Query 028116
Match_columns 213
No_of_seqs 229 out of 1561
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 06:29:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028116.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028116hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 1E-18 2.2E-23 154.8 4.2 74 139-213 203-277 (348)
2 PF13639 zf-RING_2: Ring finge 99.7 2.7E-17 5.9E-22 104.9 2.3 44 166-210 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.5 1.7E-14 3.7E-19 122.8 4.4 74 140-213 147-226 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 6.5E-14 1.4E-18 98.9 3.7 47 164-210 18-73 (73)
5 COG5243 HRD1 HRD ubiquitin lig 99.4 1.4E-13 3.1E-18 121.9 3.0 50 163-213 285-344 (491)
6 COG5540 RING-finger-containing 99.4 3.6E-13 7.7E-18 116.6 3.7 50 163-213 321-371 (374)
7 PF12861 zf-Apc11: Anaphase-pr 99.2 6.3E-12 1.4E-16 90.5 3.1 50 163-212 19-80 (85)
8 PF13920 zf-C3HC4_3: Zinc fing 99.2 9E-12 2E-16 81.4 3.0 45 165-213 2-47 (50)
9 cd00162 RING RING-finger (Real 99.2 1.4E-11 3.1E-16 76.9 3.7 44 167-213 1-45 (45)
10 KOG0317 Predicted E3 ubiquitin 99.1 2.2E-11 4.8E-16 104.9 2.9 47 163-213 237-283 (293)
11 PF13923 zf-C3HC4_2: Zinc fing 99.1 4.3E-11 9.2E-16 74.2 2.9 39 168-209 1-39 (39)
12 KOG0802 E3 ubiquitin ligase [P 99.1 1.5E-11 3.3E-16 116.3 1.1 49 163-212 289-339 (543)
13 PLN03208 E3 ubiquitin-protein 99.1 5.7E-11 1.2E-15 97.8 4.1 47 163-213 16-78 (193)
14 PHA02926 zinc finger-like prot 99.1 6.8E-11 1.5E-15 98.8 3.5 50 163-212 168-228 (242)
15 KOG0823 Predicted E3 ubiquitin 99.0 1.4E-10 3.1E-15 97.3 3.8 48 162-213 44-94 (230)
16 PF14634 zf-RING_5: zinc-RING 99.0 2.2E-10 4.7E-15 73.0 3.0 44 167-211 1-44 (44)
17 KOG0320 Predicted E3 ubiquitin 98.9 4.8E-10 1E-14 90.7 3.4 49 163-213 129-177 (187)
18 COG5194 APC11 Component of SCF 98.9 6.4E-10 1.4E-14 78.6 3.0 48 165-212 31-79 (88)
19 smart00184 RING Ring finger. E 98.9 1.1E-09 2.4E-14 65.9 3.0 38 168-209 1-39 (39)
20 PF00097 zf-C3HC4: Zinc finger 98.9 9.9E-10 2.1E-14 68.5 2.5 39 168-209 1-41 (41)
21 PF15227 zf-C3HC4_4: zinc fing 98.9 1.3E-09 2.8E-14 68.8 2.8 38 168-209 1-42 (42)
22 smart00504 Ubox Modified RING 98.8 3.2E-09 6.9E-14 71.9 4.1 44 166-213 2-45 (63)
23 KOG1493 Anaphase-promoting com 98.8 6.4E-10 1.4E-14 78.0 -0.2 50 163-212 18-79 (84)
24 TIGR00599 rad18 DNA repair pro 98.7 8.5E-09 1.8E-13 93.8 3.4 47 163-213 24-70 (397)
25 smart00744 RINGv The RING-vari 98.6 2.2E-08 4.7E-13 65.3 2.9 42 167-210 1-49 (49)
26 PF13445 zf-RING_UBOX: RING-ty 98.6 2.9E-08 6.2E-13 63.0 2.8 38 168-207 1-43 (43)
27 COG5574 PEX10 RING-finger-cont 98.6 1.7E-08 3.8E-13 86.2 2.3 47 163-213 213-261 (271)
28 KOG1734 Predicted RING-contain 98.5 2.8E-08 6E-13 85.3 0.2 50 163-213 222-280 (328)
29 PF11793 FANCL_C: FANCL C-term 98.5 2.8E-08 6.1E-13 69.5 0.2 49 165-213 2-65 (70)
30 KOG2930 SCF ubiquitin ligase, 98.5 6.7E-08 1.5E-12 71.6 1.9 50 163-212 44-106 (114)
31 KOG0828 Predicted E3 ubiquitin 98.4 1.2E-07 2.6E-12 87.2 1.8 50 163-213 569-633 (636)
32 KOG2164 Predicted E3 ubiquitin 98.4 1.7E-07 3.8E-12 86.5 2.7 45 165-213 186-235 (513)
33 KOG4265 Predicted E3 ubiquitin 98.3 4.2E-07 9.1E-12 80.8 3.7 47 163-213 288-335 (349)
34 COG5219 Uncharacterized conser 98.3 1.6E-07 3.5E-12 91.8 0.8 51 163-213 1467-1522(1525)
35 PF04564 U-box: U-box domain; 98.3 4.3E-07 9.2E-12 63.9 2.8 46 164-213 3-49 (73)
36 KOG0804 Cytoplasmic Zn-finger 98.3 2.9E-07 6.4E-12 83.8 1.6 46 163-211 173-219 (493)
37 KOG0287 Postreplication repair 98.2 6.5E-07 1.4E-11 79.2 1.4 46 164-213 22-67 (442)
38 COG5432 RAD18 RING-finger-cont 98.1 1.1E-06 2.3E-11 76.4 2.2 46 163-212 23-68 (391)
39 KOG1039 Predicted E3 ubiquitin 98.1 1.9E-06 4E-11 77.3 2.3 50 163-212 159-219 (344)
40 KOG0825 PHD Zn-finger protein 97.9 2.1E-06 4.5E-11 82.8 -0.2 48 164-212 122-169 (1134)
41 KOG4172 Predicted E3 ubiquitin 97.9 2.6E-06 5.7E-11 56.2 0.1 45 165-213 7-53 (62)
42 PF14835 zf-RING_6: zf-RING of 97.9 2.8E-06 6E-11 58.1 0.0 43 165-212 7-49 (65)
43 KOG0311 Predicted E3 ubiquitin 97.8 2E-06 4.3E-11 76.4 -1.8 48 163-213 41-89 (381)
44 KOG4445 Uncharacterized conser 97.8 8.8E-06 1.9E-10 71.0 1.0 38 163-201 113-150 (368)
45 KOG0978 E3 ubiquitin ligase in 97.6 2.4E-05 5.2E-10 75.5 1.3 45 164-212 642-687 (698)
46 KOG1941 Acetylcholine receptor 97.5 2.7E-05 5.9E-10 70.2 0.8 47 164-211 364-413 (518)
47 KOG0801 Predicted E3 ubiquitin 97.5 2.7E-05 5.8E-10 62.5 0.4 42 152-194 164-205 (205)
48 PF11789 zf-Nse: Zinc-finger o 97.4 8.7E-05 1.9E-09 49.8 1.9 43 163-208 9-53 (57)
49 KOG4159 Predicted E3 ubiquitin 97.4 8.2E-05 1.8E-09 68.0 2.2 47 163-213 82-128 (398)
50 KOG1785 Tyrosine kinase negati 97.3 5.9E-05 1.3E-09 68.3 0.8 46 164-213 368-415 (563)
51 PF12906 RINGv: RING-variant d 97.2 0.00018 4E-09 46.3 2.0 40 168-209 1-47 (47)
52 KOG1428 Inhibitor of type V ad 97.2 0.00024 5.2E-09 72.7 2.8 50 163-213 3484-3543(3738)
53 KOG0297 TNF receptor-associate 97.1 0.00025 5.5E-09 64.9 2.1 48 163-213 19-66 (391)
54 PF13436 Gly-zipper_OmpA: Glyc 97.0 0.00053 1.2E-08 52.6 3.1 39 32-71 56-94 (118)
55 KOG3970 Predicted E3 ubiquitin 96.9 0.00082 1.8E-08 56.8 3.1 49 163-213 48-104 (299)
56 PF10367 Vps39_2: Vacuolar sor 96.7 0.00063 1.4E-08 50.3 1.1 33 163-197 76-108 (109)
57 KOG0826 Predicted E3 ubiquitin 96.7 0.0028 6E-08 56.2 5.1 44 163-209 298-341 (357)
58 PF13441 Gly-zipper_YMGG: YMGG 96.7 0.0021 4.5E-08 41.0 3.0 33 31-68 6-38 (45)
59 PF13488 Gly-zipper_Omp: Glyci 96.7 0.0019 4.1E-08 41.4 2.9 35 35-69 2-39 (46)
60 PF14570 zf-RING_4: RING/Ubox 96.6 0.0013 2.9E-08 42.5 2.1 44 168-212 1-46 (48)
61 PHA03096 p28-like protein; Pro 96.6 0.0011 2.4E-08 58.2 1.9 46 166-211 179-231 (284)
62 PHA02825 LAP/PHD finger-like p 96.6 0.0019 4E-08 51.9 3.0 48 163-212 6-57 (162)
63 KOG2879 Predicted E3 ubiquitin 96.6 0.0019 4.1E-08 56.0 3.1 48 163-213 237-286 (298)
64 PF05883 Baculo_RING: Baculovi 96.6 0.0012 2.6E-08 51.6 1.7 37 164-201 25-67 (134)
65 KOG2660 Locus-specific chromos 96.5 0.00056 1.2E-08 60.6 -0.2 47 163-212 13-59 (331)
66 PF05433 Rick_17kDa_Anti: Glyc 96.5 0.0018 3.8E-08 40.8 2.1 37 35-71 2-40 (42)
67 PF13441 Gly-zipper_YMGG: YMGG 96.5 0.0017 3.6E-08 41.4 2.1 31 32-68 11-42 (45)
68 PF13488 Gly-zipper_Omp: Glyci 96.5 0.002 4.4E-08 41.3 2.2 17 33-49 25-41 (46)
69 KOG4692 Predicted E3 ubiquitin 96.5 0.0017 3.7E-08 58.2 2.5 47 163-213 420-466 (489)
70 KOG1952 Transcription factor N 96.4 0.0015 3.2E-08 64.1 1.8 49 163-211 189-244 (950)
71 PF13436 Gly-zipper_OmpA: Glyc 96.3 0.0038 8.2E-08 47.9 3.4 40 32-72 52-91 (118)
72 KOG1814 Predicted E3 ubiquitin 96.3 0.0026 5.7E-08 57.9 2.4 47 163-210 182-236 (445)
73 PRK10510 putative outer membra 96.2 0.0052 1.1E-07 52.0 4.0 38 32-69 39-78 (219)
74 KOG0827 Predicted E3 ubiquitin 96.0 0.00048 1E-08 62.2 -3.4 49 164-213 195-244 (465)
75 COG5236 Uncharacterized conser 95.9 0.0062 1.4E-07 54.6 3.2 47 162-212 58-106 (493)
76 KOG1813 Predicted E3 ubiquitin 95.8 0.0033 7.2E-08 55.0 0.7 43 166-212 242-284 (313)
77 KOG1571 Predicted E3 ubiquitin 95.7 0.0054 1.2E-07 55.0 1.6 43 163-212 303-345 (355)
78 KOG3039 Uncharacterized conser 95.5 0.019 4E-07 49.4 4.1 50 164-213 220-269 (303)
79 COG5152 Uncharacterized conser 95.3 0.0091 2E-07 49.7 1.7 43 166-212 197-239 (259)
80 PRK10540 lipoprotein; Provisio 95.3 0.05 1.1E-06 38.2 5.1 34 34-71 36-69 (72)
81 KOG3268 Predicted E3 ubiquitin 95.2 0.016 3.5E-07 47.4 2.7 28 186-213 189-227 (234)
82 COG5222 Uncharacterized conser 95.0 0.02 4.4E-07 50.4 3.0 43 166-211 275-318 (427)
83 KOG1940 Zn-finger protein [Gen 94.9 0.014 2.9E-07 51.1 1.8 45 166-211 159-204 (276)
84 PF08746 zf-RING-like: RING-li 94.8 0.02 4.3E-07 36.1 1.9 41 168-209 1-43 (43)
85 KOG1002 Nucleotide excision re 94.8 0.013 2.8E-07 55.2 1.3 46 163-212 534-584 (791)
86 PF14447 Prok-RING_4: Prokaryo 94.6 0.016 3.6E-07 38.4 1.1 32 179-213 18-49 (55)
87 PF10272 Tmpp129: Putative tra 94.5 0.055 1.2E-06 49.1 4.7 50 163-212 269-349 (358)
88 KOG3053 Uncharacterized conser 94.3 0.016 3.5E-07 49.9 0.7 49 163-212 18-80 (293)
89 PRK11280 hypothetical protein; 93.9 0.048 1E-06 44.4 2.8 40 34-73 66-107 (170)
90 KOG4275 Predicted E3 ubiquitin 93.8 0.0098 2.1E-07 52.1 -1.5 41 165-213 300-341 (350)
91 PRK10540 lipoprotein; Provisio 93.5 0.13 2.8E-06 36.1 4.0 13 35-47 33-45 (72)
92 PF04641 Rtf2: Rtf2 RING-finge 93.3 0.085 1.8E-06 45.7 3.5 49 163-212 111-159 (260)
93 PF06897 DUF1269: Protein of u 93.3 0.085 1.8E-06 39.5 3.0 21 34-54 20-40 (102)
94 KOG2034 Vacuolar sorting prote 93.1 0.04 8.6E-07 54.7 1.2 36 163-200 815-850 (911)
95 TIGR03789 pdsO proteobacterial 93.1 0.063 1.4E-06 46.1 2.3 35 35-71 42-76 (239)
96 PF14446 Prok-RING_1: Prokaryo 92.9 0.12 2.6E-06 34.2 2.9 41 164-208 4-44 (54)
97 KOG2114 Vacuolar assembly/sort 92.1 0.061 1.3E-06 53.2 1.1 42 164-211 839-880 (933)
98 KOG2932 E3 ubiquitin ligase in 92.0 0.073 1.6E-06 47.2 1.3 44 165-213 90-133 (389)
99 KOG1100 Predicted E3 ubiquitin 91.7 0.077 1.7E-06 44.6 1.1 37 168-212 161-198 (207)
100 PF03854 zf-P11: P-11 zinc fin 91.6 0.053 1.1E-06 34.9 0.0 27 187-213 18-45 (50)
101 KOG1001 Helicase-like transcri 91.2 0.073 1.6E-06 52.1 0.6 42 166-212 455-498 (674)
102 COG5175 MOT2 Transcriptional r 91.2 0.14 3.1E-06 45.9 2.3 49 163-212 12-62 (480)
103 KOG1609 Protein involved in mR 91.0 0.12 2.7E-06 45.0 1.7 48 164-212 77-132 (323)
104 KOG0298 DEAD box-containing he 90.9 0.059 1.3E-06 55.4 -0.4 45 164-211 1152-1196(1394)
105 PF06897 DUF1269: Protein of u 90.6 0.11 2.3E-06 38.9 0.8 35 32-67 1-35 (102)
106 KOG1812 Predicted E3 ubiquitin 90.5 0.12 2.6E-06 47.4 1.2 39 163-201 144-182 (384)
107 KOG3002 Zn finger protein [Gen 89.8 0.24 5.2E-06 43.9 2.5 43 163-213 46-90 (299)
108 KOG3899 Uncharacterized conser 89.8 0.17 3.7E-06 44.5 1.5 26 187-212 325-363 (381)
109 PF05433 Rick_17kDa_Anti: Glyc 89.8 0.21 4.6E-06 31.3 1.5 33 33-65 4-38 (42)
110 KOG0269 WD40 repeat-containing 89.3 0.32 6.8E-06 47.8 3.0 42 165-208 779-820 (839)
111 COG5183 SSM4 Protein involved 89.2 0.25 5.4E-06 48.9 2.3 50 163-212 10-64 (1175)
112 PRK10510 putative outer membra 88.8 0.52 1.1E-05 39.9 3.7 37 34-70 37-75 (219)
113 PF02891 zf-MIZ: MIZ/SP-RING z 88.5 0.58 1.2E-05 30.3 3.0 43 166-212 3-50 (50)
114 KOG4362 Transcriptional regula 88.3 0.13 2.8E-06 50.1 -0.3 44 165-212 21-67 (684)
115 KOG2817 Predicted E3 ubiquitin 87.9 0.41 8.8E-06 43.7 2.6 47 164-211 333-382 (394)
116 KOG0309 Conserved WD40 repeat- 87.8 0.3 6.6E-06 48.0 1.9 25 183-208 1045-1069(1081)
117 PLN02720 complex II 87.8 0.37 7.9E-06 37.5 2.0 54 30-85 67-125 (140)
118 PF05818 TraT: Enterobacterial 87.1 0.53 1.2E-05 39.8 2.7 36 34-71 88-124 (215)
119 KOG0802 E3 ubiquitin ligase [P 86.3 0.33 7.3E-06 46.3 1.3 42 163-212 477-518 (543)
120 KOG0825 PHD Zn-finger protein 85.7 0.47 1E-05 47.0 1.9 49 163-211 94-151 (1134)
121 KOG3005 GIY-YIG type nuclease 85.6 0.69 1.5E-05 40.2 2.7 46 166-211 183-240 (276)
122 PRK09430 djlA Dna-J like membr 85.5 0.75 1.6E-05 40.1 2.9 37 18-57 3-39 (267)
123 PF10571 UPF0547: Uncharacteri 85.3 0.51 1.1E-05 26.5 1.2 23 167-191 2-24 (26)
124 PRK11280 hypothetical protein; 85.0 0.67 1.4E-05 37.8 2.2 43 32-74 68-112 (170)
125 COG4803 Predicted membrane pro 84.6 0.98 2.1E-05 36.2 3.0 14 34-47 60-73 (170)
126 PF07975 C1_4: TFIIH C1-like d 84.2 0.79 1.7E-05 30.0 1.9 43 168-210 2-50 (51)
127 PRK10457 hypothetical protein; 84.0 3.2 6.9E-05 29.8 5.1 49 26-74 30-78 (82)
128 PRK11677 hypothetical protein; 83.6 0.85 1.8E-05 35.8 2.2 25 30-54 4-28 (134)
129 KOG1829 Uncharacterized conser 83.3 0.4 8.8E-06 46.1 0.3 44 163-210 509-557 (580)
130 COG4803 Predicted membrane pro 82.4 0.24 5.1E-06 39.6 -1.3 22 33-54 80-101 (170)
131 PF05290 Baculo_IE-1: Baculovi 81.9 1.2 2.5E-05 35.0 2.3 49 164-212 79-130 (140)
132 PF13719 zinc_ribbon_5: zinc-r 80.8 0.94 2E-05 27.4 1.2 27 166-192 3-36 (37)
133 KOG4718 Non-SMC (structural ma 80.2 0.9 1.9E-05 38.3 1.3 43 164-209 180-222 (235)
134 smart00249 PHD PHD zinc finger 80.2 1.1 2.4E-05 27.0 1.5 31 167-198 1-31 (47)
135 PF13901 DUF4206: Domain of un 79.7 1.2 2.5E-05 37.2 1.8 42 164-211 151-197 (202)
136 TIGR00622 ssl1 transcription f 79.6 2.8 6E-05 31.9 3.7 47 165-211 55-111 (112)
137 KOG2068 MOT2 transcription fac 79.3 1.4 3E-05 39.5 2.2 47 165-212 249-296 (327)
138 smart00132 LIM Zinc-binding do 79.2 2 4.2E-05 25.0 2.3 36 167-212 1-36 (39)
139 COG4980 GvpP Gas vesicle prote 79.0 1.2 2.6E-05 34.1 1.5 14 34-47 9-22 (115)
140 KOG2066 Vacuolar assembly/sort 78.4 0.84 1.8E-05 45.1 0.7 44 164-209 783-830 (846)
141 PF00628 PHD: PHD-finger; Int 77.7 1.1 2.4E-05 28.4 0.9 43 168-211 2-50 (51)
142 PF07191 zinc-ribbons_6: zinc- 76.8 0.3 6.6E-06 34.0 -2.1 39 166-213 2-40 (70)
143 COG4980 GvpP Gas vesicle prote 76.6 1.5 3.2E-05 33.6 1.4 26 51-76 4-29 (115)
144 PF06946 Phage_holin_5: Phage 75.6 2.4 5.3E-05 31.1 2.3 33 34-66 39-72 (93)
145 PF12732 YtxH: YtxH-like prote 75.1 1.7 3.7E-05 30.2 1.3 19 54-72 1-19 (74)
146 TIGR03789 pdsO proteobacterial 74.4 3.4 7.4E-05 35.5 3.3 17 34-50 61-77 (239)
147 PF13717 zinc_ribbon_4: zinc-r 74.4 2.2 4.7E-05 25.7 1.5 27 166-192 3-36 (36)
148 KOG4608 Uncharacterized conser 73.8 0.53 1.1E-05 40.4 -1.8 36 33-71 166-201 (270)
149 KOG3579 Predicted E3 ubiquitin 73.6 2.2 4.7E-05 37.7 1.9 41 164-204 267-307 (352)
150 PF11981 DUF3482: Domain of un 73.2 1.8 3.8E-05 38.3 1.3 33 35-67 151-184 (292)
151 PF02466 Tim17: Tim17/Tim22/Ti 73.0 8.5 0.00018 29.1 4.9 29 39-70 91-119 (128)
152 PF06295 DUF1043: Protein of u 72.1 2 4.4E-05 33.2 1.2 23 32-54 2-24 (128)
153 KOG3842 Adaptor protein Pellin 71.8 3.9 8.5E-05 36.6 3.1 49 163-212 339-412 (429)
154 COG3134 Predicted outer membra 71.4 2.7 5.8E-05 33.6 1.8 40 33-72 71-112 (179)
155 PF12732 YtxH: YtxH-like prote 71.3 2.5 5.5E-05 29.3 1.5 12 34-45 7-18 (74)
156 COG3133 SlyB Outer membrane li 71.2 0.96 2.1E-05 35.7 -0.8 42 34-75 62-105 (154)
157 PF01363 FYVE: FYVE zinc finge 71.1 1.9 4.2E-05 29.2 0.8 38 163-200 7-44 (69)
158 KOG2807 RNA polymerase II tran 69.9 4.3 9.4E-05 36.4 2.9 47 164-211 329-375 (378)
159 KOG1815 Predicted E3 ubiquitin 69.5 2.9 6.3E-05 38.9 1.9 37 163-202 68-104 (444)
160 cd00065 FYVE FYVE domain; Zinc 69.1 3.8 8.2E-05 26.5 1.9 37 165-201 2-38 (57)
161 PRK15361 pathogenicity island 68.1 3.4 7.4E-05 34.1 1.8 39 16-54 91-129 (195)
162 PF05818 TraT: Enterobacterial 67.3 3.1 6.8E-05 35.2 1.5 36 32-67 90-128 (215)
163 KOG4185 Predicted E3 ubiquitin 64.5 1.1 2.4E-05 39.0 -1.8 48 164-211 206-264 (296)
164 COG5336 Uncharacterized protei 64.3 5.2 0.00011 30.3 2.0 35 34-68 54-91 (116)
165 smart00064 FYVE Protein presen 63.6 6 0.00013 26.6 2.1 38 164-201 9-46 (68)
166 PF04226 Transgly_assoc: Trans 63.0 11 0.00023 24.2 3.0 41 32-74 4-44 (48)
167 PF06906 DUF1272: Protein of u 63.0 9.9 0.00021 25.3 2.9 43 166-212 6-50 (57)
168 PF06750 DiS_P_DiS: Bacterial 62.1 9.7 0.00021 27.8 3.1 37 164-213 32-68 (92)
169 KOG2041 WD40 repeat protein [G 61.5 5.4 0.00012 39.6 2.1 46 163-212 1129-1183(1189)
170 KOG1812 Predicted E3 ubiquitin 61.0 4.6 0.0001 37.1 1.5 67 142-209 279-351 (384)
171 cd00350 rubredoxin_like Rubred 60.6 5.2 0.00011 23.4 1.2 20 186-211 6-25 (33)
172 PF14311 DUF4379: Domain of un 60.2 5.6 0.00012 25.9 1.4 26 183-209 30-55 (55)
173 PF10497 zf-4CXXC_R1: Zinc-fin 59.7 9.6 0.00021 28.5 2.8 48 164-211 6-69 (105)
174 PF04306 DUF456: Protein of un 59.2 9.9 0.00021 29.9 2.9 13 57-69 83-95 (140)
175 PF07649 C1_3: C1-like domain; 59.0 7.4 0.00016 22.1 1.6 29 167-196 2-30 (30)
176 KOG3039 Uncharacterized conser 58.7 6.1 0.00013 34.3 1.7 35 164-202 42-76 (303)
177 PF08560 DUF1757: Protein of u 57.5 7.6 0.00017 31.2 2.0 36 34-69 41-82 (155)
178 PRK13731 conjugal transfer sur 56.8 9.3 0.0002 32.9 2.5 12 35-46 119-130 (243)
179 PF11240 DUF3042: Protein of u 56.8 11 0.00024 24.9 2.3 12 60-71 16-27 (54)
180 PF04216 FdhE: Protein involve 56.4 2 4.4E-05 37.6 -1.7 49 163-211 170-219 (290)
181 PF07800 DUF1644: Protein of u 56.0 8.2 0.00018 31.2 1.9 9 205-213 82-90 (162)
182 PF00412 LIM: LIM domain; Int 55.8 8.7 0.00019 24.5 1.8 15 165-179 26-40 (58)
183 TIGR00983 3a0801s02tim23 mitoc 54.7 21 0.00046 28.4 4.1 15 55-69 132-146 (149)
184 PF04423 Rad50_zn_hook: Rad50 53.9 3.5 7.5E-05 26.8 -0.4 9 205-213 22-30 (54)
185 PF05808 Podoplanin: Podoplani 53.7 4.3 9.4E-05 32.8 0.0 24 35-70 129-152 (162)
186 KOG2177 Predicted E3 ubiquitin 52.8 5.2 0.00011 33.2 0.3 16 163-178 11-26 (386)
187 TIGR02865 spore_II_E stage II 52.7 25 0.00053 35.2 5.1 32 20-51 178-214 (764)
188 COG1545 Predicted nucleic-acid 52.6 7.8 0.00017 30.4 1.3 23 182-212 30-52 (140)
189 PF06844 DUF1244: Protein of u 52.4 8.8 0.00019 26.5 1.3 11 191-201 12-22 (68)
190 PF13832 zf-HC5HC2H_2: PHD-zin 52.1 19 0.00041 26.5 3.3 34 164-199 54-88 (110)
191 COG4171 SapC ABC-type antimicr 51.6 36 0.00077 29.4 5.1 52 13-71 86-142 (296)
192 COG3133 SlyB Outer membrane li 51.6 6 0.00013 31.3 0.5 22 35-56 87-108 (154)
193 smart00647 IBR In Between Ring 51.3 4.9 0.00011 26.3 -0.0 21 179-199 38-58 (64)
194 PTZ00236 mitochondrial import 51.3 12 0.00027 30.3 2.3 29 37-68 94-122 (164)
195 PRK13731 conjugal transfer sur 51.1 7.8 0.00017 33.3 1.2 14 32-45 120-133 (243)
196 PF06946 Phage_holin_5: Phage 51.0 19 0.00041 26.5 3.0 47 8-56 32-79 (93)
197 COG1592 Rubrerythrin [Energy p 50.0 9.6 0.00021 31.0 1.5 30 42-77 23-52 (166)
198 PLN02189 cellulose synthase 49.8 16 0.00035 37.7 3.3 49 164-212 33-85 (1040)
199 PF14169 YdjO: Cold-inducible 49.2 7.8 0.00017 26.1 0.7 12 202-213 38-49 (59)
200 PRK04201 zinc transporter ZupT 48.5 33 0.00072 29.5 4.7 48 29-76 187-234 (265)
201 KOG1356 Putative transcription 48.0 6.9 0.00015 39.2 0.4 47 163-211 227-279 (889)
202 PF04306 DUF456: Protein of un 47.4 46 0.001 26.1 5.0 13 35-47 83-95 (140)
203 KOG1729 FYVE finger containing 47.3 3.6 7.7E-05 36.4 -1.5 39 164-203 213-251 (288)
204 PRK05978 hypothetical protein; 47.0 10 0.00022 30.3 1.1 20 188-212 42-61 (148)
205 COG3105 Uncharacterized protei 46.9 17 0.00036 28.5 2.2 24 28-51 7-30 (138)
206 COG5109 Uncharacterized conser 45.4 14 0.00031 33.2 1.9 45 165-210 336-383 (396)
207 COG4239 ABC-type uncharacteriz 45.0 42 0.00091 29.8 4.7 36 14-49 132-168 (341)
208 PF14015 DUF4231: Protein of u 44.4 31 0.00067 25.2 3.4 21 30-50 23-43 (112)
209 PF03253 UT: Urea transporter; 43.7 41 0.00089 29.8 4.6 32 20-51 189-220 (301)
210 PF04232 SpoVS: Stage V sporul 43.5 16 0.00035 26.5 1.6 37 39-75 13-51 (86)
211 PLN02975 complex I subunit 43.5 57 0.0012 24.2 4.6 71 3-80 7-83 (97)
212 PF14569 zf-UDP: Zinc-binding 43.5 32 0.0007 24.5 3.1 50 163-212 7-60 (80)
213 PF10112 Halogen_Hydrol: 5-bro 43.1 23 0.00051 29.0 2.8 34 37-70 16-49 (199)
214 PF13771 zf-HC5HC2H: PHD-like 42.6 23 0.00049 24.9 2.3 34 163-198 34-68 (90)
215 PF09723 Zn-ribbon_8: Zinc rib 42.4 5.5 0.00012 24.6 -0.8 25 186-211 10-34 (42)
216 KOG4430 Topoisomerase I-bindin 42.3 7.2 0.00016 37.4 -0.4 51 163-213 258-308 (553)
217 COG2359 SpoVS Stage V sporulat 42.2 19 0.0004 25.6 1.7 34 41-74 15-50 (87)
218 KOG1815 Predicted E3 ubiquitin 42.1 9.4 0.0002 35.6 0.3 41 163-203 224-268 (444)
219 PF11177 DUF2964: Protein of u 41.4 74 0.0016 21.6 4.5 45 28-75 13-57 (62)
220 KOG3113 Uncharacterized conser 41.0 25 0.00055 30.6 2.7 46 165-212 111-156 (293)
221 PF13828 DUF4190: Domain of un 40.9 90 0.0019 21.0 4.9 36 33-69 17-52 (62)
222 COG2261 Predicted membrane pro 40.9 88 0.0019 22.5 5.1 44 29-73 33-76 (82)
223 PLN02436 cellulose synthase A 40.4 28 0.0006 36.2 3.3 49 164-212 35-87 (1094)
224 PF10785 NADH-u_ox-rdase: NADH 40.2 81 0.0018 22.6 4.9 66 6-71 4-75 (86)
225 KOG2071 mRNA cleavage and poly 40.2 14 0.00031 35.6 1.2 34 163-198 511-555 (579)
226 KOG4577 Transcription factor L 39.7 8.4 0.00018 34.1 -0.4 32 164-197 91-122 (383)
227 PF02466 Tim17: Tim17/Tim22/Ti 39.6 41 0.00088 25.2 3.5 42 29-70 59-100 (128)
228 KOG1538 Uncharacterized conser 39.3 14 0.00029 36.6 0.9 32 181-212 1044-1075(1081)
229 PF11981 DUF3482: Domain of un 39.2 14 0.00031 32.7 1.0 10 21-30 151-160 (292)
230 PF02318 FYVE_2: FYVE-type zin 39.1 19 0.0004 27.3 1.5 47 164-211 53-102 (118)
231 PRK04201 zinc transporter ZupT 38.6 54 0.0012 28.2 4.5 50 24-75 6-55 (265)
232 PF02535 Zip: ZIP Zinc transpo 38.5 37 0.0008 29.3 3.5 55 28-83 236-293 (317)
233 PF03107 C1_2: C1 domain; Int 37.7 22 0.00047 20.2 1.3 29 167-196 2-30 (30)
234 COG3918 Predicted membrane pro 37.4 68 0.0015 24.9 4.3 18 34-51 79-96 (153)
235 COG5627 MMS21 DNA repair prote 36.9 17 0.00037 31.3 1.0 40 165-207 189-230 (275)
236 KOG0824 Predicted E3 ubiquitin 36.8 14 0.00031 32.8 0.6 47 163-212 103-149 (324)
237 COG1173 DppC ABC-type dipeptid 36.5 63 0.0014 28.4 4.6 37 13-49 76-113 (289)
238 PHA01757 hypothetical protein 36.0 50 0.0011 23.7 3.2 20 22-41 5-24 (98)
239 smart00734 ZnF_Rad18 Rad18-lik 36.0 17 0.00037 20.1 0.6 7 205-211 3-9 (26)
240 PF07282 OrfB_Zn_ribbon: Putat 35.3 34 0.00073 22.9 2.2 34 164-197 27-62 (69)
241 PLN02638 cellulose synthase A 35.2 37 0.0008 35.3 3.3 49 164-212 16-68 (1079)
242 TIGR03441 urea_trans_yut urea 35.1 65 0.0014 28.5 4.5 29 22-50 191-219 (292)
243 PF04172 LrgB: LrgB-like famil 34.6 75 0.0016 26.8 4.6 44 32-77 144-187 (215)
244 COG5220 TFB3 Cdk activating ki 34.6 15 0.00032 31.9 0.3 31 179-209 26-59 (314)
245 PF06596 PsbX: Photosystem II 34.3 72 0.0016 19.7 3.2 17 36-52 18-34 (39)
246 PRK01343 zinc-binding protein; 34.2 22 0.00048 23.8 1.0 10 203-212 9-18 (57)
247 PF11151 DUF2929: Protein of u 34.2 62 0.0013 21.4 3.2 35 34-70 13-47 (57)
248 PF12670 DUF3792: Protein of u 33.9 69 0.0015 24.0 3.9 34 34-67 45-80 (116)
249 PTZ00236 mitochondrial import 33.3 72 0.0016 25.9 4.1 15 34-48 95-109 (164)
250 KOG1245 Chromatin remodeling c 33.2 14 0.00031 39.4 0.1 49 163-212 1106-1158(1404)
251 KOG4021 Mitochondrial ribosoma 32.3 22 0.00047 29.8 0.9 20 193-212 97-117 (239)
252 PRK04307 putative disulfide ox 32.2 86 0.0019 26.6 4.6 39 31-72 61-100 (218)
253 KOG4323 Polycomb-like PHD Zn-f 32.0 33 0.00071 32.4 2.1 37 163-199 166-203 (464)
254 PRK09430 djlA Dna-J like membr 32.0 25 0.00053 30.6 1.3 30 16-48 5-34 (267)
255 PRK04023 DNA polymerase II lar 31.7 39 0.00084 35.0 2.7 44 163-212 624-672 (1121)
256 PF05605 zf-Di19: Drought indu 31.5 9.4 0.0002 24.7 -1.1 13 165-177 2-14 (54)
257 smart00834 CxxC_CXXC_SSSS Puta 31.4 14 0.00029 22.1 -0.3 10 203-212 26-35 (41)
258 PF01034 Syndecan: Syndecan do 31.0 16 0.00035 25.0 0.0 28 48-75 4-31 (64)
259 TIGR00980 3a0801so1tim17 mitoc 30.8 47 0.001 27.1 2.7 28 38-68 93-120 (170)
260 PRK10711 hypothetical protein; 30.7 1.1E+02 0.0025 26.1 5.1 59 16-76 137-197 (231)
261 KOG2979 Protein involved in DN 30.5 26 0.00057 30.5 1.2 41 165-208 176-218 (262)
262 PF09943 DUF2175: Uncharacteri 30.3 38 0.00083 25.3 1.9 33 166-200 3-35 (101)
263 PF10779 XhlA: Haemolysin XhlA 30.3 33 0.00072 23.5 1.5 13 34-46 54-66 (71)
264 PF04829 PT-VENN: Pre-toxin do 29.4 36 0.00079 22.4 1.5 12 36-47 18-29 (55)
265 TIGR02811 formate_TAT formate 29.3 23 0.00049 24.3 0.5 19 51-69 11-29 (66)
266 TIGR00686 phnA alkylphosphonat 29.3 33 0.00071 26.0 1.4 27 166-192 3-30 (109)
267 PF09356 Phage_BR0599: Phage c 28.9 52 0.0011 23.2 2.3 25 174-199 40-64 (80)
268 PLN02400 cellulose synthase 28.8 41 0.00089 35.0 2.4 49 164-212 35-87 (1085)
269 PRK09609 hypothetical protein; 28.2 24 0.00052 31.6 0.6 19 32-50 48-66 (312)
270 KOG4218 Nuclear hormone recept 27.8 22 0.00049 32.3 0.3 48 163-211 13-75 (475)
271 TIGR03750 conj_TIGR03750 conju 27.6 65 0.0014 24.4 2.8 14 59-72 52-65 (111)
272 COG4854 Predicted membrane pro 27.3 92 0.002 23.8 3.5 38 31-68 7-44 (126)
273 KOG3352 Cytochrome c oxidase, 27.2 32 0.0007 27.5 1.1 26 166-193 112-145 (153)
274 PLN02915 cellulose synthase A 27.0 55 0.0012 34.0 2.9 49 164-212 14-66 (1044)
275 TIGR01495 ETRAMP Plasmodium ri 26.9 53 0.0011 23.7 2.0 18 22-39 53-70 (85)
276 PF05502 Dynactin_p62: Dynacti 26.6 33 0.00071 32.5 1.2 16 164-179 25-40 (483)
277 PF03458 UPF0126: UPF0126 doma 26.2 71 0.0015 22.4 2.6 35 31-65 4-38 (80)
278 PF01032 FecCD: FecCD transpor 26.1 2.7E+02 0.0058 24.6 6.9 61 11-74 39-118 (311)
279 TIGR00659 conserved hypothetic 26.0 1.5E+02 0.0033 25.2 5.0 50 27-76 145-196 (226)
280 PF08566 Pam17: Mitochondrial 25.9 62 0.0013 26.5 2.5 19 95-113 115-133 (173)
281 PF10247 Romo1: Reactive mitoc 25.6 44 0.00096 23.1 1.4 12 34-45 17-28 (67)
282 COG3086 RseC Positive regulato 25.5 1.4E+02 0.0031 23.8 4.4 44 22-71 75-119 (150)
283 PRK10220 hypothetical protein; 25.4 46 0.001 25.2 1.6 27 166-192 4-31 (111)
284 TIGR00894 2A0114euk Na(+)-depe 25.3 77 0.0017 28.7 3.4 28 23-50 393-420 (465)
285 PF06937 EURL: EURL protein; 25.2 60 0.0013 28.5 2.4 45 164-208 29-75 (285)
286 COG3492 Uncharacterized protei 25.1 36 0.00079 25.0 0.9 12 190-201 42-53 (104)
287 PF13240 zinc_ribbon_2: zinc-r 24.8 13 0.00028 20.0 -1.1 9 168-176 2-10 (23)
288 smart00531 TFIIE Transcription 24.7 56 0.0012 25.6 2.1 16 164-179 98-113 (147)
289 TIGR01562 FdhE formate dehydro 24.6 27 0.00059 31.1 0.2 47 164-211 183-232 (305)
290 PF05767 Pox_A14: Poxvirus vir 24.1 73 0.0016 23.3 2.3 31 1-34 1-31 (92)
291 cd00730 rubredoxin Rubredoxin; 23.6 51 0.0011 21.3 1.3 10 203-212 34-43 (50)
292 PF00645 zf-PARP: Poly(ADP-rib 23.5 69 0.0015 22.2 2.1 40 163-202 5-52 (82)
293 PF06305 DUF1049: Protein of u 23.2 1.1E+02 0.0024 20.1 3.1 13 32-44 28-40 (68)
294 PF04930 FUN14: FUN14 family; 23.1 95 0.0021 22.6 2.9 37 34-76 4-40 (100)
295 cd00729 rubredoxin_SM Rubredox 23.1 48 0.001 19.5 1.0 8 204-211 19-26 (34)
296 TIGR02098 MJ0042_CXXC MJ0042 f 23.1 61 0.0013 19.0 1.5 27 166-192 3-36 (38)
297 TIGR00808 malonate_madM malona 22.9 50 0.0011 28.1 1.5 15 37-51 149-163 (254)
298 TIGR02359 thiW thiW protein. L 22.7 1.5E+02 0.0032 23.9 4.1 36 15-50 52-89 (160)
299 COG2824 PhnA Uncharacterized Z 22.7 50 0.0011 25.0 1.3 24 166-189 4-28 (112)
300 PF04710 Pellino: Pellino; In 22.7 28 0.00062 32.1 0.0 49 164-213 327-400 (416)
301 PF09719 C_GCAxxG_C_C: Putativ 22.6 87 0.0019 23.3 2.7 33 41-75 22-55 (120)
302 PF14353 CpXC: CpXC protein 22.6 51 0.0011 24.9 1.4 12 166-177 2-13 (128)
303 COG4214 XylH ABC-type xylose t 22.6 1.2E+02 0.0027 27.8 4.0 34 38-76 325-358 (394)
304 KOG4451 Uncharacterized conser 22.6 48 0.001 28.5 1.3 20 193-212 253-272 (286)
305 PF13913 zf-C2HC_2: zinc-finge 22.6 16 0.00034 20.0 -1.1 13 166-178 3-15 (25)
306 COG5416 Uncharacterized integr 22.5 1.6E+02 0.0035 21.8 3.9 20 14-33 23-42 (98)
307 PRK15406 oligopeptide ABC tran 22.4 1.5E+02 0.0033 26.1 4.6 37 13-49 92-129 (302)
308 PRK02870 heat shock protein Ht 22.4 1.5E+02 0.0032 26.8 4.5 42 2-43 4-47 (336)
309 KOG4443 Putative transcription 22.3 47 0.001 32.7 1.4 26 186-211 40-70 (694)
310 smart00794 AgrD Staphylococcal 22.3 99 0.0021 19.7 2.4 21 20-40 4-24 (45)
311 KOG0768 Mitochondrial carrier 22.3 43 0.00092 30.1 1.0 22 50-71 223-244 (323)
312 COG4779 FepG ABC-type enteroba 22.1 89 0.0019 28.0 2.9 14 58-71 133-147 (346)
313 TIGR00980 3a0801so1tim17 mitoc 21.8 1.4E+02 0.003 24.4 3.8 18 52-69 85-102 (170)
314 PF10146 zf-C4H2: Zinc finger- 21.8 56 0.0012 27.9 1.6 21 192-212 197-217 (230)
315 KOG1512 PHD Zn-finger protein 21.7 37 0.00081 30.1 0.6 33 164-197 313-345 (381)
316 PF10235 Cript: Microtubule-as 21.6 56 0.0012 23.9 1.3 36 165-213 44-79 (90)
317 KOG4608 Uncharacterized conser 21.5 19 0.00041 31.1 -1.3 14 57-70 191-204 (270)
318 PRK03564 formate dehydrogenase 21.4 34 0.00074 30.6 0.2 47 164-211 186-234 (309)
319 PRK15021 microcin C ABC transp 21.4 1.8E+02 0.0039 26.2 4.9 37 13-49 131-168 (341)
320 COG3813 Uncharacterized protei 21.2 77 0.0017 22.3 1.9 43 167-212 7-50 (84)
321 PF05191 ADK_lid: Adenylate ki 21.1 44 0.00094 20.0 0.6 28 183-212 3-30 (36)
322 PRK12821 aspartyl/glutamyl-tRN 21.0 74 0.0016 30.0 2.3 21 31-51 102-122 (477)
323 PRK04972 putative transporter; 21.0 98 0.0021 29.8 3.3 39 31-71 95-133 (558)
324 PF13829 DUF4191: Domain of un 20.9 1.1E+02 0.0025 26.0 3.3 18 55-72 53-70 (224)
325 COG1079 Uncharacterized ABC-ty 20.8 2.5E+02 0.0054 25.1 5.5 55 16-71 8-79 (304)
326 PF11990 DUF3487: Protein of u 20.7 80 0.0017 24.2 2.1 13 34-46 32-44 (121)
327 PF10821 DUF2567: Protein of u 20.7 1.2E+02 0.0026 24.7 3.3 44 29-72 49-95 (167)
328 PF15353 HECA: Headcase protei 20.4 59 0.0013 24.5 1.3 15 184-199 38-52 (107)
329 PF03966 Trm112p: Trm112p-like 20.1 68 0.0015 21.6 1.5 9 183-191 55-63 (68)
330 TIGR02865 spore_II_E stage II 20.1 2.3E+02 0.005 28.5 5.7 8 166-173 362-369 (764)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.74 E-value=1e-18 Score=154.83 Aligned_cols=74 Identities=39% Similarity=0.855 Sum_probs=64.9
Q ss_pred cCCCCCHHHHhcCCceeeeccCCCCCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCC-CcccCCCC
Q 028116 139 LSRGLTGESLKKLPCHVILDEIKPTQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGS-CPVCRRDV 213 (213)
Q Consensus 139 ~~~gls~~~i~~lp~~~~~~~~~~~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~s-CPlCR~~v 213 (213)
....+.++.++++|..+|+....+.....|+||+|+|++||.+|.|| |+|.||.+|||+||.++.+ ||+||+++
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di 277 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDI 277 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcC
Confidence 44678899999999999988765333369999999999999999999 9999999999999998865 99999864
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=99.66 E-value=2.7e-17 Score=104.85 Aligned_cols=44 Identities=50% Similarity=1.167 Sum_probs=40.7
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccC
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCR 210 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 210 (213)
++|+||+++|..++.+..++ |+|.||.+||.+|++++++||+||
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 999999999999999999999998
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.49 E-value=1.7e-14 Score=122.76 Aligned_cols=74 Identities=27% Similarity=0.588 Sum_probs=57.9
Q ss_pred CCCCCHHHHhcCCceeeeccCC--CCCCCcccccccccccCc----eeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 140 SRGLTGESLKKLPCHVILDEIK--PTQSSCCSICLQDIIVGE----LARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 140 ~~gls~~~i~~lp~~~~~~~~~--~~~~~~C~ICle~~~~ge----~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
..+.+++.++.+|.....-+.. ...+.+|+||++++...+ .+..++.|+|.||..||.+|++++.+||+||.++
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 4566888899999886543322 245789999999987654 2345666999999999999999999999999864
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.44 E-value=6.5e-14 Score=98.87 Aligned_cols=47 Identities=32% Similarity=0.859 Sum_probs=36.2
Q ss_pred CCCcccccccccccC---------ceeeecCCCCCcccHhhHHHHHhcCCCCcccC
Q 028116 164 QSSCCSICLQDIIVG---------ELARSLPHCHHTFHLACVDKWLIRHGSCPVCR 210 (213)
Q Consensus 164 ~~~~C~ICle~~~~g---------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 210 (213)
.++.|+||+++|.+. +....++.|+|.||..||.+||+++.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 455699999999332 22334444999999999999999999999998
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=1.4e-13 Score=121.86 Aligned_cols=50 Identities=38% Similarity=1.016 Sum_probs=44.4
Q ss_pred CCCCcccccccc-cccC---------ceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQD-IIVG---------ELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~-~~~g---------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
.++..|.||+++ |..+ .++++|| |||+||..|++.|++++.+||+||.||
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 578899999999 5554 2568999 999999999999999999999999985
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=3.6e-13 Score=116.59 Aligned_cols=50 Identities=44% Similarity=1.106 Sum_probs=45.9
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHh-cCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLI-RHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v 213 (213)
....+|.||+++|..++.++.|| |+|.||..|+++|+. -+..||+||.++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCC
Confidence 34588999999999999999999 999999999999998 577999999975
No 7
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.22 E-value=6.3e-12 Score=90.51 Aligned_cols=50 Identities=34% Similarity=0.872 Sum_probs=39.7
Q ss_pred CCCCccccccccccc--------C-ceeeecCCCCCcccHhhHHHHHhc---CCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIV--------G-ELARSLPHCHHTFHLACVDKWLIR---HGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~--------g-e~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~ 212 (213)
.+++.|.||...|.. | +.+..+.+|+|.||..||.+||.+ +++||+||++
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~ 80 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQP 80 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCe
Confidence 347889999988863 2 334456679999999999999986 4689999986
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=99.20 E-value=9e-12 Score=81.36 Aligned_cols=45 Identities=33% Similarity=0.838 Sum_probs=38.9
Q ss_pred CCcccccccccccCceeeecCCCCCc-ccHhhHHHHHhcCCCCcccCCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHT-FHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
+..|.||++.... +..+| |+|. |+..|+.+|++++.+||+||+++
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i 47 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPI 47 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhh
Confidence 5789999998554 77888 9999 99999999999999999999975
No 9
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.20 E-value=1.4e-11 Score=76.88 Aligned_cols=44 Identities=43% Similarity=1.079 Sum_probs=37.0
Q ss_pred cccccccccccCceeeecCCCCCcccHhhHHHHHhc-CCCCcccCCCC
Q 028116 167 CCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR-HGSCPVCRRDV 213 (213)
Q Consensus 167 ~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v 213 (213)
+|+||++.+ .+.+...+ |+|.||..|+++|+.+ +.+||+||+++
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 23455555 9999999999999998 77899999875
No 10
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=2.2e-11 Score=104.94 Aligned_cols=47 Identities=30% Similarity=0.846 Sum_probs=41.9
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
+.+..|.+||+..+. +..+| |||+||+.||..|...+..||+||.++
T Consensus 237 ~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~ 283 (293)
T KOG0317|consen 237 EATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKF 283 (293)
T ss_pred CCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccC
Confidence 567899999997655 77899 999999999999999999999999863
No 11
>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=99.12 E-value=4.3e-11 Score=74.24 Aligned_cols=39 Identities=38% Similarity=1.000 Sum_probs=32.9
Q ss_pred ccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCccc
Q 028116 168 CSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVC 209 (213)
Q Consensus 168 C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 209 (213)
|+||++.+.+ .+..++ |||.|+.+|+.+|++++.+||+|
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 8999998776 345676 99999999999999999999998
No 12
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=1.5e-11 Score=116.32 Aligned_cols=49 Identities=37% Similarity=0.955 Sum_probs=44.7
Q ss_pred CCCCcccccccccccCce--eeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGEL--ARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~--v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
..+..|+||+|++..++. +.+|| |+|+||..|+.+|++++++||+||..
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~ 339 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTV 339 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhh
Confidence 457899999999998765 78999 99999999999999999999999973
No 13
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.11 E-value=5.7e-11 Score=97.82 Aligned_cols=47 Identities=34% Similarity=0.776 Sum_probs=38.7
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc----------------CCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR----------------HGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~----------------~~sCPlCR~~v 213 (213)
.++.+|+||++.+++ +..++ |+|.||..||.+|+.. +.+||+||+++
T Consensus 16 ~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 16 GGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred CCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 456889999998765 45666 9999999999999852 34799999875
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.08 E-value=6.8e-11 Score=98.82 Aligned_cols=50 Identities=26% Similarity=0.773 Sum_probs=39.9
Q ss_pred CCCCcccccccccccC-----ceeeecCCCCCcccHhhHHHHHhcC------CCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVG-----ELARSLPHCHHTFHLACVDKWLIRH------GSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~g-----e~v~~Lp~C~H~FH~~CI~~WL~~~------~sCPlCR~~ 212 (213)
..+.+|+||+|...+. .....|+.|+|.||..||.+|...+ .+||+||..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~ 228 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTR 228 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcce
Confidence 5679999999986332 2356787899999999999999753 469999975
No 15
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.04 E-value=1.4e-10 Score=97.28 Aligned_cols=48 Identities=31% Similarity=0.661 Sum_probs=38.4
Q ss_pred CCCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcC---CCCcccCCCC
Q 028116 162 PTQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRH---GSCPVCRRDV 213 (213)
Q Consensus 162 ~~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~---~sCPlCR~~v 213 (213)
+...-+|.|||+.-++ +.+.. |||.||+.||.+||..+ ..||+||..|
T Consensus 44 ~~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~V 94 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEV 94 (230)
T ss_pred CCCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCcccccc
Confidence 3667889999997544 44554 99999999999999854 4689999865
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.01 E-value=2.2e-10 Score=72.96 Aligned_cols=44 Identities=30% Similarity=0.711 Sum_probs=38.3
Q ss_pred cccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 167 CCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 167 ~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
.|+||+++|.+.+..+.++ |+|+|+..|+.++......||+||+
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 5999999996656777777 9999999999999866778999985
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=4.8e-10 Score=90.66 Aligned_cols=49 Identities=27% Similarity=0.651 Sum_probs=41.4
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
+....|+|||+.+.+... .-.+|||+||..||+.-++....||+||+.|
T Consensus 129 ~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI 177 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKI 177 (187)
T ss_pred ccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence 556789999999887433 3346999999999999999999999999764
No 18
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.93 E-value=6.4e-10 Score=78.61 Aligned_cols=48 Identities=31% Similarity=0.717 Sum_probs=37.8
Q ss_pred CCcccccccccccC-ceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 165 SSCCSICLQDIIVG-ELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 165 ~~~C~ICle~~~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
...|+-|+....++ |.+.....|+|.||..||.+||..++.||++|++
T Consensus 31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~ 79 (88)
T COG5194 31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQT 79 (88)
T ss_pred cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCce
Confidence 45566665554444 4566666799999999999999999999999985
No 19
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.90 E-value=1.1e-09 Score=65.92 Aligned_cols=38 Identities=45% Similarity=1.140 Sum_probs=32.8
Q ss_pred ccccccccccCceeeecCCCCCcccHhhHHHHHh-cCCCCccc
Q 028116 168 CSICLQDIIVGELARSLPHCHHTFHLACVDKWLI-RHGSCPVC 209 (213)
Q Consensus 168 C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlC 209 (213)
|+||++. .+.+..+| |+|.||..|+++|+. .+.+||+|
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 8999988 34577888 999999999999998 67789998
No 20
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.89 E-value=9.9e-10 Score=68.46 Aligned_cols=39 Identities=41% Similarity=0.973 Sum_probs=33.1
Q ss_pred ccccccccccCceeeecCCCCCcccHhhHHHHHh--cCCCCccc
Q 028116 168 CSICLQDIIVGELARSLPHCHHTFHLACVDKWLI--RHGSCPVC 209 (213)
Q Consensus 168 C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlC 209 (213)
|+||++.+... +..++ |+|.||..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999987763 35676 999999999999999 45679998
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.88 E-value=1.3e-09 Score=68.83 Aligned_cols=38 Identities=39% Similarity=0.866 Sum_probs=29.7
Q ss_pred ccccccccccCceeeecCCCCCcccHhhHHHHHhcC----CCCccc
Q 028116 168 CSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRH----GSCPVC 209 (213)
Q Consensus 168 C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~----~sCPlC 209 (213)
|+||++-|.+ +..|+ |||.|+..||.+|.+++ ..||.|
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 8999999887 77888 99999999999999754 369998
No 22
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.85 E-value=3.2e-09 Score=71.90 Aligned_cols=44 Identities=30% Similarity=0.595 Sum_probs=38.7
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
..|+||++.+.+ +..+| |||+|+..||.+|++++.+||+|++++
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence 469999998876 45677 999999999999999999999999864
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=6.4e-10 Score=77.95 Aligned_cols=50 Identities=32% Similarity=0.763 Sum_probs=39.4
Q ss_pred CCCCccccccccccc---------CceeeecCCCCCcccHhhHHHHHhc---CCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIV---------GELARSLPHCHHTFHLACVDKWLIR---HGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~---------ge~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~ 212 (213)
..++.|-||.-.|.. ++.+-++..|.|.||..||.+|+.. +..||+||++
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~ 79 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQT 79 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhe
Confidence 456688888877753 3455567779999999999999974 5579999985
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=98.71 E-value=8.5e-09 Score=93.83 Aligned_cols=47 Identities=32% Similarity=0.650 Sum_probs=40.6
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
+....|+||++.|.. +..+| |+|.||..||..|+..+..||+||.++
T Consensus 24 e~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~ 70 (397)
T TIGR00599 24 DTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAED 70 (397)
T ss_pred ccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence 456899999998865 44677 999999999999999988999999864
No 25
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.64 E-value=2.2e-08 Score=65.30 Aligned_cols=42 Identities=24% Similarity=0.704 Sum_probs=33.3
Q ss_pred cccccccccccCceeeecCCCC-----CcccHhhHHHHHhcC--CCCcccC
Q 028116 167 CCSICLQDIIVGELARSLPHCH-----HTFHLACVDKWLIRH--GSCPVCR 210 (213)
Q Consensus 167 ~C~ICle~~~~ge~v~~Lp~C~-----H~FH~~CI~~WL~~~--~sCPlCR 210 (213)
.|.||++ ..+++.....| |. |.+|..|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 33445556888 85 999999999999754 4899995
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.61 E-value=2.9e-08 Score=62.98 Aligned_cols=38 Identities=32% Similarity=0.762 Sum_probs=23.0
Q ss_pred ccccccccccC-ceeeecCCCCCcccHhhHHHHHhcCC----CCc
Q 028116 168 CSICLQDIIVG-ELARSLPHCHHTFHLACVDKWLIRHG----SCP 207 (213)
Q Consensus 168 C~ICle~~~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~----sCP 207 (213)
|+||.| |... ..+..|| |||+|+.+|++++++++. +||
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 7554 4668899 999999999999998542 687
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=1.7e-08 Score=86.22 Aligned_cols=47 Identities=34% Similarity=0.807 Sum_probs=39.9
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHH-HHhcCCC-CcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDK-WLIRHGS-CPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~-WL~~~~s-CPlCR~~v 213 (213)
..+..|+||++.... +..+| |||+||..||.. |-+++.. ||+||+.+
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 457889999987554 77888 999999999999 9887776 99999864
No 28
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=2.8e-08 Score=85.26 Aligned_cols=50 Identities=34% Similarity=0.791 Sum_probs=41.3
Q ss_pred CCCCcccccccccccCc-------eeeecCCCCCcccHhhHHHHH--hcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGE-------LARSLPHCHHTFHLACVDKWL--IRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge-------~v~~Lp~C~H~FH~~CI~~WL--~~~~sCPlCR~~v 213 (213)
-++.-|.||-+.+...+ ..-+|. |+|.||..||.-|- -++++||.|++.|
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHh
Confidence 45688999998876553 566887 99999999999995 4788999999764
No 29
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.48 E-value=2.8e-08 Score=69.50 Aligned_cols=49 Identities=33% Similarity=0.889 Sum_probs=23.2
Q ss_pred CCcccccccccc-cCcee-ee--cCCCCCcccHhhHHHHHhc-----------CCCCcccCCCC
Q 028116 165 SSCCSICLQDII-VGELA-RS--LPHCHHTFHLACVDKWLIR-----------HGSCPVCRRDV 213 (213)
Q Consensus 165 ~~~C~ICle~~~-~ge~v-~~--Lp~C~H~FH~~CI~~WL~~-----------~~sCPlCR~~v 213 (213)
+.+|.||++... .++.+ .. -++|++.||..|+.+||.. ..+||.|+++|
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 478999999866 43332 22 2479999999999999973 12599999864
No 30
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=6.7e-08 Score=71.59 Aligned_cols=50 Identities=28% Similarity=0.769 Sum_probs=40.2
Q ss_pred CCCCcccccccccc-------------cCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDII-------------VGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~-------------~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
-.-+.|+||...+. .+|.......|+|.||..||.+||++++.||+|.++
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 45677999875542 235566777799999999999999999999999764
No 31
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=1.2e-07 Score=87.17 Aligned_cols=50 Identities=34% Similarity=0.814 Sum_probs=38.6
Q ss_pred CCCCcccccccccccCc-----e---------eeecCCCCCcccHhhHHHHHhc-CCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGE-----L---------ARSLPHCHHTFHLACVDKWLIR-HGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge-----~---------v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v 213 (213)
.....|+||++++.--. . ....| |.|+||..|+.+|... +-.||.||.++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence 45678999999875311 1 12457 9999999999999995 55999999975
No 32
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=1.7e-07 Score=86.51 Aligned_cols=45 Identities=31% Similarity=0.700 Sum_probs=35.0
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhc-----CCCCcccCCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR-----HGSCPVCRRDV 213 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~-----~~sCPlCR~~v 213 (213)
+..|||||+.... +..+ .|||+||.+||.+.+.. ...||+||..|
T Consensus 186 ~~~CPICL~~~~~---p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCc---cccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 6789999998544 3334 49999999999888753 45899999753
No 33
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=4.2e-07 Score=80.78 Aligned_cols=47 Identities=28% Similarity=0.723 Sum_probs=41.2
Q ss_pred CCCCcccccccccccCceeeecCCCCCc-ccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHT-FHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
++..+|.||+.+-++ ..+|| |.|+ .|..|-+..--+++.||+||+++
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi 335 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPI 335 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccch
Confidence 456889999998665 77999 9999 99999999877899999999975
No 34
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.31 E-value=1.6e-07 Score=91.77 Aligned_cols=51 Identities=25% Similarity=0.789 Sum_probs=39.4
Q ss_pred CCCCcccccccccccCc---eeeecCCCCCcccHhhHHHHHhc--CCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGE---LARSLPHCHHTFHLACVDKWLIR--HGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge---~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~v 213 (213)
...++|+||+.-+..-| .-.+.|.|.|.||..|+-+|++. +++||+||.++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 56789999987765211 22355669999999999999986 45899999864
No 35
>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=98.31 E-value=4.3e-07 Score=63.88 Aligned_cols=46 Identities=24% Similarity=0.482 Sum_probs=36.3
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc-CCCCcccCCCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR-HGSCPVCRRDV 213 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v 213 (213)
+...|+|+.+-|.+ +..+| +||+|...||.+||.+ +.+||+||.++
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l 49 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPL 49 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence 35689999998876 67888 9999999999999998 88999998864
No 36
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.27 E-value=2.9e-07 Score=83.77 Aligned_cols=46 Identities=37% Similarity=0.907 Sum_probs=38.0
Q ss_pred CCCCcccccccccccCc-eeeecCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 163 TQSSCCSICLQDIIVGE-LARSLPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge-~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
.+-.+||||||.+...- .++..+ |.|.||..|+.+| ...+||+||.
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~ 219 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRY 219 (493)
T ss_pred ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhh
Confidence 45688999999987653 344555 9999999999999 6789999995
No 37
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.16 E-value=6.5e-07 Score=79.15 Aligned_cols=46 Identities=33% Similarity=0.724 Sum_probs=40.5
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
.-..|-||.+-|.. +...| |+|.||.-||.+.|..+..||.|+.++
T Consensus 22 ~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 22 DLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTV 67 (442)
T ss_pred HHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceeccc
Confidence 34679999998876 66788 999999999999999999999999764
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.14 E-value=1.1e-06 Score=76.39 Aligned_cols=46 Identities=35% Similarity=0.682 Sum_probs=39.0
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
+....|-||-+-|.. ....+ |||.||.-||...|..|.-||+||.+
T Consensus 23 Ds~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~ 68 (391)
T COG5432 23 DSMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCRED 68 (391)
T ss_pred hhHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCcccccc
Confidence 345779999887765 44555 99999999999999999999999975
No 39
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=1.9e-06 Score=77.28 Aligned_cols=50 Identities=36% Similarity=0.854 Sum_probs=39.5
Q ss_pred CCCCcccccccccccCc----eeeecCCCCCcccHhhHHHHH--hc-----CCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGE----LARSLPHCHHTFHLACVDKWL--IR-----HGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge----~v~~Lp~C~H~FH~~CI~~WL--~~-----~~sCPlCR~~ 212 (213)
..+..|.||++...+.- ..+.||+|.|.||.+||.+|- .+ ..+||.||.+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP 219 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence 45789999999865432 235678899999999999997 44 4789999975
No 40
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.91 E-value=2.1e-06 Score=82.79 Aligned_cols=48 Identities=25% Similarity=0.424 Sum_probs=42.6
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
....|++|+..+.++......+ |+|+||..||+.|-+.-.+||+||..
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~E 169 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGE 169 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhh
Confidence 3467999999998887777776 99999999999999999999999975
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=2.6e-06 Score=56.22 Aligned_cols=45 Identities=33% Similarity=0.721 Sum_probs=33.8
Q ss_pred CCcccccccccccCceeeecCCCCCc-ccHhhHHHHHh-cCCCCcccCCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHT-FHLACVDKWLI-RHGSCPVCRRDV 213 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~-FH~~CI~~WL~-~~~sCPlCR~~v 213 (213)
+.+|.||+|.-.+ .+ |-.|||+ .+..|-.+.++ .+..||+||+++
T Consensus 7 ~dECTICye~pvd--sV--lYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVD--SV--LYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcch--HH--HHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 4889999987443 23 2239998 78899765554 789999999874
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.88 E-value=2.8e-06 Score=58.07 Aligned_cols=43 Identities=30% Similarity=0.686 Sum_probs=22.4
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
--.|++|.+-++. +..+.+|.|+|+..||.+-+. ..||+|+.|
T Consensus 7 lLrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~P 49 (65)
T PF14835_consen 7 LLRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIG--SECPVCHTP 49 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B
T ss_pred hcCCcHHHHHhcC---CceeccCccHHHHHHhHHhcC--CCCCCcCCh
Confidence 3679999887665 555667999999999987544 349999976
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=2e-06 Score=76.43 Aligned_cols=48 Identities=29% Similarity=0.674 Sum_probs=39.7
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc-CCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR-HGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v 213 (213)
..+..|+|||+-++. ....+.|.|-||.+||.+-++. +++||.||+.+
T Consensus 41 ~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 456889999998766 4455679999999999999975 67899999863
No 44
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.75 E-value=8.8e-06 Score=71.03 Aligned_cols=38 Identities=26% Similarity=0.627 Sum_probs=34.0
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHh
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLI 201 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~ 201 (213)
-....|.|||-.|..++...+.+ |-|+||..|+.++|.
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~ 150 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLT 150 (368)
T ss_pred CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHH
Confidence 45678999999999999888998 999999999988864
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=2.4e-05 Score=75.48 Aligned_cols=45 Identities=29% Similarity=0.606 Sum_probs=36.6
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHh-cCCCCcccCCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLI-RHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 212 (213)
.-..||+|-..+++ + ++++|+|.||.+||.+-+. ++..||.|-++
T Consensus 642 ~~LkCs~Cn~R~Kd---~-vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~a 687 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD---A-VITKCGHVFCEECVQTRYETRQRKCPKCNAA 687 (698)
T ss_pred hceeCCCccCchhh---H-HHHhcchHHHHHHHHHHHHHhcCCCCCCCCC
Confidence 34789999877665 2 4557999999999999886 67899999764
No 46
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.52 E-value=2.7e-05 Score=70.21 Aligned_cols=47 Identities=38% Similarity=0.870 Sum_probs=39.0
Q ss_pred CCCcccccccccccC-ceeeecCCCCCcccHhhHHHHHhcC--CCCcccCC
Q 028116 164 QSSCCSICLQDIIVG-ELARSLPHCHHTFHLACVDKWLIRH--GSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~ 211 (213)
-+.-|-.|=|.+-.. |....|| |.|+||..|+.+.|.++ .+||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 346699998887543 5788999 99999999999999875 48999994
No 47
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=2.7e-05 Score=62.53 Aligned_cols=42 Identities=29% Similarity=0.604 Sum_probs=35.1
Q ss_pred CceeeeccCCCCCCCcccccccccccCceeeecCCCCCcccHh
Q 028116 152 PCHVILDEIKPTQSSCCSICLQDIIVGELARSLPHCHHTFHLA 194 (213)
Q Consensus 152 p~~~~~~~~~~~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~ 194 (213)
|+..|.++...++..+|.||||+++.|+++.+|| |-.+||+.
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK~ 205 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHKQ 205 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeecC
Confidence 4555655555577889999999999999999999 99999963
No 48
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.40 E-value=8.7e-05 Score=49.82 Aligned_cols=43 Identities=35% Similarity=0.556 Sum_probs=28.1
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc--CCCCcc
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR--HGSCPV 208 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPl 208 (213)
.....|||.++.|++ .++.. +|+|+|-...|.+||.+ +..||+
T Consensus 9 ~~~~~CPiT~~~~~~--PV~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFED--PVKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SS--EEEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhC--CcCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 345789999999875 35555 59999999999999954 446998
No 49
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=8.2e-05 Score=68.05 Aligned_cols=47 Identities=30% Similarity=0.786 Sum_probs=40.2
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
..+.+|.||..-+.. +..+| |||.|+..||++-+.+...||.||.++
T Consensus 82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l 128 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDEL 128 (398)
T ss_pred cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccc
Confidence 457889999887766 56778 999999999999888888999999763
No 50
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.35 E-value=5.9e-05 Score=68.28 Aligned_cols=46 Identities=26% Similarity=0.749 Sum_probs=37.3
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc--CCCCcccCCCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR--HGSCPVCRRDV 213 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~v 213 (213)
.-..|-||-|. +..++.-| |||..|..|+..|-.. .++||.||.++
T Consensus 368 TFeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 368 TFELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred hHHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 34669999775 34488899 9999999999999754 46899999764
No 51
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.25 E-value=0.00018 Score=46.30 Aligned_cols=40 Identities=30% Similarity=0.884 Sum_probs=27.6
Q ss_pred ccccccccccCceeeecCCCC-----CcccHhhHHHHHhc--CCCCccc
Q 028116 168 CSICLQDIIVGELARSLPHCH-----HTFHLACVDKWLIR--HGSCPVC 209 (213)
Q Consensus 168 C~ICle~~~~ge~v~~Lp~C~-----H~FH~~CI~~WL~~--~~sCPlC 209 (213)
|-||+++-.+.+ .-..| |. .+.|..|+.+|+.. +.+|++|
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 789999877655 44566 54 37899999999984 5679988
No 52
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.16 E-value=0.00024 Score=72.74 Aligned_cols=50 Identities=32% Similarity=0.786 Sum_probs=38.4
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcC----------CCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRH----------GSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~----------~sCPlCR~~v 213 (213)
+.++.|-||+.+--.......|. |+|+||..|..+-|++. -+||+|+.++
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 56788999988754445556776 99999999998766542 2899999864
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.09 E-value=0.00025 Score=64.90 Aligned_cols=48 Identities=29% Similarity=0.724 Sum_probs=39.8
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
+++..|++|...+.+. +... .|+|.||..|+.+|+..+..||.||.++
T Consensus 19 ~~~l~C~~C~~vl~~p--~~~~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~ 66 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDP--VQTT-TCGHRFCAGCLLESLSNHQKCPVCRQEL 66 (391)
T ss_pred cccccCccccccccCC--CCCC-CCCCcccccccchhhccCcCCccccccc
Confidence 5678999999987763 2223 4999999999999999999999998753
No 54
>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain
Probab=97.03 E-value=0.00053 Score=52.64 Aligned_cols=39 Identities=38% Similarity=0.503 Sum_probs=27.6
Q ss_pred HhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 32 ALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
+++|+++||++|++.|- ...|.+.||++||+.|++....
T Consensus 56 a~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G~~~g~~ 94 (118)
T PF13436_consen 56 AAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVGAAAGAA 94 (118)
T ss_pred HHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHHHHhhhh
Confidence 45667777777777766 4557788888888888776654
No 55
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.87 E-value=0.00082 Score=56.80 Aligned_cols=49 Identities=24% Similarity=0.718 Sum_probs=40.4
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc--------CCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR--------HGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~--------~~sCPlCR~~v 213 (213)
+.+.-|..|-..+..||.+|.. |=|.||..|++.|-.. -.+||.|..+|
T Consensus 48 DY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 3456799999999999988654 9999999999999763 23799998765
No 56
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.71 E-value=0.00063 Score=50.28 Aligned_cols=33 Identities=30% Similarity=0.713 Sum_probs=27.7
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHH
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVD 197 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~ 197 (213)
+++..|++|-+.+.. ......| |+|+||..|++
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 346789999999987 5667888 99999999975
No 57
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.0028 Score=56.23 Aligned_cols=44 Identities=23% Similarity=0.561 Sum_probs=35.7
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCccc
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVC 209 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 209 (213)
.+...|+||+..-++.. ++.-=|-+||.+||.+.+.+++.||+=
T Consensus 298 ~~~~~CpvClk~r~Npt---vl~vSGyVfCY~Ci~~Yv~~~~~CPVT 341 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPT---VLEVSGYVFCYPCIFSYVVNYGHCPVT 341 (357)
T ss_pred CccccChhHHhccCCCc---eEEecceEEeHHHHHHHHHhcCCCCcc
Confidence 56788999999877632 232258999999999999999999974
No 58
>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper
Probab=96.66 E-value=0.0021 Score=41.02 Aligned_cols=33 Identities=45% Similarity=0.602 Sum_probs=20.6
Q ss_pred HHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHH
Q 028116 31 FALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVL 68 (213)
Q Consensus 31 ~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~ 68 (213)
-|+.|+.+|+++|+++| .--+||.+||.+|++.
T Consensus 6 GA~iGA~~GA~iG~~~g-----~~~~GA~iGA~~Ga~~ 38 (45)
T PF13441_consen 6 GAAIGAAAGAVIGAIIG-----NGGKGAAIGAAAGALA 38 (45)
T ss_pred HHHHHHHHHHHHHHhhC-----CCcccchhhhhhhhhh
Confidence 46677788888888877 2234555555555543
No 59
>PF13488 Gly-zipper_Omp: Glycine zipper
Probab=96.65 E-value=0.0019 Score=41.45 Aligned_cols=35 Identities=43% Similarity=0.611 Sum_probs=18.9
Q ss_pred hHHHHHHHHhhhcccc---cccccchhhhhhhhhHHHH
Q 028116 35 GAFTGAITGALAGRAS---DCGVLRGAGLGAIAGAVLS 69 (213)
Q Consensus 35 g~~~ga~~ga~~g~~~---~~g~~rGa~~GaiaGav~s 69 (213)
|+.+||++|+++|..+ ..|-+-|+++|++.|+...
T Consensus 2 Ga~iGA~~Ga~iG~~~g~~~~ga~iGa~vGa~~G~~ig 39 (46)
T PF13488_consen 2 GAAIGAAAGAAIGAATGGPGKGAAIGAAVGAAVGAAIG 39 (46)
T ss_pred cHHHHHHHHHHHHHHhCCchhhHHHHHHHHHHHHHHHH
Confidence 4445555555555444 3455666666666665543
No 60
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.64 E-value=0.0013 Score=42.48 Aligned_cols=44 Identities=23% Similarity=0.521 Sum_probs=22.9
Q ss_pred ccccccccccCc-eeeecCCCCCcccHhhHHHHHh-cCCCCcccCCC
Q 028116 168 CSICLQDIIVGE-LARSLPHCHHTFHLACVDKWLI-RHGSCPVCRRD 212 (213)
Q Consensus 168 C~ICle~~~~ge-~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 212 (213)
|++|.+++...+ ...--+ |++.++..|..+-+. ..+.||-||++
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 799999984433 333344 899999999888886 47899999986
No 61
>PHA03096 p28-like protein; Provisional
Probab=96.58 E-value=0.0011 Score=58.22 Aligned_cols=46 Identities=28% Similarity=0.665 Sum_probs=35.0
Q ss_pred CcccccccccccC----ceeeecCCCCCcccHhhHHHHHhc---CCCCcccCC
Q 028116 166 SCCSICLQDIIVG----ELARSLPHCHHTFHLACVDKWLIR---HGSCPVCRR 211 (213)
Q Consensus 166 ~~C~ICle~~~~g----e~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~ 211 (213)
..|.||++..... ..-..|+.|.|.|+..||..|-.. ..+||.||.
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 6799999986643 245679999999999999999753 235666553
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.58 E-value=0.0019 Score=51.88 Aligned_cols=48 Identities=21% Similarity=0.611 Sum_probs=31.9
Q ss_pred CCCCcccccccccccCceeeecC--CCCCcccHhhHHHHHhc--CCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLP--HCHHTFHLACVDKWLIR--HGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp--~C~H~FH~~CI~~WL~~--~~sCPlCR~~ 212 (213)
..+..|-||.++-. +...--. .=--..|.+|+++|+.. ..+||+|+.+
T Consensus 6 ~~~~~CRIC~~~~~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~ 57 (162)
T PHA02825 6 LMDKCCWICKDEYD--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGP 57 (162)
T ss_pred CCCCeeEecCCCCC--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCe
Confidence 45688999998843 2222111 00016799999999975 4579999875
No 63
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.56 E-value=0.0019 Score=56.04 Aligned_cols=48 Identities=21% Similarity=0.515 Sum_probs=36.0
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcC--CCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRH--GSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~~v 213 (213)
..+.+|++|-+.-.. .....+ |+|+||-.||.+=+... -+||.|-.++
T Consensus 237 t~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENV 286 (298)
T ss_pred cCCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCC
Confidence 667999999876332 233444 99999999999876643 5899997753
No 64
>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=96.55 E-value=0.0012 Score=51.62 Aligned_cols=37 Identities=19% Similarity=0.368 Sum_probs=30.8
Q ss_pred CCCcccccccccccCceeeecCCCC------CcccHhhHHHHHh
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCH------HTFHLACVDKWLI 201 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~------H~FH~~CI~~WL~ 201 (213)
...+|.||++.+...+-+..++ |+ |+||..|+.+|-+
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 3688999999998855677777 76 9999999999943
No 65
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.55 E-value=0.00056 Score=60.55 Aligned_cols=47 Identities=28% Similarity=0.636 Sum_probs=37.5
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
....+|.+|---|.+.. ..+.|-|.||..||.+.|....+||.|...
T Consensus 13 n~~itC~LC~GYliDAT---TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ 59 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDAT---TITECLHTFCKSCIVKYLEESKYCPTCDIV 59 (331)
T ss_pred ccceehhhccceeecch---hHHHHHHHHHHHHHHHHHHHhccCCcccee
Confidence 34688999976555532 334599999999999999999999999754
No 66
>PF05433 Rick_17kDa_Anti: Glycine zipper 2TM domain; InterPro: IPR008816 This domain includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs []. The domain is found in several Rickettsia genus specific 17 kDa surface antigen proteins [].; GO: 0019867 outer membrane
Probab=96.55 E-value=0.0018 Score=40.80 Aligned_cols=37 Identities=43% Similarity=0.614 Sum_probs=26.2
Q ss_pred hHHHHHHHHhhhcccc--cccccchhhhhhhhhHHHHHH
Q 028116 35 GAFTGAITGALAGRAS--DCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 35 g~~~ga~~ga~~g~~~--~~g~~rGa~~GaiaGav~sve 71 (213)
|+++|+++|+++|... .++=..|+.+||+.|+++.-+
T Consensus 2 G~~~Ga~~Ga~~G~~ig~~~g~~~g~~~Ga~~Ga~~G~~ 40 (42)
T PF05433_consen 2 GALIGAAVGAVAGSQIGGGNGRTLGAVAGAVAGALIGNQ 40 (42)
T ss_pred chHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHhh
Confidence 5566666666666655 567788889999999887643
No 67
>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper
Probab=96.54 E-value=0.0017 Score=41.43 Aligned_cols=31 Identities=52% Similarity=0.684 Sum_probs=20.7
Q ss_pred HhhhHHHHHHHH-hhhcccccccccchhhhhhhhhHHH
Q 028116 32 ALAGAFTGAITG-ALAGRASDCGVLRGAGLGAIAGAVL 68 (213)
Q Consensus 32 a~~g~~~ga~~g-a~~g~~~~~g~~rGa~~GaiaGav~ 68 (213)
|.+|+++|+++| .-.|- +-|+++|+++|++.
T Consensus 11 A~~GA~iG~~~g~~~~GA------~iGA~~Ga~~G~~~ 42 (45)
T PF13441_consen 11 AAAGAVIGAIIGNGGKGA------AIGAAAGALAGAAI 42 (45)
T ss_pred HHHHHHHHHhhCCCcccc------hhhhhhhhhhhhhh
Confidence 567777777777 55442 35777777777764
No 68
>PF13488 Gly-zipper_Omp: Glycine zipper
Probab=96.49 E-value=0.002 Score=41.29 Aligned_cols=17 Identities=41% Similarity=0.483 Sum_probs=7.7
Q ss_pred hhhHHHHHHHHhhhccc
Q 028116 33 LAGAFTGAITGALAGRA 49 (213)
Q Consensus 33 ~~g~~~ga~~ga~~g~~ 49 (213)
+.|+.+|+++|+.+|+.
T Consensus 25 ~iGa~vGa~~G~~ig~~ 41 (46)
T PF13488_consen 25 AIGAAVGAAVGAAIGNY 41 (46)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444443
No 69
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.49 E-value=0.0017 Score=58.17 Aligned_cols=47 Identities=28% Similarity=0.646 Sum_probs=39.1
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
.++..||||.-.-- .....| |+|.=|..||.+.|...+.|=.|+..+
T Consensus 420 sEd~lCpICyA~pi---~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv 466 (489)
T KOG4692|consen 420 SEDNLCPICYAGPI---NAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTV 466 (489)
T ss_pred cccccCcceecccc---hhhccC-CCCchHHHHHHHHHhcCCeeeEeccee
Confidence 67889999986522 244677 999999999999999999999998753
No 70
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.42 E-value=0.0015 Score=64.14 Aligned_cols=49 Identities=33% Similarity=0.722 Sum_probs=41.3
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcC-------CCCcccCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRH-------GSCPVCRR 211 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~-------~sCPlCR~ 211 (213)
.+..+|.||++.+.....+..-..|=|+||..||.+|-++. =.||-|+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 46788999999999988888777799999999999998641 15999983
No 71
>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain
Probab=96.35 E-value=0.0038 Score=47.93 Aligned_cols=40 Identities=38% Similarity=0.455 Sum_probs=34.7
Q ss_pred HhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHH
Q 028116 32 ALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVEL 72 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~ 72 (213)
+..|+++||++||++|...+. --+|+++||.+||++..-.
T Consensus 52 ~~~ga~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G~~~ 91 (118)
T PF13436_consen 52 TAGGAAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVGAAA 91 (118)
T ss_pred HHHHHHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHHHHh
Confidence 459999999999999998777 7889999999999987543
No 72
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.0026 Score=57.91 Aligned_cols=47 Identities=23% Similarity=0.569 Sum_probs=38.3
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc--------CCCCcccC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR--------HGSCPVCR 210 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~--------~~sCPlCR 210 (213)
..--.|.||+++....+....+| |+|+||..|...++.. .-.||-++
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 34578999999877668899999 9999999999999863 22687664
No 73
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=96.24 E-value=0.0052 Score=52.01 Aligned_cols=38 Identities=37% Similarity=0.452 Sum_probs=22.3
Q ss_pred HhhhHHHHHHHHhhhccc--ccccccchhhhhhhhhHHHH
Q 028116 32 ALAGAFTGAITGALAGRA--SDCGVLRGAGLGAIAGAVLS 69 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~--~~~g~~rGa~~GaiaGav~s 69 (213)
|++|+++||++|++.|-. ...|-+-||++|+.+|+...
T Consensus 39 a~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~G~~~g 78 (219)
T PRK10510 39 AGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAALGGGVG 78 (219)
T ss_pred hHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhhhhhhh
Confidence 455566666666655521 12356667777777777665
No 74
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.03 E-value=0.00048 Score=62.21 Aligned_cols=49 Identities=27% Similarity=0.646 Sum_probs=42.9
Q ss_pred CCCcccccccccccC-ceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 164 QSSCCSICLQDIIVG-ELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 164 ~~~~C~ICle~~~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
-...|+||.+.++.. +....+- |+|.+|..|+.+||.+...||.||+++
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel 244 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRREL 244 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhh
Confidence 457899999999876 6677776 999999999999999999999999864
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.95 E-value=0.0062 Score=54.55 Aligned_cols=47 Identities=28% Similarity=0.698 Sum_probs=37.8
Q ss_pred CCCCCcccccccccccCceeeecCCCCCcccHhhHHHH--HhcCCCCcccCCC
Q 028116 162 PTQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKW--LIRHGSCPVCRRD 212 (213)
Q Consensus 162 ~~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~W--L~~~~sCPlCR~~ 212 (213)
++++.-|-||-+.+.- ...+| |+|..|..|-.+. |-.+..||+||.+
T Consensus 58 DEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 58 DEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence 3566779999887654 67899 9999999998654 4578899999975
No 76
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.0033 Score=55.02 Aligned_cols=43 Identities=26% Similarity=0.444 Sum_probs=36.7
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
..|-||.+.|.. ..+. +|+|+||..|-.+-+++...|++|-++
T Consensus 242 f~c~icr~~f~~---pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~ 284 (313)
T KOG1813|consen 242 FKCFICRKYFYR---PVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQ 284 (313)
T ss_pred cccccccccccc---chhh-cCCceeehhhhccccccCCcceecccc
Confidence 459999999987 3344 499999999999999999999999764
No 77
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.66 E-value=0.0054 Score=55.02 Aligned_cols=43 Identities=33% Similarity=0.672 Sum_probs=32.1
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
.....|.||+++.++ ...+| |||+=+ |..-- +...+||+||+.
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~r 345 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQR 345 (355)
T ss_pred CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHH
Confidence 556789999998766 66888 999966 55432 234569999975
No 78
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.48 E-value=0.019 Score=49.35 Aligned_cols=50 Identities=16% Similarity=0.276 Sum_probs=43.1
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
....||||.+.+.+.-....|..|||+|...|+++....-..||+|-+++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl 269 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL 269 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence 45669999999988776667767999999999999999999999997764
No 79
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.31 E-value=0.0091 Score=49.69 Aligned_cols=43 Identities=26% Similarity=0.553 Sum_probs=36.2
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
-.|-||-++|+. +.+.. |||.||..|..+=.+....|-+|-+.
T Consensus 197 F~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchh
Confidence 479999999987 44554 99999999999888888999999653
No 80
>PRK10540 lipoprotein; Provisional
Probab=95.28 E-value=0.05 Score=38.20 Aligned_cols=34 Identities=35% Similarity=0.411 Sum_probs=20.5
Q ss_pred hhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 34 AGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
.|++.|+++|++.| .|-..|+.+||+.|+++.=+
T Consensus 36 ~Ga~~Ga~~Ga~~g----~g~~~g~~~Ga~~G~~~G~~ 69 (72)
T PRK10540 36 IGAGAGALGGAVLT----DGSTLGTLGGAAVGGVIGHQ 69 (72)
T ss_pred HHHHHHHHHHHHhc----CCcHHHHHHHHHHHHHHhHh
Confidence 45555555555554 34446777788887776533
No 81
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.17 E-value=0.016 Score=47.45 Aligned_cols=28 Identities=36% Similarity=1.077 Sum_probs=23.5
Q ss_pred CCCCcccHhhHHHHHhc-----C------CCCcccCCCC
Q 028116 186 HCHHTFHLACVDKWLIR-----H------GSCPVCRRDV 213 (213)
Q Consensus 186 ~C~H~FH~~CI~~WL~~-----~------~sCPlCR~~v 213 (213)
.|+.-||.-|+..||+. + ..||.|..||
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 49999999999999973 2 3699998875
No 82
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.99 E-value=0.02 Score=50.40 Aligned_cols=43 Identities=30% Similarity=0.630 Sum_probs=33.6
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHHh-cCCCCcccCC
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLI-RHGSCPVCRR 211 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~ 211 (213)
..|+.|-.-+.. ..+.|.|+|.||..||..-|. ....||.|.+
T Consensus 275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 779999776544 334477999999999997776 4568999965
No 83
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.93 E-value=0.014 Score=51.11 Aligned_cols=45 Identities=27% Similarity=0.663 Sum_probs=38.0
Q ss_pred CcccccccccccCc-eeeecCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 166 SCCSICLQDIIVGE-LARSLPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 166 ~~C~ICle~~~~ge-~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
.-||||.+.+..+. .+..++ |+|.-|..|...-...+-+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 33999999976664 566777 9999999999998888899999976
No 84
>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=94.85 E-value=0.02 Score=36.10 Aligned_cols=41 Identities=24% Similarity=0.715 Sum_probs=23.1
Q ss_pred ccccccccccCceeeecCCCCCcccHhhHHHHHhcCC--CCccc
Q 028116 168 CSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHG--SCPVC 209 (213)
Q Consensus 168 C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPlC 209 (213)
|.+|.+-...|..=... .|+=.+|..|++.+++.+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 66777766665433222 4888999999999998765 79988
No 85
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.79 E-value=0.013 Score=55.21 Aligned_cols=46 Identities=24% Similarity=0.611 Sum_probs=35.1
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc-----CCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR-----HGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~-----~~sCPlCR~~ 212 (213)
.+...|-+|-+.-++ ..... |.|.||.-||.++... +-+||.|-..
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~ 584 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIG 584 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccc
Confidence 456789999886433 44554 9999999999988763 4589999764
No 86
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.56 E-value=0.016 Score=38.39 Aligned_cols=32 Identities=28% Similarity=0.590 Sum_probs=25.6
Q ss_pred ceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 179 ELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 179 e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
..-..+| |+|+.+..|.+-+ +-+-||+|-+++
T Consensus 18 ~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~ 49 (55)
T PF14447_consen 18 TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPF 49 (55)
T ss_pred ccccccc-ccceeeccccChh--hccCCCCCCCcc
Confidence 3445788 9999999997764 778899998764
No 87
>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=94.51 E-value=0.055 Score=49.06 Aligned_cols=50 Identities=28% Similarity=0.676 Sum_probs=31.9
Q ss_pred CCCCccccccccccc-------------CceeeecCC-----CCCcccHhhHHHHHhc-------------CCCCcccCC
Q 028116 163 TQSSCCSICLQDIIV-------------GELARSLPH-----CHHTFHLACVDKWLIR-------------HGSCPVCRR 211 (213)
Q Consensus 163 ~~~~~C~ICle~~~~-------------ge~v~~Lp~-----C~H~FH~~CI~~WL~~-------------~~sCPlCR~ 211 (213)
++.+.|-=|++.-.. |......|. |.-++|.+|+-+|+.. +..||+||+
T Consensus 269 ~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa 348 (358)
T PF10272_consen 269 QELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRA 348 (358)
T ss_pred cccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcc
Confidence 566789999875322 101111122 4466789999999863 337999998
Q ss_pred C
Q 028116 212 D 212 (213)
Q Consensus 212 ~ 212 (213)
+
T Consensus 349 ~ 349 (358)
T PF10272_consen 349 K 349 (358)
T ss_pred c
Confidence 6
No 88
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.28 E-value=0.016 Score=49.91 Aligned_cols=49 Identities=31% Similarity=0.773 Sum_probs=35.0
Q ss_pred CCCCcccccccccccCcee-eecCCCC-----CcccHhhHHHHHhcC--------CCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELA-RSLPHCH-----HTFHLACVDKWLIRH--------GSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v-~~Lp~C~-----H~FH~~CI~~WL~~~--------~sCPlCR~~ 212 (213)
+.+..|-||+..=++.... .+-| |. |..|..|+..|+..+ -+||-|+++
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 5678899998764433222 3456 63 899999999999642 269999874
No 89
>PRK11280 hypothetical protein; Provisional
Probab=93.95 E-value=0.048 Score=44.43 Aligned_cols=40 Identities=25% Similarity=0.376 Sum_probs=28.7
Q ss_pred hhHHHHHHHHhhhcccccccc--cchhhhhhhhhHHHHHHHh
Q 028116 34 AGAFTGAITGALAGRASDCGV--LRGAGLGAIAGAVLSVELL 73 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~g~--~rGa~~GaiaGav~sve~~ 73 (213)
.|+++||++|+++|..-..|= .-++.+||++|+++.=++-
T Consensus 66 ~Gtv~Gav~Gg~~G~~iGgG~Gr~~at~~Ga~~G~~~G~~i~ 107 (170)
T PRK11280 66 AGSVLGAVAGGVLGHQFGGGRGKDVATVAGALGGGYAGNQIQ 107 (170)
T ss_pred hhHHHHHHHHHHhhhhccCCCccHHHHHHHHHHHHHHHHHHH
Confidence 678888888888887765542 3467888888888876643
No 90
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.80 E-value=0.0098 Score=52.14 Aligned_cols=41 Identities=27% Similarity=0.668 Sum_probs=30.1
Q ss_pred CCcccccccccccCceeeecCCCCCc-ccHhhHHHHHhcCCCCcccCCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHT-FHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
+..|.||++.-.+ -..|+ |||. -|..|-.+ -+.||+||+.|
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHH
Confidence 5679999987443 45787 9998 46777544 34899999753
No 91
>PRK10540 lipoprotein; Provisional
Probab=93.51 E-value=0.13 Score=36.11 Aligned_cols=13 Identities=46% Similarity=0.598 Sum_probs=5.4
Q ss_pred hHHHHHHHHhhhc
Q 028116 35 GAFTGAITGALAG 47 (213)
Q Consensus 35 g~~~ga~~ga~~g 47 (213)
|+.+|+.+|++.|
T Consensus 33 g~~~Ga~~Ga~~G 45 (72)
T PRK10540 33 NTAIGAGAGALGG 45 (72)
T ss_pred hhHHHHHHHHHHH
Confidence 3344444444433
No 92
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.32 E-value=0.085 Score=45.66 Aligned_cols=49 Identities=16% Similarity=0.322 Sum_probs=37.4
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
.....|||...+|........+-.|||+|-..++.+- .....||+|-.+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~ 159 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKP 159 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCc
Confidence 4567799999999655444444339999999999997 235679999765
No 93
>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain two or more transmembrane segments.
Probab=93.31 E-value=0.085 Score=39.46 Aligned_cols=21 Identities=57% Similarity=0.803 Sum_probs=11.0
Q ss_pred hhHHHHHHHHhhhcccccccc
Q 028116 34 AGAFTGAITGALAGRASDCGV 54 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~g~ 54 (213)
+|+++||.+||+.|..++.|+
T Consensus 20 ~G~~~GA~~Gal~G~l~d~gI 40 (102)
T PF06897_consen 20 LGAAVGAAAGALAGALSDYGI 40 (102)
T ss_pred HHHHHHHHHHHHHhHHhhCCC
Confidence 555555555555555554443
No 94
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.14 E-value=0.04 Score=54.68 Aligned_cols=36 Identities=22% Similarity=0.623 Sum_probs=29.3
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHH
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWL 200 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL 200 (213)
+.+++|.+|-..+... .-.+-| |||.||.+|+.+-.
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 5679999999887764 455677 99999999998764
No 95
>TIGR03789 pdsO proteobacterial sortase system OmpA family protein. A newly defined histidine kinase (TIGR03785) and response regulator (TIGR03787) gene pair occurs exclusively in Proteobacteria, mostly of marine origin, nearly all of which contain a subfamily 6 sortase (TIGR03784) and its single dedicated target protein (TIGR03788) adjacent to to the sortase. This protein family shows up in only in those species with the histidine kinase/response regulator gene pair, and often adjacent to that pair. It belongs to the OmpA protein family (pfam00691). Its function is unknown. We assign the gene symbol pdsO, for Proteobacterial Dedicated Sortase system OmpA family protein.
Probab=93.13 E-value=0.063 Score=46.14 Aligned_cols=35 Identities=34% Similarity=0.510 Sum_probs=19.3
Q ss_pred hHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 35 GAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 35 g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
|+.+|+.+||++|-.-. |. -|+.+|++.|+++.-+
T Consensus 42 ~~~~g~~~ga~~g~~~g-g~-~G~~~G~~~G~~~g~~ 76 (239)
T TIGR03789 42 EALIGLGSGALLGALVG-GP-VGAIIGGITGGLIGQA 76 (239)
T ss_pred chhhhHHHHHHHhhhhc-cH-HHHHHHHHHHHHhhhh
Confidence 44444444444443221 33 4777777777777654
No 96
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=92.92 E-value=0.12 Score=34.23 Aligned_cols=41 Identities=24% Similarity=0.596 Sum_probs=33.4
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcc
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPV 208 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPl 208 (213)
....|++|-+.|.+++.+.+-|.|+-.+|..|-++ ...|-.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 45789999999998888889999999999999544 445543
No 97
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.14 E-value=0.061 Score=53.21 Aligned_cols=42 Identities=29% Similarity=0.668 Sum_probs=31.4
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
....|+.|--.++-. ...- .|+|.||..|+. .+...||-|+.
T Consensus 839 q~skCs~C~~~LdlP--~VhF-~CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP--FVHF-LCGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeeeecccCCccccc--eeee-ecccHHHHHhhc---cCcccCCccch
Confidence 346899997665542 3344 499999999998 45678999986
No 98
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.04 E-value=0.073 Score=47.19 Aligned_cols=44 Identities=30% Similarity=0.729 Sum_probs=29.5
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
.-.|--|- |-..---|..| |+|+||.+|-.. ..-+.||.|-.+|
T Consensus 90 VHfCd~Cd--~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 90 VHFCDRCD--FPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eEeecccC--Ccceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 34577773 33323446788 999999999643 2356899997653
No 99
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.73 E-value=0.077 Score=44.61 Aligned_cols=37 Identities=30% Similarity=0.716 Sum_probs=28.5
Q ss_pred ccccccccccCceeeecCCCCCc-ccHhhHHHHHhcCCCCcccCCC
Q 028116 168 CSICLQDIIVGELARSLPHCHHT-FHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 168 C~ICle~~~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
|-.|-+. +-.|..+| |.|. +|..|-.. -..||+|+.+
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~ 198 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSP 198 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcCh
Confidence 8888665 34588999 9887 88889554 4569999975
No 100
>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=91.61 E-value=0.053 Score=34.91 Aligned_cols=27 Identities=33% Similarity=0.909 Sum_probs=21.4
Q ss_pred C-CCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 187 C-HHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 187 C-~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
| .|+.+..|+..-|.+...||+|.+++
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~L 45 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPL 45 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE-
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcC
Confidence 6 49999999999999999999998764
No 101
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.25 E-value=0.073 Score=52.10 Aligned_cols=42 Identities=29% Similarity=0.687 Sum_probs=32.7
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHHhcC--CCCcccCCC
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRH--GSCPVCRRD 212 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~~ 212 (213)
..|+||++ -+.....+ |+|.||..|+.+-+... ..||+||..
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~ 498 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNV 498 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHH
Confidence 78999999 23455565 99999999998877642 369999964
No 102
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.19 E-value=0.14 Score=45.92 Aligned_cols=49 Identities=22% Similarity=0.636 Sum_probs=34.3
Q ss_pred CCCCcccccccccccCcee-eecCCCCCcccHhhHHHHHh-cCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELA-RSLPHCHHTFHLACVDKWLI-RHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v-~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 212 (213)
++++.||.|+|++...++- .-.| ||-..|.-|-..--+ -+..||-||+.
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhh
Confidence 4455699999998776543 3456 998877777544322 36799999974
No 103
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.01 E-value=0.12 Score=45.01 Aligned_cols=48 Identities=23% Similarity=0.598 Sum_probs=35.5
Q ss_pred CCCcccccccccccCce-eeecCCCC-----CcccHhhHHHHHh--cCCCCcccCCC
Q 028116 164 QSSCCSICLQDIIVGEL-ARSLPHCH-----HTFHLACVDKWLI--RHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~-v~~Lp~C~-----H~FH~~CI~~WL~--~~~sCPlCR~~ 212 (213)
++..|-||.++...... .-..| |. +..|..|+++|+. .+..|.+|...
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~ 132 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF 132 (323)
T ss_pred CCCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence 35789999998655332 34555 65 6789999999998 45679999763
No 104
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=90.92 E-value=0.059 Score=55.42 Aligned_cols=45 Identities=27% Similarity=0.651 Sum_probs=36.2
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
.-..|+||++.+..-. . +- .|+|.++..|...|+..+..||+|+.
T Consensus 1152 ~~~~c~ic~dil~~~~-~-I~-~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG-G-IA-GCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcC-C-ee-eechhHhhhHHHHHHHHhccCcchhh
Confidence 3457999999877421 2 22 49999999999999999999999973
No 105
>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain two or more transmembrane segments.
Probab=90.60 E-value=0.11 Score=38.92 Aligned_cols=35 Identities=46% Similarity=0.639 Sum_probs=20.2
Q ss_pred HhhhHHHHHHHHhhhcccccccccchhhhhhhhhHH
Q 028116 32 ALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAV 67 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav 67 (213)
|+.|++.|.++|.+.+. ---|++=||+.||++|++
T Consensus 1 A~~G~~~G~LiGll~~~-pl~G~~~GA~~Gal~G~l 35 (102)
T PF06897_consen 1 ALSGALWGLLIGLLFGP-PLLGAAVGAAAGALAGAL 35 (102)
T ss_pred CcchhHHHHHHHHHhhh-HHHHHHHHHHHHHHHhHH
Confidence 45566666666666443 123445566667777753
No 106
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.52 E-value=0.12 Score=47.39 Aligned_cols=39 Identities=26% Similarity=0.445 Sum_probs=28.9
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHh
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLI 201 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~ 201 (213)
....+|.||..+....+......+|+|.||.+|..+.+.
T Consensus 144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 346889999955555433333446999999999998886
No 107
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=89.84 E-value=0.24 Score=43.95 Aligned_cols=43 Identities=21% Similarity=0.552 Sum_probs=32.8
Q ss_pred CCCCcccccccccccCceeeecCCC--CCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHC--HHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C--~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
.+-.+||||.+.+... .. +| ||+-|..|-. +.++.||.||.++
T Consensus 46 ~~lleCPvC~~~l~~P----i~-QC~nGHlaCssC~~---~~~~~CP~Cr~~~ 90 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IF-QCDNGHLACSSCRT---KVSNKCPTCRLPI 90 (299)
T ss_pred hhhccCchhhccCccc----ce-ecCCCcEehhhhhh---hhcccCCcccccc
Confidence 4568899999998774 22 25 6999999865 3588999999874
No 108
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.78 E-value=0.17 Score=44.53 Aligned_cols=26 Identities=27% Similarity=0.888 Sum_probs=20.9
Q ss_pred CCCcccHhhHHHHHh-------------cCCCCcccCCC
Q 028116 187 CHHTFHLACVDKWLI-------------RHGSCPVCRRD 212 (213)
Q Consensus 187 C~H~FH~~CI~~WL~-------------~~~sCPlCR~~ 212 (213)
|.-++|..|+-+|+. .+.+||+||++
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~ 363 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKN 363 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhc
Confidence 567788999999985 34589999986
No 109
>PF05433 Rick_17kDa_Anti: Glycine zipper 2TM domain; InterPro: IPR008816 This domain includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs []. The domain is found in several Rickettsia genus specific 17 kDa surface antigen proteins [].; GO: 0019867 outer membrane
Probab=89.77 E-value=0.21 Score=31.33 Aligned_cols=33 Identities=39% Similarity=0.643 Sum_probs=16.2
Q ss_pred hhhHHHHHHHHhhh--cccccccccchhhhhhhhh
Q 028116 33 LAGAFTGAITGALA--GRASDCGVLRGAGLGAIAG 65 (213)
Q Consensus 33 ~~g~~~ga~~ga~~--g~~~~~g~~rGa~~GaiaG 65 (213)
++|+++|+++|... +.-.-.+.+=|+.+|++.|
T Consensus 4 ~~Ga~~Ga~~G~~ig~~~g~~~g~~~Ga~~Ga~~G 38 (42)
T PF05433_consen 4 LIGAAVGAVAGSQIGGGNGRTLGAVAGAVAGALIG 38 (42)
T ss_pred HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHH
Confidence 34455555555444 3444444455555555544
No 110
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=89.28 E-value=0.32 Score=47.80 Aligned_cols=42 Identities=24% Similarity=0.469 Sum_probs=31.3
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcc
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPV 208 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPl 208 (213)
...|.+|-..+. |..+ ..+.|+|.-|..|+.+|+..+.-||.
T Consensus 779 ~~~CtVC~~vi~-G~~~-~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIR-GVDV-WCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceee-eeEe-ecccccccccHHHHHHHHhcCCCCcc
Confidence 346888855433 3333 34569999999999999999988876
No 111
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.21 E-value=0.25 Score=48.92 Aligned_cols=50 Identities=20% Similarity=0.544 Sum_probs=35.9
Q ss_pred CCCCcccccccccccCceeeecCCCC---CcccHhhHHHHHhcC--CCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCH---HTFHLACVDKWLIRH--GSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~---H~FH~~CI~~WL~~~--~sCPlCR~~ 212 (213)
+++..|.||..+=.+++..-.--+|. .+.|..|+.+|+... ..|-+|..+
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~ 64 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYE 64 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecce
Confidence 55689999998755555443322343 569999999999854 469999875
No 112
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=88.83 E-value=0.52 Score=39.87 Aligned_cols=37 Identities=41% Similarity=0.431 Sum_probs=29.7
Q ss_pred hhHHHHHHHHhhhccccccc--ccchhhhhhhhhHHHHH
Q 028116 34 AGAFTGAITGALAGRASDCG--VLRGAGLGAIAGAVLSV 70 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~g--~~rGa~~GaiaGav~sv 70 (213)
.|+.+||++||++|..++.. --+|+++||..||.+.-
T Consensus 37 ~ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~G~ 75 (219)
T PRK10510 37 IGAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAALGG 75 (219)
T ss_pred hhhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhhhh
Confidence 48999999999999998653 35688889988876654
No 113
>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=88.50 E-value=0.58 Score=30.31 Aligned_cols=43 Identities=23% Similarity=0.618 Sum_probs=18.8
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHHhc---CC--CCcccCCC
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR---HG--SCPVCRRD 212 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~---~~--sCPlCR~~ 212 (213)
..|+|..+.+.. .+|-. .|.|.-+.+ ++.||.. ++ .||+|.++
T Consensus 3 L~CPls~~~i~~--P~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 468888887755 34444 599983322 2345542 22 59999875
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=88.28 E-value=0.13 Score=50.06 Aligned_cols=44 Identities=32% Similarity=0.725 Sum_probs=35.5
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCC---CCcccCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHG---SCPVCRRD 212 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~---sCPlCR~~ 212 (213)
..+|+||++.+... .+-+|.|.|+.-|+..-|..++ .||+|+..
T Consensus 21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~ 67 (684)
T KOG4362|consen 21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD 67 (684)
T ss_pred hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence 58899999998874 3346999999999987776544 79999854
No 115
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.89 E-value=0.41 Score=43.73 Aligned_cols=47 Identities=15% Similarity=0.268 Sum_probs=38.8
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcC---CCCcccCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRH---GSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~---~sCPlCR~ 211 (213)
.--.|||=.|.-.+.+.+..|. |||+...+=+++..+.. -.||.|=.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 3456999988888888899998 99999999999987653 36999943
No 116
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=87.83 E-value=0.3 Score=48.03 Aligned_cols=25 Identities=28% Similarity=0.709 Sum_probs=22.4
Q ss_pred ecCCCCCcccHhhHHHHHhcCCCCcc
Q 028116 183 SLPHCHHTFHLACVDKWLIRHGSCPV 208 (213)
Q Consensus 183 ~Lp~C~H~FH~~CI~~WL~~~~sCPl 208 (213)
... |+|..|..|...|+.....||.
T Consensus 1045 Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hcc-ccccccHHHHHHHHhcCCcCCC
Confidence 454 9999999999999999999984
No 117
>PLN02720 complex II
Probab=87.81 E-value=0.37 Score=37.49 Aligned_cols=54 Identities=24% Similarity=0.307 Sum_probs=35.7
Q ss_pred HHHhhhHHHHHHH-Hhhhcccccccccchh----hhhhhhhHHHHHHHhhhcccceeccCC
Q 028116 30 LFALAGAFTGAIT-GALAGRASDCGVLRGA----GLGAIAGAVLSVELLEASRAYWCLERT 85 (213)
Q Consensus 30 ~~a~~g~~~ga~~-ga~~g~~~~~g~~rGa----~~GaiaGav~sve~~e~s~~~W~~d~~ 85 (213)
-||++|+++||+- |+++=.-+.+ .+|| +-|+|-|..+.-|+.+.-..+.+.|.-
T Consensus 67 ~fa~~Ga~vGa~~tag~a~kysk~--phga~lsfl~G~~~G~~~G~EvAnh~lqLYk~d~m 125 (140)
T PLN02720 67 TFAVTGAAVGAVSTAGVAWKYSKS--PHGAALAFLGGGVFGWAFGQEVANHWLQLYKFDTM 125 (140)
T ss_pred HHHhhhhhhhhhhhhHHHHHhhcC--CchHHHHHhccchhhhhHhHHHHHHHHHHHhcccc
Confidence 3788999999874 3332222222 4555 457888888888888888777766643
No 118
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=87.08 E-value=0.53 Score=39.80 Aligned_cols=36 Identities=39% Similarity=0.615 Sum_probs=20.5
Q ss_pred hhHHHHHHHHhhhcccccccccchhhhh-hhhhHHHHHH
Q 028116 34 AGAFTGAITGALAGRASDCGVLRGAGLG-AIAGAVLSVE 71 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~g~~rGa~~G-aiaGav~sve 71 (213)
.|++.||.+|+.+|-.+ +--+|+.+| .++||.++.-
T Consensus 88 gga~~Ga~~G~~~g~~~--~~~~g~~~G~GlaGalig~~ 124 (215)
T PF05818_consen 88 GGALAGAATGAAIGAYN--SGSAGAAIGAGLAGALIGMI 124 (215)
T ss_pred hhHHHHhHHhhhhcccc--CCccchhhhhhHHHhHHHHH
Confidence 46666777776666443 223455566 5666555543
No 119
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.35 E-value=0.33 Score=46.32 Aligned_cols=42 Identities=38% Similarity=0.972 Sum_probs=35.4
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
+....|.||+++. ..+..+ |. |..|..+|+..+..||+|++.
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~ 518 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTY 518 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchh
Confidence 4567899999997 355666 88 999999999999999999864
No 120
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.72 E-value=0.47 Score=46.95 Aligned_cols=49 Identities=10% Similarity=0.150 Sum_probs=35.4
Q ss_pred CCCCcccccccccccCc---eeeecCCCCCcccHhhHHHHHhc------CCCCcccCC
Q 028116 163 TQSSCCSICLQDIIVGE---LARSLPHCHHTFHLACVDKWLIR------HGSCPVCRR 211 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge---~v~~Lp~C~H~FH~~CI~~WL~~------~~sCPlCR~ 211 (213)
....+|.+|.-++...+ ..-.+..|.|.||..||.+|+.+ +-.||+|..
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~ 151 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEE 151 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHH
Confidence 45677888888887732 22223369999999999999864 446899865
No 121
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=85.59 E-value=0.69 Score=40.25 Aligned_cols=46 Identities=30% Similarity=0.800 Sum_probs=33.6
Q ss_pred CcccccccccccCceee---ecCCCCCcccHhhHHHHHh---------cCCCCcccCC
Q 028116 166 SCCSICLQDIIVGELAR---SLPHCHHTFHLACVDKWLI---------RHGSCPVCRR 211 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~---~Lp~C~H~FH~~CI~~WL~---------~~~sCPlCR~ 211 (213)
.+|.+|.+++.+.+..+ .-|.|.-.+|..|+..-+. ....||.|++
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~ 240 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEK 240 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhc
Confidence 68999999994433333 2346899999999988443 2357999986
No 122
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=85.46 E-value=0.75 Score=40.08 Aligned_cols=37 Identities=30% Similarity=0.396 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHhhhcccccccccch
Q 028116 18 FIAGAISGTLTGLFALAGAFTGAITGALAGRASDCGVLRG 57 (213)
Q Consensus 18 ~~~~~~~~~~~~~~a~~g~~~ga~~ga~~g~~~~~g~~rG 57 (213)
+.++++.+++-++| |...||+.|++.|+.-+.|..++
T Consensus 3 ~~gki~g~~~G~~~---~g~~Ga~~G~~~Gh~~d~~~~~~ 39 (267)
T PRK09430 3 YWGKILGFAFGFLF---GGFFGALLGLLIGHMFDKARSRK 39 (267)
T ss_pred hHHHHHHHHHHHHH---hhHHHHHHHHHHHhHHhhhhhhc
Confidence 34566666666655 55899999999999998876543
No 123
>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=85.34 E-value=0.51 Score=26.48 Aligned_cols=23 Identities=30% Similarity=0.639 Sum_probs=16.5
Q ss_pred cccccccccccCceeeecCCCCCcc
Q 028116 167 CCSICLQDIIVGELARSLPHCHHTF 191 (213)
Q Consensus 167 ~C~ICle~~~~ge~v~~Lp~C~H~F 191 (213)
.||-|...+.. ..+.-|.|||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 58888777644 355677788887
No 124
>PRK11280 hypothetical protein; Provisional
Probab=84.97 E-value=0.67 Score=37.81 Aligned_cols=43 Identities=26% Similarity=0.369 Sum_probs=29.6
Q ss_pred HhhhHHHHHHHHhhhccccc--ccccchhhhhhhhhHHHHHHHhh
Q 028116 32 ALAGAFTGAITGALAGRASD--CGVLRGAGLGAIAGAVLSVELLE 74 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~~--~g~~rGa~~GaiaGav~sve~~e 74 (213)
+++|+++|++.|...|--+. .+-+=||++|+++|..+.=.+-+
T Consensus 68 tv~Gav~Gg~~G~~iGgG~Gr~~at~~Ga~~G~~~G~~i~~~~~~ 112 (170)
T PRK11280 68 SVLGAVAGGVLGHQFGGGRGKDVATVAGALGGGYAGNQIQGGMQE 112 (170)
T ss_pred HHHHHHHHHHhhhhccCCCccHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34566666666666655543 56677999999999998865544
No 125
>COG4803 Predicted membrane protein [Function unknown]
Probab=84.64 E-value=0.98 Score=36.15 Aligned_cols=14 Identities=57% Similarity=0.838 Sum_probs=5.9
Q ss_pred hhHHHHHHHHhhhc
Q 028116 34 AGAFTGAITGALAG 47 (213)
Q Consensus 34 ~g~~~ga~~ga~~g 47 (213)
+|++-|++-|.++|
T Consensus 60 aGa~sGafWG~LiG 73 (170)
T COG4803 60 AGAVSGAFWGMLIG 73 (170)
T ss_pred hccccccHHHHHHH
Confidence 34444444444444
No 126
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=84.22 E-value=0.79 Score=29.99 Aligned_cols=43 Identities=23% Similarity=0.478 Sum_probs=22.1
Q ss_pred ccccccccccC------ceeeecCCCCCcccHhhHHHHHhcCCCCcccC
Q 028116 168 CSICLQDIIVG------ELARSLPHCHHTFHLACVDKWLIRHGSCPVCR 210 (213)
Q Consensus 168 C~ICle~~~~g------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 210 (213)
|-=|+..|..+ ...-.-|+|++.|+.+|=.--=+.-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 55677777665 24556788999999999322112345799884
No 127
>PRK10457 hypothetical protein; Provisional
Probab=84.01 E-value=3.2 Score=29.80 Aligned_cols=49 Identities=20% Similarity=0.270 Sum_probs=34.2
Q ss_pred HHHHHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhh
Q 028116 26 TLTGLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLE 74 (213)
Q Consensus 26 ~~~~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e 74 (213)
+.|-+..++|+++|..++.+-|.....|+=-+.-+.|+.||++-+-+..
T Consensus 30 ~~tiilGiiGA~iGg~l~~~~g~~~~~g~~~~~~i~aviGAiill~i~~ 78 (82)
T PRK10457 30 FMTIILGIVGAVVGGWISTFFGFGKVDGFNFGSFVVAVIGAIVVLFIYR 78 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHH
Confidence 4677778888888888877666654455423467888888887766543
No 128
>PRK11677 hypothetical protein; Provisional
Probab=83.61 E-value=0.85 Score=35.80 Aligned_cols=25 Identities=36% Similarity=0.478 Sum_probs=20.8
Q ss_pred HHHhhhHHHHHHHHhhhcccccccc
Q 028116 30 LFALAGAFTGAITGALAGRASDCGV 54 (213)
Q Consensus 30 ~~a~~g~~~ga~~ga~~g~~~~~g~ 54 (213)
++|++|-++|+|+|+++++.+..+.
T Consensus 4 ~~a~i~livG~iiG~~~~R~~~~~~ 28 (134)
T PRK11677 4 EYALIGLVVGIIIGAVAMRFGNRKL 28 (134)
T ss_pred HHHHHHHHHHHHHHHHHHhhccchh
Confidence 5788999999999999998866554
No 129
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=83.30 E-value=0.4 Score=46.06 Aligned_cols=44 Identities=23% Similarity=0.670 Sum_probs=28.0
Q ss_pred CCCCcccccccc-----cccCceeeecCCCCCcccHhhHHHHHhcCCCCcccC
Q 028116 163 TQSSCCSICLQD-----IIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCR 210 (213)
Q Consensus 163 ~~~~~C~ICle~-----~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 210 (213)
....-|.+|... |+.....+.. .|+++||..|..+ ++.-||-|-
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~-~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCS-TCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHH-HHHHHHHHHHHhc---cCCCCCchH
Confidence 445668888432 3322333444 4999999999654 455599994
No 130
>COG4803 Predicted membrane protein [Function unknown]
Probab=82.42 E-value=0.24 Score=39.63 Aligned_cols=22 Identities=45% Similarity=0.777 Sum_probs=13.8
Q ss_pred hhhHHHHHHHHhhhcccccccc
Q 028116 33 LAGAFTGAITGALAGRASDCGV 54 (213)
Q Consensus 33 ~~g~~~ga~~ga~~g~~~~~g~ 54 (213)
+.|..+||.+|||.|--++-|.
T Consensus 80 l~G~avGAa~GAl~g~l~DvGI 101 (170)
T COG4803 80 LLGMAVGAASGALSGSLTDVGI 101 (170)
T ss_pred HHHHHHHHhhhhhccceeecCc
Confidence 3666666666666666665554
No 131
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=81.89 E-value=1.2 Score=35.00 Aligned_cols=49 Identities=20% Similarity=0.423 Sum_probs=33.2
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHh---cCCCCcccCCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLI---RHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlCR~~ 212 (213)
.-.+|.||.|.-.+.....----||-..|..|--...+ .++.||.|+..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTS 130 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTS 130 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccc
Confidence 45889999887554333322224898899998654333 47899999975
No 132
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=80.76 E-value=0.94 Score=27.39 Aligned_cols=27 Identities=26% Similarity=0.535 Sum_probs=18.7
Q ss_pred CcccccccccccCce-------eeecCCCCCccc
Q 028116 166 SCCSICLQDIIVGEL-------ARSLPHCHHTFH 192 (213)
Q Consensus 166 ~~C~ICle~~~~ge~-------v~~Lp~C~H~FH 192 (213)
..||-|...|+..+. ...-|+|+|.|+
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 468888888865542 335667999886
No 133
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=80.24 E-value=0.9 Score=38.32 Aligned_cols=43 Identities=30% Similarity=0.781 Sum_probs=35.0
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCccc
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVC 209 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 209 (213)
+-..|.+|..-.-.| +|.- .|+=.+|..|+.+.+.+.+.||-|
T Consensus 180 nlk~Cn~Ch~LvIqg--~rCg-~c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG--IRCG-SCNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHHHhHhHHHhhee--eccC-cccchhhhHHHHHHhcccCcCCch
Confidence 456799998865543 4444 499999999999999999999999
No 134
>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 PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=79.66 E-value=1.2 Score=37.22 Aligned_cols=42 Identities=33% Similarity=0.838 Sum_probs=30.2
Q ss_pred CCCcccccccc-----cccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 164 QSSCCSICLQD-----IIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~-----~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
....|-+|-++ |+. +.+..-++|+-.||..|.. +..||-|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 45678888753 333 3566777899999999966 267999954
No 136
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=79.61 E-value=2.8 Score=31.93 Aligned_cols=47 Identities=19% Similarity=0.272 Sum_probs=35.2
Q ss_pred CCcccccccccccC----------ceeeecCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 165 SSCCSICLQDIIVG----------ELARSLPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 165 ~~~C~ICle~~~~g----------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
...|--|+..|... ...-.-++|++.|+.+|=.-+-..=..||-|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 35699999988653 112346789999999997777667778999964
No 137
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=79.25 E-value=1.4 Score=39.48 Aligned_cols=47 Identities=28% Similarity=0.642 Sum_probs=35.4
Q ss_pred CCcccccccccccCc-eeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 165 SSCCSICLQDIIVGE-LARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 165 ~~~C~ICle~~~~ge-~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
...|+||.++....+ ...-.| |+|..|..|...-...+.+||.||++
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~ 296 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKP 296 (327)
T ss_pred CCCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCc
Confidence 478999999874433 222344 78888888888888889999999975
No 138
>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=79.22 E-value=2 Score=25.00 Aligned_cols=36 Identities=28% Similarity=0.571 Sum_probs=23.0
Q ss_pred cccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 167 CCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 167 ~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
.|..|-+.+..++..... =+..||.+|. +|..|+.+
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~ 36 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKP 36 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCc
Confidence 378888887776333222 3678888873 46666654
No 139
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=78.99 E-value=1.2 Score=34.09 Aligned_cols=14 Identities=43% Similarity=0.622 Sum_probs=6.3
Q ss_pred hhHHHHHHHHhhhc
Q 028116 34 AGAFTGAITGALAG 47 (213)
Q Consensus 34 ~g~~~ga~~ga~~g 47 (213)
.|+++|+|+||+++
T Consensus 9 ~G~liGgiiGa~aa 22 (115)
T COG4980 9 FGILIGGIIGAAAA 22 (115)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444443
No 140
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.38 E-value=0.84 Score=45.13 Aligned_cols=44 Identities=23% Similarity=0.557 Sum_probs=31.7
Q ss_pred CCCccccccccccc-C---ceeeecCCCCCcccHhhHHHHHhcCCCCccc
Q 028116 164 QSSCCSICLQDIIV-G---ELARSLPHCHHTFHLACVDKWLIRHGSCPVC 209 (213)
Q Consensus 164 ~~~~C~ICle~~~~-g---e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 209 (213)
.+..|+-|.+.... + +.+.++- |+|+||..|+..-..+++ |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 34579999988553 2 4677785 999999999977666554 4443
No 141
>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=77.70 E-value=1.1 Score=28.36 Aligned_cols=43 Identities=28% Similarity=0.566 Sum_probs=30.2
Q ss_pred ccccccccccCceeeecCCCCCcccHhhHHHHHh------cCCCCcccCC
Q 028116 168 CSICLQDIIVGELARSLPHCHHTFHLACVDKWLI------RHGSCPVCRR 211 (213)
Q Consensus 168 C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~------~~~sCPlCR~ 211 (213)
|.||.+.-..++.+.-- .|+..||..|+..=.. ..-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i~C~-~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCD-SCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEEEBS-TTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeEEcC-CCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 88999855555555555 5999999999865432 1346998864
No 142
>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=76.82 E-value=0.3 Score=34.02 Aligned_cols=39 Identities=23% Similarity=0.523 Sum_probs=19.6
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
..||.|.+++.... +|+++..|-.. +.....||-|.+++
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHH
Confidence 46888888865532 55666666443 34566788887654
No 143
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=76.59 E-value=1.5 Score=33.55 Aligned_cols=26 Identities=27% Similarity=0.295 Sum_probs=21.6
Q ss_pred cccccchhhhhhhhhHHHHHHHhhhc
Q 028116 51 DCGVLRGAGLGAIAGAVLSVELLEAS 76 (213)
Q Consensus 51 ~~g~~rGa~~GaiaGav~sve~~e~s 76 (213)
..+||-|+++|+|.||++++-+.-.|
T Consensus 4 ~~~~l~G~liGgiiGa~aaLL~AP~s 29 (115)
T COG4980 4 GKDFLFGILIGGIIGAAAALLFAPKS 29 (115)
T ss_pred cchHHHHHHHHHHHHHHHHHHhCCcc
Confidence 45788999999999999998876555
No 144
>PF06946 Phage_holin_5: Phage holin; InterPro: IPR009708 This entry represents the Bacteriophage A118, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=75.61 E-value=2.4 Score=31.13 Aligned_cols=33 Identities=27% Similarity=0.258 Sum_probs=22.0
Q ss_pred hhHHHHHHHHhhhccccccc-ccchhhhhhhhhH
Q 028116 34 AGAFTGAITGALAGRASDCG-VLRGAGLGAIAGA 66 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~g-~~rGa~~GaiaGa 66 (213)
+..++|++.|++....+.++ +...+-.|++||+
T Consensus 39 Is~viGilLG~~~~~~~~~~~l~~~~~aG~laGl 72 (93)
T PF06946_consen 39 ISVVIGILLGAAAYPLTGDGNLALMAWAGGLAGL 72 (93)
T ss_pred HHHHHHHHHHHHhhhcCCCccHHHHHHHHHHhhh
Confidence 56677888888877777665 3344566777763
No 145
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=75.14 E-value=1.7 Score=30.17 Aligned_cols=19 Identities=37% Similarity=0.361 Sum_probs=13.9
Q ss_pred ccchhhhhhhhhHHHHHHH
Q 028116 54 VLRGAGLGAIAGAVLSVEL 72 (213)
Q Consensus 54 ~~rGa~~GaiaGav~sve~ 72 (213)
|+.|..+||++||++++=+
T Consensus 1 F~~g~l~Ga~~Ga~~glL~ 19 (74)
T PF12732_consen 1 FLLGFLAGAAAGAAAGLLF 19 (74)
T ss_pred CHHHHHHHHHHHHHHHHHh
Confidence 5667778888888777654
No 146
>TIGR03789 pdsO proteobacterial sortase system OmpA family protein. A newly defined histidine kinase (TIGR03785) and response regulator (TIGR03787) gene pair occurs exclusively in Proteobacteria, mostly of marine origin, nearly all of which contain a subfamily 6 sortase (TIGR03784) and its single dedicated target protein (TIGR03788) adjacent to to the sortase. This protein family shows up in only in those species with the histidine kinase/response regulator gene pair, and often adjacent to that pair. It belongs to the OmpA protein family (pfam00691). Its function is unknown. We assign the gene symbol pdsO, for Proteobacterial Dedicated Sortase system OmpA family protein.
Probab=74.40 E-value=3.4 Score=35.51 Aligned_cols=17 Identities=53% Similarity=0.841 Sum_probs=9.1
Q ss_pred hhHHHHHHHHhhhcccc
Q 028116 34 AGAFTGAITGALAGRAS 50 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~ 50 (213)
+|+++|+++|+++|...
T Consensus 61 ~G~~~G~~~G~~~g~~~ 77 (239)
T TIGR03789 61 VGAIIGGITGGLIGQAV 77 (239)
T ss_pred HHHHHHHHHHHHhhhhc
Confidence 45555555555555543
No 147
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=74.38 E-value=2.2 Score=25.67 Aligned_cols=27 Identities=19% Similarity=0.453 Sum_probs=17.8
Q ss_pred CcccccccccccCce-------eeecCCCCCccc
Q 028116 166 SCCSICLQDIIVGEL-------ARSLPHCHHTFH 192 (213)
Q Consensus 166 ~~C~ICle~~~~ge~-------v~~Lp~C~H~FH 192 (213)
..|+=|...|...|. ...-++|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 468888888876542 124456888885
No 148
>KOG4608 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.85 E-value=0.53 Score=40.36 Aligned_cols=36 Identities=33% Similarity=0.438 Sum_probs=25.5
Q ss_pred hhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 33 LAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 33 ~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
.+|+++|++.+..+|+. |..+|..+|++.|+.++.-
T Consensus 166 aaga~tgsvF~~~~gL~---g~aa~vilG~~lG~tv~~~ 201 (270)
T KOG4608|consen 166 AAGAVTGSVFRINVGLR---GLAAGVILGALLGTTVGGL 201 (270)
T ss_pred ccccceeeeEEeehhhH---HHhhcceeehhhcchHHHH
Confidence 38999999888888854 5566666666666665544
No 149
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.65 E-value=2.2 Score=37.67 Aligned_cols=41 Identities=17% Similarity=0.501 Sum_probs=32.3
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHG 204 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~ 204 (213)
....|.+|.|.+++...|..-.-=.|.||..|-.+-++++.
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhc
Confidence 34789999999999877754333479999999999888654
No 150
>PF11981 DUF3482: Domain of unknown function (DUF3482); InterPro: IPR021871 This presumed domain is functionally uncharacterised. This domain is found in bacteria and eukaryotes. This domain is typically between 289 to 301 amino acids in length. This domain is found associated with PF01926 from PFAM.
Probab=73.25 E-value=1.8 Score=38.33 Aligned_cols=33 Identities=39% Similarity=0.518 Sum_probs=18.2
Q ss_pred hHHHHHHHHhhhcccc-cccccchhhhhhhhhHH
Q 028116 35 GAFTGAITGALAGRAS-DCGVLRGAGLGAIAGAV 67 (213)
Q Consensus 35 g~~~ga~~ga~~g~~~-~~g~~rGa~~GaiaGav 67 (213)
|+..||++|+-+=..| +.-+==||++|++.|++
T Consensus 151 GaaaGAa~GagiDl~tgG~SLG~gaaiGal~Gg~ 184 (292)
T PF11981_consen 151 GAAAGAAAGAGIDLATGGLSLGAGAAIGALAGGA 184 (292)
T ss_pred hHHHHHHHhHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence 4444444444443333 22334577888888877
No 151
>PF02466 Tim17: Tim17/Tim22/Tim23/Pmp24 family; InterPro: IPR003397 The membrane-embedded multi-protein complexes of mitochondria mediate the transport of nuclear-encoded proteins across and into the outer or inner mitochondrial membranes []. The TOM (translocase of the outer mitochondrial membrane) complex consists of cytosol-exposed receptors and a pore-forming core, and mediates the transport of proteins from the cytosol across and into the outer mitochondrial membrane. A novel protein complex in the outer membrane of mitochondria, called the SAM complex (sorting and assembly machinery), is involved in the biogenesis of beta-barrel proteins of the outer membrane. Two translocases of the inner mitochondrial membrane (TIM22 and TIM23 complexes) mediate protein transport at the inner membrane. The TIM23 complex (a presequence translocase) mediates the transport of presequence-containing proteins across and into the inner membrane. Tim23 and Tim17 form part of this complex. Tim23 forms a pore in the inner membrane. The role of Tim17 is not yet fully understood. The TIM22 complex (a twin-pore carrier translocase) catalyses the insertion of multi-spanning proteins that have internal targeting signals into the inner membrane. The TIM22 complex mediates the membrane insertion of multi-spanning inner-membrane proteins that have internal targeting signals, and it uses the membrane potential as an external driving force. The Tim22 subunit of the mitochondrial import inner membrane translocase is included in this family. This family also includes Pmp24, a peroxisomal membrane protein, and NADH ubiquinone dehydrogenase 1 alpha subunit 11. Pmp24 was previously known as Pmp27 [].
Probab=72.99 E-value=8.5 Score=29.06 Aligned_cols=29 Identities=41% Similarity=0.542 Sum_probs=13.3
Q ss_pred HHHHHhhhcccccccccchhhhhhhhhHHHHH
Q 028116 39 GAITGALAGRASDCGVLRGAGLGAIAGAVLSV 70 (213)
Q Consensus 39 ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sv 70 (213)
|+++|++.|..+ -+++++.|++.++.++.
T Consensus 91 G~~aGa~~~~~~---g~~~~~~~~~~~a~~~~ 119 (128)
T PF02466_consen 91 GAAAGAVLGLRS---GPRGMASGAALGAAFAA 119 (128)
T ss_pred HHHHHHHHHhcc---ChHHHHHHHHHHHHHHH
Confidence 344444444432 34555555555555443
No 152
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=72.06 E-value=2 Score=33.22 Aligned_cols=23 Identities=35% Similarity=0.541 Sum_probs=18.4
Q ss_pred HhhhHHHHHHHHhhhcccccccc
Q 028116 32 ALAGAFTGAITGALAGRASDCGV 54 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~~~g~ 54 (213)
|++|.++|.|+|+++++.+..+.
T Consensus 2 ~~i~lvvG~iiG~~~~r~~~~~~ 24 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIGRLTSSNQ 24 (128)
T ss_pred hHHHHHHHHHHHHHHHHHhccch
Confidence 67888888888888888876654
No 153
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=71.84 E-value=3.9 Score=36.65 Aligned_cols=49 Identities=24% Similarity=0.522 Sum_probs=33.5
Q ss_pred CCCCccccccccc--cc---Cc-----------eeeecCCCCCcccHhhHHHHHhc---------CCCCcccCCC
Q 028116 163 TQSSCCSICLQDI--IV---GE-----------LARSLPHCHHTFHLACVDKWLIR---------HGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~--~~---ge-----------~v~~Lp~C~H~FH~~CI~~WL~~---------~~sCPlCR~~ 212 (213)
..+.+||+|+..= .+ |- .-.--| |||+--..-..-|-+. +..||.|-+.
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~ 412 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQ 412 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhh
Confidence 4578899998641 11 10 112456 9999999999999762 4579999764
No 154
>COG3134 Predicted outer membrane lipoprotein [Function unknown]
Probab=71.39 E-value=2.7 Score=33.58 Aligned_cols=40 Identities=25% Similarity=0.440 Sum_probs=25.7
Q ss_pred hhhHHHHHHHHhhhcccccccccch--hhhhhhhhHHHHHHH
Q 028116 33 LAGAFTGAITGALAGRASDCGVLRG--AGLGAIAGAVLSVEL 72 (213)
Q Consensus 33 ~~g~~~ga~~ga~~g~~~~~g~~rG--a~~GaiaGav~sve~ 72 (213)
++|+.+||++|.+.|+--.-|==+= +.-||++|....=++
T Consensus 71 iaGt~iGAv~GGl~G~Q~GgG~Gk~~aTvAGAv~GGyaGN~V 112 (179)
T COG3134 71 IAGSVLGAVAGGVIGHQFGGGRGKDVATVAGALGGGYAGNQV 112 (179)
T ss_pred chhhhhHHHhhhhccccccCCCcchhhhhhhhhcccccchhh
Confidence 4899999999999998766553222 244555554444443
No 155
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=71.30 E-value=2.5 Score=29.27 Aligned_cols=12 Identities=58% Similarity=0.775 Sum_probs=6.0
Q ss_pred hhHHHHHHHHhh
Q 028116 34 AGAFTGAITGAL 45 (213)
Q Consensus 34 ~g~~~ga~~ga~ 45 (213)
+|+++|+++|.|
T Consensus 7 ~Ga~~Ga~~glL 18 (74)
T PF12732_consen 7 AGAAAGAAAGLL 18 (74)
T ss_pred HHHHHHHHHHHH
Confidence 445555555544
No 156
>COG3133 SlyB Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=71.22 E-value=0.96 Score=35.67 Aligned_cols=42 Identities=33% Similarity=0.471 Sum_probs=21.6
Q ss_pred hhHHHHHHHHhhhcccccc--cccchhhhhhhhhHHHHHHHhhh
Q 028116 34 AGAFTGAITGALAGRASDC--GVLRGAGLGAIAGAVLSVELLEA 75 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~--g~~rGa~~GaiaGav~sve~~e~ 75 (213)
+|++-|+++|.+.|-+-.. |=.--+.+|||+|+|+.-.+-|.
T Consensus 62 vG~igG~~lGG~~g~~iGgG~G~~~At~~GAvAGgvaG~~ie~~ 105 (154)
T COG3133 62 IGAIGGAVLGGFLGNTIGGGTGRSLATAAGAVAGGVAGQGIEEA 105 (154)
T ss_pred ceeeccccccceeeccccCCcchHHHHHHhHhhhhhhhhhhHhh
Confidence 3444444444444433322 22234578888888876544443
No 157
>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=71.07 E-value=1.9 Score=29.17 Aligned_cols=38 Identities=16% Similarity=0.376 Sum_probs=20.7
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHH
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWL 200 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL 200 (213)
.+...|.+|..+|..-..-..-..||++|+..|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 44688999999997654444555699999999976544
No 158
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=69.93 E-value=4.3 Score=36.44 Aligned_cols=47 Identities=23% Similarity=0.467 Sum_probs=33.9
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
....|-.|..+.+.....+.- .|+|.||.+|=.--=.+-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 445699998888777766665 49999999994332233456999964
No 159
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.50 E-value=2.9 Score=38.93 Aligned_cols=37 Identities=24% Similarity=0.431 Sum_probs=30.7
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR 202 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~ 202 (213)
.....|-||.+.+.. ....++ |+|.|+..|....+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 557899999999876 455666 9999999999999874
No 160
>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=69.07 E-value=3.8 Score=26.45 Aligned_cols=37 Identities=16% Similarity=0.348 Sum_probs=28.3
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHh
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLI 201 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~ 201 (213)
...|++|-..|.....-..-..||++|+..|......
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 3679999988887554445557999999999876654
No 161
>PRK15361 pathogenicity island 2 effector protein SseD; Provisional
Probab=68.07 E-value=3.4 Score=34.15 Aligned_cols=39 Identities=26% Similarity=0.240 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHHHhhhcccccccc
Q 028116 16 PKFIAGAISGTLTGLFALAGAFTGAITGALAGRASDCGV 54 (213)
Q Consensus 16 ~~~~~~~~~~~~~~~~a~~g~~~ga~~ga~~g~~~~~g~ 54 (213)
..-++.+++|++|.-|+++|+..|...|=.+|+.++.++
T Consensus 91 ~sav~~IlsGV~t~g~G~vGg~ag~~~g~gagh~~~g~~ 129 (195)
T PRK15361 91 ITAGGAMLSGVLTIGLGAVGGETGLIAGQAVGHTAGGVM 129 (195)
T ss_pred HHHHHHHHHhHHHhcccccchHHHHHhhhhhhhhhhccc
Confidence 334566777777777788888888888888888877543
No 162
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=67.29 E-value=3.1 Score=35.19 Aligned_cols=36 Identities=50% Similarity=0.606 Sum_probs=21.6
Q ss_pred HhhhHHHHHHHHhhhccccc--cc-ccchhhhhhhhhHH
Q 028116 32 ALAGAFTGAITGALAGRASD--CG-VLRGAGLGAIAGAV 67 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~~--~g-~~rGa~~GaiaGav 67 (213)
|++|+.+|+.+|+.-+-.+. -| -|-|+++|.++|+.
T Consensus 90 a~~Ga~~G~~~g~~~~~~~g~~~G~GlaGalig~~ada~ 128 (215)
T PF05818_consen 90 ALAGAATGAAIGAYNSGSAGAAIGAGLAGALIGMIADAM 128 (215)
T ss_pred HHHHhHHhhhhccccCCccchhhhhhHHHhHHHHHHhhh
Confidence 66777777777765433332 12 24567777777764
No 163
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.46 E-value=1.1 Score=39.02 Aligned_cols=48 Identities=27% Similarity=0.515 Sum_probs=37.5
Q ss_pred CCCcccccccccccC---ceeeecCC-------CCCcccHhhHHHHHhcCC-CCcccCC
Q 028116 164 QSSCCSICLQDIIVG---ELARSLPH-------CHHTFHLACVDKWLIRHG-SCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~g---e~v~~Lp~-------C~H~FH~~CI~~WL~~~~-sCPlCR~ 211 (213)
.+..|.||...|... ...+.+.. |+|..+..|++.-+.+.. .||.||.
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~ 264 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccc
Confidence 347799999999832 24455544 999999999999987654 8999985
No 164
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.30 E-value=5.2 Score=30.34 Aligned_cols=35 Identities=29% Similarity=0.286 Sum_probs=25.1
Q ss_pred hhHHHHHHHHhhhcccccc---cccchhhhhhhhhHHH
Q 028116 34 AGAFTGAITGALAGRASDC---GVLRGAGLGAIAGAVL 68 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~---g~~rGa~~GaiaGav~ 68 (213)
+|++||+.+|-+.-+...+ |++=+..+|.++|..-
T Consensus 54 sGilVGa~iG~llD~~agTsPwglIv~lllGf~AG~ln 91 (116)
T COG5336 54 SGILVGAGIGWLLDKFAGTSPWGLIVFLLLGFGAGVLN 91 (116)
T ss_pred HHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH
Confidence 6777777777776654443 7888888999888543
No 165
>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 PF04226 Transgly_assoc: Transglycosylase associated protein; InterPro: IPR007341 This bacterial protein is predicted to be an integral membrane protein. Some family members have been annotated as transglycosylase-associated proteins, but no experimental evidence is provided. This family was annotated based on the information in P76011 from SWISSPROT.; GO: 0016021 integral to membrane
Probab=62.98 E-value=11 Score=24.17 Aligned_cols=41 Identities=27% Similarity=0.369 Sum_probs=28.4
Q ss_pred HhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhh
Q 028116 32 ALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLE 74 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e 74 (213)
.++|+++|....-.-|. ..++.=+..+.|+.||++-+-+..
T Consensus 4 GiiGa~vGg~l~~~lg~--~~~~~~~~~i~aviGAiill~i~~ 44 (48)
T PF04226_consen 4 GIIGAFVGGWLFGLLGI--NGGGSWGSFIVAVIGAIILLFIYR 44 (48)
T ss_pred ehHHHHHHHHHHHHhcc--cCCchHHHHHHHHHHHHHHHHHHH
Confidence 46788888877777777 344444556888999988766544
No 167
>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=62.97 E-value=9.9 Score=25.34 Aligned_cols=43 Identities=28% Similarity=0.695 Sum_probs=30.5
Q ss_pred CcccccccccccCceeeecCCCC--CcccHhhHHHHHhcCCCCcccCCC
Q 028116 166 SCCSICLQDIIVGELARSLPHCH--HTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~--H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
..|-.|-.++..+..-... |. ..|+.+|.+.-| ++.||.|-.+
T Consensus 6 pnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGe 50 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGE 50 (57)
T ss_pred CCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCc
Confidence 4577787887776522222 54 579999999876 8899999654
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=62.11 E-value=9.7 Score=27.75 Aligned_cols=37 Identities=22% Similarity=0.540 Sum_probs=29.1
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
....|+-|.+.+..-| ..| |-.|+..+.+|..|++++
T Consensus 32 ~rS~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I 68 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPI 68 (92)
T ss_pred CCCcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCC
Confidence 3477899988877644 345 778999999999999875
No 169
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=61.47 E-value=5.4 Score=39.60 Aligned_cols=46 Identities=26% Similarity=0.574 Sum_probs=33.7
Q ss_pred CCCCccccccccccc----C-----ceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIV----G-----ELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~----g-----e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
+.+..|+-|.-+|.. | ......|.|+|--|..=|. +++.||+|-..
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs----~y~~CPLCHs~ 1183 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS----KYNCCPLCHSM 1183 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc----ccccCccccCh
Confidence 567788888887753 2 2456778899999887654 47899999654
No 170
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.01 E-value=4.6 Score=37.05 Aligned_cols=67 Identities=28% Similarity=0.516 Sum_probs=41.2
Q ss_pred CCCHHHHhcCCceeeeccCC----CCCCCcccccccccccCc--eeeecCCCCCcccHhhHHHHHhcCCCCccc
Q 028116 142 GLTGESLKKLPCHVILDEIK----PTQSSCCSICLQDIIVGE--LARSLPHCHHTFHLACVDKWLIRHGSCPVC 209 (213)
Q Consensus 142 gls~~~i~~lp~~~~~~~~~----~~~~~~C~ICle~~~~ge--~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 209 (213)
+++=+..+++....+.+... ...-..|+.|.-.++..+ ....-. |+|.|+..|...|...+..|..|
T Consensus 279 ~~sC~eykk~~~~~~~d~~~~~~la~~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 279 NLSCEEYKKLNPEEYVDDITLKYLAKRWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CCCHHHHHHhCCcccccHHHHHHHHHhcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 45566666654433322111 133577999987655433 223444 99999999999998877767433
No 171
>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=60.62 E-value=5.2 Score=23.39 Aligned_cols=20 Identities=25% Similarity=0.486 Sum_probs=11.9
Q ss_pred CCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 186 HCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 186 ~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
.|||++...- ....||+|..
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCC
Confidence 3666655443 3457888865
No 172
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=60.24 E-value=5.6 Score=25.86 Aligned_cols=26 Identities=31% Similarity=0.747 Sum_probs=16.4
Q ss_pred ecCCCCCcccHhhHHHHHhcCCCCccc
Q 028116 183 SLPHCHHTFHLACVDKWLIRHGSCPVC 209 (213)
Q Consensus 183 ~Lp~C~H~FH~~CI~~WL~~~~sCPlC 209 (213)
.-++|+|.|...=-++- .....||.|
T Consensus 30 ~C~~Cgh~w~~~v~~R~-~~~~~CP~C 55 (55)
T PF14311_consen 30 KCPKCGHEWKASVNDRT-RRGKGCPYC 55 (55)
T ss_pred ECCCCCCeeEccHhhhc-cCCCCCCCC
Confidence 45567777766543332 567789988
No 173
>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=59.69 E-value=9.6 Score=28.50 Aligned_cols=48 Identities=21% Similarity=0.432 Sum_probs=30.6
Q ss_pred CCCcccccccccccCcee----eecCCC---CCcccHhhHHHHHhc---------CCCCcccCC
Q 028116 164 QSSCCSICLQDIIVGELA----RSLPHC---HHTFHLACVDKWLIR---------HGSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v----~~Lp~C---~H~FH~~CI~~WL~~---------~~sCPlCR~ 211 (213)
....|-.|.+.-.+.... ...+.| .=.|+..|+..+... +-.||.||.
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 356788888754322111 123457 778999999888742 226999985
No 174
>PF04306 DUF456: Protein of unknown function (DUF456); InterPro: IPR007403 This is a family of putative membrane proteins.
Probab=59.19 E-value=9.9 Score=29.87 Aligned_cols=13 Identities=38% Similarity=0.613 Sum_probs=7.6
Q ss_pred hhhhhhhhhHHHH
Q 028116 57 GAGLGAIAGAVLS 69 (213)
Q Consensus 57 Ga~~GaiaGav~s 69 (213)
|..+|++.||.+.
T Consensus 83 G~iiG~~~Ga~l~ 95 (140)
T PF04306_consen 83 GLIIGPFLGAFLG 95 (140)
T ss_pred HHHHHHHHHHHHH
Confidence 5556666666544
No 175
>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=59.04 E-value=7.4 Score=22.06 Aligned_cols=29 Identities=28% Similarity=0.548 Sum_probs=10.7
Q ss_pred cccccccccccCceeeecCCCCCcccHhhH
Q 028116 167 CCSICLQDIIVGELARSLPHCHHTFHLACV 196 (213)
Q Consensus 167 ~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI 196 (213)
.|.+|.+....+....-. .|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~-~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS-ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T-TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc-cCCCccChhcC
Confidence 588898876663334444 59999999995
No 176
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.69 E-value=6.1 Score=34.26 Aligned_cols=35 Identities=20% Similarity=0.329 Sum_probs=29.1
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhc
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR 202 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~ 202 (213)
+...|+.||+.+.+ +...| =||+|+..||.+.+..
T Consensus 42 ~FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRD---PVITP-DGYLFDREAILEYILA 76 (303)
T ss_pred CcceeeeecccccC---CccCC-CCeeeeHHHHHHHHHH
Confidence 45889999999877 55666 8999999999988753
No 177
>PF08560 DUF1757: Protein of unknown function (DUF1757); InterPro: IPR013869 This entry shows proteins that are about 150 amino acids in length and have no known function.
Probab=57.51 E-value=7.6 Score=31.18 Aligned_cols=36 Identities=33% Similarity=0.460 Sum_probs=19.3
Q ss_pred hhHHH-HHHHHhhhccc-----ccccccchhhhhhhhhHHHH
Q 028116 34 AGAFT-GAITGALAGRA-----SDCGVLRGAGLGAIAGAVLS 69 (213)
Q Consensus 34 ~g~~~-ga~~ga~~g~~-----~~~g~~rGa~~GaiaGav~s 69 (213)
.|+++ |+++-++.... .-.-+.+++..|+++|++++
T Consensus 41 lGsl~~~Pi~~~~~~~~~~~~~~~~~~~~~~~~G~l~G~~~g 82 (155)
T PF08560_consen 41 LGSLIVGPIYRLLKQPRLNPKELTNRFVKGGRNGALAGAVLG 82 (155)
T ss_pred HHHHHhHHHHHHHhCccccHHHHHHHHHHHHHHhHHHHHHHH
Confidence 45566 67766665554 22344455555555555544
No 178
>PRK13731 conjugal transfer surface exclusion protein TraT; Provisional
Probab=56.83 E-value=9.3 Score=32.88 Aligned_cols=12 Identities=50% Similarity=0.484 Sum_probs=6.7
Q ss_pred hHHHHHHHHhhh
Q 028116 35 GAFTGAITGALA 46 (213)
Q Consensus 35 g~~~ga~~ga~~ 46 (213)
|++.||.+|+.+
T Consensus 119 ga~~Gaa~G~~~ 130 (243)
T PRK13731 119 GAAVGAALGAGI 130 (243)
T ss_pred hHHHHHHhhhhh
Confidence 555566555544
No 179
>PF11240 DUF3042: Protein of unknown function (DUF3042); InterPro: IPR021402 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=56.76 E-value=11 Score=24.95 Aligned_cols=12 Identities=58% Similarity=0.847 Sum_probs=5.6
Q ss_pred hhhhhhHHHHHH
Q 028116 60 LGAIAGAVLSVE 71 (213)
Q Consensus 60 ~GaiaGav~sve 71 (213)
++|++|+++++.
T Consensus 16 ~aa~a~av~~~k 27 (54)
T PF11240_consen 16 LAAIAGAVFTFK 27 (54)
T ss_pred HHHHHHHHHHHH
Confidence 344555555443
No 180
>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=56.36 E-value=2 Score=37.60 Aligned_cols=49 Identities=18% Similarity=0.371 Sum_probs=23.0
Q ss_pred CCCCcccccccccccCceeeec-CCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 163 TQSSCCSICLQDIIVGELARSL-PHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~L-p~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
.....||||=..-..+.....- ..=.|.+|.-|-..|--....||.|-.
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3457899997764433211111 023678888999999888889999954
No 181
>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=55.95 E-value=8.2 Score=31.16 Aligned_cols=9 Identities=56% Similarity=1.601 Sum_probs=7.8
Q ss_pred CCcccCCCC
Q 028116 205 SCPVCRRDV 213 (213)
Q Consensus 205 sCPlCR~~v 213 (213)
.||+||.+|
T Consensus 82 ~CPLCRG~V 90 (162)
T PF07800_consen 82 ACPLCRGEV 90 (162)
T ss_pred cCccccCce
Confidence 699999875
No 182
>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=55.84 E-value=8.7 Score=24.54 Aligned_cols=15 Identities=27% Similarity=0.454 Sum_probs=7.8
Q ss_pred CCcccccccccccCc
Q 028116 165 SSCCSICLQDIIVGE 179 (213)
Q Consensus 165 ~~~C~ICle~~~~ge 179 (213)
--.|..|...+..++
T Consensus 26 Cf~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 26 CFKCSKCGKPLNDGD 40 (58)
T ss_dssp TSBETTTTCBTTTSS
T ss_pred ccccCCCCCccCCCe
Confidence 345555555555444
No 183
>TIGR00983 3a0801s02tim23 mitochondrial import inner membrane translocase subunit tim23.
Probab=54.73 E-value=21 Score=28.42 Aligned_cols=15 Identities=33% Similarity=0.461 Sum_probs=9.2
Q ss_pred cchhhhhhhhhHHHH
Q 028116 55 LRGAGLGAIAGAVLS 69 (213)
Q Consensus 55 ~rGa~~GaiaGav~s 69 (213)
+|.+++|++.|++++
T Consensus 132 ~r~~~~g~~~G~~l~ 146 (149)
T TIGR00983 132 LRGMARSGALGATAA 146 (149)
T ss_pred hHHHHHHhHHHHHHh
Confidence 456666666666554
No 184
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=53.89 E-value=3.5 Score=26.81 Aligned_cols=9 Identities=44% Similarity=1.379 Sum_probs=4.3
Q ss_pred CCcccCCCC
Q 028116 205 SCPVCRRDV 213 (213)
Q Consensus 205 sCPlCR~~v 213 (213)
.||+|.+++
T Consensus 22 ~CPlC~r~l 30 (54)
T PF04423_consen 22 CCPLCGRPL 30 (54)
T ss_dssp E-TTT--EE
T ss_pred cCCCCCCCC
Confidence 788887753
No 185
>PF05808 Podoplanin: Podoplanin; InterPro: IPR008783 This family consists of several mammalian podoplanin-like proteins which are thought to control specifically the unique shape of podocytes [].; GO: 0016021 integral to membrane; PDB: 3IET_X.
Probab=53.70 E-value=4.3 Score=32.80 Aligned_cols=24 Identities=33% Similarity=0.623 Sum_probs=0.0
Q ss_pred hHHHHHHHHhhhcccccccccchhhhhhhhhHHHHH
Q 028116 35 GAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSV 70 (213)
Q Consensus 35 g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sv 70 (213)
|+|+|.|+|+| .++|.|+|.|+.+
T Consensus 129 ~tLVGIIVGVL------------laIG~igGIIivv 152 (162)
T PF05808_consen 129 VTLVGIIVGVL------------LAIGFIGGIIIVV 152 (162)
T ss_dssp ------------------------------------
T ss_pred eeeeeehhhHH------------HHHHHHhheeeEE
No 186
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.81 E-value=5.2 Score=33.25 Aligned_cols=16 Identities=25% Similarity=0.515 Sum_probs=13.7
Q ss_pred CCCCcccccccccccC
Q 028116 163 TQSSCCSICLQDIIVG 178 (213)
Q Consensus 163 ~~~~~C~ICle~~~~g 178 (213)
.+...|+||++.|...
T Consensus 11 ~~~~~C~iC~~~~~~p 26 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP 26 (386)
T ss_pred cccccChhhHHHhhcC
Confidence 4578999999999885
No 187
>TIGR02865 spore_II_E stage II sporulation protein E. Stage II sporulation protein E (SpoIIE) is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation. By means of it protein phosphatase activity, located in the C-terminal region, it activates sigma-F. All proteins that score above the trusted cutoff to this model are found in endospore-forming Gram-positive bacteria. Surprisingly, a sequence from the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis is homologous, and scores between the trusted and noise cutoffs.
Probab=52.66 E-value=25 Score=35.25 Aligned_cols=32 Identities=28% Similarity=0.400 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHh-----hhHHHHHHHHhhhccccc
Q 028116 20 AGAISGTLTGLFAL-----AGAFTGAITGALAGRASD 51 (213)
Q Consensus 20 ~~~~~~~~~~~~a~-----~g~~~ga~~ga~~g~~~~ 51 (213)
.++++.++..+||. +|+.+|+++|.+.|.++-
T Consensus 178 ~~il~~~~vl~~a~~gG~~~Gaa~Gv~~Gli~~l~~~ 214 (764)
T TIGR02865 178 ENIIARLAVLLISYIGGSGAGAAGGVVIGVILGLANN 214 (764)
T ss_pred HHHHHHHHHHHHHHhcCchHhHHHHHHHHHHHHhcCc
Confidence 34555555666664 678888888888888764
No 188
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=52.58 E-value=7.8 Score=30.45 Aligned_cols=23 Identities=17% Similarity=0.605 Sum_probs=17.8
Q ss_pred eecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 182 RSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 182 ~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
.+.++|||+|+.. +..||.|..+
T Consensus 30 ~kC~~CG~v~~PP--------r~~Cp~C~~~ 52 (140)
T COG1545 30 TKCKKCGRVYFPP--------RAYCPKCGSE 52 (140)
T ss_pred EEcCCCCeEEcCC--------cccCCCCCCC
Confidence 3566799999975 6679999875
No 189
>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=52.37 E-value=8.8 Score=26.45 Aligned_cols=11 Identities=36% Similarity=0.969 Sum_probs=8.4
Q ss_pred ccHhhHHHHHh
Q 028116 191 FHLACVDKWLI 201 (213)
Q Consensus 191 FH~~CI~~WL~ 201 (213)
||.+|+.+|..
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 190
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=52.06 E-value=19 Score=26.48 Aligned_cols=34 Identities=35% Similarity=0.622 Sum_probs=23.8
Q ss_pred CCCcccccccccccCceee-ecCCCCCcccHhhHHHH
Q 028116 164 QSSCCSICLQDIIVGELAR-SLPHCHHTFHLACVDKW 199 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~-~Lp~C~H~FH~~CI~~W 199 (213)
....|.||.+. .|-.+. .-++|...||..|..+.
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 35789999887 443333 23348899999998653
No 191
>COG4171 SapC ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=51.65 E-value=36 Score=29.42 Aligned_cols=52 Identities=29% Similarity=0.486 Sum_probs=35.9
Q ss_pred hhHHHHHHHH---HHH--HHHHHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 13 QSIPKFIAGA---ISG--TLTGLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 13 ~~~~~~~~~~---~~~--~~~~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
+.+||++-|. +.+ ++|+.-+++|.++|+++|+..|. |-+.+|=|=-+++|+.
T Consensus 86 DvlSRli~Gt~~t~G~allvt~~a~l~g~~lGi~AG~t~gl-------~s~~lnHilDt~lSiP 142 (296)
T COG4171 86 DVLSRLISGTAPTVGGALLVTLAATICGGVLGIFAGATHGL-------RSAVLNHILDTLLSIP 142 (296)
T ss_pred HHHHHHHccCccccchHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhhH
Confidence 4578888773 223 34555566888888888888775 4667777777777776
No 192
>COG3133 SlyB Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=51.63 E-value=6 Score=31.26 Aligned_cols=22 Identities=23% Similarity=0.481 Sum_probs=18.1
Q ss_pred hHHHHHHHHhhhcccccccccc
Q 028116 35 GAFTGAITGALAGRASDCGVLR 56 (213)
Q Consensus 35 g~~~ga~~ga~~g~~~~~g~~r 56 (213)
-+.+|||.|+++|...|..+=|
T Consensus 87 At~~GAvAGgvaG~~ie~~~n~ 108 (154)
T COG3133 87 ATAAGAVAGGVAGQGIEEAMNK 108 (154)
T ss_pred HHHHhHhhhhhhhhhhHhhhcc
Confidence 3678999999999998888755
No 193
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=51.32 E-value=4.9 Score=26.26 Aligned_cols=21 Identities=24% Similarity=0.615 Sum_probs=16.6
Q ss_pred ceeeecCCCCCcccHhhHHHH
Q 028116 179 ELARSLPHCHHTFHLACVDKW 199 (213)
Q Consensus 179 e~v~~Lp~C~H~FH~~CI~~W 199 (213)
.....-|+|+|.|+..|-..|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 444556569999999998888
No 194
>PTZ00236 mitochondrial import inner membrane translocase subunit tim17; Provisional
Probab=51.32 E-value=12 Score=30.30 Aligned_cols=29 Identities=34% Similarity=0.424 Sum_probs=13.0
Q ss_pred HHHHHHHhhhcccccccccchhhhhhhhhHHH
Q 028116 37 FTGAITGALAGRASDCGVLRGAGLGAIAGAVL 68 (213)
Q Consensus 37 ~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~ 68 (213)
+-|++||++.+.. .| .+.++..|+-|+++
T Consensus 94 ~AG~~TGa~l~~r--~G-~~~~~~~a~~Gg~~ 122 (164)
T PTZ00236 94 ASGFFTGGVLAIR--GG-WRSAVRNAIFGGIL 122 (164)
T ss_pred HHHHHHHHHHHHh--cC-hHHHHHHHHHHHHH
Confidence 3444444444443 22 44444455444444
No 195
>PRK13731 conjugal transfer surface exclusion protein TraT; Provisional
Probab=51.14 E-value=7.8 Score=33.34 Aligned_cols=14 Identities=36% Similarity=0.240 Sum_probs=6.7
Q ss_pred HhhhHHHHHHHHhh
Q 028116 32 ALAGAFTGAITGAL 45 (213)
Q Consensus 32 a~~g~~~ga~~ga~ 45 (213)
|++|+.+|+.+|+.
T Consensus 120 a~~Gaa~G~~~~~y 133 (243)
T PRK13731 120 AAVGAALGAGITGY 133 (243)
T ss_pred HHHHHHhhhhhhcc
Confidence 34455555544444
No 196
>PF06946 Phage_holin_5: Phage holin; InterPro: IPR009708 This entry represents the Bacteriophage A118, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=51.05 E-value=19 Score=26.48 Aligned_cols=47 Identities=23% Similarity=0.260 Sum_probs=21.8
Q ss_pred CCCcchhHHHHHHHHHHHHHHHHHHhhhHHHH-HHHHhhhcccccccccc
Q 028116 8 DPNLFQSIPKFIAGAISGTLTGLFALAGAFTG-AITGALAGRASDCGVLR 56 (213)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~~g-a~~ga~~g~~~~~g~~r 56 (213)
.+.|+-.++-+++-++..+...+.. -+.+.. +..|+++|++ -+|+.+
T Consensus 32 ~~K~iPlIs~viGilLG~~~~~~~~-~~~l~~~~~aG~laGlA-aTGL~e 79 (93)
T PF06946_consen 32 PNKWIPLISVVIGILLGAAAYPLTG-DGNLALMAWAGGLAGLA-ATGLFE 79 (93)
T ss_pred CcchhhHHHHHHHHHHHHHhhhcCC-CccHHHHHHHHHHhhhh-hhhHHH
Confidence 3455555555555444333222221 233333 5667777776 334433
No 197
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=50.03 E-value=9.6 Score=31.00 Aligned_cols=30 Identities=23% Similarity=0.091 Sum_probs=21.0
Q ss_pred HHhhhcccccccccchhhhhhhhhHHHHHHHhhhcc
Q 028116 42 TGALAGRASDCGVLRGAGLGAIAGAVLSVELLEASR 77 (213)
Q Consensus 42 ~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~s~ 77 (213)
..+++..|-+.|+-+ |+-...++..-|.--
T Consensus 23 Y~~~A~~A~~eG~~~------va~lfr~iA~~E~~H 52 (166)
T COG1592 23 YLIFAKVAEEEGYPE------IARLFRAIAEAEAVH 52 (166)
T ss_pred HHHHHHHHHHCCCHH------HHHHHHHHHHHHHHH
Confidence 456777777778777 777777777666543
No 198
>PLN02189 cellulose synthase
Probab=49.83 E-value=16 Score=37.66 Aligned_cols=49 Identities=22% Similarity=0.486 Sum_probs=36.4
Q ss_pred CCCcccccccccc---cCceeeecCCCCCcccHhhHHHHH-hcCCCCcccCCC
Q 028116 164 QSSCCSICLQDII---VGELARSLPHCHHTFHLACVDKWL-IRHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~~---~ge~v~~Lp~C~H~FH~~CI~~WL-~~~~sCPlCR~~ 212 (213)
+...|.||-++.. +||.-.....|+--.|.+|.+-=- ..+++||-|++.
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~ 85 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTR 85 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCc
Confidence 4568999999974 456666666799999999985322 236789999874
No 199
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=49.21 E-value=7.8 Score=26.11 Aligned_cols=12 Identities=25% Similarity=0.944 Sum_probs=8.5
Q ss_pred cCCCCcccCCCC
Q 028116 202 RHGSCPVCRRDV 213 (213)
Q Consensus 202 ~~~sCPlCR~~v 213 (213)
.++.||+|..++
T Consensus 38 ~~p~CPlC~s~M 49 (59)
T PF14169_consen 38 EEPVCPLCKSPM 49 (59)
T ss_pred CCccCCCcCCcc
Confidence 356899998753
No 200
>PRK04201 zinc transporter ZupT; Provisional
Probab=48.49 E-value=33 Score=29.55 Aligned_cols=48 Identities=25% Similarity=0.200 Sum_probs=30.8
Q ss_pred HHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhhhc
Q 028116 29 GLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLEAS 76 (213)
Q Consensus 29 ~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~s 76 (213)
.++...-+.+|+++|.+.........+.|..+|..+|+.+-|-+.|--
T Consensus 187 ~~~~~l~~p~G~~~g~~~~~~~~~~~~~~~~l~~aaG~~lyv~~~el~ 234 (265)
T PRK04201 187 SFLSGLAEPLGAVLGYLLLGPFISPVVMGAIFAAVAGIMVFISLDELL 234 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 333345556666666655432235567889999999999988544443
No 201
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=48.04 E-value=6.9 Score=39.24 Aligned_cols=47 Identities=19% Similarity=0.460 Sum_probs=33.9
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHh---c---CCCCcccCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLI---R---HGSCPVCRR 211 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~---~---~~sCPlCR~ 211 (213)
.....|..|.... .....+.++|+|.+|..|++.|.- + -..|+.|+.
T Consensus 227 g~~~mC~~C~~tl--fn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 227 GIREMCDRCETTL--FNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred Ccchhhhhhcccc--cceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 5567899997653 234667888999999999999951 1 235777763
No 202
>PF04306 DUF456: Protein of unknown function (DUF456); InterPro: IPR007403 This is a family of putative membrane proteins.
Probab=47.37 E-value=46 Score=26.05 Aligned_cols=13 Identities=38% Similarity=0.739 Sum_probs=6.3
Q ss_pred hHHHHHHHHhhhc
Q 028116 35 GAFTGAITGALAG 47 (213)
Q Consensus 35 g~~~ga~~ga~~g 47 (213)
|.++|++.|++.+
T Consensus 83 G~iiG~~~Ga~l~ 95 (140)
T PF04306_consen 83 GLIIGPFLGAFLG 95 (140)
T ss_pred HHHHHHHHHHHHH
Confidence 4455555554443
No 203
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=47.32 E-value=3.6 Score=36.38 Aligned_cols=39 Identities=23% Similarity=0.537 Sum_probs=30.8
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcC
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRH 203 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~ 203 (213)
....|.+|+++|..+......- |--.||..|+..|+...
T Consensus 213 ~~rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 213 PIRVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred CceecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 3448999999998766555554 66699999999999754
No 204
>PRK05978 hypothetical protein; Provisional
Probab=46.99 E-value=10 Score=30.28 Aligned_cols=20 Identities=25% Similarity=0.585 Sum_probs=15.5
Q ss_pred CCcccHhhHHHHHhcCCCCcccCCC
Q 028116 188 HHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 188 ~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
||+|+ .+|+-+.+||.|-.+
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~ 61 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGED 61 (148)
T ss_pred Ccccc-----cccccCCCccccCCc
Confidence 36775 788889999999754
No 205
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.85 E-value=17 Score=28.47 Aligned_cols=24 Identities=42% Similarity=0.570 Sum_probs=19.2
Q ss_pred HHHHHhhhHHHHHHHHhhhccccc
Q 028116 28 TGLFALAGAFTGAITGALAGRASD 51 (213)
Q Consensus 28 ~~~~a~~g~~~ga~~ga~~g~~~~ 51 (213)
+-+.|+.|-|+|.++|+++-+-+.
T Consensus 7 ~W~~a~igLvvGi~IG~li~Rlt~ 30 (138)
T COG3105 7 TWEYALIGLVVGIIIGALIARLTN 30 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcc
Confidence 456788999999999999877654
No 206
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=45.38 E-value=14 Score=33.16 Aligned_cols=45 Identities=16% Similarity=0.235 Sum_probs=33.6
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhc---CCCCcccC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR---HGSCPVCR 210 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR 210 (213)
--.||+=-+.-.+...+..|. |||+.-..-+++.-+. ...||.|-
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 456888777666666777776 9999999998886543 33699994
No 207
>COG4239 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=45.02 E-value=42 Score=29.82 Aligned_cols=36 Identities=31% Similarity=0.427 Sum_probs=24.1
Q ss_pred hHHHHHHH-HHHHHHHHHHHhhhHHHHHHHHhhhccc
Q 028116 14 SIPKFIAG-AISGTLTGLFALAGAFTGAITGALAGRA 49 (213)
Q Consensus 14 ~~~~~~~~-~~~~~~~~~~a~~g~~~ga~~ga~~g~~ 49 (213)
.+.|++-+ =+|-++....++.++++|..+||+.|+.
T Consensus 132 V~ARliygfRiSvLfgL~lT~~SaliGv~~GA~qGyf 168 (341)
T COG4239 132 VLARLIYGFRISVLFGLSLTLISALIGVLAGALQGYF 168 (341)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 45555544 3455555567778888888888887766
No 208
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=44.43 E-value=31 Score=25.17 Aligned_cols=21 Identities=19% Similarity=0.243 Sum_probs=11.9
Q ss_pred HHHhhhHHHHHHHHhhhcccc
Q 028116 30 LFALAGAFTGAITGALAGRAS 50 (213)
Q Consensus 30 ~~a~~g~~~ga~~ga~~g~~~ 50 (213)
+..++++++||+++++.++..
T Consensus 23 ~~~i~~~~~~a~i~~l~~~~~ 43 (112)
T PF14015_consen 23 IASIILSVLGAVIPVLASLSG 43 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 344566666666666544443
No 209
>PF03253 UT: Urea transporter; InterPro: IPR004937 Proteins in this entry include low-affinity urea transporters found in the erythrocytes and kidneys of higher organisms. The erythrocyte proteins carry the clinically important Kidd (Jk) blood group antigens which help determine blood type. The two commonest forms are Jk(a) and Jk(b), which arise from a single residue variation at position 280; aspartate in Jk(a) and asparagine in Jk(b) []. A much rarer phenotype, Jk(null), arises when the protein is not expressed on the erythrocyte surface, and is linked to a urine-concentrating defect []. The Kidd blood group is clinically significant as Jk antibodies can cause acute transfusion reactions and haemolytic disease of the newborn (HDN), where the mother's body creates antibodies against the foetal blood cells. HDN associated with Jk antibodies is generally mild, but fatal cases can occur []. The bacterial proteins in this entry also appear to be involved in urea transport, promoting its entry into the cell []. This uptake of urea can be advantageous for bacteria as its hydrolysis by urease generates ammonium which is an efficient source of nitrogen and, through its buffering capacity, can also provide resistance to acidic conditions.; GO: 0015204 urea transmembrane transporter activity, 0071918 urea transmembrane transport, 0016021 integral to membrane; PDB: 3M6E_A 3K3G_A 3ME1_B 3K3F_A.
Probab=43.75 E-value=41 Score=29.80 Aligned_cols=32 Identities=25% Similarity=0.466 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHhhhccccc
Q 028116 20 AGAISGTLTGLFALAGAFTGAITGALAGRASD 51 (213)
Q Consensus 20 ~~~~~~~~~~~~a~~g~~~ga~~ga~~g~~~~ 51 (213)
+=.++.-..+++|+.|+++|.+++.+.|...+
T Consensus 189 gi~i~S~~~a~~al~Gs~lg~~~~~~lg~~~~ 220 (301)
T PF03253_consen 189 GILIASRIAALYALLGSLLGTLVALLLGAPHA 220 (301)
T ss_dssp HHHHH-HHHHHHHHHHHHHHHHHHHHTT--HH
T ss_pred HHHHcCHHHHHHHHHHHHHHHHHHHhcCCCHH
Confidence 33445555788999999999999998886655
No 210
>PF04232 SpoVS: Stage V sporulation protein S (SpoVS); InterPro: IPR007347 In Bacillus subtilis this protein interferes with sporulation at an early stage and this inhibitory effect is overcome by SpoIIB and SpoVG. SpoVS seems to play a positive role in allowing progression beyond stage V of sporulation. Null mutations in the spoVS gene block sporulation at stage V, impairing the development of heat resistance and coat assembly [].; PDB: 2EH1_B 2EK0_B.
Probab=43.51 E-value=16 Score=26.50 Aligned_cols=37 Identities=32% Similarity=0.553 Sum_probs=28.0
Q ss_pred HHHHHhhhcccccccc--cchhhhhhhhhHHHHHHHhhh
Q 028116 39 GAITGALAGRASDCGV--LRGAGLGAIAGAVLSVELLEA 75 (213)
Q Consensus 39 ga~~ga~~g~~~~~g~--~rGa~~GaiaGav~sve~~e~ 75 (213)
-++.|||+|.-.|.|- ++..|-||+--|+-+|-+...
T Consensus 13 ~~vAgAIa~~lre~~~v~lqaiGa~AvnqAvKAIAiAR~ 51 (86)
T PF04232_consen 13 NAVAGAIAGVLREGGKVELQAIGAGAVNQAVKAIAIARG 51 (86)
T ss_dssp HHHHHHHHHHHHHTSEEEEEE-SHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCcEEEEEECHHHHHHHHHHHHHHHH
Confidence 4566777777777765 899999999999999886553
No 211
>PLN02975 complex I subunit
Probab=43.49 E-value=57 Score=24.17 Aligned_cols=71 Identities=15% Similarity=0.256 Sum_probs=37.7
Q ss_pred CccccCCCcchhHHHHHHH------HHHHHHHHHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhhhc
Q 028116 3 DLEFEDPNLFQSIPKFIAG------AISGTLTGLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLEAS 76 (213)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~s 76 (213)
.=+|+...---.+.|+++. +..+.+|. ++..+|-++|+-.|.. .-.+.-+..+|.+.|..++.+ .|+
T Consensus 7 ~P~YPlId~dP~f~rVv~yfr~sDY~~~a~~ta----~s~~~~~~~~~~~~~~-~~~mr~ag~iG~~gGf~~aYq--~S~ 79 (97)
T PLN02975 7 KPEYPVVDRNPTFTKVVGNFSALDYLRFATITG----VSVTVGYLSGIKPGIR-GPSMVTGGLIGLMGGFMYAYQ--NSA 79 (97)
T ss_pred CCCCCccCCCCChHHHHHhCCHHHHHHHHHHHH----HHHHHHHHHccCcccc-chHHHHHHHHHHhhhHHhhhc--ccc
Confidence 3345555555567777766 34444444 3334444444322222 223344456888889887755 355
Q ss_pred ccce
Q 028116 77 RAYW 80 (213)
Q Consensus 77 ~~~W 80 (213)
..+|
T Consensus 80 ~Rf~ 83 (97)
T PLN02975 80 GRLM 83 (97)
T ss_pred hhhc
Confidence 5555
No 212
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=43.46 E-value=32 Score=24.50 Aligned_cols=50 Identities=22% Similarity=0.466 Sum_probs=21.3
Q ss_pred CCCCcccccccccc---cCceeeecCCCCCcccHhhHHHHHh-cCCCCcccCCC
Q 028116 163 TQSSCCSICLQDII---VGELARSLPHCHHTFHLACVDKWLI-RHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~---~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 212 (213)
-+...|.||=++.. +|+.......|+--.+..|.+-=.+ .+..||-|+.+
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ 60 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTR 60 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCC
Confidence 45678999999864 3454444445888899999864443 46789999864
No 213
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=43.12 E-value=23 Score=29.01 Aligned_cols=34 Identities=29% Similarity=0.166 Sum_probs=16.6
Q ss_pred HHHHHHHhhhcccccccccchhhhhhhhhHHHHH
Q 028116 37 FTGAITGALAGRASDCGVLRGAGLGAIAGAVLSV 70 (213)
Q Consensus 37 ~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sv 70 (213)
+++++++.+.-+.....++=+..+|+++++++..
T Consensus 16 ~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~ 49 (199)
T PF10112_consen 16 LIAAITFLVSFFGFDHSFLLSLLIGAVAFAVVYL 49 (199)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333344466677777766544
No 214
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=42.62 E-value=23 Score=24.92 Aligned_cols=34 Identities=35% Similarity=0.736 Sum_probs=24.1
Q ss_pred CCCCcccccccccccCceee-ecCCCCCcccHhhHHH
Q 028116 163 TQSSCCSICLQDIIVGELAR-SLPHCHHTFHLACVDK 198 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~-~Lp~C~H~FH~~CI~~ 198 (213)
.....|.+|.+. .|-.+. ..++|.-.||..|..+
T Consensus 34 ~~~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 34 RRKLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HhCCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 345789999876 343332 4557999999999754
No 215
>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=42.44 E-value=5.5 Score=24.63 Aligned_cols=25 Identities=24% Similarity=0.433 Sum_probs=13.8
Q ss_pred CCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 186 HCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 186 ~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
+|||.|-..--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 47777655431110 23457898876
No 216
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=42.25 E-value=7.2 Score=37.37 Aligned_cols=51 Identities=14% Similarity=0.205 Sum_probs=45.0
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
.....|.+|+......+..+.+..|.|.+...|+.+|=.....||.|++++
T Consensus 258 ~~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~ 308 (553)
T KOG4430|consen 258 ENKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKV 308 (553)
T ss_pred hcccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhcccccc
Confidence 456779999999888888888888999999999999988888999998764
No 217
>COG2359 SpoVS Stage V sporulation protein SpoVS [Function unknown]
Probab=42.24 E-value=19 Score=25.62 Aligned_cols=34 Identities=32% Similarity=0.567 Sum_probs=26.7
Q ss_pred HHHhhhcccccccc--cchhhhhhhhhHHHHHHHhh
Q 028116 41 ITGALAGRASDCGV--LRGAGLGAIAGAVLSVELLE 74 (213)
Q Consensus 41 ~~ga~~g~~~~~g~--~rGa~~GaiaGav~sve~~e 74 (213)
+.|||+|.-+++|- +|-.+-||+-.||=++.+..
T Consensus 15 VAGAlAgvlr~~g~aEiQAiGagAvNQaVKAiAiaR 50 (87)
T COG2359 15 VAGALAGVLRERGKAEIQAIGAGAVNQAVKAIAIAR 50 (87)
T ss_pred HHHHHHHHHHhcCceeeeeechHHHHHHHHHHHHHh
Confidence 56777777777776 78888999999998887654
No 218
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.15 E-value=9.4 Score=35.56 Aligned_cols=41 Identities=17% Similarity=0.300 Sum_probs=29.4
Q ss_pred CCCCcccccccccccCce----eeecCCCCCcccHhhHHHHHhcC
Q 028116 163 TQSSCCSICLQDIIVGEL----ARSLPHCHHTFHLACVDKWLIRH 203 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~----v~~Lp~C~H~FH~~CI~~WL~~~ 203 (213)
.+...||.|....+..+. ....+.|.|.||..|+..|-...
T Consensus 224 ~ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 224 ANTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred ccCccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 345669999998877641 22222499999999999987653
No 219
>PF11177 DUF2964: Protein of unknown function (DUF2964); InterPro: IPR021347 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=41.35 E-value=74 Score=21.62 Aligned_cols=45 Identities=20% Similarity=0.279 Sum_probs=32.5
Q ss_pred HHHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhhh
Q 028116 28 TGLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLEA 75 (213)
Q Consensus 28 ~~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~ 75 (213)
-++|...+.+.++|-|.+ ..+..++|...+.-+.|...-+-.++.
T Consensus 13 iavFiaLagl~~~I~GlL---fD~~~~~~yg~~al~~Gv~~fV~~Lnp 57 (62)
T PF11177_consen 13 IAVFIALAGLAAVIHGLL---FDEERVFRYGVIALVVGVAGFVVMLNP 57 (62)
T ss_pred HHHHHHHHHHHHHhhhhh---ccccchhHHHHHHHHHHHHHHHHhCCC
Confidence 356777777888888877 345788888777777777766666554
No 220
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.97 E-value=25 Score=30.62 Aligned_cols=46 Identities=15% Similarity=0.255 Sum_probs=33.1
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
...|||=--+|........+-.|||+|-..-+.+- ...+|++|-..
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~ 156 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAA 156 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCc
Confidence 34588887777665444444459999998887763 57789999764
No 221
>PF13828 DUF4190: Domain of unknown function (DUF4190)
Probab=40.89 E-value=90 Score=21.01 Aligned_cols=36 Identities=36% Similarity=0.360 Sum_probs=17.5
Q ss_pred hhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHH
Q 028116 33 LAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLS 69 (213)
Q Consensus 33 ~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~s 69 (213)
...+++|.+.|-++=...+.+=.+|-++ |++|-+++
T Consensus 17 ~~~~i~aiilG~ial~~i~r~~~~G~g~-A~aGivlG 52 (62)
T PF13828_consen 17 GLLGIVAIILGHIALRQIRRSGQRGRGM-AIAGIVLG 52 (62)
T ss_pred HHhHHHHHHHHHHHHHHHhccCCCChHH-HHHHHHHH
Confidence 4555566666666544333322555443 34554444
No 222
>COG2261 Predicted membrane protein [Function unknown]
Probab=40.86 E-value=88 Score=22.46 Aligned_cols=44 Identities=23% Similarity=0.279 Sum_probs=22.5
Q ss_pred HHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHh
Q 028116 29 GLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELL 73 (213)
Q Consensus 29 ~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~ 73 (213)
.+..++|+++|-...-.-|... .++-=.+.+.|+-||+.-+-+.
T Consensus 33 IilGIVGA~vg~~l~~~~g~~~-~~~~~~~~i~avIGAvIll~i~ 76 (82)
T COG2261 33 IILGIVGAFVGGWLLGALGFGG-PGGNIASFIVAVIGAVILLAIV 76 (82)
T ss_pred HHHHHHHHHHHHHHHHHhcCCC-CcchHHHHHHHHHHHHHHHHHH
Confidence 3444555555554444444333 4444445666677766655443
No 223
>PLN02436 cellulose synthase A
Probab=40.44 E-value=28 Score=36.18 Aligned_cols=49 Identities=22% Similarity=0.510 Sum_probs=36.4
Q ss_pred CCCccccccccc---ccCceeeecCCCCCcccHhhHHHHHh-cCCCCcccCCC
Q 028116 164 QSSCCSICLQDI---IVGELARSLPHCHHTFHLACVDKWLI-RHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~---~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 212 (213)
....|.||-++. .+||.-.....|+--.|.+|.+-=-+ .+++||-|++.
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~ 87 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTR 87 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCc
Confidence 346899999996 45676666667888899999853222 36789999874
No 224
>PF10785 NADH-u_ox-rdase: NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit; InterPro: IPR019721 This domain is found in the N-terminal region of NADH-ubiquinone oxidoreductase 21kDa subunits from plants and fungi [].
Probab=40.24 E-value=81 Score=22.64 Aligned_cols=66 Identities=14% Similarity=0.131 Sum_probs=36.9
Q ss_pred ccCCCcchhHHHHHHH------HHHHHHHHHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 6 FEDPNLFQSIPKFIAG------AISGTLTGLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 6 ~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
|....-.-.+.|++++ ++.+.+|..+-.+|-+.|-....-.+......+.-++.+|.++|-+++.+
T Consensus 4 YPvId~dP~f~rVv~~~R~sDy~~~a~~ta~~p~~~~~~~~~~~~~~~~~~~~~~~~a~~ig~~gGfl~ayq 75 (86)
T PF10785_consen 4 YPVIDSDPHFKRVVRYFRPSDYAIWAGATAASPPLGYYMERSAPSRVGRGGGPAMRLAGAIGFFGGFLLAYQ 75 (86)
T ss_pred CCccCCCCCHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHH
Confidence 4444444566777766 45555555444444444444333333222345556678888888887765
No 225
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=40.23 E-value=14 Score=35.58 Aligned_cols=34 Identities=24% Similarity=0.547 Sum_probs=24.0
Q ss_pred CCCCcccccccccccC-----------ceeeecCCCCCcccHhhHHH
Q 028116 163 TQSSCCSICLQDIIVG-----------ELARSLPHCHHTFHLACVDK 198 (213)
Q Consensus 163 ~~~~~C~ICle~~~~g-----------e~v~~Lp~C~H~FH~~CI~~ 198 (213)
+....|+||.|+|+.= +.+ .+. =|-+||..|+..
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV-~le-~G~ifH~~Cl~e 555 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAV-YLE-FGRIFHSKCLSE 555 (579)
T ss_pred ccccCCcccccccceeecchhhheeeccee-eec-cCceeeccccch
Confidence 4567899999998641 222 332 588999999864
No 226
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=39.70 E-value=8.4 Score=34.12 Aligned_cols=32 Identities=25% Similarity=0.525 Sum_probs=26.0
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHH
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVD 197 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~ 197 (213)
-...|+-|.+.+.+.+.||+- =.|+||..|..
T Consensus 91 fGTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~ 122 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA 122 (383)
T ss_pred hCCcchhhcCCCChHHHHHHh--hcceeehhhhh
Confidence 357899999999888777765 58999999964
No 227
>PF02466 Tim17: Tim17/Tim22/Tim23/Pmp24 family; InterPro: IPR003397 The membrane-embedded multi-protein complexes of mitochondria mediate the transport of nuclear-encoded proteins across and into the outer or inner mitochondrial membranes []. The TOM (translocase of the outer mitochondrial membrane) complex consists of cytosol-exposed receptors and a pore-forming core, and mediates the transport of proteins from the cytosol across and into the outer mitochondrial membrane. A novel protein complex in the outer membrane of mitochondria, called the SAM complex (sorting and assembly machinery), is involved in the biogenesis of beta-barrel proteins of the outer membrane. Two translocases of the inner mitochondrial membrane (TIM22 and TIM23 complexes) mediate protein transport at the inner membrane. The TIM23 complex (a presequence translocase) mediates the transport of presequence-containing proteins across and into the inner membrane. Tim23 and Tim17 form part of this complex. Tim23 forms a pore in the inner membrane. The role of Tim17 is not yet fully understood. The TIM22 complex (a twin-pore carrier translocase) catalyses the insertion of multi-spanning proteins that have internal targeting signals into the inner membrane. The TIM22 complex mediates the membrane insertion of multi-spanning inner-membrane proteins that have internal targeting signals, and it uses the membrane potential as an external driving force. The Tim22 subunit of the mitochondrial import inner membrane translocase is included in this family. This family also includes Pmp24, a peroxisomal membrane protein, and NADH ubiquinone dehydrogenase 1 alpha subunit 11. Pmp24 was previously known as Pmp27 [].
Probab=39.62 E-value=41 Score=25.24 Aligned_cols=42 Identities=31% Similarity=0.287 Sum_probs=28.5
Q ss_pred HHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHH
Q 028116 29 GLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSV 70 (213)
Q Consensus 29 ~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sv 70 (213)
..||..+.+-..+.-++.-.--+++.+..+.-|+++|+++..
T Consensus 59 ~~~g~~~~~y~~~~~~l~~~R~k~D~~N~~~aG~~aGa~~~~ 100 (128)
T PF02466_consen 59 ARFGSFGGLYSGIECALERLRGKDDPWNSAIAGAAAGAVLGL 100 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHh
Confidence 345555555555555565555567888888888888887776
No 228
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=39.28 E-value=14 Score=36.65 Aligned_cols=32 Identities=28% Similarity=0.750 Sum_probs=23.2
Q ss_pred eeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 181 ARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 181 v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
+...|.|.-+||.+=.+--..++..||.||..
T Consensus 1044 it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS 1075 (1081)
T KOG1538|consen 1044 ITMCPSCFQMFHSEDFELLVLQKGHCPFCRTS 1075 (1081)
T ss_pred hhhCchHHhhhccchhhHHHHhcCCCCccccc
Confidence 34556677777776666666788999999974
No 229
>PF11981 DUF3482: Domain of unknown function (DUF3482); InterPro: IPR021871 This presumed domain is functionally uncharacterised. This domain is found in bacteria and eukaryotes. This domain is typically between 289 to 301 amino acids in length. This domain is found associated with PF01926 from PFAM.
Probab=39.23 E-value=14 Score=32.65 Aligned_cols=10 Identities=40% Similarity=0.710 Sum_probs=5.3
Q ss_pred HHHHHHHHHH
Q 028116 21 GAISGTLTGL 30 (213)
Q Consensus 21 ~~~~~~~~~~ 30 (213)
|+..|+.+++
T Consensus 151 GaaaGAa~Ga 160 (292)
T PF11981_consen 151 GAAAGAAAGA 160 (292)
T ss_pred hHHHHHHHhH
Confidence 5555555554
No 230
>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=39.06 E-value=19 Score=27.27 Aligned_cols=47 Identities=19% Similarity=0.360 Sum_probs=28.5
Q ss_pred CCCcccccccccccC-ceeeecCCCCCcccHhhHHHHHhcCC--CCcccCC
Q 028116 164 QSSCCSICLQDIIVG-ELARSLPHCHHTFHLACVDKWLIRHG--SCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPlCR~ 211 (213)
++..|.+|..+|..- ..-...+.|+|.+|..|-.. ..+.. -|.+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 567899999987432 22345556999999999544 11111 3777753
No 231
>PRK04201 zinc transporter ZupT; Provisional
Probab=38.64 E-value=54 Score=28.24 Aligned_cols=50 Identities=22% Similarity=0.276 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhhh
Q 028116 24 SGTLTGLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLEA 75 (213)
Q Consensus 24 ~~~~~~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~ 75 (213)
.+++..+++..++.+|++.+.+....++. +.+..++.-+|..+++-+.|-
T Consensus 6 ~a~~~~~l~~~~t~lGal~~~~~~~~~~~--~l~~~lafAaGvml~~~~~~L 55 (265)
T PRK04201 6 VALLLTLLAGLATGIGSLIAFFGKKPNNR--FLSFSLGFAAGVMLYVSFMEI 55 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccHH--HHHHHHHHHHHHHHHHHHHHH
Confidence 34556666777888888887765544342 446667777777766654443
No 232
>PF02535 Zip: ZIP Zinc transporter; InterPro: IPR003689 These ZIP zinc transporter proteins define a family of metal ion transporters that are found in plants, protozoa, fungi, invertebrates, and vertebrates, making it now possible to address questions of metal ion accumulation and homeostasis in diverse organisms [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane
Probab=38.49 E-value=37 Score=29.28 Aligned_cols=55 Identities=25% Similarity=0.310 Sum_probs=37.4
Q ss_pred HHHHHhhhHHHHHHHHhhh---cccccccccchhhhhhhhhHHHHHHHhhhcccceecc
Q 028116 28 TGLFALAGAFTGAITGALA---GRASDCGVLRGAGLGAIAGAVLSVELLEASRAYWCLE 83 (213)
Q Consensus 28 ~~~~a~~g~~~ga~~ga~~---g~~~~~g~~rGa~~GaiaGav~sve~~e~s~~~W~~d 83 (213)
+.+|+ .-+.+|+++|... +........+|..++..+|.++-|-+.|--.+.++..
T Consensus 236 ~~~~s-l~~piG~~ig~~~~~~~~~~~~~~~~~~~~a~aaG~~lyv~~~ell~~~~~~~ 293 (317)
T PF02535_consen 236 LLLFS-LSTPIGALIGIAISNSGSSSSSDIVSGILLAFAAGTFLYVAFVELLPEEFHNK 293 (317)
T ss_pred HHHHH-HHHHHHHHHHHHhcccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 33344 3456677777777 3444556689999999999999888777665555433
No 233
>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=37.65 E-value=22 Score=20.18 Aligned_cols=29 Identities=24% Similarity=0.565 Sum_probs=19.4
Q ss_pred cccccccccccCceeeecCCCCCcccHhhH
Q 028116 167 CCSICLQDIIVGELARSLPHCHHTFHLACV 196 (213)
Q Consensus 167 ~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI 196 (213)
.|.+|.++......-.- ..|...+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C-~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHC-SECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEe-CCCCCeEcCccC
Confidence 58899776655433344 448888998873
No 234
>COG3918 Predicted membrane protein [Function unknown]
Probab=37.36 E-value=68 Score=24.89 Aligned_cols=18 Identities=33% Similarity=0.532 Sum_probs=12.6
Q ss_pred hhHHHHHHHHhhhccccc
Q 028116 34 AGAFTGAITGALAGRASD 51 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~ 51 (213)
+--++||++||.+|.+..
T Consensus 79 aRiimGAf~GAvIGatgg 96 (153)
T COG3918 79 ARIIMGAFAGAVIGATGG 96 (153)
T ss_pred hhhhhhhhccccccccCC
Confidence 445678888888877654
No 235
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=36.93 E-value=17 Score=31.32 Aligned_cols=40 Identities=25% Similarity=0.413 Sum_probs=30.8
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhc--CCCCc
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR--HGSCP 207 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCP 207 (213)
+..|||-++.+.. +....+|+|.|-.+=|.+.|.. ...||
T Consensus 189 ~nrCpitl~p~~~---pils~kcnh~~e~D~I~~~lq~~~trvcp 230 (275)
T COG5627 189 SNRCPITLNPDFY---PILSSKCNHKPEMDLINKKLQVECTRVCP 230 (275)
T ss_pred cccCCcccCcchh---HHHHhhhcccccHHHHHHHhcCCceeecc
Confidence 5779999988654 3344479999999999999984 44577
No 236
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.79 E-value=14 Score=32.84 Aligned_cols=47 Identities=26% Similarity=0.637 Sum_probs=36.9
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
.....|-||.-.+.... ....|.|.|+..|-..|....+-||-||..
T Consensus 103 ~~~~~~~~~~g~l~vpt---~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~ 149 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPT---RIQGCWHQFCYVCPKSNFAMGNDCPDCRGK 149 (324)
T ss_pred CCccceeeeeeeEEecc---cccCceeeeeecCCchhhhhhhccchhhcC
Confidence 45677899987766532 333599999999999999999999998853
No 237
>COG1173 DppC ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=36.48 E-value=63 Score=28.44 Aligned_cols=37 Identities=32% Similarity=0.495 Sum_probs=21.7
Q ss_pred hhHHHHHHHHHHHHHHHHHH-hhhHHHHHHHHhhhccc
Q 028116 13 QSIPKFIAGAISGTLTGLFA-LAGAFTGAITGALAGRA 49 (213)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~a-~~g~~~ga~~ga~~g~~ 49 (213)
+.++|++-|+-..+..++.| +...++|.+.|+++|+.
T Consensus 76 Di~srli~G~r~SL~I~~~~~~~~~~iG~~lG~iaGy~ 113 (289)
T COG1173 76 DILSRLLYGARISLLIGLLAVLISLVIGTLLGLLAGYF 113 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 56788887754444444433 34556666666666654
No 238
>PHA01757 hypothetical protein
Probab=36.03 E-value=50 Score=23.73 Aligned_cols=20 Identities=35% Similarity=0.777 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHhhhHHHHHH
Q 028116 22 AISGTLTGLFALAGAFTGAI 41 (213)
Q Consensus 22 ~~~~~~~~~~a~~g~~~ga~ 41 (213)
++-++|-++||+-|++.|.+
T Consensus 5 l~e~al~gf~a~~g~l~~~f 24 (98)
T PHA01757 5 LLEGALYGFFAVTGALSASF 24 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44566667777666666653
No 239
>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=35.99 E-value=17 Score=20.12 Aligned_cols=7 Identities=71% Similarity=1.696 Sum_probs=3.7
Q ss_pred CCcccCC
Q 028116 205 SCPVCRR 211 (213)
Q Consensus 205 sCPlCR~ 211 (213)
.||+|-+
T Consensus 3 ~CPiC~~ 9 (26)
T smart00734 3 QCPVCFR 9 (26)
T ss_pred cCCCCcC
Confidence 3566644
No 240
>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=35.31 E-value=34 Score=22.90 Aligned_cols=34 Identities=15% Similarity=0.225 Sum_probs=25.5
Q ss_pred CCCccccccccccc--CceeeecCCCCCcccHhhHH
Q 028116 164 QSSCCSICLQDIIV--GELARSLPHCHHTFHLACVD 197 (213)
Q Consensus 164 ~~~~C~ICle~~~~--ge~v~~Lp~C~H~FH~~CI~ 197 (213)
....|+.|-...+. .......|.||+.+|.+-.-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~na 62 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNA 62 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHH
Confidence 45779999888766 45666777899999887543
No 241
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=35.18 E-value=37 Score=35.29 Aligned_cols=49 Identities=22% Similarity=0.452 Sum_probs=35.3
Q ss_pred CCCcccccccccc---cCceeeecCCCCCcccHhhHHH-HHhcCCCCcccCCC
Q 028116 164 QSSCCSICLQDII---VGELARSLPHCHHTFHLACVDK-WLIRHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~~---~ge~v~~Lp~C~H~FH~~CI~~-WL~~~~sCPlCR~~ 212 (213)
+...|.||=++.. +||.-.....|+-=.|.+|-+- .=..+..||-|++.
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktr 68 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTK 68 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCc
Confidence 4568999999864 4565555556888899999842 22346789999874
No 242
>TIGR03441 urea_trans_yut urea transporter, Yersinia type. Members of this protein family are bacterial urea transporters, found not only is species that contain urease, but adjacent to the urease operon. It was characterized in Yersinia pseudotuberculosis. Members are homologous to eukaryotic members of solute carrier family 14, a family that includes urea transporters, and to bacterial proteins in species with no detectable urea degradation system.
Probab=35.13 E-value=65 Score=28.46 Aligned_cols=29 Identities=24% Similarity=0.376 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHhhhcccc
Q 028116 22 AISGTLTGLFALAGAFTGAITGALAGRAS 50 (213)
Q Consensus 22 ~~~~~~~~~~a~~g~~~ga~~ga~~g~~~ 50 (213)
.+..-..+++|+.|+++|.+++.+.|...
T Consensus 191 ~i~S~~~a~~al~gs~i~~~~a~~lg~~~ 219 (292)
T TIGR03441 191 LIASRKAAIMALIGALISILAAILLGADL 219 (292)
T ss_pred HHcCHHHHHHHHHHHHHHHHHHHHhCCCH
Confidence 34455678899999999999998888754
No 243
>PF04172 LrgB: LrgB-like family ; InterPro: IPR007300 The two products of the lrgAB operon are potential membrane proteins, and LrgA and LrgB are both thought to control murein hydrolase activity and penicillin tolerance [].
Probab=34.62 E-value=75 Score=26.83 Aligned_cols=44 Identities=27% Similarity=0.271 Sum_probs=29.6
Q ss_pred HhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhhhcc
Q 028116 32 ALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLEASR 77 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~s~ 77 (213)
.+.|+++|... +.-+--++-+-||.++|+.|.|+---..+|.+.
T Consensus 144 Gi~Ga~~g~~l--lk~~~I~~~~A~GlalG~~sHaiGTa~a~e~~~ 187 (215)
T PF04172_consen 144 GILGAVLGPPL--LKLLRIKDPVARGLALGTASHAIGTARALEIGE 187 (215)
T ss_pred hhHHHHhHHHH--HhHcccccHHHHHHHhccchHHHHHHHHHHcCc
Confidence 33444444433 222333566999999999999999888888763
No 244
>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=34.59 E-value=15 Score=31.85 Aligned_cols=31 Identities=32% Similarity=0.660 Sum_probs=25.1
Q ss_pred ceeeecCCCCCcccHhhHHHHHhc-CCCCc--cc
Q 028116 179 ELARSLPHCHHTFHLACVDKWLIR-HGSCP--VC 209 (213)
Q Consensus 179 e~v~~Lp~C~H~FH~~CI~~WL~~-~~sCP--lC 209 (213)
-.+-.-|.|=|..|..|+++-+.+ ...|| -|
T Consensus 26 ik~linPECyHrmCESCvdRIFs~GpAqCP~~gC 59 (314)
T COG5220 26 IKILINPECYHRMCESCVDRIFSRGPAQCPYKGC 59 (314)
T ss_pred eEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccH
Confidence 345566789999999999999976 56899 56
No 245
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=34.34 E-value=72 Score=19.66 Aligned_cols=17 Identities=24% Similarity=-0.031 Sum_probs=11.9
Q ss_pred HHHHHHHHhhhcccccc
Q 028116 36 AFTGAITGALAGRASDC 52 (213)
Q Consensus 36 ~~~ga~~ga~~g~~~~~ 52 (213)
.+++++++|+++....+
T Consensus 18 iVv~~i~~ali~VSq~D 34 (39)
T PF06596_consen 18 IVVIPIAGALIFVSQFD 34 (39)
T ss_dssp HHHHHHHHHHHHHHCCS
T ss_pred hhhhhhhhheEEEeccC
Confidence 57788888887665443
No 246
>PRK01343 zinc-binding protein; Provisional
Probab=34.22 E-value=22 Score=23.78 Aligned_cols=10 Identities=30% Similarity=0.959 Sum_probs=6.4
Q ss_pred CCCCcccCCC
Q 028116 203 HGSCPVCRRD 212 (213)
Q Consensus 203 ~~sCPlCR~~ 212 (213)
...||+|+++
T Consensus 9 ~~~CP~C~k~ 18 (57)
T PRK01343 9 TRPCPECGKP 18 (57)
T ss_pred CCcCCCCCCc
Confidence 4567777765
No 247
>PF11151 DUF2929: Protein of unknown function (DUF2929); InterPro: IPR021324 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=34.21 E-value=62 Score=21.42 Aligned_cols=35 Identities=23% Similarity=0.341 Sum_probs=26.0
Q ss_pred hhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHH
Q 028116 34 AGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSV 70 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sv 70 (213)
-|-++|=|.+++.|.+ -.+.+++.+++|-|-++.+
T Consensus 13 l~~vvgyI~ssL~~~~--~n~~~~~Ii~vi~~i~~~~ 47 (57)
T PF11151_consen 13 LGEVVGYIGSSLTGVT--YNFTTAAIIAVIFGIIVAN 47 (57)
T ss_pred HHHHHHHHHHHHhCCC--CChHHHHHHHHHHHHHHHH
Confidence 5677888888888884 3488888888887766654
No 248
>PF12670 DUF3792: Protein of unknown function (DUF3792); InterPro: IPR023804 Members of this family of strongly hydrophobic putative transmembrane protein average about 125 amino acids in length and occur mostly, but not exclusively, in the Firmicutes. Members are quite diverse in sequence. Their function is unknown.
Probab=33.93 E-value=69 Score=24.03 Aligned_cols=34 Identities=24% Similarity=0.233 Sum_probs=19.5
Q ss_pred hhHHHHHHH-Hhhhcccc-cccccchhhhhhhhhHH
Q 028116 34 AGAFTGAIT-GALAGRAS-DCGVLRGAGLGAIAGAV 67 (213)
Q Consensus 34 ~g~~~ga~~-ga~~g~~~-~~g~~rGa~~GaiaGav 67 (213)
+..+++.+. |.++|+.. +.|++.|...|.+=-.+
T Consensus 45 ~i~~ls~~~GG~~a~~~~~~kG~l~G~~~Gl~y~~i 80 (116)
T PF12670_consen 45 IIYILSVFIGGFYAGRKAGSKGWLHGLLVGLLYFLI 80 (116)
T ss_pred HHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHH
Confidence 444455444 34455544 66888887777554433
No 249
>PTZ00236 mitochondrial import inner membrane translocase subunit tim17; Provisional
Probab=33.28 E-value=72 Score=25.90 Aligned_cols=15 Identities=33% Similarity=0.596 Sum_probs=7.4
Q ss_pred hhHHHHHHHHhhhcc
Q 028116 34 AGAFTGAITGALAGR 48 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~ 48 (213)
+|.++|++.++=.|-
T Consensus 95 AG~~TGa~l~~r~G~ 109 (164)
T PTZ00236 95 SGFFTGGVLAIRGGW 109 (164)
T ss_pred HHHHHHHHHHHhcCh
Confidence 555555555444443
No 250
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=33.20 E-value=14 Score=39.39 Aligned_cols=49 Identities=24% Similarity=0.562 Sum_probs=38.1
Q ss_pred CCCCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCC----CCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHG----SCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~----sCPlCR~~ 212 (213)
.....|.+|....+..+.+-..- |.-.||.-|+..-+..-. .||-||..
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 35678999999987755555554 999999999999887533 69999863
No 251
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=32.25 E-value=22 Score=29.83 Aligned_cols=20 Identities=30% Similarity=0.727 Sum_probs=13.8
Q ss_pred HhhHHHHHh-cCCCCcccCCC
Q 028116 193 LACVDKWLI-RHGSCPVCRRD 212 (213)
Q Consensus 193 ~~CI~~WL~-~~~sCPlCR~~ 212 (213)
..||++-=. ..+-||+||.+
T Consensus 97 ktCIrkn~~~~gnpCPICRDe 117 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDE 117 (239)
T ss_pred hHHHhhcCeecCCCCCccccc
Confidence 678877533 35679999964
No 252
>PRK04307 putative disulfide oxidoreductase; Provisional
Probab=32.23 E-value=86 Score=26.61 Aligned_cols=39 Identities=21% Similarity=0.330 Sum_probs=19.2
Q ss_pred HHhhhHHHHHHHHhhhcccccccccch-hhhhhhhhHHHHHHH
Q 028116 31 FALAGAFTGAITGALAGRASDCGVLRG-AGLGAIAGAVLSVEL 72 (213)
Q Consensus 31 ~a~~g~~~ga~~ga~~g~~~~~g~~rG-a~~GaiaGav~sve~ 72 (213)
+|+.|..+++++|++.- .+-.+|. +.+.+..||+.+...
T Consensus 61 ~a~l~i~l~gLIg~i~P---~~~~~r~l~~ll~~~ga~~G~~~ 100 (218)
T PRK04307 61 FAMFVMAIGGVIAAINP---KNIILKLIGYIAAFYGSILGIKF 100 (218)
T ss_pred HHHHHHHHHHHHHHhCC---cchHHHHHHHHHHHHHHHHHHHH
Confidence 34566667777777432 2323454 334444444444443
No 253
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=32.01 E-value=33 Score=32.40 Aligned_cols=37 Identities=22% Similarity=0.414 Sum_probs=24.7
Q ss_pred CCCCcccccccccc-cCceeeecCCCCCcccHhhHHHH
Q 028116 163 TQSSCCSICLQDII-VGELARSLPHCHHTFHLACVDKW 199 (213)
Q Consensus 163 ~~~~~C~ICle~~~-~ge~v~~Lp~C~H~FH~~CI~~W 199 (213)
..+..|++|++.-. .++.+...-+|+-.||..|-..-
T Consensus 166 ~~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~ 203 (464)
T KOG4323|consen 166 KVNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPL 203 (464)
T ss_pred cccceeeeeecCCcCccceeeeecccccHHHHHhccCC
Confidence 34455999996532 23444445569999999996554
No 254
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=32.00 E-value=25 Score=30.61 Aligned_cols=30 Identities=27% Similarity=0.455 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHHHhhhcc
Q 028116 16 PKFIAGAISGTLTGLFALAGAFTGAITGALAGR 48 (213)
Q Consensus 16 ~~~~~~~~~~~~~~~~a~~g~~~ga~~ga~~g~ 48 (213)
.+++++++.=++.+.| |+++|.++|-+...
T Consensus 5 gki~g~~~G~~~~g~~---Ga~~G~~~Gh~~d~ 34 (267)
T PRK09430 5 GKILGFAFGFLFGGFF---GALLGLLIGHMFDK 34 (267)
T ss_pred HHHHHHHHHHHHhhHH---HHHHHHHHHhHHhh
Confidence 3566666665655554 44555555544443
No 255
>PRK04023 DNA polymerase II large subunit; Validated
Probab=31.66 E-value=39 Score=34.97 Aligned_cols=44 Identities=20% Similarity=0.473 Sum_probs=31.0
Q ss_pred CCCCcccccccccccCceeeecCCCC-----CcccHhhHHHHHhcCCCCcccCCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLPHCH-----HTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp~C~-----H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
.....|+=|=... .....|+|| ..||..| .+......||-|..+
T Consensus 624 Vg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~E 672 (1121)
T PRK04023 624 IGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGRE 672 (1121)
T ss_pred ccCccCCCCCCcC----CcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCC
Confidence 4567899997763 235677898 4699999 333445679999765
No 256
>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=31.48 E-value=9.4 Score=24.67 Aligned_cols=13 Identities=23% Similarity=0.414 Sum_probs=8.2
Q ss_pred CCccccccccccc
Q 028116 165 SSCCSICLQDIIV 177 (213)
Q Consensus 165 ~~~C~ICle~~~~ 177 (213)
...||.|-+++..
T Consensus 2 ~f~CP~C~~~~~~ 14 (54)
T PF05605_consen 2 SFTCPYCGKGFSE 14 (54)
T ss_pred CcCCCCCCCccCH
Confidence 3568888775443
No 257
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=31.38 E-value=14 Score=22.07 Aligned_cols=10 Identities=40% Similarity=1.049 Sum_probs=6.3
Q ss_pred CCCCcccCCC
Q 028116 203 HGSCPVCRRD 212 (213)
Q Consensus 203 ~~sCPlCR~~ 212 (213)
...||.|..+
T Consensus 26 ~~~CP~Cg~~ 35 (41)
T smart00834 26 LATCPECGGD 35 (41)
T ss_pred CCCCCCCCCc
Confidence 4468877654
No 258
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=30.98 E-value=16 Score=24.97 Aligned_cols=28 Identities=18% Similarity=0.226 Sum_probs=0.0
Q ss_pred ccccccccchhhhhhhhhHHHHHHHhhh
Q 028116 48 RASDCGVLRGAGLGAIAGAVLSVELLEA 75 (213)
Q Consensus 48 ~~~~~g~~rGa~~GaiaGav~sve~~e~ 75 (213)
+...++++-|+..|+|+|+++++-++=.
T Consensus 4 ~~~~~~vlaavIaG~Vvgll~ailLIlf 31 (64)
T PF01034_consen 4 IFERSEVLAAVIAGGVVGLLFAILLILF 31 (64)
T ss_dssp ----------------------------
T ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677778888888888888876643
No 259
>TIGR00980 3a0801so1tim17 mitochondrial import inner membrane translocase subunit tim17.
Probab=30.78 E-value=47 Score=27.09 Aligned_cols=28 Identities=36% Similarity=0.411 Sum_probs=11.8
Q ss_pred HHHHHHhhhcccccccccchhhhhhhhhHHH
Q 028116 38 TGAITGALAGRASDCGVLRGAGLGAIAGAVL 68 (213)
Q Consensus 38 ~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~ 68 (213)
-|++||++.+.. .| .+-++.+++.|+++
T Consensus 93 AG~~TGa~l~~r--~G-~~a~~~~aa~gg~~ 120 (170)
T TIGR00980 93 SGFLTGAALAVR--GG-PRAMRGSAILGACI 120 (170)
T ss_pred HHHHHHHHHHhc--cC-hHHHHHHHHHHHHH
Confidence 344444444442 22 24454444444443
No 260
>PRK10711 hypothetical protein; Provisional
Probab=30.74 E-value=1.1e+02 Score=26.10 Aligned_cols=59 Identities=22% Similarity=0.184 Sum_probs=35.5
Q ss_pred HHHHHH--HHHHHHHHHHHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhhhc
Q 028116 16 PKFIAG--AISGTLTGLFALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLEAS 76 (213)
Q Consensus 16 ~~~~~~--~~~~~~~~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~s 76 (213)
+.-++| .+.++++-+=++.|+++|...=-+.+. ++-+-||.++|..|-|+---..+|.+
T Consensus 137 s~~iGG~~sLta~~ViitGi~Ga~~g~~llk~~rI--~~~~A~G~alG~aaHaiGTAkA~e~~ 197 (231)
T PRK10711 137 GGSIGGIPAISAVCVIFVGILGAVFGHTLLNAMRI--RTKAARGLAMGTASHALGTARCAELD 197 (231)
T ss_pred HHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHHcCC--CCHHHHHHHHhHhhHHHHHHHHHHcC
Confidence 344444 233333333344455555544344443 44588999999999998887777765
No 261
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=30.46 E-value=26 Score=30.46 Aligned_cols=41 Identities=22% Similarity=0.321 Sum_probs=31.2
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhc--CCCCcc
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIR--HGSCPV 208 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPl 208 (213)
+..|||=...+.. +.+-.+|+|+|-.+=|...+.. .-.||+
T Consensus 176 s~rdPis~~~I~n---PviSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVN---PVISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhc---hhhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 4679998777766 3344469999999999999876 345886
No 262
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=30.35 E-value=38 Score=25.28 Aligned_cols=33 Identities=24% Similarity=0.356 Sum_probs=27.6
Q ss_pred CcccccccccccCceeeecCCCCCcccHhhHHHHH
Q 028116 166 SCCSICLQDIIVGELARSLPHCHHTFHLACVDKWL 200 (213)
Q Consensus 166 ~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL 200 (213)
-.|.||-.++..|+....+++ -..|..|+.+=.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHH
Confidence 469999999999998888875 778999987644
No 263
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=30.32 E-value=33 Score=23.49 Aligned_cols=13 Identities=31% Similarity=0.312 Sum_probs=6.8
Q ss_pred hhHHHHHHHHhhh
Q 028116 34 AGAFTGAITGALA 46 (213)
Q Consensus 34 ~g~~~ga~~ga~~ 46 (213)
.|+++||+++++.
T Consensus 54 ~r~iiGaiI~~i~ 66 (71)
T PF10779_consen 54 WRTIIGAIITAII 66 (71)
T ss_pred HHHHHHHHHHHHH
Confidence 4555555555543
No 264
>PF04829 PT-VENN: Pre-toxin domain with VENN motif; InterPro: IPR006914 This group of proteins, mainly from Neisseria meningitidis, may have haemagglutinin or haemolysin activity. A number of them have a second conserved domain, IPR006915 from INTERPRO, which is found in possible Pseudomonas aeruginosa haemagglutinins []. Filamentous haemagglutinin (FHA) is a major virulence attachment factor produced by certain bacterial species that functions as both a primary adhesin and an immunomodulator. Haemolysin is pore-forming toxin.
Probab=29.41 E-value=36 Score=22.45 Aligned_cols=12 Identities=42% Similarity=0.808 Sum_probs=5.7
Q ss_pred HHHHHHHHhhhc
Q 028116 36 AFTGAITGALAG 47 (213)
Q Consensus 36 ~~~ga~~ga~~g 47 (213)
.++|.++|++.|
T Consensus 18 ~l~ag~ag~~~g 29 (55)
T PF04829_consen 18 QLAAGVAGALAG 29 (55)
T ss_pred HHHHHHHHHHHc
Confidence 344445555544
No 265
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=29.31 E-value=23 Score=24.30 Aligned_cols=19 Identities=47% Similarity=0.751 Sum_probs=12.9
Q ss_pred cccccchhhhhhhhhHHHH
Q 028116 51 DCGVLRGAGLGAIAGAVLS 69 (213)
Q Consensus 51 ~~g~~rGa~~GaiaGav~s 69 (213)
-..||.|+++|+.++++++
T Consensus 11 RR~Flk~lg~~aaa~~aa~ 29 (66)
T TIGR02811 11 RRDLLKGLGVGAAAGAVAA 29 (66)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4578888888777555543
No 266
>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=29.29 E-value=33 Score=25.96 Aligned_cols=27 Identities=15% Similarity=0.370 Sum_probs=17.2
Q ss_pred CcccccccccccCc-eeeecCCCCCccc
Q 028116 166 SCCSICLQDIIVGE-LARSLPHCHHTFH 192 (213)
Q Consensus 166 ~~C~ICle~~~~ge-~v~~Lp~C~H~FH 192 (213)
..||-|..+|.-.+ ..-..|.|+|-+-
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW~ 30 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEWN 30 (109)
T ss_pred CcCCcCCCcceEecCCeeECcccccccc
Confidence 56899988864322 2446666887654
No 267
>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=28.92 E-value=52 Score=23.22 Aligned_cols=25 Identities=32% Similarity=0.732 Sum_probs=21.1
Q ss_pred ccccCceeeecCCCCCcccHhhHHHH
Q 028116 174 DIIVGELARSLPHCHHTFHLACVDKW 199 (213)
Q Consensus 174 ~~~~ge~v~~Lp~C~H~FH~~CI~~W 199 (213)
.+..|+.+...|.|.|.| .+|..++
T Consensus 40 ~~~~G~~v~l~~GCDkt~-~tC~~kF 64 (80)
T PF09356_consen 40 GLAVGDTVTLYPGCDKTF-ATCRAKF 64 (80)
T ss_pred cCCCCCEEEEEeCCCCCH-HHHHHHh
Confidence 466789999999999988 8898775
No 268
>PLN02400 cellulose synthase
Probab=28.80 E-value=41 Score=35.01 Aligned_cols=49 Identities=20% Similarity=0.499 Sum_probs=34.5
Q ss_pred CCCcccccccccc---cCceeeecCCCCCcccHhhHHH-HHhcCCCCcccCCC
Q 028116 164 QSSCCSICLQDII---VGELARSLPHCHHTFHLACVDK-WLIRHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~~---~ge~v~~Lp~C~H~FH~~CI~~-WL~~~~sCPlCR~~ 212 (213)
+...|.||=++.. +||.-.....|+-=.|.+|-+- .=..+++||-||+.
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTr 87 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTR 87 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCc
Confidence 4468999999964 4565555556888899999842 11236689999874
No 269
>PRK09609 hypothetical protein; Provisional
Probab=28.19 E-value=24 Score=31.55 Aligned_cols=19 Identities=32% Similarity=0.515 Sum_probs=9.8
Q ss_pred HhhhHHHHHHHHhhhcccc
Q 028116 32 ALAGAFTGAITGALAGRAS 50 (213)
Q Consensus 32 a~~g~~~ga~~ga~~g~~~ 50 (213)
+++|.+.|++.|++.|..+
T Consensus 48 iI~G~LFGPv~G~ivG~ls 66 (312)
T PRK09609 48 KITGFIFGPIVGFFTGLLS 66 (312)
T ss_pred HHHHHHhchHHHHHHHHHH
Confidence 3455555555555554443
No 270
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=27.82 E-value=22 Score=32.34 Aligned_cols=48 Identities=21% Similarity=0.489 Sum_probs=26.1
Q ss_pred CCCCcccccccccccCceeeecC--CCCCcc--------cHhhHHHHH-----hcCCCCcccCC
Q 028116 163 TQSSCCSICLQDIIVGELARSLP--HCHHTF--------HLACVDKWL-----IRHGSCPVCRR 211 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~v~~Lp--~C~H~F--------H~~CI~~WL-----~~~~sCPlCR~ 211 (213)
..++.||+|-++... =....|. .|+-.| |.+|+..-- .+.+.||.||-
T Consensus 13 dl~ElCPVCGDkVSG-YHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRF 75 (475)
T KOG4218|consen 13 DLGELCPVCGDKVSG-YHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRF 75 (475)
T ss_pred ccccccccccCcccc-ceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhH
Confidence 456889999877442 2233333 244444 334433211 13457999984
No 271
>TIGR03750 conj_TIGR03750 conjugative transfer region protein, TIGR03750 family. Members of this protein family are found occasionally on plasmids. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=27.55 E-value=65 Score=24.44 Aligned_cols=14 Identities=36% Similarity=0.574 Sum_probs=7.3
Q ss_pred hhhhhhhHHHHHHH
Q 028116 59 GLGAIAGAVLSVEL 72 (213)
Q Consensus 59 ~~GaiaGav~sve~ 72 (213)
-.||+.|-+++|-+
T Consensus 52 p~~~lig~~l~v~~ 65 (111)
T TIGR03750 52 PTGALLGPILVVLI 65 (111)
T ss_pred HHHHHHHHHHHHHH
Confidence 34555555555543
No 272
>COG4854 Predicted membrane protein [Function unknown]
Probab=27.26 E-value=92 Score=23.83 Aligned_cols=38 Identities=26% Similarity=0.159 Sum_probs=28.4
Q ss_pred HHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHH
Q 028116 31 FALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVL 68 (213)
Q Consensus 31 ~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~ 68 (213)
|...|-++-+++||+.|.+-|+|=.-=|.+-.++|+.+
T Consensus 7 ~~~~l~~ivm~~GA~~g~a~~sGn~~iav~af~ag~~~ 44 (126)
T COG4854 7 YTKILFAIVMAVGAAVGYAVESGNWFIAVIAFFAGAAL 44 (126)
T ss_pred HHHHHHHHHHHHHHHHheeecCCCeehHHHHHHHHHHH
Confidence 34456666788899999999999877677766677543
No 273
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=27.19 E-value=32 Score=27.52 Aligned_cols=26 Identities=38% Similarity=0.689 Sum_probs=15.7
Q ss_pred Cccccccccc--------ccCceeeecCCCCCcccH
Q 028116 166 SCCSICLQDI--------IVGELARSLPHCHHTFHL 193 (213)
Q Consensus 166 ~~C~ICle~~--------~~ge~v~~Lp~C~H~FH~ 193 (213)
.-| +|.++= +.|+.. ..|.|||+|..
T Consensus 112 VGC-~c~eD~~~V~Wmwl~Kge~~-rc~eCG~~fkL 145 (153)
T KOG3352|consen 112 VGC-GCEEDSHAVVWMWLEKGETQ-RCPECGHYFKL 145 (153)
T ss_pred Eee-cccCCCcceEEEEEEcCCcc-cCCcccceEEe
Confidence 346 777763 234433 46679999864
No 274
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=26.96 E-value=55 Score=33.98 Aligned_cols=49 Identities=16% Similarity=0.394 Sum_probs=35.3
Q ss_pred CCCcccccccccc---cCceeeecCCCCCcccHhhHHHHH-hcCCCCcccCCC
Q 028116 164 QSSCCSICLQDII---VGELARSLPHCHHTFHLACVDKWL-IRHGSCPVCRRD 212 (213)
Q Consensus 164 ~~~~C~ICle~~~---~ge~v~~Lp~C~H~FH~~CI~~WL-~~~~sCPlCR~~ 212 (213)
....|.||=++.. +||.-.....|+--.|.+|.+-=. ..+.+||-|+++
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~ 66 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTR 66 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCc
Confidence 4577999999864 456555555688889999985322 236689999874
No 275
>TIGR01495 ETRAMP Plasmodium ring stage membrane protein ETRAMP. These genes have been shown to be found in the sub-telomeric regions of both P. falciparum and P. yoelii chromosomes.
Probab=26.85 E-value=53 Score=23.70 Aligned_cols=18 Identities=39% Similarity=0.409 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHhhhHHHH
Q 028116 22 AISGTLTGLFALAGAFTG 39 (213)
Q Consensus 22 ~~~~~~~~~~a~~g~~~g 39 (213)
++|++.|++.+++|+.+|
T Consensus 53 ~iS~ias~la~lv~t~~G 70 (85)
T TIGR01495 53 LYSSIASGLALLVGAGVG 70 (85)
T ss_pred ehHHHHHHHHHHHHHHHH
Confidence 577888887777777776
No 276
>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=26.57 E-value=33 Score=32.54 Aligned_cols=16 Identities=31% Similarity=0.603 Sum_probs=11.4
Q ss_pred CCCcccccccccccCc
Q 028116 164 QSSCCSICLQDIIVGE 179 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge 179 (213)
+..-||-||+++...+
T Consensus 25 ~~~yCp~CL~~~p~~e 40 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSSE 40 (483)
T ss_pred ceeECccccccCChhh
Confidence 3456888888877655
No 277
>PF03458 UPF0126: UPF0126 domain; InterPro: IPR005115 This domain is duplicated in bacterial membrane proteins of unknown function and each domain contains three transmembrane helices. The conserved glycines are suggestive of an ion channel.
Probab=26.21 E-value=71 Score=22.44 Aligned_cols=35 Identities=26% Similarity=0.283 Sum_probs=22.3
Q ss_pred HHhhhHHHHHHHHhhhcccccccccchhhhhhhhh
Q 028116 31 FALAGAFTGAITGALAGRASDCGVLRGAGLGAIAG 65 (213)
Q Consensus 31 ~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaG 65 (213)
|=+.|..+-|++|++++...+-+.+=...+|.+++
T Consensus 4 ~D~ig~~~fai~Ga~~A~~~~~d~~g~~~lg~iTa 38 (80)
T PF03458_consen 4 LDAIGLGAFAISGALKALRAGLDIFGAIVLGVITA 38 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence 34567777777788877777666555545554443
No 278
>PF01032 FecCD: FecCD transport family; InterPro: IPR000522 This is a subfamily of bacterial binding-protein-dependent transport systems family, and includes transport system permease proteins involved in the transport across the membrane of several compounds. This entry contains the inner components of this multicomponent transport system.; GO: 0005215 transporter activity, 0016020 membrane; PDB: 4DBL_A 1L7V_B 2QI9_B 2NQ2_A.
Probab=26.06 E-value=2.7e+02 Score=24.60 Aligned_cols=61 Identities=26% Similarity=0.280 Sum_probs=33.2
Q ss_pred cchhHHHHHHHHHHHHHHHHHHh-------------------hhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 11 LFQSIPKFIAGAISGTLTGLFAL-------------------AGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~a~-------------------~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
+..++||++..++.|+.-.+=+. .|+.+|++...+.+ ......+.-..|+.|++++.-
T Consensus 39 ~~~RlPR~l~a~l~G~~La~sG~~lQ~~~rNpLA~P~iLGissgA~lg~~~~~~~~---~~~~~~~~~~~a~iGal~~~~ 115 (311)
T PF01032_consen 39 WDLRLPRILAAILVGAALALSGALLQTLTRNPLADPSILGISSGASLGAVLAILLF---PSLSFYGLPLFAFIGALLALL 115 (311)
T ss_dssp CCTCHHHHHHHHHHHHHHHHHHHHHHHHTT-TT--TTTTTHHHHHHHHHHHHHHCC---TTS-HHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCccccccchHhHHHHHHHHHHHHHh---hhhhhhhHHHHHHHHHHHHHH
Confidence 45688998888777765444332 34444444444433 222234455666667766665
Q ss_pred Hhh
Q 028116 72 LLE 74 (213)
Q Consensus 72 ~~e 74 (213)
+.-
T Consensus 116 lv~ 118 (311)
T PF01032_consen 116 LVY 118 (311)
T ss_dssp HHH
T ss_pred HHh
Confidence 443
No 279
>TIGR00659 conserved hypothetical protein TIGR00659. Members of this small but broadly distibuted (Gram-positive, Gram-negative, and Archaeal) family appear to have multiple transmembrane segments. The function is unknown. A homolog, LrgB of Staphylococcus aureus, in the same small superfamily but in an outgroup to this subfamily, is regulated by LytSR and is suggested to act as a murein hydrolase. Of the three paralogous proteins in B. subtilis, one is a full length member of this family, one lacks the C-terminal 60 residues and has an additional 128 N-terminal residues but branches within the family in a phylogenetic tree, and one is closely related to LrgB and part of the outgroup.
Probab=25.95 E-value=1.5e+02 Score=25.25 Aligned_cols=50 Identities=18% Similarity=0.284 Sum_probs=31.4
Q ss_pred HHHHHHhhhHHHHHHHHhhh--cccccccccchhhhhhhhhHHHHHHHhhhc
Q 028116 27 LTGLFALAGAFTGAITGALA--GRASDCGVLRGAGLGAIAGAVLSVELLEAS 76 (213)
Q Consensus 27 ~~~~~a~~g~~~ga~~ga~~--g~~~~~g~~rGa~~GaiaGav~sve~~e~s 76 (213)
+|.+|.+.-.++|++.|-.. =+--++-+-||.++|..|-|+-.-..+|.+
T Consensus 145 Lta~~vvitGi~Ga~~g~~ll~~~~i~~~~A~GlalG~aaHaiGTa~a~e~~ 196 (226)
T TIGR00659 145 VTAVFVILTGLLGTVFGPMVLRYFRVKNEIARGLLLGTSSHGLGTARCFELD 196 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHhHHHHHHHHHHHHHcC
Confidence 34444444444444444321 112256789999999999999888877765
No 280
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=25.89 E-value=62 Score=26.51 Aligned_cols=19 Identities=21% Similarity=0.322 Sum_probs=9.9
Q ss_pred HHHHHHhhhHhhhhhcchh
Q 028116 95 DFVEDLLRGRFIEEQFTPA 113 (213)
Q Consensus 95 ~~i~~ll~g~~~~e~~~p~ 113 (213)
+.-+.-+-.|+.+.++.|+
T Consensus 115 ~~Ke~eF~~rIkknRvDps 133 (173)
T PF08566_consen 115 DAKEKEFLARIKKNRVDPS 133 (173)
T ss_pred HHHHHHHHHHHHHcCCCcc
Confidence 3334444455666666653
No 281
>PF10247 Romo1: Reactive mitochondrial oxygen species modulator 1; InterPro: IPR018450 The majority of endogenous reactive oxygen species (ROS) in cells are produced by the mitochondrial respiratory chain. An increase or imbalance in ROS alters the intracellular redox homeostasis, triggers DNA damage, and may contribute to cancer development and progression. This entry contains the mitochondrial protein, reactive oxygen species modulator 1 (Romo1), that is responsible for increasing the level of ROS in cells. In various cancer cell lines with elevated levels of ROS there is also an increased abundance of Romo1 []. Increased Romo1 expression can have a number of other affects including: inducing premature senescence of cultured human fibroblasts [, ] and increased resistance to 5-fluorouracil [].
Probab=25.64 E-value=44 Score=23.06 Aligned_cols=12 Identities=33% Similarity=0.598 Sum_probs=4.6
Q ss_pred hhHHHHHHHHhh
Q 028116 34 AGAFTGAITGAL 45 (213)
Q Consensus 34 ~g~~~ga~~ga~ 45 (213)
+|..+|++.|..
T Consensus 17 VG~~~G~l~G~~ 28 (67)
T PF10247_consen 17 VGGAFGALFGTF 28 (67)
T ss_pred HHhhhhhhhhhH
Confidence 333333443333
No 282
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=25.49 E-value=1.4e+02 Score=23.83 Aligned_cols=44 Identities=30% Similarity=0.252 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHhhhcccccccccchh-hhhhhhhHHHHHH
Q 028116 22 AISGTLTGLFALAGAFTGAITGALAGRASDCGVLRGA-GLGAIAGAVLSVE 71 (213)
Q Consensus 22 ~~~~~~~~~~a~~g~~~ga~~ga~~g~~~~~g~~rGa-~~GaiaGav~sve 71 (213)
+.+|+|.-+|=++|-++|+++- .+. |+.... .+|++.|..++.-
T Consensus 75 L~sA~LvYi~PL~~l~v~~~La---~~L---~~~e~~~~~~~~lg~~l~fl 119 (150)
T COG3086 75 LKSALLVYIFPLVGLFLGAILA---QYL---FFSELIVIFGAFLGLALGFL 119 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---HHH---hhhhHHHHHHHHHHHHHHHH
Confidence 5678888899999999998872 222 222232 5666666665544
No 283
>PRK10220 hypothetical protein; Provisional
Probab=25.37 E-value=46 Score=25.20 Aligned_cols=27 Identities=19% Similarity=0.482 Sum_probs=16.0
Q ss_pred CcccccccccccCc-eeeecCCCCCccc
Q 028116 166 SCCSICLQDIIVGE-LARSLPHCHHTFH 192 (213)
Q Consensus 166 ~~C~ICle~~~~ge-~v~~Lp~C~H~FH 192 (213)
..||-|..+|.-.+ .....|.|+|-+-
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~hEW~ 31 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAHEWN 31 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccCcCC
Confidence 56888887764332 2345566777553
No 284
>TIGR00894 2A0114euk Na(+)-dependent inorganic phosphate cotransporter.
Probab=25.35 E-value=77 Score=28.70 Aligned_cols=28 Identities=32% Similarity=0.522 Sum_probs=17.4
Q ss_pred HHHHHHHHHHhhhHHHHHHHHhhhcccc
Q 028116 23 ISGTLTGLFALAGAFTGAITGALAGRAS 50 (213)
Q Consensus 23 ~~~~~~~~~a~~g~~~ga~~ga~~g~~~ 50 (213)
..|...++...+|.+.|.+.+.+.|.-.
T Consensus 393 ~~g~~~g~~~~~~~l~~~i~p~l~g~~~ 420 (465)
T TIGR00894 393 FLGFIKGITGLPGFIGGLIASTLAGNIL 420 (465)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhheee
Confidence 4555566666666666666666666543
No 285
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=25.22 E-value=60 Score=28.52 Aligned_cols=45 Identities=33% Similarity=0.603 Sum_probs=26.5
Q ss_pred CCCcccccccccccCceeeecCCCCC-cccHhhHHHH-HhcCCCCcc
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHH-TFHLACVDKW-LIRHGSCPV 208 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H-~FH~~CI~~W-L~~~~sCPl 208 (213)
.-.-|.||++--..|-.-.-|+.=.- .=|.+|.++| |.-+..||-
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred ceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 34558888876544422222221111 3689999999 455778883
No 286
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.14 E-value=36 Score=25.00 Aligned_cols=12 Identities=25% Similarity=0.791 Sum_probs=10.3
Q ss_pred cccHhhHHHHHh
Q 028116 190 TFHLACVDKWLI 201 (213)
Q Consensus 190 ~FH~~CI~~WL~ 201 (213)
-||.+|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 389999999986
No 287
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=24.83 E-value=13 Score=20.03 Aligned_cols=9 Identities=33% Similarity=0.741 Sum_probs=4.0
Q ss_pred ccccccccc
Q 028116 168 CSICLQDII 176 (213)
Q Consensus 168 C~ICle~~~ 176 (213)
|+-|-.++.
T Consensus 2 Cp~CG~~~~ 10 (23)
T PF13240_consen 2 CPNCGAEIE 10 (23)
T ss_pred CcccCCCCC
Confidence 444444443
No 288
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=24.75 E-value=56 Score=25.59 Aligned_cols=16 Identities=19% Similarity=0.229 Sum_probs=10.1
Q ss_pred CCCcccccccccccCc
Q 028116 164 QSSCCSICLQDIIVGE 179 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge 179 (213)
....||-|-..|...+
T Consensus 98 ~~Y~Cp~C~~~y~~~e 113 (147)
T smart00531 98 AYYKCPNCQSKYTFLE 113 (147)
T ss_pred cEEECcCCCCEeeHHH
Confidence 3455777777766543
No 289
>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=24.59 E-value=27 Score=31.13 Aligned_cols=47 Identities=15% Similarity=0.329 Sum_probs=29.0
Q ss_pred CCCcccccccccccCceeeec---CCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 164 QSSCCSICLQDIIVGELARSL---PHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~L---p~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
....||||=..-..+. ++.. ..=.|.+|.-|-.+|--....||.|-.
T Consensus 183 ~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3468999977632211 1110 112355677788888778888999964
No 290
>PF05767 Pox_A14: Poxvirus virion envelope protein A14; InterPro: IPR008785 This family consists of several Poxvirus virion envelope protein A14-like sequences. A14 is a component of the virion membrane and has been found to be an H1 phosphatase substrate in vivo and in vitro. A14 is hyperphosphorylated on serine residues in the absence of H1 expression [].; GO: 0019031 viral envelope
Probab=24.06 E-value=73 Score=23.31 Aligned_cols=31 Identities=26% Similarity=0.276 Sum_probs=20.8
Q ss_pred CCCccccCCCcchhHHHHHHHHHHHHHHHHHHhh
Q 028116 1 MDDLEFEDPNLFQSIPKFIAGAISGTLTGLFALA 34 (213)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~ 34 (213)
||=++|-..++. ..+++|++-=++.|+||.+
T Consensus 1 Md~~~~~~n~~S---~vli~GiiLL~~aCIfAfi 31 (92)
T PF05767_consen 1 MDIMGFLSNYFS---GVLIGGIILLIAACIFAFI 31 (92)
T ss_pred CcHHHHHHhccc---hHHHHHHHHHHHHHHHHhh
Confidence 455555555544 4578888888888888874
No 291
>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=23.58 E-value=51 Score=21.29 Aligned_cols=10 Identities=40% Similarity=0.929 Sum_probs=6.7
Q ss_pred CCCCcccCCC
Q 028116 203 HGSCPVCRRD 212 (213)
Q Consensus 203 ~~sCPlCR~~ 212 (213)
.-+||+|..+
T Consensus 34 ~w~CP~C~a~ 43 (50)
T cd00730 34 DWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCc
Confidence 4478888753
No 292
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 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 PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=23.54 E-value=69 Score=22.18 Aligned_cols=40 Identities=28% Similarity=0.451 Sum_probs=26.2
Q ss_pred CCCCcccccccccccCce-e---eecC----CCCCcccHhhHHHHHhc
Q 028116 163 TQSSCCSICLQDIIVGEL-A---RSLP----HCHHTFHLACVDKWLIR 202 (213)
Q Consensus 163 ~~~~~C~ICle~~~~ge~-v---~~Lp----~C~H~FH~~CI~~WL~~ 202 (213)
.+...|..|.+.+..|+. + ..-+ .-.+.||..|...+...
T Consensus 5 s~Ra~Ck~C~~~I~kg~lRiG~~~~~~~~~~~~~~W~H~~C~~~~~~~ 52 (82)
T PF00645_consen 5 SGRAKCKGCKKKIAKGELRIGKIVPSPEGDGDIPKWYHWDCFFKKQLR 52 (82)
T ss_dssp SSTEBETTTSCBE-TTSEEEEEEEEETTSSCEEEEEEEHHHHHHTTCC
T ss_pred CCCccCcccCCcCCCCCEEEEEEecccccCCCCCceECccccccchhh
Confidence 345789999999888761 1 1222 12268999999888654
No 293
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=23.18 E-value=1.1e+02 Score=20.12 Aligned_cols=13 Identities=31% Similarity=0.358 Sum_probs=6.1
Q ss_pred HhhhHHHHHHHHh
Q 028116 32 ALAGAFTGAITGA 44 (213)
Q Consensus 32 a~~g~~~ga~~ga 44 (213)
.++|.++|.+++.
T Consensus 28 f~~G~llg~l~~~ 40 (68)
T PF06305_consen 28 FLLGALLGWLLSL 40 (68)
T ss_pred HHHHHHHHHHHHH
Confidence 3345555554443
No 294
>PF04930 FUN14: FUN14 family; InterPro: IPR007014 This is a family of short proteins found in eukaryotes and some archaea. Although the function of these proteins is not known they may contain transmembrane helices.
Probab=23.14 E-value=95 Score=22.62 Aligned_cols=37 Identities=19% Similarity=0.287 Sum_probs=25.8
Q ss_pred hhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhhhc
Q 028116 34 AGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLEAS 76 (213)
Q Consensus 34 ~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~s 76 (213)
.|+++|.++|.+..... =...=++.++++.++.++..
T Consensus 4 ~G~~~G~~~G~~~kK~~------k~~a~~~G~~~l~lq~l~~~ 40 (100)
T PF04930_consen 4 IGSVSGLCAGYAIKKVS------KLAAFLVGGGFLLLQYLASK 40 (100)
T ss_pred hhHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHC
Confidence 46667777776665552 23455688899999999886
No 295
>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=23.12 E-value=48 Score=19.48 Aligned_cols=8 Identities=38% Similarity=1.306 Sum_probs=4.6
Q ss_pred CCCcccCC
Q 028116 204 GSCPVCRR 211 (213)
Q Consensus 204 ~sCPlCR~ 211 (213)
..||+|..
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 35666654
No 296
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=23.08 E-value=61 Score=19.00 Aligned_cols=27 Identities=19% Similarity=0.300 Sum_probs=14.5
Q ss_pred CcccccccccccCc-------eeeecCCCCCccc
Q 028116 166 SCCSICLQDIIVGE-------LARSLPHCHHTFH 192 (213)
Q Consensus 166 ~~C~ICle~~~~ge-------~v~~Lp~C~H~FH 192 (213)
..||-|-..|...+ ....-|+|+|.|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 35777777665432 1134455666653
No 297
>TIGR00808 malonate_madM malonate transporter, MadM subunit. The MSS family includes the monobasic malonate:Na+ symporter of Malonomonas rubra. It consists of two integral membrane proteins, MadL and MadM.The transporter is believed to catalyze the electroneutral reversible uptake of H+-malonate with one Na+, and both subunits have been shown to be essential for activity.
Probab=22.93 E-value=50 Score=28.07 Aligned_cols=15 Identities=40% Similarity=0.742 Sum_probs=8.5
Q ss_pred HHHHHHHhhhccccc
Q 028116 37 FTGAITGALAGRASD 51 (213)
Q Consensus 37 ~~ga~~ga~~g~~~~ 51 (213)
++|++|||..|..+|
T Consensus 149 IVGPVTGaAiGAsS~ 163 (254)
T TIGR00808 149 IVGPVTGAAVGASSE 163 (254)
T ss_pred EecCccchhccCCcc
Confidence 356666666655554
No 298
>TIGR02359 thiW thiW protein. Levels of thiamine pyrophosphate (TPP) or thiamine regulate transcription or translation of a number of thiamine biosynthesis, salvage, or transport genes in a wide range of prokaryotes. The mechanism involves direct binding, with no protein involved,to a structural element called THI found in the untranslated upstream region of thiamine metabolism gene operons. This element is called a riboswitch and is seen also for other metabolites such as FMN and glycine. This protein family consists of proteins identified in operons controlled by the THI riboswitch and designated ThiW. The hydrophobic nature of this protein and reconstructed metabolic background suggests that this protein acts in transport of a thiazole precursor of thiamine.
Probab=22.73 E-value=1.5e+02 Score=23.91 Aligned_cols=36 Identities=31% Similarity=0.467 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHH--HHHHhhhHHHHHHHHhhhcccc
Q 028116 15 IPKFIAGAISGTLT--GLFALAGAFTGAITGALAGRAS 50 (213)
Q Consensus 15 ~~~~~~~~~~~~~~--~~~a~~g~~~ga~~ga~~g~~~ 50 (213)
+...+..+++.++. ..++.-|.+++|+..++.-+.+
T Consensus 52 ~~a~i~~ll~~l~~~g~~~afpg~~~~a~laGliyrk~ 89 (160)
T TIGR02359 52 AVAFIIGLLRNTLGLGTVLAFPGGMPGALLAGLLYRFG 89 (160)
T ss_pred HHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHc
Confidence 33344444444433 3445566666666655544443
No 299
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=22.72 E-value=50 Score=24.96 Aligned_cols=24 Identities=21% Similarity=0.454 Sum_probs=13.8
Q ss_pred CcccccccccccCc-eeeecCCCCC
Q 028116 166 SCCSICLQDIIVGE-LARSLPHCHH 189 (213)
Q Consensus 166 ~~C~ICle~~~~ge-~v~~Lp~C~H 189 (213)
..|+.|-.+|...+ ..-..|.|.|
T Consensus 4 p~cp~c~sEytYed~~~~~cpec~~ 28 (112)
T COG2824 4 PPCPKCNSEYTYEDGGQLICPECAH 28 (112)
T ss_pred CCCCccCCceEEecCceEeCchhcc
Confidence 56899988876543 1233444444
No 300
>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=22.67 E-value=28 Score=32.14 Aligned_cols=49 Identities=27% Similarity=0.547 Sum_probs=0.0
Q ss_pred CCCcccccccccc-----cCc-----------eeeecCCCCCcccHhhHHHHHhc---------CCCCcccCCCC
Q 028116 164 QSSCCSICLQDII-----VGE-----------LARSLPHCHHTFHLACVDKWLIR---------HGSCPVCRRDV 213 (213)
Q Consensus 164 ~~~~C~ICle~~~-----~ge-----------~v~~Lp~C~H~FH~~CI~~WL~~---------~~sCPlCR~~v 213 (213)
...+||+|++.=. -|. .-.--| |||+--.....-|-+. +..||.|-.++
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L 400 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPL 400 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcc
Confidence 4788999996521 111 123467 9999999999999652 35799997653
No 301
>PF09719 C_GCAxxG_C_C: Putative redox-active protein (C_GCAxxG_C_C); InterPro: IPR010181 This entry represents a putative redox-active protein of about 140 residues, with four perfectly conserved Cys residues. It includes a CGAXXG motif. Most members are found within one or two loci of transporter or oxidoreductase genes. A member from Geobacter sulfurreducens, located in a molybdenum transporter operon, has a TAT (twin-arginine translocation) signal sequence for Sec-independent transport across the plasma membrane, a hallmark of bound prosthetic groups such as FeS clusters.; PDB: 1H21_A.
Probab=22.64 E-value=87 Score=23.29 Aligned_cols=33 Identities=27% Similarity=0.406 Sum_probs=18.3
Q ss_pred HHHhhhccccccccc-chhhhhhhhhHHHHHHHhhh
Q 028116 41 ITGALAGRASDCGVL-RGAGLGAIAGAVLSVELLEA 75 (213)
Q Consensus 41 ~~ga~~g~~~~~g~~-rGa~~GaiaGav~sve~~e~ 75 (213)
++-+..|+. .|+- .|..-||++||+..+-++-.
T Consensus 22 ~~~~a~gfg--gG~g~~g~~CGAl~Ga~~~lgl~~g 55 (120)
T PF09719_consen 22 AIRMATGFG--GGMGGSGGTCGALSGAVMALGLVYG 55 (120)
T ss_dssp -GGGGGGGT--TTTTT---B-HHHHHHHHHHHHHS-
T ss_pred HHHHHHhhC--CCcCCCCCcccCcHHHHHHHHHHcC
Confidence 444555554 3443 67788999999999887543
No 302
>PF14353 CpXC: CpXC protein
Probab=22.64 E-value=51 Score=24.92 Aligned_cols=12 Identities=17% Similarity=0.468 Sum_probs=7.9
Q ss_pred Cccccccccccc
Q 028116 166 SCCSICLQDIIV 177 (213)
Q Consensus 166 ~~C~ICle~~~~ 177 (213)
.+||-|...|..
T Consensus 2 itCP~C~~~~~~ 13 (128)
T PF14353_consen 2 ITCPHCGHEFEF 13 (128)
T ss_pred cCCCCCCCeeEE
Confidence 467777776653
No 303
>COG4214 XylH ABC-type xylose transport system, permease component [Carbohydrate transport and metabolism]
Probab=22.59 E-value=1.2e+02 Score=27.80 Aligned_cols=34 Identities=29% Similarity=0.466 Sum_probs=16.8
Q ss_pred HHHHHHhhhcccccccccchhhhhhhhhHHHHHHHhhhc
Q 028116 38 TGAITGALAGRASDCGVLRGAGLGAIAGAVLSVELLEAS 76 (213)
Q Consensus 38 ~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve~~e~s 76 (213)
+=+|.-+.+|=||-.|- +|-+.||++.--++.+-
T Consensus 325 LdaIAA~fIGGtSlaGG-----vGtv~GAviGalIM~sl 358 (394)
T COG4214 325 LDAIAACFIGGTSLAGG-----VGTVAGAVIGALIMGSL 358 (394)
T ss_pred HHHHHHHHhccccccCC-----cchHHHHHHHHHHHHHH
Confidence 33455666666665542 34444444444444443
No 304
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=22.57 E-value=48 Score=28.52 Aligned_cols=20 Identities=25% Similarity=0.700 Sum_probs=11.8
Q ss_pred HhhHHHHHhcCCCCcccCCC
Q 028116 193 LACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 193 ~~CI~~WL~~~~sCPlCR~~ 212 (213)
.+|-.+--+.-+.||+|+..
T Consensus 253 lsChqqIHRNAPiCPlCKaK 272 (286)
T KOG4451|consen 253 LSCHQQIHRNAPICPLCKAK 272 (286)
T ss_pred HHHHHHHhcCCCCCcchhhc
Confidence 33433333446789999863
No 305
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=22.57 E-value=16 Score=19.99 Aligned_cols=13 Identities=23% Similarity=0.447 Sum_probs=8.8
Q ss_pred CcccccccccccC
Q 028116 166 SCCSICLQDIIVG 178 (213)
Q Consensus 166 ~~C~ICle~~~~g 178 (213)
..|++|-..|...
T Consensus 3 ~~C~~CgR~F~~~ 15 (25)
T PF13913_consen 3 VPCPICGRKFNPD 15 (25)
T ss_pred CcCCCCCCEECHH
Confidence 4677777777554
No 306
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=22.46 E-value=1.6e+02 Score=21.83 Aligned_cols=20 Identities=25% Similarity=0.257 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHHHHh
Q 028116 14 SIPKFIAGAISGTLTGLFAL 33 (213)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~a~ 33 (213)
..+.++.|++..++-.+||+
T Consensus 23 ~w~vi~~gilillLllifav 42 (98)
T COG5416 23 QWTVIIVGILILLLLLIFAV 42 (98)
T ss_pred eeeHHHHHHHHHHHHHHHHH
Confidence 34567777888888888887
No 307
>PRK15406 oligopeptide ABC transporter permease OppC; Provisional
Probab=22.42 E-value=1.5e+02 Score=26.08 Aligned_cols=37 Identities=22% Similarity=0.394 Sum_probs=22.2
Q ss_pred hhHHHHHHHHHHHHHHHHHH-hhhHHHHHHHHhhhccc
Q 028116 13 QSIPKFIAGAISGTLTGLFA-LAGAFTGAITGALAGRA 49 (213)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~a-~~g~~~ga~~ga~~g~~ 49 (213)
+.++|++.+.-..+..++.| +...++|.+.|.++|+.
T Consensus 92 Dv~sr~l~G~r~SL~i~l~a~~l~~~iGi~lG~~ag~~ 129 (302)
T PRK15406 92 DLLVRVAIGGRISLMVGVAAALVAVVVGTLYGSLSGYL 129 (302)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46788877754444333333 34566677777777764
No 308
>PRK02870 heat shock protein HtpX; Provisional
Probab=22.41 E-value=1.5e+02 Score=26.77 Aligned_cols=42 Identities=26% Similarity=0.320 Sum_probs=28.5
Q ss_pred CCccccCCCcchhHHH-HHHH-HHHHHHHHHHHhhhHHHHHHHH
Q 028116 2 DDLEFEDPNLFQSIPK-FIAG-AISGTLTGLFALAGAFTGAITG 43 (213)
Q Consensus 2 ~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~~~a~~g~~~ga~~g 43 (213)
||++-+..-|-....+ .++. ++-+.++.+|+++|.++|.+.|
T Consensus 4 ~~~~~~~~~~~~~i~~n~~kt~~l~~~~~~l~~~~g~~~~~~~~ 47 (336)
T PRK02870 4 DDLEAGSVDWRKVIRRNRLKTRAVIATYLAIFLFIGLLVDAIRI 47 (336)
T ss_pred hhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Confidence 5666565555555444 2222 7788899999999999986554
No 309
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=22.33 E-value=47 Score=32.66 Aligned_cols=26 Identities=35% Similarity=0.928 Sum_probs=20.9
Q ss_pred CCCCcccHhhHHHHHhcC-----CCCcccCC
Q 028116 186 HCHHTFHLACVDKWLIRH-----GSCPVCRR 211 (213)
Q Consensus 186 ~C~H~FH~~CI~~WL~~~-----~sCPlCR~ 211 (213)
.|+-.||..|+..|+..- -+||-||.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 488999999999998642 25998885
No 310
>smart00794 AgrD Staphylococcal AgrD protein. This family consists of several AgrD proteins from many Staphylococcus species. The agr locus was initially described in Staphylococcus aureus as an element controlling the production of exoproteins implicated in virulence. Its pattern of action has been shown to be complex, upregulating certain extracellular toxins and enzymes expressed post-exponentially and repressing some exponential-phase surface components. AgrD encodes the precursor of the autoinducing peptide (AIP).The AIP derived from AgrD by the action of AgrB interacts with AgrC in the membrane to activate AgrA, which upregulates transcription both from promoter P2, amplifying the response, and from P3, initiating the production of a novel effector: RNAIII. In S. aureus, delta-hemolysin is the only translation product of RNA III and is not involved in the regulatory functions of the transcript, which is therefore the primary agent for modulating the expression of other operons con
Probab=22.29 E-value=99 Score=19.66 Aligned_cols=21 Identities=24% Similarity=0.283 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHhhhHHHHH
Q 028116 20 AGAISGTLTGLFALAGAFTGA 40 (213)
Q Consensus 20 ~~~~~~~~~~~~a~~g~~~ga 40 (213)
-+.+.-.+|.+|...|.+.|+
T Consensus 4 ~n~~~~~~t~~f~~IG~~a~~ 24 (45)
T smart00794 4 LNLIFKLFTKFFESIGNVAGY 24 (45)
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 455666778888877766543
No 311
>KOG0768 consensus Mitochondrial carrier protein PET8 [Energy production and conversion]
Probab=22.27 E-value=43 Score=30.11 Aligned_cols=22 Identities=32% Similarity=0.416 Sum_probs=18.4
Q ss_pred ccccccchhhhhhhhhHHHHHH
Q 028116 50 SDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 50 ~~~g~~rGa~~GaiaGav~sve 71 (213)
.|-.=+.+|+.||+||++.+.-
T Consensus 223 ~e~~~~e~a~~Ga~AG~itA~l 244 (323)
T KOG0768|consen 223 RELEPLEGALCGALAGGITAAL 244 (323)
T ss_pred cccCCHHHHHHHHHhhhHHhhc
Confidence 4666688999999999999864
No 312
>COG4779 FepG ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]
Probab=22.10 E-value=89 Score=27.99 Aligned_cols=14 Identities=43% Similarity=0.567 Sum_probs=6.9
Q ss_pred hhhhhhhh-HHHHHH
Q 028116 58 AGLGAIAG-AVLSVE 71 (213)
Q Consensus 58 a~~GaiaG-av~sve 71 (213)
.+++|++| .++++.
T Consensus 133 ~~~aAi~GGi~TA~a 147 (346)
T COG4779 133 IALAAIAGGIVTALA 147 (346)
T ss_pred HHHHHHHhhHHHHHH
Confidence 34555555 444444
No 313
>TIGR00980 3a0801so1tim17 mitochondrial import inner membrane translocase subunit tim17.
Probab=21.81 E-value=1.4e+02 Score=24.38 Aligned_cols=18 Identities=22% Similarity=0.183 Sum_probs=7.9
Q ss_pred ccccchhhhhhhhhHHHH
Q 028116 52 CGVLRGAGLGAIAGAVLS 69 (213)
Q Consensus 52 ~g~~rGa~~GaiaGav~s 69 (213)
.+.+-.+.-|+++||+++
T Consensus 85 eD~~NsiiAG~~TGa~l~ 102 (170)
T TIGR00980 85 EDPWNSIISGFLTGAALA 102 (170)
T ss_pred cchHHHHHHHHHHHHHHH
Confidence 333333444444444444
No 314
>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=21.80 E-value=56 Score=27.92 Aligned_cols=21 Identities=19% Similarity=0.558 Sum_probs=12.8
Q ss_pred cHhhHHHHHhcCCCCcccCCC
Q 028116 192 HLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 192 H~~CI~~WL~~~~sCPlCR~~ 212 (213)
|..|-..-=+.-+.||+|+..
T Consensus 197 C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hHhHHHHHhcCCCCCcccccc
Confidence 445544433345689999863
No 315
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=21.75 E-value=37 Score=30.15 Aligned_cols=33 Identities=30% Similarity=0.520 Sum_probs=25.9
Q ss_pred CCCcccccccccccCceeeecCCCCCcccHhhHH
Q 028116 164 QSSCCSICLQDIIVGELARSLPHCHHTFHLACVD 197 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~ 197 (213)
+-..|.||...-.+.|.+-.-- |..-||.-|+.
T Consensus 313 ~C~lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVG 345 (381)
T KOG1512|consen 313 SCELCRICLGPVIESEHLFCDV-CDRGPHTLCVG 345 (381)
T ss_pred ccHhhhccCCcccchheecccc-ccCCCCccccc
Confidence 4567999999988877776654 99889988864
No 316
>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=21.60 E-value=56 Score=23.89 Aligned_cols=36 Identities=28% Similarity=0.664 Sum_probs=26.8
Q ss_pred CCcccccccccccCceeeecCCCCCcccHhhHHHHHhcCCCCcccCCCC
Q 028116 165 SSCCSICLQDIIVGELARSLPHCHHTFHLACVDKWLIRHGSCPVCRRDV 213 (213)
Q Consensus 165 ~~~C~ICle~~~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 213 (213)
...|-||-+.... =+|.||..|--+ +..|.+|-+.|
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CAYk----kGiCamCGKki 79 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCAYK----KGICAMCGKKI 79 (90)
T ss_pred Ccccccccccccc---------CCCccChhhhcc----cCcccccCCee
Confidence 5689999876443 478899999543 77899997653
No 317
>KOG4608 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.52 E-value=19 Score=31.10 Aligned_cols=14 Identities=43% Similarity=0.681 Sum_probs=5.9
Q ss_pred hhhhhhhhhHHHHH
Q 028116 57 GAGLGAIAGAVLSV 70 (213)
Q Consensus 57 Ga~~GaiaGav~sv 70 (213)
|+.+|+..|+++-.
T Consensus 191 G~~lG~tv~~~l~l 204 (270)
T KOG4608|consen 191 GALLGTTVGGLLML 204 (270)
T ss_pred ehhhcchHHHHHHH
Confidence 44444444444433
No 318
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=21.44 E-value=34 Score=30.59 Aligned_cols=47 Identities=15% Similarity=0.391 Sum_probs=29.7
Q ss_pred CCCcccccccccccCceeee--cCCCCCcccHhhHHHHHhcCCCCcccCC
Q 028116 164 QSSCCSICLQDIIVGELARS--LPHCHHTFHLACVDKWLIRHGSCPVCRR 211 (213)
Q Consensus 164 ~~~~C~ICle~~~~ge~v~~--Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 211 (213)
....||||=..-... .++. -..=.|.+|.-|-..|--....||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 568899997663221 0110 0112466677788888888888999964
No 319
>PRK15021 microcin C ABC transporter permease; Provisional
Probab=21.44 E-value=1.8e+02 Score=26.22 Aligned_cols=37 Identities=27% Similarity=0.512 Sum_probs=23.1
Q ss_pred hhHHHHHHHHHHHHHHHH-HHhhhHHHHHHHHhhhccc
Q 028116 13 QSIPKFIAGAISGTLTGL-FALAGAFTGAITGALAGRA 49 (213)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~-~a~~g~~~ga~~ga~~g~~ 49 (213)
+.++|++.+.-..+..++ -++...++|.++|+++|+.
T Consensus 131 DV~srll~G~r~SL~l~l~a~~is~iiGi~lG~iag~~ 168 (341)
T PRK15021 131 DVLARILYGTRISVLFGLMLTLCSSVMGVLAGALQGYY 168 (341)
T ss_pred cHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 457777777544443333 3345667777777777766
No 320
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.22 E-value=77 Score=22.32 Aligned_cols=43 Identities=28% Similarity=0.597 Sum_probs=26.7
Q ss_pred cccccccccccCcee-eecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 167 CCSICLQDIIVGELA-RSLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 167 ~C~ICle~~~~ge~v-~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
-|--|-.++.++..- ++.. =.|.|+.+|...- -+..||.|-.+
T Consensus 7 nCECCDrDLpp~s~dA~ICt-fEcTFCadCae~~--l~g~CPnCGGe 50 (84)
T COG3813 7 NCECCDRDLPPDSTDARICT-FECTFCADCAENR--LHGLCPNCGGE 50 (84)
T ss_pred CCcccCCCCCCCCCceeEEE-EeeehhHhHHHHh--hcCcCCCCCch
Confidence 355566666554322 2221 3589999998863 47889999543
No 321
>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=21.12 E-value=44 Score=20.02 Aligned_cols=28 Identities=21% Similarity=0.564 Sum_probs=16.3
Q ss_pred ecCCCCCcccHhhHHHHHhcCCCCcccCCC
Q 028116 183 SLPHCHHTFHLACVDKWLIRHGSCPVCRRD 212 (213)
Q Consensus 183 ~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 212 (213)
.-|+||++||..=--+ +....|..|..+
T Consensus 3 ~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~ 30 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPP--KVEGVCDNCGGE 30 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEB
T ss_pred CcCCCCCccccccCCC--CCCCccCCCCCe
Confidence 4467999999542111 234567777543
No 322
>PRK12821 aspartyl/glutamyl-tRNA amidotransferase subunit C-like protein; Provisional
Probab=20.98 E-value=74 Score=30.05 Aligned_cols=21 Identities=24% Similarity=0.499 Sum_probs=17.4
Q ss_pred HHhhhHHHHHHHHhhhccccc
Q 028116 31 FALAGAFTGAITGALAGRASD 51 (213)
Q Consensus 31 ~a~~g~~~ga~~ga~~g~~~~ 51 (213)
-+++|.+.|++.|++.|..+|
T Consensus 102 i~l~G~LFGP~~G~l~g~lsD 122 (477)
T PRK12821 102 VKISGLLFGPIIGIFSAATID 122 (477)
T ss_pred HHHHHHHhhhHHHHHHHHHHH
Confidence 467888999999988888876
No 323
>PRK04972 putative transporter; Provisional
Probab=20.98 E-value=98 Score=29.84 Aligned_cols=39 Identities=23% Similarity=0.221 Sum_probs=19.6
Q ss_pred HHhhhHHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 31 FALAGAFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 31 ~a~~g~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
++++=++++.++..+.++. -|+=-|...|++|||.++=-
T Consensus 95 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~G~~aGa~T~tp 133 (558)
T PRK04972 95 LALVMVGSALVIALGLGKL--FGWDIGLTAGMLAGSMTSTP 133 (558)
T ss_pred HHHHHHHHHHHHHHHHHHH--hCCCHHHHHHHhhccccCcH
Confidence 3333344444444443333 23335677777777776533
No 324
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=20.89 E-value=1.1e+02 Score=26.04 Aligned_cols=18 Identities=11% Similarity=0.110 Sum_probs=8.4
Q ss_pred cchhhhhhhhhHHHHHHH
Q 028116 55 LRGAGLGAIAGAVLSVEL 72 (213)
Q Consensus 55 ~rGa~~GaiaGav~sve~ 72 (213)
+-...+|...|.++++-+
T Consensus 53 ~~~~i~gi~~g~l~am~v 70 (224)
T PF13829_consen 53 WYWLIIGILLGLLAAMIV 70 (224)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444445555555443
No 325
>COG1079 Uncharacterized ABC-type transport system, permease component [General function prediction only]
Probab=20.77 E-value=2.5e+02 Score=25.12 Aligned_cols=55 Identities=24% Similarity=0.308 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHhhh-----------------HHHHHHHHhhhcccccccccchhhhhhhhhHHHHHH
Q 028116 16 PKFIAGAISGTLTGLFALAG-----------------AFTGAITGALAGRASDCGVLRGAGLGAIAGAVLSVE 71 (213)
Q Consensus 16 ~~~~~~~~~~~~~~~~a~~g-----------------~~~ga~~ga~~g~~~~~g~~rGa~~GaiaGav~sve 71 (213)
..++...+..+.-.+||..| .++||++|++.-+.|.+ ..=|...|+.+|++++.-
T Consensus 8 ~~~l~~~l~~atPLllaaLG~l~sERsGVlNIglEG~M~~gAf~~~~~~~~t~s-pw~gl~~a~l~g~l~~ll 79 (304)
T COG1079 8 VAILASILRAATPLLLAALGGLFSERSGVLNIGLEGIMLLGAFSGALFAYGTGS-PWLGLLAAALVGALFGLL 79 (304)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhceeeechhhHHHHHHHHHHHHHHcccc-HHHHHHHHHHHHHHHHHH
Confidence 34455555555556666633 56788888777554433 344555555566555543
No 326
>PF11990 DUF3487: Protein of unknown function (DUF3487); InterPro: IPR021877 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 121 to 136 amino acids in length. This protein has a conserved RLN sequence motif.
Probab=20.68 E-value=80 Score=24.22 Aligned_cols=13 Identities=23% Similarity=0.399 Sum_probs=5.3
Q ss_pred hhHHHHHHHHhhh
Q 028116 34 AGAFTGAITGALA 46 (213)
Q Consensus 34 ~g~~~ga~~ga~~ 46 (213)
+|+++|.++|+..
T Consensus 32 ~~~~~g~~~gl~l 44 (121)
T PF11990_consen 32 VGFVAGLVVGLPL 44 (121)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444433
No 327
>PF10821 DUF2567: Protein of unknown function (DUF2567); InterPro: IPR021213 This is a bacterial family of proteins with unknown function.
Probab=20.68 E-value=1.2e+02 Score=24.66 Aligned_cols=44 Identities=20% Similarity=0.298 Sum_probs=31.3
Q ss_pred HHHHhhhHHHHHHHHhhhccccc-c--cccchhhhhhhhhHHHHHHH
Q 028116 29 GLFALAGAFTGAITGALAGRASD-C--GVLRGAGLGAIAGAVLSVEL 72 (213)
Q Consensus 29 ~~~a~~g~~~ga~~ga~~g~~~~-~--g~~rGa~~GaiaGav~sve~ 72 (213)
++|...+.++|.+++...=+... . .++=+..+|.+.|+.++.++
T Consensus 49 a~f~~l~lv~Gvvaav~~W~~R~~RGP~~~~~l~~Gsv~aa~lA~~v 95 (167)
T PF10821_consen 49 ALFVLLGLVLGVVAAVAVWLWRRRRGPVMVLALAVGSVAAAALAARV 95 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHH
Confidence 56667777777777776655443 2 34667889999999988863
No 328
>PF15353 HECA: Headcase protein family homologue
Probab=20.36 E-value=59 Score=24.50 Aligned_cols=15 Identities=33% Similarity=0.895 Sum_probs=13.0
Q ss_pred cCCCCCcccHhhHHHH
Q 028116 184 LPHCHHTFHLACVDKW 199 (213)
Q Consensus 184 Lp~C~H~FH~~CI~~W 199 (213)
-| .++..|..|.++|
T Consensus 38 Cp-~~~~MH~~CF~~w 52 (107)
T PF15353_consen 38 CP-FGQYMHRECFEKW 52 (107)
T ss_pred CC-CCCchHHHHHHHH
Confidence 44 5899999999999
No 329
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=20.11 E-value=68 Score=21.63 Aligned_cols=9 Identities=22% Similarity=0.755 Sum_probs=4.6
Q ss_pred ecCCCCCcc
Q 028116 183 SLPHCHHTF 191 (213)
Q Consensus 183 ~Lp~C~H~F 191 (213)
+.|+|+|.|
T Consensus 55 ~Cp~c~r~Y 63 (68)
T PF03966_consen 55 ICPECGREY 63 (68)
T ss_dssp EETTTTEEE
T ss_pred EcCCCCCEE
Confidence 344566554
No 330
>TIGR02865 spore_II_E stage II sporulation protein E. Stage II sporulation protein E (SpoIIE) is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation. By means of it protein phosphatase activity, located in the C-terminal region, it activates sigma-F. All proteins that score above the trusted cutoff to this model are found in endospore-forming Gram-positive bacteria. Surprisingly, a sequence from the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis is homologous, and scores between the trusted and noise cutoffs.
Probab=20.09 E-value=2.3e+02 Score=28.47 Aligned_cols=8 Identities=13% Similarity=0.289 Sum_probs=4.2
Q ss_pred Cccccccc
Q 028116 166 SCCSICLQ 173 (213)
Q Consensus 166 ~~C~ICle 173 (213)
..|..|++
T Consensus 362 ~~~~~CW~ 369 (764)
T TIGR02865 362 NMKHRCWK 369 (764)
T ss_pred CCCchhhC
Confidence 44556654
Done!