Query psy2696
Match_columns 180
No_of_seqs 158 out of 1953
Neff 9.2
Searched_HMMs 46136
Date Fri Aug 16 22:52:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2696.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2696hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4367|consensus 99.5 8.5E-14 1.8E-18 111.4 10.1 96 34-129 1-183 (699)
2 PF15227 zf-C3HC4_4: zinc fing 99.5 2.6E-14 5.6E-19 79.9 2.3 39 40-78 1-42 (42)
3 KOG2177|consensus 99.4 1E-12 2.2E-17 103.5 10.1 94 29-129 5-104 (386)
4 TIGR00599 rad18 DNA repair pro 99.3 2.7E-12 5.9E-17 103.8 5.2 72 29-105 18-89 (397)
5 KOG0287|consensus 99.2 3.6E-12 7.8E-17 99.1 2.5 71 29-104 15-85 (442)
6 smart00504 Ubox Modified RING 99.2 9.6E-12 2.1E-16 75.9 3.8 61 37-102 1-61 (63)
7 PF14835 zf-RING_6: zf-RING of 99.2 1.2E-11 2.6E-16 73.8 2.0 61 34-101 4-65 (65)
8 PF13923 zf-C3HC4_2: Zinc fing 99.1 1.6E-11 3.6E-16 67.6 1.7 38 40-78 1-39 (39)
9 PLN03208 E3 ubiquitin-protein 99.1 4.4E-11 9.4E-16 87.3 3.9 54 33-86 14-82 (193)
10 PF00097 zf-C3HC4: Zinc finger 99.1 3.3E-11 7.2E-16 67.1 2.1 39 40-78 1-41 (41)
11 PF04564 U-box: U-box domain; 99.1 1.1E-10 2.5E-15 73.2 3.3 67 36-106 3-69 (73)
12 PF13445 zf-RING_UBOX: RING-ty 99.1 3.5E-11 7.6E-16 67.2 0.4 36 40-76 1-43 (43)
13 PF13920 zf-C3HC4_3: Zinc fing 99.0 1.6E-10 3.5E-15 67.2 1.9 47 36-83 1-48 (50)
14 PF14634 zf-RING_5: zinc-RING 98.9 7E-10 1.5E-14 62.7 2.7 41 39-80 1-44 (44)
15 PF13639 zf-RING_2: Ring finge 98.9 3.3E-10 7.1E-15 64.1 0.1 40 39-79 2-44 (44)
16 COG5432 RAD18 RING-finger-cont 98.9 1.3E-09 2.9E-14 83.4 3.4 69 30-103 18-86 (391)
17 cd00162 RING RING-finger (Real 98.9 1.3E-09 2.9E-14 61.3 2.0 43 39-81 1-44 (45)
18 smart00184 RING Ring finger. E 98.8 3.3E-09 7.1E-14 57.6 2.0 39 40-78 1-39 (39)
19 PHA02929 N1R/p28-like protein; 98.7 7.6E-09 1.6E-13 78.6 2.7 48 35-83 172-227 (238)
20 KOG4185|consensus 98.7 2E-07 4.2E-12 73.8 9.9 68 37-104 3-77 (296)
21 PHA02926 zinc finger-like prot 98.6 2E-08 4.3E-13 74.5 2.3 50 34-83 167-230 (242)
22 TIGR00570 cdk7 CDK-activating 98.6 1.3E-06 2.8E-11 68.5 12.4 50 37-86 3-57 (309)
23 KOG2164|consensus 98.6 1.7E-08 3.6E-13 82.9 1.6 50 37-86 186-239 (513)
24 KOG0317|consensus 98.6 5.8E-08 1.3E-12 74.5 3.9 55 31-86 233-287 (293)
25 KOG0320|consensus 98.6 2.1E-08 4.6E-13 71.7 1.4 51 35-86 129-181 (187)
26 KOG0823|consensus 98.6 3.1E-08 6.7E-13 73.9 2.2 52 34-85 44-97 (230)
27 KOG2660|consensus 98.5 5.8E-08 1.3E-12 75.8 2.0 73 31-104 9-82 (331)
28 COG5574 PEX10 RING-finger-cont 98.3 3.6E-07 7.8E-12 69.4 2.9 52 35-86 213-265 (271)
29 KOG0804|consensus 98.3 5.8E-06 1.3E-10 67.2 9.8 51 30-83 168-222 (493)
30 PF12678 zf-rbx1: RING-H2 zinc 98.3 7.4E-07 1.6E-11 55.8 2.8 40 39-79 21-73 (73)
31 KOG4628|consensus 98.2 4.3E-07 9.2E-12 72.3 1.9 49 38-86 230-281 (348)
32 KOG0978|consensus 98.1 4.4E-07 9.6E-12 77.9 0.0 54 33-86 639-692 (698)
33 KOG2879|consensus 98.1 3.8E-06 8.3E-11 64.2 3.5 54 30-83 232-287 (298)
34 COG5540 RING-finger-containing 98.0 2E-06 4.2E-11 66.7 1.3 48 37-84 323-373 (374)
35 KOG0311|consensus 98.0 5.8E-07 1.3E-11 70.9 -2.2 55 32-86 38-93 (381)
36 KOG0824|consensus 97.9 5.1E-06 1.1E-10 64.4 2.0 49 37-85 7-55 (324)
37 COG5243 HRD1 HRD ubiquitin lig 97.8 9.7E-06 2.1E-10 64.5 2.4 51 35-86 285-348 (491)
38 COG5152 Uncharacterized conser 97.7 1.5E-05 3.3E-10 58.2 1.6 47 37-84 196-242 (259)
39 KOG0802|consensus 97.6 1.6E-05 3.5E-10 68.0 0.6 49 34-83 288-341 (543)
40 KOG4159|consensus 97.6 2.9E-05 6.4E-10 63.4 1.8 54 31-85 78-131 (398)
41 COG5222 Uncharacterized conser 97.6 6.7E-05 1.5E-09 58.2 3.5 45 38-82 275-320 (427)
42 KOG0297|consensus 97.6 9.9E-05 2.2E-09 60.7 4.6 55 31-86 15-70 (391)
43 PF11789 zf-Nse: Zinc-finger o 97.5 5.4E-05 1.2E-09 44.9 1.7 43 35-77 9-53 (57)
44 KOG1039|consensus 97.5 4.1E-05 9E-10 61.4 1.5 51 35-85 159-223 (344)
45 PF12861 zf-Apc11: Anaphase-pr 97.5 9.4E-05 2E-09 47.1 2.6 48 37-84 21-83 (85)
46 KOG1002|consensus 97.5 0.00033 7.2E-09 58.4 6.4 61 26-86 525-589 (791)
47 KOG1813|consensus 97.4 8.1E-05 1.8E-09 57.7 2.3 47 37-84 241-287 (313)
48 KOG0825|consensus 97.4 8.3E-05 1.8E-09 64.4 2.1 46 37-83 123-171 (1134)
49 KOG0827|consensus 97.2 0.00033 7.1E-09 56.3 3.7 49 38-86 5-59 (465)
50 PF14447 Prok-RING_4: Prokaryo 97.2 0.00023 5E-09 41.3 1.8 47 36-85 6-52 (55)
51 KOG1785|consensus 97.2 0.00014 3.1E-09 58.6 1.3 49 38-86 370-419 (563)
52 KOG1734|consensus 97.2 0.00014 3E-09 55.7 0.9 51 36-86 223-284 (328)
53 KOG4739|consensus 97.0 0.012 2.6E-07 44.7 10.1 54 37-93 3-58 (233)
54 KOG4172|consensus 97.0 9.4E-05 2E-09 42.7 -0.9 46 38-83 8-54 (62)
55 KOG1814|consensus 97.0 0.0058 1.3E-07 49.7 8.3 49 34-82 181-239 (445)
56 PF14570 zf-RING_4: RING/Ubox 96.7 0.0011 2.3E-08 37.7 1.9 43 40-82 1-47 (48)
57 smart00502 BBC B-Box C-termina 96.7 0.012 2.6E-07 40.1 7.7 50 131-180 19-68 (127)
58 smart00744 RINGv The RING-vari 96.7 0.0012 2.6E-08 37.9 2.1 41 39-79 1-49 (49)
59 KOG1645|consensus 96.7 0.0039 8.5E-08 50.6 5.5 50 37-86 4-59 (463)
60 KOG0828|consensus 96.6 0.0012 2.5E-08 54.8 2.0 52 32-83 566-634 (636)
61 KOG3161|consensus 96.6 0.00075 1.6E-08 57.5 0.7 67 32-101 6-76 (861)
62 PF11793 FANCL_C: FANCL C-term 96.4 0.0011 2.4E-08 41.1 0.6 49 37-85 2-68 (70)
63 KOG4265|consensus 96.2 0.004 8.7E-08 49.7 2.7 48 35-83 288-336 (349)
64 KOG2817|consensus 96.1 0.0028 6.1E-08 51.2 1.6 51 34-84 331-386 (394)
65 PF04641 Rtf2: Rtf2 RING-finge 96.0 0.012 2.7E-07 45.8 4.6 55 32-88 108-166 (260)
66 KOG3800|consensus 95.8 0.0096 2.1E-07 46.3 3.3 48 39-86 2-54 (300)
67 KOG1941|consensus 95.7 0.003 6.5E-08 51.0 0.1 44 37-80 365-413 (518)
68 KOG4275|consensus 95.5 0.0029 6.2E-08 49.2 -0.7 44 34-82 297-341 (350)
69 KOG1493|consensus 95.4 0.0059 1.3E-07 37.8 0.6 46 39-84 22-82 (84)
70 KOG1571|consensus 95.1 0.009 1.9E-07 47.8 1.1 49 32-84 300-348 (355)
71 KOG3002|consensus 95.1 0.045 9.9E-07 43.4 5.0 64 30-104 41-105 (299)
72 COG5175 MOT2 Transcriptional r 94.9 0.014 2.9E-07 46.5 1.6 52 34-86 12-67 (480)
73 KOG3039|consensus 94.9 0.019 4.1E-07 43.7 2.3 50 36-86 220-273 (303)
74 KOG2932|consensus 94.3 0.021 4.7E-07 44.9 1.4 43 37-82 90-133 (389)
75 COG5219 Uncharacterized conser 94.3 0.011 2.3E-07 53.0 -0.4 52 32-83 1464-1523(1525)
76 PF05290 Baculo_IE-1: Baculovi 94.1 0.036 7.8E-07 38.3 2.0 51 36-86 79-135 (140)
77 KOG3579|consensus 94.1 0.054 1.2E-06 42.2 3.2 43 35-77 266-316 (352)
78 COG5194 APC11 Component of SCF 93.9 0.035 7.5E-07 34.8 1.5 32 54-86 53-84 (88)
79 KOG4692|consensus 93.8 0.036 7.8E-07 44.4 1.8 50 33-83 418-467 (489)
80 PF07800 DUF1644: Protein of u 93.7 0.054 1.2E-06 38.6 2.3 20 36-55 1-20 (162)
81 KOG1001|consensus 93.6 0.035 7.7E-07 48.8 1.6 48 38-86 455-503 (674)
82 PF10367 Vps39_2: Vacuolar sor 93.6 0.034 7.4E-07 36.9 1.2 33 34-66 75-109 (109)
83 PF03854 zf-P11: P-11 zinc fin 93.6 0.027 5.8E-07 31.6 0.5 36 49-85 12-48 (50)
84 PF02891 zf-MIZ: MIZ/SP-RING z 92.5 0.058 1.3E-06 31.0 0.9 43 38-80 3-49 (50)
85 KOG4362|consensus 92.4 0.061 1.3E-06 46.9 1.2 55 32-86 16-72 (684)
86 PF10083 DUF2321: Uncharacteri 92.3 0.31 6.8E-06 34.6 4.5 25 57-85 28-52 (158)
87 COG5220 TFB3 Cdk activating ki 92.3 0.25 5.4E-06 37.7 4.2 46 37-82 10-63 (314)
88 COG5236 Uncharacterized conser 91.8 0.097 2.1E-06 42.0 1.7 53 30-82 54-107 (493)
89 KOG2114|consensus 91.4 0.12 2.6E-06 45.9 2.0 44 33-80 836-880 (933)
90 KOG1940|consensus 90.9 0.12 2.7E-06 40.4 1.4 43 37-80 158-204 (276)
91 KOG1812|consensus 90.6 0.16 3.5E-06 41.9 1.9 51 36-86 145-206 (384)
92 KOG0826|consensus 90.4 0.19 4.2E-06 39.9 2.1 46 35-81 298-344 (357)
93 PF08746 zf-RING-like: RING-li 89.9 0.33 7.1E-06 26.9 2.2 39 40-78 1-43 (43)
94 PHA02825 LAP/PHD finger-like p 89.8 0.39 8.5E-06 34.3 3.0 51 35-86 6-62 (162)
95 KOG3970|consensus 88.9 0.72 1.6E-05 34.9 4.0 48 38-85 51-107 (299)
96 COG5109 Uncharacterized conser 88.8 0.29 6.3E-06 38.8 1.9 50 33-82 332-386 (396)
97 PF10272 Tmpp129: Putative tra 88.7 0.24 5.2E-06 40.3 1.5 32 55-86 311-354 (358)
98 PF07191 zinc-ribbons_6: zinc- 88.6 0.079 1.7E-06 32.5 -1.0 41 37-83 1-41 (70)
99 PHA03096 p28-like protein; Pro 88.3 0.22 4.8E-06 39.3 1.0 30 38-67 179-216 (284)
100 KOG1100|consensus 87.7 0.32 7E-06 36.6 1.6 39 40-83 161-200 (207)
101 PRK00420 hypothetical protein; 87.1 7.1 0.00015 26.4 7.6 22 108-129 23-47 (112)
102 KOG3039|consensus 86.3 0.46 9.9E-06 36.4 1.7 35 32-66 38-72 (303)
103 PHA02862 5L protein; Provision 85.2 0.62 1.3E-05 32.8 1.8 48 38-86 3-56 (156)
104 KOG1952|consensus 85.1 0.47 1E-05 42.4 1.4 48 36-83 190-247 (950)
105 PF12773 DZR: Double zinc ribb 84.7 0.74 1.6E-05 26.0 1.7 19 110-128 31-49 (50)
106 KOG1815|consensus 84.1 0.74 1.6E-05 38.7 2.2 50 34-83 67-126 (444)
107 PF10571 UPF0547: Uncharacteri 84.0 0.62 1.3E-05 22.8 1.0 8 40-47 3-10 (26)
108 cd00021 BBOX B-Box-type zinc f 83.6 0.53 1.2E-05 24.9 0.8 17 113-129 2-19 (39)
109 PF00643 zf-B_box: B-box zinc 83.2 0.54 1.2E-05 25.5 0.7 18 112-129 4-22 (42)
110 KOG4185|consensus 83.2 0.24 5.3E-06 39.1 -1.0 45 37-81 207-265 (296)
111 COG3813 Uncharacterized protei 82.7 1.9 4E-05 26.6 2.9 44 40-86 8-55 (84)
112 PF06906 DUF1272: Protein of u 82.6 2.1 4.6E-05 25.0 3.0 45 38-85 6-54 (57)
113 PF14569 zf-UDP: Zinc-binding 82.5 0.98 2.1E-05 28.2 1.7 47 37-83 9-62 (80)
114 KOG2930|consensus 82.5 0.6 1.3E-05 30.8 0.8 27 54-81 80-106 (114)
115 PF12126 DUF3583: Protein of u 82.4 9.6 0.00021 30.1 7.4 48 132-179 16-63 (324)
116 PF05605 zf-Di19: Drought indu 81.8 1 2.3E-05 26.0 1.6 38 36-80 1-39 (54)
117 KOG2462|consensus 80.5 1.5 3.2E-05 34.3 2.4 52 35-86 159-229 (279)
118 PF10186 Atg14: UV radiation r 79.5 14 0.0003 28.9 7.8 17 111-129 2-18 (302)
119 smart00336 BBOX B-Box-type zin 79.1 1 2.2E-05 24.1 0.9 18 112-129 4-22 (42)
120 PF12906 RINGv: RING-variant d 78.7 0.71 1.5E-05 26.0 0.2 39 40-78 1-47 (47)
121 PF09862 DUF2089: Protein of u 78.1 4 8.6E-05 27.6 3.7 18 112-129 2-19 (113)
122 KOG1428|consensus 76.5 2.1 4.5E-05 41.2 2.5 46 37-82 3486-3543(3738)
123 KOG3113|consensus 74.9 6.2 0.00013 30.6 4.3 50 34-86 108-161 (293)
124 PF14353 CpXC: CpXC protein 74.5 2 4.3E-05 29.6 1.5 15 71-85 37-51 (128)
125 KOG3899|consensus 74.3 1.2 2.5E-05 35.1 0.4 32 55-86 325-368 (381)
126 KOG4445|consensus 71.5 1.2 2.6E-05 35.3 -0.2 55 32-86 110-189 (368)
127 KOG0298|consensus 70.0 0.85 1.8E-05 42.7 -1.4 49 32-81 1148-1197(1394)
128 PF07139 DUF1387: Protein of u 69.2 33 0.00071 27.4 7.3 49 131-179 155-210 (302)
129 KOG3053|consensus 69.1 4.9 0.00011 31.1 2.6 53 32-84 15-83 (293)
130 KOG2169|consensus 69.0 5.5 0.00012 35.2 3.3 71 32-106 301-375 (636)
131 PF02318 FYVE_2: FYVE-type zin 68.8 1.2 2.6E-05 30.3 -0.6 45 37-81 54-103 (118)
132 cd00350 rubredoxin_like Rubred 68.6 4.2 9.1E-05 20.9 1.6 11 71-81 16-26 (33)
133 KOG2034|consensus 68.3 1.9 4.2E-05 38.9 0.4 35 33-67 813-849 (911)
134 PF10497 zf-4CXXC_R1: Zinc-fin 67.8 6.1 0.00013 26.4 2.7 30 56-85 37-74 (105)
135 cd00065 FYVE FYVE domain; Zinc 67.1 3.5 7.6E-05 23.7 1.3 30 38-67 3-36 (57)
136 PRK14559 putative protein seri 67.0 3.9 8.5E-05 36.2 2.0 19 111-129 30-48 (645)
137 PF05883 Baculo_RING: Baculovi 66.4 2 4.2E-05 30.0 0.1 31 37-67 26-65 (134)
138 PF12999 PRKCSH-like: Glucosid 66.2 50 0.0011 24.3 8.6 25 110-135 98-126 (176)
139 PF04216 FdhE: Protein involve 64.4 2.1 4.6E-05 33.8 -0.1 45 37-82 172-221 (290)
140 smart00064 FYVE Protein presen 64.1 5.9 0.00013 23.8 1.9 31 37-67 10-44 (68)
141 smart00249 PHD PHD zinc finger 63.0 7.3 0.00016 20.8 2.0 40 39-78 1-47 (47)
142 PF13719 zinc_ribbon_5: zinc-r 61.5 4.8 0.0001 21.3 1.0 13 38-50 3-15 (37)
143 PF01363 FYVE: FYVE zinc finge 61.4 2.4 5.1E-05 25.7 -0.3 33 35-67 7-43 (69)
144 KOG3268|consensus 61.3 5.9 0.00013 29.0 1.7 34 53-86 188-231 (234)
145 PF07975 C1_4: TFIIH C1-like d 61.2 12 0.00027 21.4 2.7 25 54-79 26-50 (51)
146 PF06295 DUF1043: Protein of u 60.4 53 0.0012 22.6 6.9 29 136-164 28-56 (128)
147 PLN02189 cellulose synthase 60.1 6.2 0.00013 36.6 2.0 46 38-83 35-87 (1040)
148 PLN02436 cellulose synthase A 59.5 6.5 0.00014 36.6 2.0 46 38-83 37-89 (1094)
149 PF01485 IBR: IBR domain; Int 59.4 3.9 8.4E-05 23.9 0.5 31 37-67 18-58 (64)
150 KOG0825|consensus 58.6 8.5 0.00018 34.7 2.5 32 36-67 95-133 (1134)
151 PF09538 FYDLN_acid: Protein o 58.3 5.1 0.00011 26.9 1.0 16 70-85 24-39 (108)
152 PF13240 zinc_ribbon_2: zinc-r 58.3 5.3 0.00011 18.8 0.7 18 111-128 2-19 (23)
153 COG4306 Uncharacterized protei 57.8 21 0.00046 24.6 3.8 23 58-84 29-51 (160)
154 PF10372 YojJ: Bacterial membr 56.0 22 0.00047 21.9 3.3 35 144-178 10-44 (70)
155 PF07754 DUF1610: Domain of un 55.9 5.5 0.00012 19.1 0.5 10 70-79 14-23 (24)
156 PF15616 TerY-C: TerY-C metal 55.8 7.4 0.00016 27.1 1.4 48 32-86 72-119 (131)
157 PF09297 zf-NADH-PPase: NADH p 55.4 4.4 9.6E-05 20.6 0.2 24 57-80 3-29 (32)
158 KOG3896|consensus 54.8 59 0.0013 26.5 6.4 56 31-86 18-84 (449)
159 PLN02400 cellulose synthase 53.7 9.5 0.00021 35.6 2.1 46 38-83 37-89 (1085)
160 PLN02638 cellulose synthase A 53.4 8.8 0.00019 35.8 1.9 46 38-83 18-70 (1079)
161 PF00628 PHD: PHD-finger; Int 53.4 4 8.7E-05 22.9 -0.2 41 39-79 1-49 (51)
162 PF07503 zf-HYPF: HypF finger; 53.2 10 0.00022 19.9 1.4 24 60-83 2-32 (35)
163 smart00154 ZnF_AN1 AN1-like Zi 53.0 9.2 0.0002 20.5 1.2 22 40-61 1-24 (39)
164 PF14446 Prok-RING_1: Prokaryo 52.7 11 0.00024 21.9 1.6 31 37-67 5-39 (54)
165 COG0068 HypF Hydrogenase matur 51.9 19 0.00041 32.2 3.6 53 34-86 98-187 (750)
166 smart00586 ZnF_DBF Zinc finger 50.6 32 0.00069 19.6 3.2 20 121-143 4-23 (49)
167 TIGR01562 FdhE formate dehydro 50.2 8 0.00017 31.0 1.0 46 35-81 182-233 (305)
168 PF06844 DUF1244: Protein of u 49.4 6.2 0.00013 23.9 0.2 10 58-67 11-20 (68)
169 KOG1812|consensus 48.9 11 0.00024 31.2 1.6 33 37-69 306-343 (384)
170 PF03993 DUF349: Domain of Unk 48.5 60 0.0013 19.6 6.7 14 164-177 29-42 (77)
171 PF14369 zf-RING_3: zinc-finge 48.4 11 0.00025 19.7 1.1 26 57-82 2-31 (35)
172 PLN02195 cellulose synthase A 48.0 13 0.00029 34.4 2.1 46 38-83 7-59 (977)
173 PLN02915 cellulose synthase A 47.9 13 0.00027 34.7 2.0 47 37-83 15-68 (1044)
174 PF04568 IATP: Mitochondrial A 46.9 78 0.0017 20.9 5.1 25 141-165 73-97 (100)
175 KOG2129|consensus 46.6 1.3E+02 0.0028 25.4 7.3 40 140-179 267-306 (552)
176 KOG2113|consensus 45.6 24 0.00052 28.4 2.9 49 30-81 336-385 (394)
177 PTZ00007 (NAP-L) nucleosome as 44.6 1.2E+02 0.0026 24.8 6.8 44 133-176 44-87 (337)
178 COG3877 Uncharacterized protei 44.1 88 0.0019 20.9 4.9 19 111-129 9-27 (122)
179 PF08112 ATP-synt_E_2: ATP syn 43.9 63 0.0014 18.6 6.7 25 138-162 9-33 (56)
180 PF13248 zf-ribbon_3: zinc-rib 43.7 13 0.00028 17.9 0.8 7 74-80 4-10 (26)
181 PF15079 DUF4546: Domain of un 43.0 1.3E+02 0.0028 21.9 6.0 12 157-168 78-89 (205)
182 PRK03564 formate dehydrogenase 42.1 24 0.00053 28.3 2.6 45 35-80 185-234 (309)
183 PF01428 zf-AN1: AN1-like Zinc 42.0 13 0.00029 20.2 0.8 22 43-64 6-28 (43)
184 PRK11827 hypothetical protein; 41.9 13 0.00027 22.2 0.7 40 33-89 4-43 (60)
185 PF13913 zf-C2HC_2: zinc-finge 41.8 13 0.00029 17.7 0.7 9 39-47 4-12 (25)
186 PF05983 Med7: MED7 protein; 41.5 1.3E+02 0.0029 21.6 7.0 35 140-174 127-161 (162)
187 PF02841 GBP_C: Guanylate-bind 41.1 1.8E+02 0.0039 23.0 7.8 36 143-178 228-263 (297)
188 PF00096 zf-C2H2: Zinc finger, 40.9 5.9 0.00013 18.0 -0.7 12 39-50 2-13 (23)
189 smart00734 ZnF_Rad18 Rad18-lik 40.8 15 0.00032 17.8 0.7 10 73-82 2-11 (26)
190 KOG4727|consensus 40.5 1.5E+02 0.0032 21.8 6.5 12 118-129 71-82 (193)
191 TIGR00373 conserved hypothetic 39.9 23 0.00049 25.4 2.0 16 71-86 127-142 (158)
192 PRK06266 transcription initiat 39.8 27 0.0006 25.6 2.4 15 71-85 135-149 (178)
193 KOG4001|consensus 39.3 1.7E+02 0.0036 22.2 7.7 23 157-179 230-252 (259)
194 PF09723 Zn-ribbon_8: Zinc rib 39.1 13 0.00028 20.2 0.4 11 70-80 24-34 (42)
195 KOG4451|consensus 39.1 18 0.00039 27.6 1.3 29 57-86 249-277 (286)
196 KOG3454|consensus 38.7 1.2E+02 0.0027 21.9 5.4 32 122-153 3-42 (165)
197 PF11629 Mst1_SARAH: C termina 38.6 76 0.0017 18.0 6.4 37 136-179 11-47 (49)
198 PF13717 zinc_ribbon_4: zinc-r 38.4 17 0.00037 19.0 0.9 13 38-50 3-15 (36)
199 PF05502 Dynactin_p62: Dynacti 37.7 23 0.00049 30.4 1.9 53 34-86 2-66 (483)
200 PF12760 Zn_Tnp_IS1595: Transp 37.6 28 0.00061 19.2 1.7 10 72-81 18-27 (46)
201 smart00647 IBR In Between Ring 37.0 11 0.00023 22.0 -0.1 14 54-67 45-58 (64)
202 COG2835 Uncharacterized conser 36.8 29 0.00064 20.6 1.7 40 33-89 4-43 (60)
203 KOG3799|consensus 36.7 14 0.00029 25.8 0.3 46 33-82 61-117 (169)
204 TIGR02300 FYDLN_acid conserved 36.3 19 0.00041 24.9 1.0 15 70-84 24-38 (129)
205 COG4647 AcxC Acetone carboxyla 36.2 16 0.00035 25.2 0.7 20 42-61 62-81 (165)
206 PF08702 Fib_alpha: Fibrinogen 35.9 1.6E+02 0.0034 20.8 7.0 12 118-129 10-22 (146)
207 PF12660 zf-TFIIIC: Putative z 35.4 21 0.00046 23.4 1.1 48 38-86 15-69 (99)
208 PRK11595 DNA utilization prote 34.4 38 0.00083 25.7 2.5 37 39-81 7-43 (227)
209 PRK14890 putative Zn-ribbon RN 34.1 29 0.00063 20.5 1.4 18 60-80 39-56 (59)
210 PF10211 Ax_dynein_light: Axon 33.7 2E+02 0.0043 21.3 8.2 12 167-178 175-186 (189)
211 smart00709 Zpr1 Duplicated dom 33.5 1.2E+02 0.0026 21.8 4.8 38 131-168 98-140 (160)
212 PRK04023 DNA polymerase II lar 33.4 40 0.00086 31.6 2.8 47 37-86 626-677 (1121)
213 KOG0314|consensus 33.1 40 0.00088 28.5 2.6 49 31-81 213-264 (448)
214 PF14916 CCDC92: Coiled-coil d 33.0 1.1E+02 0.0024 18.2 3.8 38 133-170 3-40 (60)
215 PF14968 CCDC84: Coiled coil p 33.0 2.7E+02 0.0059 22.7 7.4 12 74-85 1-12 (336)
216 PF03367 zf-ZPR1: ZPR1 zinc-fi 32.0 1.4E+02 0.0031 21.4 5.0 37 131-167 100-140 (161)
217 KOG1609|consensus 32.0 65 0.0014 25.3 3.6 51 35-85 76-136 (323)
218 PF07649 C1_3: C1-like domain; 32.0 25 0.00053 17.4 0.8 20 110-129 2-22 (30)
219 TIGR00100 hypA hydrogenase nic 31.9 23 0.00049 23.9 0.8 10 72-81 86-95 (115)
220 PF07535 zf-DBF: DBF zinc fing 31.2 44 0.00095 19.0 1.8 9 121-129 4-12 (49)
221 PRK12380 hydrogenase nickel in 30.9 25 0.00055 23.7 0.9 11 71-81 85-95 (113)
222 KOG3850|consensus 30.9 2.9E+02 0.0063 23.1 6.9 41 131-171 265-305 (455)
223 smart00659 RPOLCX RNA polymera 30.8 19 0.00041 19.9 0.2 16 70-85 17-32 (44)
224 PF12874 zf-met: Zinc-finger o 30.4 11 0.00024 17.4 -0.7 13 39-51 2-14 (25)
225 COG5019 CDC3 Septin family pro 30.2 3.2E+02 0.0069 22.7 7.6 38 139-176 330-367 (373)
226 PRK11088 rrmA 23S rRNA methylt 30.2 31 0.00067 26.8 1.4 23 37-59 2-27 (272)
227 PF15290 Syntaphilin: Golgi-lo 30.1 2.4E+02 0.0052 22.5 6.1 24 152-175 118-141 (305)
228 PF06103 DUF948: Bacterial pro 30.0 1.5E+02 0.0032 18.7 7.3 32 135-166 28-59 (90)
229 COG4357 Zinc finger domain con 29.8 29 0.00063 22.7 1.0 14 71-84 79-92 (105)
230 KOG2068|consensus 29.8 1.9E+02 0.004 23.5 5.7 47 37-84 249-299 (327)
231 KOG1507|consensus 29.7 2.5E+02 0.0054 23.1 6.4 44 134-177 81-124 (358)
232 PF07195 FliD_C: Flagellar hoo 29.5 2.2E+02 0.0049 21.6 6.1 39 131-169 198-236 (239)
233 TIGR03826 YvyF flagellar opero 29.5 75 0.0016 22.3 3.1 51 122-172 18-72 (137)
234 PRK06798 fliD flagellar cappin 29.0 3.4E+02 0.0073 23.0 7.4 44 130-173 383-426 (440)
235 COG1645 Uncharacterized Zn-fin 29.0 49 0.0011 23.0 2.1 22 108-129 28-51 (131)
236 PF14772 NYD-SP28: Sperm tail 28.9 1.7E+02 0.0037 19.1 6.6 43 136-178 54-96 (104)
237 PRK13729 conjugal transfer pil 28.7 2.7E+02 0.006 23.9 6.7 11 136-146 79-89 (475)
238 KOG0994|consensus 28.5 3.1E+02 0.0068 26.7 7.4 20 60-79 1097-1116(1758)
239 TIGR02098 MJ0042_CXXC MJ0042 f 28.4 19 0.00041 18.8 -0.0 10 72-81 25-34 (38)
240 PF06827 zf-FPG_IleRS: Zinc fi 28.4 18 0.00038 17.9 -0.1 6 73-78 22-27 (30)
241 PRK14559 putative protein seri 28.4 37 0.0008 30.2 1.7 9 74-82 43-51 (645)
242 COG1198 PriA Primosomal protei 28.1 69 0.0015 29.0 3.3 20 109-129 463-482 (730)
243 PRK13729 conjugal transfer pil 28.0 2.9E+02 0.0062 23.8 6.7 20 138-157 74-93 (475)
244 KOG2264|consensus 27.9 3.8E+02 0.0081 23.9 7.4 19 154-172 110-128 (907)
245 PF06676 DUF1178: Protein of u 27.8 42 0.00092 23.9 1.6 16 70-85 30-45 (148)
246 PF06657 Cep57_MT_bd: Centroso 26.9 1.7E+02 0.0036 18.3 5.3 21 153-173 52-72 (79)
247 PF01155 HypA: Hydrogenase exp 26.9 15 0.00032 24.7 -0.8 10 72-81 86-95 (113)
248 PF12999 PRKCSH-like: Glucosid 26.7 2.6E+02 0.0057 20.5 6.6 31 142-172 144-174 (176)
249 COG3492 Uncharacterized protei 26.7 24 0.00051 22.8 0.2 10 58-67 42-51 (104)
250 PRK11677 hypothetical protein; 26.6 2.3E+02 0.005 19.8 7.2 34 135-168 31-64 (134)
251 KOG2391|consensus 26.5 3.6E+02 0.0079 22.1 7.5 15 153-167 241-255 (365)
252 PF13894 zf-C2H2_4: C2H2-type 26.2 24 0.00051 15.6 0.1 9 40-48 3-11 (24)
253 KOG1729|consensus 26.2 25 0.00055 27.9 0.3 52 32-83 163-225 (288)
254 PF04423 Rad50_zn_hook: Rad50 25.9 24 0.00053 20.1 0.1 12 74-85 22-33 (54)
255 PRK08032 fliD flagellar cappin 25.9 3.7E+02 0.008 22.9 7.2 42 131-172 411-452 (462)
256 CHL00198 accA acetyl-CoA carbo 25.9 1.4E+02 0.003 24.2 4.4 46 132-177 12-57 (322)
257 PRK14011 prefoldin subunit alp 25.4 2.5E+02 0.0054 19.8 7.3 44 130-173 85-131 (144)
258 PTZ00421 coronin; Provisional 25.1 2.7E+02 0.0058 24.0 6.3 28 153-180 462-489 (493)
259 PF10235 Cript: Microtubule-as 25.1 48 0.001 21.5 1.4 36 37-82 44-79 (90)
260 KOG2231|consensus 25.0 51 0.0011 29.4 2.0 47 39-85 2-54 (669)
261 PF06705 SF-assemblin: SF-asse 24.9 3.2E+02 0.0069 20.9 7.5 17 137-153 38-54 (247)
262 PF12171 zf-C2H2_jaz: Zinc-fin 24.8 48 0.001 15.7 1.1 13 38-50 2-14 (27)
263 PRK00398 rpoP DNA-directed RNA 24.8 30 0.00066 19.0 0.4 15 72-86 21-35 (46)
264 PLN03230 acetyl-coenzyme A car 24.4 1.8E+02 0.0038 24.7 4.8 48 131-178 78-125 (431)
265 KOG4623|consensus 24.4 1.2E+02 0.0026 26.2 3.9 31 51-83 27-58 (611)
266 PF15290 Syntaphilin: Golgi-lo 24.2 3.7E+02 0.008 21.4 6.2 31 134-164 125-155 (305)
267 PRK05771 V-type ATP synthase s 24.1 4E+02 0.0086 23.7 7.4 37 132-168 214-250 (646)
268 PF08581 Tup_N: Tup N-terminal 24.0 2E+02 0.0042 18.1 5.4 20 144-163 50-69 (79)
269 PF09788 Tmemb_55A: Transmembr 23.9 1.5E+02 0.0032 23.2 4.0 15 36-50 64-78 (256)
270 KOG2272|consensus 23.5 51 0.0011 25.7 1.5 53 31-83 177-232 (332)
271 PF13824 zf-Mss51: Zinc-finger 23.3 46 0.001 19.4 1.0 14 70-83 12-25 (55)
272 COG2816 NPY1 NTP pyrophosphohy 23.2 36 0.00078 26.9 0.6 31 55-85 109-142 (279)
273 PF07352 Phage_Mu_Gam: Bacteri 23.1 2.7E+02 0.0059 19.5 7.1 40 135-174 12-51 (149)
274 PRK00564 hypA hydrogenase nick 23.1 51 0.0011 22.3 1.3 8 74-81 90-97 (117)
275 COG3105 Uncharacterized protei 23.0 2.7E+02 0.0059 19.4 6.8 34 136-169 37-70 (138)
276 PF01496 V_ATPase_I: V-type AT 23.0 5.3E+02 0.011 23.5 8.0 38 132-169 228-265 (759)
277 KOG3362|consensus 23.0 27 0.00059 24.6 -0.0 29 37-66 118-147 (156)
278 smart00290 ZnF_UBP Ubiquitin C 22.9 54 0.0012 18.0 1.2 22 40-61 2-23 (50)
279 PF00641 zf-RanBP: Zn-finger i 22.8 38 0.00082 16.6 0.5 19 111-129 7-25 (30)
280 TIGR01206 lysW lysine biosynth 22.7 50 0.0011 19.2 1.0 14 73-86 3-16 (54)
281 PHA02682 ORF080 virion core pr 22.5 2.9E+02 0.0062 20.8 5.1 26 143-168 232-257 (280)
282 PRK00418 DNA gyrase inhibitor; 22.5 51 0.0011 19.8 1.0 13 72-84 6-18 (62)
283 PF03604 DNA_RNApol_7kD: DNA d 22.5 39 0.00084 17.3 0.5 13 70-82 15-27 (32)
284 PHA02047 phage lambda Rz1-like 22.4 2.4E+02 0.0052 18.5 6.4 27 153-179 50-76 (101)
285 smart00834 CxxC_CXXC_SSSS Puta 22.1 49 0.0011 17.3 0.9 12 70-81 24-35 (41)
286 KOG2789|consensus 22.0 45 0.00098 27.7 1.0 34 34-67 71-106 (482)
287 PF14471 DUF4428: Domain of un 22.0 67 0.0015 18.3 1.5 28 39-67 1-30 (51)
288 TIGR00219 mreC rod shape-deter 22.0 3.5E+02 0.0075 21.4 6.0 8 158-165 98-105 (283)
289 smart00531 TFIIE Transcription 22.0 35 0.00077 24.0 0.4 16 71-86 122-137 (147)
290 PRK03681 hypA hydrogenase nick 21.8 45 0.00098 22.5 0.8 9 73-81 88-96 (114)
291 PRK06664 fliD flagellar hook-a 21.7 4.8E+02 0.01 23.5 7.3 42 131-172 605-646 (661)
292 TIGR00622 ssl1 transcription f 21.6 70 0.0015 21.6 1.7 41 38-79 56-110 (112)
293 TIGR03752 conj_TIGR03752 integ 21.6 5.3E+02 0.011 22.2 7.4 11 95-105 59-69 (472)
294 TIGR02652 conserved hypothetic 21.6 39 0.00085 23.8 0.5 14 70-83 7-20 (163)
295 TIGR00143 hypF [NiFe] hydrogen 21.1 1.7E+02 0.0036 26.6 4.4 49 59-108 120-176 (711)
296 PF09654 DUF2396: Protein of u 21.0 41 0.00089 23.6 0.5 13 71-83 5-17 (161)
297 PRK14873 primosome assembly pr 21.0 1E+02 0.0022 27.6 3.1 46 58-129 384-429 (665)
298 KOG4275|consensus 20.9 50 0.0011 26.4 1.0 40 39-80 46-89 (350)
299 COG2888 Predicted Zn-ribbon RN 20.8 77 0.0017 18.8 1.5 12 69-80 47-58 (61)
300 PRK07737 fliD flagellar cappin 20.8 5.1E+02 0.011 22.4 7.2 41 132-172 447-487 (501)
301 PF04981 NMD3: NMD3 family ; 20.7 82 0.0018 24.1 2.2 40 40-84 1-47 (236)
302 COG1996 RPC10 DNA-directed RNA 20.6 58 0.0013 18.5 1.0 18 69-86 21-38 (49)
303 PF13912 zf-C2H2_6: C2H2-type 20.4 41 0.00089 15.7 0.3 12 38-49 2-13 (27)
304 KOG2807|consensus 20.4 45 0.00097 27.0 0.7 27 58-84 331-357 (378)
305 PF11068 YlqD: YlqD protein; 20.4 3.1E+02 0.0067 19.1 8.2 28 152-179 57-84 (131)
306 PRK00415 rps27e 30S ribosomal 20.4 50 0.0011 19.6 0.7 21 69-89 27-47 (59)
307 COG4640 Predicted membrane pro 20.2 65 0.0014 26.9 1.6 28 58-86 2-29 (465)
308 PRK12775 putative trifunctiona 20.2 4.3E+02 0.0094 25.1 7.0 25 153-177 888-912 (1006)
No 1
>KOG4367|consensus
Probab=99.52 E-value=8.5e-14 Score=111.41 Aligned_cols=96 Identities=30% Similarity=0.732 Sum_probs=75.6
Q ss_pred CCCccccccccccCCCceeccccccchHHhhhccccC-------------------------------------------
Q psy2696 34 PKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVD------------------------------------------- 70 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~------------------------------------------- 70 (180)
+++++.|+||...|.+|++|||+|..|..|......+
T Consensus 1 meeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~tp~~~spq~~~aa~s~vs~~~~~~~d~msl~~~ad~g~~~~~~ 80 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYREPIILPCSHNLCQACARNILVQTPESESPQSHRAAGSGVSDYDYLDLDKMSLYSEADSGYGSYGG 80 (699)
T ss_pred CcccccCceehhhccCceEeecccHHHHHHHHhhcccCCCCCCchhhhhcCCCCCccccccccceeeEeeccCCCCccCC
Confidence 4688999999999999999999999999997532000
Q ss_pred ----------------------------------------CccCCCCCCCCcccCC-CCCCCCChHHHHHHHHHHhcCC-
Q psy2696 71 ----------------------------------------GKLSCPICGQHTLLKE-GSTLPPPDNVLKQLIEVANAEN- 108 (180)
Q Consensus 71 ----------------------------------------~~~~CP~Cr~~~~~~~-~~~~l~~n~~l~~l~~~~~~~~- 108 (180)
..+.||.|...+-..+ +.+.++.|..+..+++.+....
T Consensus 81 ~a~~~~t~~~~~~~g~~~~p~am~pp~t~l~~~lap~~~~~~i~c~~c~rs~~~dd~~l~~~p~n~~le~vi~ryq~s~~ 160 (699)
T KOG4367|consen 81 FASAPTTPCQKSPNGVRVFPPAMPPPATHLSPALAPVPRNSCITCPQCHRSLILDDRGLRGFPKNRVLEGVIDRYQQSKA 160 (699)
T ss_pred eeecCCCccccCCCCceeCCCCCCCchhhccccccCCCCCceEEcchhhhheEecccccccCchhhHHHHHHHHHhhhhH
Confidence 0478999999887766 6778999999999988886543
Q ss_pred --CCCCCcCcccccccccccCCH
Q psy2696 109 --PPCANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 109 --~~c~~C~~h~~~~~~~C~~C~ 129 (180)
..|..|+...+.+..||+.|+
T Consensus 161 aa~kcqlce~a~k~a~v~ceqcd 183 (699)
T KOG4367|consen 161 AALKCQLCEKAPKEATVMCEQCD 183 (699)
T ss_pred HhhhhhhhcCChhhhhhhHhhCc
Confidence 468888877777776666665
No 2
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.46 E-value=2.6e-14 Score=79.93 Aligned_cols=39 Identities=41% Similarity=1.012 Sum_probs=30.2
Q ss_pred cccccccCCCceeccccccchHHhhhccccC---CccCCCCC
Q psy2696 40 CHVCDDYYTEPCLLSCYHSFCARCLRGRTVD---GKLSCPIC 78 (180)
Q Consensus 40 C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~---~~~~CP~C 78 (180)
||||+++|.+|++|+|||+||..||.++|.. ..+.||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999999999999999999999998644 23789987
No 3
>KOG2177|consensus
Probab=99.43 E-value=1e-12 Score=103.50 Aligned_cols=94 Identities=30% Similarity=0.608 Sum_probs=75.8
Q ss_pred CCCCCCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHHHhcCC
Q psy2696 29 PTSCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEVANAEN 108 (180)
Q Consensus 29 ~~~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~~~~~~ 108 (180)
.....+.+++.|+||+++|.+|++++|+|+||..|+..++. ..+.||.|+. ... . +..|..+..+++.+....
T Consensus 5 ~~~~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~-~~~-~----~~~n~~l~~~~~~~~~~~ 77 (386)
T KOG2177|consen 5 ALLEVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCPVCRP-PSR-N----LRPNVLLANLVERLRQLR 77 (386)
T ss_pred hhhhhccccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCcccCC-chh-c----cCccHHHHHHHHHHHhcC
Confidence 34567788999999999999999999999999999999877 7789999995 222 3 668999999999887654
Q ss_pred CCC------CCcCcccccccccccCCH
Q psy2696 109 PPC------ANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 109 ~~c------~~C~~h~~~~~~~C~~C~ 129 (180)
..- ..|..|.+.+.+||..|.
T Consensus 78 ~~~~~~~~~~~c~~~~~~~~~~c~~~~ 104 (386)
T KOG2177|consen 78 LSRPLGSKEELCEKHGEELKLFCEEDE 104 (386)
T ss_pred CcccccccchhhhhcCCcceEEecccc
Confidence 321 278888877778887765
No 4
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.30 E-value=2.7e-12 Score=103.82 Aligned_cols=72 Identities=26% Similarity=0.688 Sum_probs=61.1
Q ss_pred CCCCCCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHHHh
Q psy2696 29 PTSCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEVAN 105 (180)
Q Consensus 29 ~~~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~~~ 105 (180)
+....++..+.|+||.++|.+|++++|||+||..|+..++... ..||.|+..+.... +..|+.+..+++.+.
T Consensus 18 ~~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~-~~CP~Cr~~~~~~~----Lr~N~~L~~iVe~~~ 89 (397)
T TIGR00599 18 PSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQ-PKCPLCRAEDQESK----LRSNWLVSEIVESFK 89 (397)
T ss_pred ccccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCC-CCCCCCCCcccccc----CccchHHHHHHHHHH
Confidence 4457889999999999999999999999999999999886543 47999999876554 778998888888764
No 5
>KOG0287|consensus
Probab=99.23 E-value=3.6e-12 Score=99.11 Aligned_cols=71 Identities=24% Similarity=0.601 Sum_probs=60.8
Q ss_pred CCCCCCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHHH
Q psy2696 29 PTSCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEVA 104 (180)
Q Consensus 29 ~~~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~~ 104 (180)
+.+..|.+.|.|.||.++|+.|++.||+|+||.-||..+... ...||.|...++... ++.|+++..++..+
T Consensus 15 pslk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~----Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 15 PSLKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESD----LRNNRILDEIVKSL 85 (442)
T ss_pred chhhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhcc-CCCCCceecccchhh----hhhhhHHHHHHHHH
Confidence 446778889999999999999999999999999999987443 346999999998887 88898888877764
No 6
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.23 E-value=9.6e-12 Score=75.85 Aligned_cols=61 Identities=20% Similarity=0.369 Sum_probs=51.1
Q ss_pred ccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHH
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIE 102 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~ 102 (180)
++.|+||++.+.+|+.++|||+||..|+.+|... ...||.|+..+...+ +..|..+.+.++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~----l~~~~~l~~~i~ 61 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHED----LIPNLALKSAIQ 61 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhh----ceeCHHHHHHHH
Confidence 4789999999999999999999999999998655 557999999886665 677777766554
No 7
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.17 E-value=1.2e-11 Score=73.79 Aligned_cols=61 Identities=30% Similarity=0.712 Sum_probs=33.7
Q ss_pred CCCccccccccccCCCceec-cccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHH
Q psy2696 34 PKNPLLCHVCDDYYTEPCLL-SCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLI 101 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P~~l-~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~ 101 (180)
+++.+.|++|.+++++|+.+ .|.|.||..|+...... .||+|+.+....+ +..|..+.+|+
T Consensus 4 le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw~qD----~~~NrqLd~~i 65 (65)
T PF14835_consen 4 LEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAWIQD----IQINRQLDSMI 65 (65)
T ss_dssp HHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-SSS--B-S-SS--------HHHHHHH
T ss_pred HHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCCCcCChHHHHH----HHhhhhhhccC
Confidence 45689999999999999865 79999999999875332 4999999988887 88888887763
No 8
>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=99.14 E-value=1.6e-11 Score=67.60 Aligned_cols=38 Identities=34% Similarity=0.961 Sum_probs=32.2
Q ss_pred cccccccCCCc-eeccccccchHHhhhccccCCccCCCCC
Q psy2696 40 CHVCDDYYTEP-CLLSCYHSFCARCLRGRTVDGKLSCPIC 78 (180)
Q Consensus 40 C~iC~~~~~~P-~~l~C~H~fC~~Cl~~~~~~~~~~CP~C 78 (180)
|+||++.+.+| +.++|||+||..|+.++... ...||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 89999999999 68899999999999998666 5789987
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.13 E-value=4.4e-11 Score=87.35 Aligned_cols=54 Identities=24% Similarity=0.579 Sum_probs=44.9
Q ss_pred CCCCccccccccccCCCceeccccccchHHhhhcccc---------------CCccCCCCCCCCcccCC
Q psy2696 33 GPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTV---------------DGKLSCPICGQHTLLKE 86 (180)
Q Consensus 33 ~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~---------------~~~~~CP~Cr~~~~~~~ 86 (180)
...+.+.|+||++.+.+|++++|||.||..||..|.. .....||.|+..+....
T Consensus 14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 3445799999999999999999999999999998842 13468999999886543
No 10
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.11 E-value=3.3e-11 Score=67.10 Aligned_cols=39 Identities=44% Similarity=1.147 Sum_probs=35.9
Q ss_pred cccccccCCCce-eccccccchHHhhhcccc-CCccCCCCC
Q psy2696 40 CHVCDDYYTEPC-LLSCYHSFCARCLRGRTV-DGKLSCPIC 78 (180)
Q Consensus 40 C~iC~~~~~~P~-~l~C~H~fC~~Cl~~~~~-~~~~~CP~C 78 (180)
|+||.+.+.+|. +++|||.||..|+.+++. .+.+.||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999999 889999999999999876 678889987
No 11
>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=99.07 E-value=1.1e-10 Score=73.23 Aligned_cols=67 Identities=19% Similarity=0.285 Sum_probs=54.1
Q ss_pred CccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHHHhc
Q psy2696 36 NPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEVANA 106 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~~~~ 106 (180)
+.+.|||+++++.+|+++++||+|+..+|..|...+...||.++..+...+ +.+|..+...++.+..
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~----l~pn~~Lk~~I~~~~~ 69 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD----LIPNRALKSAIEEWCA 69 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG----SEE-HHHHHHHHHHHH
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc----ceECHHHHHHHHHHHH
Confidence 579999999999999999999999999999997777788999999887776 8889999888887754
No 12
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.05 E-value=3.5e-11 Score=67.24 Aligned_cols=36 Identities=33% Similarity=1.075 Sum_probs=22.4
Q ss_pred cccccccCCC----ceeccccccchHHhhhccccC---CccCCC
Q psy2696 40 CHVCDDYYTE----PCLLSCYHSFCARCLRGRTVD---GKLSCP 76 (180)
Q Consensus 40 C~iC~~~~~~----P~~l~C~H~fC~~Cl~~~~~~---~~~~CP 76 (180)
||||.+ |.+ |+.|+|||+||.+||+++... +.+.||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 877 999999999999999998542 577787
No 13
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.00 E-value=1.6e-10 Score=67.16 Aligned_cols=47 Identities=32% Similarity=0.633 Sum_probs=39.1
Q ss_pred CccccccccccCCCceecccccc-chHHhhhccccCCccCCCCCCCCcc
Q psy2696 36 NPLLCHVCDDYYTEPCLLSCYHS-FCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P~~l~C~H~-fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
+...|.||++...++.++||||. ||..|+.++.. ....||.||..+.
T Consensus 1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-S
T ss_pred CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhc
Confidence 35789999999999999999999 99999999855 5668999998763
No 14
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.93 E-value=7e-10 Score=62.67 Aligned_cols=41 Identities=39% Similarity=1.019 Sum_probs=35.0
Q ss_pred ccccccccCC---CceeccccccchHHhhhccccCCccCCCCCCC
Q psy2696 39 LCHVCDDYYT---EPCLLSCYHSFCARCLRGRTVDGKLSCPICGQ 80 (180)
Q Consensus 39 ~C~iC~~~~~---~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~ 80 (180)
.|++|.+.|. .|.+++|||+||..|+.+.. +....||+|+.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 3899999993 57888999999999999876 66788999974
No 15
>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=98.88 E-value=3.3e-10 Score=64.07 Aligned_cols=40 Identities=28% Similarity=0.719 Sum_probs=32.8
Q ss_pred ccccccccCC---CceeccccccchHHhhhccccCCccCCCCCC
Q psy2696 39 LCHVCDDYYT---EPCLLSCYHSFCARCLRGRTVDGKLSCPICG 79 (180)
Q Consensus 39 ~C~iC~~~~~---~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr 79 (180)
.|+||++.|. .++.++|+|.||.+|+.+|... ...||.||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 5999999995 4678899999999999998544 34899996
No 16
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.88 E-value=1.3e-09 Score=83.37 Aligned_cols=69 Identities=25% Similarity=0.551 Sum_probs=54.1
Q ss_pred CCCCCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHH
Q psy2696 30 TSCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEV 103 (180)
Q Consensus 30 ~~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~ 103 (180)
.+..|...+.|-||.++|..|...+|||+||.-||........ .||+|+....... ++.+..+..+.+.
T Consensus 18 SL~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp-~CP~Cr~~~~esr----lr~~s~~~ei~es 86 (391)
T COG5432 18 SLKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQP-FCPVCREDPCESR----LRGSSGSREINES 86 (391)
T ss_pred chhcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCC-CCccccccHHhhh----cccchhHHHHHHh
Confidence 3566777899999999999999999999999999999865544 5999999876554 5555555444443
No 17
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.85 E-value=1.3e-09 Score=61.28 Aligned_cols=43 Identities=35% Similarity=0.903 Sum_probs=36.6
Q ss_pred ccccccccCCCceecc-ccccchHHhhhccccCCccCCCCCCCC
Q psy2696 39 LCHVCDDYYTEPCLLS-CYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 39 ~C~iC~~~~~~P~~l~-C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
.|+||.+.+.++..++ |+|.||..|+..|...+...||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 4899999998777665 999999999999866667789999874
No 18
>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=98.78 E-value=3.3e-09 Score=57.63 Aligned_cols=39 Identities=38% Similarity=1.064 Sum_probs=34.5
Q ss_pred cccccccCCCceeccccccchHHhhhccccCCccCCCCC
Q psy2696 40 CHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPIC 78 (180)
Q Consensus 40 C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~C 78 (180)
|+||++...++..++|+|.||..|+..|...+...||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999988999999999999999999866566779986
No 19
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.71 E-value=7.6e-09 Score=78.64 Aligned_cols=48 Identities=25% Similarity=0.636 Sum_probs=38.3
Q ss_pred CCccccccccccCCCc--------eeccccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 35 KNPLLCHVCDDYYTEP--------CLLSCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P--------~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
.+...|+||++.+.++ +..+|+|.||..||.+|.. ....||.||..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~-~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK-EKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh-cCCCCCCCCCEee
Confidence 4468999999987653 4558999999999999854 4558999998764
No 20
>KOG4185|consensus
Probab=98.67 E-value=2e-07 Score=73.83 Aligned_cols=68 Identities=25% Similarity=0.547 Sum_probs=56.1
Q ss_pred ccccccccccCC------CceeccccccchHHhhhccccCCccCCCCCCCCcccCC-CCCCCCChHHHHHHHHHH
Q psy2696 37 PLLCHVCDDYYT------EPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE-GSTLPPPDNVLKQLIEVA 104 (180)
Q Consensus 37 ~l~C~iC~~~~~------~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~-~~~~l~~n~~l~~l~~~~ 104 (180)
.+.|-||.+.|. .|+.|.|||+||..|+.+...+..+.||.||..+..+. ....+..|+.+.......
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~ 77 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM 77 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence 467999999996 49999999999999999988888889999999975555 334677788877777665
No 21
>PHA02926 zinc finger-like protein; Provisional
Probab=98.61 E-value=2e-08 Score=74.47 Aligned_cols=50 Identities=26% Similarity=0.526 Sum_probs=38.3
Q ss_pred CCCccccccccccCCC---------ceeccccccchHHhhhccccC-----CccCCCCCCCCcc
Q psy2696 34 PKNPLLCHVCDDYYTE---------PCLLSCYHSFCARCLRGRTVD-----GKLSCPICGQHTL 83 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~---------P~~l~C~H~fC~~Cl~~~~~~-----~~~~CP~Cr~~~~ 83 (180)
..++..|+||++..-+ ++..+|+|.||..|+..|... ....||.||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 3457899999987632 244589999999999998432 3467999999765
No 22
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.60 E-value=1.3e-06 Score=68.54 Aligned_cols=50 Identities=28% Similarity=0.632 Sum_probs=39.7
Q ss_pred cccccccccc-CCCce---ec-cccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 37 PLLCHVCDDY-YTEPC---LL-SCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 37 ~l~C~iC~~~-~~~P~---~l-~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
.-.||+|... |.+|. .+ +|||.||..|+...+..+...||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4689999873 44553 22 799999999999987777789999999887665
No 23
>KOG2164|consensus
Probab=98.59 E-value=1.7e-08 Score=82.94 Aligned_cols=50 Identities=32% Similarity=0.676 Sum_probs=44.2
Q ss_pred ccccccccccCCCceeccccccchHHhhhccccC----CccCCCCCCCCcccCC
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVD----GKLSCPICGQHTLLKE 86 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~----~~~~CP~Cr~~~~~~~ 86 (180)
...||||+....-|....|||.||..||-++|.. +-..||.|+..+.+++
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 7899999999999998899999999999988643 4678999999998865
No 24
>KOG0317|consensus
Probab=98.57 E-value=5.8e-08 Score=74.54 Aligned_cols=55 Identities=25% Similarity=0.604 Sum_probs=44.7
Q ss_pred CCCCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 31 SCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 31 ~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
....+....|.+|++.-.+|.-.||||.||-.||..|... ...||.||...+...
T Consensus 233 ~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 233 SSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSE-KAECPLCREKFQPSK 287 (293)
T ss_pred ccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcc-ccCCCcccccCCCcc
Confidence 3444556899999999999999999999999999998433 224999999876554
No 25
>KOG0320|consensus
Probab=98.56 E-value=2.1e-08 Score=71.73 Aligned_cols=51 Identities=27% Similarity=0.710 Sum_probs=40.5
Q ss_pred CCccccccccccCCC--ceeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 35 KNPLLCHVCDDYYTE--PCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~--P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
+....||||++.+.. |+...|||.||..||+.... ....||.|+..+..+.
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk-~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALK-NTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHH-hCCCCCCcccccchhh
Confidence 445899999999974 66678999999999998643 3457999998766554
No 26
>KOG0823|consensus
Probab=98.56 E-value=3.1e-08 Score=73.88 Aligned_cols=52 Identities=25% Similarity=0.593 Sum_probs=44.8
Q ss_pred CCCccccccccccCCCceeccccccchHHhhhccc--cCCccCCCCCCCCcccC
Q psy2696 34 PKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRT--VDGKLSCPICGQHTLLK 85 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~--~~~~~~CP~Cr~~~~~~ 85 (180)
.-..+.|.||++.-.+|++..|||.||--||.+|. ..+...||+|+..+...
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 45578999999999999999999999999999994 34667899999977654
No 27
>KOG2660|consensus
Probab=98.48 E-value=5.8e-08 Score=75.82 Aligned_cols=73 Identities=18% Similarity=0.446 Sum_probs=55.8
Q ss_pred CCCCCCccccccccccCCCceecc-ccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHHH
Q psy2696 31 SCGPKNPLLCHVCDDYYTEPCLLS-CYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEVA 104 (180)
Q Consensus 31 ~~~l~~~l~C~iC~~~~~~P~~l~-C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~~ 104 (180)
...+...++|.+|..+|.|+.++. |.|+||.+||-++... ...||.|...+....-...++.+.++..++..+
T Consensus 9 ~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKL 82 (331)
T KOG2660|consen 9 LTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKL 82 (331)
T ss_pred hhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCccccccCCcchHHHHHHHHH
Confidence 456778899999999999998775 9999999999887544 668999988765443122356677777777654
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=3.6e-07 Score=69.41 Aligned_cols=52 Identities=27% Similarity=0.506 Sum_probs=43.8
Q ss_pred CCccccccccccCCCceeccccccchHHhhhc-cccCCccCCCCCCCCcccCC
Q psy2696 35 KNPLLCHVCDDYYTEPCLLSCYHSFCARCLRG-RTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~-~~~~~~~~CP~Cr~~~~~~~ 86 (180)
.....|.||++....|...+|||.||..||-. |.......||.||+.+.+..
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 45778999999999999999999999999988 54445556999999876554
No 29
>KOG0804|consensus
Probab=98.32 E-value=5.8e-06 Score=67.19 Aligned_cols=51 Identities=27% Similarity=0.518 Sum_probs=42.2
Q ss_pred CCCCCCCccccccccccCCCc----eeccccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 30 TSCGPKNPLLCHVCDDYYTEP----CLLSCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 30 ~~~~l~~~l~C~iC~~~~~~P----~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
....+.+.-+||+|++..+.- ..+.|.|+|...|+..||.. +||+||....
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~ 222 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQS 222 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcC
Confidence 345678899999999999854 34579999999999999876 6999998665
No 30
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.26 E-value=7.4e-07 Score=55.80 Aligned_cols=40 Identities=25% Similarity=0.728 Sum_probs=30.6
Q ss_pred ccccccccCCCc-------------eeccccccchHHhhhccccCCccCCCCCC
Q psy2696 39 LCHVCDDYYTEP-------------CLLSCYHSFCARCLRGRTVDGKLSCPICG 79 (180)
Q Consensus 39 ~C~iC~~~~~~P-------------~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr 79 (180)
.|+||++.|.+| ...+|||.|...||.+|..... .||.||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCCCC
Confidence 399999999432 3347999999999999864443 899997
No 31
>KOG4628|consensus
Probab=98.25 E-value=4.3e-07 Score=72.33 Aligned_cols=49 Identities=22% Similarity=0.601 Sum_probs=41.4
Q ss_pred cccccccccCCC---ceeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 38 LLCHVCDDYYTE---PCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 38 l~C~iC~~~~~~---P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
.+|.||++.|.. =++|||+|.|...|+..|.....-.||+|+.......
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 599999999974 3678999999999999997666667999999775554
No 32
>KOG0978|consensus
Probab=98.15 E-value=4.4e-07 Score=77.91 Aligned_cols=54 Identities=26% Similarity=0.637 Sum_probs=46.4
Q ss_pred CCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 33 GPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 33 ~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
...+.+.||+|...+.+.++..|+|.||..|++.........||.|...+...+
T Consensus 639 ~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 639 EYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 446789999999999999999999999999999876666778999998875544
No 33
>KOG2879|consensus
Probab=98.06 E-value=3.8e-06 Score=64.20 Aligned_cols=54 Identities=28% Similarity=0.690 Sum_probs=44.0
Q ss_pred CCCCCCCccccccccccCCCceec-cccccchHHhhhcc-ccCCccCCCCCCCCcc
Q psy2696 30 TSCGPKNPLLCHVCDDYYTEPCLL-SCYHSFCARCLRGR-TVDGKLSCPICGQHTL 83 (180)
Q Consensus 30 ~~~~l~~~l~C~iC~~~~~~P~~l-~C~H~fC~~Cl~~~-~~~~~~~CP~Cr~~~~ 83 (180)
.+........|++|++....|.++ +|+|.||..|+... ..+..+.||.|.....
T Consensus 232 sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 232 SSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 334455678999999999999877 59999999999876 3456789999988765
No 34
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=2e-06 Score=66.67 Aligned_cols=48 Identities=21% Similarity=0.531 Sum_probs=41.3
Q ss_pred ccccccccccCCC---ceeccccccchHHhhhccccCCccCCCCCCCCccc
Q psy2696 37 PLLCHVCDDYYTE---PCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLL 84 (180)
Q Consensus 37 ~l~C~iC~~~~~~---P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~ 84 (180)
...|.||++.|.. -+.+||.|.|...|+.+|..+....||+||..++.
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 4789999999963 36789999999999999987778889999998754
No 35
>KOG0311|consensus
Probab=97.98 E-value=5.8e-07 Score=70.86 Aligned_cols=55 Identities=22% Similarity=0.570 Sum_probs=45.6
Q ss_pred CCCCCccccccccccCCCceec-cccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 32 CGPKNPLLCHVCDDYYTEPCLL-SCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~P~~l-~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
..+.-.+.|+||++++...++. .|+|-||.+||-.....+...||.||.....+.
T Consensus 38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR 93 (381)
T ss_pred HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence 4556689999999999987766 499999999998776667778999999876654
No 36
>KOG0824|consensus
Probab=97.91 E-value=5.1e-06 Score=64.37 Aligned_cols=49 Identities=27% Similarity=0.632 Sum_probs=42.7
Q ss_pred ccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccC
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLK 85 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~ 85 (180)
.-.|+||+..-+-|+.|+|+|.||.-||+..-......|++||..++..
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 3579999999999999999999999999987566677899999987654
No 37
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=9.7e-06 Score=64.54 Aligned_cols=51 Identities=25% Similarity=0.643 Sum_probs=39.9
Q ss_pred CCccccccccccCC-------------CceeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 35 KNPLLCHVCDDYYT-------------EPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 35 ~~~l~C~iC~~~~~-------------~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
.++-.|.||++... .|+.|||||.+...|++.|. ...-.||.||.++....
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~-ERqQTCPICr~p~ifd~ 348 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWL-ERQQTCPICRRPVIFDQ 348 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHH-HhccCCCcccCcccccc
Confidence 45679999999842 36999999999999999883 33447999999864443
No 38
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.71 E-value=1.5e-05 Score=58.20 Aligned_cols=47 Identities=34% Similarity=0.839 Sum_probs=38.5
Q ss_pred ccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCccc
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLL 84 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~ 84 (180)
.+.|.||.+.|..|+...|||.||..|..+.. .....|-+|...+..
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y-~kg~~C~~Cgk~t~G 242 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKY-QKGDECGVCGKATYG 242 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHh-ccCCcceecchhhcc
Confidence 57999999999999999999999999976642 233469999887643
No 39
>KOG0802|consensus
Probab=97.61 E-value=1.6e-05 Score=68.00 Aligned_cols=49 Identities=29% Similarity=0.579 Sum_probs=40.8
Q ss_pred CCCccccccccccCCC-----ceeccccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 34 PKNPLLCHVCDDYYTE-----PCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~-----P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
......|+||.+.+.. |+.++|+|.|+..|+..|... .-.||.||..+-
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLY 341 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhh
Confidence 3447899999999987 899999999999999998443 457999999443
No 40
>KOG4159|consensus
Probab=97.59 E-value=2.9e-05 Score=63.39 Aligned_cols=54 Identities=26% Similarity=0.600 Sum_probs=45.1
Q ss_pred CCCCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccC
Q psy2696 31 SCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLK 85 (180)
Q Consensus 31 ~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~ 85 (180)
...+..++.|.||...+-.|+.+||||+||..||.+... ..-.||.|+..+...
T Consensus 78 ~~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 78 PEEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD-QETECPLCRDELVEL 131 (398)
T ss_pred CccccchhhhhhhHhhcCCCccccccccccHHHHHHHhc-cCCCCcccccccccc
Confidence 345678999999999999999999999999999888533 555799999987643
No 41
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.58 E-value=6.7e-05 Score=58.24 Aligned_cols=45 Identities=29% Similarity=0.819 Sum_probs=39.8
Q ss_pred cccccccccCCCceec-cccccchHHhhhccccCCccCCCCCCCCc
Q psy2696 38 LLCHVCDDYYTEPCLL-SCYHSFCARCLRGRTVDGKLSCPICGQHT 82 (180)
Q Consensus 38 l~C~iC~~~~~~P~~l-~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~ 82 (180)
|.|+.|..++++|... .|+|+||..||.......-+.||.|...-
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkd 320 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKD 320 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccccc
Confidence 8999999999999877 59999999999987777788999997643
No 42
>KOG0297|consensus
Probab=97.57 E-value=9.9e-05 Score=60.67 Aligned_cols=55 Identities=31% Similarity=0.680 Sum_probs=45.8
Q ss_pred CCCCCCccccccccccCCCcee-ccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 31 SCGPKNPLLCHVCDDYYTEPCL-LSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 31 ~~~l~~~l~C~iC~~~~~~P~~-l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
...+.+.+.|++|...+.+|.. ..|||.||..|+..|... ...||.|+.......
T Consensus 15 ~~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 15 GRPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAE 70 (391)
T ss_pred CCCCcccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcccccccchhh
Confidence 3447888999999999999998 599999999999998655 668999977665544
No 43
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.51 E-value=5.4e-05 Score=44.91 Aligned_cols=43 Identities=21% Similarity=0.475 Sum_probs=30.3
Q ss_pred CCccccccccccCCCcee-ccccccchHHhhhccc-cCCccCCCC
Q psy2696 35 KNPLLCHVCDDYYTEPCL-LSCYHSFCARCLRGRT-VDGKLSCPI 77 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~~-l~C~H~fC~~Cl~~~~-~~~~~~CP~ 77 (180)
.-.+.|||.+..|.+|+. ..|+|+|....|.++. .++...||+
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 345899999999999975 5899999999999985 557889997
No 44
>KOG1039|consensus
Probab=97.50 E-value=4.1e-05 Score=61.35 Aligned_cols=51 Identities=27% Similarity=0.647 Sum_probs=40.1
Q ss_pred CCccccccccccCCCce-----e---ccccccchHHhhhccccC------CccCCCCCCCCcccC
Q psy2696 35 KNPLLCHVCDDYYTEPC-----L---LSCYHSFCARCLRGRTVD------GKLSCPICGQHTLLK 85 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~-----~---l~C~H~fC~~Cl~~~~~~------~~~~CP~Cr~~~~~~ 85 (180)
..+..|.||++...++. . .+|.|.||.+|+..|... ....||.||.....-
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 55789999999988654 2 469999999999998422 258999999876543
No 45
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.48 E-value=9.4e-05 Score=47.13 Aligned_cols=48 Identities=25% Similarity=0.620 Sum_probs=35.2
Q ss_pred ccccccccccCC-----------C-ceec-cccccchHHhhhccccC--CccCCCCCCCCccc
Q psy2696 37 PLLCHVCDDYYT-----------E-PCLL-SCYHSFCARCLRGRTVD--GKLSCPICGQHTLL 84 (180)
Q Consensus 37 ~l~C~iC~~~~~-----------~-P~~l-~C~H~fC~~Cl~~~~~~--~~~~CP~Cr~~~~~ 84 (180)
+-.|+||...|+ + |..+ .|+|.|...||.+|... ....||.||.....
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 456777777775 2 4433 69999999999999543 45789999987643
No 46
>KOG1002|consensus
Probab=97.48 E-value=0.00033 Score=58.44 Aligned_cols=61 Identities=23% Similarity=0.505 Sum_probs=49.2
Q ss_pred CCCCCCCCCCCccccccccccCCCceeccccccchHHhhhcc----ccCCccCCCCCCCCcccCC
Q psy2696 26 APTPTSCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGR----TVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 26 ~~~~~~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~----~~~~~~~CP~Cr~~~~~~~ 86 (180)
+.+.+.........|.+|.+.-.+++...|.|+||.-|+..+ ..+..+.||.|...+....
T Consensus 525 ~~~n~~~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 525 ANANLPDENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred hhcCCCccccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 334455667788999999999999999999999999999776 3445599999988765543
No 47
>KOG1813|consensus
Probab=97.44 E-value=8.1e-05 Score=57.67 Aligned_cols=47 Identities=30% Similarity=0.751 Sum_probs=38.1
Q ss_pred ccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCccc
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLL 84 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~ 84 (180)
.+.|.||.++|.+|+...|+|+||..|-... .+.+-.|++|...+..
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~-~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKP-YQKGEKCYVCSQQTHG 287 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccc-cccCCcceeccccccc
Confidence 4579999999999999999999999997654 2334469999887643
No 48
>KOG0825|consensus
Probab=97.40 E-value=8.3e-05 Score=64.45 Aligned_cols=46 Identities=17% Similarity=0.322 Sum_probs=33.7
Q ss_pred ccccccccccCCCce---eccccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 37 PLLCHVCDDYYTEPC---LLSCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~---~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
+-.|++|..-|.+-. -.+|+|.||..|+..|.. ..-.||.||..+.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR-~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR-CAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh-hcccCchhhhhhh
Confidence 457888888777543 236999999999999833 2336999998764
No 49
>KOG0827|consensus
Probab=97.24 E-value=0.00033 Score=56.29 Aligned_cols=49 Identities=27% Similarity=0.480 Sum_probs=35.2
Q ss_pred cccccccccCCCcee----ccccccchHHhhhccccCCc--cCCCCCCCCcccCC
Q psy2696 38 LLCHVCDDYYTEPCL----LSCYHSFCARCLRGRTVDGK--LSCPICGQHTLLKE 86 (180)
Q Consensus 38 l~C~iC~~~~~~P~~----l~C~H~fC~~Cl~~~~~~~~--~~CP~Cr~~~~~~~ 86 (180)
..|.||.+.+.+-.- -.|||+|...|+.+|..... ..||.|+...+.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~ 59 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERH 59 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccccee
Confidence 579999777764332 24999999999999954422 47999995554443
No 50
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.19 E-value=0.00023 Score=41.33 Aligned_cols=47 Identities=28% Similarity=0.663 Sum_probs=34.8
Q ss_pred CccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccC
Q psy2696 36 NPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLK 85 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~ 85 (180)
.+..|-.|...-.....+||+|.+|..|......+ .||.|...+...
T Consensus 6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rYn---gCPfC~~~~~~~ 52 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERYN---GCPFCGTPFEFD 52 (55)
T ss_pred cceeEEEccccccccccccccceeeccccChhhcc---CCCCCCCcccCC
Confidence 34556666666667889999999999997654333 599998876543
No 51
>KOG1785|consensus
Probab=97.19 E-value=0.00014 Score=58.58 Aligned_cols=49 Identities=24% Similarity=0.576 Sum_probs=41.2
Q ss_pred cccccccccCCCceeccccccchHHhhhccccC-CccCCCCCCCCcccCC
Q psy2696 38 LLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVD-GKLSCPICGQHTLLKE 86 (180)
Q Consensus 38 l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~-~~~~CP~Cr~~~~~~~ 86 (180)
-.|.||-+--.+-++=||||..|..|+..|... ..-.||.||..+....
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 368899998888888999999999999999643 4778999999876554
No 52
>KOG1734|consensus
Probab=97.17 E-value=0.00014 Score=55.72 Aligned_cols=51 Identities=35% Similarity=0.701 Sum_probs=40.9
Q ss_pred CccccccccccCCC----------ceeccccccchHHhhhccc-cCCccCCCCCCCCcccCC
Q psy2696 36 NPLLCHVCDDYYTE----------PCLLSCYHSFCARCLRGRT-VDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 36 ~~l~C~iC~~~~~~----------P~~l~C~H~fC~~Cl~~~~-~~~~~~CP~Cr~~~~~~~ 86 (180)
+...|.+|.+.+.. -..|+|+|.|...||..|- .+....||.|++.+.+..
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 35789999988862 3578999999999999993 334457999999988776
No 53
>KOG4739|consensus
Probab=97.03 E-value=0.012 Score=44.72 Aligned_cols=54 Identities=28% Similarity=0.746 Sum_probs=36.3
Q ss_pred ccccccccccCC-Cceec-cccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCC
Q psy2696 37 PLLCHVCDDYYT-EPCLL-SCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPP 93 (180)
Q Consensus 37 ~l~C~iC~~~~~-~P~~l-~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~ 93 (180)
.+-|..|...-. +|-.| .|+|.||..|....... .||.|+..+........++.
T Consensus 3 ~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~---~C~lCkk~ir~i~l~~slp~ 58 (233)
T KOG4739|consen 3 FVHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPD---VCPLCKKSIRIIQLNRSLPT 58 (233)
T ss_pred eEEeccccccCCCCceeeeechhhhhhhhcccCCcc---ccccccceeeeeecccccch
Confidence 356777766554 55444 79999999998764322 79999998766553333444
No 54
>KOG4172|consensus
Probab=97.02 E-value=9.4e-05 Score=42.66 Aligned_cols=46 Identities=24% Similarity=0.489 Sum_probs=37.6
Q ss_pred cccccccccCCCceeccccc-cchHHhhhccccCCccCCCCCCCCcc
Q psy2696 38 LLCHVCDDYYTEPCLLSCYH-SFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 38 l~C~iC~~~~~~P~~l~C~H-~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
-.|.||.+-..+.++..||| -.|..|-.+.|.+....||.||.++.
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 56999999888888889999 56888977777767778999998753
No 55
>KOG1814|consensus
Probab=96.95 E-value=0.0058 Score=49.71 Aligned_cols=49 Identities=24% Similarity=0.446 Sum_probs=36.2
Q ss_pred CCCccccccccccCCC---ceeccccccchHHhhhccc----c---CCccCCCCCCCCc
Q psy2696 34 PKNPLLCHVCDDYYTE---PCLLSCYHSFCARCLRGRT----V---DGKLSCPICGQHT 82 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~---P~~l~C~H~fC~~Cl~~~~----~---~~~~~CP~Cr~~~ 82 (180)
....+.|.||++...- -+.+||+|.||..|+..+. . ...+.||.+.-..
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~ 239 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGS 239 (445)
T ss_pred HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcc
Confidence 3457789999999873 4678999999999998761 1 2457788655443
No 56
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.75 E-value=0.0011 Score=37.65 Aligned_cols=43 Identities=23% Similarity=0.565 Sum_probs=21.4
Q ss_pred cccccccCCC--ceec--cccccchHHhhhccccCCccCCCCCCCCc
Q psy2696 40 CHVCDDYYTE--PCLL--SCYHSFCARCLRGRTVDGKLSCPICGQHT 82 (180)
Q Consensus 40 C~iC~~~~~~--P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~ 82 (180)
||+|.+.++. -.+. +|+.-+|..|+.....+....||.||...
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 6788887742 2233 69999999999887666677899999764
No 57
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=96.74 E-value=0.012 Score=40.06 Aligned_cols=50 Identities=14% Similarity=0.273 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy2696 131 VRTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEVQR 180 (180)
Q Consensus 131 ~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~le~ 180 (180)
+...+..+......+..+.+..+..|...|+.++.+|++++..++.+|++
T Consensus 19 ~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~ 68 (127)
T smart00502 19 LEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEE 68 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667778888889999999999999999999999999999999999873
No 58
>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=96.73 E-value=0.0012 Score=37.87 Aligned_cols=41 Identities=27% Similarity=0.711 Sum_probs=30.9
Q ss_pred ccccccc--cCCCceecccc-----ccchHHhhhcccc-CCccCCCCCC
Q psy2696 39 LCHVCDD--YYTEPCLLSCY-----HSFCARCLRGRTV-DGKLSCPICG 79 (180)
Q Consensus 39 ~C~iC~~--~~~~P~~l~C~-----H~fC~~Cl~~~~~-~~~~~CP~Cr 79 (180)
.|.||++ .-.+|.+.||. |.+...||.+|.. .+...||.|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889987 33467788985 7899999999953 3456899984
No 59
>KOG1645|consensus
Probab=96.69 E-value=0.0039 Score=50.59 Aligned_cols=50 Identities=28% Similarity=0.662 Sum_probs=39.2
Q ss_pred ccccccccccCCCc-----eeccccccchHHhhhccccC-CccCCCCCCCCcccCC
Q psy2696 37 PLLCHVCDDYYTEP-----CLLSCYHSFCARCLRGRTVD-GKLSCPICGQHTLLKE 86 (180)
Q Consensus 37 ~l~C~iC~~~~~~P-----~~l~C~H~fC~~Cl~~~~~~-~~~~CP~Cr~~~~~~~ 86 (180)
..+||||++.+.-| ..+.|||.|-.+|+++|..+ ..-.||.|......+.
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~ 59 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ 59 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence 46899999999755 45679999999999999533 4567999977655444
No 60
>KOG0828|consensus
Probab=96.61 E-value=0.0012 Score=54.82 Aligned_cols=52 Identities=25% Similarity=0.370 Sum_probs=40.9
Q ss_pred CCCCCccccccccccCCC-----------------ceeccccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 32 CGPKNPLLCHVCDDYYTE-----------------PCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~-----------------P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
...+....|+||+....- -...||.|.|...|+.+|-......||+||..++
T Consensus 566 ~~~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 566 AFVRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred chhhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 345667789999987741 2344999999999999997767788999998764
No 61
>KOG3161|consensus
Probab=96.57 E-value=0.00075 Score=57.55 Aligned_cols=67 Identities=24% Similarity=0.392 Sum_probs=43.6
Q ss_pred CCCCCccccccccccCC----CceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHH
Q psy2696 32 CGPKNPLLCHVCDDYYT----EPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLI 101 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~----~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~ 101 (180)
..+.+.+.|+||...|. .|+.+-|||++|..|++..... .||.=+.....-+.....+.|+.+.+++
T Consensus 6 ~~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~---scp~~~De~~~~~~~~e~p~n~alL~~~ 76 (861)
T KOG3161|consen 6 LKWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA---SCPTKRDEDSSLMQLKEEPRNYALLRRE 76 (861)
T ss_pred hhhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc---cCCCCccccchhcChhhcchhHHHHHhh
Confidence 45678899999988885 6999999999999999876333 4662222222222222355666555443
No 62
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.42 E-value=0.0011 Score=41.05 Aligned_cols=49 Identities=27% Similarity=0.533 Sum_probs=22.6
Q ss_pred ccccccccccCC-C---ceec----cccccchHHhhhcccc----C------CccCCCCCCCCcccC
Q psy2696 37 PLLCHVCDDYYT-E---PCLL----SCYHSFCARCLRGRTV----D------GKLSCPICGQHTLLK 85 (180)
Q Consensus 37 ~l~C~iC~~~~~-~---P~~l----~C~H~fC~~Cl~~~~~----~------~~~~CP~Cr~~~~~~ 85 (180)
++.|+||...+. + |... .|+..|...||.+|.. . ....||.|+..+...
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 578999998865 2 3322 5999999999999821 1 124699999877543
No 63
>KOG4265|consensus
Probab=96.17 E-value=0.004 Score=49.72 Aligned_cols=48 Identities=25% Similarity=0.615 Sum_probs=38.1
Q ss_pred CCccccccccccCCCceeccccc-cchHHhhhccccCCccCCCCCCCCcc
Q psy2696 35 KNPLLCHVCDDYYTEPCLLSCYH-SFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~~l~C~H-~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
...-.|-||+...+|-.+|||.| -.|..|.+.... ....||.||..+.
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRY-QTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHH-hhcCCCccccchH
Confidence 44678999999999999999999 468889876531 1236999999764
No 64
>KOG2817|consensus
Probab=96.11 E-value=0.0028 Score=51.24 Aligned_cols=51 Identities=24% Similarity=0.527 Sum_probs=39.5
Q ss_pred CCCccccccccccCC---CceeccccccchHHhhhccccCCc--cCCCCCCCCccc
Q psy2696 34 PKNPLLCHVCDDYYT---EPCLLSCYHSFCARCLRGRTVDGK--LSCPICGQHTLL 84 (180)
Q Consensus 34 l~~~l~C~iC~~~~~---~P~~l~C~H~fC~~Cl~~~~~~~~--~~CP~Cr~~~~~ 84 (180)
....+.|||=.+--. .|+.|.|||.++.+-+.+...++. +.||.|-.....
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~ 386 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLA 386 (394)
T ss_pred ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCH
Confidence 345678998655443 589999999999999999866666 999999665543
No 65
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.98 E-value=0.012 Score=45.78 Aligned_cols=55 Identities=18% Similarity=0.419 Sum_probs=42.2
Q ss_pred CCCCCccccccccccCCC--c-e-eccccccchHHhhhccccCCccCCCCCCCCcccCCCC
Q psy2696 32 CGPKNPLLCHVCDDYYTE--P-C-LLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGS 88 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~--P-~-~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~ 88 (180)
..-...+.|||....|+. + + +.+|||+|+..++.... ....||.|...+...+.+
T Consensus 108 ~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 108 DNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEEDII 166 (260)
T ss_pred ccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCCEE
Confidence 345668999999999964 2 2 34999999999999874 344699999998866533
No 66
>KOG3800|consensus
Probab=95.82 E-value=0.0096 Score=46.31 Aligned_cols=48 Identities=27% Similarity=0.591 Sum_probs=36.0
Q ss_pred cccccc-ccCCCce----eccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 39 LCHVCD-DYYTEPC----LLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 39 ~C~iC~-~~~~~P~----~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
.||.|. +.|.+|- +-+|+|..|.+|+.....-+...||.|...+....
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence 488884 4555662 22899999999999987777888999977654443
No 67
>KOG1941|consensus
Probab=95.68 E-value=0.003 Score=51.03 Aligned_cols=44 Identities=34% Similarity=0.739 Sum_probs=36.4
Q ss_pred ccccccccccCC-Cc---eeccccccchHHhhhccc-cCCccCCCCCCC
Q psy2696 37 PLLCHVCDDYYT-EP---CLLSCYHSFCARCLRGRT-VDGKLSCPICGQ 80 (180)
Q Consensus 37 ~l~C~iC~~~~~-~P---~~l~C~H~fC~~Cl~~~~-~~~~~~CP~Cr~ 80 (180)
.+.|..|++.+- .| .-|||.|.|..+|+..+. .++..+||.||.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 689999999985 23 456999999999999874 557789999993
No 68
>KOG4275|consensus
Probab=95.47 E-value=0.0029 Score=49.22 Aligned_cols=44 Identities=32% Similarity=0.697 Sum_probs=35.0
Q ss_pred CCCccccccccccCCCceecccccc-chHHhhhccccCCccCCCCCCCCc
Q psy2696 34 PKNPLLCHVCDDYYTEPCLLSCYHS-FCARCLRGRTVDGKLSCPICGQHT 82 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P~~l~C~H~-fC~~Cl~~~~~~~~~~CP~Cr~~~ 82 (180)
+...-.|.||++...+-.+|+|||. -|.+|-.+.. .||+||..+
T Consensus 297 ~~~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~-----eCPICRqyi 341 (350)
T KOG4275|consen 297 LATRRLCAICMDAPRDCVFLECGHMVTCTKCGKRMN-----ECPICRQYI 341 (350)
T ss_pred hhHHHHHHHHhcCCcceEEeecCcEEeehhhccccc-----cCchHHHHH
Confidence 3447889999999999999999994 4777865542 699998754
No 69
>KOG1493|consensus
Probab=95.39 E-value=0.0059 Score=37.83 Aligned_cols=46 Identities=26% Similarity=0.670 Sum_probs=34.1
Q ss_pred ccccccccCC-----------C-ceec-cccccchHHhhhcccc--CCccCCCCCCCCccc
Q psy2696 39 LCHVCDDYYT-----------E-PCLL-SCYHSFCARCLRGRTV--DGKLSCPICGQHTLL 84 (180)
Q Consensus 39 ~C~iC~~~~~-----------~-P~~l-~C~H~fC~~Cl~~~~~--~~~~~CP~Cr~~~~~ 84 (180)
.|.||.-.|+ + |.++ -|.|.|-..||.+|.. +....||.||...+.
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 6777766665 2 5555 4999999999999853 345789999987653
No 70
>KOG1571|consensus
Probab=95.12 E-value=0.009 Score=47.84 Aligned_cols=49 Identities=31% Similarity=0.596 Sum_probs=35.5
Q ss_pred CCCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCccc
Q psy2696 32 CGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLL 84 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~ 84 (180)
..+-....|.||.+.+.+.+.+||||.-| |..-. .....||+||.....
T Consensus 300 ~~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs--~~l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCS--KHLPQCPVCRQRIRL 348 (355)
T ss_pred cccCCCCceEEecCCccceeeecCCcEEE--chHHH--hhCCCCchhHHHHHH
Confidence 34445678999999999999999999876 54332 222349999987643
No 71
>KOG3002|consensus
Probab=95.09 E-value=0.045 Score=43.41 Aligned_cols=64 Identities=19% Similarity=0.300 Sum_probs=46.1
Q ss_pred CCCCCCCccccccccccCCCce-eccccccchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHHH
Q psy2696 30 TSCGPKNPLLCHVCDDYYTEPC-LLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEVA 104 (180)
Q Consensus 30 ~~~~l~~~l~C~iC~~~~~~P~-~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~~ 104 (180)
....+-+.+.||+|.+.+..|+ ..+=||..|.+|-.+... .||.|+..+. + ..+..+..+++..
T Consensus 41 ~~~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~----~CP~Cr~~~g--~-----~R~~amEkV~e~~ 105 (299)
T KOG3002|consen 41 VTLLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSN----KCPTCRLPIG--N-----IRCRAMEKVAEAV 105 (299)
T ss_pred ccccchhhccCchhhccCcccceecCCCcEehhhhhhhhcc----cCCccccccc--c-----HHHHHHHHHHHhc
Confidence 3455677999999999999885 335689999999865433 6999998765 2 1455566665543
No 72
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.93 E-value=0.014 Score=46.54 Aligned_cols=52 Identities=15% Similarity=0.316 Sum_probs=38.6
Q ss_pred CCCccccccccccCCC----ceeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 34 PKNPLLCHVCDDYYTE----PCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~----P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
++++. ||+|.+..+. -.-.+||--+|.-|+.....+-...||.||......+
T Consensus 12 deed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 12 DEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 34444 9999999863 2345799899999988765555568999999876654
No 73
>KOG3039|consensus
Probab=94.91 E-value=0.019 Score=43.73 Aligned_cols=50 Identities=16% Similarity=0.272 Sum_probs=39.6
Q ss_pred CccccccccccCCCc----eeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 36 NPLLCHVCDDYYTEP----CLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P----~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
....||+|.+.+.+. +.-||||.||..|+++..... ..||+|......++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D-~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD-MVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc-ccccCCCCcCcccc
Confidence 567999999999874 344899999999999874433 35999988877665
No 74
>KOG2932|consensus
Probab=94.32 E-value=0.021 Score=44.86 Aligned_cols=43 Identities=28% Similarity=0.748 Sum_probs=31.5
Q ss_pred ccccccccccCCC-ceeccccccchHHhhhccccCCccCCCCCCCCc
Q psy2696 37 PLLCHVCDDYYTE-PCLLSCYHSFCARCLRGRTVDGKLSCPICGQHT 82 (180)
Q Consensus 37 ~l~C~iC~~~~~~-P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~ 82 (180)
.-.|.-|...... -+.+||.|.||++|...-. ...||.|-..+
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~---dK~Cp~C~d~V 133 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARSDS---DKICPLCDDRV 133 (389)
T ss_pred eEeecccCCcceeeecccccchhhhhhhhhcCc---cccCcCcccHH
Confidence 4578888766654 4678999999999986432 44799996544
No 75
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.28 E-value=0.011 Score=53.03 Aligned_cols=52 Identities=21% Similarity=0.489 Sum_probs=38.8
Q ss_pred CCCCCccccccccccCC--C---c-eec-cccccchHHhhhccc-cCCccCCCCCCCCcc
Q psy2696 32 CGPKNPLLCHVCDDYYT--E---P-CLL-SCYHSFCARCLRGRT-VDGKLSCPICGQHTL 83 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~--~---P-~~l-~C~H~fC~~Cl~~~~-~~~~~~CP~Cr~~~~ 83 (180)
......-.|+||-.++. + | +.. .|.|.|...|+.+|. ..+.-.||.||...+
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34455668999998886 1 3 222 499999999999995 446778999997654
No 76
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.14 E-value=0.036 Score=38.27 Aligned_cols=51 Identities=22% Similarity=0.471 Sum_probs=41.3
Q ss_pred CccccccccccCCCceec-c---ccccchHHhhhcccc--CCccCCCCCCCCcccCC
Q psy2696 36 NPLLCHVCDDYYTEPCLL-S---CYHSFCARCLRGRTV--DGKLSCPICGQHTLLKE 86 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P~~l-~---C~H~fC~~Cl~~~~~--~~~~~CP~Cr~~~~~~~ 86 (180)
..-.|.||.+...+...| | ||-.+|..|.-..|. +.-..||+|+.+.....
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 456899999999999988 3 999999999887663 35578999998876543
No 77
>KOG3579|consensus
Probab=94.14 E-value=0.054 Score=42.17 Aligned_cols=43 Identities=30% Similarity=0.850 Sum_probs=32.5
Q ss_pred CCccccccccccCCCceeccc----cccchHHhhhcc----ccCCccCCCC
Q psy2696 35 KNPLLCHVCDDYYTEPCLLSC----YHSFCARCLRGR----TVDGKLSCPI 77 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~~l~C----~H~fC~~Cl~~~----~~~~~~~CP~ 77 (180)
...|.|.+|.+.+.|-.+.-| .|.||.-|-... ...+.+.||.
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPS 316 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPS 316 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCC
Confidence 445999999999998877765 699999997654 2235677874
No 78
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=93.91 E-value=0.035 Score=34.79 Aligned_cols=32 Identities=28% Similarity=0.526 Sum_probs=26.0
Q ss_pred cccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 54 SCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 54 ~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
-|.|.|...||.+|... ...||.+++...+.+
T Consensus 53 ~CnHaFH~HCI~rWL~T-k~~CPld~q~w~~~~ 84 (88)
T COG5194 53 VCNHAFHDHCIYRWLDT-KGVCPLDRQTWVLAD 84 (88)
T ss_pred ecchHHHHHHHHHHHhh-CCCCCCCCceeEEec
Confidence 49999999999998554 557999998876654
No 79
>KOG4692|consensus
Probab=93.81 E-value=0.036 Score=44.44 Aligned_cols=50 Identities=18% Similarity=0.462 Sum_probs=39.5
Q ss_pred CCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 33 GPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 33 ~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
...++-.||||---..+.++-||+|--|..||.+..-+ ...|-.|+..+.
T Consensus 418 p~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~ 467 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVI 467 (489)
T ss_pred CCcccccCcceecccchhhccCCCCchHHHHHHHHHhc-CCeeeEecceee
Confidence 44678899999887777888899999999999886432 336888987665
No 80
>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=93.69 E-value=0.054 Score=38.57 Aligned_cols=20 Identities=25% Similarity=0.640 Sum_probs=16.5
Q ss_pred CccccccccccCCCceeccc
Q psy2696 36 NPLLCHVCDDYYTEPCLLSC 55 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P~~l~C 55 (180)
|+.+||||++..-+.+.|-|
T Consensus 1 ed~~CpICme~PHNAVLLlC 20 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLC 20 (162)
T ss_pred CCccCceeccCCCceEEEEe
Confidence 46799999999988887743
No 81
>KOG1001|consensus
Probab=93.64 E-value=0.035 Score=48.81 Aligned_cols=48 Identities=29% Similarity=0.730 Sum_probs=38.8
Q ss_pred cccccccccCCCceeccccccchHHhhhccccC-CccCCCCCCCCcccCC
Q psy2696 38 LLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVD-GKLSCPICGQHTLLKE 86 (180)
Q Consensus 38 l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~-~~~~CP~Cr~~~~~~~ 86 (180)
..|++|.+ ...+.+.+|+|.||..|+...... ....||.|+..+....
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 79999999 778888899999999999887433 3347999998765543
No 82
>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=93.63 E-value=0.034 Score=36.90 Aligned_cols=33 Identities=18% Similarity=0.490 Sum_probs=26.5
Q ss_pred CCCccccccccccCCCce--eccccccchHHhhhc
Q psy2696 34 PKNPLLCHVCDDYYTEPC--LLSCYHSFCARCLRG 66 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P~--~l~C~H~fC~~Cl~~ 66 (180)
+.+.-.|++|.+.+.++. ..||||.|...|+.+
T Consensus 75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred ECCCCCccCcCCcCCCceEEEeCCCeEEecccccC
Confidence 455678999999998653 559999999999753
No 83
>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=93.60 E-value=0.027 Score=31.65 Aligned_cols=36 Identities=33% Similarity=0.692 Sum_probs=21.5
Q ss_pred Cceecccc-ccchHHhhhccccCCccCCCCCCCCcccC
Q psy2696 49 EPCLLSCY-HSFCARCLRGRTVDGKLSCPICGQHTLLK 85 (180)
Q Consensus 49 ~P~~l~C~-H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~ 85 (180)
+--.+.|. |..|..|+.... ..+-.||.|+.+++.+
T Consensus 12 ~k~Li~C~dHYLCl~CLt~ml-~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 12 NKGLIKCSDHYLCLNCLTLML-SRSDRCPICGKPLPTK 48 (50)
T ss_dssp -SSEEE-SS-EEEHHHHHHT--SSSSEETTTTEE----
T ss_pred CCCeeeecchhHHHHHHHHHh-ccccCCCcccCcCccc
Confidence 34455677 899999998764 3445699999876543
No 84
>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=92.53 E-value=0.058 Score=30.97 Aligned_cols=43 Identities=28% Similarity=0.511 Sum_probs=21.7
Q ss_pred cccccccccCCCce-eccccccchHHh---hhccccCCccCCCCCCC
Q psy2696 38 LLCHVCDDYYTEPC-LLSCYHSFCARC---LRGRTVDGKLSCPICGQ 80 (180)
Q Consensus 38 l~C~iC~~~~~~P~-~l~C~H~fC~~C---l~~~~~~~~~~CP~Cr~ 80 (180)
|.||+-......|. ...|.|.-|-+- |........+.||.|.+
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcC
Confidence 68999999999997 447999876543 22223456689999975
No 85
>KOG4362|consensus
Probab=92.38 E-value=0.061 Score=46.91 Aligned_cols=55 Identities=27% Similarity=0.557 Sum_probs=45.4
Q ss_pred CCCCCccccccccccCCCceeccccccchHHhhhcc--ccCCccCCCCCCCCcccCC
Q psy2696 32 CGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGR--TVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~--~~~~~~~CP~Cr~~~~~~~ 86 (180)
..+...+.|+||...+.+|..+.|-|.||..|+... +..+...||.|+.......
T Consensus 16 ~~~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 16 NAMQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred HHHhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 345668899999999999999999999999999875 3445788999997776654
No 86
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=92.33 E-value=0.31 Score=34.63 Aligned_cols=25 Identities=28% Similarity=0.630 Sum_probs=17.5
Q ss_pred ccchHHhhhccccCCccCCCCCCCCcccC
Q psy2696 57 HSFCARCLRGRTVDGKLSCPICGQHTLLK 85 (180)
Q Consensus 57 H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~ 85 (180)
+.||.+|=.+. ...||.|...+...
T Consensus 28 ~~fC~kCG~~t----I~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 28 EKFCSKCGAKT----ITSCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHhhHHH----HHHCcCCCCCCCCc
Confidence 56999996654 33699998876543
No 87
>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=92.29 E-value=0.25 Score=37.68 Aligned_cols=46 Identities=37% Similarity=0.889 Sum_probs=35.2
Q ss_pred cccccccc-ccCCCc--eec--c-ccccchHHhhhccccCCccCCC--CCCCCc
Q psy2696 37 PLLCHVCD-DYYTEP--CLL--S-CYHSFCARCLRGRTVDGKLSCP--ICGQHT 82 (180)
Q Consensus 37 ~l~C~iC~-~~~~~P--~~l--~-C~H~fC~~Cl~~~~~~~~~~CP--~Cr~~~ 82 (180)
+-.||+|. +.|-+| ++| | |-|-.|.+|+.+....+...|| .|...+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 45899995 455566 233 5 9999999999998888888999 676544
No 88
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.81 E-value=0.097 Score=41.95 Aligned_cols=53 Identities=21% Similarity=0.501 Sum_probs=40.9
Q ss_pred CCCCCCCccccccccccCCCceeccccccchHHhhhccc-cCCccCCCCCCCCc
Q psy2696 30 TSCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRT-VDGKLSCPICGQHT 82 (180)
Q Consensus 30 ~~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~-~~~~~~CP~Cr~~~ 82 (180)
..+.+++...|-||-.-..-...+||+|-.|--|--+.. .-....||.|+...
T Consensus 54 addtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 54 ADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 345678899999999988877889999999999975531 11344699999864
No 89
>KOG2114|consensus
Probab=91.39 E-value=0.12 Score=45.93 Aligned_cols=44 Identities=27% Similarity=0.563 Sum_probs=35.8
Q ss_pred CCCCccccccccccCCCce-eccccccchHHhhhccccCCccCCCCCCC
Q psy2696 33 GPKNPLLCHVCDDYYTEPC-LLSCYHSFCARCLRGRTVDGKLSCPICGQ 80 (180)
Q Consensus 33 ~l~~~l~C~iC~~~~~~P~-~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~ 80 (180)
.+.+.-.|+.|...+.-|. ...|||.|...|++ .+...||.|+.
T Consensus 836 ~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP~C~~ 880 (933)
T KOG2114|consen 836 QIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCPKCLP 880 (933)
T ss_pred ceeeeeeecccCCccccceeeeecccHHHHHhhc----cCcccCCccch
Confidence 3444579999999999996 55899999999998 34457999976
No 90
>KOG1940|consensus
Probab=90.88 E-value=0.12 Score=40.37 Aligned_cols=43 Identities=30% Similarity=0.891 Sum_probs=35.4
Q ss_pred ccccccccccCC----CceeccccccchHHhhhccccCCccCCCCCCC
Q psy2696 37 PLLCHVCDDYYT----EPCLLSCYHSFCARCLRGRTVDGKLSCPICGQ 80 (180)
Q Consensus 37 ~l~C~iC~~~~~----~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~ 80 (180)
..-||+|.+.+- .|..++|||+.-..|++.....+ ..||.|..
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence 344999987764 57889999999999999876666 89999977
No 91
>KOG1812|consensus
Probab=90.64 E-value=0.16 Score=41.86 Aligned_cols=51 Identities=25% Similarity=0.590 Sum_probs=35.0
Q ss_pred CccccccccccCCCc----eeccccccchHHhhhcc-----ccCCccCCCC--CCCCcccCC
Q psy2696 36 NPLLCHVCDDYYTEP----CLLSCYHSFCARCLRGR-----TVDGKLSCPI--CGQHTLLKE 86 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P----~~l~C~H~fC~~Cl~~~-----~~~~~~~CP~--Cr~~~~~~~ 86 (180)
....|.||...+..+ ....|+|-||..|+.+. +.+....||. |...++...
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~ 206 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLES 206 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHH
Confidence 367899999555433 24569999999999876 3456788985 544444433
No 92
>KOG0826|consensus
Probab=90.43 E-value=0.19 Score=39.94 Aligned_cols=46 Identities=26% Similarity=0.524 Sum_probs=36.2
Q ss_pred CCccccccccccCCCceecc-ccccchHHhhhccccCCccCCCCCCCC
Q psy2696 35 KNPLLCHVCDDYYTEPCLLS-CYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~~l~-C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
.+.-.||+|...-.+|..+. -|-.||..|+-.+.. ....||+-..+
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p 344 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYP 344 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCc
Confidence 34578999999999998886 599999999998754 34469875544
No 93
>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=89.92 E-value=0.33 Score=26.87 Aligned_cols=39 Identities=23% Similarity=0.563 Sum_probs=21.4
Q ss_pred cccccccCCCceecc---ccccchHHhhhccccCCc-cCCCCC
Q psy2696 40 CHVCDDYYTEPCLLS---CYHSFCARCLRGRTVDGK-LSCPIC 78 (180)
Q Consensus 40 C~iC~~~~~~P~~l~---C~H~fC~~Cl~~~~~~~~-~~CP~C 78 (180)
|.+|.++...-..-+ |+-.+...|+..++.... ..||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 667888777665554 887888899988865533 369987
No 94
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=89.81 E-value=0.39 Score=34.33 Aligned_cols=51 Identities=24% Similarity=0.426 Sum_probs=36.8
Q ss_pred CCccccccccccCCCceeccccc-----cchHHhhhccc-cCCccCCCCCCCCcccCC
Q psy2696 35 KNPLLCHVCDDYYTEPCLLSCYH-----SFCARCLRGRT-VDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~~l~C~H-----~fC~~Cl~~~~-~~~~~~CP~Cr~~~~~~~ 86 (180)
...-.|.||.+... +-.-||.. ....+|+++|. .++...|+.|+.......
T Consensus 6 ~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~ 62 (162)
T PHA02825 6 LMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKK 62 (162)
T ss_pred CCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEE
Confidence 34578999988764 33346554 44889999994 446789999999886654
No 95
>KOG3970|consensus
Probab=88.89 E-value=0.72 Score=34.89 Aligned_cols=48 Identities=29% Similarity=0.706 Sum_probs=37.1
Q ss_pred cccccccccCC--CceeccccccchHHhhhcccc-------CCccCCCCCCCCcccC
Q psy2696 38 LLCHVCDDYYT--EPCLLSCYHSFCARCLRGRTV-------DGKLSCPICGQHTLLK 85 (180)
Q Consensus 38 l~C~iC~~~~~--~P~~l~C~H~fC~~Cl~~~~~-------~~~~~CP~Cr~~~~~~ 85 (180)
--|..|.-.+. +-+.|-|-|.|.-+|+..+.. -....||.|...+-.+
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 45888888775 567889999999999998722 1468899998876444
No 96
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.76 E-value=0.29 Score=38.81 Aligned_cols=50 Identities=22% Similarity=0.487 Sum_probs=38.5
Q ss_pred CCCCccccccccccCC---CceeccccccchHHhhhccccC--CccCCCCCCCCc
Q psy2696 33 GPKNPLLCHVCDDYYT---EPCLLSCYHSFCARCLRGRTVD--GKLSCPICGQHT 82 (180)
Q Consensus 33 ~l~~~l~C~iC~~~~~---~P~~l~C~H~fC~~Cl~~~~~~--~~~~CP~Cr~~~ 82 (180)
.....+.||+=.+.-. .|+.+.|||.+-..-+.....+ .++.||.|-...
T Consensus 332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~ 386 (396)
T COG5109 332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS 386 (396)
T ss_pred cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence 5667889998666553 5889999999999998877443 468999995544
No 97
>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=88.74 E-value=0.24 Score=40.29 Aligned_cols=32 Identities=25% Similarity=0.716 Sum_probs=24.6
Q ss_pred ccccchHHhhhcc------------ccCCccCCCCCCCCcccCC
Q psy2696 55 CYHSFCARCLRGR------------TVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 55 C~H~fC~~Cl~~~------------~~~~~~~CP~Cr~~~~~~~ 86 (180)
|..-+|.+|+.+| |..+...||.||+.+...+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 5556799999988 3346789999999876654
No 98
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=88.64 E-value=0.079 Score=32.52 Aligned_cols=41 Identities=24% Similarity=0.420 Sum_probs=21.4
Q ss_pred ccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
++.||.|...+. +.. ++.+|..|-..+. ....||.|...+.
T Consensus 1 e~~CP~C~~~L~-~~~---~~~~C~~C~~~~~--~~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELE-WQG---GHYHCEACQKDYK--KEAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEE-EET---TEEEETTT--EEE--EEEE-TTT-SB-E
T ss_pred CCcCCCCCCccE-EeC---CEEECccccccce--ecccCCCcccHHH
Confidence 468999988754 222 7888888877652 2336999987654
No 99
>PHA03096 p28-like protein; Provisional
Probab=88.26 E-value=0.22 Score=39.28 Aligned_cols=30 Identities=20% Similarity=0.435 Sum_probs=23.6
Q ss_pred cccccccccCCC-c------eec-cccccchHHhhhcc
Q psy2696 38 LLCHVCDDYYTE-P------CLL-SCYHSFCARCLRGR 67 (180)
Q Consensus 38 l~C~iC~~~~~~-P------~~l-~C~H~fC~~Cl~~~ 67 (180)
-.|.||++.... | -+| .|.|.||..|+..|
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~w 216 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIW 216 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHH
Confidence 679999987752 1 233 59999999999988
No 100
>KOG1100|consensus
Probab=87.73 E-value=0.32 Score=36.58 Aligned_cols=39 Identities=31% Similarity=0.743 Sum_probs=28.9
Q ss_pred cccccccCCCceeccccc-cchHHhhhccccCCccCCCCCCCCcc
Q psy2696 40 CHVCDDYYTEPCLLSCYH-SFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 40 C~iC~~~~~~P~~l~C~H-~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
|-.|.+.-..-..+||.| .+|..|=.. ...||.|+....
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES-----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc-----CccCCCCcChhh
Confidence 888888777777889998 567777432 345999987543
No 101
>PRK00420 hypothetical protein; Validated
Probab=87.12 E-value=7.1 Score=26.39 Aligned_cols=22 Identities=14% Similarity=0.409 Sum_probs=14.2
Q ss_pred CCCCCCcCccc---ccccccccCCH
Q psy2696 108 NPPCANCDKRD---RNAMYFCSTCA 129 (180)
Q Consensus 108 ~~~c~~C~~h~---~~~~~~C~~C~ 129 (180)
..+|+.|...- .....||..|+
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg 47 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHG 47 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCC
Confidence 34677777541 34567888887
No 102
>KOG3039|consensus
Probab=86.32 E-value=0.46 Score=36.44 Aligned_cols=35 Identities=11% Similarity=-0.018 Sum_probs=31.5
Q ss_pred CCCCCccccccccccCCCceeccccccchHHhhhc
Q psy2696 32 CGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRG 66 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~ 66 (180)
+++.+.-.|+.|++.+.+|++.+=||.||..||-+
T Consensus 38 DsiK~FdcCsLtLqPc~dPvit~~GylfdrEaILe 72 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPCRDPVITPDGYLFDREAILE 72 (303)
T ss_pred cccCCcceeeeecccccCCccCCCCeeeeHHHHHH
Confidence 46777889999999999999999999999999864
No 103
>PHA02862 5L protein; Provisional
Probab=85.19 E-value=0.62 Score=32.78 Aligned_cols=48 Identities=21% Similarity=0.450 Sum_probs=35.7
Q ss_pred cccccccccCCCceeccccc-----cchHHhhhccc-cCCccCCCCCCCCcccCC
Q psy2696 38 LLCHVCDDYYTEPCLLSCYH-----SFCARCLRGRT-VDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 38 l~C~iC~~~~~~P~~l~C~H-----~fC~~Cl~~~~-~~~~~~CP~Cr~~~~~~~ 86 (180)
-.|.||.+.-.+. .-||.. ....+||.+|. ..+...|+.|+.....+.
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 3699999886544 356543 56789999994 457789999999887654
No 104
>KOG1952|consensus
Probab=85.08 E-value=0.47 Score=42.43 Aligned_cols=48 Identities=25% Similarity=0.661 Sum_probs=36.3
Q ss_pred CccccccccccCC--Ccee--ccccccchHHhhhccc------cCCccCCCCCCCCcc
Q psy2696 36 NPLLCHVCDDYYT--EPCL--LSCYHSFCARCLRGRT------VDGKLSCPICGQHTL 83 (180)
Q Consensus 36 ~~l~C~iC~~~~~--~P~~--l~C~H~fC~~Cl~~~~------~~~~~~CP~Cr~~~~ 83 (180)
....|.||.+..+ .|+- -.|-|.|.+.||..|- .+..+.||.|+....
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 4568999999886 3431 1588999999999992 236799999985443
No 105
>PF12773 DZR: Double zinc ribbon
Probab=84.74 E-value=0.74 Score=26.03 Aligned_cols=19 Identities=32% Similarity=0.926 Sum_probs=11.0
Q ss_pred CCCCcCcccccccccccCC
Q psy2696 110 PCANCDKRDRNAMYFCSTC 128 (180)
Q Consensus 110 ~c~~C~~h~~~~~~~C~~C 128 (180)
.|..|.........||..|
T Consensus 31 ~C~~Cg~~~~~~~~fC~~C 49 (50)
T PF12773_consen 31 ICPNCGAENPPNAKFCPNC 49 (50)
T ss_pred CCcCCcCCCcCCcCccCcc
Confidence 4566665555555666655
No 106
>KOG1815|consensus
Probab=84.11 E-value=0.74 Score=38.72 Aligned_cols=50 Identities=30% Similarity=0.648 Sum_probs=35.9
Q ss_pred CCCccccccccccCCC-ceeccccccchHHhhhccc-----cC--CccCCC--CCCCCcc
Q psy2696 34 PKNPLLCHVCDDYYTE-PCLLSCYHSFCARCLRGRT-----VD--GKLSCP--ICGQHTL 83 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~-P~~l~C~H~fC~~Cl~~~~-----~~--~~~~CP--~Cr~~~~ 83 (180)
......|.||.+.+.. ...++|||.||..|+..+. .+ ..+.|| .|...+.
T Consensus 67 ~~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~ 126 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVG 126 (444)
T ss_pred CCccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCC
Confidence 3456899999999985 5677899999999998862 11 126777 4655443
No 107
>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=83.98 E-value=0.62 Score=22.82 Aligned_cols=8 Identities=25% Similarity=0.667 Sum_probs=3.8
Q ss_pred cccccccC
Q psy2696 40 CHVCDDYY 47 (180)
Q Consensus 40 C~iC~~~~ 47 (180)
||.|....
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 45554444
No 108
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=83.56 E-value=0.53 Score=24.86 Aligned_cols=17 Identities=29% Similarity=0.577 Sum_probs=14.3
Q ss_pred CcCcccc-cccccccCCH
Q psy2696 113 NCDKRDR-NAMYFCSTCA 129 (180)
Q Consensus 113 ~C~~h~~-~~~~~C~~C~ 129 (180)
.|+.|++ ++.+||.+|+
T Consensus 2 ~C~~H~~~~~~~fC~~~~ 19 (39)
T cd00021 2 LCDEHGEEPLSLFCETDR 19 (39)
T ss_pred CCCccCCcceEEEeCccC
Confidence 5888966 8899999986
No 109
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=83.25 E-value=0.54 Score=25.49 Aligned_cols=18 Identities=22% Similarity=0.770 Sum_probs=14.0
Q ss_pred CCcCccccc-ccccccCCH
Q psy2696 112 ANCDKRDRN-AMYFCSTCA 129 (180)
Q Consensus 112 ~~C~~h~~~-~~~~C~~C~ 129 (180)
..|..|... +.+||.+|.
T Consensus 4 ~~C~~H~~~~~~~~C~~C~ 22 (42)
T PF00643_consen 4 PKCPEHPEEPLSLFCEDCN 22 (42)
T ss_dssp SB-SSTTTSBEEEEETTTT
T ss_pred ccCccCCccceEEEecCCC
Confidence 578888665 899999986
No 110
>KOG4185|consensus
Probab=83.22 E-value=0.24 Score=39.15 Aligned_cols=45 Identities=29% Similarity=0.806 Sum_probs=36.2
Q ss_pred ccccccccccCC------Cceecc--------ccccchHHhhhccccCCccCCCCCCCC
Q psy2696 37 PLLCHVCDDYYT------EPCLLS--------CYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 37 ~l~C~iC~~~~~------~P~~l~--------C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
.-.|.+|...|. .|.++. |||+.|..|+.....+..+.||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 357889988886 377887 999999999998755544899999874
No 111
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=82.72 E-value=1.9 Score=26.58 Aligned_cols=44 Identities=27% Similarity=0.696 Sum_probs=29.2
Q ss_pred cccccccCC----CceeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 40 CHVCDDYYT----EPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 40 C~iC~~~~~----~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
|--|...+- +..+..=.|+||.+|.+....+ .||.|...+.-+.
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~g---~CPnCGGelv~RP 55 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRLHG---LCPNCGGELVARP 55 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhhcC---cCCCCCchhhcCc
Confidence 444554442 3444455689999999865443 6999998876655
No 112
>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=82.63 E-value=2.1 Score=25.00 Aligned_cols=45 Identities=29% Similarity=0.616 Sum_probs=30.1
Q ss_pred cccccccccCC----CceeccccccchHHhhhccccCCccCCCCCCCCcccC
Q psy2696 38 LLCHVCDDYYT----EPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLK 85 (180)
Q Consensus 38 l~C~iC~~~~~----~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~ 85 (180)
-.|-.|...+. +..+.+=..+||.+|.+....+ .||.|+..+..+
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~---~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNG---VCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcC---cCcCCCCccccC
Confidence 45666766664 2344444468999999876433 699998877554
No 113
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=82.54 E-value=0.98 Score=28.24 Aligned_cols=47 Identities=23% Similarity=0.612 Sum_probs=20.4
Q ss_pred ccccccccccCC-----Cceec--cccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 37 PLLCHVCDDYYT-----EPCLL--SCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 37 ~l~C~iC~~~~~-----~P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
.-.|.||.+..- ++... .|+-..|..|.+--...+...||.|+....
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 457999998774 33322 588889999987544567778999997654
No 114
>KOG2930|consensus
Probab=82.53 E-value=0.6 Score=30.85 Aligned_cols=27 Identities=22% Similarity=0.598 Sum_probs=21.5
Q ss_pred cccccchHHhhhccccCCccCCCCCCCC
Q psy2696 54 SCYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 54 ~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
.|.|.|...||.+|... ...||.|...
T Consensus 80 ~CNHaFH~hCisrWlkt-r~vCPLdn~e 106 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKT-RNVCPLDNKE 106 (114)
T ss_pred ecchHHHHHHHHHHHhh-cCcCCCcCcc
Confidence 59999999999998543 4469998664
No 115
>PF12126 DUF3583: Protein of unknown function (DUF3583); InterPro: IPR021978 This domain is found in eukaryotes, and is typically between 302 and 338 amino acids in length. It is found in association with PF00097 from PFAM and PF00643 from PFAM. Most members are promyelocytic leukemia proteins, and this family lies towards the C terminus.
Probab=82.43 E-value=9.6 Score=30.14 Aligned_cols=48 Identities=10% Similarity=0.184 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2696 132 RTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEVQ 179 (180)
Q Consensus 132 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~le 179 (180)
...+..++..+..|...-......|++..+.+...+...+++||+.|+
T Consensus 16 ~aahaqm~sav~qL~~~r~~teelIr~rVrq~V~hVqaqEreLLe~v~ 63 (324)
T PF12126_consen 16 GAAHAQMRSAVSQLGRARADTEELIRARVRQVVAHVQAQERELLEAVE 63 (324)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666677777777777788888889999999999999998876
No 116
>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=81.82 E-value=1 Score=25.99 Aligned_cols=38 Identities=21% Similarity=0.670 Sum_probs=22.7
Q ss_pred CccccccccccCCCceeccccccchHHhhhccc-cCCccCCCCCCC
Q psy2696 36 NPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRT-VDGKLSCPICGQ 80 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~-~~~~~~CP~Cr~ 80 (180)
+.+.||.|.+.|+... +..-+...-. ....+.||.|..
T Consensus 1 ~~f~CP~C~~~~~~~~-------L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 1 DSFTCPYCGKGFSESS-------LVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred CCcCCCCCCCccCHHH-------HHHHHHhHCcCCCCCccCCCchh
Confidence 3578999998655432 3333443332 234688999975
No 117
>KOG2462|consensus
Probab=80.53 E-value=1.5 Score=34.25 Aligned_cols=52 Identities=25% Similarity=0.623 Sum_probs=33.7
Q ss_pred CCccccccccccCCC-c--------eeccccccchHHhhhccc----------cCCccCCCCCCCCcccCC
Q psy2696 35 KNPLLCHVCDDYYTE-P--------CLLSCYHSFCARCLRGRT----------VDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~-P--------~~l~C~H~fC~~Cl~~~~----------~~~~~~CP~Cr~~~~~~~ 86 (180)
.....|.+|...|.. | ..|+|...||.+=..+-| ....+.||.|++.+..+.
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRS 229 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRS 229 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchH
Confidence 445677777777752 2 356777778877665432 124688999988776554
No 118
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=79.51 E-value=14 Score=28.87 Aligned_cols=17 Identities=24% Similarity=1.093 Sum_probs=12.3
Q ss_pred CCCcCcccccccccccCCH
Q psy2696 111 CANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 111 c~~C~~h~~~~~~~C~~C~ 129 (180)
|..|. .....+||..|.
T Consensus 2 C~iC~--~~~~~~~C~~C~ 18 (302)
T PF10186_consen 2 CPICH--NSRRRFYCANCV 18 (302)
T ss_pred CCCCC--CCCCCeECHHHH
Confidence 66676 344678999998
No 119
>smart00336 BBOX B-Box-type zinc finger.
Probab=79.11 E-value=1 Score=24.15 Aligned_cols=18 Identities=33% Similarity=0.994 Sum_probs=15.0
Q ss_pred CCcCccc-ccccccccCCH
Q psy2696 112 ANCDKRD-RNAMYFCSTCA 129 (180)
Q Consensus 112 ~~C~~h~-~~~~~~C~~C~ 129 (180)
..|+.|+ +.+.+||.+|.
T Consensus 4 ~~C~~h~~~~~~~~C~~c~ 22 (42)
T smart00336 4 PKCDSHGDEPAEFFCEECG 22 (42)
T ss_pred CcCCCCCCCceEEECCCCC
Confidence 5688887 88899999876
No 120
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=78.72 E-value=0.71 Score=26.02 Aligned_cols=39 Identities=28% Similarity=0.658 Sum_probs=22.4
Q ss_pred cccccccCCC--ceeccccc-----cchHHhhhcccc-CCccCCCCC
Q psy2696 40 CHVCDDYYTE--PCLLSCYH-----SFCARCLRGRTV-DGKLSCPIC 78 (180)
Q Consensus 40 C~iC~~~~~~--P~~l~C~H-----~fC~~Cl~~~~~-~~~~~CP~C 78 (180)
|-||++...+ |.+.||.- ....+||.+|.. .+...|+.|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 6678776653 56667653 567789999843 355668776
No 121
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=78.11 E-value=4 Score=27.64 Aligned_cols=18 Identities=17% Similarity=0.405 Sum_probs=8.5
Q ss_pred CCcCcccccccccccCCH
Q psy2696 112 ANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 112 ~~C~~h~~~~~~~C~~C~ 129 (180)
+.|...-.-..+.|..|+
T Consensus 2 PvCg~~l~vt~l~C~~C~ 19 (113)
T PF09862_consen 2 PVCGGELVVTRLKCPSCG 19 (113)
T ss_pred CCCCCceEEEEEEcCCCC
Confidence 344433333445555555
No 122
>KOG1428|consensus
Probab=76.47 E-value=2.1 Score=41.22 Aligned_cols=46 Identities=33% Similarity=0.681 Sum_probs=31.2
Q ss_pred ccccccccccCC--Cc-eeccccccchHHhhhcc----ccC-----CccCCCCCCCCc
Q psy2696 37 PLLCHVCDDYYT--EP-CLLSCYHSFCARCLRGR----TVD-----GKLSCPICGQHT 82 (180)
Q Consensus 37 ~l~C~iC~~~~~--~P-~~l~C~H~fC~~Cl~~~----~~~-----~~~~CP~Cr~~~ 82 (180)
+-.|-||+-.-- -| +.|.|+|.|...|.... |.+ +-++||.|...+
T Consensus 3486 DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred CceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 345777754332 34 67899999999997653 433 347899997654
No 123
>KOG3113|consensus
Probab=74.88 E-value=6.2 Score=30.55 Aligned_cols=50 Identities=20% Similarity=0.399 Sum_probs=38.8
Q ss_pred CCCccccccccccCCCc----eeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 34 PKNPLLCHVCDDYYTEP----CLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P----~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
-...+.|||=.-.++.- .+.+|||.|-.+-+.+... -.|++|...+...+
T Consensus 108 ~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeika---s~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 108 QRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKA---SVCHVCGAAYQEDD 161 (293)
T ss_pred ccceeecccccceecceEEEEEEeccceeccHHHHHHhhh---ccccccCCcccccC
Confidence 35678999988777753 3348999999999887643 36999999887766
No 124
>PF14353 CpXC: CpXC protein
Probab=74.46 E-value=2 Score=29.56 Aligned_cols=15 Identities=33% Similarity=0.809 Sum_probs=10.4
Q ss_pred CccCCCCCCCCcccC
Q psy2696 71 GKLSCPICGQHTLLK 85 (180)
Q Consensus 71 ~~~~CP~Cr~~~~~~ 85 (180)
..+.||.|+......
T Consensus 37 ~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 37 FSFTCPSCGHKFRLE 51 (128)
T ss_pred CEEECCCCCCceecC
Confidence 456788888876554
No 125
>KOG3899|consensus
Probab=74.33 E-value=1.2 Score=35.13 Aligned_cols=32 Identities=25% Similarity=0.729 Sum_probs=24.5
Q ss_pred ccccchHHhhhcc------------ccCCccCCCCCCCCcccCC
Q psy2696 55 CYHSFCARCLRGR------------TVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 55 C~H~fC~~Cl~~~------------~~~~~~~CP~Cr~~~~~~~ 86 (180)
|...+|.+|+.+| +..+...||.||+.....+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 5567788999887 2346788999999887665
No 126
>KOG4445|consensus
Probab=71.46 E-value=1.2 Score=35.26 Aligned_cols=55 Identities=20% Similarity=0.442 Sum_probs=38.7
Q ss_pred CCCCCccccccccccCCC-c--eeccccccchHHhhhccc----------------------cCCccCCCCCCCCcccCC
Q psy2696 32 CGPKNPLLCHVCDDYYTE-P--CLLSCYHSFCARCLRGRT----------------------VDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~-P--~~l~C~H~fC~~Cl~~~~----------------------~~~~~~CP~Cr~~~~~~~ 86 (180)
++-.....|.||+-=|.+ | ...+|.|.|...|+.++. .....+||+||..+....
T Consensus 110 ~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 110 ENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred cCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 334446789999988864 4 355899999999997651 112456999998776543
No 127
>KOG0298|consensus
Probab=70.05 E-value=0.85 Score=42.68 Aligned_cols=49 Identities=24% Similarity=0.563 Sum_probs=38.1
Q ss_pred CCCCCccccccccccCC-CceeccccccchHHhhhccccCCccCCCCCCCC
Q psy2696 32 CGPKNPLLCHVCDDYYT-EPCLLSCYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~-~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
..+-....|++|.+... .-.+..|||.+|..|...|.. ....||.|...
T Consensus 1148 ~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~-~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1148 MNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLY-ASSRCPICKSI 1197 (1394)
T ss_pred HHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHH-HhccCcchhhh
Confidence 34556779999999998 455778999999999998744 34469998743
No 128
>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals.
Probab=69.20 E-value=33 Score=27.42 Aligned_cols=49 Identities=8% Similarity=0.144 Sum_probs=37.9
Q ss_pred HHHHHHHHHH-------HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2696 131 VRTGLMNCRS-------SLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEVQ 179 (180)
Q Consensus 131 ~~~~~~~~~~-------~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~le 179 (180)
|+..+.+|+. ..--|+..++.....|.+.|..|+..|.+++-.||.+|+
T Consensus 155 IEKSvKDLqRctvSL~RYr~~lkee~d~S~k~ik~~F~~l~~cL~dREvaLl~Emd 210 (302)
T PF07139_consen 155 IEKSVKDLQRCTVSLTRYRVVLKEEMDSSIKKIKQTFAELQSCLMDREVALLAEMD 210 (302)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555553 333567788888889999999999999999999998886
No 129
>KOG3053|consensus
Probab=69.06 E-value=4.9 Score=31.15 Aligned_cols=53 Identities=17% Similarity=0.329 Sum_probs=37.3
Q ss_pred CCCCCccccccccccCCCce----ecccc-----ccchHHhhhcccc-------CCccCCCCCCCCccc
Q psy2696 32 CGPKNPLLCHVCDDYYTEPC----LLSCY-----HSFCARCLRGRTV-------DGKLSCPICGQHTLL 84 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~P~----~l~C~-----H~fC~~Cl~~~~~-------~~~~~CP~Cr~~~~~ 84 (180)
++-+.+-.|.||+..-.|-. +-||. |-....|+..|.. ...+.||.|+.....
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 55666789999988776532 22554 3467899998821 257899999987754
No 130
>KOG2169|consensus
Probab=68.96 E-value=5.5 Score=35.24 Aligned_cols=71 Identities=17% Similarity=0.292 Sum_probs=48.4
Q ss_pred CCCCCccccccccccCCCc-eeccccccchHHhhhcc---ccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHHHhc
Q psy2696 32 CGPKNPLLCHVCDDYYTEP-CLLSCYHSFCARCLRGR---TVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEVANA 106 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~P-~~l~C~H~fC~~Cl~~~---~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~~~~ 106 (180)
..+.--|.|++......-| +-..|.|.=|.+-+.-. ....++.||+|........ +..+.++..++.....
T Consensus 301 t~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~----l~iD~~~~~iL~~~~~ 375 (636)
T KOG2169|consen 301 TSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEG----LIIDGYFLNILQSCQA 375 (636)
T ss_pred ccceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccc----hhhhHHHHHHHhhccC
Confidence 4556678999988777655 46678887665543222 3457899999998887776 6666666666665544
No 131
>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=68.80 E-value=1.2 Score=30.31 Aligned_cols=45 Identities=18% Similarity=0.496 Sum_probs=29.7
Q ss_pred ccccccccccCC---C-ce-eccccccchHHhhhccccCCccCCCCCCCC
Q psy2696 37 PLLCHVCDDYYT---E-PC-LLSCYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 37 ~l~C~iC~~~~~---~-P~-~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
.-.|.+|...|. + +. -..|+|.+|.+|-........+.|.+|...
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHHH
Confidence 458999988763 2 33 336999999999765434566778888653
No 132
>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=68.59 E-value=4.2 Score=20.89 Aligned_cols=11 Identities=36% Similarity=1.126 Sum_probs=7.4
Q ss_pred CccCCCCCCCC
Q psy2696 71 GKLSCPICGQH 81 (180)
Q Consensus 71 ~~~~CP~Cr~~ 81 (180)
....||.|...
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 44578888663
No 133
>KOG2034|consensus
Probab=68.34 E-value=1.9 Score=38.87 Aligned_cols=35 Identities=23% Similarity=0.463 Sum_probs=27.3
Q ss_pred CCCCccccccccccCC-Cce-eccccccchHHhhhcc
Q psy2696 33 GPKNPLLCHVCDDYYT-EPC-LLSCYHSFCARCLRGR 67 (180)
Q Consensus 33 ~l~~~l~C~iC~~~~~-~P~-~l~C~H~fC~~Cl~~~ 67 (180)
.++..-.|.+|...+- .|. ..||||.|..+|+.+.
T Consensus 813 v~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~ 849 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRH 849 (911)
T ss_pred EecCccchHHhcchhhcCcceeeeccchHHHHHHHHH
Confidence 3455668999988774 564 5699999999999875
No 134
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=67.84 E-value=6.1 Score=26.36 Aligned_cols=30 Identities=33% Similarity=0.664 Sum_probs=21.7
Q ss_pred cccchHHhhhcc--------ccCCccCCCCCCCCcccC
Q psy2696 56 YHSFCARCLRGR--------TVDGKLSCPICGQHTLLK 85 (180)
Q Consensus 56 ~H~fC~~Cl~~~--------~~~~~~~CP~Cr~~~~~~ 85 (180)
.-.||..||... ..+..+.||.|+..-.-.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCnCs 74 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICNCS 74 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeCCH
Confidence 667999998654 234678999998855433
No 135
>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=67.12 E-value=3.5 Score=23.74 Aligned_cols=30 Identities=27% Similarity=0.603 Sum_probs=22.0
Q ss_pred cccccccccCCC----ceeccccccchHHhhhcc
Q psy2696 38 LLCHVCDDYYTE----PCLLSCYHSFCARCLRGR 67 (180)
Q Consensus 38 l~C~iC~~~~~~----P~~l~C~H~fC~~Cl~~~ 67 (180)
-.|++|...|.- ..-..||+.||..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 468888887763 223369999999998764
No 136
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=67.04 E-value=3.9 Score=36.15 Aligned_cols=19 Identities=21% Similarity=0.674 Sum_probs=7.8
Q ss_pred CCCcCcccccccccccCCH
Q psy2696 111 CANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 111 c~~C~~h~~~~~~~C~~C~ 129 (180)
|..|.........||..|+
T Consensus 30 Cp~CG~~~~~~~~fC~~CG 48 (645)
T PRK14559 30 CPQCGTEVPVDEAHCPNCG 48 (645)
T ss_pred CCCCCCCCCcccccccccC
Confidence 3333333333334555554
No 137
>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=66.39 E-value=2 Score=29.97 Aligned_cols=31 Identities=23% Similarity=0.505 Sum_probs=25.0
Q ss_pred ccccccccccCCC--c-eecccc------ccchHHhhhcc
Q psy2696 37 PLLCHVCDDYYTE--P-CLLSCY------HSFCARCLRGR 67 (180)
Q Consensus 37 ~l~C~iC~~~~~~--P-~~l~C~------H~fC~~Cl~~~ 67 (180)
...|.||.+...+ . +.++|+ |.||..|+.+|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW 65 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence 5789999999986 3 345666 57999999998
No 138
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=66.21 E-value=50 Score=24.25 Aligned_cols=25 Identities=28% Similarity=0.583 Sum_probs=13.6
Q ss_pred CCC---CcCcccccccccccC-CHHHHHHH
Q psy2696 110 PCA---NCDKRDRNAMYFCST-CASVRTGL 135 (180)
Q Consensus 110 ~c~---~C~~h~~~~~~~C~~-C~~~~~~~ 135 (180)
.|+ -|+.-.+ ...-|.+ |..+....
T Consensus 98 ICDy~~CCDGSDE-~~~~C~N~C~e~~~~~ 126 (176)
T PF12999_consen 98 ICDYDICCDGSDE-SGGKCPNTCAELGKEY 126 (176)
T ss_pred cCcccccCCCCCC-CCCCCccHHHHHHHHH
Confidence 477 6665555 4455764 76443333
No 139
>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=64.36 E-value=2.1 Score=33.82 Aligned_cols=45 Identities=22% Similarity=0.439 Sum_probs=21.0
Q ss_pred ccccccccccCCCceecc-----ccccchHHhhhccccCCccCCCCCCCCc
Q psy2696 37 PLLCHVCDDYYTEPCLLS-----CYHSFCARCLRGRTVDGKLSCPICGQHT 82 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~-----C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~ 82 (180)
.-.||+|+....--.+.. =.+.+|.-|-..|.. ....||.|...-
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~-~R~~Cp~Cg~~~ 221 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRF-VRIKCPYCGNTD 221 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE---TTS-TTT---S
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeee-cCCCCcCCCCCC
Confidence 479999999765322222 256778889888743 455799997753
No 140
>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 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 PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=61.51 E-value=4.8 Score=21.31 Aligned_cols=13 Identities=23% Similarity=0.792 Sum_probs=9.7
Q ss_pred cccccccccCCCc
Q psy2696 38 LLCHVCDDYYTEP 50 (180)
Q Consensus 38 l~C~iC~~~~~~P 50 (180)
+.||-|...|+.|
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 5788888888754
No 143
>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=61.39 E-value=2.4 Score=25.65 Aligned_cols=33 Identities=18% Similarity=0.485 Sum_probs=16.9
Q ss_pred CCccccccccccCCCc---e-eccccccchHHhhhcc
Q psy2696 35 KNPLLCHVCDDYYTEP---C-LLSCYHSFCARCLRGR 67 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P---~-~l~C~H~fC~~Cl~~~ 67 (180)
.+.-.|.+|...|.-- . --.||+.||.+|....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 4467899999999521 1 1269999999998654
No 144
>KOG3268|consensus
Probab=61.26 E-value=5.9 Score=28.99 Aligned_cols=34 Identities=26% Similarity=0.459 Sum_probs=25.3
Q ss_pred ccccccchHHhhhccccC----------CccCCCCCCCCcccCC
Q psy2696 53 LSCYHSFCARCLRGRTVD----------GKLSCPICGQHTLLKE 86 (180)
Q Consensus 53 l~C~H~fC~~Cl~~~~~~----------~~~~CP~Cr~~~~~~~ 86 (180)
+.||..|..-|+..|..+ --..||.|...+.++.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 469999999999998322 1246999988877665
No 145
>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=61.17 E-value=12 Score=21.44 Aligned_cols=25 Identities=28% Similarity=0.635 Sum_probs=13.0
Q ss_pred cccccchHHhhhccccCCccCCCCCC
Q psy2696 54 SCYHSFCARCLRGRTVDGKLSCPICG 79 (180)
Q Consensus 54 ~C~H~fC~~Cl~~~~~~~~~~CP~Cr 79 (180)
.|++.||.+|=.-. ...--.||.|.
T Consensus 26 ~C~~~FC~dCD~fi-HE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVFI-HETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHTT-TTTS-SSSTT-
T ss_pred CCCCccccCcChhh-hccccCCcCCC
Confidence 49999999994322 33344688884
No 146
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=60.38 E-value=53 Score=22.60 Aligned_cols=29 Identities=7% Similarity=0.103 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2696 136 MNCRSSLDELQLNCDTEKMTIQSFCQGMI 164 (180)
Q Consensus 136 ~~~~~~~~~l~~~~~~~~~~i~~~~~~l~ 164 (180)
..++..+++.+..+++-+.++.++|..-.
T Consensus 28 ~~l~~eL~~~k~el~~yk~~V~~HF~~ta 56 (128)
T PF06295_consen 28 AKLEQELEQAKQELEQYKQEVNDHFAQTA 56 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666677777777777777777776633
No 147
>PLN02189 cellulose synthase
Probab=60.10 E-value=6.2 Score=36.63 Aligned_cols=46 Identities=22% Similarity=0.611 Sum_probs=34.4
Q ss_pred cccccccccCC-----Cceec--cccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 38 LLCHVCDDYYT-----EPCLL--SCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 38 l~C~iC~~~~~-----~P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
-.|.||.+... +|.+- .|+--.|..|.+--...+...||.|+....
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 38999999875 23211 377789999996545667789999998776
No 148
>PLN02436 cellulose synthase A
Probab=59.46 E-value=6.5 Score=36.61 Aligned_cols=46 Identities=26% Similarity=0.699 Sum_probs=34.6
Q ss_pred cccccccccCC-----Cceec--cccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 38 LLCHVCDDYYT-----EPCLL--SCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 38 l~C~iC~~~~~-----~P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
-.|.||.+..- +|-+- .|+--.|..|.+--...+...||.|+....
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 38999999874 33222 477789999996545667789999998776
No 149
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=59.42 E-value=3.9 Score=23.92 Aligned_cols=31 Identities=19% Similarity=0.457 Sum_probs=18.5
Q ss_pred cccccc--ccccCCC-----c--eecc-ccccchHHhhhcc
Q psy2696 37 PLLCHV--CDDYYTE-----P--CLLS-CYHSFCARCLRGR 67 (180)
Q Consensus 37 ~l~C~i--C~~~~~~-----P--~~l~-C~H~fC~~Cl~~~ 67 (180)
...||- |...+.. . +.-+ |++.||..|...|
T Consensus 18 ~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 18 IRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred ccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 358877 8887752 2 4446 9999999998876
No 150
>KOG0825|consensus
Probab=58.63 E-value=8.5 Score=34.70 Aligned_cols=32 Identities=16% Similarity=0.347 Sum_probs=24.4
Q ss_pred CccccccccccCCCc----eecc---ccccchHHhhhcc
Q psy2696 36 NPLLCHVCDDYYTEP----CLLS---CYHSFCARCLRGR 67 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P----~~l~---C~H~fC~~Cl~~~ 67 (180)
+.-+|.+|...+.+| -++| |+|.||..||..|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~ 133 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSC 133 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHH
Confidence 345777887777763 2445 9999999999988
No 151
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=58.32 E-value=5.1 Score=26.88 Aligned_cols=16 Identities=25% Similarity=0.661 Sum_probs=10.4
Q ss_pred CCccCCCCCCCCcccC
Q psy2696 70 DGKLSCPICGQHTLLK 85 (180)
Q Consensus 70 ~~~~~CP~Cr~~~~~~ 85 (180)
...++||.|+..+...
T Consensus 24 k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 24 KDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCccCCCCCCccCcc
Confidence 3556677777766554
No 152
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=58.29 E-value=5.3 Score=18.79 Aligned_cols=18 Identities=33% Similarity=0.995 Sum_probs=7.8
Q ss_pred CCCcCcccccccccccCC
Q psy2696 111 CANCDKRDRNAMYFCSTC 128 (180)
Q Consensus 111 c~~C~~h~~~~~~~C~~C 128 (180)
|..|.........||..|
T Consensus 2 Cp~CG~~~~~~~~fC~~C 19 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNC 19 (23)
T ss_pred CcccCCCCCCcCcchhhh
Confidence 334444433344455544
No 153
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.76 E-value=21 Score=24.59 Aligned_cols=23 Identities=30% Similarity=0.790 Sum_probs=14.0
Q ss_pred cchHHhhhccccCCccCCCCCCCCccc
Q psy2696 58 SFCARCLRGRTVDGKLSCPICGQHTLL 84 (180)
Q Consensus 58 ~fC~~Cl~~~~~~~~~~CP~Cr~~~~~ 84 (180)
.||.+|-.. ....||.|..++..
T Consensus 29 afcskcgea----ti~qcp~csasirg 51 (160)
T COG4306 29 AFCSKCGEA----TITQCPICSASIRG 51 (160)
T ss_pred HHHhhhchH----HHhcCCccCCcccc
Confidence 477777543 23458888776543
No 154
>PF10372 YojJ: Bacterial membrane-spanning protein N-terminus; InterPro: IPR019457 This entry is found at the N terminus of a family of putative membrane-spanning bacterial proteins. These proteins often contain IPR003390 from INTERPRO towards the C terminus. ; PDB: 2FB5_A.
Probab=56.04 E-value=22 Score=21.89 Aligned_cols=35 Identities=11% Similarity=0.143 Sum_probs=15.8
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 144 ELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEV 178 (180)
Q Consensus 144 ~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~l 178 (180)
.++.++.+...+|...++.+.+.+++...-+|.++
T Consensus 10 ~~K~~lk~~L~~I~~~~~~i~~~ld~~~~ClL~e~ 44 (70)
T PF10372_consen 10 PLKEQLKQYLEQIEEEISQIIQTLDEDDCCLLCEF 44 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTT-TT--GGGGH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCceechhH
Confidence 34444444455555555555555555444444444
No 155
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=55.86 E-value=5.5 Score=19.08 Aligned_cols=10 Identities=40% Similarity=1.085 Sum_probs=7.0
Q ss_pred CCccCCCCCC
Q psy2696 70 DGKLSCPICG 79 (180)
Q Consensus 70 ~~~~~CP~Cr 79 (180)
...+.||.|.
T Consensus 14 ~v~f~CPnCG 23 (24)
T PF07754_consen 14 AVPFPCPNCG 23 (24)
T ss_pred CceEeCCCCC
Confidence 4567788875
No 156
>PF15616 TerY-C: TerY-C metal binding domain
Probab=55.80 E-value=7.4 Score=27.07 Aligned_cols=48 Identities=23% Similarity=0.567 Sum_probs=35.1
Q ss_pred CCCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 32 CGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 32 ~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
+.|...-.||-|...+.-.. ..|++.||. .......||-|........
T Consensus 72 seL~g~PgCP~CGn~~~fa~-C~CGkl~Ci------~g~~~~~CPwCg~~g~~~~ 119 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQYAFAV-CGCGKLFCI------DGEGEVTCPWCGNEGSFGA 119 (131)
T ss_pred HHhcCCCCCCCCcChhcEEE-ecCCCEEEe------CCCCCEECCCCCCeeeecc
Confidence 45666789999999776433 389999973 2446789999998776554
No 157
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=55.45 E-value=4.4 Score=20.57 Aligned_cols=24 Identities=38% Similarity=0.845 Sum_probs=11.2
Q ss_pred ccchHHhhhcc---ccCCccCCCCCCC
Q psy2696 57 HSFCARCLRGR---TVDGKLSCPICGQ 80 (180)
Q Consensus 57 H~fC~~Cl~~~---~~~~~~~CP~Cr~ 80 (180)
|-||..|=... ..+....||.|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 56777775543 2234456777754
No 158
>KOG3896|consensus
Probab=54.75 E-value=59 Score=26.52 Aligned_cols=56 Identities=21% Similarity=0.555 Sum_probs=35.9
Q ss_pred CCCCCCccccccccccCCCceec-cccccchHHhhhcccc----------CCccCCCCCCCCcccCC
Q psy2696 31 SCGPKNPLLCHVCDDYYTEPCLL-SCYHSFCARCLRGRTV----------DGKLSCPICGQHTLLKE 86 (180)
Q Consensus 31 ~~~l~~~l~C~iC~~~~~~P~~l-~C~H~fC~~Cl~~~~~----------~~~~~CP~Cr~~~~~~~ 86 (180)
...|.+.++|.-|.++-.+--.+ .=...||..||+.... .+-+-||.|...+..+.
T Consensus 18 ~~pl~~L~FCRyC~klrc~~Cv~hEvdshfCp~CLEn~ps~EArlKKn~CAnCfDCP~C~htLSaRa 84 (449)
T KOG3896|consen 18 FRPLPDLVFCRYCFKLRCDDCVLHEVDSHFCPRCLENSPSPEARLKKNKCANCFDCPKCAHTLSARA 84 (449)
T ss_pred cccccceeeeecccccccccccccccccccchhhccCCCchHHHhhhccccccccCcchhhhhhhhc
Confidence 45677788898888765543222 2334699999987521 24577888876654443
No 159
>PLN02400 cellulose synthase
Probab=53.72 E-value=9.5 Score=35.63 Aligned_cols=46 Identities=24% Similarity=0.647 Sum_probs=34.5
Q ss_pred cccccccccCC-----Cceec--cccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 38 LLCHVCDDYYT-----EPCLL--SCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 38 l~C~iC~~~~~-----~P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
-.|.||.+..- +|-+. .|+--.|+.|.+=-...+.-.||.|+....
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 38999999874 34322 588789999995434567788999998776
No 160
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=53.41 E-value=8.8 Score=35.82 Aligned_cols=46 Identities=30% Similarity=0.737 Sum_probs=34.2
Q ss_pred cccccccccCC-----Cceec--cccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 38 LLCHVCDDYYT-----EPCLL--SCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 38 l~C~iC~~~~~-----~P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
-.|.||.+..- +|.+- .|+--.|..|.+=-...+...||.|+....
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 38999999874 34322 577789999995434567788999998775
No 161
>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=53.38 E-value=4 Score=22.88 Aligned_cols=41 Identities=24% Similarity=0.638 Sum_probs=24.0
Q ss_pred ccccccccCCCceec---cccccchHHhhhccc-----cCCccCCCCCC
Q psy2696 39 LCHVCDDYYTEPCLL---SCYHSFCARCLRGRT-----VDGKLSCPICG 79 (180)
Q Consensus 39 ~C~iC~~~~~~P~~l---~C~H~fC~~Cl~~~~-----~~~~~~CP~Cr 79 (180)
.|.+|.....+-..+ .|+..|...|+.... ....+.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 477888733332233 477777777876541 12367777763
No 162
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=53.21 E-value=10 Score=19.88 Aligned_cols=24 Identities=29% Similarity=0.605 Sum_probs=11.4
Q ss_pred hHHhhhccc-------cCCccCCCCCCCCcc
Q psy2696 60 CARCLRGRT-------VDGKLSCPICGQHTL 83 (180)
Q Consensus 60 C~~Cl~~~~-------~~~~~~CP~Cr~~~~ 83 (180)
|..|+..+. ....++|+.|+-.+.
T Consensus 2 C~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp -HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 566666541 234678888876543
No 163
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=53.05 E-value=9.2 Score=20.53 Aligned_cols=22 Identities=27% Similarity=0.631 Sum_probs=11.4
Q ss_pred cccccccCCC-ceecc-ccccchH
Q psy2696 40 CHVCDDYYTE-PCLLS-CYHSFCA 61 (180)
Q Consensus 40 C~iC~~~~~~-P~~l~-C~H~fC~ 61 (180)
|.+|.....- |..-. |+.+||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 3445444333 55555 6666664
No 164
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=52.69 E-value=11 Score=21.88 Aligned_cols=31 Identities=16% Similarity=0.471 Sum_probs=23.3
Q ss_pred ccccccccccC--CCce-ecc-ccccchHHhhhcc
Q psy2696 37 PLLCHVCDDYY--TEPC-LLS-CYHSFCARCLRGR 67 (180)
Q Consensus 37 ~l~C~iC~~~~--~~P~-~l~-C~H~fC~~Cl~~~ 67 (180)
.-.|++|.+.| .+.+ +.| |+-.+.+.|....
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 45799999999 4554 334 9999999998653
No 165
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=51.85 E-value=19 Score=32.16 Aligned_cols=53 Identities=26% Similarity=0.659 Sum_probs=35.1
Q ss_pred CCCccccccccccCCCce---e----c---cccccc--------------------hHHhhhcc-------ccCCccCCC
Q psy2696 34 PKNPLLCHVCDDYYTEPC---L----L---SCYHSF--------------------CARCLRGR-------TVDGKLSCP 76 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P~---~----l---~C~H~f--------------------C~~Cl~~~-------~~~~~~~CP 76 (180)
.-+..+|+-|+..+.||. . . .||.-| |..|...+ .....+.||
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp 177 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACP 177 (750)
T ss_pred CCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCc
Confidence 345667888877776652 1 1 344433 88888776 234678999
Q ss_pred CCCCCcccCC
Q psy2696 77 ICGQHTLLKE 86 (180)
Q Consensus 77 ~Cr~~~~~~~ 86 (180)
.|+-...+.+
T Consensus 178 ~CGP~~~l~~ 187 (750)
T COG0068 178 KCGPHLFLVN 187 (750)
T ss_pred ccCCCeEEEc
Confidence 9998777764
No 166
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=50.58 E-value=32 Score=19.56 Aligned_cols=20 Identities=15% Similarity=0.328 Sum_probs=11.4
Q ss_pred ccccccCCHHHHHHHHHHHHHHH
Q psy2696 121 AMYFCSTCASVRTGLMNCRSSLD 143 (180)
Q Consensus 121 ~~~~C~~C~~~~~~~~~~~~~~~ 143 (180)
..-||+.|. .....+...+.
T Consensus 4 k~GYCE~Cr---~kfd~l~~Hi~ 23 (49)
T smart00586 4 KPGYCENCR---EKYDDLETHLL 23 (49)
T ss_pred CCcccccHh---HHHhhHHHHhc
Confidence 346999995 33444444443
No 167
>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=50.23 E-value=8 Score=30.95 Aligned_cols=46 Identities=15% Similarity=0.345 Sum_probs=29.4
Q ss_pred CCccccccccccCCCceecc------ccccchHHhhhccccCCccCCCCCCCC
Q psy2696 35 KNPLLCHVCDDYYTEPCLLS------CYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~~l~------C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
...-.||+|+..-.--.+.. =.+.+|.-|-..|. -....||.|...
T Consensus 182 ~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~-~~R~~C~~Cg~~ 233 (305)
T TIGR01562 182 ESRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWH-YVRVKCSHCEES 233 (305)
T ss_pred CCCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccc-ccCccCCCCCCC
Confidence 44669999999654222211 12566777877763 346679999864
No 168
>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=49.42 E-value=6.2 Score=23.88 Aligned_cols=10 Identities=40% Similarity=1.039 Sum_probs=7.1
Q ss_pred cchHHhhhcc
Q psy2696 58 SFCARCLRGR 67 (180)
Q Consensus 58 ~fC~~Cl~~~ 67 (180)
-||+.||.+|
T Consensus 11 gFCRNCLskW 20 (68)
T PF06844_consen 11 GFCRNCLSKW 20 (68)
T ss_dssp S--HHHHHHH
T ss_pred HHHHHHHHHH
Confidence 4999999998
No 169
>KOG1812|consensus
Probab=48.92 E-value=11 Score=31.24 Aligned_cols=33 Identities=21% Similarity=0.358 Sum_probs=25.1
Q ss_pred ccccccccccCC-----CceeccccccchHHhhhcccc
Q psy2696 37 PLLCHVCDDYYT-----EPCLLSCYHSFCARCLRGRTV 69 (180)
Q Consensus 37 ~l~C~iC~~~~~-----~P~~l~C~H~fC~~Cl~~~~~ 69 (180)
-..||.|.-.+. +-++..|||-||..|...|..
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~ 343 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKT 343 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhh
Confidence 457898887764 445667999999999988743
No 170
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=48.52 E-value=60 Score=19.62 Aligned_cols=14 Identities=14% Similarity=0.226 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHHH
Q psy2696 164 IDAITKTQNSMIME 177 (180)
Q Consensus 164 ~~~l~~~~~~ll~~ 177 (180)
.+..-+.+..|+++
T Consensus 29 ~~~n~~~K~~Li~~ 42 (77)
T PF03993_consen 29 REENLEKKEALIEE 42 (77)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 171
>PF14369 zf-RING_3: zinc-finger
Probab=48.36 E-value=11 Score=19.67 Aligned_cols=26 Identities=27% Similarity=0.641 Sum_probs=14.9
Q ss_pred ccchHHhhhccc---c-CCccCCCCCCCCc
Q psy2696 57 HSFCARCLRGRT---V-DGKLSCPICGQHT 82 (180)
Q Consensus 57 H~fC~~Cl~~~~---~-~~~~~CP~Cr~~~ 82 (180)
..||..|-.... . .....||.|...+
T Consensus 2 ~ywCh~C~~~V~~~~~~~~~~~CP~C~~gF 31 (35)
T PF14369_consen 2 RYWCHQCNRFVRIAPSPDSDVACPRCHGGF 31 (35)
T ss_pred CEeCccCCCEeEeCcCCCCCcCCcCCCCcE
Confidence 357777765542 1 2333599987643
No 172
>PLN02195 cellulose synthase A
Probab=47.96 E-value=13 Score=34.36 Aligned_cols=46 Identities=24% Similarity=0.585 Sum_probs=34.3
Q ss_pred cccccccccCC-----Cceec--cccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 38 LLCHVCDDYYT-----EPCLL--SCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 38 l~C~iC~~~~~-----~P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
-.|.||.+... +|-+- .|+-..|+.|.+=-...+...||.|+....
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 47999999774 34322 588889999995434567788999998877
No 173
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=47.91 E-value=13 Score=34.73 Aligned_cols=47 Identities=26% Similarity=0.649 Sum_probs=35.0
Q ss_pred ccccccccccCC-----Cceec--cccccchHHhhhccccCCccCCCCCCCCcc
Q psy2696 37 PLLCHVCDDYYT-----EPCLL--SCYHSFCARCLRGRTVDGKLSCPICGQHTL 83 (180)
Q Consensus 37 ~l~C~iC~~~~~-----~P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~ 83 (180)
.-.|.||.+..- +|.+- .|+-..|..|.+--...+...||.|+....
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 457999999874 34322 577789999995444567789999998776
No 174
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=46.89 E-value=78 Score=20.92 Aligned_cols=25 Identities=12% Similarity=0.037 Sum_probs=10.0
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHH
Q psy2696 141 SLDELQLNCDTEKMTIQSFCQGMID 165 (180)
Q Consensus 141 ~~~~l~~~~~~~~~~i~~~~~~l~~ 165 (180)
.+..|..++++++...++.++.+.+
T Consensus 73 qL~~Lk~kl~~e~~~~~k~i~~le~ 97 (100)
T PF04568_consen 73 QLKKLKEKLKEEIEHHRKEIDELEK 97 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444433334444444433
No 175
>KOG2129|consensus
Probab=46.56 E-value=1.3e+02 Score=25.38 Aligned_cols=40 Identities=15% Similarity=0.122 Sum_probs=19.4
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2696 140 SSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEVQ 179 (180)
Q Consensus 140 ~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~le 179 (180)
..+...+.....+..+..+.-..+++.....+..|+.+||
T Consensus 267 t~l~~Aqk~~~ek~~qy~~Ee~~~reen~rlQrkL~~e~e 306 (552)
T KOG2129|consen 267 TYLSRAQKSYQEKLMQYRAEEVDHREENERLQRKLINELE 306 (552)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444445555555555555554
No 176
>KOG2113|consensus
Probab=45.58 E-value=24 Score=28.36 Aligned_cols=49 Identities=6% Similarity=-0.071 Sum_probs=34.8
Q ss_pred CCCCCCCccccccccccCCCceeccccc-cchHHhhhccccCCccCCCCCCCC
Q psy2696 30 TSCGPKNPLLCHVCDDYYTEPCLLSCYH-SFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 30 ~~~~l~~~l~C~iC~~~~~~P~~l~C~H-~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
.-+.+...+.|..|..-+..-...+|+| .||..|.. ......||.|...
T Consensus 336 ~~~~~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~---~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 336 PTNGLMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS---ASASPTSSTCDHN 385 (394)
T ss_pred ccccchhhcccccccCceeeeEeecCCcccChhhhhh---cccCCcccccccc
Confidence 3455666788988987776666778998 57888876 3344579999654
No 177
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=44.60 E-value=1.2e+02 Score=24.78 Aligned_cols=44 Identities=14% Similarity=0.284 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 133 TGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIM 176 (180)
Q Consensus 133 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~ 176 (180)
.+++.++.....+..++..+...++..+.++.+-+-+++.+++.
T Consensus 44 ~aL~~lQ~e~~~le~ef~~ev~~LE~kY~~~~~Ply~kR~eII~ 87 (337)
T PTZ00007 44 KKLQLLQKEFDDLEVEYNAELRKLRSKYEDLYNPIYDKRKEALV 87 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHc
Confidence 44666778888999999999999999999999888888888876
No 178
>COG3877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.08 E-value=88 Score=20.94 Aligned_cols=19 Identities=26% Similarity=0.684 Sum_probs=8.8
Q ss_pred CCCcCcccccccccccCCH
Q psy2696 111 CANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 111 c~~C~~h~~~~~~~C~~C~ 129 (180)
|+.|....-...+-|.+|.
T Consensus 9 cPvcg~~~iVTeL~c~~~e 27 (122)
T COG3877 9 CPVCGRKLIVTELKCSNCE 27 (122)
T ss_pred CCcccccceeEEEecCCCC
Confidence 4444444333445555555
No 179
>PF08112 ATP-synt_E_2: ATP synthase epsilon subunit; InterPro: IPR012508 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. A-ATPases (or A1A0-ATPase) (3.6.3.14 from EC) are found exclusively in Archaea and display a close resemblance in structure and subunit composition with V-ATPases, although their function in both ATP synthesis and ATP hydrolysis is closer to that of F-ATPases []. A-ATPases are composed of two linked complexes: the A1 complex consisting of seven subunits contains the catalytic core that synthesizes/hydrolyses ATP, while the A0 complex consisting of at least two subunits forms the membrane-spanning pore []. The rotary motor in A-ATPases is composed of only two subunits, the stator subunit I and the rotor subunit C []. A-ATPases may have arisen as an adaptation to the different cellular needs and the more extreme environmental conditions faced by Archaeal species. The epsilon subunit is the smallest (7 kDa) of those found in the A1 complex. Unlike the A, B and C subunits, the epsilon subunit does not have a homologous counterpart in F- or V-ATPases []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0015986 ATP synthesis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain
Probab=43.88 E-value=63 Score=18.58 Aligned_cols=25 Identities=20% Similarity=0.066 Sum_probs=14.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2696 138 CRSSLDELQLNCDTEKMTIQSFCQG 162 (180)
Q Consensus 138 ~~~~~~~l~~~~~~~~~~i~~~~~~ 162 (180)
+...+..+...+++.+.+|...+..
T Consensus 9 ~d~yI~~Lk~kLd~Kk~Eil~~ln~ 33 (56)
T PF08112_consen 9 IDKYISILKSKLDEKKSEILSNLNM 33 (56)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666544433
No 180
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=43.67 E-value=13 Score=17.89 Aligned_cols=7 Identities=57% Similarity=1.493 Sum_probs=3.7
Q ss_pred CCCCCCC
Q psy2696 74 SCPICGQ 80 (180)
Q Consensus 74 ~CP~Cr~ 80 (180)
.||.|..
T Consensus 4 ~Cp~Cg~ 10 (26)
T PF13248_consen 4 FCPNCGA 10 (26)
T ss_pred CCcccCC
Confidence 4555554
No 181
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=42.96 E-value=1.3e+02 Score=21.95 Aligned_cols=12 Identities=0% Similarity=-0.011 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHH
Q psy2696 157 QSFCQGMIDAIT 168 (180)
Q Consensus 157 ~~~~~~l~~~l~ 168 (180)
...|++|+++++
T Consensus 78 DKDFDKL~EFVE 89 (205)
T PF15079_consen 78 DKDFDKLHEFVE 89 (205)
T ss_pred hhhHHHHHHHHH
Confidence 456677776665
No 182
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=42.11 E-value=24 Score=28.31 Aligned_cols=45 Identities=18% Similarity=0.436 Sum_probs=29.4
Q ss_pred CCccccccccccCCCcee-c--c--ccccchHHhhhccccCCccCCCCCCC
Q psy2696 35 KNPLLCHVCDDYYTEPCL-L--S--CYHSFCARCLRGRTVDGKLSCPICGQ 80 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~P~~-l--~--C~H~fC~~Cl~~~~~~~~~~CP~Cr~ 80 (180)
...-.||+|+....--++ + . =.+.+|.-|-..|. -....||.|..
T Consensus 185 ~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~-~~R~~C~~Cg~ 234 (309)
T PRK03564 185 EQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWH-VVRVKCSNCEQ 234 (309)
T ss_pred cCCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccc-ccCccCCCCCC
Confidence 457899999997542221 1 1 23566777877763 34667999986
No 183
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=42.03 E-value=13 Score=20.21 Aligned_cols=22 Identities=27% Similarity=0.496 Sum_probs=11.0
Q ss_pred ccccCCCceecc-ccccchHHhh
Q psy2696 43 CDDYYTEPCLLS-CYHSFCARCL 64 (180)
Q Consensus 43 C~~~~~~P~~l~-C~H~fC~~Cl 64 (180)
|......|..-+ |+..||.+=.
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~Hr 28 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLKHR 28 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TTTH
T ss_pred CcCccCCCeECCCCCcccCcccc
Confidence 666555676666 8888876543
No 184
>PRK11827 hypothetical protein; Provisional
Probab=41.89 E-value=13 Score=22.20 Aligned_cols=40 Identities=18% Similarity=0.270 Sum_probs=25.9
Q ss_pred CCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCC
Q psy2696 33 GPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGST 89 (180)
Q Consensus 33 ~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~ 89 (180)
.+.+.+.||+|...+.-- .....+.|..|+..++.++|+.
T Consensus 4 ~LLeILaCP~ckg~L~~~-----------------~~~~~Lic~~~~laYPI~dgIP 43 (60)
T PRK11827 4 RLLEIIACPVCNGKLWYN-----------------QEKQELICKLDNLAFPLRDGIP 43 (60)
T ss_pred HHHhheECCCCCCcCeEc-----------------CCCCeEECCccCeeccccCCcc
Confidence 455677888887765410 0223467888888888887533
No 185
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=41.83 E-value=13 Score=17.70 Aligned_cols=9 Identities=22% Similarity=0.944 Sum_probs=4.2
Q ss_pred ccccccccC
Q psy2696 39 LCHVCDDYY 47 (180)
Q Consensus 39 ~C~iC~~~~ 47 (180)
.|++|...|
T Consensus 4 ~C~~CgR~F 12 (25)
T PF13913_consen 4 PCPICGRKF 12 (25)
T ss_pred cCCCCCCEE
Confidence 444444444
No 186
>PF05983 Med7: MED7 protein; InterPro: IPR009244 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=41.48 E-value=1.3e+02 Score=21.61 Aligned_cols=35 Identities=6% Similarity=0.065 Sum_probs=25.0
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 140 SSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSM 174 (180)
Q Consensus 140 ~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~l 174 (180)
+..+.+...++.+.++-++..+.+++.+++.+..|
T Consensus 127 QARetLi~~me~Ql~~kr~~i~~i~~~~~~~~~~l 161 (162)
T PF05983_consen 127 QARETLIMMMEEQLEEKREEIEEIRKVCEKAREVL 161 (162)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566777777777777777788887777776543
No 187
>PF02841 GBP_C: Guanylate-binding protein, C-terminal domain; InterPro: IPR003191 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma. GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function (IPR015894 from INTERPRO), and an alpha-helical finger-like C-terminal domain. Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.
Probab=41.10 E-value=1.8e+02 Score=23.01 Aligned_cols=36 Identities=6% Similarity=0.193 Sum_probs=18.7
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 143 DELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEV 178 (180)
Q Consensus 143 ~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~l 178 (180)
......++.......+....|.+.++..+..++++.
T Consensus 228 ~~~~~~le~~~~~~ee~~~~L~ekme~e~~~~~~e~ 263 (297)
T PF02841_consen 228 KEQEQMLEQQERSYEEHIKQLKEKMEEEREQLLQEQ 263 (297)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455555555555555555555555544443
No 188
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=40.91 E-value=5.9 Score=17.99 Aligned_cols=12 Identities=17% Similarity=0.772 Sum_probs=7.5
Q ss_pred ccccccccCCCc
Q psy2696 39 LCHVCDDYYTEP 50 (180)
Q Consensus 39 ~C~iC~~~~~~P 50 (180)
.|++|...|..+
T Consensus 2 ~C~~C~~~f~~~ 13 (23)
T PF00096_consen 2 KCPICGKSFSSK 13 (23)
T ss_dssp EETTTTEEESSH
T ss_pred CCCCCCCccCCH
Confidence 466676666654
No 189
>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=40.82 E-value=15 Score=17.80 Aligned_cols=10 Identities=30% Similarity=1.079 Sum_probs=7.4
Q ss_pred cCCCCCCCCc
Q psy2696 73 LSCPICGQHT 82 (180)
Q Consensus 73 ~~CP~Cr~~~ 82 (180)
+.||+|...+
T Consensus 2 v~CPiC~~~v 11 (26)
T smart00734 2 VQCPVCFREV 11 (26)
T ss_pred CcCCCCcCcc
Confidence 4688887765
No 190
>KOG4727|consensus
Probab=40.51 E-value=1.5e+02 Score=21.78 Aligned_cols=12 Identities=25% Similarity=0.996 Sum_probs=9.6
Q ss_pred cccccccccCCH
Q psy2696 118 DRNAMYFCSTCA 129 (180)
Q Consensus 118 ~~~~~~~C~~C~ 129 (180)
.+...|||..|+
T Consensus 71 sq~~GyyCdVCd 82 (193)
T KOG4727|consen 71 SQKGGYYCDVCD 82 (193)
T ss_pred cccCceeeeecc
Confidence 445779999998
No 191
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=39.94 E-value=23 Score=25.40 Aligned_cols=16 Identities=25% Similarity=0.594 Sum_probs=10.8
Q ss_pred CccCCCCCCCCcccCC
Q psy2696 71 GKLSCPICGQHTLLKE 86 (180)
Q Consensus 71 ~~~~CP~Cr~~~~~~~ 86 (180)
..+.||.|+..+..-+
T Consensus 127 ~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 127 LNFTCPRCGAMLDYLD 142 (158)
T ss_pred cCCcCCCCCCEeeecc
Confidence 3578888887765443
No 192
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=39.84 E-value=27 Score=25.56 Aligned_cols=15 Identities=27% Similarity=0.521 Sum_probs=9.5
Q ss_pred CccCCCCCCCCcccC
Q psy2696 71 GKLSCPICGQHTLLK 85 (180)
Q Consensus 71 ~~~~CP~Cr~~~~~~ 85 (180)
..|.||.|+..+..-
T Consensus 135 ~~F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 135 YGFRCPQCGEMLEEY 149 (178)
T ss_pred cCCcCCCCCCCCeec
Confidence 356777777765443
No 193
>KOG4001|consensus
Probab=39.32 E-value=1.7e+02 Score=22.15 Aligned_cols=23 Identities=9% Similarity=0.200 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q psy2696 157 QSFCQGMIDAITKTQNSMIMEVQ 179 (180)
Q Consensus 157 ~~~~~~l~~~l~~~~~~ll~~le 179 (180)
.+.+..-.++|.+..+.|..+||
T Consensus 230 Ekk~~eei~fLk~tN~qLKaQLe 252 (259)
T KOG4001|consen 230 EKKMKEEIEFLKETNRQLKAQLE 252 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455555677777777777776
No 194
>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=39.14 E-value=13 Score=20.22 Aligned_cols=11 Identities=45% Similarity=1.244 Sum_probs=8.7
Q ss_pred CCccCCCCCCC
Q psy2696 70 DGKLSCPICGQ 80 (180)
Q Consensus 70 ~~~~~CP~Cr~ 80 (180)
.....||.|+.
T Consensus 24 ~~~~~CP~Cg~ 34 (42)
T PF09723_consen 24 DDPVPCPECGS 34 (42)
T ss_pred CCCCcCCCCCC
Confidence 45678999987
No 195
>KOG4451|consensus
Probab=39.14 E-value=18 Score=27.65 Aligned_cols=29 Identities=17% Similarity=0.555 Sum_probs=21.6
Q ss_pred ccchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 57 HSFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 57 H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
...|.+|..+...+.. .||.|+..+..++
T Consensus 249 MK~ClsChqqIHRNAP-iCPlCKaKsRSrN 277 (286)
T KOG4451|consen 249 MKVCLSCHQQIHRNAP-ICPLCKAKSRSRN 277 (286)
T ss_pred chHHHHHHHHHhcCCC-CCcchhhccccCC
Confidence 3568889888755544 5999999887665
No 196
>KOG3454|consensus
Probab=38.66 E-value=1.2e+02 Score=21.91 Aligned_cols=32 Identities=25% Similarity=0.399 Sum_probs=16.8
Q ss_pred cccccCCH--------HHHHHHHHHHHHHHHHHHhHHHHH
Q psy2696 122 MYFCSTCA--------SVRTGLMNCRSSLDELQLNCDTEK 153 (180)
Q Consensus 122 ~~~C~~C~--------~~~~~~~~~~~~~~~l~~~~~~~~ 153 (180)
.|||.-|+ +++..+..-++.++.++.-.++..
T Consensus 3 RYyCDYCdt~LthDslsvRK~H~~GrkH~~nvk~YY~k~~ 42 (165)
T KOG3454|consen 3 RYYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVKDYYQKWM 42 (165)
T ss_pred cchhhhhhhhhhcccHHHHHhhhhhHHHHHHHHHHHHHHH
Confidence 57888888 334444444444444444444433
No 197
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=38.56 E-value=76 Score=18.00 Aligned_cols=37 Identities=11% Similarity=0.194 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2696 136 MNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEVQ 179 (180)
Q Consensus 136 ~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~le 179 (180)
..++..+..+...++.+..+++.-+.. +++-+|+.||
T Consensus 11 ~eL~~rl~~LD~~ME~Eieelr~RY~~-------KRqPIldAie 47 (49)
T PF11629_consen 11 EELQQRLASLDPEMEQEIEELRQRYQA-------KRQPILDAIE 47 (49)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHT
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHH-------hhccHHHHHh
Confidence 455566666666666666666555544 4445555554
No 198
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=38.44 E-value=17 Score=19.03 Aligned_cols=13 Identities=23% Similarity=0.616 Sum_probs=8.9
Q ss_pred cccccccccCCCc
Q psy2696 38 LLCHVCDDYYTEP 50 (180)
Q Consensus 38 l~C~iC~~~~~~P 50 (180)
+.|+-|...|..|
T Consensus 3 i~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 3 ITCPNCQAKYEID 15 (36)
T ss_pred EECCCCCCEEeCC
Confidence 5677777777643
No 199
>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=37.70 E-value=23 Score=30.35 Aligned_cols=53 Identities=17% Similarity=0.390 Sum_probs=31.9
Q ss_pred CCCccccccccccCCCc-eeccccccchHHhhhcccc-----------CCccCCCCCCCCcccCC
Q psy2696 34 PKNPLLCHVCDDYYTEP-CLLSCYHSFCARCLRGRTV-----------DGKLSCPICGQHTLLKE 86 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P-~~l~C~H~fC~~Cl~~~~~-----------~~~~~CP~Cr~~~~~~~ 86 (180)
|.+.+.|..|..+--.- +.-.=.-.||..|+..... ..-+.||.|...+....
T Consensus 2 l~~L~fC~~C~~irc~~c~~~Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~~~~ 66 (483)
T PF05502_consen 2 LEELYFCEHCHKIRCPRCVSEEIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSVRA 66 (483)
T ss_pred cccceecccccccCChhhcccccceeECccccccCChhhheeccceeccccccCCCCCCcceeEe
Confidence 56678888888755321 1111223688889876521 13478999987765543
No 200
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=37.63 E-value=28 Score=19.17 Aligned_cols=10 Identities=40% Similarity=1.158 Sum_probs=7.8
Q ss_pred ccCCCCCCCC
Q psy2696 72 KLSCPICGQH 81 (180)
Q Consensus 72 ~~~CP~Cr~~ 81 (180)
.+.||.|+..
T Consensus 18 g~~CP~Cg~~ 27 (46)
T PF12760_consen 18 GFVCPHCGST 27 (46)
T ss_pred CCCCCCCCCe
Confidence 3679999875
No 201
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=36.96 E-value=11 Score=22.02 Aligned_cols=14 Identities=43% Similarity=0.828 Sum_probs=12.1
Q ss_pred cccccchHHhhhcc
Q psy2696 54 SCYHSFCARCLRGR 67 (180)
Q Consensus 54 ~C~H~fC~~Cl~~~ 67 (180)
.|++.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 58999999998876
No 202
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=36.81 E-value=29 Score=20.60 Aligned_cols=40 Identities=23% Similarity=0.407 Sum_probs=26.7
Q ss_pred CCCCccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCcccCCCCC
Q psy2696 33 GPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHTLLKEGST 89 (180)
Q Consensus 33 ~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~ 89 (180)
.+.+.+.||+|...+. -....+.+.||.|+...+..+|+.
T Consensus 4 ~LLeiLaCP~~kg~L~-----------------~~~~~~~L~c~~~~~aYpI~dGIP 43 (60)
T COG2835 4 RLLEILACPVCKGPLV-----------------YDEEKQELICPRCKLAYPIRDGIP 43 (60)
T ss_pred hhheeeeccCcCCcce-----------------EeccCCEEEecccCceeecccCcc
Confidence 3556777888776532 012334778999999998888644
No 203
>KOG3799|consensus
Probab=36.67 E-value=14 Score=25.84 Aligned_cols=46 Identities=26% Similarity=0.704 Sum_probs=25.6
Q ss_pred CCCCcccccccccc-CCCceeccccc-------cchHHhhhccc---cCCccCCCCCCCCc
Q psy2696 33 GPKNPLLCHVCDDY-YTEPCLLSCYH-------SFCARCLRGRT---VDGKLSCPICGQHT 82 (180)
Q Consensus 33 ~l~~~l~C~iC~~~-~~~P~~l~C~H-------~fC~~Cl~~~~---~~~~~~CP~Cr~~~ 82 (180)
...+..+|.||+.. |.| .||| -||..|-.+.. +...+.|..|+...
T Consensus 61 Gv~ddatC~IC~KTKFAD----G~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFAD----GCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred ccCcCcchhhhhhccccc----ccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 45677899999874 233 3565 44555544331 22345666665543
No 204
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=36.34 E-value=19 Score=24.91 Aligned_cols=15 Identities=13% Similarity=0.115 Sum_probs=8.6
Q ss_pred CCccCCCCCCCCccc
Q psy2696 70 DGKLSCPICGQHTLL 84 (180)
Q Consensus 70 ~~~~~CP~Cr~~~~~ 84 (180)
...+.||.|+.....
T Consensus 24 k~p~vcP~cg~~~~~ 38 (129)
T TIGR02300 24 RRPAVSPYTGEQFPP 38 (129)
T ss_pred CCCccCCCcCCccCc
Confidence 345567777665543
No 205
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=36.18 E-value=16 Score=25.25 Aligned_cols=20 Identities=25% Similarity=0.444 Sum_probs=12.1
Q ss_pred cccccCCCceeccccccchH
Q psy2696 42 VCDDYYTEPCLLSCYHSFCA 61 (180)
Q Consensus 42 iC~~~~~~P~~l~C~H~fC~ 61 (180)
||++.-..-....|||.||.
T Consensus 62 i~qs~~~rv~rcecghsf~d 81 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGD 81 (165)
T ss_pred EEecccccEEEEeccccccC
Confidence 44444334445578998875
No 206
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=35.89 E-value=1.6e+02 Score=20.84 Aligned_cols=12 Identities=33% Similarity=0.863 Sum_probs=7.3
Q ss_pred cccccccccC-CH
Q psy2696 118 DRNAMYFCST-CA 129 (180)
Q Consensus 118 ~~~~~~~C~~-C~ 129 (180)
.+....||.+ |+
T Consensus 10 de~~G~~CPTgC~ 22 (146)
T PF08702_consen 10 DEDFGSYCPTGCG 22 (146)
T ss_dssp STTTTEEEE-HHH
T ss_pred CccccCCCCCcch
Confidence 4446678876 77
No 207
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=35.41 E-value=21 Score=23.43 Aligned_cols=48 Identities=25% Similarity=0.474 Sum_probs=15.2
Q ss_pred cccccccccCC--Cceec--cccccchHHhhhcc---ccCCccCCCCCCCCcccCC
Q psy2696 38 LLCHVCDDYYT--EPCLL--SCYHSFCARCLRGR---TVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 38 l~C~iC~~~~~--~P~~l--~C~H~fC~~Cl~~~---~~~~~~~CP~Cr~~~~~~~ 86 (180)
=.|++|..... ++... +=||.| .+|.-.. ..-....|+.|....-...
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~l~~~ 69 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRALDPE 69 (99)
T ss_dssp --------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EEE-GG
T ss_pred ccccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEEecCc
Confidence 47999988663 55444 456877 3343332 2234478999988765443
No 208
>PRK11595 DNA utilization protein GntX; Provisional
Probab=34.36 E-value=38 Score=25.67 Aligned_cols=37 Identities=30% Similarity=0.645 Sum_probs=18.8
Q ss_pred ccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCC
Q psy2696 39 LCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 39 ~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
.|.+|...+..+ ...+|..|...+..- ...||.|...
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~~-~~~C~~Cg~~ 43 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRTL-KTCCPQCGLP 43 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCcc-cCcCccCCCc
Confidence 477776654321 123566666654221 2356666543
No 209
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=34.14 E-value=29 Score=20.54 Aligned_cols=18 Identities=33% Similarity=1.091 Sum_probs=11.2
Q ss_pred hHHhhhccccCCccCCCCCCC
Q psy2696 60 CARCLRGRTVDGKLSCPICGQ 80 (180)
Q Consensus 60 C~~Cl~~~~~~~~~~CP~Cr~ 80 (180)
|.+|-+ ......||.|..
T Consensus 39 C~~CRk---~~~~Y~CP~CGF 56 (59)
T PRK14890 39 CEKCRK---QSNPYTCPKCGF 56 (59)
T ss_pred chhHHh---cCCceECCCCCC
Confidence 556654 345667888864
No 210
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=33.66 E-value=2e+02 Score=21.28 Aligned_cols=12 Identities=8% Similarity=0.313 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q psy2696 167 ITKTQNSMIMEV 178 (180)
Q Consensus 167 l~~~~~~ll~~l 178 (180)
+....+.|-.+|
T Consensus 175 lk~~~~ql~~~l 186 (189)
T PF10211_consen 175 LKKQNQQLKAQL 186 (189)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 211
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=33.49 E-value=1.2e+02 Score=21.82 Aligned_cols=38 Identities=21% Similarity=0.195 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHH-----hHHHHHHHHHHHHHHHHHHHH
Q psy2696 131 VRTGLMNCRSSLDELQL-----NCDTEKMTIQSFCQGMIDAIT 168 (180)
Q Consensus 131 ~~~~~~~~~~~~~~l~~-----~~~~~~~~i~~~~~~l~~~l~ 168 (180)
++..+..+.+.++.+.. .-++.+.++.+.+++|.++++
T Consensus 98 VEGlL~~i~~~L~~~~~~~~~~~~~e~~~k~~~~~~~L~~~~~ 140 (160)
T smart00709 98 VEGLLSRVREVLSQAIQETRDDSDPETKEKIDEFLEKLKELIE 140 (160)
T ss_pred hHHHHHHHHHHHHhhhhhhcccCCHHHHHHHHHHHHHHHHHHc
Confidence 44444444444443311 123344556666666665543
No 212
>PRK04023 DNA polymerase II large subunit; Validated
Probab=33.40 E-value=40 Score=31.57 Aligned_cols=47 Identities=19% Similarity=0.263 Sum_probs=31.5
Q ss_pred ccccccccccCCCceeccccc-----cchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYH-----SFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H-----~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
.-.|+-|........--.||. .||.+|-.. .....||.|........
T Consensus 626 ~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~---~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 626 RRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE---VEEDECEKCGREPTPYS 677 (1121)
T ss_pred CccCCCCCCcCCcccCCCCCCCCCcceeCccccCc---CCCCcCCCCCCCCCccc
Confidence 458999998864333334884 599999443 23356999998776543
No 213
>KOG0314|consensus
Probab=33.09 E-value=40 Score=28.50 Aligned_cols=49 Identities=29% Similarity=0.706 Sum_probs=35.0
Q ss_pred CCCCCCccccccc-cccCCCceec--cccccchHHhhhccccCCccCCCCCCCC
Q psy2696 31 SCGPKNPLLCHVC-DDYYTEPCLL--SCYHSFCARCLRGRTVDGKLSCPICGQH 81 (180)
Q Consensus 31 ~~~l~~~l~C~iC-~~~~~~P~~l--~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~ 81 (180)
...+.+.+.|++| .+.|.+-..+ -|..+||..|+...... ..++.|...
T Consensus 213 v~~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~--~~~~~c~~~ 264 (448)
T KOG0314|consen 213 VGELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALIS--KSMCVCGAS 264 (448)
T ss_pred hccCCccccCceecchhhHHHHHhhhhhcccCCcccccccccc--ccCCcchhh
Confidence 4567788999999 7777777666 48899999999875322 235555443
No 214
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=33.03 E-value=1.1e+02 Score=18.20 Aligned_cols=38 Identities=8% Similarity=-0.045 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 133 TGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKT 170 (180)
Q Consensus 133 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~ 170 (180)
..++.++..+.-++.+-......+...++.|++...+.
T Consensus 3 ~qv~s~e~~i~FLq~eH~~tL~~LH~EIe~Lq~~~~dL 40 (60)
T PF14916_consen 3 QQVQSLEKSILFLQQEHAQTLKGLHAEIERLQKRNKDL 40 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 44666777777777777777777777777777665543
No 215
>PF14968 CCDC84: Coiled coil protein 84
Probab=32.99 E-value=2.7e+02 Score=22.74 Aligned_cols=12 Identities=17% Similarity=0.512 Sum_probs=8.0
Q ss_pred CCCCCCCCcccC
Q psy2696 74 SCPICGQHTLLK 85 (180)
Q Consensus 74 ~CP~Cr~~~~~~ 85 (180)
.|++||......
T Consensus 1 yC~vCr~~h~~g 12 (336)
T PF14968_consen 1 YCEVCRRNHDQG 12 (336)
T ss_pred CcchhhCccccc
Confidence 377888776554
No 216
>PF03367 zf-ZPR1: ZPR1 zinc-finger domain; InterPro: IPR004457 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 ZPR1-type zinc finger domains. An orthologous protein found once in each of the completed archaeal genomes corresponds to a zinc finger-containing domain repeated as the N-terminal and C-terminal halves of the mouse protein ZPR1. ZPR1 is an experimentally proven zinc-binding protein that binds the tyrosine kinase domain of the epidermal growth factor receptor (EGFR); binding is inhibited by EGF stimulation and tyrosine phosphorylation, and activation by EGF is followed by some redistribution of ZPR1 to the nucleus. By analogy, other proteins with the ZPR1 zinc finger domain may be regulatory proteins that sense protein phosphorylation state and/or participate in signal transduction (see also IPR004470 from INTERPRO). Deficiencies in ZPR1 may contribute to neurodegenerative disorders. ZPR1 appears to be down-regulated in patients with spinal muscular atrophy (SMA), a disease characterised by degeneration of the alpha-motor neurons in the spinal cord that can arise from mutations affecting the expression of Survival Motor Neurons (SMN) []. ZPR1 interacts with complexes formed by SMN [], and may act as a modifier that effects the severity of SMA. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2QKD_A.
Probab=32.05 E-value=1.4e+02 Score=21.42 Aligned_cols=37 Identities=30% Similarity=0.329 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHH----hHHHHHHHHHHHHHHHHHHH
Q psy2696 131 VRTGLMNCRSSLDELQL----NCDTEKMTIQSFCQGMIDAI 167 (180)
Q Consensus 131 ~~~~~~~~~~~~~~l~~----~~~~~~~~i~~~~~~l~~~l 167 (180)
++..+..+.+.+..... ...+....+.+.+++|.+++
T Consensus 100 VEGlL~~i~~~L~~~~~~~~~~~~e~~~~~~~~i~~L~~~~ 140 (161)
T PF03367_consen 100 VEGLLMRIIDNLERLQPERDSDDPEEKEKIEEFIEKLDELI 140 (161)
T ss_dssp HHHHHHHHHHHHHTTHHCCCHH-HHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHhhhhccccCCHHHHHHHHHHHHHHHHHH
Confidence 44445555555554442 33444555555555555543
No 217
>KOG1609|consensus
Probab=31.98 E-value=65 Score=25.34 Aligned_cols=51 Identities=20% Similarity=0.505 Sum_probs=35.7
Q ss_pred CCccccccccccCCC----ceeccccc-----cchHHhhhccc-cCCccCCCCCCCCcccC
Q psy2696 35 KNPLLCHVCDDYYTE----PCLLSCYH-----SFCARCLRGRT-VDGKLSCPICGQHTLLK 85 (180)
Q Consensus 35 ~~~l~C~iC~~~~~~----P~~l~C~H-----~fC~~Cl~~~~-~~~~~~CP~Cr~~~~~~ 85 (180)
.+...|-||...... +...||.. .....|+..|. ..+...|..|.......
T Consensus 76 ~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 76 SSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 336789999886642 55667653 45688999984 34677899998866544
No 218
>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=31.95 E-value=25 Score=17.38 Aligned_cols=20 Identities=35% Similarity=0.793 Sum_probs=8.7
Q ss_pred CCCCcCccccc-ccccccCCH
Q psy2696 110 PCANCDKRDRN-AMYFCSTCA 129 (180)
Q Consensus 110 ~c~~C~~h~~~-~~~~C~~C~ 129 (180)
.|..|...... ..|.|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cd 22 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECD 22 (30)
T ss_dssp --TTTS----S--EEE-TTT-
T ss_pred cCCcCCCcCCCCceEECccCC
Confidence 36777777555 678898886
No 219
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=31.90 E-value=23 Score=23.95 Aligned_cols=10 Identities=30% Similarity=0.720 Sum_probs=7.3
Q ss_pred ccCCCCCCCC
Q psy2696 72 KLSCPICGQH 81 (180)
Q Consensus 72 ~~~CP~Cr~~ 81 (180)
.+.||.|+..
T Consensus 86 ~~~CP~Cgs~ 95 (115)
T TIGR00100 86 LYRCPKCHGI 95 (115)
T ss_pred CccCcCCcCC
Confidence 4579999764
No 220
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 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. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=31.22 E-value=44 Score=18.98 Aligned_cols=9 Identities=22% Similarity=0.792 Sum_probs=6.6
Q ss_pred ccccccCCH
Q psy2696 121 AMYFCSTCA 129 (180)
Q Consensus 121 ~~~~C~~C~ 129 (180)
..-||+.|.
T Consensus 4 k~GYCE~C~ 12 (49)
T PF07535_consen 4 KPGYCENCR 12 (49)
T ss_pred CCccCcccc
Confidence 346899995
No 221
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=30.90 E-value=25 Score=23.66 Aligned_cols=11 Identities=27% Similarity=0.742 Sum_probs=7.6
Q ss_pred CccCCCCCCCC
Q psy2696 71 GKLSCPICGQH 81 (180)
Q Consensus 71 ~~~~CP~Cr~~ 81 (180)
..+.||.|...
T Consensus 85 ~~~~CP~Cgs~ 95 (113)
T PRK12380 85 HDAQCPHCHGE 95 (113)
T ss_pred cCccCcCCCCC
Confidence 44569999754
No 222
>KOG3850|consensus
Probab=30.88 E-value=2.9e+02 Score=23.11 Aligned_cols=41 Identities=10% Similarity=0.108 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 131 VRTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQ 171 (180)
Q Consensus 131 ~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~ 171 (180)
+.+.++.+++....+...++.-+.+++..+.-+.+.|++.+
T Consensus 265 ileeL~eIk~~q~~Leesye~Lke~~krdy~fi~etLQEER 305 (455)
T KOG3850|consen 265 ILEELREIKETQALLEESYERLKEQIKRDYKFIAETLQEER 305 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555556666666666666666666666665543
No 223
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=30.83 E-value=19 Score=19.92 Aligned_cols=16 Identities=31% Similarity=0.667 Sum_probs=10.8
Q ss_pred CCccCCCCCCCCcccC
Q psy2696 70 DGKLSCPICGQHTLLK 85 (180)
Q Consensus 70 ~~~~~CP~Cr~~~~~~ 85 (180)
...+.||.|+..+-..
T Consensus 17 ~~~irC~~CG~rIlyK 32 (44)
T smart00659 17 KDVVRCRECGYRILYK 32 (44)
T ss_pred CCceECCCCCceEEEE
Confidence 4667888887766443
No 224
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=30.39 E-value=11 Score=17.42 Aligned_cols=13 Identities=15% Similarity=0.815 Sum_probs=8.4
Q ss_pred ccccccccCCCce
Q psy2696 39 LCHVCDDYYTEPC 51 (180)
Q Consensus 39 ~C~iC~~~~~~P~ 51 (180)
.|.+|...|.++.
T Consensus 2 ~C~~C~~~f~s~~ 14 (25)
T PF12874_consen 2 YCDICNKSFSSEN 14 (25)
T ss_dssp EETTTTEEESSHH
T ss_pred CCCCCCCCcCCHH
Confidence 5777777766543
No 225
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=30.22 E-value=3.2e+02 Score=22.68 Aligned_cols=38 Identities=16% Similarity=0.206 Sum_probs=22.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 139 RSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIM 176 (180)
Q Consensus 139 ~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~ 176 (180)
++.++++..++.++..+.+..+++++..+++.+..+..
T Consensus 330 e~~l~~~E~~l~~e~~~~n~~Le~~~~~l~~~e~~l~~ 367 (373)
T COG5019 330 EKRLEELEQNLIEERKELNSKLEEIQKKLEDLEKRLEK 367 (373)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455555666666666666666666666666555443
No 226
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=30.17 E-value=31 Score=26.80 Aligned_cols=23 Identities=26% Similarity=0.517 Sum_probs=15.5
Q ss_pred ccccccccccCC-Cce--eccccccc
Q psy2696 37 PLLCHVCDDYYT-EPC--LLSCYHSF 59 (180)
Q Consensus 37 ~l~C~iC~~~~~-~P~--~l~C~H~f 59 (180)
.+.||+|...+. .+. ..+.+|+|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 378999999985 233 33556766
No 227
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=30.06 E-value=2.4e+02 Score=22.46 Aligned_cols=24 Identities=8% Similarity=0.063 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 152 EKMTIQSFCQGMIDAITKTQNSMI 175 (180)
Q Consensus 152 ~~~~i~~~~~~l~~~l~~~~~~ll 175 (180)
+.++.+..+.+|+++|+..+..|.
T Consensus 118 ALKEARkEIkQLkQvieTmrssL~ 141 (305)
T PF15290_consen 118 ALKEARKEIKQLKQVIETMRSSLA 141 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhc
Confidence 344455555555555555544443
No 228
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=30.03 E-value=1.5e+02 Score=18.70 Aligned_cols=32 Identities=19% Similarity=0.230 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q psy2696 135 LMNCRSSLDELQLNCDTEKMTIQSFCQGMIDA 166 (180)
Q Consensus 135 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~ 166 (180)
++.+...++.++.+.+.-..++.+......+.
T Consensus 28 l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l 59 (90)
T PF06103_consen 28 LDEVNKTIDTLQEQVDPITKEINDLLHNTNEL 59 (90)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444443333333
No 229
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=29.81 E-value=29 Score=22.73 Aligned_cols=14 Identities=29% Similarity=0.287 Sum_probs=9.0
Q ss_pred CccCCCCCCCCccc
Q psy2696 71 GKLSCPICGQHTLL 84 (180)
Q Consensus 71 ~~~~CP~Cr~~~~~ 84 (180)
...+||.|+..+..
T Consensus 79 ~~~~Cp~C~spFNp 92 (105)
T COG4357 79 MCGSCPYCQSPFNP 92 (105)
T ss_pred hcCCCCCcCCCCCc
Confidence 34568888776543
No 230
>KOG2068|consensus
Probab=29.78 E-value=1.9e+02 Score=23.53 Aligned_cols=47 Identities=23% Similarity=0.550 Sum_probs=33.0
Q ss_pred ccccccccccCC--Ccee--ccccccchHHhhhccccCCccCCCCCCCCccc
Q psy2696 37 PLLCHVCDDYYT--EPCL--LSCYHSFCARCLRGRTVDGKLSCPICGQHTLL 84 (180)
Q Consensus 37 ~l~C~iC~~~~~--~P~~--l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~~~ 84 (180)
.-.|++|.+... +--. .||++-.|.-|+... ..+...||.|+.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~-~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTI-SDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcc-cccCCCCCccCCcccc
Confidence 468999998773 2223 368888898888775 3445679999965543
No 231
>KOG1507|consensus
Probab=29.66 E-value=2.5e+02 Score=23.07 Aligned_cols=44 Identities=14% Similarity=0.196 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 134 GLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIME 177 (180)
Q Consensus 134 ~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~ 177 (180)
.+++++..-.++..+..+++-++...+..+.+-|-.++.+++.-
T Consensus 81 aLk~lQ~~~~~ie~~F~~e~~~LE~ky~~~yqplfdkR~eIi~g 124 (358)
T KOG1507|consen 81 ALKNLQLECDEIEAKFQEEVHELERKYAKLYQPLFDKRREIING 124 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhC
Confidence 35667777789999999999999999999999999999988864
No 232
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=29.55 E-value=2.2e+02 Score=21.61 Aligned_cols=39 Identities=8% Similarity=0.235 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q psy2696 131 VRTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITK 169 (180)
Q Consensus 131 ~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~ 169 (180)
+...+..+.+.++.+..+++.....+...|..|...+.+
T Consensus 198 l~~~~~~~~~~i~~~~~rl~~~~~~l~~qf~~me~~i~~ 236 (239)
T PF07195_consen 198 LNSQIKSLDKQIEDLEERLESKEERLRKQFSAMESLISQ 236 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455566666666666666666666666666655543
No 233
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=29.47 E-value=75 Score=22.30 Aligned_cols=51 Identities=8% Similarity=0.034 Sum_probs=29.6
Q ss_pred cccccCCH-HHHHHHHHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 122 MYFCSTCA-SVRTGLMNCRSSLDELQ---LNCDTEKMTIQSFCQGMIDAITKTQN 172 (180)
Q Consensus 122 ~~~C~~C~-~~~~~~~~~~~~~~~l~---~~~~~~~~~i~~~~~~l~~~l~~~~~ 172 (180)
..+|..|. ..++..+.+++.+.+.. +.+.+..+......+.+.++|++-+-
T Consensus 18 ~~iCp~C~~~~e~~f~kV~~yLr~~p~~~ati~eV~e~tgVs~~~I~~~IreGRL 72 (137)
T TIGR03826 18 RDVCPSCYEEEEREFEKVYKFLRKHENRQATVSEIVEETGVSEKLILKFIREGRL 72 (137)
T ss_pred CccCHHHhHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCcCHHHHHHHHHcCCe
Confidence 34677775 33455555666655433 35566666666666777777766443
No 234
>PRK06798 fliD flagellar capping protein; Validated
Probab=29.02 E-value=3.4e+02 Score=23.04 Aligned_cols=44 Identities=7% Similarity=0.117 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 130 SVRTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNS 173 (180)
Q Consensus 130 ~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ 173 (180)
.+...+..+.+.++.+..+++...+.+...|..|...+.+...+
T Consensus 383 ~l~~~i~~l~~~~~~~e~rl~~~e~~l~~qf~ale~~ms~lnsQ 426 (440)
T PRK06798 383 SIDNRVSKLDLKITDIDTQNKQKQDNIVDKYQKLESTLAALDSQ 426 (440)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35555666667777777777777777777777777777665544
No 235
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=29.01 E-value=49 Score=23.02 Aligned_cols=22 Identities=23% Similarity=0.822 Sum_probs=15.0
Q ss_pred CCCCCCcCcc--cccccccccCCH
Q psy2696 108 NPPCANCDKR--DRNAMYFCSTCA 129 (180)
Q Consensus 108 ~~~c~~C~~h--~~~~~~~C~~C~ 129 (180)
..+|+.|..- .+.-..||..|+
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~ 51 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCG 51 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCC
Confidence 3457777653 345678999998
No 236
>PF14772 NYD-SP28: Sperm tail
Probab=28.87 E-value=1.7e+02 Score=19.07 Aligned_cols=43 Identities=7% Similarity=0.233 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 136 MNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEV 178 (180)
Q Consensus 136 ~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~l 178 (180)
..++..++......+.....-...+..|.+-|.....+....+
T Consensus 54 ~eL~~~ie~q~~~~e~ii~~Kd~lI~~L~~eL~~~deqy~~~l 96 (104)
T PF14772_consen 54 QELRKEIEEQKQACERIIDRKDALIKELQQELKEADEQYVKAL 96 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555555555555555666666666666655554443
No 237
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=28.69 E-value=2.7e+02 Score=23.89 Aligned_cols=11 Identities=9% Similarity=0.350 Sum_probs=4.5
Q ss_pred HHHHHHHHHHH
Q psy2696 136 MNCRSSLDELQ 146 (180)
Q Consensus 136 ~~~~~~~~~l~ 146 (180)
..++++++.++
T Consensus 79 sELEKqLaaLr 89 (475)
T PRK13729 79 AQMQKQYEEIR 89 (475)
T ss_pred HHHHHHHHHHH
Confidence 33344444443
No 238
>KOG0994|consensus
Probab=28.54 E-value=3.1e+02 Score=26.70 Aligned_cols=20 Identities=25% Similarity=0.567 Sum_probs=11.9
Q ss_pred hHHhhhccccCCccCCCCCC
Q psy2696 60 CARCLRGRTVDGKLSCPICG 79 (180)
Q Consensus 60 C~~Cl~~~~~~~~~~CP~Cr 79 (180)
|..|-.-+|.+....|..|.
T Consensus 1097 C~qCqel~WGdP~~~C~aCd 1116 (1758)
T KOG0994|consen 1097 CSQCQELYWGDPNEKCRACD 1116 (1758)
T ss_pred hhHHHHhhcCCCCCCceecC
Confidence 55666666666655665553
No 239
>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=28.40 E-value=19 Score=18.80 Aligned_cols=10 Identities=40% Similarity=0.996 Sum_probs=5.3
Q ss_pred ccCCCCCCCC
Q psy2696 72 KLSCPICGQH 81 (180)
Q Consensus 72 ~~~CP~Cr~~ 81 (180)
.+.||.|+..
T Consensus 25 ~v~C~~C~~~ 34 (38)
T TIGR02098 25 KVRCGKCGHV 34 (38)
T ss_pred EEECCCCCCE
Confidence 3456666543
No 240
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=28.37 E-value=18 Score=17.91 Aligned_cols=6 Identities=50% Similarity=1.447 Sum_probs=2.4
Q ss_pred cCCCCC
Q psy2696 73 LSCPIC 78 (180)
Q Consensus 73 ~~CP~C 78 (180)
..||.|
T Consensus 22 ~~C~rC 27 (30)
T PF06827_consen 22 YLCPRC 27 (30)
T ss_dssp EE-TTT
T ss_pred eECcCC
Confidence 345555
No 241
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=28.35 E-value=37 Score=30.23 Aligned_cols=9 Identities=56% Similarity=1.364 Sum_probs=4.4
Q ss_pred CCCCCCCCc
Q psy2696 74 SCPICGQHT 82 (180)
Q Consensus 74 ~CP~Cr~~~ 82 (180)
.||.|+..+
T Consensus 43 fC~~CG~~~ 51 (645)
T PRK14559 43 HCPNCGAET 51 (645)
T ss_pred cccccCCcc
Confidence 355555443
No 242
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=28.13 E-value=69 Score=29.04 Aligned_cols=20 Identities=20% Similarity=0.546 Sum_probs=13.6
Q ss_pred CCCCCcCcccccccccccCCH
Q psy2696 109 PPCANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 109 ~~c~~C~~h~~~~~~~C~~C~ 129 (180)
..|-.|..+ +.....|..|+
T Consensus 463 L~CH~Cg~~-~~~p~~Cp~Cg 482 (730)
T COG1198 463 LRCHYCGYQ-EPIPQSCPECG 482 (730)
T ss_pred eEeCCCCCC-CCCCCCCCCCC
Confidence 357777766 45667788887
No 243
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=28.05 E-value=2.9e+02 Score=23.79 Aligned_cols=20 Identities=5% Similarity=0.159 Sum_probs=9.7
Q ss_pred HHHHHHHHHHhHHHHHHHHH
Q psy2696 138 CRSSLDELQLNCDTEKMTIQ 157 (180)
Q Consensus 138 ~~~~~~~l~~~~~~~~~~i~ 157 (180)
.+....+++++++..+.+++
T Consensus 74 qQ~kasELEKqLaaLrqElq 93 (475)
T PRK13729 74 MQVTAAQMQKQYEEIRRELD 93 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555544443
No 244
>KOG2264|consensus
Probab=27.95 E-value=3.8e+02 Score=23.89 Aligned_cols=19 Identities=16% Similarity=0.093 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy2696 154 MTIQSFCQGMIDAITKTQN 172 (180)
Q Consensus 154 ~~i~~~~~~l~~~l~~~~~ 172 (180)
.+++..++.+++.|.+.+.
T Consensus 110 ~~~n~kiEelk~~i~~~q~ 128 (907)
T KOG2264|consen 110 EEINTKIEELKRLIPQKQL 128 (907)
T ss_pred HHHHHHHHHHHHHHHHhHH
Confidence 3333333444444433333
No 245
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=27.77 E-value=42 Score=23.88 Aligned_cols=16 Identities=44% Similarity=1.065 Sum_probs=11.9
Q ss_pred CCccCCCCCCCCcccC
Q psy2696 70 DGKLSCPICGQHTLLK 85 (180)
Q Consensus 70 ~~~~~CP~Cr~~~~~~ 85 (180)
.+-+.||+|....-.+
T Consensus 30 ~glv~CP~Cgs~~V~K 45 (148)
T PF06676_consen 30 RGLVSCPVCGSTEVSK 45 (148)
T ss_pred cCCccCCCCCCCeEee
Confidence 3679999998865444
No 246
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=26.94 E-value=1.7e+02 Score=18.34 Aligned_cols=21 Identities=0% Similarity=0.181 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy2696 153 KMTIQSFCQGMIDAITKTQNS 173 (180)
Q Consensus 153 ~~~i~~~~~~l~~~l~~~~~~ 173 (180)
+..+...++.+.+.++.+-.+
T Consensus 52 R~~L~~~l~~lv~~mE~K~dQ 72 (79)
T PF06657_consen 52 RRDLEQELEELVKRMEAKADQ 72 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555444443
No 247
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=26.93 E-value=15 Score=24.75 Aligned_cols=10 Identities=50% Similarity=1.285 Sum_probs=6.3
Q ss_pred ccCCCCCCCC
Q psy2696 72 KLSCPICGQH 81 (180)
Q Consensus 72 ~~~CP~Cr~~ 81 (180)
.+.||.|...
T Consensus 86 ~~~CP~Cgs~ 95 (113)
T PF01155_consen 86 DFSCPRCGSP 95 (113)
T ss_dssp CHH-SSSSSS
T ss_pred CCCCcCCcCC
Confidence 3569988775
No 248
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=26.72 E-value=2.6e+02 Score=20.54 Aligned_cols=31 Identities=10% Similarity=0.143 Sum_probs=19.2
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 142 LDELQLNCDTEKMTIQSFCQGMIDAITKTQN 172 (180)
Q Consensus 142 ~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~ 172 (180)
.+++....+..+.+++..+..|.+.|...++
T Consensus 144 r~~~i~~a~~~~~e~~~~l~~l~~ei~~~~~ 174 (176)
T PF12999_consen 144 RQELIEEAKKKREELEKKLEELEKEIQAAKQ 174 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455555666666666666777666666554
No 249
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.66 E-value=24 Score=22.85 Aligned_cols=10 Identities=40% Similarity=1.089 Sum_probs=9.1
Q ss_pred cchHHhhhcc
Q psy2696 58 SFCARCLRGR 67 (180)
Q Consensus 58 ~fC~~Cl~~~ 67 (180)
-||..||..|
T Consensus 42 gFCRNCLs~W 51 (104)
T COG3492 42 GFCRNCLSNW 51 (104)
T ss_pred HHHHHHHHHH
Confidence 5999999998
No 250
>PRK11677 hypothetical protein; Provisional
Probab=26.56 E-value=2.3e+02 Score=19.80 Aligned_cols=34 Identities=6% Similarity=0.051 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q psy2696 135 LMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAIT 168 (180)
Q Consensus 135 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~ 168 (180)
...++..+++.+..+++-++++.++|.+-.+.++
T Consensus 31 q~~le~eLe~~k~ele~YkqeV~~HFa~TA~Ll~ 64 (134)
T PRK11677 31 QQALQYELEKNKAELEEYRQELVSHFARSAELLD 64 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556666666666676677777666655444443
No 251
>KOG2391|consensus
Probab=26.48 E-value=3.6e+02 Score=22.11 Aligned_cols=15 Identities=7% Similarity=-0.059 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHHH
Q psy2696 153 KMTIQSFCQGMIDAI 167 (180)
Q Consensus 153 ~~~i~~~~~~l~~~l 167 (180)
.++|+....+|...+
T Consensus 241 ~EeL~~G~~kL~~~~ 255 (365)
T KOG2391|consen 241 EEELNIGKQKLVAMK 255 (365)
T ss_pred HHHHHhhHHHHHHHH
Confidence 333333333333333
No 252
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=26.24 E-value=24 Score=15.56 Aligned_cols=9 Identities=22% Similarity=1.058 Sum_probs=3.2
Q ss_pred cccccccCC
Q psy2696 40 CHVCDDYYT 48 (180)
Q Consensus 40 C~iC~~~~~ 48 (180)
|++|...|.
T Consensus 3 C~~C~~~~~ 11 (24)
T PF13894_consen 3 CPICGKSFR 11 (24)
T ss_dssp -SSTS-EES
T ss_pred CcCCCCcCC
Confidence 444444443
No 253
>KOG1729|consensus
Probab=26.24 E-value=25 Score=27.92 Aligned_cols=52 Identities=25% Similarity=0.400 Sum_probs=34.5
Q ss_pred CCCCCccccccccc-cCCC--c--eeccccccchHHhhhcc-----c-cCCccCCCCCCCCcc
Q psy2696 32 CGPKNPLLCHVCDD-YYTE--P--CLLSCYHSFCARCLRGR-----T-VDGKLSCPICGQHTL 83 (180)
Q Consensus 32 ~~l~~~l~C~iC~~-~~~~--P--~~l~C~H~fC~~Cl~~~-----~-~~~~~~CP~Cr~~~~ 83 (180)
-.+.+...|.+|.. .|.. - .--.||+.||..|-... . .+....|+.|-..+.
T Consensus 163 ~PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~ 225 (288)
T KOG1729|consen 163 LPDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELE 225 (288)
T ss_pred cCcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHh
Confidence 45567889999999 6642 1 23369999999887652 1 223347888866553
No 254
>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=25.88 E-value=24 Score=20.12 Aligned_cols=12 Identities=33% Similarity=0.933 Sum_probs=6.1
Q ss_pred CCCCCCCCcccC
Q psy2696 74 SCPICGQHTLLK 85 (180)
Q Consensus 74 ~CP~Cr~~~~~~ 85 (180)
.||+|...+...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899998876544
No 255
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=25.88 E-value=3.7e+02 Score=22.90 Aligned_cols=42 Identities=10% Similarity=0.067 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 131 VRTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQN 172 (180)
Q Consensus 131 ~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~ 172 (180)
+...+..+.+.++.+..+++...+.++..|.+|...+.+...
T Consensus 411 l~~~i~~l~~~i~~~~~rl~~~e~rl~~qF~ame~~~s~mns 452 (462)
T PRK08032 411 VNKTLKKLTKQYNAVSDSIDATIARYKAQFTQLDKLMTSLNS 452 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455556666666666666666666666666666555443
No 256
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=25.86 E-value=1.4e+02 Score=24.21 Aligned_cols=46 Identities=11% Similarity=0.120 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 132 RTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIME 177 (180)
Q Consensus 132 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~ 177 (180)
+.-+..++.+++++..-.+.....+.+.+..|.+.+++...++...
T Consensus 12 e~~i~el~~~i~~l~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~ 57 (322)
T CHL00198 12 MKPLAELESQVEELSKLAPKNDKVINNKLKSFQRKLRILKKEIFYS 57 (322)
T ss_pred hhhHHHHHHHHHHHHhhhcccccCHHHHHHHHHHHHHHHHHHHHhc
Confidence 3445566666666665444333455566666666666655555443
No 257
>PRK14011 prefoldin subunit alpha; Provisional
Probab=25.42 E-value=2.5e+02 Score=19.84 Aligned_cols=44 Identities=11% Similarity=0.171 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 130 SVRTGLMNCRSSLDELQL---NCDTEKMTIQSFCQGMIDAITKTQNS 173 (180)
Q Consensus 130 ~~~~~~~~~~~~~~~l~~---~~~~~~~~i~~~~~~l~~~l~~~~~~ 173 (180)
.+.++...++..++.+.+ .+.....++.+.+..+...++.+-+.
T Consensus 85 ~~~eA~~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~L~~k~~~ 131 (144)
T PRK14011 85 DVSEVIEDFKKSVEELDKTKKEGNKKIEELNKEITKLRKELEKRAQA 131 (144)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666666655544444 33444444444444444444444333
No 258
>PTZ00421 coronin; Provisional
Probab=25.08 E-value=2.7e+02 Score=23.98 Aligned_cols=28 Identities=11% Similarity=0.128 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy2696 153 KMTIQSFCQGMIDAITKTQNSMIMEVQR 180 (180)
Q Consensus 153 ~~~i~~~~~~l~~~l~~~~~~ll~~le~ 180 (180)
...-.+.++++++.|++++..+|+-||.
T Consensus 462 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 489 (493)
T PTZ00421 462 LRTQHEEIKRCREALQKKESIVMETLEK 489 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344566778888999999999888873
No 259
>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=25.08 E-value=48 Score=21.48 Aligned_cols=36 Identities=22% Similarity=0.757 Sum_probs=26.1
Q ss_pred ccccccccccCCCceeccccccchHHhhhccccCCccCCCCCCCCc
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYHSFCARCLRGRTVDGKLSCPICGQHT 82 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~~~ 82 (180)
.-.|.+|..-...| ||.||..|-.+.. .|..|...+
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAYkkG-----iCamCGKki 79 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAYKKG-----ICAMCGKKI 79 (90)
T ss_pred CccccccccccccC-----CCccChhhhcccC-----cccccCCee
Confidence 45688887755543 7789999976532 599998876
No 260
>KOG2231|consensus
Probab=25.02 E-value=51 Score=29.40 Aligned_cols=47 Identities=26% Similarity=0.471 Sum_probs=35.9
Q ss_pred ccccccccCCCceeccccc-cchHHhhhcccc-----CCccCCCCCCCCcccC
Q psy2696 39 LCHVCDDYYTEPCLLSCYH-SFCARCLRGRTV-----DGKLSCPICGQHTLLK 85 (180)
Q Consensus 39 ~C~iC~~~~~~P~~l~C~H-~fC~~Cl~~~~~-----~~~~~CP~Cr~~~~~~ 85 (180)
.|.||-.-++-+..-+||| ..|..|.-+... ....-||+|+..+...
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 5889988888888889999 999999877621 1245679999866444
No 261
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=24.92 E-value=3.2e+02 Score=20.91 Aligned_cols=17 Identities=12% Similarity=0.317 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHhHHHHH
Q psy2696 137 NCRSSLDELQLNCDTEK 153 (180)
Q Consensus 137 ~~~~~~~~l~~~~~~~~ 153 (180)
.+++.+..+...++.+.
T Consensus 38 ~i~e~i~~Le~~l~~E~ 54 (247)
T PF06705_consen 38 DIKEQIQKLEKALEAEV 54 (247)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 262
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=24.82 E-value=48 Score=15.68 Aligned_cols=13 Identities=31% Similarity=1.147 Sum_probs=8.6
Q ss_pred cccccccccCCCc
Q psy2696 38 LLCHVCDDYYTEP 50 (180)
Q Consensus 38 l~C~iC~~~~~~P 50 (180)
+.|.+|...|.+.
T Consensus 2 ~~C~~C~k~f~~~ 14 (27)
T PF12171_consen 2 FYCDACDKYFSSE 14 (27)
T ss_dssp CBBTTTTBBBSSH
T ss_pred CCcccCCCCcCCH
Confidence 4577777777654
No 263
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=24.79 E-value=30 Score=18.98 Aligned_cols=15 Identities=47% Similarity=1.068 Sum_probs=10.5
Q ss_pred ccCCCCCCCCcccCC
Q psy2696 72 KLSCPICGQHTLLKE 86 (180)
Q Consensus 72 ~~~CP~Cr~~~~~~~ 86 (180)
.+.||.|+.......
T Consensus 21 ~~~Cp~CG~~~~~~~ 35 (46)
T PRK00398 21 GVRCPYCGYRILFKE 35 (46)
T ss_pred ceECCCCCCeEEEcc
Confidence 567888887765544
No 264
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=24.43 E-value=1.8e+02 Score=24.66 Aligned_cols=48 Identities=4% Similarity=0.158 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 131 VRTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSMIMEV 178 (180)
Q Consensus 131 ~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~ll~~l 178 (180)
++.-+..++.++++++...+....++.+.+..|.+.+++...++...|
T Consensus 78 fe~pi~ele~ki~el~~~~~~~~~~~~~ei~~l~~~~~~~~~~i~~~L 125 (431)
T PLN03230 78 FEKPIVDLENRIDEVRELANKTGVDFSAQIAELEERYDQVRRELYSRL 125 (431)
T ss_pred hhhHHHHHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHHhcC
Confidence 455567777777777665544444556666666666666666555443
No 265
>KOG4623|consensus
Probab=24.40 E-value=1.2e+02 Score=26.23 Aligned_cols=31 Identities=23% Similarity=0.548 Sum_probs=17.4
Q ss_pred eeccccccchHHhhhc-cccCCccCCCCCCCCcc
Q psy2696 51 CLLSCYHSFCARCLRG-RTVDGKLSCPICGQHTL 83 (180)
Q Consensus 51 ~~l~C~H~fC~~Cl~~-~~~~~~~~CP~Cr~~~~ 83 (180)
....|. ||.+=.+. +.+.+.+.||.|...-.
T Consensus 27 t~VnCw--FCnk~t~vpyq~rNswTCpsCEQyNg 58 (611)
T KOG4623|consen 27 TTVNCW--FCNKKTEVPYQGRNSWTCPSCEQYNG 58 (611)
T ss_pred ceEEEE--EecCcceeccCCCCCCcCCcHHhhCC
Confidence 344454 55443322 23457789999976443
No 266
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=24.21 E-value=3.7e+02 Score=21.44 Aligned_cols=31 Identities=6% Similarity=0.184 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2696 134 GLMNCRSSLDELQLNCDTEKMTIQSFCQGMI 164 (180)
Q Consensus 134 ~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~ 164 (180)
.++.+++.++.++.++.++=+-|++.|..+.
T Consensus 125 EIkQLkQvieTmrssL~ekDkGiQKYFvDIN 155 (305)
T PF15290_consen 125 EIKQLKQVIETMRSSLAEKDKGIQKYFVDIN 155 (305)
T ss_pred HHHHHHHHHHHHHhhhchhhhhHHHHHhhhh
Confidence 3555666666666666666666777776654
No 267
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=24.15 E-value=4e+02 Score=23.71 Aligned_cols=37 Identities=5% Similarity=0.201 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q psy2696 132 RTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAIT 168 (180)
Q Consensus 132 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~ 168 (180)
.+.++.+++.++++++..++..+++++....+...+.
T Consensus 214 ~~~l~~l~~~l~~l~~~~~~~~~~l~~~~~~~~~~~~ 250 (646)
T PRK05771 214 SELIREIKEELEEIEKERESLLEELKELAKKYLEELL 250 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555566666555555555555555544443333
No 268
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=23.96 E-value=2e+02 Score=18.11 Aligned_cols=20 Identities=15% Similarity=0.067 Sum_probs=7.1
Q ss_pred HHHHhHHHHHHHHHHHHHHH
Q psy2696 144 ELQLNCDTEKMTIQSFCQGM 163 (180)
Q Consensus 144 ~l~~~~~~~~~~i~~~~~~l 163 (180)
++.......+....+.+.+|
T Consensus 50 eLE~~h~kmK~~YEeEI~rL 69 (79)
T PF08581_consen 50 ELEQAHRKMKQQYEEEIARL 69 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333
No 269
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=23.90 E-value=1.5e+02 Score=23.16 Aligned_cols=15 Identities=20% Similarity=0.496 Sum_probs=11.5
Q ss_pred CccccccccccCCCc
Q psy2696 36 NPLLCHVCDDYYTEP 50 (180)
Q Consensus 36 ~~l~C~iC~~~~~~P 50 (180)
....|.+|+...+..
T Consensus 64 p~v~CrVCq~~I~i~ 78 (256)
T PF09788_consen 64 PVVTCRVCQSLIDIE 78 (256)
T ss_pred ceEEeecCCceeccc
Confidence 467899999888743
No 270
>KOG2272|consensus
Probab=23.52 E-value=51 Score=25.72 Aligned_cols=53 Identities=21% Similarity=0.330 Sum_probs=34.5
Q ss_pred CCCCCCccccccccccCCCceeccccccchHHhhhc---cccCCccCCCCCCCCcc
Q psy2696 31 SCGPKNPLLCHVCDDYYTEPCLLSCYHSFCARCLRG---RTVDGKLSCPICGQHTL 83 (180)
Q Consensus 31 ~~~l~~~l~C~iC~~~~~~P~~l~C~H~fC~~Cl~~---~~~~~~~~CP~Cr~~~~ 83 (180)
+..+..+|.|+-|.+.+..|+--.|...+=..-+.. .|...-++|..|..+.-
T Consensus 177 aRevk~eLyClrChD~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPFl 232 (332)
T KOG2272|consen 177 AREVKGELYCLRCHDKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPFL 232 (332)
T ss_pred hhhhccceeccccccccCCcccccccCchHHHHHHHhccccchhheeehhcCCccc
Confidence 456677888888888888886555554443322222 25566788888877653
No 271
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=23.31 E-value=46 Score=19.42 Aligned_cols=14 Identities=36% Similarity=0.741 Sum_probs=8.8
Q ss_pred CCccCCCCCCCCcc
Q psy2696 70 DGKLSCPICGQHTL 83 (180)
Q Consensus 70 ~~~~~CP~Cr~~~~ 83 (180)
...+.||.|+-++-
T Consensus 12 ~v~~~Cp~cGipth 25 (55)
T PF13824_consen 12 HVNFECPDCGIPTH 25 (55)
T ss_pred ccCCcCCCCCCcCc
Confidence 34567888766553
No 272
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=23.16 E-value=36 Score=26.90 Aligned_cols=31 Identities=29% Similarity=0.614 Sum_probs=21.6
Q ss_pred ccccchHHhhhccc---cCCccCCCCCCCCcccC
Q psy2696 55 CYHSFCARCLRGRT---VDGKLSCPICGQHTLLK 85 (180)
Q Consensus 55 C~H~fC~~Cl~~~~---~~~~~~CP~Cr~~~~~~ 85 (180)
=.|-||..|-.+.. .+....||.|+..+-++
T Consensus 109 ~~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fPR 142 (279)
T COG2816 109 RSHRFCGRCGTKTYPREGGWARVCPKCGHEHFPR 142 (279)
T ss_pred hhCcCCCCCCCcCccccCceeeeCCCCCCccCCC
Confidence 56889999987652 23456799998876544
No 273
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=23.14 E-value=2.7e+02 Score=19.48 Aligned_cols=40 Identities=8% Similarity=0.249 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 135 LMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQNSM 174 (180)
Q Consensus 135 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~l 174 (180)
+..++..+.++...++.+...|+..+..-..-+......+
T Consensus 12 i~~l~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l 51 (149)
T PF07352_consen 12 IAELQREIARIEAEANDEIARIKEWYEAEIAPLQNRIEYL 51 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555556666666666666555554444444444433
No 274
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.10 E-value=51 Score=22.34 Aligned_cols=8 Identities=25% Similarity=0.783 Sum_probs=6.1
Q ss_pred CCCCCCCC
Q psy2696 74 SCPICGQH 81 (180)
Q Consensus 74 ~CP~Cr~~ 81 (180)
.||.|...
T Consensus 90 ~CP~Cgs~ 97 (117)
T PRK00564 90 VCEKCHSK 97 (117)
T ss_pred cCcCCCCC
Confidence 49999764
No 275
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.01 E-value=2.7e+02 Score=19.41 Aligned_cols=34 Identities=6% Similarity=0.124 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q psy2696 136 MNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITK 169 (180)
Q Consensus 136 ~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~ 169 (180)
++++..++.++.+++..++++..+|..-.+.++.
T Consensus 37 ~~~q~ELe~~K~~ld~~rqel~~HFa~sAeLlkt 70 (138)
T COG3105 37 QKLQYELEKVKAQLDEYRQELVKHFARSAELLKT 70 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777788888888888887777655544443
No 276
>PF01496 V_ATPase_I: V-type ATPase 116kDa subunit family ; InterPro: IPR002490 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents the 116kDa subunit (or subunit a) and subunit I found in the V0 or A0 complex of V- or A-ATPases, respectively. The 116kDa subunit is a transmembrane glycoprotein required for the assembly and proton transport activity of the ATPase complex. Several isoforms of the 116kDa subunit exist, providing a potential role in the differential targeting and regulation of the V-ATPase for specific organelles []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 2RPW_X 2NVJ_A 2JTW_A 3RRK_A.
Probab=23.01 E-value=5.3e+02 Score=23.50 Aligned_cols=38 Identities=5% Similarity=0.203 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q psy2696 132 RTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITK 169 (180)
Q Consensus 132 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~ 169 (180)
.+.++.+++.++++++..++..+++++..+++.+.+..
T Consensus 228 ~e~~~~l~~~i~~l~~~~~~~~~~l~~~~~~~~~~l~~ 265 (759)
T PF01496_consen 228 EEAIKELEEEIEELEKELEELEEELKKLLEKYAEELEA 265 (759)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555555555444444443333
No 277
>KOG3362|consensus
Probab=22.98 E-value=27 Score=24.65 Aligned_cols=29 Identities=28% Similarity=0.812 Sum_probs=19.5
Q ss_pred ccccccccccCCCceeccccccchHH-hhhc
Q psy2696 37 PLLCHVCDDYYTEPCLLSCYHSFCAR-CLRG 66 (180)
Q Consensus 37 ~l~C~iC~~~~~~P~~l~C~H~fC~~-Cl~~ 66 (180)
.-+|.||+ ++..-.-..||..+|.. |+..
T Consensus 118 r~fCaVCG-~~S~ysC~~CG~kyCsv~C~~~ 147 (156)
T KOG3362|consen 118 RKFCAVCG-YDSKYSCVNCGTKYCSVRCLKT 147 (156)
T ss_pred chhhhhcC-CCchhHHHhcCCceeechhhhh
Confidence 36899999 44444455799888753 6543
No 278
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=22.90 E-value=54 Score=18.02 Aligned_cols=22 Identities=27% Similarity=0.495 Sum_probs=10.1
Q ss_pred cccccccCCCceeccccccchH
Q psy2696 40 CHVCDDYYTEPCLLSCYHSFCA 61 (180)
Q Consensus 40 C~iC~~~~~~P~~l~C~H~fC~ 61 (180)
|..|...-..-+-|.|++.+|.
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~ 23 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCG 23 (50)
T ss_pred cccCCCcCCeEEecCCCCcccC
Confidence 4455533322234456666653
No 279
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=22.80 E-value=38 Score=16.64 Aligned_cols=19 Identities=21% Similarity=0.658 Sum_probs=9.4
Q ss_pred CCCcCcccccccccccCCH
Q psy2696 111 CANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 111 c~~C~~h~~~~~~~C~~C~ 129 (180)
|..|..++......|..|.
T Consensus 7 C~~C~~~N~~~~~~C~~C~ 25 (30)
T PF00641_consen 7 CPSCTFMNPASRSKCVACG 25 (30)
T ss_dssp ETTTTEEEESSSSB-TTT-
T ss_pred CCCCcCCchHHhhhhhCcC
Confidence 4555555555555565553
No 280
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=22.71 E-value=50 Score=19.15 Aligned_cols=14 Identities=36% Similarity=0.916 Sum_probs=10.8
Q ss_pred cCCCCCCCCcccCC
Q psy2696 73 LSCPICGQHTLLKE 86 (180)
Q Consensus 73 ~~CP~Cr~~~~~~~ 86 (180)
+.||.|...+..+.
T Consensus 3 ~~CP~CG~~iev~~ 16 (54)
T TIGR01206 3 FECPDCGAEIELEN 16 (54)
T ss_pred cCCCCCCCEEecCC
Confidence 57999998877654
No 281
>PHA02682 ORF080 virion core protein; Provisional
Probab=22.51 E-value=2.9e+02 Score=20.82 Aligned_cols=26 Identities=19% Similarity=0.151 Sum_probs=16.3
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHH
Q psy2696 143 DELQLNCDTEKMTIQSFCQGMIDAIT 168 (180)
Q Consensus 143 ~~l~~~~~~~~~~i~~~~~~l~~~l~ 168 (180)
..|...++..+...+..++.|+..+.
T Consensus 232 ~~LtrDIE~AKstTq~AIdDLRrLl~ 257 (280)
T PHA02682 232 LSLTRDIENAKSTTQAAIDDLRRLLT 257 (280)
T ss_pred hhhHHHHHHHHhhHHHHHHHHHHHHh
Confidence 34555666666666667777766664
No 282
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=22.50 E-value=51 Score=19.77 Aligned_cols=13 Identities=31% Similarity=0.930 Sum_probs=10.2
Q ss_pred ccCCCCCCCCccc
Q psy2696 72 KLSCPICGQHTLL 84 (180)
Q Consensus 72 ~~~CP~Cr~~~~~ 84 (180)
.+.||.|+..+..
T Consensus 6 ~v~CP~C~k~~~w 18 (62)
T PRK00418 6 TVNCPTCGKPVEW 18 (62)
T ss_pred cccCCCCCCcccc
Confidence 4679999998753
No 283
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=22.47 E-value=39 Score=17.30 Aligned_cols=13 Identities=31% Similarity=0.971 Sum_probs=7.3
Q ss_pred CCccCCCCCCCCc
Q psy2696 70 DGKLSCPICGQHT 82 (180)
Q Consensus 70 ~~~~~CP~Cr~~~ 82 (180)
...+.||.|...+
T Consensus 15 ~~~irC~~CG~RI 27 (32)
T PF03604_consen 15 GDPIRCPECGHRI 27 (32)
T ss_dssp SSTSSBSSSS-SE
T ss_pred CCcEECCcCCCeE
Confidence 3456777776543
No 284
>PHA02047 phage lambda Rz1-like protein
Probab=22.37 E-value=2.4e+02 Score=18.54 Aligned_cols=27 Identities=11% Similarity=0.092 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2696 153 KMTIQSFCQGMIDAITKTQNSMIMEVQ 179 (180)
Q Consensus 153 ~~~i~~~~~~l~~~l~~~~~~ll~~le 179 (180)
...+++...++...-+.+.+++..+|+
T Consensus 50 ~~~~Q~~V~~l~~kae~~t~Ei~~aL~ 76 (101)
T PHA02047 50 YATLQRHVQAVEARTNTQRQEVDRALD 76 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666666667777777877776
No 285
>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=22.10 E-value=49 Score=17.26 Aligned_cols=12 Identities=42% Similarity=0.977 Sum_probs=8.3
Q ss_pred CCccCCCCCCCC
Q psy2696 70 DGKLSCPICGQH 81 (180)
Q Consensus 70 ~~~~~CP~Cr~~ 81 (180)
.....||.|+..
T Consensus 24 ~~~~~CP~Cg~~ 35 (41)
T smart00834 24 DPLATCPECGGD 35 (41)
T ss_pred CCCCCCCCCCCc
Confidence 345678988873
No 286
>KOG2789|consensus
Probab=22.05 E-value=45 Score=27.72 Aligned_cols=34 Identities=24% Similarity=0.615 Sum_probs=26.5
Q ss_pred CCCccccccccccCCCceec--cccccchHHhhhcc
Q psy2696 34 PKNPLLCHVCDDYYTEPCLL--SCYHSFCARCLRGR 67 (180)
Q Consensus 34 l~~~l~C~iC~~~~~~P~~l--~C~H~fC~~Cl~~~ 67 (180)
-+-...|+||+-+|-....+ -|.-++|..|+-..
T Consensus 71 ~rr~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 71 SRRKTECPICFLYYPSAKNLVRCCSETICGECFAPF 106 (482)
T ss_pred ccccccCceeeeecccccchhhhhccchhhhheecc
Confidence 34457899999999765544 59999999998764
No 287
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=22.04 E-value=67 Score=18.28 Aligned_cols=28 Identities=18% Similarity=0.451 Sum_probs=17.6
Q ss_pred ccccccccCC--CceeccccccchHHhhhcc
Q psy2696 39 LCHVCDDYYT--EPCLLSCYHSFCARCLRGR 67 (180)
Q Consensus 39 ~C~iC~~~~~--~P~~l~C~H~fC~~Cl~~~ 67 (180)
.|+||.+... .+.-+.=| .+|.+|+.+.
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 3788877654 22334444 6888888764
No 288
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=22.02 E-value=3.5e+02 Score=21.39 Aligned_cols=8 Identities=0% Similarity=-0.201 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q psy2696 158 SFCQGMID 165 (180)
Q Consensus 158 ~~~~~l~~ 165 (180)
+..++|++
T Consensus 98 ~EN~rLr~ 105 (283)
T TIGR00219 98 QENVRLRE 105 (283)
T ss_pred HHHHHHHH
Confidence 33333333
No 289
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.00 E-value=35 Score=24.01 Aligned_cols=16 Identities=31% Similarity=0.904 Sum_probs=10.7
Q ss_pred CccCCCCCCCCcccCC
Q psy2696 71 GKLSCPICGQHTLLKE 86 (180)
Q Consensus 71 ~~~~CP~Cr~~~~~~~ 86 (180)
+.+.||.|+..+...+
T Consensus 122 ~~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 122 GTFTCPRCGEELEEDD 137 (147)
T ss_pred CcEECCCCCCEEEEcC
Confidence 3477888887765543
No 290
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=21.79 E-value=45 Score=22.46 Aligned_cols=9 Identities=33% Similarity=0.899 Sum_probs=6.7
Q ss_pred cCCCCCCCC
Q psy2696 73 LSCPICGQH 81 (180)
Q Consensus 73 ~~CP~Cr~~ 81 (180)
+.||.|...
T Consensus 88 ~~CP~Cgs~ 96 (114)
T PRK03681 88 RRCPQCHGD 96 (114)
T ss_pred CcCcCcCCC
Confidence 569999764
No 291
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=21.66 E-value=4.8e+02 Score=23.53 Aligned_cols=42 Identities=7% Similarity=0.199 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 131 VRTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQN 172 (180)
Q Consensus 131 ~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~ 172 (180)
+...+..+...++.+..+++.....++..|..|...+.+.+.
T Consensus 605 l~~~i~~l~~~i~~~e~rl~~~e~rl~~QFtaME~~msqmns 646 (661)
T PRK06664 605 LDERIADNNKKIEEYEKKLESKERKLKGKYLTMDQTVKKMKE 646 (661)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666677777777777777777777777766665544
No 292
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.63 E-value=70 Score=21.62 Aligned_cols=41 Identities=24% Similarity=0.565 Sum_probs=25.9
Q ss_pred cccccccccCCCce--------------eccccccchHHhhhccccCCccCCCCCC
Q psy2696 38 LLCHVCDDYYTEPC--------------LLSCYHSFCARCLRGRTVDGKLSCPICG 79 (180)
Q Consensus 38 l~C~iC~~~~~~P~--------------~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr 79 (180)
-.|--|+..|.++. --.|.+.||.+|=.-+ .+.--.||.|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fi-He~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFV-HESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhh-hhhccCCcCCC
Confidence 35889998887542 1248888888884332 22333588875
No 293
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=21.56 E-value=5.3e+02 Score=22.22 Aligned_cols=11 Identities=18% Similarity=0.456 Sum_probs=5.0
Q ss_pred HHHHHHHHHHh
Q psy2696 95 NVLKQLIEVAN 105 (180)
Q Consensus 95 ~~l~~l~~~~~ 105 (180)
..+..++..++
T Consensus 59 DTlrTlva~~k 69 (472)
T TIGR03752 59 DTLRTLVAEVK 69 (472)
T ss_pred chHHHHHHHHH
Confidence 34445544443
No 294
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=21.55 E-value=39 Score=23.80 Aligned_cols=14 Identities=29% Similarity=0.731 Sum_probs=10.8
Q ss_pred CCccCCCCCCCCcc
Q psy2696 70 DGKLSCPICGQHTL 83 (180)
Q Consensus 70 ~~~~~CP~Cr~~~~ 83 (180)
+..+.||.||..++
T Consensus 7 Gpei~CPhCRQ~ip 20 (163)
T TIGR02652 7 GPEIRCPHCRQNIP 20 (163)
T ss_pred CCcCcCchhhcccc
Confidence 35678999998764
No 295
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=21.11 E-value=1.7e+02 Score=26.59 Aligned_cols=49 Identities=18% Similarity=0.498 Sum_probs=30.6
Q ss_pred chHHhhhccc-------cCCccCCCCCCCCcccCC-CCCCCCChHHHHHHHHHHhcCC
Q psy2696 59 FCARCLRGRT-------VDGKLSCPICGQHTLLKE-GSTLPPPDNVLKQLIEVANAEN 108 (180)
Q Consensus 59 fC~~Cl~~~~-------~~~~~~CP~Cr~~~~~~~-~~~~l~~n~~l~~l~~~~~~~~ 108 (180)
.|..|...+. ......||.|.-.+.+.+ .+. ......+...++.++...
T Consensus 120 ~C~~C~~ey~~p~~rr~h~~~~~C~~Cgp~l~l~~~~g~-~~~~~~i~~aa~~L~~G~ 176 (711)
T TIGR00143 120 LCPDCAKEYKDPLDRRFHAQPIACPRCGPQLNFVSRGGH-AEQDDALLEAAKLLKKGK 176 (711)
T ss_pred CCHHHHHHhcCCccccCCCCCccCCCCCcEEEEEeCCCC-ccchHHHHHHHHHHhCCC
Confidence 3999998872 235689999999887644 111 222345556666666543
No 296
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=21.01 E-value=41 Score=23.63 Aligned_cols=13 Identities=31% Similarity=0.756 Sum_probs=10.2
Q ss_pred CccCCCCCCCCcc
Q psy2696 71 GKLSCPICGQHTL 83 (180)
Q Consensus 71 ~~~~CP~Cr~~~~ 83 (180)
..+.||.||..++
T Consensus 5 pei~CPhCRq~ip 17 (161)
T PF09654_consen 5 PEIQCPHCRQTIP 17 (161)
T ss_pred CcCcCchhhcccc
Confidence 4578999998764
No 297
>PRK14873 primosome assembly protein PriA; Provisional
Probab=20.99 E-value=1e+02 Score=27.63 Aligned_cols=46 Identities=26% Similarity=0.610 Sum_probs=29.2
Q ss_pred cchHHhhhccccCCccCCCCCCCCcccCCCCCCCCChHHHHHHHHHHhcCCCCCCCcCcccccccccccCCH
Q psy2696 58 SFCARCLRGRTVDGKLSCPICGQHTLLKEGSTLPPPDNVLKQLIEVANAENPPCANCDKRDRNAMYFCSTCA 129 (180)
Q Consensus 58 ~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~l~~~~~~~~~~c~~C~~h~~~~~~~C~~C~ 129 (180)
.+|.+|-.. ..||.|...+.... ......|-.|.... ....|..|+
T Consensus 384 l~C~~Cg~~------~~C~~C~~~L~~h~------------------~~~~l~Ch~CG~~~--~p~~Cp~Cg 429 (665)
T PRK14873 384 LACARCRTP------ARCRHCTGPLGLPS------------------AGGTPRCRWCGRAA--PDWRCPRCG 429 (665)
T ss_pred eEhhhCcCe------eECCCCCCceeEec------------------CCCeeECCCCcCCC--cCccCCCCc
Confidence 456666432 36888877665432 11234588888754 478999998
No 298
>KOG4275|consensus
Probab=20.93 E-value=50 Score=26.35 Aligned_cols=40 Identities=23% Similarity=0.640 Sum_probs=28.0
Q ss_pred ccccccccCCCc----eeccccccchHHhhhccccCCccCCCCCCC
Q psy2696 39 LCHVCDDYYTEP----CLLSCYHSFCARCLRGRTVDGKLSCPICGQ 80 (180)
Q Consensus 39 ~C~iC~~~~~~P----~~l~C~H~fC~~Cl~~~~~~~~~~CP~Cr~ 80 (180)
.|.-|...|.+. .-..|...||..|- . ...+...|..|+.
T Consensus 46 ~ckacg~~f~~~~~k~~c~dckk~fc~tcs-~-v~~~lr~c~~c~r 89 (350)
T KOG4275|consen 46 HCKACGEEFEDAQSKSDCEDCKKEFCATCS-R-VSISLRTCTSCRR 89 (350)
T ss_pred hhhhhchhHhhhhhhhhhhhhhHHHHHHHH-H-hcccchhhhHHHH
Confidence 888999999754 23468889999997 3 2334456777765
No 299
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=20.81 E-value=77 Score=18.84 Aligned_cols=12 Identities=33% Similarity=0.944 Sum_probs=7.4
Q ss_pred cCCccCCCCCCC
Q psy2696 69 VDGKLSCPICGQ 80 (180)
Q Consensus 69 ~~~~~~CP~Cr~ 80 (180)
.+....||.|..
T Consensus 47 ~g~~Y~Cp~CGF 58 (61)
T COG2888 47 LGNPYRCPKCGF 58 (61)
T ss_pred cCCceECCCcCc
Confidence 345667777754
No 300
>PRK07737 fliD flagellar capping protein; Validated
Probab=20.77 E-value=5.1e+02 Score=22.36 Aligned_cols=41 Identities=17% Similarity=0.117 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 132 RTGLMNCRSSLDELQLNCDTEKMTIQSFCQGMIDAITKTQN 172 (180)
Q Consensus 132 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~ 172 (180)
...+..+.+.++.+..+++.....++..|..|...+.+...
T Consensus 447 ~~~i~~l~~~i~~~~~rl~~~e~ry~~qf~ale~~~s~mns 487 (501)
T PRK07737 447 GKDLNQIETQIDRFQDRLKQIEDRYYKKFSAMEKAIQKANE 487 (501)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555666666666666666666666666655554443
No 301
>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay. This N-terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway [].
Probab=20.74 E-value=82 Score=24.06 Aligned_cols=40 Identities=25% Similarity=0.614 Sum_probs=24.6
Q ss_pred cccccccCCCceeccccccchHHhhhcc------c-cCCccCCCCCCCCccc
Q psy2696 40 CHVCDDYYTEPCLLSCYHSFCARCLRGR------T-VDGKLSCPICGQHTLL 84 (180)
Q Consensus 40 C~iC~~~~~~P~~l~C~H~fC~~Cl~~~------~-~~~~~~CP~Cr~~~~~ 84 (180)
|+.|+.... |.. ...|.+|+... . .-....||.|+.....
T Consensus 1 C~~CG~~~~-~~~----~~lC~~C~~~~~~i~ei~~~i~v~~C~~Cg~~~~~ 47 (236)
T PF04981_consen 1 CPRCGREIE-PLI----DGLCPDCYLKRFDIIEIPDRIEVTICPKCGRYRIG 47 (236)
T ss_pred CCCCCCCCC-Ccc----cccChHHhcccCCeeecCCccCceECCCCCCEECC
Confidence 777777332 211 15889998664 1 1245789999886644
No 302
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=20.56 E-value=58 Score=18.51 Aligned_cols=18 Identities=39% Similarity=0.886 Sum_probs=12.7
Q ss_pred cCCccCCCCCCCCcccCC
Q psy2696 69 VDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 69 ~~~~~~CP~Cr~~~~~~~ 86 (180)
....+.||.|+..+-...
T Consensus 21 ~~~~irCp~Cg~rIl~K~ 38 (49)
T COG1996 21 ETRGIRCPYCGSRILVKE 38 (49)
T ss_pred ccCceeCCCCCcEEEEec
Confidence 346688999988765544
No 303
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=20.45 E-value=41 Score=15.70 Aligned_cols=12 Identities=17% Similarity=0.728 Sum_probs=7.2
Q ss_pred cccccccccCCC
Q psy2696 38 LLCHVCDDYYTE 49 (180)
Q Consensus 38 l~C~iC~~~~~~ 49 (180)
+.|.+|...|..
T Consensus 2 ~~C~~C~~~F~~ 13 (27)
T PF13912_consen 2 FECDECGKTFSS 13 (27)
T ss_dssp EEETTTTEEESS
T ss_pred CCCCccCCccCC
Confidence 356666666653
No 304
>KOG2807|consensus
Probab=20.42 E-value=45 Score=27.02 Aligned_cols=27 Identities=26% Similarity=0.583 Sum_probs=15.0
Q ss_pred cchHHhhhccccCCccCCCCCCCCccc
Q psy2696 58 SFCARCLRGRTVDGKLSCPICGQHTLL 84 (180)
Q Consensus 58 ~fC~~Cl~~~~~~~~~~CP~Cr~~~~~ 84 (180)
.||..|-.+......+.|+.|+..+.+
T Consensus 331 ~~Cf~C~~~~~~~~~y~C~~Ck~~FCl 357 (378)
T KOG2807|consen 331 RFCFACQGELLSSGRYRCESCKNVFCL 357 (378)
T ss_pred cceeeeccccCCCCcEEchhccceeec
Confidence 446666444444556667777665543
No 305
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=20.40 E-value=3.1e+02 Score=19.05 Aligned_cols=28 Identities=11% Similarity=0.167 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2696 152 EKMTIQSFCQGMIDAITKTQNSMIMEVQ 179 (180)
Q Consensus 152 ~~~~i~~~~~~l~~~l~~~~~~ll~~le 179 (180)
....++..|+.-.....+.+..++.+++
T Consensus 57 ~~~~i~~q~~~e~~~r~e~k~~l~~ql~ 84 (131)
T PF11068_consen 57 QIQSIQQQFEQEKQERLEQKNQLLQQLE 84 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555555555555555554443
No 306
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=20.37 E-value=50 Score=19.57 Aligned_cols=21 Identities=19% Similarity=0.510 Sum_probs=15.0
Q ss_pred cCCccCCCCCCCCcccCCCCC
Q psy2696 69 VDGKLSCPICGQHTLLKEGST 89 (180)
Q Consensus 69 ~~~~~~CP~Cr~~~~~~~~~~ 89 (180)
.+..+.|+.|...+..+.|+.
T Consensus 27 a~t~V~C~~Cg~~L~~PtGGK 47 (59)
T PRK00415 27 ASTVVRCLVCGKTLAEPTGGK 47 (59)
T ss_pred CCcEEECcccCCCcccCCCcc
Confidence 345678999988887766443
No 307
>COG4640 Predicted membrane protein [Function unknown]
Probab=20.23 E-value=65 Score=26.86 Aligned_cols=28 Identities=25% Similarity=0.721 Sum_probs=17.7
Q ss_pred cchHHhhhccccCCccCCCCCCCCcccCC
Q psy2696 58 SFCARCLRGRTVDGKLSCPICGQHTLLKE 86 (180)
Q Consensus 58 ~fC~~Cl~~~~~~~~~~CP~Cr~~~~~~~ 86 (180)
.||..|-.+...+.. .||.|+..+..+.
T Consensus 2 ~fC~kcG~qk~Ed~~-qC~qCG~~~t~~~ 29 (465)
T COG4640 2 KFCPKCGSQKAEDDV-QCTQCGHKFTSRQ 29 (465)
T ss_pred Ccccccccccccccc-cccccCCcCCchh
Confidence 477777644323333 3999988876655
No 308
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=20.23 E-value=4.3e+02 Score=25.09 Aligned_cols=25 Identities=0% Similarity=0.008 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2696 153 KMTIQSFCQGMIDAITKTQNSMIME 177 (180)
Q Consensus 153 ~~~i~~~~~~l~~~l~~~~~~ll~~ 177 (180)
..++++.|..|.+.-.++.+.+.+.
T Consensus 888 ~~~~K~lF~~LA~eE~~H~~~l~~~ 912 (1006)
T PRK12775 888 DPVLKELFLKFAGMEQEHMATLARR 912 (1006)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467777887777777777655444
Done!