCCc-cccCCCC-----ccccHHHHHHHHhCCC--------ccccccccccc
Q 037529 68 LVMGTECAVCLDEVESEQPA-RLVPGCN-----HGFHLQCADSWLSKHS--------VCPVCRAKLDS 121 (133)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~~-~~lp~C~-----H~fh~~Ci~~wl~~~~--------~CP~Cr~~v~~ 121 (133)
...+..|=||++.=+++..- -+-| |. |=-|..|+..|+..+. +||-|++.-.-
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 34567899999875544322 2344 63 7799999999997543 59999986543
No 107
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.35 E-value=0.08 Score=33.96 Aligned_cols=52 Identities=23% Similarity=0.475 Sum_probs=36.4
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhC---CCcccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK---HSVCPVCRAKLDSH 122 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~~~ 122 (133)
-.+|.||.|.-.+..-+.--.=||-..|.-|....|+. ...||.|++++-+.
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 47899999875543311111119999999998887764 56899999987554
No 108
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.31 E-value=0.05 Score=39.41 Aligned_cols=28 Identities=21% Similarity=0.572 Sum_probs=21.7
Q ss_pred CCccccHHHHHHHHh-------------CCCcccccccccc
Q 037529 93 CNHGFHLQCADSWLS-------------KHSVCPVCRAKLD 120 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~-------------~~~~CP~Cr~~v~ 120 (133)
|.-..|.+|+.+|+. .+-+||+||+++-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 556788999999973 3447999999763
No 109
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.09 E-value=0.078 Score=38.67 Aligned_cols=49 Identities=27% Similarity=0.720 Sum_probs=36.2
Q ss_pred cccccccccccccCCC-ccccCCCC-----ccccHHHHHHHHh--CCCcccccccccc
Q 037529 71 GTECAVCLDEVESEQP-ARLVPGCN-----HGFHLQCADSWLS--KHSVCPVCRAKLD 120 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~-~~~lp~C~-----H~fh~~Ci~~wl~--~~~~CP~Cr~~v~ 120 (133)
+..|=||.++...... ....| |. +..|..|++.|+. .+..|.+|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 4789999998664332 34555 65 6789999999988 4568999987543
No 110
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.57 E-value=0.095 Score=41.49 Aligned_cols=48 Identities=35% Similarity=0.892 Sum_probs=38.9
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHFFN 125 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~~~ 125 (133)
..+.|.||+++. ..+..+ |. |..|..+|+..+..||+|+..+..+...
T Consensus 478 ~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred ccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 357899999997 355666 88 9999999999999999999877554433
No 111
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=92.42 E-value=0.034 Score=44.69 Aligned_cols=48 Identities=25% Similarity=0.719 Sum_probs=37.9
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhC---CCcccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSK---HSVCPVCRAKLDSH 122 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~~~ 122 (133)
..+|+||++.+.++ ..+. |.|.|+..|+..-+.. ...||+|++.++..
T Consensus 21 ~lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR 71 (684)
T ss_pred hccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence 57899999999875 3555 9999999998876654 45899999776543
No 112
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=91.85 E-value=0.1 Score=36.04 Aligned_cols=41 Identities=27% Similarity=0.731 Sum_probs=28.2
Q ss_pred cccccccccc-----cccCCCccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 71 GTECAVCLDE-----VESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~-----~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
+..|-+|-++ |+.+ .+..-+.|+-+||.+|.. +..||-|.+
T Consensus 152 GfiCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 5778888753 3332 333334599999999976 367999965
No 113
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.92 E-value=0.17 Score=39.05 Aligned_cols=53 Identities=19% Similarity=0.466 Sum_probs=38.5
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCC--------cc--cccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS--------VC--PVCRAKLDSHFF 124 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~--------~C--P~Cr~~v~~~~~ 124 (133)
....+|-||.+.+.. .+..+. |||.|+..|...++.++. +| +-|+..+.....
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i 130 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTV 130 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCcee
Confidence 445789999999876 466666 999999999999987522 34 456665554443
No 114
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=90.86 E-value=0.087 Score=41.81 Aligned_cols=43 Identities=30% Similarity=0.719 Sum_probs=27.4
Q ss_pred cccccccccc-----cccCCCccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 71 GTECAVCLDE-----VESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~-----~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
...|.+|-.. |+.....+... ||++||..|... .+..||.|-+
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~-C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCST-CLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHH-HHHHHHHHHHhc---cCCCCCchHH
Confidence 5678888321 22222233444 999999999665 4445999965
No 115
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.71 E-value=1.2 Score=32.94 Aligned_cols=47 Identities=19% Similarity=0.356 Sum_probs=38.0
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCC---cccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS---VCPVCR 116 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~---~CP~Cr 116 (133)
-+-..||+=-+.-.+......+. |||+.-.+-++..-+++. .||.|-
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred cceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 44578999888877777777887 999999999999876643 699994
No 116
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.82 E-value=0.58 Score=38.73 Aligned_cols=51 Identities=22% Similarity=0.560 Sum_probs=38.1
Q ss_pred CCcccccccccccccCCCccccCCCC-----ccccHHHHHHHHhC--CCccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCN-----HGFHLQCADSWLSK--HSVCPVCRAKLDS 121 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~v~~ 121 (133)
.++..|-||..+=..++.+. -| |. -..|.+|+.+|+.- +..|-+|+.++.-
T Consensus 10 ~d~~~CRICr~e~~~d~pLf-hP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F 67 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLF-HP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF 67 (1175)
T ss_pred ccchhceeecCCCCCCCcCc-cc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence 34588999998866666553 34 54 45899999999985 3479999987644
No 117
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=89.27 E-value=0.72 Score=33.88 Aligned_cols=28 Identities=18% Similarity=0.303 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 037529 5 VILALFLPCAGMSLVFIVYLSLLWCASN 32 (133)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (133)
++.+++.+++++++++++|++++|+|.+
T Consensus 258 I~aSiiaIliIVLIMvIIYLILRYRRKK 285 (299)
T PF02009_consen 258 IIASIIAILIIVLIMVIIYLILRYRRKK 285 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556666666667777777777766643
No 118
>PF15050 SCIMP: SCIMP protein
Probab=89.10 E-value=0.7 Score=29.13 Aligned_cols=29 Identities=24% Similarity=0.354 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 037529 4 SVILALFLPCAGMSLVFIVYLSLLWCASN 32 (133)
Q Consensus 4 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (133)
.+++++.++++.+++.+++|...+|..+.
T Consensus 9 WiiLAVaII~vS~~lglIlyCvcR~~lRq 37 (133)
T PF15050_consen 9 WIILAVAIILVSVVLGLILYCVCRWQLRQ 37 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 45566666666666666666665565553
No 119
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.08 E-value=0.34 Score=34.50 Aligned_cols=51 Identities=24% Similarity=0.270 Sum_probs=38.7
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
...|+|=--+|........+..|||+|-..-+.+- ..++|++|...+....
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 46799988888766655444449999999888774 5779999998776544
No 120
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=88.58 E-value=0.28 Score=40.30 Aligned_cols=50 Identities=16% Similarity=0.200 Sum_probs=35.8
Q ss_pred cccccccccccccCC---CccccCCCCccccHHHHHHHHhC------CCcccccccccc
Q 037529 71 GTECAVCLDEVESEQ---PARLVPGCNHGFHLQCADSWLSK------HSVCPVCRAKLD 120 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~---~~~~lp~C~H~fh~~Ci~~wl~~------~~~CP~Cr~~v~ 120 (133)
.++|.+|.-++.+++ .+-.+..|+|-||..||..|..+ +-.|++|...|.
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 467888888887633 22223349999999999999763 336899987654
No 121
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=87.69 E-value=0.61 Score=29.14 Aligned_cols=46 Identities=17% Similarity=0.346 Sum_probs=32.4
Q ss_pred ccccccccccccCC----------CccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 72 TECAVCLDEVESEQ----------PARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 72 ~~C~ICl~~~~~~~----------~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
..|--|+..|.... ....-+.|++.|+.+|=.-+-+.=.+||-|.+
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 56999999886431 11223349999999997776666668999963
No 122
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.54 E-value=0.15 Score=41.57 Aligned_cols=45 Identities=16% Similarity=0.456 Sum_probs=32.1
Q ss_pred CCcccccccccccccC----CCccccCCCCccccHHHHHHHHhCCCccccc
Q 037529 69 VMGTECAVCLDEVESE----QPARLVPGCNHGFHLQCADSWLSKHSVCPVC 115 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~----~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~C 115 (133)
+.+..|.-|++..... +.+.++. |||.||..|+..-..++. |-.|
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 3456799999886532 4566776 999999999998765544 4443
No 123
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=87.17 E-value=0.44 Score=25.46 Aligned_cols=42 Identities=21% Similarity=0.609 Sum_probs=19.9
Q ss_pred ccccccccccCC------CccccCCCCccccHHHHHHHHh-CCCcccccc
Q 037529 74 CAVCLDEVESEQ------PARLVPGCNHGFHLQCADSWLS-KHSVCPVCR 116 (133)
Q Consensus 74 C~ICl~~~~~~~------~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~Cr 116 (133)
|.-|+..|..+. ....-|.|++.|+-+|=. ++. .=.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~-fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDV-FIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHH-TTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcCh-hhhccccCCcCCC
Confidence 445666665542 233444599999999933 322 234799884
No 124
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=86.69 E-value=0.36 Score=33.48 Aligned_cols=44 Identities=27% Similarity=0.670 Sum_probs=34.1
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
-..|.+|..-.-.+ ++.-. ||-.+|..|++.++.....||-|..
T Consensus 181 lk~Cn~Ch~LvIqg--~rCg~-c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQG--IRCGS-CNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhhee--eccCc-ccchhhhHHHHHHhcccCcCCchhc
Confidence 36799998875433 33333 7888999999999999999999953
No 125
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=86.61 E-value=2.7 Score=20.92 Aligned_cols=13 Identities=23% Similarity=0.278 Sum_probs=4.8
Q ss_pred HHHHHHHHHHHHH
Q 037529 6 ILALFLPCAGMSL 18 (133)
Q Consensus 6 ~l~~~~~~~~~~~ 18 (133)
+.++++.+..+++
T Consensus 9 Iv~V~vg~~iiii 21 (38)
T PF02439_consen 9 IVAVVVGMAIIII 21 (38)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 126
>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=86.14 E-value=0.47 Score=21.62 Aligned_cols=23 Identities=30% Similarity=0.739 Sum_probs=12.3
Q ss_pred cccccccccccCCCccccCCCCccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGF 97 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~f 97 (133)
.||-|-..+.... ..-|.|||.|
T Consensus 2 ~CP~C~~~V~~~~--~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESA--KFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhc--CcCCCCCCCC
Confidence 4666666654322 2333477766
No 127
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=86.12 E-value=0.49 Score=25.08 Aligned_cols=40 Identities=28% Similarity=0.703 Sum_probs=16.8
Q ss_pred cccccccccccCCCccccCCCCcc--ccHHHHHHHHh----CC-Ccccccccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHG--FHLQCADSWLS----KH-SVCPVCRAK 118 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~--fh~~Ci~~wl~----~~-~~CP~Cr~~ 118 (133)
.|+|-...+.. .++-.. |.|. |- ++.|+. ++ -.||+|+++
T Consensus 4 ~CPls~~~i~~--P~Rg~~-C~H~~CFD---l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKN-CKHLQCFD---LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEETT---SS--EE---HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCCc-CcccceEC---HHHHHHHhhccCCeECcCCcCc
Confidence 57777777654 234443 9887 33 233433 22 279999863
No 128
>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 KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=85.58 E-value=0.63 Score=38.05 Aligned_cols=41 Identities=29% Similarity=0.495 Sum_probs=29.6
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPV 114 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~ 114 (133)
..|.+|-..+.. ..+..- .|||.=|.+|+.+|+...+-||.
T Consensus 780 ~~CtVC~~vi~G-~~~~c~-~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG-VDVWCQ-VCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee-eEeecc-cccccccHHHHHHHHhcCCCCcc
Confidence 468888766543 112222 39999999999999998887766
No 130
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=84.86 E-value=0.48 Score=23.32 Aligned_cols=14 Identities=21% Similarity=0.572 Sum_probs=10.5
Q ss_pred ccccccccccccCC
Q 037529 72 TECAVCLDEVESEQ 85 (133)
Q Consensus 72 ~~C~ICl~~~~~~~ 85 (133)
.+|+=|...|..+|
T Consensus 3 i~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 3 ITCPNCQAKYEIDD 16 (36)
T ss_pred EECCCCCCEEeCCH
Confidence 46888888887665
No 131
>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=84.21 E-value=0.34 Score=26.02 Aligned_cols=14 Identities=36% Similarity=0.947 Sum_probs=7.6
Q ss_pred Cccccccccccccc
Q 037529 110 SVCPVCRAKLDSHF 123 (133)
Q Consensus 110 ~~CP~Cr~~v~~~~ 123 (133)
..||+|.+++++..
T Consensus 21 ~~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 21 GCCPLCGRPLDEEH 34 (54)
T ss_dssp EE-TTT--EE-HHH
T ss_pred CcCCCCCCCCCHHH
Confidence 38999999987643
No 132
>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=84.08 E-value=0.68 Score=22.31 Aligned_cols=37 Identities=24% Similarity=0.529 Sum_probs=23.8
Q ss_pred ccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
|+.|-+.+..++.. +.. =+..||.+| ..|..|++.+.
T Consensus 2 C~~C~~~i~~~~~~-~~~-~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELV-LRA-LGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEE-EEe-CCccccccC--------CCCcccCCcCc
Confidence 77788877765333 222 467888776 45777776653
No 133
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=84.04 E-value=0.44 Score=25.52 Aligned_cols=40 Identities=20% Similarity=0.385 Sum_probs=25.6
Q ss_pred ccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 74 CAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
|+-|-..+..++.+.. . -|..||.+| ..|-.|+++|....
T Consensus 1 C~~C~~~I~~~~~~~~-~-~~~~~H~~C--------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK-A-MGKFWHPEC--------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEE-E-TTEEEETTT--------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEE-e-CCcEEEccc--------cccCCCCCccCCCe
Confidence 5667777665443322 2 677888665 56888888776654
No 134
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=83.72 E-value=0.5 Score=36.36 Aligned_cols=34 Identities=26% Similarity=0.579 Sum_probs=27.7
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHh
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS 107 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~ 107 (133)
++..|+||..-|.+ ..+|| |+|..|..|...-+.
T Consensus 3 eelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYRE---PIILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccC---ceEee-cccHHHHHHHHhhcc
Confidence 34679999998887 56888 999999999876543
No 135
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=82.60 E-value=2.6 Score=31.65 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 037529 5 VILALFLPCAGMSLVFIVYLSLLWCAS 31 (133)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~~~~~~~~~ 31 (133)
++.|++.+++++++.+++|++++|+|.
T Consensus 312 IiaSiIAIvvIVLIMvIIYLILRYRRK 338 (353)
T TIGR01477 312 IIASIIAILIIVLIMVIIYLILRYRRK 338 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 445555555556666666666665554
No 136
>PTZ00046 rifin; Provisional
Probab=81.66 E-value=2.9 Score=31.46 Aligned_cols=27 Identities=19% Similarity=0.322 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 037529 5 VILALFLPCAGMSLVFIVYLSLLWCAS 31 (133)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~~~~~~~~~ 31 (133)
++.|++.+++++++.+++|++++|+|.
T Consensus 317 IiaSiiAIvVIVLIMvIIYLILRYRRK 343 (358)
T PTZ00046 317 IIASIVAIVVIVLIMVIIYLILRYRRK 343 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 445555555555666666666655554
No 137
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=81.63 E-value=1.1 Score=33.28 Aligned_cols=46 Identities=26% Similarity=0.463 Sum_probs=33.6
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
...|-.|.++.......+.-. |.|+||.+|=.--=+.=..||.|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~-Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCES-CKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchh-ccceeeccchHHHHhhhhcCCCcCC
Confidence 455999988877766666665 9999999995443333457999974
No 138
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=81.62 E-value=1.8 Score=32.10 Aligned_cols=50 Identities=20% Similarity=0.599 Sum_probs=36.8
Q ss_pred ccccccccccccCC-CccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 72 TECAVCLDEVESEQ-PARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 72 ~~C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
.+|+||-++....+ ...--| |||..|-.|...-...+.+||.||++....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccccC
Confidence 78999999875444 233344 888888888888777888999999765443
No 139
>PTZ00370 STEVOR; Provisional
Probab=81.52 E-value=2.6 Score=30.75 Aligned_cols=23 Identities=17% Similarity=0.274 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhccC
Q 037529 11 LPCAGMSLVFIVYLSLLWCASND 33 (133)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~ 33 (133)
++.+++++++++.++|++++|.+
T Consensus 262 lvllil~vvliilYiwlyrrRK~ 284 (296)
T PTZ00370 262 LVLLILAVVLIILYIWLYRRRKN 284 (296)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Confidence 44455566666666666666644
No 140
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=80.74 E-value=0.54 Score=26.39 Aligned_cols=37 Identities=11% Similarity=0.298 Sum_probs=17.5
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHH
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSW 105 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~w 105 (133)
.+...|.+|...|.--..-..-..||++|+.+|....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 3457899999999643211111239999999997654
No 141
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=80.49 E-value=1.7 Score=23.18 Aligned_cols=36 Identities=14% Similarity=0.381 Sum_probs=24.2
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHh
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS 107 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~ 107 (133)
..|.+|-..|.....-..-..||++|+.+|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 568899888765332222224999999999876543
No 142
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=79.52 E-value=3.3 Score=26.39 Aligned_cols=18 Identities=0% Similarity=0.139 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHhhccC
Q 037529 16 MSLVFIVYLSLLWCASND 33 (133)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~ 33 (133)
+++++++++...+.++++
T Consensus 9 i~~i~l~~~~~~~~~rRR 26 (130)
T PF12273_consen 9 IVAILLFLFLFYCHNRRR 26 (130)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333344444444544443
No 143
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=79.45 E-value=0.59 Score=24.46 Aligned_cols=44 Identities=25% Similarity=0.540 Sum_probs=29.5
Q ss_pred cccccccccccCCCccccCCCCccccHHHHHHHHh------CCCccccccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS------KHSVCPVCRA 117 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~------~~~~CP~Cr~ 117 (133)
.|.||...-..++.+.--. |+-.||..|+..=.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~-C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDS-CNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBST-TSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCC-CChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3788988555555555454 899999999776432 1346888864
No 144
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=79.14 E-value=1.4 Score=24.72 Aligned_cols=11 Identities=27% Similarity=0.881 Sum_probs=8.2
Q ss_pred ccHHHHHHHHh
Q 037529 97 FHLQCADSWLS 107 (133)
Q Consensus 97 fh~~Ci~~wl~ 107 (133)
||++|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999975
No 146
>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=78.48 E-value=2.5 Score=22.97 Aligned_cols=45 Identities=29% Similarity=0.766 Sum_probs=31.6
Q ss_pred ccccccccccccCC-CccccCCCCc--cccHHHHHHHHhCCCccccccccccc
Q 037529 72 TECAVCLDEVESEQ-PARLVPGCNH--GFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 72 ~~C~ICl~~~~~~~-~~~~lp~C~H--~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
..|--|-.++..+. ..++ |.+ .|+.+|.+.-| +..||.|.-.+..
T Consensus 6 pnCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 44667777776555 3333 774 69999999965 7789999766543
No 147
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=78.15 E-value=0.87 Score=27.91 Aligned_cols=17 Identities=12% Similarity=0.370 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 037529 8 ALFLPCAGMSLVFIVYL 24 (133)
Q Consensus 8 ~~~~~~~~~~~~~~~~~ 24 (133)
+++.++.+++++.++|+
T Consensus 67 ~lls~v~IlVily~IyY 83 (101)
T PF06024_consen 67 SLLSFVCILVILYAIYY 83 (101)
T ss_pred HHHHHHHHHHHHhhheE
Confidence 33333333333333433
No 148
>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=76.06 E-value=1.1 Score=21.41 Aligned_cols=19 Identities=37% Similarity=0.684 Sum_probs=12.3
Q ss_pred CCccccHHHHHHHHhCCCccccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
|||++-..- ....||+|..
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 777765332 3457999975
No 149
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=75.63 E-value=1.9 Score=31.09 Aligned_cols=48 Identities=31% Similarity=0.624 Sum_probs=34.4
Q ss_pred ccccccccccccCCCccc---cCCCCccccHHHHHHHHh---------CCCccccccccc
Q 037529 72 TECAVCLDEVESEQPARL---VPGCNHGFHLQCADSWLS---------KHSVCPVCRAKL 119 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~---lp~C~H~fh~~Ci~~wl~---------~~~~CP~Cr~~v 119 (133)
.+|-+|.+++...+..+. -+.|+-++|-.|+..-+. ....||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 689999999955554432 123888999999998543 234799999843
No 150
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=75.51 E-value=1.8 Score=23.81 Aligned_cols=11 Identities=45% Similarity=1.343 Sum_probs=6.6
Q ss_pred CCccccccccc
Q 037529 109 HSVCPVCRAKL 119 (133)
Q Consensus 109 ~~~CP~Cr~~v 119 (133)
+..||+|+..+
T Consensus 2 k~~CPlCkt~~ 12 (61)
T PF05715_consen 2 KSLCPLCKTTL 12 (61)
T ss_pred CccCCcccchh
Confidence 34567776655
No 151
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=74.84 E-value=1.6 Score=21.51 Aligned_cols=14 Identities=14% Similarity=0.456 Sum_probs=10.0
Q ss_pred ccccccccccccCC
Q 037529 72 TECAVCLDEVESEQ 85 (133)
Q Consensus 72 ~~C~ICl~~~~~~~ 85 (133)
.+||=|-..|+.++
T Consensus 3 i~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 3 ITCPNCQTRFRVPD 16 (37)
T ss_pred EECCCCCceEEcCH
Confidence 36888888887554
No 152
>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=74.35 E-value=1 Score=34.25 Aligned_cols=43 Identities=28% Similarity=0.691 Sum_probs=0.0
Q ss_pred ccccccccccc-----------cCCCccccCCCCccccHHHHHHHHh------CCCcccccccc
Q 037529 72 TECAVCLDEVE-----------SEQPARLVPGCNHGFHLQCADSWLS------KHSVCPVCRAK 118 (133)
Q Consensus 72 ~~C~ICl~~~~-----------~~~~~~~lp~C~H~fh~~Ci~~wl~------~~~~CP~Cr~~ 118 (133)
..||+=|..+. +.+.-..+. |||++-. -.|-. ....||+||+.
T Consensus 278 pQCPVglnTL~fp~~~~~~~~~~~qP~VYl~-CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 278 PQCPVGLNTLVFPSKSRKDVPDERQPWVYLN-CGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ----------------------------------------------------------------
T ss_pred CCCCcCCCccccccccccccccccCceeecc-ccceeee---cccccccccccccccCCCcccc
Confidence 56777765442 223344565 9998542 24532 24579999973
No 153
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=74.00 E-value=9.8 Score=20.21 Aligned_cols=15 Identities=20% Similarity=0.419 Sum_probs=6.6
Q ss_pred hHHHHHHHHHHHHHH
Q 037529 2 IVSVILALFLPCAGM 16 (133)
Q Consensus 2 i~~~~l~~~~~~~~~ 16 (133)
+.++++++|++++++
T Consensus 2 ~~~~iV~i~iv~~lL 16 (50)
T PF12606_consen 2 IAFLIVSIFIVMGLL 16 (50)
T ss_pred eehHHHHHHHHHHHH
Confidence 344444444444333
No 154
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.47 E-value=1.7 Score=33.16 Aligned_cols=46 Identities=22% Similarity=0.546 Sum_probs=32.5
Q ss_pred cccccccccccccCCCc--cccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 71 GTECAVCLDEVESEQPA--RLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~--~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
-..|+.|.-.+.-.... .+-. |||.|+..|...|...+..|..|-+
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~~r 353 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYECCR 353 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCccc
Confidence 46799998776544422 2333 8999999999999777776654443
No 155
>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=72.66 E-value=2.5 Score=19.62 Aligned_cols=29 Identities=24% Similarity=0.595 Sum_probs=9.8
Q ss_pred cccccccccccCCCccccCCCCccccHHHH
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQCA 102 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci 102 (133)
.|.+|-+....+....-.. |.-.+|.+|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~-Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSE-CDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TT-T-----HHHH
T ss_pred cCCcCCCcCCCCceEECcc-CCCccChhcC
Confidence 4777777765533334444 8888998885
No 156
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=71.98 E-value=8.6 Score=22.40 Aligned_cols=52 Identities=21% Similarity=0.514 Sum_probs=20.7
Q ss_pred CcccccccccccccCC--Ccccc-CCCCccccHHHHHHHHhC-CCccccccccccc
Q 037529 70 MGTECAVCLDEVESEQ--PARLV-PGCNHGFHLQCADSWLSK-HSVCPVCRAKLDS 121 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~--~~~~l-p~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~~ 121 (133)
+...|-||-+++.... .+.+. -.|+--.++.|.+-=.+. ++.||-|++....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 4578999999975333 22221 125566889998876554 5689999986543
No 157
>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=71.49 E-value=0.92 Score=20.58 Aligned_cols=11 Identities=36% Similarity=0.945 Sum_probs=7.2
Q ss_pred ccccccccccc
Q 037529 111 VCPVCRAKLDS 121 (133)
Q Consensus 111 ~CP~Cr~~v~~ 121 (133)
.||+|.+.+..
T Consensus 3 ~CPiC~~~v~~ 13 (26)
T smart00734 3 QCPVCFREVPE 13 (26)
T ss_pred cCCCCcCcccH
Confidence 47888776643
No 158
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=70.12 E-value=7.4 Score=28.96 Aligned_cols=51 Identities=24% Similarity=0.580 Sum_probs=33.6
Q ss_pred Cccccccccccc---------------ccCC-CccccCCCCccccHHHHHHHHhC---------CCccccccccccc
Q 037529 70 MGTECAVCLDEV---------------ESEQ-PARLVPGCNHGFHLQCADSWLSK---------HSVCPVCRAKLDS 121 (133)
Q Consensus 70 ~~~~C~ICl~~~---------------~~~~-~~~~lp~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~v~~ 121 (133)
...+||+|+..= ..+. .-...| |||+--+.=..-|-+. +..||.|-+.+.-
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 357899999641 0111 112456 9999888888888642 3479999887643
No 159
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=69.81 E-value=2.2 Score=23.47 Aligned_cols=15 Identities=33% Similarity=0.851 Sum_probs=11.0
Q ss_pred CCccccccccccccc
Q 037529 109 HSVCPVCRAKLDSHF 123 (133)
Q Consensus 109 ~~~CP~Cr~~v~~~~ 123 (133)
...||+|..+.....
T Consensus 39 ~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGT 53 (59)
T ss_pred CccCCCcCCccccce
Confidence 457999998875543
No 160
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.80 E-value=5.3 Score=28.60 Aligned_cols=34 Identities=12% Similarity=0.158 Sum_probs=27.8
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHH
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWL 106 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 106 (133)
.+.+-|+.||..+.+ ..+.| =||+|..+||-+++
T Consensus 41 K~FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~i 74 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRD---PVITP-DGYLFDREAILEYI 74 (303)
T ss_pred CCcceeeeecccccC---CccCC-CCeeeeHHHHHHHH
Confidence 345679999999887 44666 89999999999986
No 161
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=67.94 E-value=6.8 Score=24.16 Aligned_cols=24 Identities=25% Similarity=0.546 Sum_probs=18.0
Q ss_pred CccccHHHHHHHHhC---------CCccccccc
Q 037529 94 NHGFHLQCADSWLSK---------HSVCPVCRA 117 (133)
Q Consensus 94 ~H~fh~~Ci~~wl~~---------~~~CP~Cr~ 117 (133)
.=.|+..|+..++.. +-.||.||-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 556999999888653 226999985
No 162
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=67.46 E-value=15 Score=23.32 Aligned_cols=8 Identities=38% Similarity=0.555 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 037529 9 LFLPCAGM 16 (133)
Q Consensus 9 ~~~~~~~~ 16 (133)
++.+++++
T Consensus 70 i~gv~aGv 77 (122)
T PF01102_consen 70 IFGVMAGV 77 (122)
T ss_dssp HHHHHHHH
T ss_pred hHHHHHHH
Confidence 33333333
No 163
>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=66.96 E-value=21 Score=22.39 Aligned_cols=16 Identities=19% Similarity=0.515 Sum_probs=11.5
Q ss_pred hCCCcccccccccccc
Q 037529 107 SKHSVCPVCRAKLDSH 122 (133)
Q Consensus 107 ~~~~~CP~Cr~~v~~~ 122 (133)
.+...|+.|+++++-.
T Consensus 83 Gr~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 83 GRVDACMHCKEPLTLD 98 (114)
T ss_pred chhhccCcCCCcCccC
Confidence 3455799999987653
No 164
>PF15102 TMEM154: TMEM154 protein family
Probab=66.80 E-value=1.3 Score=28.94 Aligned_cols=6 Identities=33% Similarity=1.193 Sum_probs=3.1
Q ss_pred HHHHHh
Q 037529 102 ADSWLS 107 (133)
Q Consensus 102 i~~wl~ 107 (133)
+++|+.
T Consensus 130 ldkwm~ 135 (146)
T PF15102_consen 130 LDKWMN 135 (146)
T ss_pred HHhHHH
Confidence 455554
No 165
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=65.99 E-value=7.4 Score=21.51 Aligned_cols=16 Identities=13% Similarity=0.482 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHhh
Q 037529 15 GMSLVFIVYLSLLWCA 30 (133)
Q Consensus 15 ~~~~~~~~~~~~~~~~ 30 (133)
++++++++++.++|..
T Consensus 14 ~t~~~~l~fiavi~~a 29 (60)
T COG4736 14 GTIAFTLFFIAVIYFA 29 (60)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333444444433333
No 166
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=65.94 E-value=5.4 Score=24.41 Aligned_cols=34 Identities=24% Similarity=0.495 Sum_probs=23.0
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHH
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSW 105 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~w 105 (133)
...|.||......-...... +|...||..|....
T Consensus 55 ~~~C~iC~~~~G~~i~C~~~-~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSHP-GCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCCceeEEcCCC-CCCcCCCHHHHHHC
Confidence 47899999983322223333 38889999998763
No 167
>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=65.78 E-value=0.75 Score=23.37 Aligned_cols=24 Identities=29% Similarity=0.603 Sum_probs=13.9
Q ss_pred CCccccHHHHHHHHhCCCccccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
|||.|...--..= .....||.|..
T Consensus 11 Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 11 CGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 8877764321110 23457999987
No 168
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=64.93 E-value=4.1 Score=24.50 Aligned_cols=39 Identities=21% Similarity=0.366 Sum_probs=30.7
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
...|+-|.....--|.+ | +-.|+..+..|..|++++...
T Consensus 33 rS~C~~C~~~L~~~~lI---P----------i~S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLI---P----------ILSYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CCcCcCCCCcCcccccc---h----------HHHHHHhCCCCcccCCCCChH
Confidence 35699998888775544 4 667999999999999988653
No 169
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=64.86 E-value=12 Score=24.99 Aligned_cols=25 Identities=16% Similarity=0.211 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccC
Q 037529 9 LFLPCAGMSLVFIVYLSLLWCASND 33 (133)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~ 33 (133)
.+++++++.++.++|+.++.++.++
T Consensus 97 ~~~Vl~g~s~l~i~yfvir~~R~r~ 121 (163)
T PF06679_consen 97 ALYVLVGLSALAILYFVIRTFRLRR 121 (163)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3455556666666666666665544
No 170
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=64.05 E-value=4.5 Score=21.62 Aligned_cols=22 Identities=27% Similarity=0.767 Sum_probs=11.6
Q ss_pred CCccccHHHHHHHHhCCCccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVC 115 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~C 115 (133)
|||.|-..=-+. ......||.|
T Consensus 34 Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred CCCeeEccHhhh-ccCCCCCCCC
Confidence 666555432111 1356678887
No 171
>PRK05978 hypothetical protein; Provisional
Probab=63.92 E-value=5.3 Score=26.30 Aligned_cols=24 Identities=21% Similarity=0.501 Sum_probs=18.7
Q ss_pred ccccHHHHHHHHhCCCccccccccccccc
Q 037529 95 HGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 95 H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
+.|+ .+++-+..||.|-.++....
T Consensus 43 ~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 43 KLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred cccc-----cccccCCCccccCCccccCC
Confidence 6776 67788899999998776553
No 172
>PF15050 SCIMP: SCIMP protein
Probab=62.93 E-value=11 Score=23.88 Aligned_cols=39 Identities=18% Similarity=0.145 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHhhccCCCCCCCCCCCcccccCCCCCHH
Q 037529 17 SLVFIVYLSLLWCASNDNDNNGDVRLPVKAAAEGGLSAS 55 (133)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 (133)
+++.+....++++..+...+++......++..+++.+++
T Consensus 17 I~vS~~lglIlyCvcR~~lRqGkkweiakp~k~~~rdeE 55 (133)
T PF15050_consen 17 ILVSVVLGLILYCVCRWQLRQGKKWEIAKPLKQKQRDEE 55 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHccccceeccchhhhcccHH
Confidence 333333344444444444444444444444444444333
No 173
>PF15179 Myc_target_1: Myc target protein 1
Probab=61.26 E-value=30 Score=23.65 Aligned_cols=17 Identities=12% Similarity=0.124 Sum_probs=8.3
Q ss_pred hHHHHHHHHHHHHHHHH
Q 037529 2 IVSVILALFLPCAGMSL 18 (133)
Q Consensus 2 i~~~~l~~~~~~~~~~~ 18 (133)
|+.+-+++++..++.++
T Consensus 22 IlaF~vSm~iGLviG~l 38 (197)
T PF15179_consen 22 ILAFCVSMAIGLVIGAL 38 (197)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45555555554333333
No 174
>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=60.95 E-value=2.3 Score=24.28 Aligned_cols=41 Identities=27% Similarity=0.606 Sum_probs=19.5
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
..||.|..++.... ||..+..|-.. +.....||-|.+++..
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHHH
Confidence 46888888765422 45555555443 2344578888887654
No 175
>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=60.79 E-value=1.6 Score=23.33 Aligned_cols=39 Identities=26% Similarity=0.614 Sum_probs=20.7
Q ss_pred cccccccccccccCCCccccCCCCcc--ccHHHHHHHHhCCCcccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHG--FHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~--fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
...||.|-+++... .| ..|+ .|.. + .+.-.||+|...+.
T Consensus 2 ~f~CP~C~~~~~~~----~L--~~H~~~~H~~--~---~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 2 SFTCPYCGKGFSES----SL--VEHCEDEHRS--E---SKNVVCPICSSRVT 42 (54)
T ss_pred CcCCCCCCCccCHH----HH--HHHHHhHCcC--C---CCCccCCCchhhhh
Confidence 35799998865432 22 3332 2211 0 12347999987543
No 176
>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=60.15 E-value=11 Score=27.33 Aligned_cols=51 Identities=22% Similarity=0.468 Sum_probs=27.8
Q ss_pred ccccccccccccCCCccccCCCCc-cccHHHHHHH-HhCCCcccccccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNH-GFHLQCADSW-LSKHSVCPVCRAKLDSHFF 124 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H-~fh~~Ci~~w-l~~~~~CP~Cr~~v~~~~~ 124 (133)
..|.||+|---+|..-.-|..=.- .=|++|.++| +.-+..|| |..+...++
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p--rsk~skStY 83 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP--RSKLSKSTY 83 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC--ccccccchH
Confidence 446666665433321111110111 2589999999 55677888 555655544
No 177
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=58.63 E-value=40 Score=20.67 Aligned_cols=15 Identities=7% Similarity=0.087 Sum_probs=6.9
Q ss_pred HHHHHhhccCCCCCC
Q 037529 24 LSLLWCASNDNDNNG 38 (133)
Q Consensus 24 ~~~~~~~~~~~~~~~ 38 (133)
-|.+|++....-++.
T Consensus 39 KC~~~~k~~~SY~H~ 53 (102)
T PF15176_consen 39 KCPVWYKYLASYRHH 53 (102)
T ss_pred HhHHHHHHHhccccc
Confidence 345555544433333
No 178
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=58.38 E-value=5.1 Score=26.01 Aligned_cols=20 Identities=20% Similarity=0.707 Sum_probs=15.9
Q ss_pred CCCccccHHHHHHHHhCCCccccccccc
Q 037529 92 GCNHGFHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 92 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
+|||+|+ -.+..||.|.++-
T Consensus 34 ~CG~v~~--------PPr~~Cp~C~~~~ 53 (140)
T COG1545 34 KCGRVYF--------PPRAYCPKCGSET 53 (140)
T ss_pred CCCeEEc--------CCcccCCCCCCCC
Confidence 4999998 3466899999874
No 179
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=58.35 E-value=1.9 Score=31.57 Aligned_cols=38 Identities=24% Similarity=0.552 Sum_probs=29.7
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCC
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS 110 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~ 110 (133)
.+|.+|++++..+.....+. |.-+||..|+-.|+.+..
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhh-cccccccccccccccccc
Confidence 48999999998655555554 666999999999987643
No 180
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.40 E-value=6.3 Score=23.67 Aligned_cols=12 Identities=33% Similarity=1.013 Sum_probs=10.6
Q ss_pred cccHHHHHHHHh
Q 037529 96 GFHLQCADSWLS 107 (133)
Q Consensus 96 ~fh~~Ci~~wl~ 107 (133)
-||.+|+..|+.
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 399999999986
No 181
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.25 E-value=1.7 Score=31.57 Aligned_cols=48 Identities=19% Similarity=0.416 Sum_probs=36.2
Q ss_pred cccccccccccccCC---CccccCC-------CCccccHHHHHHHHhCC-Ccccccccc
Q 037529 71 GTECAVCLDEVESEQ---PARLVPG-------CNHGFHLQCADSWLSKH-SVCPVCRAK 118 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~---~~~~lp~-------C~H~fh~~Ci~~wl~~~-~~CP~Cr~~ 118 (133)
+..|.||...|...+ ..+++.. |||..+.+|++.-+.+. ..||.||..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 467999999998432 2233323 99999999999987754 589999864
No 182
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=56.68 E-value=8.2 Score=30.97 Aligned_cols=36 Identities=19% Similarity=0.401 Sum_probs=23.8
Q ss_pred CCcccccccccccccC-----C-----CccccCCCCccccHHHHHHH
Q 037529 69 VMGTECAVCLDEVESE-----Q-----PARLVPGCNHGFHLQCADSW 105 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~-----~-----~~~~lp~C~H~fh~~Ci~~w 105 (133)
.....|+||.|.|++- + ..+.+. =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec-cCceeeccccchH
Confidence 3457899999998531 1 112232 4789999998764
No 183
>PF15353 HECA: Headcase protein family homologue
Probab=56.26 E-value=8.2 Score=23.87 Aligned_cols=13 Identities=23% Similarity=0.772 Sum_probs=12.1
Q ss_pred CCccccHHHHHHH
Q 037529 93 CNHGFHLQCADSW 105 (133)
Q Consensus 93 C~H~fh~~Ci~~w 105 (133)
.|+..|.+|.+.|
T Consensus 40 ~~~~MH~~CF~~w 52 (107)
T PF15353_consen 40 FGQYMHRECFEKW 52 (107)
T ss_pred CCCchHHHHHHHH
Confidence 5789999999999
No 184
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=56.20 E-value=7.8 Score=27.85 Aligned_cols=41 Identities=15% Similarity=0.239 Sum_probs=30.2
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCC--Cccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKH--SVCPVC 115 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~--~~CP~C 115 (133)
..|||=...+..+ ++-. +|||+|-.+=|...+... ..||+=
T Consensus 177 ~rdPis~~~I~nP--viSk-kC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 177 NRDPISKKPIVNP--VISK-KCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred ccCchhhhhhhch--hhhc-CcCcchhhhhHHHHhccCceeecccc
Confidence 5688887777653 2233 499999999999998774 368763
No 185
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=55.95 E-value=25 Score=24.62 Aligned_cols=17 Identities=35% Similarity=0.516 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 037529 8 ALFLPCAGMSLVFIVYL 24 (133)
Q Consensus 8 ~~~~~~~~~~~~~~~~~ 24 (133)
++|++|.++++..++..
T Consensus 139 VLfLICT~LfLSTVVLA 155 (227)
T PF05399_consen 139 VLFLICTLLFLSTVVLA 155 (227)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444444444443
No 186
>PLN02189 cellulose synthase
Probab=55.68 E-value=9.9 Score=32.72 Aligned_cols=51 Identities=20% Similarity=0.444 Sum_probs=33.5
Q ss_pred CcccccccccccccC---CCccccCCCCccccHHHHHHHHhC-CCcccccccccc
Q 037529 70 MGTECAVCLDEVESE---QPARLVPGCNHGFHLQCADSWLSK-HSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~---~~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~ 120 (133)
+...|.||-+++..+ +..+--..|+--.|..|.+-=-+. ++.||-|++...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 456899999997632 322222226666899998543333 568999998765
No 187
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=54.33 E-value=49 Score=20.32 Aligned_cols=39 Identities=13% Similarity=0.128 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCC
Q 037529 2 IVSVILALFLPCAGMSLVFIVYLSLLWCASNDNDNNGDV 40 (133)
Q Consensus 2 i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 (133)
++++++..+++.+.+++..-+-++..++..-++++-.+.
T Consensus 20 LVGVv~~al~~SlLIalaaKC~~~~k~~~SY~H~rL~e~ 58 (102)
T PF15176_consen 20 LVGVVVTALVTSLLIALAAKCPVWYKYLASYRHHRLPET 58 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHhccccccCCcc
Confidence 566777777777777777777777777776665555544
No 188
>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=53.81 E-value=12 Score=20.75 Aligned_cols=35 Identities=11% Similarity=0.293 Sum_probs=22.3
Q ss_pred Cccccccccccccc--CCCccccCCCCccccHHHHHH
Q 037529 70 MGTECAVCLDEVES--EQPARLVPGCNHGFHLQCADS 104 (133)
Q Consensus 70 ~~~~C~ICl~~~~~--~~~~~~lp~C~H~fh~~Ci~~ 104 (133)
.-..|+.|-..... ......-|+||+.+|.+-...
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 34679999887666 334444445888877765433
No 189
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.29 E-value=9.1 Score=21.98 Aligned_cols=25 Identities=32% Similarity=0.748 Sum_probs=19.1
Q ss_pred CccccHHHHHHHHhCCCcccccccccc
Q 037529 94 NHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 94 ~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
.|.|+.+|.+.- -+..||.|--.+.
T Consensus 28 EcTFCadCae~~--l~g~CPnCGGelv 52 (84)
T COG3813 28 ECTFCADCAENR--LHGLCPNCGGELV 52 (84)
T ss_pred eeehhHhHHHHh--hcCcCCCCCchhh
Confidence 488999998873 4678999976543
No 190
>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=53.14 E-value=1.2 Score=32.36 Aligned_cols=47 Identities=21% Similarity=0.308 Sum_probs=20.2
Q ss_pred cccccccccccccCCCccccC--CCCccccHHHHHHHHhCCCcccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVP--GCNHGFHLQCADSWLSKHSVCPVCRAK 118 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp--~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 118 (133)
...||+|-..-.-+. +.... +=.|.+|.-|-..|--.+..||.|-.+
T Consensus 172 ~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 368999987743221 11110 123667888888887778899999865
No 191
>PF07406 NICE-3: NICE-3 protein; InterPro: IPR010876 This family consists of several eukaryotic NICE-3 and related proteins. The gene coding for NICE-3 is part of the epidermal differentiation complex (EDC), which comprises a large number of genes that are of crucial importance for the maturation of the human epidermis []. The function of NICE-3 is unknown.
Probab=52.09 E-value=7.4 Score=26.64 Aligned_cols=9 Identities=22% Similarity=0.080 Sum_probs=5.5
Q ss_pred cHHHHHHHH
Q 037529 98 HLQCADSWL 106 (133)
Q Consensus 98 h~~Ci~~wl 106 (133)
..+-+..||
T Consensus 125 ~G~~~R~~L 133 (186)
T PF07406_consen 125 PGENFRSYL 133 (186)
T ss_pred ccccHHHHH
Confidence 355566776
No 192
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=51.60 E-value=3.8 Score=18.23 Aligned_cols=12 Identities=33% Similarity=1.068 Sum_probs=8.0
Q ss_pred cccccccccccc
Q 037529 111 VCPVCRAKLDSH 122 (133)
Q Consensus 111 ~CP~Cr~~v~~~ 122 (133)
.||.|.+.+.+.
T Consensus 4 ~C~~CgR~F~~~ 15 (25)
T PF13913_consen 4 PCPICGRKFNPD 15 (25)
T ss_pred cCCCCCCEECHH
Confidence 477777776544
No 193
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=50.61 E-value=4.5 Score=21.62 Aligned_cols=10 Identities=40% Similarity=1.195 Sum_probs=4.3
Q ss_pred cccccccccc
Q 037529 111 VCPVCRAKLD 120 (133)
Q Consensus 111 ~CP~Cr~~v~ 120 (133)
+||+|.+.+.
T Consensus 26 tCP~C~a~~~ 35 (54)
T PF09237_consen 26 TCPICGAVIR 35 (54)
T ss_dssp E-TTT--EES
T ss_pred CCCcchhhcc
Confidence 5777766554
No 194
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=50.42 E-value=8.4 Score=31.69 Aligned_cols=51 Identities=22% Similarity=0.597 Sum_probs=33.1
Q ss_pred ccccccccccccCC--CccccC----CCCccccHHHHHHH----------HhCCCcccccccccccc
Q 037529 72 TECAVCLDEVESEQ--PARLVP----GCNHGFHLQCADSW----------LSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 72 ~~C~ICl~~~~~~~--~~~~lp----~C~H~fh~~Ci~~w----------l~~~~~CP~Cr~~v~~~ 122 (133)
..|-||-|+=++.+ .-..+. +|...||..|.+.- +.+-+.|-+|+..+...
T Consensus 118 KtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKl 184 (900)
T KOG0956|consen 118 KTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKL 184 (900)
T ss_pred ceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHHHh
Confidence 57999998844332 112222 26678999998875 22345799999866543
No 195
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=50.39 E-value=32 Score=20.24 Aligned_cols=10 Identities=10% Similarity=0.414 Sum_probs=3.8
Q ss_pred HHHHHHHHHH
Q 037529 16 MSLVFIVYLS 25 (133)
Q Consensus 16 ~~~~~~~~~~ 25 (133)
+++..+++..
T Consensus 16 ~iiaIvvW~i 25 (81)
T PF00558_consen 16 LIIAIVVWTI 25 (81)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 3333334443
No 196
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.18 E-value=17 Score=29.87 Aligned_cols=49 Identities=22% Similarity=0.496 Sum_probs=34.0
Q ss_pred cccccccccccCCCccccCCCCc-cccHHHHHHHHh--C----CCccccccccccccccc
Q 037529 73 ECAVCLDEVESEQPARLVPGCNH-GFHLQCADSWLS--K----HSVCPVCRAKLDSHFFN 125 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H-~fh~~Ci~~wl~--~----~~~CP~Cr~~v~~~~~~ 125 (133)
.|+||-..+.. ...- .||| ..+.+|...... . ...||+||..+......
T Consensus 2 ~c~ic~~s~~~---~~~~-s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s~~ 57 (669)
T KOG2231|consen 2 SCAICAFSPDF---VGRG-SCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKSNG 57 (669)
T ss_pred CcceeecCccc---cccc-cccccccchhhhhhhhhhcccccccccCcccccceeeeccc
Confidence 58899887553 3333 4999 799999888632 2 44689999977554433
No 197
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=49.95 E-value=7.4 Score=24.39 Aligned_cols=46 Identities=26% Similarity=0.507 Sum_probs=28.2
Q ss_pred Cccccccccccccc--CCCccccCCCCccccHHHHHHHHhCCC---cccccccc
Q 037529 70 MGTECAVCLDEVES--EQPARLVPGCNHGFHLQCADSWLSKHS---VCPVCRAK 118 (133)
Q Consensus 70 ~~~~C~ICl~~~~~--~~~~~~lp~C~H~fh~~Ci~~wl~~~~---~CP~Cr~~ 118 (133)
++..|++|...|.- +....... |+|.+|..|-.. ..+. .|-+|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~-C~~~VC~~C~~~--~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVD-CKHRVCKKCGVY--SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETT-TTEEEETTSEEE--TSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCc-CCccccCccCCc--CCCCCCEEChhhHHH
Confidence 56789999998752 22333444 999999998554 2222 58888753
No 198
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=49.92 E-value=10 Score=22.18 Aligned_cols=33 Identities=24% Similarity=0.617 Sum_probs=23.0
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHH
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADS 104 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~ 104 (133)
...|.+|-...........- +|.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~-~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHP-GCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCC-CCCcEEChHHHcc
Confidence 36799999874433334334 3999999999765
No 199
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.61 E-value=6.7 Score=28.87 Aligned_cols=51 Identities=25% Similarity=0.571 Sum_probs=40.3
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
.+...|-||...+..+.... +|.|.|+..|-..|......||-|+....+.
T Consensus 103 ~~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv 153 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGNDCPDCRGKISPV 153 (324)
T ss_pred CCccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhhccchhhcCcCce
Confidence 34578999999887655432 4999999999999998888999998765543
No 200
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=49.40 E-value=15 Score=22.36 Aligned_cols=22 Identities=0% Similarity=0.356 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 037529 9 LFLPCAGMSLVFIVYLSLLWCA 30 (133)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~ 30 (133)
+++.++.++.++++.+.+.|+.
T Consensus 64 ili~lls~v~IlVily~IyYFV 85 (101)
T PF06024_consen 64 ILISLLSFVCILVILYAIYYFV 85 (101)
T ss_pred hHHHHHHHHHHHHHHhhheEEE
Confidence 3444444444444444444444
No 201
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=47.97 E-value=19 Score=19.06 Aligned_cols=11 Identities=55% Similarity=1.068 Sum_probs=7.5
Q ss_pred CCCcccccccc
Q 037529 108 KHSVCPVCRAK 118 (133)
Q Consensus 108 ~~~~CP~Cr~~ 118 (133)
..-.||+|...
T Consensus 33 ~~w~CP~C~a~ 43 (50)
T cd00730 33 DDWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCCc
Confidence 34579999753
No 202
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=47.74 E-value=17 Score=31.45 Aligned_cols=51 Identities=22% Similarity=0.461 Sum_probs=32.3
Q ss_pred CcccccccccccccCC--Cccc-cCCCCccccHHHHHHHHhC-CCcccccccccc
Q 037529 70 MGTECAVCLDEVESEQ--PARL-VPGCNHGFHLQCADSWLSK-HSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~--~~~~-lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~ 120 (133)
+...|-||-+++..+. .+.+ -..|+-=.|..|.+==-+. ++.||-|++...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4568999999975332 2222 1124444899998543332 568999998765
No 203
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=47.38 E-value=8.2 Score=21.10 Aligned_cols=11 Identities=27% Similarity=0.944 Sum_probs=5.5
Q ss_pred ccccccccccc
Q 037529 111 VCPVCRAKLDS 121 (133)
Q Consensus 111 ~CP~Cr~~v~~ 121 (133)
.||+|++.+..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 59999987765
No 204
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=46.83 E-value=11 Score=25.07 Aligned_cols=46 Identities=17% Similarity=0.484 Sum_probs=27.7
Q ss_pred cccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 75 AVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 75 ~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
.||+..=...+..-.-|.=.+-||..|-.+-+. .||.|..++.-..
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG~y 53 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRGDY 53 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCCce
Confidence 366655444443333332346699999777543 4999998875443
No 205
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=46.42 E-value=16 Score=22.18 Aligned_cols=29 Identities=17% Similarity=0.433 Sum_probs=18.1
Q ss_pred CCccccHHHHHHHHhCCCcccccccccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
||+.-|.-=+.++.. -..||.|++++++.
T Consensus 65 CGvC~~~LT~~EY~~-~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEYGM-CGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHHhh-cCCCCCcCCCCCcc
Confidence 666655554555422 34599999887764
No 206
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=45.81 E-value=2.5 Score=22.93 Aligned_cols=17 Identities=29% Similarity=0.968 Sum_probs=12.9
Q ss_pred ccCCCCccccHHHHHHH
Q 037529 89 LVPGCNHGFHLQCADSW 105 (133)
Q Consensus 89 ~lp~C~H~fh~~Ci~~w 105 (133)
.-+.|||.|+..|-..|
T Consensus 42 ~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 42 TCPKCGFSFCFRCKVPW 58 (64)
T ss_pred ECCCCCCeECCCCCCcC
Confidence 33248999999888777
No 207
>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=45.69 E-value=11 Score=17.77 Aligned_cols=24 Identities=29% Similarity=0.657 Sum_probs=7.5
Q ss_pred cccccccccccC-CCccccCCCCcc
Q 037529 73 ECAVCLDEVESE-QPARLVPGCNHG 96 (133)
Q Consensus 73 ~C~ICl~~~~~~-~~~~~lp~C~H~ 96 (133)
.|+-|-.++.-. ..+.+-|.|+|.
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTEE
T ss_pred CCCCCCCcceeccCCEEeCCccccc
Confidence 477777765521 223333346654
No 208
>PLN02436 cellulose synthase A
Probab=45.65 E-value=21 Score=30.99 Aligned_cols=51 Identities=24% Similarity=0.595 Sum_probs=32.9
Q ss_pred Ccccccccccccc---cCCCccccCCCCccccHHHHHHHHhC-CCcccccccccc
Q 037529 70 MGTECAVCLDEVE---SEQPARLVPGCNHGFHLQCADSWLSK-HSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~ 120 (133)
....|.||-+++. +|+..+--..|+--.|..|.+-=-+. ++.||-|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3568999999974 33322221125555899998543333 468999998765
No 209
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=45.60 E-value=12 Score=23.17 Aligned_cols=27 Identities=19% Similarity=0.486 Sum_probs=15.7
Q ss_pred ccccccccccccCC-CccccCCCCcccc
Q 037529 72 TECAVCLDEVESEQ-PARLVPGCNHGFH 98 (133)
Q Consensus 72 ~~C~ICl~~~~~~~-~~~~lp~C~H~fh 98 (133)
..||-|-.+|.-.+ ...+-|.|+|-+-
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW~ 30 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEWN 30 (109)
T ss_pred CcCCcCCCcceEecCCeeECcccccccc
Confidence 45999998876332 2334444666543
No 210
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=45.38 E-value=13 Score=26.68 Aligned_cols=26 Identities=27% Similarity=0.656 Sum_probs=18.2
Q ss_pred ccccccccccccCCCccccCCCCcccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFH 98 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh 98 (133)
..||+|-+.+...+.-..-+ .||.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCc
Confidence 46999999997655444444 578883
No 211
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=45.13 E-value=8.1 Score=28.63 Aligned_cols=46 Identities=20% Similarity=0.374 Sum_probs=29.3
Q ss_pred cccccccccccccCCCccc-cC-CCCccccHHHHHHHHhCCCccccccc
Q 037529 71 GTECAVCLDEVESEQPARL-VP-GCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~-lp-~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
...||+|-..-..+. +.. .. +=.|..|.-|-..|--.+..||.|..
T Consensus 187 ~~~CPvCGs~P~~s~-v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSSV-VQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhhe-eeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 478999988743221 110 01 12256777788888777889999986
No 212
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=44.84 E-value=20 Score=18.67 Aligned_cols=10 Identities=60% Similarity=1.175 Sum_probs=5.4
Q ss_pred CCcccccccc
Q 037529 109 HSVCPVCRAK 118 (133)
Q Consensus 109 ~~~CP~Cr~~ 118 (133)
.-.||.|...
T Consensus 34 ~w~CP~C~a~ 43 (47)
T PF00301_consen 34 DWVCPVCGAP 43 (47)
T ss_dssp T-B-TTTSSB
T ss_pred CCcCcCCCCc
Confidence 3478888753
No 213
>TIGR02736 cbb3_Q_epsi cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial. Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ.
Probab=44.58 E-value=52 Score=17.84 Aligned_cols=24 Identities=13% Similarity=0.242 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccC
Q 037529 10 FLPCAGMSLVFIVYLSLLWCASND 33 (133)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~ 33 (133)
+++.+++++++..|...+++..+.
T Consensus 5 f~~ti~lvv~LYgY~yhLYrsek~ 28 (56)
T TIGR02736 5 FAFTLLLVIFLYAYIYHLYRSQKK 28 (56)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhcc
Confidence 334444555555566655555443
No 214
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=44.31 E-value=69 Score=22.98 Aligned_cols=10 Identities=20% Similarity=0.667 Sum_probs=6.6
Q ss_pred HHHHHhCCCc
Q 037529 102 ADSWLSKHSV 111 (133)
Q Consensus 102 i~~wl~~~~~ 111 (133)
.+.|+++...
T Consensus 216 f~~W~~~~~~ 225 (247)
T COG1622 216 FDAWVAEVKA 225 (247)
T ss_pred HHHHHHhhhh
Confidence 8888865443
No 215
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=44.04 E-value=10 Score=31.25 Aligned_cols=31 Identities=29% Similarity=0.645 Sum_probs=22.7
Q ss_pred cCCCCccccHHHHHHHHhCCCcccccccccc
Q 037529 90 VPGCNHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 90 lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
-|.|.-+||.+=.+.-..++.-||.||++-+
T Consensus 1047 Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1047 CPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred CchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 3346677777766666778889999998644
No 216
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=43.57 E-value=6.7 Score=28.74 Aligned_cols=42 Identities=29% Similarity=0.736 Sum_probs=30.8
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
+..|+-|.+.+-+.+.++.- =.|+||-.|.. |=+|++.+...
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L~TG 133 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQLATG 133 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhcccccC
Confidence 35699998888877767663 57999999954 66777766543
No 217
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=43.52 E-value=63 Score=19.75 Aligned_cols=19 Identities=11% Similarity=0.161 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 037529 8 ALFLPCAGMSLVFIVYLSL 26 (133)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~ 26 (133)
.++.+++++.++.-+++++
T Consensus 24 tLasVvvavGl~aGLfFcv 42 (106)
T PF14654_consen 24 TLASVVVAVGLFAGLFFCV 42 (106)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3333333333333344443
No 218
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=43.49 E-value=22 Score=26.53 Aligned_cols=44 Identities=11% Similarity=-0.102 Sum_probs=31.7
Q ss_pred CcccccccccccccCCCccccCCCCcc-ccHHHHHHHHhCCCccccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHG-FHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
...+|..|-+.... ....+ |||. |+-+|.. +.-..+||.|...+
T Consensus 342 s~~~~~~~~~~~~s---t~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLS---TIWSG-GNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceee---eEeec-CCcccChhhhhh--cccCCccccccccc
Confidence 34678888776544 33455 9984 9999987 45577999998754
No 219
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=43.48 E-value=14 Score=20.60 Aligned_cols=11 Identities=27% Similarity=0.905 Sum_probs=8.3
Q ss_pred Ccccccccccc
Q 037529 110 SVCPVCRAKLD 120 (133)
Q Consensus 110 ~~CP~Cr~~v~ 120 (133)
..||+|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 46999998764
No 220
>PF08113 CoxIIa: Cytochrome c oxidase subunit IIa family; InterPro: IPR012538 This family consists of the cytochrome c oxidase subunit IIa family. The bax-type cytochrome c oxidase from Thermus thermophilus is known as a two subunit enzyme. From its crystal structure, it was discovered that an additional transmembrane helix, subunit IIa, spans the membrane. This subunit consists of 34 residues forming one helix across the membrane. The presence of this subunit seems to be important for the function of cytochrome c oxidases [].; PDB: 2QPD_C 3QJR_C 3EH5_C 3BVD_C 3S39_C 3QJU_C 3QJS_C 4EV3_C 3QJT_C 4FA7_C ....
Probab=43.22 E-value=41 Score=16.20 Aligned_cols=12 Identities=17% Similarity=0.168 Sum_probs=4.5
Q ss_pred HHHHHHHHHHHH
Q 037529 12 PCAGMSLVFIVY 23 (133)
Q Consensus 12 ~~~~~~~~~~~~ 23 (133)
..++++..+..|
T Consensus 16 t~~ILvFWfgvf 27 (34)
T PF08113_consen 16 TAFILVFWFGVF 27 (34)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 221
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=43.02 E-value=8 Score=28.39 Aligned_cols=21 Identities=14% Similarity=0.135 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 037529 6 ILALFLPCAGMSLVFIVYLSL 26 (133)
Q Consensus 6 ~l~~~~~~~~~~~~~~~~~~~ 26 (133)
+.+++++++.+++.+++.+++
T Consensus 150 IpaVVI~~iLLIA~iIa~icy 170 (290)
T PF05454_consen 150 IPAVVIAAILLIAGIIACICY 170 (290)
T ss_dssp ---------------------
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 344444444444444444443
No 222
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=42.78 E-value=20 Score=22.05 Aligned_cols=33 Identities=18% Similarity=0.325 Sum_probs=26.7
Q ss_pred cccccccccccCCCccccCCCCccccHHHHHHHHh
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS 107 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~ 107 (133)
.|.||-+++-.|+....++ +-.-|.+|+..=..
T Consensus 4 kC~iCg~~I~~gqlFTF~~--kG~VH~~C~~~~~~ 36 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTK--KGPVHYECFREKAS 36 (101)
T ss_pred EEEecCCeeeecceEEEec--CCcEeHHHHHHHHh
Confidence 5999999999999887775 36789999887543
No 223
>PRK01343 zinc-binding protein; Provisional
Probab=42.30 E-value=12 Score=20.50 Aligned_cols=12 Identities=25% Similarity=0.620 Sum_probs=9.3
Q ss_pred CCcccccccccc
Q 037529 109 HSVCPVCRAKLD 120 (133)
Q Consensus 109 ~~~CP~Cr~~v~ 120 (133)
...||+|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 357999999765
No 224
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=41.90 E-value=10 Score=17.38 Aligned_cols=10 Identities=60% Similarity=1.278 Sum_probs=5.5
Q ss_pred cccccccccc
Q 037529 111 VCPVCRAKLD 120 (133)
Q Consensus 111 ~CP~Cr~~v~ 120 (133)
.||.|.+.+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4999998876
No 225
>PLN02248 cellulose synthase-like protein
Probab=41.88 E-value=30 Score=30.26 Aligned_cols=29 Identities=17% Similarity=0.512 Sum_probs=25.6
Q ss_pred CCccccHHHHHHHHhCCCccccccccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
|++..|.+|...-++....||-|+.....
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred ccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 77899999999999999999999987643
No 226
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=41.65 E-value=10 Score=33.86 Aligned_cols=49 Identities=33% Similarity=0.647 Sum_probs=38.6
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHhCCC----ccccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS----VCPVCRAKL 119 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~----~CP~Cr~~v 119 (133)
....|.+|....++.+.+...- |.-.||..|+.+-+.... .||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3567999999987766666555 888999999999887543 799998754
No 227
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=41.05 E-value=9.8 Score=22.88 Aligned_cols=22 Identities=32% Similarity=0.785 Sum_probs=14.6
Q ss_pred CCccccHHHHHHHHhCCCcccccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVCRAK 118 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 118 (133)
||-.|-.+= ++.-+.||.|++.
T Consensus 64 CGfef~~~~----ik~pSRCP~CKSE 85 (97)
T COG3357 64 CGFEFRDDK----IKKPSRCPKCKSE 85 (97)
T ss_pred cCccccccc----cCCcccCCcchhh
Confidence 777776521 2235689999975
No 228
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=40.98 E-value=82 Score=19.04 Aligned_cols=13 Identities=8% Similarity=0.220 Sum_probs=4.9
Q ss_pred HHHHHHHHHHHHH
Q 037529 10 FLPCAGMSLVFIV 22 (133)
Q Consensus 10 ~~~~~~~~~~~~~ 22 (133)
+++.+++++++++
T Consensus 7 llL~l~LA~lLli 19 (95)
T PF07172_consen 7 LLLGLLLAALLLI 19 (95)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 229
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.86 E-value=16 Score=26.84 Aligned_cols=49 Identities=16% Similarity=0.460 Sum_probs=32.9
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCC-----------cccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS-----------VCPVCRAKLD 120 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~-----------~CP~Cr~~v~ 120 (133)
.-|.+|.|.+++.--+..-.-=.|-||.-|-.+-++.+. .||+=...|.
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vP 328 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVP 328 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCccc
Confidence 569999999988553321111259999999999887532 4676655543
No 230
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=40.68 E-value=36 Score=24.87 Aligned_cols=6 Identities=50% Similarity=0.517 Sum_probs=2.3
Q ss_pred HHHHHH
Q 037529 7 LALFLP 12 (133)
Q Consensus 7 l~~~~~ 12 (133)
+++.+.
T Consensus 234 lAiALG 239 (281)
T PF12768_consen 234 LAIALG 239 (281)
T ss_pred hHHHHH
Confidence 333333
No 231
>PF07095 IgaA: Intracellular growth attenuator protein IgaA; InterPro: IPR010771 This family consists of several bacterial intracellular growth attenuator (IgaA) proteins. IgaA is involved in negative control of bacterial proliferation within fibroblasts. IgaA is homologous to the Escherichia coli YrfF and Proteus mirabilis UmoB proteins. Whereas the biological function of YrfF is currently unknown, UmoB has been shown elsewhere to act as a positive regulator of FlhDC, the master regulator of flagella and swarming. FlhDC has been shown to repress cell division during P. mirabilis swarming, suggesting that UmoB could repress cell division via FlhDC. This biological function, if maintained in Salmonella enterica, could sustain a putative negative control of cell division and growth exerted by IgaA in intracellular bacteria [].; GO: 0009276 Gram-negative-bacterium-type cell wall, 0016021 integral to membrane
Probab=40.35 E-value=70 Score=26.52 Aligned_cols=10 Identities=30% Similarity=0.507 Sum_probs=4.0
Q ss_pred HHHHHhhccC
Q 037529 24 LSLLWCASND 33 (133)
Q Consensus 24 ~~~~~~~~~~ 33 (133)
..++|+++++
T Consensus 19 ~~~~~~r~~r 28 (705)
T PF07095_consen 19 GSFLWFRMRR 28 (705)
T ss_pred HHHHHHHhcc
Confidence 3333444443
No 232
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=40.21 E-value=7.6 Score=18.85 Aligned_cols=12 Identities=17% Similarity=0.551 Sum_probs=7.1
Q ss_pred cccccccccccc
Q 037529 72 TECAVCLDEVES 83 (133)
Q Consensus 72 ~~C~ICl~~~~~ 83 (133)
.+|+-|-..|..
T Consensus 3 ~~CP~C~~~~~v 14 (38)
T TIGR02098 3 IQCPNCKTSFRV 14 (38)
T ss_pred EECCCCCCEEEe
Confidence 356666666554
No 233
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=39.81 E-value=25 Score=30.46 Aligned_cols=51 Identities=24% Similarity=0.487 Sum_probs=32.9
Q ss_pred CcccccccccccccCC--Cccc-cCCCCccccHHHHHHHHhC-CCcccccccccc
Q 037529 70 MGTECAVCLDEVESEQ--PARL-VPGCNHGFHLQCADSWLSK-HSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~--~~~~-lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~ 120 (133)
+...|.||-++...+. ...+ -..|+--.|..|.+-=.+. ++.||-|++...
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4578999999975432 1222 1124455899998543333 568999998765
No 234
>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=39.75 E-value=13 Score=29.26 Aligned_cols=41 Identities=29% Similarity=0.609 Sum_probs=22.9
Q ss_pred cccccccccccccCCC-ccccCCCC-ccccHHHHHHHHhCCCccccccccccccccc
Q 037529 71 GTECAVCLDEVESEQP-ARLVPGCN-HGFHLQCADSWLSKHSVCPVCRAKLDSHFFN 125 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~-~~~lp~C~-H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~~~ 125 (133)
-.-|+-||+++...+. ...-. |. +.|- ||.|...+......
T Consensus 26 ~~yCp~CL~~~p~~e~~~~~nr-C~r~Cf~-------------CP~C~~~L~~~~~~ 68 (483)
T PF05502_consen 26 SYYCPNCLFEVPSSEARSEKNR-CSRNCFD-------------CPICFSPLSVRASD 68 (483)
T ss_pred eeECccccccCChhhheeccce-ecccccc-------------CCCCCCcceeEecc
Confidence 3568888888765431 11122 44 3343 88888776554433
No 235
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=39.61 E-value=78 Score=18.42 Aligned_cols=26 Identities=19% Similarity=0.272 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 037529 6 ILALFLPCAGMSLVFIVYLSLLWCAS 31 (133)
Q Consensus 6 ~l~~~~~~~~~~~~~~~~~~~~~~~~ 31 (133)
.++++..++....++++.+.++-+++
T Consensus 49 SIALl~~~~AfsgLL~lHLvv~~~r~ 74 (77)
T PF12292_consen 49 SIALLFFCFAFSGLLFLHLVVFPWRR 74 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555566666666555444443
No 236
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.57 E-value=20 Score=26.22 Aligned_cols=9 Identities=22% Similarity=1.065 Sum_probs=6.1
Q ss_pred Ccccccccc
Q 037529 110 SVCPVCRAK 118 (133)
Q Consensus 110 ~~CP~Cr~~ 118 (133)
..||.|+..
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 468888754
No 237
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=39.40 E-value=1.1e+02 Score=20.16 Aligned_cols=11 Identities=27% Similarity=0.389 Sum_probs=5.3
Q ss_pred CCCCHHHHhhC
Q 037529 50 GGLSASELDKL 60 (133)
Q Consensus 50 ~~~~~~~~~~~ 60 (133)
....+.++.+|
T Consensus 126 ~~~~~~eL~qL 136 (152)
T PF15361_consen 126 RKITDYELAQL 136 (152)
T ss_pred ccchHHHHHHH
Confidence 34455555443
No 238
>PTZ00208 65 kDa invariant surface glycoprotein; Provisional
Probab=38.90 E-value=25 Score=27.06 Aligned_cols=19 Identities=21% Similarity=0.661 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 037529 5 VILALFLPCAGMSLVFIVY 23 (133)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~ 23 (133)
+++++++..++++++...+
T Consensus 388 i~~avl~p~~il~~~~~~~ 406 (436)
T PTZ00208 388 IILAVLVPAIILAIIAVAF 406 (436)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4455555555555443333
No 239
>PF13994 PgaD: PgaD-like protein
Probab=38.66 E-value=93 Score=19.98 Aligned_cols=10 Identities=50% Similarity=0.846 Sum_probs=5.0
Q ss_pred CCCHHHHhhC
Q 037529 51 GLSASELDKL 60 (133)
Q Consensus 51 ~~~~~~~~~~ 60 (133)
+++.+.++++
T Consensus 111 ~l~~~~l~~l 120 (138)
T PF13994_consen 111 GLSPEQLQQL 120 (138)
T ss_pred CCCHHHHHHH
Confidence 4455555543
No 240
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=38.26 E-value=13 Score=18.52 Aligned_cols=14 Identities=29% Similarity=0.752 Sum_probs=9.7
Q ss_pred cccccccccccccc
Q 037529 111 VCPVCRAKLDSHFF 124 (133)
Q Consensus 111 ~CP~Cr~~v~~~~~ 124 (133)
.||.|+..+.....
T Consensus 1 ~CP~C~~~l~~~~~ 14 (41)
T PF13453_consen 1 KCPRCGTELEPVRL 14 (41)
T ss_pred CcCCCCcccceEEE
Confidence 48999887665444
No 241
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=37.74 E-value=11 Score=24.75 Aligned_cols=21 Identities=33% Similarity=0.920 Sum_probs=14.7
Q ss_pred CCccccHHHHHHHHhC-----------CCcccccccc
Q 037529 93 CNHGFHLQCADSWLSK-----------HSVCPVCRAK 118 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~-----------~~~CP~Cr~~ 118 (133)
+||.|- .|+.+ --+||+|-..
T Consensus 10 ~gH~FE-----gWF~ss~~fd~Q~~~glv~CP~Cgs~ 41 (148)
T PF06676_consen 10 NGHEFE-----GWFRSSAAFDRQQARGLVSCPVCGST 41 (148)
T ss_pred CCCccc-----eecCCHHHHHHHHHcCCccCCCCCCC
Confidence 678885 67653 1279999875
No 242
>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=37.68 E-value=6.6 Score=29.04 Aligned_cols=47 Identities=21% Similarity=0.337 Sum_probs=29.6
Q ss_pred cccccccccccccCCCcccc--C-CCCccccHHHHHHHHhCCCcccccccc
Q 037529 71 GTECAVCLDEVESEQPARLV--P-GCNHGFHLQCADSWLSKHSVCPVCRAK 118 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~l--p-~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 118 (133)
...||+|-..-..+. ++.. . +=.|.+|.-|-..|--.+..||.|..+
T Consensus 184 ~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 358999988742211 1110 1 122567777888886778899999874
No 243
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=37.52 E-value=17 Score=29.58 Aligned_cols=50 Identities=22% Similarity=0.440 Sum_probs=32.6
Q ss_pred CCCCcccccccccccccCCCccccCCCCccccHHHHHHHHh--------CCCcccccc
Q 037529 67 ELVMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS--------KHSVCPVCR 116 (133)
Q Consensus 67 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~--------~~~~CP~Cr 116 (133)
+..+..+|-.|-..|.....-.-..+||-+||..|-..-+. ..++|=.|-
T Consensus 161 dW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C~ 218 (634)
T KOG1818|consen 161 DWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSCY 218 (634)
T ss_pred ccccccccceeeeeeeeccccccccccchhhccCccccccCcccccccccceehhhhH
Confidence 44556899999999874331112225999999999776542 123677773
No 244
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=37.42 E-value=98 Score=26.21 Aligned_cols=6 Identities=33% Similarity=0.578 Sum_probs=2.3
Q ss_pred CHHHHh
Q 037529 53 SASELD 58 (133)
Q Consensus 53 ~~~~~~ 58 (133)
+...++
T Consensus 327 S~sh~n 332 (807)
T PF10577_consen 327 STSHIN 332 (807)
T ss_pred chhhhc
Confidence 333333
No 245
>PRK10220 hypothetical protein; Provisional
Probab=37.27 E-value=23 Score=22.02 Aligned_cols=26 Identities=27% Similarity=0.643 Sum_probs=14.8
Q ss_pred ccccccccccccCC-CccccCCCCccc
Q 037529 72 TECAVCLDEVESEQ-PARLVPGCNHGF 97 (133)
Q Consensus 72 ~~C~ICl~~~~~~~-~~~~lp~C~H~f 97 (133)
..||-|-.+|.-.+ ...+-|.|+|-+
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~hEW 30 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAHEW 30 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccCcC
Confidence 45888888876333 233334455544
No 246
>PHA02902 putative IMV membrane protein; Provisional
Probab=37.21 E-value=78 Score=17.73 Aligned_cols=6 Identities=17% Similarity=0.600 Sum_probs=2.2
Q ss_pred CCHHHH
Q 037529 52 LSASEL 57 (133)
Q Consensus 52 ~~~~~~ 57 (133)
++.+++
T Consensus 54 lTpDQi 59 (70)
T PHA02902 54 LTPDQI 59 (70)
T ss_pred CCHHHH
Confidence 333333
No 247
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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 family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=36.90 E-value=26 Score=24.87 Aligned_cols=21 Identities=29% Similarity=0.784 Sum_probs=13.2
Q ss_pred cHHHHHHHHhCCCcccccccc
Q 037529 98 HLQCADSWLSKHSVCPVCRAK 118 (133)
Q Consensus 98 h~~Ci~~wl~~~~~CP~Cr~~ 118 (133)
|.+|-++-=++-..||+|+..
T Consensus 197 C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hHhHHHHHhcCCCCCcccccc
Confidence 344444433556799999864
No 248
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=36.13 E-value=12 Score=18.04 Aligned_cols=13 Identities=23% Similarity=0.603 Sum_probs=8.5
Q ss_pred ccccccccccccc
Q 037529 111 VCPVCRAKLDSHF 123 (133)
Q Consensus 111 ~CP~Cr~~v~~~~ 123 (133)
.||.|.++|....
T Consensus 6 ~C~nC~R~v~a~R 18 (33)
T PF08209_consen 6 ECPNCGRPVAASR 18 (33)
T ss_dssp E-TTTSSEEEGGG
T ss_pred ECCCCcCCcchhh
Confidence 5888888776544
No 249
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=35.43 E-value=24 Score=19.09 Aligned_cols=9 Identities=33% Similarity=1.088 Sum_probs=7.1
Q ss_pred Ccccccccc
Q 037529 110 SVCPVCRAK 118 (133)
Q Consensus 110 ~~CP~Cr~~ 118 (133)
-.||-||+.
T Consensus 29 lyCpKCK~E 37 (55)
T PF14205_consen 29 LYCPKCKQE 37 (55)
T ss_pred ccCCCCCce
Confidence 369999985
No 250
>PF03839 Sec62: Translocation protein Sec62; InterPro: IPR004728 Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane
Probab=35.00 E-value=1e+02 Score=21.85 Aligned_cols=24 Identities=13% Similarity=0.335 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Q 037529 8 ALFLPCAGMSLVFIVYLSLLWCAS 31 (133)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~ 31 (133)
+++.++++++++-++.+++.|...
T Consensus 148 gll~~~~~laivRlilf~i~w~~~ 171 (224)
T PF03839_consen 148 GLLGLFFALAIVRLILFLITWFFT 171 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444555555555555555554
No 251
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=34.65 E-value=36 Score=22.12 Aligned_cols=41 Identities=17% Similarity=0.340 Sum_probs=23.1
Q ss_pred CCcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
.....||-|-..|...+...... . .....||.|...+....
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~d------------~--~~~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLLD------------M--DGTFTCPRCGEELEEDD 137 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhcC------------C--CCcEECCCCCCEEEEcC
Confidence 34567887777766433222110 0 12357999999886543
No 252
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=34.61 E-value=21 Score=22.90 Aligned_cols=19 Identities=26% Similarity=0.850 Sum_probs=14.4
Q ss_pred CCccccHHHHHHHHhCCCcccccccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
|+|-|| .++.||.|+.-+-
T Consensus 103 C~~~Y~---------GeK~C~~C~tGiY 121 (128)
T PF11682_consen 103 CGNHYH---------GEKYCPKCGTGIY 121 (128)
T ss_pred CCCccC---------cCEecCCCCCccc
Confidence 888888 3467999998653
No 253
>PF15018 InaF-motif: TRP-interacting helix
Probab=34.56 E-value=65 Score=16.03 Aligned_cols=14 Identities=21% Similarity=0.707 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHH
Q 037529 15 GMSLVFIVYLSLLW 28 (133)
Q Consensus 15 ~~~~~~~~~~~~~~ 28 (133)
..++++.+|+..+|
T Consensus 19 l~Ai~LsiYY~f~W 32 (38)
T PF15018_consen 19 LAAIVLSIYYIFFW 32 (38)
T ss_pred HHHHHHHHHHheee
Confidence 34455555655555
No 254
>COG3115 ZipA Cell division protein [Cell division and chromosome partitioning]
Probab=34.54 E-value=87 Score=23.28 Aligned_cols=25 Identities=20% Similarity=0.437 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccC
Q 037529 9 LFLPCAGMSLVFIVYLSLLWCASND 33 (133)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~ 33 (133)
.+++++|++++..+.+--+|.+|+.
T Consensus 6 ~ILIIvG~IAIiaLLvhGlWtsRkE 30 (324)
T COG3115 6 LILIIVGAIAIIALLVHGLWTSRKE 30 (324)
T ss_pred hHHHHHHHHHHHHHHHhhhhhcchh
Confidence 3444444444444444455665544
No 255
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=33.96 E-value=28 Score=24.71 Aligned_cols=21 Identities=33% Similarity=0.860 Sum_probs=13.5
Q ss_pred HHHHHHHHhCCCccccccccc
Q 037529 99 LQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 99 ~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
.+|-++-=++-..||+|+..-
T Consensus 253 lsChqqIHRNAPiCPlCKaKs 273 (286)
T KOG4451|consen 253 LSCHQQIHRNAPICPLCKAKS 273 (286)
T ss_pred HHHHHHHhcCCCCCcchhhcc
Confidence 444444435667999998753
No 256
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=33.72 E-value=1e+02 Score=19.32 Aligned_cols=19 Identities=37% Similarity=0.520 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 037529 5 VILALFLPCAGMSLVFIVY 23 (133)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~ 23 (133)
+.+++++++++.+.+++..
T Consensus 44 I~la~~Lli~G~~li~~g~ 62 (115)
T PF05915_consen 44 IALAVFLLIFGTVLIIIGL 62 (115)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4555555555554444333
No 257
>PF11014 DUF2852: Protein of unknown function (DUF2852); InterPro: IPR021273 This bacterial family of proteins has no known function.
Probab=33.68 E-value=1.1e+02 Score=19.26 Aligned_cols=22 Identities=14% Similarity=0.321 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 037529 5 VILALFLPCAGMSLVFIVYLSL 26 (133)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~~~~ 26 (133)
+++..|+++..+.+.++.|.++
T Consensus 14 ~mVlGFi~fWPlGla~Lay~iw 35 (115)
T PF11014_consen 14 AMVLGFIVFWPLGLALLAYMIW 35 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444555556666666653
No 258
>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=33.32 E-value=7.1 Score=20.41 Aligned_cols=24 Identities=29% Similarity=0.614 Sum_probs=13.1
Q ss_pred CCccccHHHHHHHHhCCCccccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
|||.|-..--.. -.....||.|..
T Consensus 11 Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 11 CGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred CCCEeEEEEecC-CCCCCCCCCCCC
Confidence 888776321000 012347999997
No 259
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=32.99 E-value=17 Score=26.76 Aligned_cols=32 Identities=25% Similarity=0.491 Sum_probs=24.3
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHH
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADS 104 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~ 104 (133)
..|.||+..-.+++.+..-- |.--||.-|+..
T Consensus 315 ~lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVGL 346 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCDV-CDRGPHTLCVGL 346 (381)
T ss_pred HhhhccCCcccchheecccc-ccCCCCcccccc
Confidence 55999999888777666554 888888888653
No 260
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=32.71 E-value=97 Score=18.49 Aligned_cols=13 Identities=15% Similarity=0.375 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHHH
Q 037529 13 CAGMSLVFIVYLS 25 (133)
Q Consensus 13 ~~~~~~~~~~~~~ 25 (133)
+++++++++.|+.
T Consensus 10 ~~~v~~~i~~y~~ 22 (87)
T PF10883_consen 10 VGAVVALILAYLW 22 (87)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333433
No 261
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=32.54 E-value=1.5e+02 Score=19.67 Aligned_cols=10 Identities=30% Similarity=0.414 Sum_probs=4.5
Q ss_pred CCCHHHHhhC
Q 037529 51 GLSASELDKL 60 (133)
Q Consensus 51 ~~~~~~~~~~ 60 (133)
+++.+.++++
T Consensus 109 ~l~~e~i~qL 118 (153)
T PRK14584 109 ALSPELIAQL 118 (153)
T ss_pred CCCHHHHHHH
Confidence 3444444443
No 262
>PHA02849 putative transmembrane protein; Provisional
Probab=32.07 E-value=1.1e+02 Score=17.87 Aligned_cols=19 Identities=16% Similarity=0.424 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 037529 7 LALFLPCAGMSLVFIVYLS 25 (133)
Q Consensus 7 l~~~~~~~~~~~~~~~~~~ 25 (133)
+.++++.+.+.+.+++|+.
T Consensus 20 i~v~v~vI~i~~flLlyLv 38 (82)
T PHA02849 20 ILVFVLVISFLAFMLLYLI 38 (82)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444443
No 263
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=31.91 E-value=1.6e+02 Score=22.74 Aligned_cols=17 Identities=24% Similarity=0.569 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 037529 9 LFLPCAGMSLVFIVYLS 25 (133)
Q Consensus 9 ~~~~~~~~~~~~~~~~~ 25 (133)
+..+++++.+++++.+.
T Consensus 25 v~~~~l~l~Ll~ll~yl 41 (406)
T PF04906_consen 25 VAAACLALSLLFLLIYL 41 (406)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444443433333
No 264
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=31.88 E-value=48 Score=20.14 Aligned_cols=34 Identities=18% Similarity=0.301 Sum_probs=27.4
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHh
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLS 107 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~ 107 (133)
-.|.||-+.+..|+....++ .-..|.+|+..=..
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 57999999999999887775 45679999887543
No 265
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=31.57 E-value=30 Score=24.76 Aligned_cols=40 Identities=23% Similarity=0.397 Sum_probs=29.4
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCC--ccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHS--VCP 113 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~--~CP 113 (133)
+..|+|-+..+..+ +.-. +|+|.|-.+-|...+.... .||
T Consensus 189 ~nrCpitl~p~~~p--ils~-kcnh~~e~D~I~~~lq~~~trvcp 230 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSS-KCNHKPEMDLINKKLQVECTRVCP 230 (275)
T ss_pred cccCCcccCcchhH--HHHh-hhcccccHHHHHHHhcCCceeecc
Confidence 46799999886542 3333 4999999999999988443 566
No 266
>PF12773 DZR: Double zinc ribbon
Probab=31.28 E-value=44 Score=17.05 Aligned_cols=13 Identities=31% Similarity=0.823 Sum_probs=8.3
Q ss_pred Ccccccccccccc
Q 037529 110 SVCPVCRAKLDSH 122 (133)
Q Consensus 110 ~~CP~Cr~~v~~~ 122 (133)
..||.|.+.+...
T Consensus 30 ~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 30 KICPNCGAENPPN 42 (50)
T ss_pred CCCcCCcCCCcCC
Confidence 4688887765443
No 267
>PF05810 NinF: NinF protein; InterPro: IPR008712 This family consists of several bacteriophage NinF proteins as well as related sequences from Escherichia coli.
Probab=31.20 E-value=46 Score=18.09 Aligned_cols=11 Identities=27% Similarity=0.812 Sum_probs=8.9
Q ss_pred ccHHHHHHHHh
Q 037529 97 FHLQCADSWLS 107 (133)
Q Consensus 97 fh~~Ci~~wl~ 107 (133)
-|.+|+..||.
T Consensus 34 ~Ce~C~~E~l~ 44 (58)
T PF05810_consen 34 VCEECCAEWLV 44 (58)
T ss_pred HHHHHHHHHHh
Confidence 35789999986
No 268
>PF12907 zf-met2: Zinc-binding
Probab=30.98 E-value=12 Score=18.85 Aligned_cols=11 Identities=27% Similarity=0.920 Sum_probs=7.3
Q ss_pred Ccccccccccc
Q 037529 110 SVCPVCRAKLD 120 (133)
Q Consensus 110 ~~CP~Cr~~v~ 120 (133)
..|++||+.+.
T Consensus 2 i~C~iC~qtF~ 12 (40)
T PF12907_consen 2 IICKICRQTFM 12 (40)
T ss_pred cCcHHhhHHHH
Confidence 35888886543
No 269
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=30.81 E-value=43 Score=19.47 Aligned_cols=24 Identities=25% Similarity=0.713 Sum_probs=18.7
Q ss_pred cccCCCccccCCCCccccHHHHHHH
Q 037529 81 VESEQPARLVPGCNHGFHLQCADSW 105 (133)
Q Consensus 81 ~~~~~~~~~lp~C~H~fh~~Ci~~w 105 (133)
+..++.+.+.|.|.|.| ..|..++
T Consensus 41 ~~~G~~v~l~~GCDkt~-~tC~~kF 64 (80)
T PF09356_consen 41 LAVGDTVTLYPGCDKTF-ATCRAKF 64 (80)
T ss_pred CCCCCEEEEEeCCCCCH-HHHHHHh
Confidence 45677788888999988 7887665
No 270
>PHA02657 hypothetical protein; Provisional
Probab=30.70 E-value=1.2e+02 Score=18.01 Aligned_cols=18 Identities=17% Similarity=0.525 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 037529 8 ALFLPCAGMSLVFIVYLS 25 (133)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~ 25 (133)
.++++.+.+.+.+++|+.
T Consensus 31 tvfv~vI~il~flLLYLv 48 (95)
T PHA02657 31 TIFIFVVCILIYLLIYLV 48 (95)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444444443
No 271
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=30.06 E-value=29 Score=28.43 Aligned_cols=47 Identities=23% Similarity=0.563 Sum_probs=29.1
Q ss_pred ccccccccccc--cCCCccccCCCCccccHHHHHHHHhC-----CCccccccccc
Q 037529 72 TECAVCLDEVE--SEQPARLVPGCNHGFHLQCADSWLSK-----HSVCPVCRAKL 119 (133)
Q Consensus 72 ~~C~ICl~~~~--~~~~~~~lp~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~v 119 (133)
..|++|-..=+ .+-.+..-. ||-.+|..|+..|+.. .-.||-||.-.
T Consensus 19 ~mc~l~~s~G~~~ag~m~ac~~-c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 19 LMCPLCGSSGKGRAGRLLACSD-CGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhhhhhccccccccCcchhhhh-hcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 44666543311 222333444 8899999999999753 33688888644
No 272
>PF05795 Plasmodium_Vir: Plasmodium vivax Vir protein; InterPro: IPR008780 This family consists of several Vir proteins specific to the genus Plasmodium and Plasmodium vivax in particular. The vir genes are present at about 600-1,000 copies per haploid genome and encode proteins that are immunovariant in natural infections, indicating that they may have a functional role in establishing chronic infection through antigenic variation [].
Probab=29.85 E-value=59 Score=23.78 Aligned_cols=15 Identities=13% Similarity=0.186 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q 037529 10 FLPCAGMSLVFIVYL 24 (133)
Q Consensus 10 ~~~~~~~~~~~~~~~ 24 (133)
+.++.++++++++|-
T Consensus 289 ~~~~G~~~~~f~LYK 303 (354)
T PF05795_consen 289 LSVLGIPLIFFLLYK 303 (354)
T ss_pred hhhHHHHHHHHHHhc
Confidence 333333444444444
No 273
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements. The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.
Probab=29.60 E-value=13 Score=26.56 Aligned_cols=16 Identities=31% Similarity=1.080 Sum_probs=8.0
Q ss_pred HHHHhCCCcccccccc
Q 037529 103 DSWLSKHSVCPVCRAK 118 (133)
Q Consensus 103 ~~wl~~~~~CP~Cr~~ 118 (133)
+.|+..+..||.|-..
T Consensus 25 E~Wv~~n~yCP~Cg~~ 40 (254)
T PF06044_consen 25 EDWVAENMYCPNCGSK 40 (254)
T ss_dssp HHHHHHH---TTT--S
T ss_pred HHHHHHCCcCCCCCCh
Confidence 6677777777777765
No 274
>PLN02195 cellulose synthase A
Probab=29.46 E-value=54 Score=28.36 Aligned_cols=52 Identities=21% Similarity=0.401 Sum_probs=33.7
Q ss_pred CCcccccccccccccCC---CccccCCCCccccHHHHHHHHhC-CCcccccccccc
Q 037529 69 VMGTECAVCLDEVESEQ---PARLVPGCNHGFHLQCADSWLSK-HSVCPVCRAKLD 120 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~---~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~ 120 (133)
++...|.||-++...+. ...--..|+--.|+.|.+==-+. ++.||-|++...
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 44678999999875433 22211126666899998443222 458999998766
No 275
>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=29.37 E-value=18 Score=14.98 Aligned_cols=11 Identities=36% Similarity=1.071 Sum_probs=6.7
Q ss_pred ccccccccccc
Q 037529 111 VCPVCRAKLDS 121 (133)
Q Consensus 111 ~CP~Cr~~v~~ 121 (133)
.||.|.+.+..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 47777765543
No 276
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=28.91 E-value=63 Score=15.92 Aligned_cols=33 Identities=27% Similarity=0.498 Sum_probs=23.4
Q ss_pred cccccccccccccCC-CccccCCCCccccHHHHHH
Q 037529 71 GTECAVCLDEVESEQ-PARLVPGCNHGFHLQCADS 104 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~ 104 (133)
...|.+|.+.+.... ...-.. |+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~-C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSW-CKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCC-CCchHHHHHHhh
Confidence 456999998877532 344444 888899999876
No 277
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.87 E-value=23 Score=20.71 Aligned_cols=11 Identities=27% Similarity=0.558 Sum_probs=7.5
Q ss_pred ccccccccccc
Q 037529 73 ECAVCLDEVES 83 (133)
Q Consensus 73 ~C~ICl~~~~~ 83 (133)
.||||--++..
T Consensus 3 lCP~C~v~l~~ 13 (88)
T COG3809 3 LCPICGVELVM 13 (88)
T ss_pred ccCcCCceeee
Confidence 48888776553
No 278
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=28.86 E-value=81 Score=25.42 Aligned_cols=8 Identities=25% Similarity=0.629 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 037529 3 VSVILALF 10 (133)
Q Consensus 3 ~~~~l~~~ 10 (133)
+.++++++
T Consensus 3 ~~~ii~i~ 10 (569)
T PRK04778 3 IYLIIAIV 10 (569)
T ss_pred hhHHHHHH
Confidence 33333333
No 279
>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=28.21 E-value=27 Score=18.08 Aligned_cols=34 Identities=26% Similarity=0.347 Sum_probs=22.9
Q ss_pred Cccccccccccc--ccCCCccccCCCCccccHHHHHH
Q 037529 70 MGTECAVCLDEV--ESEQPARLVPGCNHGFHLQCADS 104 (133)
Q Consensus 70 ~~~~C~ICl~~~--~~~~~~~~lp~C~H~fh~~Ci~~ 104 (133)
....|..|-+.+ ...+..+-.. |+-..|++|.+.
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~-C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSW-CGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETT-TT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECC-CCChHhhhhhhh
Confidence 456799999988 3344455555 999999999655
No 280
>CHL00008 petG cytochrome b6/f complex subunit V
Probab=28.14 E-value=85 Score=15.39 Aligned_cols=8 Identities=13% Similarity=-0.006 Sum_probs=3.0
Q ss_pred HHHHHhhc
Q 037529 24 LSLLWCAS 31 (133)
Q Consensus 24 ~~~~~~~~ 31 (133)
..+..++|
T Consensus 24 aAylQYrR 31 (37)
T CHL00008 24 TAYLQYRR 31 (37)
T ss_pred HHHHHHhh
Confidence 33333333
No 281
>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=28.00 E-value=24 Score=14.36 Aligned_cols=10 Identities=30% Similarity=1.085 Sum_probs=4.5
Q ss_pred cccccccccc
Q 037529 111 VCPVCRAKLD 120 (133)
Q Consensus 111 ~CP~Cr~~v~ 120 (133)
.||.|...+.
T Consensus 2 ~C~~C~~~~~ 11 (24)
T PF13894_consen 2 QCPICGKSFR 11 (24)
T ss_dssp E-SSTS-EES
T ss_pred CCcCCCCcCC
Confidence 3677765543
No 282
>PRK00665 petG cytochrome b6-f complex subunit PetG; Reviewed
Probab=27.83 E-value=87 Score=15.36 Aligned_cols=8 Identities=0% Similarity=-0.313 Sum_probs=3.0
Q ss_pred HHHHHhhc
Q 037529 24 LSLLWCAS 31 (133)
Q Consensus 24 ~~~~~~~~ 31 (133)
..+..++|
T Consensus 24 aAylQYrR 31 (37)
T PRK00665 24 AAWNQYKR 31 (37)
T ss_pred HHHHHHhc
Confidence 33333333
No 283
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=27.41 E-value=31 Score=19.02 Aligned_cols=15 Identities=20% Similarity=0.328 Sum_probs=11.7
Q ss_pred cCCCccccCCCCcccc
Q 037529 83 SEQPARLVPGCNHGFH 98 (133)
Q Consensus 83 ~~~~~~~lp~C~H~fh 98 (133)
+++-+..|. |||.=|
T Consensus 8 e~hWVA~L~-CGH~QH 22 (61)
T PF12088_consen 8 EGHWVAELS-CGHTQH 22 (61)
T ss_pred cCCEEEEec-cccccc
Confidence 456788898 998766
No 284
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=27.40 E-value=1.7e+02 Score=23.49 Aligned_cols=13 Identities=23% Similarity=0.383 Sum_probs=7.8
Q ss_pred ccH-HHHHHHHhCC
Q 037529 97 FHL-QCADSWLSKH 109 (133)
Q Consensus 97 fh~-~Ci~~wl~~~ 109 (133)
||. .++..||+.+
T Consensus 289 fh~kGsL~dyL~~n 302 (534)
T KOG3653|consen 289 FHPKGSLCDYLKAN 302 (534)
T ss_pred eccCCcHHHHHHhc
Confidence 554 3677777654
No 285
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.13 E-value=34 Score=21.96 Aligned_cols=25 Identities=24% Similarity=0.868 Sum_probs=16.1
Q ss_pred cccHHHHHHHHhCCCccccccccccccc
Q 037529 96 GFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 96 ~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
.||..|-..-+ .+||.|..++--..
T Consensus 29 afcskcgeati---~qcp~csasirgd~ 53 (160)
T COG4306 29 AFCSKCGEATI---TQCPICSASIRGDY 53 (160)
T ss_pred HHHhhhchHHH---hcCCccCCcccccc
Confidence 47777755532 35999998875433
No 286
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=27.09 E-value=1e+02 Score=19.40 Aligned_cols=7 Identities=29% Similarity=0.297 Sum_probs=2.6
Q ss_pred CCHHHHh
Q 037529 52 LSASELD 58 (133)
Q Consensus 52 ~~~~~~~ 58 (133)
.+-++++
T Consensus 104 KdIdeLK 110 (128)
T PF15145_consen 104 KDIDELK 110 (128)
T ss_pred CCHHHHH
Confidence 3333333
No 287
>TIGR02523 type_IV_pilV type IV pilus modification protein PilV. Pilus systems categorized as type IV pilins differ greatly from one another, with some showing greater similarty to type II or type III secretion systems than to each other. Members of this protein family represent the PilV protein of type IV pilus systems as found in Pseudomonas aeruginosa PAO1, Pseudomonas syringae DC3000, Neisseria meningitidis MC58, Xylella fastidiosa 9a5c, etc.
Probab=27.04 E-value=1.8e+02 Score=18.79 Aligned_cols=24 Identities=21% Similarity=0.359 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 037529 2 IVSVILALFLPCAGMSLVFIVYLS 25 (133)
Q Consensus 2 i~~~~l~~~~~~~~~~~~~~~~~~ 25 (133)
++-++++++++.++++.++.+...
T Consensus 6 LIEvLVAl~Ilaigllg~~~~~~~ 29 (139)
T TIGR02523 6 MIEVLVALLVLAIGVLGMAALQLK 29 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677777777666666655543
No 288
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=26.84 E-value=11 Score=29.23 Aligned_cols=13 Identities=38% Similarity=0.608 Sum_probs=6.4
Q ss_pred ccccccccccccc
Q 037529 111 VCPVCRAKLDSHF 123 (133)
Q Consensus 111 ~CP~Cr~~v~~~~ 123 (133)
+|=+|.+.++-..
T Consensus 362 ~Cv~C~r~ldgip 374 (468)
T KOG1701|consen 362 TCVVCARCLDGIP 374 (468)
T ss_pred EEEEeccccCCcc
Confidence 4555555554433
No 289
>PF14851 FAM176: FAM176 family
Probab=26.68 E-value=1.9e+02 Score=19.21 Aligned_cols=15 Identities=27% Similarity=0.483 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHH
Q 037529 11 LPCAGMSLVFIVYLS 25 (133)
Q Consensus 11 ~~~~~~~~~~~~~~~ 25 (133)
.+++|+++.+.+++.
T Consensus 29 gVC~GLlLtLcllV~ 43 (153)
T PF14851_consen 29 GVCAGLLLTLCLLVI 43 (153)
T ss_pred HHHHHHHHHHHHHHh
Confidence 344444444444433
No 290
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=26.66 E-value=31 Score=23.29 Aligned_cols=30 Identities=20% Similarity=0.526 Sum_probs=20.0
Q ss_pred ccccc---cccccCCCccccCCCCccccHHHHHH
Q 037529 74 CAVCL---DEVESEQPARLVPGCNHGFHLQCADS 104 (133)
Q Consensus 74 C~ICl---~~~~~~~~~~~lp~C~H~fh~~Ci~~ 104 (133)
|..|. ++...|..+.... |.-.||+.||-.
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQG-Cs~sYHk~CLG~ 34 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQG-CSSSYHKACLGP 34 (175)
T ss_pred cccccCCCCCccCCCeEEcCc-cChHHHhhhcCC
Confidence 56664 4555555555554 888899999865
No 291
>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=26.17 E-value=26 Score=17.11 Aligned_cols=27 Identities=22% Similarity=0.564 Sum_probs=16.0
Q ss_pred CCCccccHHHHHHHHhCCCcccccccccc
Q 037529 92 GCNHGFHLQCADSWLSKHSVCPVCRAKLD 120 (133)
Q Consensus 92 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 120 (133)
.||++||..=--+ +....|..|...|.
T Consensus 6 ~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 6 KCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp TTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CCCCccccccCCC--CCCCccCCCCCeeE
Confidence 4999999321111 22457888877654
No 292
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=26.13 E-value=43 Score=28.46 Aligned_cols=32 Identities=19% Similarity=0.386 Sum_probs=24.3
Q ss_pred ccccccccccccC--------CCccccCCCCccccHHHHHHHH
Q 037529 72 TECAVCLDEVESE--------QPARLVPGCNHGFHLQCADSWL 106 (133)
Q Consensus 72 ~~C~ICl~~~~~~--------~~~~~lp~C~H~fh~~Ci~~wl 106 (133)
..|..|-..|..- -++| +||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCR---kCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCR---SCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCccccccccccccccccc---CCccccCccccCCcc
Confidence 5699999999632 2344 399999999987654
No 293
>PRK13665 hypothetical protein; Provisional
Probab=26.12 E-value=1.9e+02 Score=21.33 Aligned_cols=7 Identities=29% Similarity=0.662 Sum_probs=3.4
Q ss_pred HHHHhhc
Q 037529 25 SLLWCAS 31 (133)
Q Consensus 25 ~~~~~~~ 31 (133)
.-+|...
T Consensus 27 ~~lWi~A 33 (316)
T PRK13665 27 VGLWISA 33 (316)
T ss_pred HHHHHHH
Confidence 3455554
No 294
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=25.95 E-value=39 Score=22.32 Aligned_cols=6 Identities=33% Similarity=1.237 Sum_probs=4.0
Q ss_pred ccccccc
Q 037529 74 CAVCLDE 80 (133)
Q Consensus 74 C~ICl~~ 80 (133)
| +|.++
T Consensus 114 C-~c~eD 119 (153)
T KOG3352|consen 114 C-GCEED 119 (153)
T ss_pred e-cccCC
Confidence 6 66665
No 295
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=25.73 E-value=35 Score=18.63 Aligned_cols=24 Identities=17% Similarity=0.205 Sum_probs=13.5
Q ss_pred ccccccccccCCCccccCCCCccccHH
Q 037529 74 CAVCLDEVESEQPARLVPGCNHGFHLQ 100 (133)
Q Consensus 74 C~ICl~~~~~~~~~~~lp~C~H~fh~~ 100 (133)
|..|... .++...-|. |||+++..
T Consensus 1 C~~C~~~--~~~lw~CL~-Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGST--NSNLWLCLT-CGYVGCGR 24 (63)
T ss_dssp -SSSHTC--SSSEEEETT-TS-EEETT
T ss_pred CCCCCCc--CCceEEeCC-CCcccccC
Confidence 4555544 334455676 99998864
No 296
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=25.61 E-value=34 Score=17.16 Aligned_cols=33 Identities=33% Similarity=0.522 Sum_probs=22.6
Q ss_pred ccccccccccccc--CCCccccCCCCccccHHHHHH
Q 037529 71 GTECAVCLDEVES--EQPARLVPGCNHGFHLQCADS 104 (133)
Q Consensus 71 ~~~C~ICl~~~~~--~~~~~~lp~C~H~fh~~Ci~~ 104 (133)
...|.+|.+.+.. .+..+-.. |+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~-C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSW-CKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCC-CCCchhhhhhcc
Confidence 3569999888764 23444444 888889888654
No 297
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=25.24 E-value=43 Score=16.99 Aligned_cols=12 Identities=25% Similarity=0.611 Sum_probs=8.3
Q ss_pred Cccccccccccc
Q 037529 110 SVCPVCRAKLDS 121 (133)
Q Consensus 110 ~~CP~Cr~~v~~ 121 (133)
..||.|...+.-
T Consensus 22 ~~Cp~CG~~~~~ 33 (46)
T PRK00398 22 VRCPYCGYRILF 33 (46)
T ss_pred eECCCCCCeEEE
Confidence 468888876653
No 298
>PF02529 PetG: Cytochrome B6-F complex subunit 5; InterPro: IPR003683 This family consists of cytochrome b6/f complex subunit 5 (PetG). The cytochrome bf complex, found in green plants, eukaryotic algae and cyanobacteria, connects photosystem I to photosystem II in the electron transport chain, functioning as a plastoquinol:plastocyanin/cytochrome c6 oxidoreductase []. The purified complex from the unicellular alga Chlamydomonas reinhardtii contains seven subunits; namely four high molecular weight subunits (cytochrome f, Rieske iron-sulphur protein, cytochrome b6, and subunit IV) and three approximately miniproteins (PetG, PetL, and PetX) []. Stoichiometry measurements are consistent with every subunit being present as two copies per b6/f dimer. The absence of PetG affects either the assembly or stability of the cytochrome bf complex in C. reinhardtii [].; GO: 0009512 cytochrome b6f complex; PDB: 1Q90_G 2ZT9_G 1VF5_G 2D2C_G 2E74_G 2E75_G 2E76_G.
Probab=25.17 E-value=1e+02 Score=15.20 Aligned_cols=25 Identities=12% Similarity=0.049 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 037529 7 LALFLPCAGMSLVFIVYLSLLWCAS 31 (133)
Q Consensus 7 l~~~~~~~~~~~~~~~~~~~~~~~~ 31 (133)
..+++..+.+.+.-++...+..++|
T Consensus 7 ~GiVlGli~vtl~Glfv~Ay~QY~R 31 (37)
T PF02529_consen 7 SGIVLGLIPVTLAGLFVAAYLQYRR 31 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred hhHHHHhHHHHHHHHHHHHHHHHhc
Confidence 3344433333333333333333333
No 299
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=25.16 E-value=44 Score=14.75 Aligned_cols=8 Identities=50% Similarity=1.248 Sum_probs=4.1
Q ss_pred Cccccccc
Q 037529 110 SVCPVCRA 117 (133)
Q Consensus 110 ~~CP~Cr~ 117 (133)
..||.|-+
T Consensus 17 ~fC~~CG~ 24 (26)
T PF13248_consen 17 KFCPNCGA 24 (26)
T ss_pred ccChhhCC
Confidence 45555544
No 300
>PF15106 TMEM156: TMEM156 protein family
Probab=25.11 E-value=1.6e+02 Score=20.76 Aligned_cols=19 Identities=21% Similarity=0.308 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 037529 7 LALFLPCAGMSLVFIVYLS 25 (133)
Q Consensus 7 l~~~~~~~~~~~~~~~~~~ 25 (133)
..++++++++.+++++|-+
T Consensus 179 YvLVllVfiflii~iI~KI 197 (226)
T PF15106_consen 179 YVLVLLVFIFLIILIIYKI 197 (226)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444555555544
No 301
>PRK10525 cytochrome o ubiquinol oxidase subunit II; Provisional
Probab=25.06 E-value=44 Score=24.91 Aligned_cols=10 Identities=30% Similarity=0.584 Sum_probs=6.6
Q ss_pred HHHHHHHHhC
Q 037529 99 LQCADSWLSK 108 (133)
Q Consensus 99 ~~Ci~~wl~~ 108 (133)
.+-.++|+.+
T Consensus 228 ~~~F~~Wv~~ 237 (315)
T PRK10525 228 RAEFDQWVAK 237 (315)
T ss_pred HHHHHHHHHH
Confidence 3567788754
No 302
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.81 E-value=37 Score=17.29 Aligned_cols=12 Identities=33% Similarity=1.021 Sum_probs=8.0
Q ss_pred CCcccccccccc
Q 037529 109 HSVCPVCRAKLD 120 (133)
Q Consensus 109 ~~~CP~Cr~~v~ 120 (133)
...||+|.++++
T Consensus 8 ~K~C~~C~rpf~ 19 (42)
T PF10013_consen 8 SKICPVCGRPFT 19 (42)
T ss_pred CCcCcccCCcch
Confidence 356888877654
No 303
>PRK11827 hypothetical protein; Provisional
Probab=24.76 E-value=28 Score=19.20 Aligned_cols=19 Identities=37% Similarity=0.588 Sum_probs=12.9
Q ss_pred HHHhCCCcccccccccccc
Q 037529 104 SWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 104 ~wl~~~~~CP~Cr~~v~~~ 122 (133)
+||..--.||.|+..+...
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 4445555799999887643
No 304
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=24.70 E-value=2e+02 Score=19.35 Aligned_cols=26 Identities=8% Similarity=0.234 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccC
Q 037529 8 ALFLPCAGMSLVFIVYLSLLWCASND 33 (133)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 33 (133)
.+++.+.+++++++++-.++.+++.+
T Consensus 99 ~Vl~g~s~l~i~yfvir~~R~r~~~r 124 (163)
T PF06679_consen 99 YVLVGLSALAILYFVIRTFRLRRRNR 124 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccccc
Confidence 33333444444444444444554433
No 305
>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=24.68 E-value=28 Score=15.99 Aligned_cols=28 Identities=21% Similarity=0.525 Sum_probs=14.4
Q ss_pred cccccccccccCCCccccCCCCccccHHH
Q 037529 73 ECAVCLDEVESEQPARLVPGCNHGFHLQC 101 (133)
Q Consensus 73 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~C 101 (133)
.|.+|-.+.....--.-.. |+..+|..|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~-c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSE-CCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCEeEEeCC-CCCeEcCcc
Confidence 4677765544432122233 666677665
No 306
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=24.66 E-value=41 Score=24.58 Aligned_cols=22 Identities=9% Similarity=0.123 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 037529 10 FLPCAGMSLVFIVYLSLLWCAS 31 (133)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~ 31 (133)
+.+.+++.+++.+..+++.+.+
T Consensus 234 lAiALG~v~ll~l~Gii~~~~~ 255 (281)
T PF12768_consen 234 LAIALGTVFLLVLIGIILAYIR 255 (281)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444333333333
No 307
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=24.48 E-value=32 Score=21.58 Aligned_cols=31 Identities=29% Similarity=0.649 Sum_probs=16.6
Q ss_pred CCCCc---cccHHHHHHHHhCCC---ccccccccccc
Q 037529 91 PGCNH---GFHLQCADSWLSKHS---VCPVCRAKLDS 121 (133)
Q Consensus 91 p~C~H---~fh~~Ci~~wl~~~~---~CP~Cr~~v~~ 121 (133)
|+||| .||.--...-=+.+. +||-|+.....
T Consensus 78 pkCghe~m~Y~T~QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 78 PKCGHEEMSYHTLQLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred cccCCchhhhhhhhcccccCCceEEEEcCccceeeec
Confidence 35887 477544333211111 69999876543
No 308
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=24.35 E-value=16 Score=20.38 Aligned_cols=15 Identities=40% Similarity=1.170 Sum_probs=9.7
Q ss_pred Ccccccccc-cccccc
Q 037529 110 SVCPVCRAK-LDSHFF 124 (133)
Q Consensus 110 ~~CP~Cr~~-v~~~~~ 124 (133)
..||.|..+ ++..+.
T Consensus 19 e~CP~Cgs~~~te~W~ 34 (64)
T COG2093 19 EICPVCGSTDLTEEWF 34 (64)
T ss_pred ccCCCCCCcccchhhc
Confidence 358888876 555544
No 309
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.30 E-value=50 Score=27.29 Aligned_cols=43 Identities=21% Similarity=0.420 Sum_probs=30.2
Q ss_pred cccccccccccc-cCCCccccCCCCccccHHHHHHHHhCCCccccccc
Q 037529 71 GTECAVCLDEVE-SEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 71 ~~~C~ICl~~~~-~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
...|-+|...=. +.+..+.+. |+-.||..|-.. -.+.||+|--
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~-C~~~~C~~c~~~---~~~~~~vC~~ 697 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTF-CYTPYCVACSLD---YASISEVCGP 697 (717)
T ss_pred HHHHHHhcCCcCccccccCccc-cCCcchHhhhhh---hhccCcccCc
Confidence 366888887644 344566665 999999887444 5778999953
No 310
>PF13706 PepSY_TM_3: PepSY-associated TM helix
Probab=24.29 E-value=1e+02 Score=14.91 Aligned_cols=15 Identities=27% Similarity=0.235 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHHH
Q 037529 5 VILALFLPCAGMSLV 19 (133)
Q Consensus 5 ~~l~~~~~~~~~~~~ 19 (133)
+++++++++..+...
T Consensus 13 l~~g~~l~~~~~tG~ 27 (37)
T PF13706_consen 13 LILGLLLFVIFLTGA 27 (37)
T ss_pred HHHHHHHHHHHHHhH
Confidence 334444444343333
No 311
>PLN02400 cellulose synthase
Probab=24.24 E-value=44 Score=29.19 Aligned_cols=51 Identities=20% Similarity=0.481 Sum_probs=31.9
Q ss_pred CcccccccccccccCC--Ccccc-CCCCccccHHHHHHHHh-CCCcccccccccc
Q 037529 70 MGTECAVCLDEVESEQ--PARLV-PGCNHGFHLQCADSWLS-KHSVCPVCRAKLD 120 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~--~~~~l-p~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~v~ 120 (133)
+...|-||-+++..+. ++.+- -.|+-=-|..|.+-=-+ .++.||-||+...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 4578999999975332 22221 12444489999843222 2458999998765
No 312
>PRK02935 hypothetical protein; Provisional
Probab=24.08 E-value=1.9e+02 Score=17.99 Aligned_cols=15 Identities=20% Similarity=0.483 Sum_probs=10.2
Q ss_pred CCCcccccccccccc
Q 037529 108 KHSVCPVCRAKLDSH 122 (133)
Q Consensus 108 ~~~~CP~Cr~~v~~~ 122 (133)
+-..|..|+++++-.
T Consensus 85 rvD~CM~C~~PLTLd 99 (110)
T PRK02935 85 RVDACMHCNQPLTLD 99 (110)
T ss_pred ceeecCcCCCcCCcC
Confidence 444688888877653
No 313
>KOG3637 consensus Vitronectin receptor, alpha subunit [Extracellular structures]
Probab=24.06 E-value=73 Score=27.87 Aligned_cols=22 Identities=14% Similarity=0.187 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 037529 3 VSVILALFLPCAGMSLVFIVYL 24 (133)
Q Consensus 3 ~~~~l~~~~~~~~~~~~~~~~~ 24 (133)
++++++++...++++++.++.+
T Consensus 979 wiIi~svl~GLLlL~llv~~Lw 1000 (1030)
T KOG3637|consen 979 WIIILSVLGGLLLLALLVLLLW 1000 (1030)
T ss_pred eeehHHHHHHHHHHHHHHHHHH
Confidence 3445555554444444443333
No 314
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=24.06 E-value=11 Score=22.96 Aligned_cols=50 Identities=16% Similarity=0.303 Sum_probs=13.9
Q ss_pred ccccccccccccCC-CccccCCCCccccHHHHHHHHhC---CCcccccccccccc
Q 037529 72 TECAVCLDEVESEQ-PARLVPGCNHGFHLQCADSWLSK---HSVCPVCRAKLDSH 122 (133)
Q Consensus 72 ~~C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~~~ 122 (133)
+.|++|-+.+...+ ...+-+ =||.|-.=.+.-..-. -..|++|.+.....
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~-~GH~w~RC~lT~l~i~~~~~r~C~~C~~~~l~~ 68 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCE-NGHVWPRCALTFLPIQTPGVRVCPVCGRRALDP 68 (99)
T ss_dssp --------------SSEEE-T-TS-EEEB-SSS-SBS-SS-EEE-TTT--EEE-G
T ss_pred ccccccccccccCCcCEeECC-CCCEEeeeeeeeeeeccCCeeEcCCCCCEEecC
Confidence 67999999876444 333333 4798864333332111 14799999875443
No 315
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=23.95 E-value=32 Score=18.98 Aligned_cols=10 Identities=50% Similarity=1.258 Sum_probs=7.9
Q ss_pred cccccccccc
Q 037529 111 VCPVCRAKLD 120 (133)
Q Consensus 111 ~CP~Cr~~v~ 120 (133)
.||.||..+.
T Consensus 10 aCP~~kg~L~ 19 (60)
T COG2835 10 ACPVCKGPLV 19 (60)
T ss_pred eccCcCCcce
Confidence 5999998753
No 316
>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins. The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].
Probab=23.84 E-value=55 Score=22.77 Aligned_cols=18 Identities=6% Similarity=0.043 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHhhccC
Q 037529 16 MSLVFIVYLSLLWCASND 33 (133)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~ 33 (133)
+.++++++..+....|+.
T Consensus 112 lLla~~~~~~Y~~~~Rrs 129 (202)
T PF06365_consen 112 LLLAILLGAGYCCHQRRS 129 (202)
T ss_pred HHHHHHHHHHHHhhhhcc
Confidence 444444555555554444
No 317
>COG3671 Predicted membrane protein [Function unknown]
Probab=23.69 E-value=2.1e+02 Score=18.27 Aligned_cols=19 Identities=32% Similarity=0.551 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 037529 4 SVILALFLPCAGMSLVFIV 22 (133)
Q Consensus 4 ~~~l~~~~~~~~~~~~~~~ 22 (133)
..++++++..+++.++++.
T Consensus 76 ~~iIg~Llt~lgiGv~i~~ 94 (125)
T COG3671 76 WWIIGLLLTFLGIGVVILV 94 (125)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444443333
No 318
>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=31 Score=16.56 Aligned_cols=17 Identities=29% Similarity=0.772 Sum_probs=8.0
Q ss_pred CCccccHHHHHHHHhCCCccccccc
Q 037529 93 CNHGFHLQCADSWLSKHSVCPVCRA 117 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~~~~~CP~Cr~ 117 (133)
||++++ -....||-|..
T Consensus 17 Cg~~~~--------pPr~~Cp~C~s 33 (37)
T PF12172_consen 17 CGRVQF--------PPRPVCPHCGS 33 (37)
T ss_dssp T--EEE--------S--SEETTTT-
T ss_pred CCCEec--------CCCcCCCCcCc
Confidence 777655 23567888853
No 319
>PF11337 DUF3139: Protein of unknown function (DUF3139); InterPro: IPR021486 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=23.32 E-value=36 Score=19.90 Aligned_cols=13 Identities=23% Similarity=0.509 Sum_probs=7.1
Q ss_pred CCCCCHHHHhhCC
Q 037529 49 EGGLSASELDKLP 61 (133)
Q Consensus 49 ~~~~~~~~~~~~~ 61 (133)
++|..++.++...
T Consensus 46 e~gy~e~~I~~i~ 58 (85)
T PF11337_consen 46 EQGYKESDIKSIK 58 (85)
T ss_pred HcCCcHHHhhhhh
Confidence 4566666665533
No 320
>COG4967 PilV Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=23.21 E-value=2.4e+02 Score=18.92 Aligned_cols=22 Identities=18% Similarity=0.338 Sum_probs=14.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 037529 2 IVSVILALFLPCAGMSLVFIVY 23 (133)
Q Consensus 2 i~~~~l~~~~~~~~~~~~~~~~ 23 (133)
++-++++++++.+++..+..+.
T Consensus 14 LIEVLIA~lll~vglLgla~lQ 35 (162)
T COG4967 14 LIEVLIAMLLLSVGLLGLAGLQ 35 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4556777777777776665554
No 321
>PF03967 PRCH: Photosynthetic reaction centre, H-chain N-terminal region; InterPro: IPR015810 The photosynthetic apparatus in non-oxygenic bacteria consists of light-harvesting (LH) protein-pigment complexes LH1 and LH2, which use carotenoid and bacteriochlorophyll as primary donors []. LH1 acts as the energy collection hub, temporarily storing it before its transfer to the photosynthetic reaction centre (RC) []. Electrons are transferred from the primary donor via an intermediate acceptor (bacteriopheophytin) to the primary acceptor (quinine Qa), and finally to the secondary acceptor (quinone Qb), resulting in the formation of ubiquinol QbH2. RC uses the excitation energy to shuffle electrons across the membrane, transferring them via ubiquinol to the cytochrome bc1 complex in order to establish a proton gradient across the membrane, which is used by ATP synthetase to form ATP [, , ]. The core complex is anchored in the cell membrane, consisting of one unit of RC surrounded by LH1; in some species there may be additional subunits []. RC consists of three subunits: L (light), M (medium), and H (heavy). Subunits L and M provide the scaffolding for the chromophore, while subunit H contains a cytoplasmic domain []. In Rhodopseudomonas viridis, there is also a non-membranous tetrahaem cytochrome (4Hcyt) subunit on the periplasmic surface. This entry represents the N-terminal domain of the photosynthetic reaction centre H subunit, which includes the transmembrane domain and part of the cytoplasmic domain [].; GO: 0045156 electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity, 0019684 photosynthesis, light reaction, 0030077 plasma membrane light-harvesting complex; PDB: 1RZZ_H 1PST_H 2J8D_H 3DUQ_H 1FNP_H 1KBY_H 1E14_H 2HG3_H 1UMX_H 1YST_H ....
Probab=22.84 E-value=1.3e+02 Score=19.56 Aligned_cols=17 Identities=12% Similarity=0.415 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHhhcc
Q 037529 16 MSLVFIVYLSLLWCASN 32 (133)
Q Consensus 16 ~~~~~~~~~~~~~~~~~ 32 (133)
+.+++++|..++++.++
T Consensus 17 lyaFwiFFagLi~YLrr 33 (136)
T PF03967_consen 17 LYAFWIFFAGLIYYLRR 33 (136)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 33333444444444443
No 322
>PRK06432 NADH dehydrogenase subunit A; Validated
Probab=22.81 E-value=1.8e+02 Score=19.09 Aligned_cols=23 Identities=13% Similarity=0.143 Sum_probs=12.2
Q ss_pred CHHHHhhCCCcccCCCCCccccc
Q 037529 53 SASELDKLPKISGKELVMGTECA 75 (133)
Q Consensus 53 ~~~~~~~~~~~~~~~~~~~~~C~ 75 (133)
++.+.+..|..+..+..+..||-
T Consensus 48 ~~~~~~~~~~~~~~~k~spYECG 70 (144)
T PRK06432 48 KKAAYEDTPPGSDQSYLEPYESG 70 (144)
T ss_pred HhhccCCCCCCCCcCCCcCccCC
Confidence 34444455555555555556774
No 323
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.79 E-value=29 Score=22.55 Aligned_cols=44 Identities=25% Similarity=0.697 Sum_probs=25.2
Q ss_pred CCCcccccccccc-cccCCCccccCCCCcccc-------HHHHHHH-HhCCC---ccccccccc
Q 037529 68 LVMGTECAVCLDE-VESEQPARLVPGCNHGFH-------LQCADSW-LSKHS---VCPVCRAKL 119 (133)
Q Consensus 68 ~~~~~~C~ICl~~-~~~~~~~~~lp~C~H~fh-------~~Ci~~w-l~~~~---~CP~Cr~~v 119 (133)
..++.+|-||+.. |.+ +|||.-| ..|-..- ++.+. .|-+|+...
T Consensus 62 v~ddatC~IC~KTKFAD--------G~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFAD--------GCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred cCcCcchhhhhhccccc--------ccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 3567899999953 444 3777533 3332221 22222 589998764
No 324
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=22.79 E-value=1.7e+02 Score=19.28 Aligned_cols=24 Identities=17% Similarity=0.232 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCC
Q 037529 12 PCAGMSLVFIVYLSLLWCASNDND 35 (133)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~ 35 (133)
+.+++++..++-+++++-..|+++
T Consensus 11 ~~ag~a~~~flgYciYFD~KRR~d 34 (148)
T TIGR00985 11 IAAGIAAAAFLGYAIYFDYKRRND 34 (148)
T ss_pred HHHHHHHHHHHHHHHhhhhhhccC
Confidence 334444444444444444444433
No 325
>PTZ00045 apical membrane antigen 1; Provisional
Probab=22.71 E-value=1.4e+02 Score=24.38 Aligned_cols=10 Identities=20% Similarity=0.524 Sum_probs=4.0
Q ss_pred HHHHHHHHhh
Q 037529 21 IVYLSLLWCA 30 (133)
Q Consensus 21 ~~~~~~~~~~ 30 (133)
++|+.++++.
T Consensus 531 ~~~~~~~~~k 540 (595)
T PTZ00045 531 LAYFSYRYYR 540 (595)
T ss_pred HHHHHHHHhh
Confidence 3444443333
No 326
>PRK11595 DNA utilization protein GntX; Provisional
Probab=22.61 E-value=69 Score=22.37 Aligned_cols=39 Identities=18% Similarity=0.443 Sum_probs=20.6
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccc
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKL 119 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 119 (133)
..|.+|-..+..+ ....|..|...+-.....||.|-+++
T Consensus 6 ~~C~~C~~~~~~~---------~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 6 GLCWLCRMPLALS---------HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred CcCccCCCccCCC---------CCcccHHHHhhCCcccCcCccCCCcC
Confidence 3477776654321 12256666666522234677776553
No 327
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=22.53 E-value=5.5 Score=21.44 Aligned_cols=33 Identities=21% Similarity=0.641 Sum_probs=15.8
Q ss_pred ccccc--cccccccCCC-----ccccCCCCccccHHHHHHH
Q 037529 72 TECAV--CLDEVESEQP-----ARLVPGCNHGFHLQCADSW 105 (133)
Q Consensus 72 ~~C~I--Cl~~~~~~~~-----~~~lp~C~H~fh~~Ci~~w 105 (133)
.-|+- |-..+..++. +.-. .|++.|+..|-.+|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~-~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCP-SCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTT-SCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECC-CCCCcCccccCccc
Confidence 35655 6655543332 2233 38888888776665
No 328
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=22.31 E-value=27 Score=27.42 Aligned_cols=54 Identities=17% Similarity=0.358 Sum_probs=32.5
Q ss_pred ccccccccccc-ccCCCccccCCCCccccHHHHHHHHhC----C----Ccccccccccccccc
Q 037529 71 GTECAVCLDEV-ESEQPARLVPGCNHGFHLQCADSWLSK----H----SVCPVCRAKLDSHFF 124 (133)
Q Consensus 71 ~~~C~ICl~~~-~~~~~~~~lp~C~H~fh~~Ci~~wl~~----~----~~CP~Cr~~v~~~~~ 124 (133)
+..|.+|..-- .....+..-..|+--||..|-+..... . -.|-.|.........
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~r 230 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVPR 230 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchhhccc
Confidence 35599999442 233333333347778999997776432 1 259999876544433
No 329
>PHA02669 hypothetical protein; Provisional
Probab=22.26 E-value=70 Score=21.54 Aligned_cols=8 Identities=0% Similarity=0.501 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 037529 6 ILALFLPC 13 (133)
Q Consensus 6 ~l~~~~~~ 13 (133)
++++++.+
T Consensus 6 ii~iIvav 13 (210)
T PHA02669 6 LIGIIVAV 13 (210)
T ss_pred hhHHHHHH
Confidence 33333333
No 330
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=22.10 E-value=53 Score=23.94 Aligned_cols=14 Identities=36% Similarity=0.759 Sum_probs=9.4
Q ss_pred Cccccccccccccc
Q 037529 70 MGTECAVCLDEVES 83 (133)
Q Consensus 70 ~~~~C~ICl~~~~~ 83 (133)
-+..|++||.-|-.
T Consensus 252 ~g~vCsvCLsIfc~ 265 (276)
T PF03850_consen 252 IGYVCSVCLSIFCE 265 (276)
T ss_pred ceeEchhhhhhhhC
Confidence 35778888876543
No 331
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=21.98 E-value=1e+02 Score=21.37 Aligned_cols=18 Identities=11% Similarity=0.196 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 037529 8 ALFLPCAGMSLVFIVYLS 25 (133)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~ 25 (133)
++++++++++..+++-.|
T Consensus 107 SlImViaAliTtlvlK~C 124 (205)
T PF15298_consen 107 SLIMVIAALITTLVLKNC 124 (205)
T ss_pred ehhHHHHHhhhhhhhhhh
Confidence 333333333333333333
No 332
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=21.85 E-value=58 Score=19.57 Aligned_cols=38 Identities=24% Similarity=0.649 Sum_probs=28.2
Q ss_pred cccccccccccccCCCccccCCCCccccHHHHHHHHhCCCccccccccccc
Q 037529 71 GTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 71 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
...|-||-..... =||.||..|-- .+..|.+|-+.+..
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CAY----kkGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCAY----KKGICAMCGKKILD 81 (90)
T ss_pred Ccccccccccccc---------CCCccChhhhc----ccCcccccCCeecc
Confidence 4579999887432 57889989843 36799999998743
No 333
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=21.84 E-value=33 Score=21.43 Aligned_cols=14 Identities=29% Similarity=0.650 Sum_probs=9.5
Q ss_pred cccccccccccccc
Q 037529 111 VCPVCRAKLDSHFF 124 (133)
Q Consensus 111 ~CP~Cr~~v~~~~~ 124 (133)
.||.|-..+.....
T Consensus 76 yCP~Cgt~levE~~ 89 (112)
T PF08882_consen 76 YCPGCGTQLEVEAP 89 (112)
T ss_pred ECCCCcceeEEccC
Confidence 39999877655443
No 334
>PHA03171 UL37 tegument protein; Provisional
Probab=21.84 E-value=1.4e+02 Score=23.30 Aligned_cols=27 Identities=15% Similarity=0.337 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 037529 5 VILALFLPCAGMSLVFIVYLSLLWCAS 31 (133)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~~~~~~~~~ 31 (133)
.+++++.+.++-++++.+|.+..+..+
T Consensus 446 aLlsifsVaaGsiaLLsLFCilli~~R 472 (499)
T PHA03171 446 ALISICSAAAGSIAILSLFCILLFGLR 472 (499)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 456777777776666666666555544
No 335
>PF15179 Myc_target_1: Myc target protein 1
Probab=21.81 E-value=2.8e+02 Score=19.13 Aligned_cols=24 Identities=13% Similarity=0.328 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhccCC
Q 037529 11 LPCAGMSLVFIVYLSLLWCASNDN 34 (133)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~ 34 (133)
...+++++..++|+.+.|..+++.
T Consensus 28 Sm~iGLviG~li~~LltwlSRRRA 51 (197)
T PF15179_consen 28 SMAIGLVIGALIWALLTWLSRRRA 51 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc
Confidence 344556666777777777776553
No 336
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=21.77 E-value=25 Score=17.57 Aligned_cols=12 Identities=25% Similarity=0.664 Sum_probs=6.8
Q ss_pred CCcccccccccc
Q 037529 69 VMGTECAVCLDE 80 (133)
Q Consensus 69 ~~~~~C~ICl~~ 80 (133)
.+...|+||.++
T Consensus 27 se~~~C~IC~d~ 38 (41)
T PF02132_consen 27 SEEDPCEICSDP 38 (41)
T ss_dssp ESSSS-HHHH-T
T ss_pred CCCCcCcCCCCC
Confidence 445678888765
No 337
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=21.55 E-value=27 Score=21.66 Aligned_cols=28 Identities=25% Similarity=0.527 Sum_probs=16.9
Q ss_pred ccccccccccccCCCccccCCCCccccHHHHHHHH
Q 037529 72 TECAVCLDEVESEQPARLVPGCNHGFHLQCADSWL 106 (133)
Q Consensus 72 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 106 (133)
..|+.|-++|.-.+.. +..|.+|..+|-
T Consensus 4 p~cp~c~sEytYed~~-------~~~cpec~~ew~ 31 (112)
T COG2824 4 PPCPKCNSEYTYEDGG-------QLICPECAHEWN 31 (112)
T ss_pred CCCCccCCceEEecCc-------eEeCchhccccc
Confidence 4589998888754422 334455555663
No 338
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=21.47 E-value=34 Score=27.49 Aligned_cols=53 Identities=19% Similarity=0.292 Sum_probs=43.9
Q ss_pred CcccccccccccccCCCccccCCCCccccHHHHHHHHhCCCcccccccccccc
Q 037529 70 MGTECAVCLDEVESEQPARLVPGCNHGFHLQCADSWLSKHSVCPVCRAKLDSH 122 (133)
Q Consensus 70 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~ 122 (133)
....|.+|+...........+..+.|.+...|+..|=.....|+.+++.+..-
T Consensus 259 ~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~~ 311 (553)
T KOG4430|consen 259 NKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRTI 311 (553)
T ss_pred cccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhccccccccc
Confidence 34679999999887777777776789999999999988888999999877543
No 339
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=20.83 E-value=1.3e+02 Score=22.29 Aligned_cols=20 Identities=20% Similarity=0.168 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHhhcc
Q 037529 13 CAGMSLVFIVYLSLLWCASN 32 (133)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~ 32 (133)
++++++++++..+++..+.|
T Consensus 263 iaIliIVLIMvIIYLILRYR 282 (299)
T PF02009_consen 263 IAILIIVLIMVIIYLILRYR 282 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33334444443344444443
No 340
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=20.76 E-value=42 Score=19.91 Aligned_cols=19 Identities=21% Similarity=0.480 Sum_probs=12.2
Q ss_pred HHhCCCccccccccccccc
Q 037529 105 WLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 105 wl~~~~~CP~Cr~~v~~~~ 123 (133)
+++-...||.|..++....
T Consensus 4 ~Lk~~~~C~~CG~d~~~~~ 22 (86)
T PF06170_consen 4 YLKVAPRCPHCGLDYSHAR 22 (86)
T ss_pred cccCCCcccccCCccccCC
Confidence 4556667888877665443
No 341
>TIGR02183 GRXA Glutaredoxin, GrxA family. This model includes the E. coli glyutaredoxin GrxA which appears to have primary responsibility for the reduction of ribonucleotide reductase.
Probab=20.75 E-value=34 Score=19.82 Aligned_cols=10 Identities=30% Similarity=0.806 Sum_probs=7.8
Q ss_pred CCcccccccc
Q 037529 109 HSVCPVCRAK 118 (133)
Q Consensus 109 ~~~CP~Cr~~ 118 (133)
+..||.|++.
T Consensus 7 ~~~Cp~C~~a 16 (86)
T TIGR02183 7 RPGCPYCVRA 16 (86)
T ss_pred CCCCccHHHH
Confidence 5679999873
No 342
>PRK04023 DNA polymerase II large subunit; Validated
Probab=20.62 E-value=77 Score=27.69 Aligned_cols=49 Identities=18% Similarity=0.288 Sum_probs=31.5
Q ss_pred CCcccccccccccccCCCccccCCCC-----ccccHHHHHHHHhCCCccccccccccccc
Q 037529 69 VMGTECAVCLDEVESEQPARLVPGCN-----HGFHLQCADSWLSKHSVCPVCRAKLDSHF 123 (133)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~fh~~Ci~~wl~~~~~CP~Cr~~v~~~~ 123 (133)
.....|+=|-.... ...-|+|| ..||.+|-.+ .....||-|...+....
T Consensus 624 Vg~RfCpsCG~~t~----~frCP~CG~~Te~i~fCP~CG~~--~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 624 IGRRKCPSCGKETF----YRRCPFCGTHTEPVYRCPRCGIE--VEEDECEKCGREPTPYS 677 (1121)
T ss_pred ccCccCCCCCCcCC----cccCCCCCCCCCcceeCccccCc--CCCCcCCCCCCCCCccc
Confidence 34567998887742 23344588 3589999333 34457999988776543
No 343
>PHA03013 hypothetical protein; Provisional
Probab=20.57 E-value=1.1e+02 Score=18.40 Aligned_cols=23 Identities=17% Similarity=0.407 Sum_probs=9.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 037529 2 IVSVILALFLPCAGMSLVFIVYL 24 (133)
Q Consensus 2 i~~~~l~~~~~~~~~~~~~~~~~ 24 (133)
++-+++-+++....+..+.++|+
T Consensus 2 l~~~iiniii~i~fiisliiiyf 24 (109)
T PHA03013 2 LFKFIINIIIIIAFIISLIIIYF 24 (109)
T ss_pred eeehhhHHHHHHHHHHHHHHhhc
Confidence 34444444444444444444444
No 344
>TIGR00869 sec62 protein translocation protein, Sec62 family. protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins has been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.
Probab=20.48 E-value=2.8e+02 Score=19.82 Aligned_cols=18 Identities=6% Similarity=0.176 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 037529 13 CAGMSLVFIVYLSLLWCA 30 (133)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~ 30 (133)
+++++++-++.+++.|..
T Consensus 161 ~~~laivRlilF~i~~~~ 178 (232)
T TIGR00869 161 FFAVAILRLILFVLTLIV 178 (232)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444455555554
No 345
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=20.36 E-value=83 Score=14.96 Aligned_cols=8 Identities=50% Similarity=1.398 Sum_probs=6.0
Q ss_pred Cccccccc
Q 037529 110 SVCPVCRA 117 (133)
Q Consensus 110 ~~CP~Cr~ 117 (133)
..||+|..
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 47888875
No 346
>PRK14758 hypothetical protein; Provisional
Probab=20.33 E-value=1.1e+02 Score=13.84 Aligned_cols=12 Identities=33% Similarity=0.711 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q 037529 6 ILALFLPCAGMS 17 (133)
Q Consensus 6 ~l~~~~~~~~~~ 17 (133)
++.+++++..++
T Consensus 10 iLivlIlCalia 21 (27)
T PRK14758 10 ILIILILCALIA 21 (27)
T ss_pred HHHHHHHHHHHH
Confidence 333334443333
No 347
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=20.31 E-value=93 Score=16.88 Aligned_cols=15 Identities=33% Similarity=0.877 Sum_probs=9.6
Q ss_pred CCccccccccccccc
Q 037529 109 HSVCPVCRAKLDSHF 123 (133)
Q Consensus 109 ~~~CP~Cr~~v~~~~ 123 (133)
+..||.|........
T Consensus 17 k~~CP~CG~~t~~~~ 31 (56)
T PRK13130 17 KEICPVCGGKTKNPH 31 (56)
T ss_pred cccCcCCCCCCCCCC
Confidence 456888887654433
No 348
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=20.24 E-value=46 Score=28.03 Aligned_cols=26 Identities=23% Similarity=0.548 Sum_probs=17.4
Q ss_pred CCCccccHHHHHHHHhCCCccccccccccc
Q 037529 92 GCNHGFHLQCADSWLSKHSVCPVCRAKLDS 121 (133)
Q Consensus 92 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~~ 121 (133)
.|.|.-|..=|.. ...||+|...+..
T Consensus 1161 ~CkH~a~~~EIs~----y~~CPLCHs~~~~ 1186 (1189)
T KOG2041|consen 1161 RCKHRAHQHEISK----YNCCPLCHSMESF 1186 (1189)
T ss_pred ccccccccccccc----cccCccccChhhc
Confidence 3888888554433 4689999876543
No 349
>KOG1140 consensus N-end rule pathway, recognition component UBR1 [Posttranslational modification, protein turnover, chaperones]
Probab=20.11 E-value=78 Score=29.25 Aligned_cols=15 Identities=27% Similarity=0.859 Sum_probs=13.7
Q ss_pred CCccccHHHHHHHHh
Q 037529 93 CNHGFHLQCADSWLS 107 (133)
Q Consensus 93 C~H~fh~~Ci~~wl~ 107 (133)
|||..|..|....+.
T Consensus 1151 c~h~mh~~c~~~~~~ 1165 (1738)
T KOG1140|consen 1151 CGHHMHYGCFKRYVQ 1165 (1738)
T ss_pred cCCcchHHHHHHHHH
Confidence 999999999999863
No 350
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=20.08 E-value=49 Score=22.50 Aligned_cols=15 Identities=27% Similarity=0.656 Sum_probs=11.1
Q ss_pred CCccccccccccccc
Q 037529 109 HSVCPVCRAKLDSHF 123 (133)
Q Consensus 109 ~~~CP~Cr~~v~~~~ 123 (133)
...||+|++.+.-..
T Consensus 169 ~~~c~~~~~~~~~~~ 183 (187)
T TIGR01367 169 SHECPLCLAGIPAEK 183 (187)
T ss_pred cccCChhhcCCCCcC
Confidence 457999999876543
Done!