Query psy11857
Match_columns 129
No_of_seqs 218 out of 1498
Neff 9.1
Searched_HMMs 46136
Date Fri Aug 16 20:40:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11857.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11857hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15227 zf-C3HC4_4: zinc fing 99.6 4.6E-16 1E-20 82.3 2.3 42 33-80 1-42 (42)
2 TIGR00599 rad18 DNA repair pro 99.5 5.2E-14 1.1E-18 106.1 5.7 70 27-111 23-92 (397)
3 KOG0287|consensus 99.5 3.1E-14 6.7E-19 103.9 3.1 70 27-111 20-89 (442)
4 PF13445 zf-RING_UBOX: RING-ty 99.4 1E-13 2.2E-18 73.4 2.9 43 33-78 1-43 (43)
5 smart00504 Ubox Modified RING 99.4 1.4E-13 3E-18 78.9 3.7 62 30-106 1-62 (63)
6 PF04564 U-box: U-box domain; 99.4 7.2E-13 1.6E-17 78.3 4.5 69 29-111 3-71 (73)
7 PLN03208 E3 ubiquitin-protein 99.4 8.4E-13 1.8E-17 90.4 4.4 54 29-86 17-80 (193)
8 PF13639 zf-RING_2: Ring finge 99.3 7E-13 1.5E-17 70.8 2.3 43 32-81 2-44 (44)
9 PF13923 zf-C3HC4_2: Zinc fing 99.3 9.2E-13 2E-17 68.6 2.5 38 33-80 1-39 (39)
10 PF00097 zf-C3HC4: Zinc finger 99.3 2.1E-12 4.6E-17 67.9 3.1 40 33-80 1-41 (41)
11 PF13920 zf-C3HC4_3: Zinc fing 99.3 2.1E-12 4.6E-17 70.8 3.2 46 30-85 2-48 (50)
12 PF14634 zf-RING_5: zinc-RING 99.3 4.1E-12 9E-17 67.8 3.4 44 32-82 1-44 (44)
13 KOG2177|consensus 99.3 3.5E-12 7.7E-17 92.3 3.8 81 27-124 10-95 (386)
14 COG5432 RAD18 RING-finger-cont 99.2 5.2E-12 1.1E-16 90.7 2.8 70 27-111 22-91 (391)
15 PF14835 zf-RING_6: zf-RING of 99.2 2.7E-12 5.9E-17 72.5 0.1 60 28-104 5-65 (65)
16 KOG0320|consensus 99.2 1.5E-11 3.3E-16 82.6 3.0 52 28-87 129-180 (187)
17 PHA02926 zinc finger-like prot 99.1 4.5E-11 9.7E-16 83.1 4.3 58 29-86 169-231 (242)
18 KOG0823|consensus 99.1 5.9E-11 1.3E-15 82.9 3.9 51 28-85 45-95 (230)
19 PHA02929 N1R/p28-like protein; 99.1 6.9E-11 1.5E-15 83.9 3.1 51 29-85 173-227 (238)
20 KOG4367|consensus 99.1 2E-10 4.2E-15 86.9 5.2 80 28-111 2-159 (699)
21 cd00162 RING RING-finger (Real 99.1 1.3E-10 2.9E-15 61.4 3.2 43 32-83 1-44 (45)
22 KOG0317|consensus 99.1 7.5E-11 1.6E-15 84.6 2.7 49 27-85 236-284 (293)
23 smart00184 RING Ring finger. E 99.0 5.4E-10 1.2E-14 57.1 3.6 39 33-80 1-39 (39)
24 KOG4185|consensus 98.9 1.3E-09 2.8E-14 80.0 4.3 91 30-125 3-101 (296)
25 KOG2164|consensus 98.8 2.7E-09 5.9E-14 81.9 2.3 52 30-86 186-237 (513)
26 KOG0311|consensus 98.7 1.7E-09 3.8E-14 79.6 0.1 59 19-87 33-92 (381)
27 COG5574 PEX10 RING-finger-cont 98.7 7.5E-09 1.6E-13 73.7 2.3 48 29-85 214-262 (271)
28 TIGR00570 cdk7 CDK-activating 98.7 2.4E-08 5.2E-13 73.1 4.3 48 30-86 3-55 (309)
29 KOG4628|consensus 98.6 1.3E-08 2.8E-13 75.6 2.3 50 31-86 230-279 (348)
30 PF12678 zf-rbx1: RING-H2 zinc 98.6 2.9E-08 6.2E-13 58.5 2.9 45 31-81 20-73 (73)
31 KOG2660|consensus 98.6 2.9E-08 6.2E-13 72.7 3.1 67 30-107 15-82 (331)
32 PF12861 zf-Apc11: Anaphase-pr 98.6 7.8E-08 1.7E-12 57.7 4.4 54 30-86 21-83 (85)
33 COG5243 HRD1 HRD ubiquitin lig 98.6 4.8E-08 1E-12 72.7 3.1 56 27-88 284-348 (491)
34 KOG0978|consensus 98.5 3.4E-08 7.5E-13 78.9 1.1 48 29-85 642-689 (698)
35 COG5540 RING-finger-containing 98.5 1.1E-07 2.4E-12 69.1 2.6 50 30-85 323-372 (374)
36 COG5152 Uncharacterized conser 98.4 1.3E-07 2.8E-12 65.0 2.8 46 30-85 196-241 (259)
37 KOG4159|consensus 98.4 1.1E-07 2.4E-12 72.2 2.3 48 28-85 82-129 (398)
38 KOG0802|consensus 98.3 2.9E-07 6.4E-12 72.9 2.5 51 29-85 290-341 (543)
39 COG5222 Uncharacterized conser 98.3 1.5E-06 3.3E-11 63.3 4.7 65 30-107 274-339 (427)
40 KOG0824|consensus 98.2 4.1E-07 8.8E-12 66.0 1.5 48 30-86 7-54 (324)
41 PF11793 FANCL_C: FANCL C-term 98.2 5.3E-07 1.1E-11 52.7 1.6 57 30-86 2-67 (70)
42 PF11789 zf-Nse: Zinc-finger o 98.1 1.7E-06 3.6E-11 48.5 2.0 42 30-79 11-53 (57)
43 KOG2879|consensus 98.1 1.7E-06 3.7E-11 62.1 2.2 49 29-85 238-287 (298)
44 KOG1813|consensus 98.1 1.6E-06 3.4E-11 62.9 1.6 46 30-85 241-286 (313)
45 smart00744 RINGv The RING-vari 98.0 1.8E-05 3.8E-10 43.0 4.1 44 32-81 1-49 (49)
46 KOG0804|consensus 98.0 2.8E-06 6E-11 64.7 1.1 50 28-85 173-222 (493)
47 KOG0297|consensus 97.9 5.7E-06 1.2E-10 63.2 2.7 51 27-87 18-69 (391)
48 KOG4172|consensus 97.9 2.7E-06 5.8E-11 46.6 -0.2 47 30-85 7-54 (62)
49 KOG1039|consensus 97.8 9.7E-06 2.1E-10 60.7 2.3 59 29-87 160-223 (344)
50 KOG1002|consensus 97.8 1.5E-05 3.3E-10 62.1 2.9 56 27-87 533-588 (791)
51 KOG1785|consensus 97.8 9E-06 1.9E-10 61.4 1.5 47 31-85 370-416 (563)
52 KOG3161|consensus 97.7 1.2E-05 2.5E-10 63.9 1.5 68 29-105 10-77 (861)
53 PF14570 zf-RING_4: RING/Ubox 97.7 2.6E-05 5.6E-10 41.9 2.0 47 33-84 1-47 (48)
54 KOG1493|consensus 97.7 2E-05 4.4E-10 46.1 1.2 53 31-86 21-82 (84)
55 KOG4265|consensus 97.6 4.8E-05 1E-09 56.6 3.1 47 29-85 289-336 (349)
56 KOG1814|consensus 97.6 5.9E-05 1.3E-09 57.1 3.2 60 25-85 179-240 (445)
57 KOG1734|consensus 97.5 1.6E-05 3.6E-10 57.1 -0.6 54 30-87 224-283 (328)
58 COG5194 APC11 Component of SCF 97.5 0.00024 5.2E-09 42.0 4.3 50 32-87 33-83 (88)
59 KOG1941|consensus 97.5 7.1E-05 1.5E-09 56.5 2.2 51 30-84 365-415 (518)
60 KOG1645|consensus 97.4 9.1E-05 2E-09 56.1 2.6 52 30-85 4-56 (463)
61 PF14447 Prok-RING_4: Prokaryo 97.3 5.6E-05 1.2E-09 41.6 0.2 44 30-85 7-50 (55)
62 KOG0827|consensus 97.3 0.00013 2.8E-09 55.0 2.1 49 30-81 4-52 (465)
63 KOG0828|consensus 97.2 0.0002 4.4E-09 55.5 2.0 54 27-85 568-634 (636)
64 KOG4739|consensus 97.1 0.00015 3.2E-09 51.5 0.7 56 30-97 3-59 (233)
65 PF04641 Rtf2: Rtf2 RING-finge 97.1 0.00061 1.3E-08 49.4 3.6 51 28-85 111-161 (260)
66 COG5175 MOT2 Transcriptional r 97.0 0.00071 1.5E-08 50.4 3.4 52 29-85 13-64 (480)
67 KOG4692|consensus 97.0 0.00048 1E-08 51.6 2.4 48 28-85 420-467 (489)
68 KOG2817|consensus 96.9 0.00066 1.4E-08 51.3 2.7 52 29-84 333-384 (394)
69 KOG3002|consensus 96.9 0.00058 1.3E-08 50.4 2.3 57 29-107 47-105 (299)
70 KOG1812|consensus 96.9 0.00065 1.4E-08 51.9 2.6 78 30-108 146-223 (384)
71 KOG0825|consensus 96.9 0.00023 4.9E-09 58.0 -0.2 49 30-85 123-171 (1134)
72 KOG3800|consensus 96.7 0.0013 2.9E-08 47.9 2.8 49 32-85 2-51 (300)
73 COG5219 Uncharacterized conser 96.7 0.00065 1.4E-08 56.6 1.3 54 28-85 1467-1523(1525)
74 KOG4275|consensus 96.7 0.00035 7.5E-09 51.0 -0.4 42 30-85 300-342 (350)
75 KOG3039|consensus 96.7 0.0012 2.6E-08 47.2 2.1 51 29-85 220-270 (303)
76 PF07800 DUF1644: Protein of u 96.3 0.0059 1.3E-07 40.8 3.7 53 29-85 1-91 (162)
77 COG5236 Uncharacterized conser 96.3 0.0045 9.8E-08 46.4 3.4 53 24-84 55-107 (493)
78 KOG1940|consensus 96.2 0.0026 5.6E-08 46.4 1.7 47 30-82 158-204 (276)
79 KOG1001|consensus 96.2 0.0019 4.2E-08 52.6 1.1 46 31-85 455-500 (674)
80 PHA03096 p28-like protein; Pro 96.0 0.0077 1.7E-07 44.3 3.5 49 31-82 179-231 (284)
81 PF05290 Baculo_IE-1: Baculovi 96.0 0.0069 1.5E-07 39.4 2.8 50 30-86 80-133 (140)
82 KOG1571|consensus 96.0 0.0026 5.6E-08 47.7 0.7 43 30-85 305-347 (355)
83 KOG4185|consensus 96.0 0.0024 5.1E-08 47.0 0.5 49 30-83 207-265 (296)
84 KOG4362|consensus 95.8 0.0015 3.3E-08 52.8 -1.0 50 29-85 20-69 (684)
85 COG5220 TFB3 Cdk activating ki 95.8 0.0028 6.1E-08 45.2 0.4 51 30-85 10-64 (314)
86 KOG3970|consensus 95.6 0.022 4.8E-07 40.3 4.2 56 30-87 50-107 (299)
87 COG5109 Uncharacterized conser 95.6 0.01 2.2E-07 44.0 2.6 52 29-84 335-386 (396)
88 KOG2930|consensus 95.3 0.017 3.7E-07 35.9 2.5 29 51-85 80-108 (114)
89 KOG2932|consensus 95.3 0.0059 1.3E-07 45.1 0.4 45 30-85 90-134 (389)
90 PHA02825 LAP/PHD finger-like p 95.2 0.029 6.3E-07 37.6 3.4 51 28-87 6-61 (162)
91 KOG1428|consensus 95.1 0.039 8.4E-07 48.7 4.6 55 30-85 3486-3544(3738)
92 PF02891 zf-MIZ: MIZ/SP-RING z 95.0 0.018 4E-07 31.2 1.8 47 30-82 2-49 (50)
93 KOG2114|consensus 94.8 0.04 8.6E-07 45.7 3.8 40 30-82 840-880 (933)
94 KOG0826|consensus 94.6 0.025 5.4E-07 42.1 2.2 45 29-83 299-344 (357)
95 PF10367 Vps39_2: Vacuolar sor 94.4 0.014 3E-07 36.2 0.4 32 29-62 77-108 (109)
96 PF12906 RINGv: RING-variant d 94.2 0.028 6E-07 30.1 1.3 42 33-80 1-47 (47)
97 KOG1815|consensus 93.6 0.056 1.2E-06 42.2 2.5 47 30-79 70-118 (444)
98 KOG4445|consensus 93.5 0.043 9.3E-07 40.5 1.6 61 29-91 114-192 (368)
99 PHA02862 5L protein; Provision 93.2 0.11 2.3E-06 34.4 3.0 48 31-87 3-55 (156)
100 KOG1952|consensus 93.2 0.081 1.8E-06 44.0 2.8 55 28-84 189-246 (950)
101 KOG3113|consensus 92.9 0.18 3.9E-06 36.4 3.9 54 25-86 106-159 (293)
102 PF07191 zinc-ribbons_6: zinc- 92.5 0.0091 2E-07 34.6 -2.4 41 30-85 1-41 (70)
103 PF05883 Baculo_RING: Baculovi 92.1 0.13 2.9E-06 33.6 2.3 37 30-67 26-68 (134)
104 PF10272 Tmpp129: Putative tra 91.8 0.16 3.5E-06 38.6 2.7 35 52-86 311-352 (358)
105 PF08746 zf-RING-like: RING-li 91.6 0.17 3.7E-06 26.4 2.0 40 33-80 1-43 (43)
106 PF06906 DUF1272: Protein of u 91.4 0.29 6.2E-06 27.1 2.7 48 30-85 5-52 (57)
107 KOG3039|consensus 90.9 0.16 3.5E-06 36.6 1.9 34 30-67 43-76 (303)
108 PF10571 UPF0547: Uncharacteri 90.5 0.1 2.2E-06 24.3 0.4 9 32-40 2-10 (26)
109 KOG1100|consensus 90.4 0.13 2.9E-06 36.1 1.1 39 33-85 161-200 (207)
110 COG3813 Uncharacterized protei 90.2 0.37 8E-06 28.1 2.6 47 31-85 6-52 (84)
111 KOG0298|consensus 89.9 0.13 2.8E-06 44.6 0.9 45 29-83 1152-1197(1394)
112 KOG3579|consensus 89.7 0.15 3.3E-06 37.4 0.9 47 29-80 267-317 (352)
113 KOG3899|consensus 89.5 0.28 6E-06 36.3 2.2 35 52-86 325-366 (381)
114 cd00065 FYVE FYVE domain; Zinc 89.4 0.1 2.2E-06 28.6 -0.1 36 31-66 3-38 (57)
115 PF03854 zf-P11: P-11 zinc fin 88.8 0.13 2.9E-06 27.4 0.1 31 49-85 15-46 (50)
116 PF05605 zf-Di19: Drought indu 88.7 0.21 4.6E-06 27.3 0.9 39 30-83 2-40 (54)
117 KOG2034|consensus 87.6 0.42 9.1E-06 40.1 2.2 37 28-67 815-852 (911)
118 KOG3268|consensus 87.1 0.98 2.1E-05 31.1 3.4 58 30-87 165-230 (234)
119 PF14569 zf-UDP: Zinc-binding 85.5 1.6 3.4E-05 25.8 3.3 51 30-85 9-62 (80)
120 KOG3053|consensus 84.4 1.8 4E-05 31.4 3.9 74 29-108 19-99 (293)
121 smart00064 FYVE Protein presen 83.8 0.69 1.5E-05 26.2 1.3 37 30-66 10-46 (68)
122 PF14353 CpXC: CpXC protein 82.9 1.3 2.9E-05 28.4 2.5 51 30-87 1-51 (128)
123 KOG2068|consensus 82.6 0.77 1.7E-05 34.4 1.5 50 30-85 249-298 (327)
124 PF06844 DUF1244: Protein of u 82.5 0.97 2.1E-05 25.8 1.5 13 55-67 11-23 (68)
125 KOG2169|consensus 81.3 1.6 3.4E-05 35.9 2.9 71 29-109 305-375 (636)
126 PF01363 FYVE: FYVE zinc finge 79.5 0.48 1E-05 27.0 -0.4 35 30-64 9-43 (69)
127 PF10497 zf-4CXXC_R1: Zinc-fin 77.9 1.6 3.5E-05 27.3 1.6 32 53-84 37-71 (105)
128 KOG0825|consensus 76.4 2.2 4.7E-05 35.9 2.4 55 30-84 96-153 (1134)
129 PF14446 Prok-RING_1: Prokaryo 73.8 3.7 8.1E-05 22.5 2.2 33 30-63 5-38 (54)
130 PF09538 FYDLN_acid: Protein o 72.2 2.1 4.4E-05 27.1 1.0 14 73-86 25-38 (108)
131 KOG1812|consensus 69.4 2.7 5.9E-05 32.4 1.3 39 29-67 305-344 (384)
132 PLN02638 cellulose synthase A 68.5 4.5 9.6E-05 35.2 2.5 50 31-85 18-70 (1079)
133 COG3492 Uncharacterized protei 68.1 4.1 8.9E-05 24.9 1.6 14 55-68 42-55 (104)
134 KOG3799|consensus 67.5 4 8.6E-05 26.8 1.6 48 28-83 63-116 (169)
135 PF00628 PHD: PHD-finger; Int 67.1 0.31 6.7E-06 26.0 -3.1 46 33-81 2-49 (51)
136 PLN02195 cellulose synthase A 67.0 5.5 0.00012 34.3 2.7 51 30-85 6-59 (977)
137 KOG2231|consensus 66.7 4.6 9.9E-05 33.4 2.2 50 32-85 2-52 (669)
138 KOG1729|consensus 66.1 0.8 1.7E-05 33.9 -2.0 57 29-85 167-225 (288)
139 PLN02189 cellulose synthase 65.4 5.3 0.00012 34.6 2.4 50 31-85 35-87 (1040)
140 PLN02436 cellulose synthase A 65.2 5.3 0.00011 34.8 2.3 50 31-85 37-89 (1094)
141 PF15616 TerY-C: TerY-C metal 64.6 5.1 0.00011 26.2 1.7 43 29-87 76-118 (131)
142 PF02318 FYVE_2: FYVE-type zin 63.6 3.9 8.4E-05 26.0 1.0 50 29-83 53-103 (118)
143 PLN02915 cellulose synthase A 62.2 6.7 0.00014 34.1 2.4 51 30-85 15-68 (1044)
144 smart00249 PHD PHD zinc finger 62.1 5.2 0.00011 20.0 1.2 44 33-80 2-47 (47)
145 COG5183 SSM4 Protein involved 60.3 13 0.00029 31.7 3.7 77 26-108 8-93 (1175)
146 PF09297 zf-NADH-PPase: NADH p 60.2 0.98 2.1E-05 21.8 -1.7 11 73-83 20-30 (32)
147 TIGR02300 FYDLN_acid conserved 59.8 4.9 0.00011 26.1 1.0 11 30-40 9-19 (129)
148 PF04423 Rad50_zn_hook: Rad50 59.3 14 0.0003 19.9 2.7 10 76-85 22-31 (54)
149 cd00729 rubredoxin_SM Rubredox 58.3 5.1 0.00011 19.6 0.7 10 31-40 3-12 (34)
150 PF04216 FdhE: Protein involve 57.4 1.4 3E-05 32.5 -2.1 44 29-82 171-219 (290)
151 KOG1819|consensus 56.6 2.6 5.6E-05 33.8 -0.8 34 30-63 901-934 (990)
152 PRK11088 rrmA 23S rRNA methylt 56.3 5.8 0.00013 28.7 1.0 26 30-56 2-27 (272)
153 smart00647 IBR In Between Ring 54.8 2.6 5.6E-05 23.1 -0.8 35 30-64 18-58 (64)
154 PF07503 zf-HYPF: HypF finger; 54.1 8.8 0.00019 19.0 1.2 30 56-85 1-32 (35)
155 smart00734 ZnF_Rad18 Rad18-lik 53.3 5.7 0.00012 18.2 0.4 10 31-40 2-11 (26)
156 PF13913 zf-C2HC_2: zinc-finge 52.9 6.6 0.00014 17.8 0.6 12 30-41 2-13 (25)
157 PF03119 DNA_ligase_ZBD: NAD-d 52.6 13 0.00028 17.3 1.6 15 76-90 1-15 (28)
158 PF10235 Cript: Microtubule-as 49.0 9 0.00019 23.4 0.9 37 30-85 44-80 (90)
159 KOG2789|consensus 48.6 5.7 0.00012 30.8 -0.0 33 30-66 74-108 (482)
160 PLN02400 cellulose synthase 48.2 11 0.00024 32.9 1.6 50 31-85 37-89 (1085)
161 COG4647 AcxC Acetone carboxyla 47.4 9.7 0.00021 24.9 0.9 15 45-59 68-82 (165)
162 PF08274 PhnA_Zn_Ribbon: PhnA 46.4 12 0.00025 18.0 0.9 10 31-40 3-12 (30)
163 COG0068 HypF Hydrogenase matur 46.2 41 0.00089 28.3 4.4 53 57-109 154-209 (750)
164 KOG3726|consensus 44.7 14 0.0003 30.7 1.5 44 31-83 655-698 (717)
165 KOG1074|consensus 44.1 19 0.00041 30.7 2.3 44 28-87 603-646 (958)
166 smart00154 ZnF_AN1 AN1-like Zi 42.9 13 0.00029 18.8 0.8 12 47-58 12-24 (39)
167 PF03884 DUF329: Domain of unk 42.9 12 0.00025 20.8 0.7 12 75-86 3-14 (57)
168 PF13465 zf-H2C2_2: Zinc-finge 42.5 14 0.00031 16.6 0.9 12 73-84 13-24 (26)
169 TIGR01562 FdhE formate dehydro 42.4 4.2 9.1E-05 30.4 -1.5 43 30-82 184-232 (305)
170 KOG2462|consensus 42.1 24 0.00052 26.1 2.3 57 29-85 160-226 (279)
171 PF00096 zf-C2H2: Zinc finger, 42.0 10 0.00022 16.1 0.3 11 75-85 1-11 (23)
172 KOG2113|consensus 41.8 15 0.00032 27.8 1.2 43 30-84 343-386 (394)
173 PF10083 DUF2321: Uncharacteri 41.2 24 0.00051 23.8 2.0 14 53-66 27-40 (158)
174 PF13240 zinc_ribbon_2: zinc-r 41.0 2 4.3E-05 19.2 -2.2 7 76-82 15-21 (23)
175 PF07975 C1_4: TFIIH C1-like d 40.8 20 0.00044 19.4 1.4 25 51-81 26-50 (51)
176 PRK10220 hypothetical protein; 40.6 19 0.0004 22.8 1.3 11 31-41 4-14 (111)
177 PF13894 zf-C2H2_4: C2H2-type 40.4 13 0.00028 15.5 0.5 11 75-85 1-11 (24)
178 PRK14890 putative Zn-ribbon RN 40.2 42 0.00091 18.8 2.6 18 57-82 39-56 (59)
179 PF13719 zinc_ribbon_5: zinc-r 40.2 17 0.00038 18.0 1.0 13 75-87 3-15 (37)
180 PF12773 DZR: Double zinc ribb 39.9 12 0.00026 19.6 0.4 13 73-85 28-40 (50)
181 TIGR00686 phnA alkylphosphonat 39.5 16 0.00035 23.0 1.0 11 31-41 3-13 (109)
182 PF00412 LIM: LIM domain; Int 38.9 25 0.00054 18.6 1.6 35 26-63 22-56 (58)
183 smart00661 RPOL9 RNA polymeras 38.7 7.4 0.00016 20.5 -0.6 12 74-85 20-31 (52)
184 KOG0801|consensus 38.5 13 0.00028 25.4 0.4 27 29-56 176-202 (205)
185 KOG0309|consensus 37.9 21 0.00046 30.3 1.6 42 30-79 1028-1069(1081)
186 PF07754 DUF1610: Domain of un 37.6 20 0.00043 16.2 0.8 11 72-82 14-24 (24)
187 COG4391 Uncharacterized protei 37.1 25 0.00055 19.8 1.4 15 72-86 46-60 (62)
188 KOG4718|consensus 36.8 28 0.00061 24.8 1.9 46 30-85 181-227 (235)
189 TIGR02098 MJ0042_CXXC MJ0042 f 36.8 23 0.00051 17.3 1.2 13 75-87 3-15 (38)
190 TIGR01206 lysW lysine biosynth 36.8 21 0.00046 19.5 1.0 13 75-87 3-15 (54)
191 PF14205 Cys_rich_KTR: Cystein 36.2 12 0.00026 20.5 0.0 14 73-86 27-40 (55)
192 PF10146 zf-C4H2: Zinc finger- 36.1 22 0.00048 25.5 1.4 25 56-86 196-220 (230)
193 KOG2979|consensus 36.1 19 0.00041 26.3 1.0 46 30-83 176-222 (262)
194 KOG4218|consensus 35.9 27 0.00058 26.8 1.8 12 30-41 15-26 (475)
195 PRK00418 DNA gyrase inhibitor; 35.9 18 0.00038 20.5 0.7 12 74-85 6-17 (62)
196 smart00659 RPOLCX RNA polymera 35.4 30 0.00065 18.0 1.5 16 72-87 17-32 (44)
197 PF13717 zinc_ribbon_4: zinc-r 35.2 14 0.0003 18.3 0.1 13 75-87 3-15 (36)
198 PRK01343 zinc-binding protein; 34.3 24 0.00051 19.6 1.0 13 73-85 8-20 (57)
199 PF09788 Tmemb_55A: Transmembr 34.3 15 0.00032 26.8 0.2 31 51-86 159-189 (256)
200 PF13834 DUF4193: Domain of un 33.8 11 0.00023 23.5 -0.5 29 28-60 68-98 (99)
201 PRK04023 DNA polymerase II lar 33.7 27 0.00059 30.5 1.7 47 27-85 623-674 (1121)
202 KOG3842|consensus 33.2 28 0.00061 26.4 1.5 35 50-85 376-414 (429)
203 PF14471 DUF4428: Domain of un 33.0 51 0.0011 17.7 2.2 30 32-64 1-30 (51)
204 PF01485 IBR: IBR domain; Int 32.4 9.6 0.00021 20.7 -0.8 34 31-64 19-58 (64)
205 KOG1609|consensus 32.1 46 0.00099 24.3 2.5 54 30-87 78-136 (323)
206 PRK03564 formate dehydrogenase 31.5 9.6 0.00021 28.6 -1.1 44 29-82 186-234 (309)
207 COG2816 NPY1 NTP pyrophosphohy 31.2 8.6 0.00019 28.4 -1.4 32 52-85 109-140 (279)
208 PRK06386 replication factor A; 31.0 29 0.00062 26.7 1.3 12 74-85 236-247 (358)
209 PF09889 DUF2116: Uncharacteri 30.9 49 0.0011 18.5 1.9 28 31-68 4-32 (59)
210 smart00290 ZnF_UBP Ubiquitin C 30.8 31 0.00068 17.8 1.1 23 33-59 2-24 (50)
211 cd00350 rubredoxin_like Rubred 30.4 30 0.00066 16.6 0.9 11 31-41 2-12 (33)
212 COG4306 Uncharacterized protei 30.3 35 0.00075 22.3 1.4 8 55-62 29-36 (160)
213 KOG3476|consensus 30.0 9.8 0.00021 23.0 -1.0 37 30-85 54-90 (100)
214 PF09986 DUF2225: Uncharacteri 29.9 32 0.00069 24.3 1.3 14 28-41 3-16 (214)
215 KOG4451|consensus 29.8 31 0.00067 24.9 1.2 26 55-86 250-275 (286)
216 COG1773 Rubredoxin [Energy pro 29.6 43 0.00093 18.5 1.5 42 30-82 3-44 (55)
217 PRK00398 rpoP DNA-directed RNA 29.0 44 0.00095 17.2 1.5 14 74-87 21-34 (46)
218 PF01428 zf-AN1: AN1-like Zinc 28.9 22 0.00048 18.2 0.3 14 46-59 12-26 (43)
219 COG5627 MMS21 DNA repair prote 28.4 85 0.0018 22.8 3.2 48 30-85 189-239 (275)
220 TIGR03826 YvyF flagellar opero 28.4 27 0.00059 23.0 0.7 25 30-63 3-27 (137)
221 KOG1818|consensus 28.0 23 0.0005 29.2 0.4 57 28-84 163-221 (634)
222 PF13248 zf-ribbon_3: zinc-rib 28.0 5.2 0.00011 18.3 -2.0 6 76-81 18-23 (26)
223 KOG2066|consensus 27.9 29 0.00064 29.4 1.0 38 30-67 784-824 (846)
224 PF13912 zf-C2H2_6: C2H2-type 27.8 22 0.00048 15.7 0.2 11 31-41 2-12 (27)
225 PRK06266 transcription initiat 27.8 67 0.0015 22.0 2.6 14 73-86 135-148 (178)
226 COG4530 Uncharacterized protei 27.2 33 0.00071 21.8 0.9 26 31-56 10-36 (129)
227 PF04606 Ogr_Delta: Ogr/Delta- 27.2 21 0.00046 18.7 0.0 7 50-56 31-37 (47)
228 TIGR02652 conserved hypothetic 27.0 24 0.00051 23.4 0.2 14 72-85 7-20 (163)
229 PF06827 zf-FPG_IleRS: Zinc fi 26.5 13 0.00029 17.3 -0.8 9 32-40 3-11 (30)
230 PRK00420 hypothetical protein; 26.5 20 0.00044 22.7 -0.1 14 73-86 39-52 (112)
231 PF14255 Cys_rich_CPXG: Cystei 26.5 41 0.0009 18.2 1.1 12 75-86 1-12 (52)
232 PF09654 DUF2396: Protein of u 26.4 25 0.00054 23.3 0.3 14 72-85 4-17 (161)
233 TIGR00373 conserved hypothetic 26.3 72 0.0016 21.3 2.5 12 74-85 128-139 (158)
234 PF09237 GAGA: GAGA factor; I 26.2 27 0.00058 19.0 0.3 13 73-85 23-35 (54)
235 COG3024 Uncharacterized protei 25.0 35 0.00075 19.4 0.6 14 73-86 6-19 (65)
236 PF12874 zf-met: Zinc-finger o 24.8 27 0.00059 15.1 0.2 11 31-41 1-11 (25)
237 COG1996 RPC10 DNA-directed RNA 24.7 21 0.00046 19.2 -0.2 16 72-87 22-37 (49)
238 PF06676 DUF1178: Protein of u 24.7 64 0.0014 21.6 2.0 12 72-83 30-41 (148)
239 KOG1842|consensus 24.2 25 0.00054 27.9 -0.1 35 30-64 180-214 (505)
240 PF11023 DUF2614: Protein of u 24.2 25 0.00054 22.4 -0.0 14 74-87 85-98 (114)
241 PF09862 DUF2089: Protein of u 23.7 46 0.001 21.2 1.1 8 33-40 1-8 (113)
242 PF11781 RRN7: RNA polymerase 23.5 54 0.0012 16.2 1.1 11 30-40 8-18 (36)
243 PF10122 Mu-like_Com: Mu-like 23.4 42 0.00092 18.2 0.8 15 73-87 23-37 (51)
244 KOG3475|consensus 23.1 53 0.0011 19.8 1.2 28 53-85 15-42 (92)
245 smart00132 LIM Zinc-binding do 23.0 51 0.0011 15.4 1.0 8 33-40 2-9 (39)
246 KOG0314|consensus 23.0 33 0.00071 27.2 0.4 36 28-67 217-255 (448)
247 PF08209 Sgf11: Sgf11 (transcr 23.0 58 0.0013 15.9 1.1 13 73-85 3-15 (33)
248 PF14169 YdjO: Cold-inducible 22.9 60 0.0013 18.1 1.3 14 28-41 37-50 (59)
249 PRK11595 DNA utilization prote 22.6 48 0.001 23.4 1.1 9 32-40 7-15 (227)
250 PF04810 zf-Sec23_Sec24: Sec23 22.4 53 0.0011 16.5 1.0 15 72-86 22-36 (40)
251 COG2824 PhnA Uncharacterized Z 22.2 49 0.0011 20.9 1.0 12 30-41 3-14 (112)
252 smart00531 TFIIE Transcription 22.0 59 0.0013 21.4 1.4 15 73-87 122-136 (147)
253 KOG1356|consensus 22.0 18 0.00039 30.8 -1.2 32 30-65 229-262 (889)
254 PF03604 DNA_RNApol_7kD: DNA d 21.3 52 0.0011 15.9 0.8 13 73-85 16-28 (32)
255 KOG3993|consensus 21.1 16 0.00035 28.7 -1.6 39 30-87 267-308 (500)
256 PF12907 zf-met2: Zinc-binding 20.5 25 0.00055 18.0 -0.5 10 31-40 2-11 (40)
257 PRK09678 DNA-binding transcrip 20.5 35 0.00075 19.9 0.1 7 50-56 33-39 (72)
258 PF04981 NMD3: NMD3 family ; 20.4 43 0.00094 23.9 0.6 44 33-85 1-46 (236)
259 COG1675 TFA1 Transcription ini 20.2 1.1E+02 0.0023 21.1 2.4 14 74-87 132-145 (176)
No 1
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.60 E-value=4.6e-16 Score=82.31 Aligned_cols=42 Identities=36% Similarity=0.973 Sum_probs=32.3
Q ss_pred cccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccC
Q psy11857 33 CGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPIC 80 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~C 80 (129)
||||+++| ++|++|+|||+||..||.+++.... +..+.||.|
T Consensus 1 CpiC~~~~----~~Pv~l~CGH~FC~~Cl~~~~~~~~--~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF----KDPVSLPCGHSFCRSCLERLWKEPS--GSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-----SSEEE-SSSSEEEHHHHHHHHCCSS--SST---SSS
T ss_pred CCccchhh----CCccccCCcCHHHHHHHHHHHHccC--CcCCCCcCC
Confidence 89999999 8999999999999999999998753 223789987
No 2
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.48 E-value=5.2e-14 Score=106.08 Aligned_cols=70 Identities=29% Similarity=0.691 Sum_probs=60.3
Q ss_pred ccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHH
Q psy11857 27 NESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDL 106 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~ 106 (129)
++..+.|+||.+.| ..|++++|||+||..||..++.. ...||.|+..+.. ..+..|+.|.+|++.
T Consensus 23 Le~~l~C~IC~d~~----~~PvitpCgH~FCs~CI~~~l~~------~~~CP~Cr~~~~~-----~~Lr~N~~L~~iVe~ 87 (397)
T TIGR00599 23 LDTSLRCHICKDFF----DVPVLTSCSHTFCSLCIRRCLSN------QPKCPLCRAEDQE-----SKLRSNWLVSEIVES 87 (397)
T ss_pred cccccCCCcCchhh----hCccCCCCCCchhHHHHHHHHhC------CCCCCCCCCcccc-----ccCccchHHHHHHHH
Confidence 44589999999999 79999999999999999999875 2379999998763 368889999999999
Q ss_pred HHhhc
Q psy11857 107 MSRQR 111 (129)
Q Consensus 107 ~~~~~ 111 (129)
|+..+
T Consensus 88 ~~~~R 92 (397)
T TIGR00599 88 FKNLR 92 (397)
T ss_pred HHHhh
Confidence 98654
No 3
>KOG0287|consensus
Probab=99.46 E-value=3.1e-14 Score=103.86 Aligned_cols=70 Identities=26% Similarity=0.691 Sum_probs=60.9
Q ss_pred ccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHH
Q psy11857 27 NESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDL 106 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~ 106 (129)
++..++|.||+++| +.|+++||||+||.-||..++.. ...||.|+..+.-+ .+..|+.+.+|++.
T Consensus 20 lD~lLRC~IC~eyf----~ip~itpCsHtfCSlCIR~~L~~------~p~CP~C~~~~~Es-----~Lr~n~il~Eiv~S 84 (442)
T KOG0287|consen 20 LDDLLRCGICFEYF----NIPMITPCSHTFCSLCIRKFLSY------KPQCPTCCVTVTES-----DLRNNRILDEIVKS 84 (442)
T ss_pred hHHHHHHhHHHHHh----cCceeccccchHHHHHHHHHhcc------CCCCCceecccchh-----hhhhhhHHHHHHHH
Confidence 45589999999999 79999999999999999999987 44899999988854 68889999999998
Q ss_pred HHhhc
Q psy11857 107 MSRQR 111 (129)
Q Consensus 107 ~~~~~ 111 (129)
|.-.+
T Consensus 85 ~~~~R 89 (442)
T KOG0287|consen 85 LNFAR 89 (442)
T ss_pred HHHHH
Confidence 87543
No 4
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.43 E-value=1e-13 Score=73.42 Aligned_cols=43 Identities=30% Similarity=0.912 Sum_probs=26.6
Q ss_pred cccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccc
Q psy11857 33 CGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCP 78 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP 78 (129)
||||.+ |++++..|++|+|||+||..|+.++..... ...+.||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~--~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSD--RNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S---S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCC--CCeeeCc
Confidence 899999 877777899999999999999999998732 3578887
No 5
>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=99.43 E-value=1.4e-13 Score=78.88 Aligned_cols=62 Identities=18% Similarity=0.275 Sum_probs=52.8
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDL 106 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~ 106 (129)
++.||||++.+ .+|++++|||+||..||.+|+.. ...||.|+..+.. .++.+|..+++.++.
T Consensus 1 ~~~Cpi~~~~~----~~Pv~~~~G~v~~~~~i~~~~~~------~~~cP~~~~~~~~-----~~l~~~~~l~~~i~~ 62 (63)
T smart00504 1 EFLCPISLEVM----KDPVILPSGQTYERRAIEKWLLS------HGTDPVTGQPLTH-----EDLIPNLALKSAIQE 62 (63)
T ss_pred CcCCcCCCCcC----CCCEECCCCCEEeHHHHHHHHHH------CCCCCCCcCCCCh-----hhceeCHHHHHHHHh
Confidence 36899999999 79999999999999999999986 3489999988753 468888888887763
No 6
>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=99.37 E-value=7.2e-13 Score=78.26 Aligned_cols=69 Identities=16% Similarity=0.236 Sum_probs=55.7
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHHHH
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDLMS 108 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~~~ 108 (129)
+.+.|||++++| .+|+++++||+|++.+|.+|+.. +...||.++..+.. ..+.+|..+++.++.+.
T Consensus 3 ~~f~CpIt~~lM----~dPVi~~~G~tyer~~I~~~l~~-----~~~~~P~t~~~l~~-----~~l~pn~~Lk~~I~~~~ 68 (73)
T PF04564_consen 3 DEFLCPITGELM----RDPVILPSGHTYERSAIERWLEQ-----NGGTDPFTRQPLSE-----SDLIPNRALKSAIEEWC 68 (73)
T ss_dssp GGGB-TTTSSB-----SSEEEETTSEEEEHHHHHHHHCT-----TSSB-TTT-SB-SG-----GGSEE-HHHHHHHHHHH
T ss_pred cccCCcCcCcHh----hCceeCCcCCEEcHHHHHHHHHc-----CCCCCCCCCCcCCc-----ccceECHHHHHHHHHHH
Confidence 378999999999 89999999999999999999987 45689999988774 36899999999999998
Q ss_pred hhc
Q psy11857 109 RQR 111 (129)
Q Consensus 109 ~~~ 111 (129)
+.+
T Consensus 69 ~~~ 71 (73)
T PF04564_consen 69 AEN 71 (73)
T ss_dssp HHC
T ss_pred HHc
Confidence 754
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.35 E-value=8.4e-13 Score=90.36 Aligned_cols=54 Identities=20% Similarity=0.655 Sum_probs=44.1
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccC----------CCCccccccCCcceee
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTR----------ETGTLRCPICREQITI 86 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~----------~~~~~~CP~Cr~~~~~ 86 (129)
+.+.|+||++.+ ++|++++|||.||..||..|+..... .+....||.||..+..
T Consensus 17 ~~~~CpICld~~----~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 17 GDFDCNICLDQV----RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CccCCccCCCcC----CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 478999999999 79999999999999999999764211 1245789999988763
No 8
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.33 E-value=7e-13 Score=70.82 Aligned_cols=43 Identities=28% Similarity=0.733 Sum_probs=36.0
Q ss_pred ccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCC
Q psy11857 32 TCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICR 81 (129)
Q Consensus 32 ~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr 81 (129)
.|+||++.|.. +..++.++|||.||..|+.+|+.. ...||.||
T Consensus 2 ~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~------~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKR------NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHH------SSB-TTTH
T ss_pred CCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHh------CCcCCccC
Confidence 59999999953 457788999999999999999987 34999996
No 9
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.32 E-value=9.2e-13 Score=68.61 Aligned_cols=38 Identities=32% Similarity=0.995 Sum_probs=31.7
Q ss_pred cccccccccCCCCce-EeecCCchhHHHhHHHHHHhccCCCCccccccC
Q psy11857 33 CGTCLCMYDGGEHTP-KLLPCSHTVCLHCLSRIAASQTRETGTLRCPIC 80 (129)
Q Consensus 33 C~iC~~~~~~~~~~p-~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~C 80 (129)
|+||++.+ .+| +.++|||+||..|+.+++.. ...||.|
T Consensus 1 C~iC~~~~----~~~~~~~~CGH~fC~~C~~~~~~~------~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL----RDPVVVTPCGHSFCKECIEKYLEK------NPKCPVC 39 (39)
T ss_dssp ETTTTSB-----SSEEEECTTSEEEEHHHHHHHHHC------TSB-TTT
T ss_pred CCCCCCcc----cCcCEECCCCCchhHHHHHHHHHC------cCCCcCC
Confidence 89999999 789 57889999999999999886 3689987
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=99.30 E-value=2.1e-12 Score=67.88 Aligned_cols=40 Identities=40% Similarity=1.157 Sum_probs=35.6
Q ss_pred cccccccccCCCCceE-eecCCchhHHHhHHHHHHhccCCCCccccccC
Q psy11857 33 CGTCLCMYDGGEHTPK-LLPCSHTVCLHCLSRIAASQTRETGTLRCPIC 80 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~-~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~C 80 (129)
|+||++.+ ..|. +++|||+||..|+.+++.. .....||.|
T Consensus 1 C~iC~~~~----~~~~~~~~C~H~fC~~C~~~~~~~----~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF----EDPVILLPCGHSFCRDCLRKWLEN----SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC----SSEEEETTTSEEEEHHHHHHHHHH----TSSSBTTTT
T ss_pred CCcCCccc----cCCCEEecCCCcchHHHHHHHHHh----cCCccCCcC
Confidence 89999999 6888 8899999999999999996 357789987
No 11
>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=99.30 E-value=2.1e-12 Score=70.80 Aligned_cols=46 Identities=35% Similarity=0.777 Sum_probs=39.7
Q ss_pred ccccccccccccCCCCceEeecCCch-hHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHT-VCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~-fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
+..|.||++.. .+++.+||||. ||..|+.+++.. ...||+||+.+.
T Consensus 2 ~~~C~iC~~~~----~~~~~~pCgH~~~C~~C~~~~~~~------~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENP----RDVVLLPCGHLCFCEECAERLLKR------KKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSB----SSEEEETTCEEEEEHHHHHHHHHT------TSBBTTTTBB-S
T ss_pred cCCCccCCccC----CceEEeCCCChHHHHHHhHHhccc------CCCCCcCChhhc
Confidence 57899999998 78999999999 999999999885 568999998764
No 12
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.28 E-value=4.1e-12 Score=67.83 Aligned_cols=44 Identities=36% Similarity=1.046 Sum_probs=36.8
Q ss_pred ccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 32 TCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 32 ~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
.|++|++.| ..+..|++++|||+||..|+..... ....||+|++
T Consensus 1 ~C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~~------~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKY-SEERRPRLTSCGHIFCEKCLKKLKG------KSVKCPICRK 44 (44)
T ss_pred CCcCcCccc-cCCCCeEEcccCCHHHHHHHHhhcC------CCCCCcCCCC
Confidence 489999999 3446789999999999999998871 4679999985
No 13
>KOG2177|consensus
Probab=99.27 E-value=3.5e-12 Score=92.27 Aligned_cols=81 Identities=35% Similarity=0.747 Sum_probs=65.0
Q ss_pred ccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHH
Q psy11857 27 NESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDL 106 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~ 106 (129)
..+++.|+||++.| ..|++++|||+||..|+..++. ..+.||.||. .. ..+..|..+.++++.
T Consensus 10 ~~~~~~C~iC~~~~----~~p~~l~C~H~~c~~C~~~~~~------~~~~Cp~cr~-~~------~~~~~n~~l~~~~~~ 72 (386)
T KOG2177|consen 10 LQEELTCPICLEYF----REPVLLPCGHNFCRACLTRSWE------GPLSCPVCRP-PS------RNLRPNVLLANLVER 72 (386)
T ss_pred ccccccChhhHHHh----hcCccccccchHhHHHHHHhcC------CCcCCcccCC-ch------hccCccHHHHHHHHH
Confidence 44589999999999 7889999999999999999887 2579999995 32 157799999999999
Q ss_pred HHhhccC-----CCCCCCccccc
Q psy11857 107 MSRQRRH-----IIPKCSTHNSQ 124 (129)
Q Consensus 107 ~~~~~~~-----~~~~C~~H~~~ 124 (129)
+++.... ....|..|+++
T Consensus 73 ~~~~~~~~~~~~~~~~c~~~~~~ 95 (386)
T KOG2177|consen 73 LRQLRLSRPLGSKEELCEKHGEE 95 (386)
T ss_pred HHhcCCcccccccchhhhhcCCc
Confidence 9876432 12278888853
No 14
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.22 E-value=5.2e-12 Score=90.72 Aligned_cols=70 Identities=31% Similarity=0.577 Sum_probs=57.8
Q ss_pred ccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHH
Q psy11857 27 NESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDL 106 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~ 106 (129)
++..+.|-||...+ +.|...+|||+||.-||.+++..+ ..||.||...... .++.++.+..+++.
T Consensus 22 LDs~lrC~IC~~~i----~ip~~TtCgHtFCslCIR~hL~~q------p~CP~Cr~~~~es-----rlr~~s~~~ei~es 86 (391)
T COG5432 22 LDSMLRCRICDCRI----SIPCETTCGHTFCSLCIRRHLGTQ------PFCPVCREDPCES-----RLRGSSGSREINES 86 (391)
T ss_pred chhHHHhhhhhhee----ecceecccccchhHHHHHHHhcCC------CCCccccccHHhh-----hcccchhHHHHHHh
Confidence 34578999999999 899999999999999999999874 3799999887643 47778888888877
Q ss_pred HHhhc
Q psy11857 107 MSRQR 111 (129)
Q Consensus 107 ~~~~~ 111 (129)
+...+
T Consensus 87 ~~~~r 91 (391)
T COG5432 87 HARNR 91 (391)
T ss_pred hhhcc
Confidence 76543
No 15
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.19 E-value=2.7e-12 Score=72.55 Aligned_cols=60 Identities=25% Similarity=0.675 Sum_probs=31.9
Q ss_pred cCccccccccccccCCCCceEee-cCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHH
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLL-PCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLL 104 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l-~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~ 104 (129)
++.+.|++|.+++ +.|+.+ .|.|.||+.|+...+.. .||+|+.+... .++..|..+.+|+
T Consensus 5 e~lLrCs~C~~~l----~~pv~l~~CeH~fCs~Ci~~~~~~--------~CPvC~~Paw~-----qD~~~NrqLd~~i 65 (65)
T PF14835_consen 5 EELLRCSICFDIL----KEPVCLGGCEHIFCSSCIRDCIGS--------ECPVCHTPAWI-----QDIQINRQLDSMI 65 (65)
T ss_dssp HHTTS-SSS-S------SS-B---SSS--B-TTTGGGGTTT--------B-SSS--B-S------SS----HHHHHHH
T ss_pred HHhcCCcHHHHHh----cCCceeccCccHHHHHHhHHhcCC--------CCCCcCChHHH-----HHHHhhhhhhccC
Confidence 3478999999999 899876 59999999999764433 59999987654 4688888888764
No 16
>KOG0320|consensus
Probab=99.17 E-value=1.5e-11 Score=82.57 Aligned_cols=52 Identities=31% Similarity=0.690 Sum_probs=43.4
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
+..+.||||++.+.+ +.|+...|||.||..||...+.. ...||.|++.+..+
T Consensus 129 ~~~~~CPiCl~~~se--k~~vsTkCGHvFC~~Cik~alk~------~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSE--KVPVSTKCGHVFCSQCIKDALKN------TNKCPTCRKKITHK 180 (187)
T ss_pred ccccCCCceecchhh--ccccccccchhHHHHHHHHHHHh------CCCCCCcccccchh
Confidence 346899999999964 56677899999999999999887 45899999977643
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=99.15 E-value=4.5e-11 Score=83.10 Aligned_cols=58 Identities=22% Similarity=0.541 Sum_probs=42.9
Q ss_pred CccccccccccccC----CC-CceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 29 SFLTCGTCLCMYDG----GE-HTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 29 ~~l~C~iC~~~~~~----~~-~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
++..|+||++...+ .+ +-++..+|+|+||..||.+|.......+....||.||..+..
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 47899999987531 11 123455799999999999999864333456789999998763
No 18
>KOG0823|consensus
Probab=99.12 E-value=5.9e-11 Score=82.85 Aligned_cols=51 Identities=25% Similarity=0.796 Sum_probs=45.1
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...+.|.||++.- ++|++..|||-||..||-+|+..+ .+...||+|+..+.
T Consensus 45 ~~~FdCNICLd~a----kdPVvTlCGHLFCWpClyqWl~~~---~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 45 GGFFDCNICLDLA----KDPVVTLCGHLFCWPCLYQWLQTR---PNSKECPVCKAEVS 95 (230)
T ss_pred CCceeeeeecccc----CCCEEeecccceehHHHHHHHhhc---CCCeeCCccccccc
Confidence 3578999999999 899999999999999999999985 35778999997765
No 19
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.08 E-value=6.9e-11 Score=83.92 Aligned_cols=51 Identities=24% Similarity=0.555 Sum_probs=39.4
Q ss_pred CccccccccccccCCC----CceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDGGE----HTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~----~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
+...|+||++.+.+.. ..+++.+|||.||..||.+|+.. ...||+||..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~------~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE------KNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc------CCCCCCCCCEee
Confidence 3689999999873211 11356679999999999999875 448999998876
No 20
>KOG4367|consensus
Probab=99.07 E-value=2e-10 Score=86.86 Aligned_cols=80 Identities=25% Similarity=0.676 Sum_probs=68.5
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCC------------------------------------
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRE------------------------------------ 71 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~------------------------------------ 71 (129)
++++.|+||...| ++|++|+|||+.|..|......+.+..
T Consensus 2 eeelkc~vc~~f~----~epiil~c~h~lc~~ca~~~~~~tp~~~spq~~~aa~s~vs~~~~~~~d~msl~~~ad~g~~~ 77 (699)
T KOG4367|consen 2 EEELKCPVCGSFY----REPIILPCSHNLCQACARNILVQTPESESPQSHRAAGSGVSDYDYLDLDKMSLYSEADSGYGS 77 (699)
T ss_pred cccccCceehhhc----cCceEeecccHHHHHHHHhhcccCCCCCCchhhhhcCCCCCccccccccceeeEeeccCCCCc
Confidence 4689999999999 899999999999999998765432220
Q ss_pred ------------------------------------------CCccccccCCcceeeCCCCCCCCChhHHHHHHHHHHHh
Q psy11857 72 ------------------------------------------TGTLRCPICREQITIPRGGVAALPPSFLVNQLLDLMSR 109 (129)
Q Consensus 72 ------------------------------------------~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~~~~ 109 (129)
+..+.||.|.+.+...++++..+|.|..+.+.++.|.+
T Consensus 78 ~~~~a~~~~t~~~~~~~g~~~~p~am~pp~t~l~~~lap~~~~~~i~c~~c~rs~~~dd~~l~~~p~n~~le~vi~ryq~ 157 (699)
T KOG4367|consen 78 YGGFASAPTTPCQKSPNGVRVFPPAMPPPATHLSPALAPVPRNSCITCPQCHRSLILDDRGLRGFPKNRVLEGVIDRYQQ 157 (699)
T ss_pred cCCeeecCCCccccCCCCceeCCCCCCCchhhccccccCCCCCceEEcchhhhheEecccccccCchhhHHHHHHHHHhh
Confidence 23578999999999999999999999999999999987
Q ss_pred hc
Q psy11857 110 QR 111 (129)
Q Consensus 110 ~~ 111 (129)
..
T Consensus 158 s~ 159 (699)
T KOG4367|consen 158 SK 159 (699)
T ss_pred hh
Confidence 64
No 21
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.07 E-value=1.3e-10 Score=61.40 Aligned_cols=43 Identities=35% Similarity=0.925 Sum_probs=35.9
Q ss_pred ccccccccccCCCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCcc
Q psy11857 32 TCGTCLCMYDGGEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICREQ 83 (129)
Q Consensus 32 ~C~iC~~~~~~~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~ 83 (129)
.|+||.+.+ ..++.++ |||.||..|+..|+.. ....||.|+..
T Consensus 1 ~C~iC~~~~----~~~~~~~~C~H~~c~~C~~~~~~~-----~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEF----REPVVLLPCGHVFCRSCIDKWLKS-----GKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhh----hCceEecCCCChhcHHHHHHHHHh-----CcCCCCCCCCc
Confidence 489999998 5677665 9999999999999886 35679999864
No 22
>KOG0317|consensus
Probab=99.07 E-value=7.5e-11 Score=84.63 Aligned_cols=49 Identities=31% Similarity=0.788 Sum_probs=42.9
Q ss_pred ccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 27 NESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.+....|.+|++.. .+|.-+||||.||..||..|... ...||.||..+.
T Consensus 236 ~~a~~kC~LCLe~~----~~pSaTpCGHiFCWsCI~~w~~e------k~eCPlCR~~~~ 284 (293)
T KOG0317|consen 236 PEATRKCSLCLENR----SNPSATPCGHIFCWSCILEWCSE------KAECPLCREKFQ 284 (293)
T ss_pred CCCCCceEEEecCC----CCCCcCcCcchHHHHHHHHHHcc------ccCCCcccccCC
Confidence 34568999999999 79999999999999999999987 335999998765
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.00 E-value=5.4e-10 Score=57.11 Aligned_cols=39 Identities=44% Similarity=1.054 Sum_probs=33.6
Q ss_pred cccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccC
Q psy11857 33 CGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPIC 80 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~C 80 (129)
|+||++.. ..++.++|||.||..|+..|+.. ....||.|
T Consensus 1 C~iC~~~~----~~~~~~~C~H~~c~~C~~~~~~~-----~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL----KDPVVLPCGHTFCRSCIRKWLKS-----GNNTCPIC 39 (39)
T ss_pred CCcCccCC----CCcEEecCCChHHHHHHHHHHHh-----CcCCCCCC
Confidence 78999987 78999999999999999999883 34579986
No 24
>KOG4185|consensus
Probab=98.91 E-value=1.3e-09 Score=80.05 Aligned_cols=91 Identities=34% Similarity=0.791 Sum_probs=73.4
Q ss_pred ccccccccccccC--CCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHHH
Q psy11857 30 FLTCGTCLCMYDG--GEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDLM 107 (129)
Q Consensus 30 ~l~C~iC~~~~~~--~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~~ 107 (129)
.+.|-||.+.|+. +++.|+.|.|||+||..|+...... ....||+||..+..+...+..+..|+.+..+++..
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~-----~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~ 77 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN-----SRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM 77 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcC-----ceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence 4789999999984 6889999999999999999988876 56778999999877777889999999999999886
Q ss_pred Hhhc------cCCCCCCCcccccc
Q psy11857 108 SRQR------RHIIPKCSTHNSQI 125 (129)
Q Consensus 108 ~~~~------~~~~~~C~~H~~~~ 125 (129)
.... ......|..|....
T Consensus 78 ~~~~~~~~~~~~~~~~c~~~~~nl 101 (296)
T KOG4185|consen 78 KKTTVEEKGEADSPPKCKEHPYNL 101 (296)
T ss_pred hcccccccCcccCCcccccCcccc
Confidence 3211 11334588887543
No 25
>KOG2164|consensus
Probab=98.79 E-value=2.7e-09 Score=81.88 Aligned_cols=52 Identities=31% Similarity=0.632 Sum_probs=43.9
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
...||||++.. ..|..+.|||.||..||.++|.... ......||+|+..+.+
T Consensus 186 ~~~CPICL~~~----~~p~~t~CGHiFC~~CiLqy~~~s~-~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPP----SVPVRTNCGHIFCGPCILQYWNYSA-IKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCC----CcccccccCceeeHHHHHHHHhhhc-ccCCccCCchhhhccc
Confidence 78999999998 6888888999999999999988741 1345689999988875
No 26
>KOG0311|consensus
Probab=98.74 E-value=1.7e-09 Score=79.59 Aligned_cols=59 Identities=24% Similarity=0.666 Sum_probs=47.1
Q ss_pred ccCcccccccCccccccccccccCCCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 19 VSINYEDFNESFLTCGTCLCMYDGGEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 19 ~~~~~~~~~~~~l~C~iC~~~~~~~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
+.+....+.. ++.|+||++++ +..++.+ |+|.||..||...+.. ....||.||+.....
T Consensus 33 i~~~l~~~~~-~v~c~icl~ll----k~tmttkeClhrfc~~ci~~a~r~-----gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 33 IMVDLAMFDI-QVICPICLSLL----KKTMTTKECLHRFCFDCIWKALRS-----GNNECPTCRKKLVSK 92 (381)
T ss_pred heecHHHhhh-hhccHHHHHHH----HhhcccHHHHHHHHHHHHHHHHHh-----cCCCCchHHhhcccc
Confidence 3444455444 89999999999 6777665 9999999999988887 456899999988765
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=7.5e-09 Score=73.66 Aligned_cols=48 Identities=31% Similarity=0.662 Sum_probs=40.8
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHH-HHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSR-IAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~-~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.+..|.||++.. ..|..++|||.||..||.. |-.+ ..-.||.||+.+.
T Consensus 214 ~d~kC~lC~e~~----~~ps~t~CgHlFC~~Cl~~~~t~~-----k~~~CplCRak~~ 262 (271)
T COG5574 214 ADYKCFLCLEEP----EVPSCTPCGHLFCLSCLLISWTKK-----KYEFCPLCRAKVY 262 (271)
T ss_pred cccceeeeeccc----CCcccccccchhhHHHHHHHHHhh-----ccccCchhhhhcc
Confidence 378899999999 7999999999999999999 5544 3446999999876
No 28
>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=98.68 E-value=2.4e-08 Score=73.14 Aligned_cols=48 Identities=27% Similarity=0.683 Sum_probs=36.5
Q ss_pred cccccccccc-ccCCCCceE----eecCCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 30 FLTCGTCLCM-YDGGEHTPK----LLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 30 ~l~C~iC~~~-~~~~~~~p~----~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
+..||+|... | ..|. +.+|||.||..|+...+.. +...||.|+..+..
T Consensus 3 ~~~CP~Ck~~~y----~np~~kl~i~~CGH~~C~sCv~~l~~~-----~~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKY----RNPSLKLMVNVCGHTLCESCVDLLFVR-----GSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCc----cCcccccccCCCCCcccHHHHHHHhcC-----CCCCCCCCCCccch
Confidence 4689999983 3 2332 2269999999999998865 34589999988774
No 29
>KOG4628|consensus
Probab=98.65 E-value=1.3e-08 Score=75.63 Aligned_cols=50 Identities=32% Similarity=0.819 Sum_probs=42.0
Q ss_pred cccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
..|.||++.|..|++- +.|||+|.|...||..|+.+ ....||+|+..+..
T Consensus 230 ~~CaIClEdY~~Gdkl-RiLPC~H~FH~~CIDpWL~~-----~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKL-RILPCSHKFHVNCIDPWLTQ-----TRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCee-eEecCCCchhhccchhhHhh-----cCccCCCCCCcCCC
Confidence 4899999999766665 46999999999999999998 34569999987653
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=98.63 E-value=2.9e-08 Score=58.51 Aligned_cols=45 Identities=29% Similarity=0.730 Sum_probs=33.3
Q ss_pred cccccccccccC--------CCCceE-eecCCchhHHHhHHHHHHhccCCCCccccccCC
Q psy11857 31 LTCGTCLCMYDG--------GEHTPK-LLPCSHTVCLHCLSRIAASQTRETGTLRCPICR 81 (129)
Q Consensus 31 l~C~iC~~~~~~--------~~~~p~-~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr 81 (129)
-.|.||++.|.+ ++.-++ ..+|||.|...||.+|+.. ...||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~------~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ------NNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT------SSB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc------CCcCCCCC
Confidence 349999999942 223444 4479999999999999987 33999997
No 31
>KOG2660|consensus
Probab=98.61 E-value=2.9e-08 Score=72.68 Aligned_cols=67 Identities=18% Similarity=0.433 Sum_probs=53.1
Q ss_pred ccccccccccccCCCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDLM 107 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~~ 107 (129)
.+.|.+|..+| .++.++. |.||||..||..++.. ...||.|...+-.. .....+..+..++.|+-.+
T Consensus 15 ~itC~LC~GYl----iDATTI~eCLHTFCkSCivk~l~~------~~~CP~C~i~ih~t-~pl~ni~~DrtlqdiVyKL 82 (331)
T KOG2660|consen 15 HITCRLCGGYL----IDATTITECLHTFCKSCIVKYLEE------SKYCPTCDIVIHKT-HPLLNIRSDRTLQDIVYKL 82 (331)
T ss_pred ceehhhcccee----ecchhHHHHHHHHHHHHHHHHHHH------hccCCccceeccCc-cccccCCcchHHHHHHHHH
Confidence 78999999999 7888776 9999999999999987 56999998765421 2234567777777777655
No 32
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.61 E-value=7.8e-08 Score=57.70 Aligned_cols=54 Identities=31% Similarity=0.798 Sum_probs=42.6
Q ss_pred ccccccccccccC--------CCCceEee-cCCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 30 FLTCGTCLCMYDG--------GEHTPKLL-PCSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 30 ~l~C~iC~~~~~~--------~~~~p~~l-~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
+-.|+||...|++ ++.-|+++ .|+|.|...||.+|+..+. ....||+||+....
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~---~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQS---SKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHcccc---CCCCCCCcCCeeee
Confidence 5678888888863 45557766 5999999999999999752 35699999998764
No 33
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=4.8e-08 Score=72.69 Aligned_cols=56 Identities=38% Similarity=0.707 Sum_probs=44.9
Q ss_pred ccCccccccccccccC---------CCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCC
Q psy11857 27 NESFLTCGTCLCMYDG---------GEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPR 88 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~---------~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~ 88 (129)
-.++-.|.||++.+-+ .+..|+.|||||.+...|++.|...++ +||.||.++....
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ------TCPICr~p~ifd~ 348 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ------TCPICRRPVIFDQ 348 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc------CCCcccCcccccc
Confidence 3457899999998433 235679999999999999999999854 8999999866543
No 34
>KOG0978|consensus
Probab=98.50 E-value=3.4e-08 Score=78.92 Aligned_cols=48 Identities=21% Similarity=0.653 Sum_probs=42.4
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
..+.||+|...+ ++.++..|||.||..|+...+.. ....||.|...+.
T Consensus 642 ~~LkCs~Cn~R~----Kd~vI~kC~H~FC~~Cvq~r~et-----RqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 642 ELLKCSVCNTRW----KDAVITKCGHVFCEECVQTRYET-----RQRKCPKCNAAFG 689 (698)
T ss_pred hceeCCCccCch----hhHHHHhcchHHHHHHHHHHHHH-----hcCCCCCCCCCCC
Confidence 478999999988 78888899999999999998886 4668999998875
No 35
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=1.1e-07 Score=69.11 Aligned_cols=50 Identities=24% Similarity=0.713 Sum_probs=42.3
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...|.||++.|..+++ -+.+||.|.|...|+.+|+.. ....||.||..+.
T Consensus 323 GveCaICms~fiK~d~-~~vlPC~H~FH~~Cv~kW~~~-----y~~~CPvCrt~iP 372 (374)
T COG5540 323 GVECAICMSNFIKNDR-LRVLPCDHRFHVGCVDKWLLG-----YSNKCPVCRTAIP 372 (374)
T ss_pred CceEEEEhhhhcccce-EEEeccCceechhHHHHHHhh-----hcccCCccCCCCC
Confidence 4789999999965444 568899999999999999986 5779999998754
No 36
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.45 E-value=1.3e-07 Score=64.95 Aligned_cols=46 Identities=26% Similarity=0.629 Sum_probs=40.4
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.+.|.||.+.| +.|++..|||.||..|..+-+.. ...|-.|.+.+.
T Consensus 196 PF~C~iCKkdy----~spvvt~CGH~FC~~Cai~~y~k------g~~C~~Cgk~t~ 241 (259)
T COG5152 196 PFLCGICKKDY----ESPVVTECGHSFCSLCAIRKYQK------GDECGVCGKATY 241 (259)
T ss_pred ceeehhchhhc----cchhhhhcchhHHHHHHHHHhcc------CCcceecchhhc
Confidence 57999999999 89999999999999999887775 347999988765
No 37
>KOG4159|consensus
Probab=98.43 E-value=1.1e-07 Score=72.24 Aligned_cols=48 Identities=33% Similarity=0.873 Sum_probs=42.3
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
..++.|.||...+ ..|+++||||+||..||.+.+.. ...||.||..+.
T Consensus 82 ~sef~c~vc~~~l----~~pv~tpcghs~c~~Cl~r~ld~------~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRAL----YPPVVTPCGHSFCLECLDRSLDQ------ETECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhc----CCCccccccccccHHHHHHHhcc------CCCCcccccccc
Confidence 4589999999999 79999999999999999986664 568999998876
No 38
>KOG0802|consensus
Probab=98.32 E-value=2.9e-07 Score=72.88 Aligned_cols=51 Identities=33% Similarity=0.564 Sum_probs=41.2
Q ss_pred CccccccccccccC-CCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDG-GEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~-~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
....|+||.+.+.. ....|..++|||.|+..|+..|+.. .-.||.||..+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er------~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER------QQTCPTCRTVLY 341 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHH------hCcCCcchhhhh
Confidence 36889999999841 1122899999999999999999998 448999998443
No 39
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.26 E-value=1.5e-06 Score=63.26 Aligned_cols=65 Identities=25% Similarity=0.629 Sum_probs=49.0
Q ss_pred ccccccccccccCCCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDLM 107 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~~ 107 (129)
.|.|++|..++ +.|...+ |||+||..||...+-. ..+.||.|...-.+- +.|.+++....-++.+
T Consensus 274 ~LkCplc~~Ll----rnp~kT~cC~~~fc~eci~~al~d-----sDf~CpnC~rkdvll----d~l~pD~dk~~EvE~~ 339 (427)
T COG5222 274 SLKCPLCHCLL----RNPMKTPCCGHTFCDECIGTALLD-----SDFKCPNCSRKDVLL----DGLTPDIDKKLEVEKA 339 (427)
T ss_pred cccCcchhhhh----hCcccCccccchHHHHHHhhhhhh-----ccccCCCcccccchh----hccCccHHHHHHHHHH
Confidence 49999999999 8999886 9999999999988776 578999997643322 3566665544444443
No 40
>KOG0824|consensus
Probab=98.24 E-value=4.1e-07 Score=66.03 Aligned_cols=48 Identities=25% Similarity=0.499 Sum_probs=41.6
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
.-.|+||+... ..|+.|+|+|-||.-||+..... ....|++||..+..
T Consensus 7 ~~eC~IC~nt~----n~Pv~l~C~HkFCyiCiKGsy~n-----dk~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNTG----NCPVNLYCFHKFCYICIKGSYKN-----DKKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeeccC----CcCccccccchhhhhhhcchhhc-----CCCCCceecCCCCc
Confidence 46799999999 68999999999999999987776 45679999988763
No 41
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.24 E-value=5.3e-07 Score=52.67 Aligned_cols=57 Identities=26% Similarity=0.507 Sum_probs=27.5
Q ss_pred ccccccccccccCCCCceEee----cCCchhHHHhHHHHHHhccCCC-----CccccccCCcceee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLL----PCSHTVCLHCLSRIAASQTRET-----GTLRCPICREQITI 86 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l----~CgH~fC~~Cl~~~~~~~~~~~-----~~~~CP~Cr~~~~~ 86 (129)
++.|+||+..+.+.+..|... .|+..|...||.+|+....... ....||.|++.+..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 578999999875444556544 5999999999999998743221 12479999998874
No 42
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.12 E-value=1.7e-06 Score=48.52 Aligned_cols=42 Identities=26% Similarity=0.524 Sum_probs=30.8
Q ss_pred ccccccccccccCCCCceEee-cCCchhHHHhHHHHHHhccCCCCcccccc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLL-PCSHTVCLHCLSRIAASQTRETGTLRCPI 79 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l-~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~ 79 (129)
.+.|||.+..| .+|+.- .|||+|....|.+++.. .....||.
T Consensus 11 ~~~CPiT~~~~----~~PV~s~~C~H~fek~aI~~~i~~----~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPF----EDPVKSKKCGHTFEKEAILQYIQR----NGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-----SSEEEESSS--EEEHHHHHHHCTT----TS-EE-SC
T ss_pred ccCCCCcCChh----hCCcCcCCCCCeecHHHHHHHHHh----cCCCCCCC
Confidence 68999999999 899876 69999999999999944 46889998
No 43
>KOG2879|consensus
Probab=98.10 E-value=1.7e-06 Score=62.15 Aligned_cols=49 Identities=24% Similarity=0.629 Sum_probs=41.1
Q ss_pred CccccccccccccCCCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
....|++|.+.- ..|.+.. |||.||..|+...... ...+.||.|...+.
T Consensus 238 ~~~~C~~Cg~~P----tiP~~~~~C~HiyCY~Ci~ts~~~----~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 238 SDTECPVCGEPP----TIPHVIGKCGHIYCYYCIATSRLW----DASFTCPLCGENVE 287 (298)
T ss_pred CCceeeccCCCC----CCCeeeccccceeehhhhhhhhcc----hhhcccCccCCCCc
Confidence 478999999998 6888775 9999999999987665 34789999988765
No 44
>KOG1813|consensus
Probab=98.07 E-value=1.6e-06 Score=62.89 Aligned_cols=46 Identities=22% Similarity=0.527 Sum_probs=39.8
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.+.|-||.+.| ..|++..|||+||..|....+.. .-.|.+|.+.+.
T Consensus 241 Pf~c~icr~~f----~~pVvt~c~h~fc~~ca~~~~qk------~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYF----YRPVVTKCGHYFCEVCALKPYQK------GEKCYVCSQQTH 286 (313)
T ss_pred Ccccccccccc----ccchhhcCCceeehhhhcccccc------CCcceecccccc
Confidence 45699999999 89999999999999998876665 348999998876
No 45
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.96 E-value=1.8e-05 Score=42.98 Aligned_cols=44 Identities=34% Similarity=0.789 Sum_probs=35.0
Q ss_pred ccccccccccCCCCceEeecCC-----chhHHHhHHHHHHhccCCCCccccccCC
Q psy11857 32 TCGTCLCMYDGGEHTPKLLPCS-----HTVCLHCLSRIAASQTRETGTLRCPICR 81 (129)
Q Consensus 32 ~C~iC~~~~~~~~~~p~~l~Cg-----H~fC~~Cl~~~~~~~~~~~~~~~CP~Cr 81 (129)
.|.||++ .+++.++.+.||. |.+...|+.+|+.. .....||+|+
T Consensus 1 ~CrIC~~--~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~----~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD--EGDEGDPLVSPCRCKGSLKYVHQECLERWINE----SGNKTCEICK 49 (49)
T ss_pred CccCCCC--CCCCCCeeEeccccCCchhHHHHHHHHHHHHH----cCCCcCCCCC
Confidence 4889998 2344688888985 78999999999998 3456899984
No 46
>KOG0804|consensus
Probab=97.95 E-value=2.8e-06 Score=64.74 Aligned_cols=50 Identities=28% Similarity=0.563 Sum_probs=39.2
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.+..+||||++.++....--+.+.|.|+|...|+..|+.. .||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~--------scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS--------SCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC--------cChhhhhhcC
Confidence 3578999999999732222356679999999999999876 8999987544
No 47
>KOG0297|consensus
Probab=97.95 E-value=5.7e-06 Score=63.21 Aligned_cols=51 Identities=27% Similarity=0.747 Sum_probs=43.4
Q ss_pred ccCccccccccccccCCCCceEee-cCCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 27 NESFLTCGTCLCMYDGGEHTPKLL-PCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~~~~~p~~l-~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
.++.+.|++|...+ .+|+.. .|||.||..|+..|... ...||.|+......
T Consensus 18 ~~~~l~C~~C~~vl----~~p~~~~~cgh~fC~~C~~~~~~~------~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 18 LDENLLCPICMSVL----RDPVQTTTCGHRFCAGCLLESLSN------HQKCPVCRQELTQA 69 (391)
T ss_pred CcccccCccccccc----cCCCCCCCCCCcccccccchhhcc------CcCCcccccccchh
Confidence 45589999999999 899984 89999999999999886 45899998776644
No 48
>KOG4172|consensus
Probab=97.86 E-value=2.7e-06 Score=46.56 Aligned_cols=47 Identities=30% Similarity=0.583 Sum_probs=38.0
Q ss_pred ccccccccccccCCCCceEeecCCch-hHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHT-VCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~-fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
..+|.||.+.- .+.++..|||. +|..|-.+.+.. ....||+||+++.
T Consensus 7 ~dECTICye~p----vdsVlYtCGHMCmCy~Cg~rl~~~-----~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHP----VDSVLYTCGHMCMCYACGLRLKKA-----LHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCc----chHHHHHcchHHhHHHHHHHHHHc-----cCCcCcchhhHHH
Confidence 46899999877 57777789997 899998887775 3558999998764
No 49
>KOG1039|consensus
Probab=97.84 E-value=9.7e-06 Score=60.67 Aligned_cols=59 Identities=24% Similarity=0.617 Sum_probs=40.5
Q ss_pred CccccccccccccCCC---CceEee-cCCchhHHHhHHHHHHhcc-CCCCccccccCCcceeeC
Q psy11857 29 SFLTCGTCLCMYDGGE---HTPKLL-PCSHTVCLHCLSRIAASQT-RETGTLRCPICREQITIP 87 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~---~~p~~l-~CgH~fC~~Cl~~~~~~~~-~~~~~~~CP~Cr~~~~~~ 87 (129)
.+..|.||++...+.. +.--+| +|.|+||..|+..|..... +......||+||......
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 4789999999875211 001133 5999999999999985521 122367999999877654
No 50
>KOG1002|consensus
Probab=97.80 E-value=1.5e-05 Score=62.15 Aligned_cols=56 Identities=23% Similarity=0.549 Sum_probs=45.8
Q ss_pred ccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 27 NESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
...+..|.+|.+.- .+++...|.|.||..|+..+...... +....||.|...+...
T Consensus 533 nk~~~~C~lc~d~a----ed~i~s~ChH~FCrlCi~eyv~~f~~-~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 533 NKGEVECGLCHDPA----EDYIESSCHHKFCRLCIKEYVESFME-NNNVTCPVCHIGLSID 588 (791)
T ss_pred ccCceeecccCChh----hhhHhhhhhHHHHHHHHHHHHHhhhc-ccCCCCcccccccccc
Confidence 34578999999998 79999999999999999988776433 3458999998876643
No 51
>KOG1785|consensus
Probab=97.80 E-value=9e-06 Score=61.39 Aligned_cols=47 Identities=32% Similarity=0.697 Sum_probs=38.7
Q ss_pred cccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
-.|.||.+.= ++-.+-||||-.|..|+..|.... ..-.||+||..+.
T Consensus 370 eLCKICaend----KdvkIEPCGHLlCt~CLa~WQ~sd----~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 370 ELCKICAEND----KDVKIEPCGHLLCTSCLAAWQDSD----EGQTCPFCRCEIK 416 (563)
T ss_pred HHHHHhhccC----CCcccccccchHHHHHHHhhcccC----CCCCCCceeeEec
Confidence 3699999876 777788999999999999998662 2558999997765
No 52
>KOG3161|consensus
Probab=97.74 E-value=1.2e-05 Score=63.88 Aligned_cols=68 Identities=22% Similarity=0.494 Sum_probs=48.7
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHH
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLD 105 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~ 105 (129)
+.+.|+||...|......|+.+-|||+.|..|+...+.. .|| |...-......+...+.|+++.+.+.
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~--------scp-~~~De~~~~~~~~e~p~n~alL~~~~ 77 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA--------SCP-TKRDEDSSLMQLKEEPRNYALLRREH 77 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc--------cCC-CCccccchhcChhhcchhHHHHHhhc
Confidence 357899997777666678999999999999999987776 566 32222222234567888888766544
No 53
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.71 E-value=2.6e-05 Score=41.91 Aligned_cols=47 Identities=28% Similarity=0.552 Sum_probs=24.4
Q ss_pred cccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcce
Q psy11857 33 CGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQI 84 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~ 84 (129)
||+|.+.++.++.+-.-=+||+-+|..|..+.... ....||.||+.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~-----~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN-----EGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS-----S-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc-----cCCCCCCCCCCC
Confidence 78999998765554333369999999999988763 356899999864
No 54
>KOG1493|consensus
Probab=97.65 E-value=2e-05 Score=46.06 Aligned_cols=53 Identities=32% Similarity=0.786 Sum_probs=43.1
Q ss_pred cccccccccccC--------CCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 31 LTCGTCLCMYDG--------GEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 31 l~C~iC~~~~~~--------~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
-.|.||.-.|++ +|.-|.++- |.|.|..-||.+|+..+ ++...||.||+...+
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~---tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTP---TSQGQCPMCRQTWQF 82 (84)
T ss_pred CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCc---cccccCCcchheeEe
Confidence 378888888773 667788885 99999999999999875 355789999988764
No 55
>KOG4265|consensus
Probab=97.62 E-value=4.8e-05 Score=56.62 Aligned_cols=47 Identities=36% Similarity=0.760 Sum_probs=39.8
Q ss_pred CccccccccccccCCCCceEeecCCch-hHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHT-VCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~-fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
....|-||+..- ++-++|||.|. .|..|.....-+ ...||+||..+.
T Consensus 289 ~gkeCVIClse~----rdt~vLPCRHLCLCs~Ca~~Lr~q------~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSES----RDTVVLPCRHLCLCSGCAKSLRYQ------TNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCC----cceEEecchhhehhHhHHHHHHHh------hcCCCccccchH
Confidence 467899999988 89999999997 899999887644 347999998765
No 56
>KOG1814|consensus
Probab=97.59 E-value=5.9e-05 Score=57.11 Aligned_cols=60 Identities=33% Similarity=0.633 Sum_probs=44.0
Q ss_pred ccccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCC--CccccccCCccee
Q psy11857 25 DFNESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRET--GTLRCPICREQIT 85 (129)
Q Consensus 25 ~~~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~--~~~~CP~Cr~~~~ 85 (129)
.+....+.|.||++... |...-+.+||+|.||..|+..++..+..++ ....||.+.-.-.
T Consensus 179 ~F~~slf~C~ICf~e~~-G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~ 240 (445)
T KOG1814|consen 179 KFVNSLFDCCICFEEQM-GQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSV 240 (445)
T ss_pred HHHhhcccceeeehhhc-CcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCccc
Confidence 44455789999999884 444556889999999999999887753322 4578988765543
No 57
>KOG1734|consensus
Probab=97.51 E-value=1.6e-05 Score=57.11 Aligned_cols=54 Identities=20% Similarity=0.451 Sum_probs=42.4
Q ss_pred ccccccccccccCCC------CceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 30 FLTCGTCLCMYDGGE------HTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~------~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
+-.|.+|.+.++.+. .+-..|+|+|.|...||..|--- +..-+||.|++.+.+.
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWciv----GKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIV----GKKQTCPYCKEKVDLK 283 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheee----cCCCCCchHHHHhhHh
Confidence 567999999875211 13457899999999999999766 4567999999988764
No 58
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.50 E-value=0.00024 Score=41.97 Aligned_cols=50 Identities=26% Similarity=0.573 Sum_probs=39.2
Q ss_pred ccccccccccCCCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 32 TCGTCLCMYDGGEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 32 ~C~iC~~~~~~~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
.|+-|+.-.+.++.-|+.-- |.|.|..-||.+|+.. ...||++++...+-
T Consensus 33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T------k~~CPld~q~w~~~ 83 (88)
T COG5194 33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT------KGVCPLDRQTWVLA 83 (88)
T ss_pred cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh------CCCCCCCCceeEEe
Confidence 46666665555666777775 9999999999999997 34899999988754
No 59
>KOG1941|consensus
Probab=97.47 E-value=7.1e-05 Score=56.50 Aligned_cols=51 Identities=37% Similarity=0.664 Sum_probs=40.7
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcce
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQI 84 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~ 84 (129)
.+.|..|.+.+...+..---|||.|+|..+|+..++.+ .....||.||+..
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~----n~~rsCP~Crklr 415 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILEN----NGTRSCPNCRKLR 415 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHh----CCCCCCccHHHHH
Confidence 68999999998643334446799999999999999977 3577999999543
No 60
>KOG1645|consensus
Probab=97.45 E-value=9.1e-05 Score=56.11 Aligned_cols=52 Identities=29% Similarity=0.659 Sum_probs=42.1
Q ss_pred cccccccccccc-CCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYD-GGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~-~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
-..||||++.+. .+++.-+.+.|||-|-..||.+|+.+ .....||.|...-.
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k----~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGK----KTKMQCPLCSGKAT 56 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhh----hhhhhCcccCChhH
Confidence 468999999886 35566667789999999999999964 56789999976543
No 61
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.32 E-value=5.6e-05 Score=41.58 Aligned_cols=44 Identities=25% Similarity=0.600 Sum_probs=32.8
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...|-.|...- ...++++|||..|..|..-... ..||+|.+.+.
T Consensus 7 ~~~~~~~~~~~----~~~~~~pCgH~I~~~~f~~~rY--------ngCPfC~~~~~ 50 (55)
T PF14447_consen 7 EQPCVFCGFVG----TKGTVLPCGHLICDNCFPGERY--------NGCPFCGTPFE 50 (55)
T ss_pred ceeEEEccccc----cccccccccceeeccccChhhc--------cCCCCCCCccc
Confidence 44555566554 5678999999999999865433 37999998876
No 62
>KOG0827|consensus
Probab=97.32 E-value=0.00013 Score=55.00 Aligned_cols=49 Identities=20% Similarity=0.513 Sum_probs=34.4
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCC
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICR 81 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr 81 (129)
...|.||-+.+.....-.-+-.|||+|...|+.+|+...+ ....||.|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~P---s~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDP---SNRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCC---ccCCCCcee
Confidence 3579999776642111111224999999999999999743 236899998
No 63
>KOG0828|consensus
Probab=97.19 E-value=0.0002 Score=55.54 Aligned_cols=54 Identities=26% Similarity=0.496 Sum_probs=39.5
Q ss_pred ccCccccccccccccC--CC-----------CceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 27 NESFLTCGTCLCMYDG--GE-----------HTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~--~~-----------~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.+...-|+||+...+- +. +.-...||.|.|...|+.+|+.. ....||.||..+.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~-----ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT-----YKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh-----hcccCCccCCCCC
Confidence 3446789999986641 11 11234589999999999999985 5679999998653
No 64
>KOG4739|consensus
Probab=97.13 E-value=0.00015 Score=51.46 Aligned_cols=56 Identities=29% Similarity=0.707 Sum_probs=38.3
Q ss_pred ccccccccccccCCCCceEe-ecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChh
Q psy11857 30 FLTCGTCLCMYDGGEHTPKL-LPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPS 97 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~-l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n 97 (129)
...|..|+..-+ .+|.. +.|+|.||..|...... -.||.|++.+... .-..++|.+
T Consensus 3 ~VhCn~C~~~~~---~~~f~LTaC~HvfC~~C~k~~~~--------~~C~lCkk~ir~i-~l~~slp~~ 59 (233)
T KOG4739|consen 3 FVHCNKCFRFPS---QDPFFLTACRHVFCEPCLKASSP--------DVCPLCKKSIRII-QLNRSLPTD 59 (233)
T ss_pred eEEeccccccCC---CCceeeeechhhhhhhhcccCCc--------cccccccceeeee-ecccccchh
Confidence 567888887765 56664 46999999999864322 2899999986642 222445544
No 65
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.10 E-value=0.00061 Score=49.43 Aligned_cols=51 Identities=22% Similarity=0.490 Sum_probs=39.1
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...+.|||....|++..+--.+.+|||.|+..++.+.. . ...||.|...+.
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~------~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-K------SKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-c------cccccccCCccc
Confidence 45789999999996433333345899999999999874 1 336999999877
No 66
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.02 E-value=0.00071 Score=50.42 Aligned_cols=52 Identities=25% Similarity=0.506 Sum_probs=41.4
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
++-.||+|.+.++..|+.-.--+||-..|.-|+...... -...||.||+.+.
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~-----lngrcpacrr~y~ 64 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN-----LNGRCPACRRKYD 64 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhh-----ccCCChHhhhhcc
Confidence 345599999999877776666689999999999877665 3458999998866
No 67
>KOG4692|consensus
Probab=97.01 E-value=0.00048 Score=51.57 Aligned_cols=48 Identities=23% Similarity=0.568 Sum_probs=40.2
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.++-.||||..-- ...+..||+|.-|..||.+++.+ ...|=+|+..+.
T Consensus 420 sEd~lCpICyA~p----i~Avf~PC~H~SC~~CI~qHlmN------~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGP----INAVFAPCSHRSCYGCITQHLMN------CKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceeccc----chhhccCCCCchHHHHHHHHHhc------CCeeeEecceee
Confidence 3578899999876 67888899999999999999886 558999977654
No 68
>KOG2817|consensus
Probab=96.94 E-value=0.00066 Score=51.34 Aligned_cols=52 Identities=23% Similarity=0.554 Sum_probs=40.7
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcce
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQI 84 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~ 84 (129)
..+.|||=.+.- .++..|+.|.|||..+..-+.+...+. ...+.||.|-...
T Consensus 333 SvF~CPVlKeqt-sdeNPPm~L~CGHVISkdAlnrLS~ng---~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQT-SDENPPMMLICGHVISKDALNRLSKNG---SQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhc-cCCCCCeeeeccceecHHHHHHHhhCC---CeeeeCCCCCccc
Confidence 468999866654 345789999999999999999887762 2369999996554
No 69
>KOG3002|consensus
Probab=96.92 E-value=0.00058 Score=50.44 Aligned_cols=57 Identities=21% Similarity=0.583 Sum_probs=41.0
Q ss_pred CccccccccccccCCCCceEeec--CCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHH
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLP--CSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDL 106 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~--CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~ 106 (129)
+.+.||||.+.+ ..| +.. =||..|..|-.+. ...||.||..+. -..++++..+++.
T Consensus 47 ~lleCPvC~~~l----~~P-i~QC~nGHlaCssC~~~~---------~~~CP~Cr~~~g--------~~R~~amEkV~e~ 104 (299)
T KOG3002|consen 47 DLLDCPVCFNPL----SPP-IFQCDNGHLACSSCRTKV---------SNKCPTCRLPIG--------NIRCRAMEKVAEA 104 (299)
T ss_pred hhccCchhhccC----ccc-ceecCCCcEehhhhhhhh---------cccCCccccccc--------cHHHHHHHHHHHh
Confidence 578999999999 455 444 5899999998633 347999998765 1246666666554
Q ss_pred H
Q psy11857 107 M 107 (129)
Q Consensus 107 ~ 107 (129)
.
T Consensus 105 ~ 105 (299)
T KOG3002|consen 105 V 105 (299)
T ss_pred c
Confidence 4
No 70
>KOG1812|consensus
Probab=96.92 E-value=0.00065 Score=51.92 Aligned_cols=78 Identities=17% Similarity=0.334 Sum_probs=50.7
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDLMS 108 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~~~ 108 (129)
...|.||...+...+..-.+..|+|-||..|+.+++......+....||.-+-...++......+-++ .+..+++...
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~llt~-kl~e~~e~~~ 223 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRKLLTP-KLREMWEQRL 223 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhhhcCH-HHHHHHHHHH
Confidence 56899999433222122235679999999999999887655567889988666666555555555544 4444444433
No 71
>KOG0825|consensus
Probab=96.88 E-value=0.00023 Score=58.03 Aligned_cols=49 Identities=18% Similarity=0.384 Sum_probs=36.6
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.-.||+|+..+..+.. -.-.+|+|.||..||..|-.. .-+||+||..+.
T Consensus 123 ~~~CP~Ci~s~~DqL~-~~~k~c~H~FC~~Ci~sWsR~------aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLE-ESEKHTAHYFCEECVGSWSRC------AQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhHHHHHHHHHhh-ccccccccccHHHHhhhhhhh------cccCchhhhhhh
Confidence 4679999998842111 112369999999999999876 458999998765
No 72
>KOG3800|consensus
Probab=96.73 E-value=0.0013 Score=47.86 Aligned_cols=49 Identities=27% Similarity=0.645 Sum_probs=34.5
Q ss_pred cccccccc-ccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 32 TCGTCLCM-YDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 32 ~C~iC~~~-~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.||+|... |...+-.-.+-+|||+.|.+|+...+.. +...||.|...+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~-----g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL-----GPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhc-----CCCCCCcccchhh
Confidence 58888753 4211111122279999999999999986 5678999987665
No 73
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.73 E-value=0.00065 Score=56.57 Aligned_cols=54 Identities=28% Similarity=0.624 Sum_probs=40.2
Q ss_pred cCcccccccccccc-CCCCceE-ee-cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 28 ESFLTCGTCLCMYD-GGEHTPK-LL-PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 28 ~~~l~C~iC~~~~~-~~~~~p~-~l-~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...-.|+||..++. -...-|- .- .|.|-|...|+-+|++. ++.-.||.||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~S----s~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFAS----SARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHh----cCCCCCCccccccc
Confidence 44668999999885 1112232 22 49999999999999998 56789999997654
No 74
>KOG4275|consensus
Probab=96.70 E-value=0.00035 Score=50.97 Aligned_cols=42 Identities=31% Similarity=0.696 Sum_probs=34.2
Q ss_pred ccccccccccccCCCCceEeecCCch-hHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHT-VCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~-fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...|.||++.. ++-+.|+|||. -|.+|=. ....||+||+.+.
T Consensus 300 ~~LC~ICmDaP----~DCvfLeCGHmVtCt~CGk----------rm~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAP----RDCVFLECGHMVTCTKCGK----------RMNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCC----cceEEeecCcEEeehhhcc----------ccccCchHHHHHH
Confidence 56799999999 89999999996 4888843 3347999998754
No 75
>KOG3039|consensus
Probab=96.66 E-value=0.0012 Score=47.17 Aligned_cols=51 Identities=14% Similarity=0.277 Sum_probs=41.9
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
..+.||+|.+.+++...-.+.-+|||.||..|+.+.+.. ...||+|.+...
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~------D~v~pv~d~plk 270 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK------DMVDPVTDKPLK 270 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc------cccccCCCCcCc
Confidence 468999999999765555556689999999999999886 568999987755
No 76
>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=96.33 E-value=0.0059 Score=40.83 Aligned_cols=53 Identities=30% Similarity=0.659 Sum_probs=36.7
Q ss_pred CccccccccccccCCCCceEeecCC------------chh-HHHhHHHHHHhccC-------------------------
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCS------------HTV-CLHCLSRIAASQTR------------------------- 70 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~Cg------------H~f-C~~Cl~~~~~~~~~------------------------- 70 (129)
++..||||++.- +++++|-|. .+| ...|+.++.+....
T Consensus 1 ed~~CpICme~P----HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (162)
T PF07800_consen 1 EDVTCPICMEHP----HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQ 76 (162)
T ss_pred CCccCceeccCC----CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccc
Confidence 367899999999 899988543 222 35788876654211
Q ss_pred CCCccccccCCccee
Q psy11857 71 ETGTLRCPICREQIT 85 (129)
Q Consensus 71 ~~~~~~CP~Cr~~~~ 85 (129)
......||+||..+.
T Consensus 77 ~~~~L~CPLCRG~V~ 91 (162)
T PF07800_consen 77 EQPELACPLCRGEVK 91 (162)
T ss_pred ccccccCccccCcee
Confidence 113678999998876
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.30 E-value=0.0045 Score=46.40 Aligned_cols=53 Identities=28% Similarity=0.669 Sum_probs=39.7
Q ss_pred cccccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcce
Q psy11857 24 EDFNESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQI 84 (129)
Q Consensus 24 ~~~~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~ 84 (129)
++-.++...|-||.+-. .-.-.+||+|..|.-|..+...- .....||+||...
T Consensus 55 ddtDEen~~C~ICA~~~----TYs~~~PC~H~~CH~Ca~RlRAL----Y~~K~C~~CrTE~ 107 (493)
T COG5236 55 DDTDEENMNCQICAGST----TYSARYPCGHQICHACAVRLRAL----YMQKGCPLCRTET 107 (493)
T ss_pred cccccccceeEEecCCc----eEEEeccCCchHHHHHHHHHHHH----HhccCCCcccccc
Confidence 33345678899999987 35568899999999998775444 2356899999653
No 78
>KOG1940|consensus
Probab=96.22 E-value=0.0026 Score=46.40 Aligned_cols=47 Identities=23% Similarity=0.566 Sum_probs=40.4
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
...||||.+.+......|..++|||.....|+...... + ..||.|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-----~-y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-----G-YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc-----C-CCCCcccc
Confidence 45699999988777788889999999999999887775 4 89999987
No 79
>KOG1001|consensus
Probab=96.20 E-value=0.0019 Score=52.59 Aligned_cols=46 Identities=24% Similarity=0.666 Sum_probs=38.8
Q ss_pred cccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
..|.+|.+ . ..+++..|||.||..|+...+... ....||.||..+.
T Consensus 455 ~~c~ic~~-~----~~~~it~c~h~~c~~c~~~~i~~~----~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-L----DSFFITRCGHDFCVECLKKSIQQS----ENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc-c----ccceeecccchHHHHHHHhccccc----cCCCCcHHHHHHH
Confidence 78999999 6 688899999999999999988873 3448999986654
No 80
>PHA03096 p28-like protein; Provisional
Probab=96.04 E-value=0.0077 Score=44.28 Aligned_cols=49 Identities=18% Similarity=0.255 Sum_probs=32.6
Q ss_pred cccccccccccC---CCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 31 LTCGTCLCMYDG---GEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 31 l~C~iC~~~~~~---~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
-.|.||++.... .++.--+|+ |.|.||..|+..|..... ..-.||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~---~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL---YKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh---hcccCccccc
Confidence 679999987542 112222454 999999999999988743 2334555543
No 81
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.03 E-value=0.0069 Score=39.36 Aligned_cols=50 Identities=20% Similarity=0.575 Sum_probs=40.6
Q ss_pred ccccccccccccCCCCceEee-c---CCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLL-P---CSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l-~---CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
..+|.||.+.. .+.+.| | ||-..|..|-...|... .-...||.|+..+..
T Consensus 80 lYeCnIC~etS----~ee~FLKPneCCgY~iCn~Cya~LWK~~---~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 80 LYECNICKETS----AEERFLKPNECCGYSICNACYANLWKFC---NLYPVCPVCKTSFKS 133 (140)
T ss_pred ceeccCccccc----chhhcCCcccccchHHHHHHHHHHHHHc---ccCCCCCcccccccc
Confidence 57899999998 466666 2 99999999999988874 245689999988764
No 82
>KOG1571|consensus
Probab=95.96 E-value=0.0026 Score=47.66 Aligned_cols=43 Identities=30% Similarity=0.729 Sum_probs=33.2
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...|-||.+.. .+.+.+||||.-| |..-... ...||.||..+.
T Consensus 305 p~lcVVcl~e~----~~~~fvpcGh~cc--ct~cs~~-------l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDEP----KSAVFVPCGHVCC--CTLCSKH-------LPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCCc----cceeeecCCcEEE--chHHHhh-------CCCCchhHHHHH
Confidence 56799999988 6889999999966 6543322 346999998765
No 83
>KOG4185|consensus
Probab=95.96 E-value=0.0024 Score=46.99 Aligned_cols=49 Identities=29% Similarity=0.708 Sum_probs=41.1
Q ss_pred cccccccccccc--CCCCceEeec--------CCchhHHHhHHHHHHhccCCCCccccccCCcc
Q psy11857 30 FLTCGTCLCMYD--GGEHTPKLLP--------CSHTVCLHCLSRIAASQTRETGTLRCPICREQ 83 (129)
Q Consensus 30 ~l~C~iC~~~~~--~~~~~p~~l~--------CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~ 83 (129)
+..|.||...|+ .....|.++. |||+.|..|+....... . ..||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~----~-~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQA----G-IKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHh----h-hcCCcccce
Confidence 467999999987 4667888888 99999999999988772 3 899999874
No 84
>KOG4362|consensus
Probab=95.85 E-value=0.0015 Score=52.79 Aligned_cols=50 Identities=32% Similarity=0.780 Sum_probs=42.4
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
..+.|+||...+ ..|+.+.|.|.||..|+...+.... ....||+|+..+.
T Consensus 20 k~lEc~ic~~~~----~~p~~~kc~~~~l~~~~n~~f~~~~---~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHV----KEPSLLKCDHIFLKFCLNKLFESKK---GPKQCALCKSDIE 69 (684)
T ss_pred hhccCCceeEEe----eccchhhhhHHHHhhhhhceeeccC---ccccchhhhhhhh
Confidence 479999999999 7999999999999999988777643 3778999986655
No 85
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=95.82 E-value=0.0028 Score=45.17 Aligned_cols=51 Identities=27% Similarity=0.628 Sum_probs=35.7
Q ss_pred cccccccccc-ccCCCCceEeec-CCchhHHHhHHHHHHhccCCCCccccc--cCCccee
Q psy11857 30 FLTCGTCLCM-YDGGEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCP--ICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~-~~~~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP--~Cr~~~~ 85 (129)
+-.||+|... |-..+..-.+-| |-|.+|.+|+.+.+.. +...|| -|.+.+.
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~-----GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR-----GPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC-----CCCCCCCccHHHHHH
Confidence 5689999863 422222222336 9999999999999986 567899 6876544
No 86
>KOG3970|consensus
Probab=95.63 E-value=0.022 Score=40.34 Aligned_cols=56 Identities=25% Similarity=0.484 Sum_probs=43.2
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCC--CCccccccCCcceeeC
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRE--TGTLRCPICREQITIP 87 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~--~~~~~CP~Cr~~~~~~ 87 (129)
.-.|.+|...+.+ .+.+.|-|-|.|..+|+..+..+-+.+ .....||.|...+..+
T Consensus 50 ~pNC~LC~t~La~--gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 50 NPNCRLCNTPLAS--GDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCceeCCcccc--CcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 4679999998865 456788999999999999998774322 2357899998877633
No 87
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.61 E-value=0.01 Score=43.97 Aligned_cols=52 Identities=25% Similarity=0.556 Sum_probs=39.9
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcce
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQI 84 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~ 84 (129)
..+.||+=.+.- .++..|+++.|||..-..-+.+..++. ...+.||.|-...
T Consensus 335 s~FiCPVlKe~~-t~ENpP~ml~CgHVIskeal~~LS~nG---~~~FKCPYCP~~~ 386 (396)
T COG5109 335 SLFICPVLKELC-TDENPPVMLECGHVISKEALSVLSQNG---VLSFKCPYCPEMS 386 (396)
T ss_pred ceeeccccHhhh-cccCCCeeeeccceeeHHHHHHHhhcC---cEEeeCCCCCcch
Confidence 468999866554 344689999999999999988876662 3589999996543
No 88
>KOG2930|consensus
Probab=95.31 E-value=0.017 Score=35.89 Aligned_cols=29 Identities=28% Similarity=0.669 Sum_probs=25.3
Q ss_pred cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 51 PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 51 ~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.|.|.|..-||.+|++. ...||+|.+.-.
T Consensus 80 ~CNHaFH~hCisrWlkt------r~vCPLdn~eW~ 108 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKT------RNVCPLDNKEWV 108 (114)
T ss_pred ecchHHHHHHHHHHHhh------cCcCCCcCccee
Confidence 59999999999999997 458999988754
No 89
>KOG2932|consensus
Probab=95.27 E-value=0.0059 Score=45.07 Aligned_cols=45 Identities=24% Similarity=0.718 Sum_probs=31.5
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.-.|--|..... .--++++|.|.||.+|...- ..+.||.|...+.
T Consensus 90 VHfCd~Cd~PI~---IYGRmIPCkHvFCl~CAr~~--------~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 90 VHFCDRCDFPIA---IYGRMIPCKHVFCLECARSD--------SDKICPLCDDRVQ 134 (389)
T ss_pred eEeecccCCcce---eeecccccchhhhhhhhhcC--------ccccCcCcccHHH
Confidence 346778876552 33468899999999997532 2457999976543
No 90
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.17 E-value=0.029 Score=37.62 Aligned_cols=51 Identities=24% Similarity=0.374 Sum_probs=37.7
Q ss_pred cCccccccccccccCCCCceEeecCC--c---hhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCS--H---TVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~Cg--H---~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
.....|-||.+..+ +..-||. . ....+|+.+|... ++...|+.|+..+...
T Consensus 6 ~~~~~CRIC~~~~~-----~~~~PC~CkGs~k~VH~sCL~rWi~~----s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYD-----VVTNYCNCKNENKIVHKECLEEWINT----SKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCC-----CccCCcccCCCchHHHHHHHHHHHhc----CCCCcccccCCeEEEE
Confidence 34678999987752 2334654 4 3489999999997 5678999999887754
No 91
>KOG1428|consensus
Probab=95.05 E-value=0.039 Score=48.71 Aligned_cols=55 Identities=25% Similarity=0.494 Sum_probs=38.7
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCC----ccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETG----TLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~----~~~CP~Cr~~~~ 85 (129)
+-.|-||+..- .+....+.|.|+|.|...|..+.+.....+.. -+.||+|..++.
T Consensus 3486 DDmCmICFTE~-L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3486 DDMCMICFTEA-LSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred CceEEEEehhh-hCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 55688887532 12234568899999999999998877544322 368999987654
No 92
>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=94.98 E-value=0.018 Score=31.17 Aligned_cols=47 Identities=28% Similarity=0.561 Sum_probs=21.9
Q ss_pred ccccccccccccCCCCceEee-cCCchhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLL-PCSHTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l-~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
.+.||+-...+ ..|+.. .|.|.-|.+= ..++..... ...+.||.|.+
T Consensus 2 sL~CPls~~~i----~~P~Rg~~C~H~~CFDl-~~fl~~~~~-~~~W~CPiC~~ 49 (50)
T PF02891_consen 2 SLRCPLSFQRI----RIPVRGKNCKHLQCFDL-ESFLESNQR-TPKWKCPICNK 49 (50)
T ss_dssp ESB-TTTSSB-----SSEEEETT--SS--EEH-HHHHHHHHH-S---B-TTT--
T ss_pred eeeCCCCCCEE----EeCccCCcCcccceECH-HHHHHHhhc-cCCeECcCCcC
Confidence 47899999999 678765 5999876442 222222110 34689999975
No 93
>KOG2114|consensus
Probab=94.76 E-value=0.04 Score=45.74 Aligned_cols=40 Identities=28% Similarity=0.657 Sum_probs=32.4
Q ss_pred ccccccccccccCCCCceE-eecCCchhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 30 FLTCGTCLCMYDGGEHTPK-LLPCSHTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~-~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
.-.|..|.-.+ .-|. ...|||.|...|+. . +...||.|+.
T Consensus 840 ~skCs~C~~~L----dlP~VhF~CgHsyHqhC~e----~-----~~~~CP~C~~ 880 (933)
T KOG2114|consen 840 VSKCSACEGTL----DLPFVHFLCGHSYHQHCLE----D-----KEDKCPKCLP 880 (933)
T ss_pred eeeecccCCcc----ccceeeeecccHHHHHhhc----c-----CcccCCccch
Confidence 46899999999 4565 55799999999997 1 3668999965
No 94
>KOG0826|consensus
Probab=94.59 E-value=0.025 Score=42.09 Aligned_cols=45 Identities=20% Similarity=0.454 Sum_probs=36.8
Q ss_pred CccccccccccccCCCCceEeec-CCchhHHHhHHHHHHhccCCCCccccccCCcc
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLP-CSHTVCLHCLSRIAASQTRETGTLRCPICREQ 83 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~-CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~ 83 (129)
+.-.||+|...- .+|.++. -|-.||..|+..+... ...||+=..+
T Consensus 299 ~~~~CpvClk~r----~Nptvl~vSGyVfCY~Ci~~Yv~~------~~~CPVT~~p 344 (357)
T KOG0826|consen 299 DREVCPVCLKKR----QNPTVLEVSGYVFCYPCIFSYVVN------YGHCPVTGYP 344 (357)
T ss_pred ccccChhHHhcc----CCCceEEecceEEeHHHHHHHHHh------cCCCCccCCc
Confidence 466899999998 7888887 6999999999999987 4479965443
No 95
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=94.40 E-value=0.014 Score=36.22 Aligned_cols=32 Identities=22% Similarity=0.526 Sum_probs=24.6
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHH
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLS 62 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~ 62 (129)
+.-.|++|.+.+.. ..-.+.||||.|+..|+.
T Consensus 77 ~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence 46779999999842 233366999999999975
No 96
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.25 E-value=0.028 Score=30.05 Aligned_cols=42 Identities=33% Similarity=0.744 Sum_probs=25.6
Q ss_pred cccccccccCCCCceEeecCCch-----hHHHhHHHHHHhccCCCCccccccC
Q psy11857 33 CGTCLCMYDGGEHTPKLLPCSHT-----VCLHCLSRIAASQTRETGTLRCPIC 80 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l~CgH~-----fC~~Cl~~~~~~~~~~~~~~~CP~C 80 (129)
|-||++..++ ..|.+.||+-. ....|+.+|+... +...|++|
T Consensus 1 CrIC~~~~~~--~~~li~pC~C~Gs~~~vH~~CL~~W~~~~----~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEE--DEPLISPCRCKGSMKYVHRSCLERWIRES----GNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SS--SS-EE-SSS-SSCCGSEECCHHHHHHHHH----T-SB-TTT
T ss_pred CeEeCCcCCC--CCceecccccCCCcchhHHHHHHHHHHhc----CCCcCCCC
Confidence 6788887643 22678886543 4778999999983 46678876
No 97
>KOG1815|consensus
Probab=93.62 E-value=0.056 Score=42.20 Aligned_cols=47 Identities=28% Similarity=0.656 Sum_probs=35.0
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCc--ccccc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGT--LRCPI 79 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~--~~CP~ 79 (129)
...|.||.+.+. .....+.|||.||..|+..++......+.. +.||.
T Consensus 70 ~~~c~ic~~~~~---~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~ 118 (444)
T KOG1815|consen 70 DVQCGICVESYD---GEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPA 118 (444)
T ss_pred cccCCcccCCCc---chhhhcCCCcHHHHHHHHHHhhheeeccccccccCCC
Confidence 578999999983 135566899999999999988775432222 67765
No 98
>KOG4445|consensus
Probab=93.54 E-value=0.043 Score=40.50 Aligned_cols=61 Identities=26% Similarity=0.562 Sum_probs=41.4
Q ss_pred CccccccccccccCCCCc-eEeecCCchhHHHhHHHHHHhc-----------------cCCCCccccccCCcceeeCCCC
Q psy11857 29 SFLTCGTCLCMYDGGEHT-PKLLPCSHTVCLHCLSRIAASQ-----------------TRETGTLRCPICREQITIPRGG 90 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~-p~~l~CgH~fC~~Cl~~~~~~~-----------------~~~~~~~~CP~Cr~~~~~~~~~ 90 (129)
....|.||+--|.+ .+ -..++|.|-|...|+.+++..- -.......||+||..+....+.
T Consensus 114 p~gqCvICLygfa~--~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~s 191 (368)
T KOG4445|consen 114 PNGQCVICLYGFAS--SPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENS 191 (368)
T ss_pred CCCceEEEEEeecC--CCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccc
Confidence 35789999988863 22 2356899999999999876430 0012345799999887655444
Q ss_pred C
Q psy11857 91 V 91 (129)
Q Consensus 91 ~ 91 (129)
+
T Consensus 192 l 192 (368)
T KOG4445|consen 192 L 192 (368)
T ss_pred e
Confidence 4
No 99
>PHA02862 5L protein; Provisional
Probab=93.23 E-value=0.11 Score=34.42 Aligned_cols=48 Identities=19% Similarity=0.398 Sum_probs=35.8
Q ss_pred cccccccccccCCCCceEeecCCc-----hhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLPCSH-----TVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~CgH-----~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
-.|-||++.-+ +. .-||.- -..++|+.+|+.. .+...|+.|+..+...
T Consensus 3 diCWIC~~~~~----e~-~~PC~C~GS~K~VHq~CL~~WIn~----S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 3 DICWICNDVCD----ER-NNFCGCNEEYKVVHIKCMQLWINY----SKKKECNLCKTKYNIK 55 (156)
T ss_pred CEEEEecCcCC----CC-cccccccCcchhHHHHHHHHHHhc----CCCcCccCCCCeEEEE
Confidence 46999998762 22 356543 3578999999976 5688999999888753
No 100
>KOG1952|consensus
Probab=93.18 E-value=0.081 Score=44.01 Aligned_cols=55 Identities=24% Similarity=0.515 Sum_probs=40.2
Q ss_pred cCccccccccccccCCCCceEe--ecCCchhHHHhHHHHHHhccC-CCCccccccCCcce
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKL--LPCSHTVCLHCLSRIAASQTR-ETGTLRCPICREQI 84 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~--l~CgH~fC~~Cl~~~~~~~~~-~~~~~~CP~Cr~~~ 84 (129)
...+.|-||.+.++. ..|+- -.|-|.|...||..|...... ....+.||.|+...
T Consensus 189 ~~~yeCmIC~e~I~~--t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 189 NRKYECMICTERIKR--TAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred cCceEEEEeeeeccc--cCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 357899999998852 23332 158999999999999887322 24679999998443
No 101
>KOG3113|consensus
Probab=92.93 E-value=0.18 Score=36.43 Aligned_cols=54 Identities=20% Similarity=0.267 Sum_probs=40.8
Q ss_pred ccccCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 25 DFNESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 25 ~~~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
+.....+.|||=.-.|++.-+--.+-+|||.|-.+-+.+.... .|+.|...+..
T Consensus 106 D~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeikas--------~C~~C~a~y~~ 159 (293)
T KOG3113|consen 106 DTQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKAS--------VCHVCGAAYQE 159 (293)
T ss_pred ccccceeecccccceecceEEEEEEeccceeccHHHHHHhhhc--------cccccCCcccc
Confidence 3345578999988888653344445589999999988877654 89999988774
No 102
>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=92.52 E-value=0.0091 Score=34.59 Aligned_cols=41 Identities=22% Similarity=0.408 Sum_probs=22.3
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
++.||.|...+. +.. ||.+|..|-..+.. ...||.|...+.
T Consensus 1 e~~CP~C~~~L~-----~~~---~~~~C~~C~~~~~~-------~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELE-----WQG---GHYHCEACQKDYKK-------EAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEE-----EET---TEEEETTT--EEEE-------EEE-TTT-SB-E
T ss_pred CCcCCCCCCccE-----EeC---CEEECcccccccee-------cccCCCcccHHH
Confidence 367999998883 333 88888888764322 457999987765
No 103
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=92.15 E-value=0.13 Score=33.59 Aligned_cols=37 Identities=16% Similarity=0.348 Sum_probs=27.1
Q ss_pred ccccccccccccCCCCceEeecCC------chhHHHhHHHHHHh
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCS------HTVCLHCLSRIAAS 67 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~Cg------H~fC~~Cl~~~~~~ 67 (129)
...|.||++..+. ..--+.++|| |.||..|+.+|...
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 7899999999864 1223344565 67999999999654
No 104
>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=91.77 E-value=0.16 Score=38.62 Aligned_cols=35 Identities=34% Similarity=0.859 Sum_probs=25.8
Q ss_pred CCchhHHHhHHHHHHhccCC-------CCccccccCCcceee
Q psy11857 52 CSHTVCLHCLSRIAASQTRE-------TGTLRCPICREQITI 86 (129)
Q Consensus 52 CgH~fC~~Cl~~~~~~~~~~-------~~~~~CP~Cr~~~~~ 86 (129)
|....|..|+.+|+...+.. .+...||.||+.+..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 33455899999999875432 256789999998764
No 105
>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=91.64 E-value=0.17 Score=26.44 Aligned_cols=40 Identities=18% Similarity=0.541 Sum_probs=20.9
Q ss_pred cccccccccCCCCceEee---cCCchhHHHhHHHHHHhccCCCCccccccC
Q psy11857 33 CGTCLCMYDGGEHTPKLL---PCSHTVCLHCLSRIAASQTRETGTLRCPIC 80 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l---~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~C 80 (129)
|.+|.++.. .-..= .|+-.+...|+..++... ....||.|
T Consensus 1 C~~C~~iv~----~G~~C~~~~C~~r~H~~C~~~y~r~~----~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVT----QGQRCSNRDCNVRLHDDCFKKYFRHR----SNPKCPNC 43 (43)
T ss_dssp -TTT-SB-S----SSEE-SS--S--EE-HHHHHHHTTT-----SS-B-TTT
T ss_pred CcccchhHe----eeccCCCCccCchHHHHHHHHHHhcC----CCCCCcCC
Confidence 567777773 22222 488889999999998873 23379987
No 106
>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=91.41 E-value=0.29 Score=27.06 Aligned_cols=48 Identities=17% Similarity=0.385 Sum_probs=35.0
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...|..|...+.....++.+-+=-.|||..|....+.. .||-|+..+.
T Consensus 5 rpnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~--------~CPNCgGelv 52 (57)
T PF06906_consen 5 RPNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNG--------VCPNCGGELV 52 (57)
T ss_pred CCCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcC--------cCcCCCCccc
Confidence 35688888877543345555555569999999987765 8999987765
No 107
>KOG3039|consensus
Probab=90.95 E-value=0.16 Score=36.55 Aligned_cols=34 Identities=15% Similarity=0.156 Sum_probs=30.2
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHh
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAAS 67 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~ 67 (129)
.--|++|++.+ ++|++.+=||.||+.||.+++-.
T Consensus 43 FdcCsLtLqPc----~dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 43 FDCCSLTLQPC----RDPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred cceeeeecccc----cCCccCCCCeeeeHHHHHHHHHH
Confidence 45689999999 99999999999999999887644
No 108
>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=90.51 E-value=0.1 Score=24.31 Aligned_cols=9 Identities=33% Similarity=0.623 Sum_probs=5.5
Q ss_pred ccccccccc
Q psy11857 32 TCGTCLCMY 40 (129)
Q Consensus 32 ~C~iC~~~~ 40 (129)
.||.|....
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 366666655
No 109
>KOG1100|consensus
Probab=90.38 E-value=0.13 Score=36.15 Aligned_cols=39 Identities=41% Similarity=0.755 Sum_probs=29.3
Q ss_pred cccccccccCCCCceEeecCCch-hHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 33 CGTCLCMYDGGEHTPKLLPCSHT-VCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l~CgH~-fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
|-.|.+.- ..-.++||.|. +|..|-. ....||+|+....
T Consensus 161 Cr~C~~~~----~~VlllPCrHl~lC~~C~~----------~~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGERE----ATVLLLPCRHLCLCGICDE----------SLRICPICRSPKT 200 (207)
T ss_pred ceecCcCC----ceEEeecccceEecccccc----------cCccCCCCcChhh
Confidence 89998876 56668899995 8998843 1457999986543
No 110
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=90.21 E-value=0.37 Score=28.06 Aligned_cols=47 Identities=17% Similarity=0.422 Sum_probs=35.9
Q ss_pred cccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
..|.-|...+-.+..+..+-.-.+|||..|....+.. .||-|+..+.
T Consensus 6 PnCECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~g--------~CPnCGGelv 52 (84)
T COG3813 6 PNCECCDRDLPPDSTDARICTFECTFCADCAENRLHG--------LCPNCGGELV 52 (84)
T ss_pred CCCcccCCCCCCCCCceeEEEEeeehhHhHHHHhhcC--------cCCCCCchhh
Confidence 4577777777555556666677789999999877665 8999988765
No 111
>KOG0298|consensus
Probab=89.93 E-value=0.13 Score=44.63 Aligned_cols=45 Identities=27% Similarity=0.688 Sum_probs=37.1
Q ss_pred CccccccccccccCCCC-ceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcc
Q psy11857 29 SFLTCGTCLCMYDGGEH-TPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQ 83 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~-~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~ 83 (129)
....|+||.+.+ + .-.+.-|||.+|..|...|... ...||.|...
T Consensus 1152 ~~~~c~ic~dil----~~~~~I~~cgh~~c~~c~~~~l~~------~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1152 GHFVCEICLDIL----RNQGGIAGCGHEPCCRCDELWLYA------SSRCPICKSI 1197 (1394)
T ss_pred cccchHHHHHHH----HhcCCeeeechhHhhhHHHHHHHH------hccCcchhhh
Confidence 367899999999 5 4456679999999999999987 5589999743
No 112
>KOG3579|consensus
Probab=89.66 E-value=0.15 Score=37.40 Aligned_cols=47 Identities=26% Similarity=0.588 Sum_probs=35.3
Q ss_pred CccccccccccccCCCCceEeecC----CchhHHHhHHHHHHhccCCCCccccccC
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPC----SHTVCLHCLSRIAASQTRETGTLRCPIC 80 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~C----gH~fC~~Cl~~~~~~~~~~~~~~~CP~C 80 (129)
..|.|.+|.+.+ .+-....| .|-||.-|-.+.++.+.. .....||.=
T Consensus 267 apLcCTLC~ERL----EDTHFVQCPSVp~HKFCFPCSResIK~Qg~-sgevYCPSG 317 (352)
T KOG3579|consen 267 APLCCTLCHERL----EDTHFVQCPSVPSHKFCFPCSRESIKQQGA-SGEVYCPSG 317 (352)
T ss_pred Cceeehhhhhhh----ccCceeecCCCcccceecccCHHHHHhhcC-CCceeCCCC
Confidence 468999999999 45555544 799999999998888654 346677753
No 113
>KOG3899|consensus
Probab=89.52 E-value=0.28 Score=36.25 Aligned_cols=35 Identities=31% Similarity=0.821 Sum_probs=26.1
Q ss_pred CCchhHHHhHHHHHHhccCC-------CCccccccCCcceee
Q psy11857 52 CSHTVCLHCLSRIAASQTRE-------TGTLRCPICREQITI 86 (129)
Q Consensus 52 CgH~fC~~Cl~~~~~~~~~~-------~~~~~CP~Cr~~~~~ 86 (129)
|....|.+|+.+|+...+.+ .+...||.||+.+..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 45567899999998764431 356799999998774
No 114
>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=89.39 E-value=0.1 Score=28.56 Aligned_cols=36 Identities=17% Similarity=0.321 Sum_probs=25.9
Q ss_pred cccccccccccCCCCceEeecCCchhHHHhHHHHHH
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAA 66 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~ 66 (129)
-.|.+|...|+...+...--.||+.||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 468999988864334444457999999999876543
No 115
>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=88.84 E-value=0.13 Score=27.43 Aligned_cols=31 Identities=42% Similarity=1.065 Sum_probs=20.9
Q ss_pred eecCC-chhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 49 LLPCS-HTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 49 ~l~Cg-H~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.+.|. |-.|..|+...+.. .-.||+|.+.+.
T Consensus 15 Li~C~dHYLCl~CLt~ml~~------s~~C~iC~~~LP 46 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSR------SDRCPICGKPLP 46 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SS------SSEETTTTEE--
T ss_pred eeeecchhHHHHHHHHHhcc------ccCCCcccCcCc
Confidence 45554 66899999988876 558999988754
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=88.69 E-value=0.21 Score=27.25 Aligned_cols=39 Identities=23% Similarity=0.575 Sum_probs=23.4
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQ 83 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~ 83 (129)
.+.||.|.+.|+ . ..+..-+....... .....||+|...
T Consensus 2 ~f~CP~C~~~~~----~-------~~L~~H~~~~H~~~----~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFS----E-------SSLVEHCEDEHRSE----SKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccC----H-------HHHHHHHHhHCcCC----CCCccCCCchhh
Confidence 688999999663 1 11333343333322 457899999753
No 117
>KOG2034|consensus
Probab=87.56 E-value=0.42 Score=40.13 Aligned_cols=37 Identities=30% Similarity=0.487 Sum_probs=29.0
Q ss_pred cCccccccccccccCCCCceE-eecCCchhHHHhHHHHHHh
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPK-LLPCSHTVCLHCLSRIAAS 67 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~-~l~CgH~fC~~Cl~~~~~~ 67 (129)
+..-.|.+|...+- ..|. +.+|||.|...|+.+....
T Consensus 815 ep~d~C~~C~~~ll---~~pF~vf~CgH~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLL---IKPFYVFPCGHCFHRDCLIRHVLS 852 (911)
T ss_pred cCccchHHhcchhh---cCcceeeeccchHHHHHHHHHHHc
Confidence 44678999999875 4565 6689999999999886543
No 118
>KOG3268|consensus
Probab=87.09 E-value=0.98 Score=31.09 Aligned_cols=58 Identities=21% Similarity=0.459 Sum_probs=36.6
Q ss_pred cccccccccccc-C--CCCceEeecCCchhHHHhHHHHHHhccCCCC-----ccccccCCcceeeC
Q psy11857 30 FLTCGTCLCMYD-G--GEHTPKLLPCSHTVCLHCLSRIAASQTRETG-----TLRCPICREQITIP 87 (129)
Q Consensus 30 ~l~C~iC~~~~~-~--~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~-----~~~CP~Cr~~~~~~ 87 (129)
...|.||..+-- + ++..--...||..|..-|+..|++.--.... -..||.|..++.++
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 346777776432 2 1122224479999999999999876211011 13799999888754
No 119
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=85.50 E-value=1.6 Score=25.85 Aligned_cols=51 Identities=20% Similarity=0.401 Sum_probs=21.5
Q ss_pred cccccccccccc-CCCCceEee--cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYD-GGEHTPKLL--PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~-~~~~~p~~l--~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.-.|.||.+..- ..+-++.+. .|+--.|+.|..--.+. ....||.|+..+.
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErke-----g~q~CpqCkt~yk 62 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKE-----GNQVCPQCKTRYK 62 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHT-----S-SB-TTT--B--
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhc-----CcccccccCCCcc
Confidence 457999999764 222344444 58889999998755554 5678999997665
No 120
>KOG3053|consensus
Probab=84.40 E-value=1.8 Score=31.44 Aligned_cols=74 Identities=23% Similarity=0.439 Sum_probs=45.4
Q ss_pred CccccccccccccCCCCceEeecCC-----chhHHHhHHHHHHhccC--CCCccccccCCcceeeCCCCCCCCChhHHHH
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCS-----HTVCLHCLSRIAASQTR--ETGTLRCPICREQITIPRGGVAALPPSFLVN 101 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~Cg-----H~fC~~Cl~~~~~~~~~--~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~ 101 (129)
.+-.|.||+..=.+.....-+-||. |=....|+.+|+.+... ......||.|+..+... +|.--.+.
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv------~P~l~~~~ 92 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV------FPQLGPFD 92 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee------ccccChHH
Confidence 3678999997653111122244764 23688999999988533 23568999999887642 44444444
Q ss_pred HHHHHHH
Q psy11857 102 QLLDLMS 108 (129)
Q Consensus 102 ~l~~~~~ 108 (129)
..++.+.
T Consensus 93 ~~Le~~d 99 (293)
T KOG3053|consen 93 RVLERLD 99 (293)
T ss_pred HHHHHhh
Confidence 4444443
No 121
>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 PF14353 CpXC: CpXC protein
Probab=82.86 E-value=1.3 Score=28.41 Aligned_cols=51 Identities=14% Similarity=0.267 Sum_probs=26.3
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
+++||-|...|. ..+-..-.-..=..=..+.+.. .-..+.||.|+..+.+.
T Consensus 1 ~itCP~C~~~~~----~~v~~~I~~~~~p~l~e~il~g---~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 1 EITCPHCGHEFE----FEVWTSINADEDPELKEKILDG---SLFSFTCPSCGHKFRLE 51 (128)
T ss_pred CcCCCCCCCeeE----EEEEeEEcCcCCHHHHHHHHcC---CcCEEECCCCCCceecC
Confidence 368999998884 2221111100011222233322 13578999999887653
No 123
>KOG2068|consensus
Probab=82.58 E-value=0.77 Score=34.41 Aligned_cols=50 Identities=28% Similarity=0.568 Sum_probs=38.7
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.-.||+|.+..+.++...+-.+||+..|..|+...... ...||.||+...
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~------~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDG------DGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhccccc------CCCCCccCCccc
Confidence 46899999988665555555579999999998876654 668999997655
No 124
>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=82.51 E-value=0.97 Score=25.82 Aligned_cols=13 Identities=31% Similarity=0.654 Sum_probs=9.7
Q ss_pred hhHHHhHHHHHHh
Q psy11857 55 TVCLHCLSRIAAS 67 (129)
Q Consensus 55 ~fC~~Cl~~~~~~ 67 (129)
.||+.|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999877
No 125
>KOG2169|consensus
Probab=81.30 E-value=1.6 Score=35.91 Aligned_cols=71 Identities=18% Similarity=0.321 Sum_probs=45.2
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeCCCCCCCCChhHHHHHHHHHHH
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIPRGGVAALPPSFLVNQLLDLMS 108 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~n~~l~~l~~~~~ 108 (129)
-.|.|+|....+. ...+-..|.|.=|..=+ |+.+.......+.||+|.+...+ +.+..+..+.+++....
T Consensus 305 vSL~CPl~~~Rm~---~P~r~~~CkHlQcFD~~--~~lq~n~~~pTW~CPVC~~~~~~-----e~l~iD~~~~~iL~~~~ 374 (636)
T KOG2169|consen 305 VSLNCPLSKMRMS---LPARGHTCKHLQCFDAL--SYLQMNEQKPTWRCPVCQKAAPF-----EGLIIDGYFLNILQSCQ 374 (636)
T ss_pred eEecCCcccceee---cCCcccccccceecchh--hhHHhccCCCeeeCccCCccccc-----cchhhhHHHHHHHhhcc
Confidence 3799999987772 23335567775444432 22222223578999999988775 46777777777777655
Q ss_pred h
Q psy11857 109 R 109 (129)
Q Consensus 109 ~ 109 (129)
.
T Consensus 375 ~ 375 (636)
T KOG2169|consen 375 A 375 (636)
T ss_pred C
Confidence 4
No 126
>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=79.51 E-value=0.48 Score=26.98 Aligned_cols=35 Identities=20% Similarity=0.324 Sum_probs=16.9
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRI 64 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~ 64 (129)
...|.+|...|+-..+.-.=-.||+.||..|....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 57899999999532222222369999999998643
No 127
>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=77.92 E-value=1.6 Score=27.35 Aligned_cols=32 Identities=25% Similarity=0.532 Sum_probs=23.1
Q ss_pred CchhHHHhHHHHHHhccC---CCCccccccCCcce
Q psy11857 53 SHTVCLHCLSRIAASQTR---ETGTLRCPICREQI 84 (129)
Q Consensus 53 gH~fC~~Cl~~~~~~~~~---~~~~~~CP~Cr~~~ 84 (129)
.-.||..||...+.+... ....+.||.||..-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 667999999888765321 23578999998643
No 128
>KOG0825|consensus
Probab=76.41 E-value=2.2 Score=35.89 Aligned_cols=55 Identities=15% Similarity=0.212 Sum_probs=33.3
Q ss_pred ccccccccccccCCCCceEeec---CCchhHHHhHHHHHHhccCCCCccccccCCcce
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLP---CSHTVCLHCLSRIAASQTRETGTLRCPICREQI 84 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~---CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~ 84 (129)
...|++|...+...+.---+.+ |+|.||..||..|..+-......-.|++|..-+
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 4567777766632000011333 999999999999987744333345567775433
No 129
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=73.81 E-value=3.7 Score=22.55 Aligned_cols=33 Identities=18% Similarity=0.437 Sum_probs=23.7
Q ss_pred ccccccccccccCCCCceEeec-CCchhHHHhHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLP-CSHTVCLHCLSR 63 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~-CgH~fC~~Cl~~ 63 (129)
.-.|++|.+.|..+ -+-++-+ ||-.+.+.|...
T Consensus 5 ~~~C~~Cg~~~~~~-dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDG-DDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCC-CCEEECCCCCCcccHHHHhh
Confidence 56899999999422 2333445 999999999854
No 130
>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=72.17 E-value=2.1 Score=27.06 Aligned_cols=14 Identities=21% Similarity=0.681 Sum_probs=9.4
Q ss_pred CccccccCCcceee
Q psy11857 73 GTLRCPICREQITI 86 (129)
Q Consensus 73 ~~~~CP~Cr~~~~~ 86 (129)
..+.||.|+..+..
T Consensus 25 ~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 25 DPIVCPKCGTEFPP 38 (108)
T ss_pred CCccCCCCCCccCc
Confidence 45678888776653
No 131
>KOG1812|consensus
Probab=69.38 E-value=2.7 Score=32.40 Aligned_cols=39 Identities=18% Similarity=0.441 Sum_probs=29.2
Q ss_pred Ccccccccccccc-CCCCceEeecCCchhHHHhHHHHHHh
Q psy11857 29 SFLTCGTCLCMYD-GGEHTPKLLPCSHTVCLHCLSRIAAS 67 (129)
Q Consensus 29 ~~l~C~iC~~~~~-~~~~~p~~l~CgH~fC~~Cl~~~~~~ 67 (129)
....||.|.-.+. .++-..++=.|||-||..|...|...
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~ 344 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH 344 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhC
Confidence 3678999998765 22245555579999999999888765
No 132
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=68.54 E-value=4.5 Score=35.20 Aligned_cols=50 Identities=22% Similarity=0.541 Sum_probs=35.6
Q ss_pred ccccccccccc-CCCCceEee--cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 31 LTCGTCLCMYD-GGEHTPKLL--PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 31 l~C~iC~~~~~-~~~~~p~~l--~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
-.|.||.+... ..+-+|.+. .||--.|+.|.+ +-.. .++..||.|+..+.
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~----eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERK----DGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhh----cCCccCCccCCchh
Confidence 47999999865 233345544 588889999994 3333 35678999997766
No 133
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=68.06 E-value=4.1 Score=24.86 Aligned_cols=14 Identities=29% Similarity=0.546 Sum_probs=12.3
Q ss_pred hhHHHhHHHHHHhc
Q psy11857 55 TVCLHCLSRIAASQ 68 (129)
Q Consensus 55 ~fC~~Cl~~~~~~~ 68 (129)
.||+.|+..|+...
T Consensus 42 gFCRNCLs~Wy~ea 55 (104)
T COG3492 42 GFCRNCLSNWYREA 55 (104)
T ss_pred HHHHHHHHHHHHHH
Confidence 59999999999873
No 134
>KOG3799|consensus
Probab=67.52 E-value=4 Score=26.84 Aligned_cols=48 Identities=29% Similarity=0.526 Sum_probs=25.3
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccC------CCCccccccCCcc
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTR------ETGTLRCPICREQ 83 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~------~~~~~~CP~Cr~~ 83 (129)
.++..|.||+..-. .--|||. |..|-.+.-..-++ +...+.|-.|++.
T Consensus 63 ~ddatC~IC~KTKF-------ADG~GH~-C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 63 GDDATCGICHKTKF-------ADGCGHN-CSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred CcCcchhhhhhccc-------ccccCcc-cchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 34789999997531 2247883 55554433222110 1234566666643
No 135
>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=67.05 E-value=0.31 Score=25.96 Aligned_cols=46 Identities=22% Similarity=0.490 Sum_probs=25.9
Q ss_pred cccccccccCCCCceEee--cCCchhHHHhHHHHHHhccCCCCccccccCC
Q psy11857 33 CGTCLCMYDGGEHTPKLL--PCSHTVCLHCLSRIAASQTRETGTLRCPICR 81 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l--~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr 81 (129)
|.||..... ....+. .|+..|...|+.............+.||.|+
T Consensus 2 C~vC~~~~~---~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQSDD---DGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTSSCT---TSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CcCCCCcCC---CCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 777887331 233333 4777788888765443211112367888875
No 136
>PLN02195 cellulose synthase A
Probab=66.96 E-value=5.5 Score=34.30 Aligned_cols=51 Identities=22% Similarity=0.403 Sum_probs=36.3
Q ss_pred cccccccccccc-CCCCceEee--cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYD-GGEHTPKLL--PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~-~~~~~p~~l--~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.-.|.||.+... ..+-+|.+. .|+--.|+.|.+ +-.. .+...||.|+..+.
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCye-yer~----eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLE-YEIK----EGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhh-hhhh----cCCccCCccCCccc
Confidence 347999999765 233355544 599999999994 3333 35678999998876
No 137
>KOG2231|consensus
Probab=66.73 E-value=4.6 Score=33.37 Aligned_cols=50 Identities=24% Similarity=0.636 Sum_probs=36.4
Q ss_pred ccccccccccCCCCceEeecCCc-hhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 32 TCGTCLCMYDGGEHTPKLLPCSH-TVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 32 ~C~iC~~~~~~~~~~p~~l~CgH-~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.|.||-.-+ .-+..-+||| ..|..|..+......+......||.|+..+.
T Consensus 2 ~c~ic~~s~----~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSP----DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCc----cccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 488998887 3555567999 8999999887666432233567899998554
No 138
>KOG1729|consensus
Probab=66.12 E-value=0.8 Score=33.89 Aligned_cols=57 Identities=21% Similarity=0.415 Sum_probs=36.0
Q ss_pred Cccccccccc-cccCCCCceEeecCCchhHHHhHHHHHHh-ccCCCCccccccCCccee
Q psy11857 29 SFLTCGTCLC-MYDGGEHTPKLLPCSHTVCLHCLSRIAAS-QTRETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~-~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~-~~~~~~~~~CP~Cr~~~~ 85 (129)
+...|.+|.. .|+...+.-.--.||++||..|-...+.- .-..+....|+.|-..+.
T Consensus 167 ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~ 225 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELE 225 (288)
T ss_pred cceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHh
Confidence 4678999999 66532233234479999999997763322 111234458999976654
No 139
>PLN02189 cellulose synthase
Probab=65.38 E-value=5.3 Score=34.62 Aligned_cols=50 Identities=22% Similarity=0.452 Sum_probs=34.8
Q ss_pred cccccccccccC-CCCceEee--cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 31 LTCGTCLCMYDG-GEHTPKLL--PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 31 l~C~iC~~~~~~-~~~~p~~l--~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
-.|.||.+.... .+-++.+. .|+--.|..|.+--.++ +...||.|+..+.
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~e-----g~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERRE-----GTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc-----CCccCcccCCchh
Confidence 489999998751 22344443 48888999999433332 5678999998776
No 140
>PLN02436 cellulose synthase A
Probab=65.20 E-value=5.3 Score=34.77 Aligned_cols=50 Identities=24% Similarity=0.575 Sum_probs=35.2
Q ss_pred ccccccccccc-CCCCceEee--cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 31 LTCGTCLCMYD-GGEHTPKLL--PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 31 l~C~iC~~~~~-~~~~~p~~l--~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
-.|.||.+... ..+-++.+. .|+--.|..|.+- -.. .....||.|+..+.
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyey-er~----eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEY-ERR----EGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhh-hhh----cCCccCcccCCchh
Confidence 47999999874 233345544 4888899999943 333 25678999998776
No 141
>PF15616 TerY-C: TerY-C metal binding domain
Probab=64.64 E-value=5.1 Score=26.17 Aligned_cols=43 Identities=21% Similarity=0.564 Sum_probs=32.1
Q ss_pred CccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
....||-|...+ .-.+-.||..||.. . .....||.|.+.....
T Consensus 76 g~PgCP~CGn~~-----~fa~C~CGkl~Ci~-------g----~~~~~CPwCg~~g~~~ 118 (131)
T PF15616_consen 76 GAPGCPHCGNQY-----AFAVCGCGKLFCID-------G----EGEVTCPWCGNEGSFG 118 (131)
T ss_pred CCCCCCCCcChh-----cEEEecCCCEEEeC-------C----CCCEECCCCCCeeeec
Confidence 358899999987 23344899999963 1 3578999999887754
No 142
>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=63.57 E-value=3.9 Score=26.02 Aligned_cols=50 Identities=20% Similarity=0.412 Sum_probs=30.7
Q ss_pred CccccccccccccCCC-CceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcc
Q psy11857 29 SFLTCGTCLCMYDGGE-HTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQ 83 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~-~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~ 83 (129)
..-.|.+|...|.-.. ...+-..|+|.+|..|-.. . .....+.|.+|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~---~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--S---KKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--T---SSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc--C---CCCCCEEChhhHHH
Confidence 3578999998764211 2333446999999999643 1 11357789888654
No 143
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=62.20 E-value=6.7 Score=34.07 Aligned_cols=51 Identities=25% Similarity=0.531 Sum_probs=36.0
Q ss_pred cccccccccccc-CCCCceEee--cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYD-GGEHTPKLL--PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~-~~~~~p~~l--~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.-.|.||.+... ..+-+|.+. .|+--.|..|.. +-.. .+...||.|+..+.
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cye-ye~~----~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYE-YERS----EGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhh-hhhh----cCCccCCccCCchh
Confidence 457999999865 233345544 588889999994 3333 35678999998776
No 144
>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 COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=60.27 E-value=13 Score=31.65 Aligned_cols=77 Identities=23% Similarity=0.433 Sum_probs=50.4
Q ss_pred cccCccccccccccccCCCCceEeecCCch-----hHHHhHHHHHHhccCCCCccccccCCcceeeCC----CCCCCCCh
Q psy11857 26 FNESFLTCGTCLCMYDGGEHTPKLLPCSHT-----VCLHCLSRIAASQTRETGTLRCPICREQITIPR----GGVAALPP 96 (129)
Q Consensus 26 ~~~~~l~C~iC~~~~~~~~~~p~~l~CgH~-----fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~~----~~~~~~~~ 96 (129)
+.++...|.||.-.=. ..+|..-||..+ ..++|+..|... +....|-.|+.++..+. +-.+.+|-
T Consensus 8 mN~d~~~CRICr~e~~--~d~pLfhPCKC~GSIkYiH~eCL~eW~~~----s~~~kCdiChy~~~Fk~IY~e~mP~~IPf 81 (1175)
T COG5183 8 MNEDKRSCRICRTEDI--RDDPLFHPCKCSGSIKYIHRECLMEWMEC----SGTKKCDICHYEYKFKDIYKEDMPQIIPF 81 (1175)
T ss_pred CCccchhceeecCCCC--CCCcCcccccccchhHHHHHHHHHHHHhc----CCCcceeeecceeeeeeecccCCCcccce
Confidence 3445688999985432 146777787653 588999999997 56889999998877543 22344444
Q ss_pred hHHHHHHHHHHH
Q psy11857 97 SFLVNQLLDLMS 108 (129)
Q Consensus 97 n~~l~~l~~~~~ 108 (129)
...++.+..-..
T Consensus 82 siL~rk~a~t~~ 93 (1175)
T COG5183 82 SILIRKVADTGW 93 (1175)
T ss_pred ehhHHHHHHHHH
Confidence 455555444443
No 146
>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=60.20 E-value=0.98 Score=21.79 Aligned_cols=11 Identities=36% Similarity=0.878 Sum_probs=5.6
Q ss_pred CccccccCCcc
Q psy11857 73 GTLRCPICREQ 83 (129)
Q Consensus 73 ~~~~CP~Cr~~ 83 (129)
....||.|+..
T Consensus 20 ~~r~C~~Cg~~ 30 (32)
T PF09297_consen 20 WARRCPSCGHE 30 (32)
T ss_dssp S-EEESSSS-E
T ss_pred CEeECCCCcCE
Confidence 45667777643
No 147
>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=59.79 E-value=4.9 Score=26.09 Aligned_cols=11 Identities=9% Similarity=0.099 Sum_probs=6.9
Q ss_pred ccccccccccc
Q psy11857 30 FLTCGTCLCMY 40 (129)
Q Consensus 30 ~l~C~iC~~~~ 40 (129)
...||-|...|
T Consensus 9 Kr~Cp~cg~kF 19 (129)
T TIGR02300 9 KRICPNTGSKF 19 (129)
T ss_pred cccCCCcCccc
Confidence 35677776665
No 148
>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=59.31 E-value=14 Score=19.90 Aligned_cols=10 Identities=30% Similarity=1.105 Sum_probs=5.3
Q ss_pred ccccCCccee
Q psy11857 76 RCPICREQIT 85 (129)
Q Consensus 76 ~CP~Cr~~~~ 85 (129)
.||+|+..+.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 8999998765
No 149
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=58.30 E-value=5.1 Score=19.64 Aligned_cols=10 Identities=20% Similarity=0.537 Sum_probs=7.2
Q ss_pred cccccccccc
Q psy11857 31 LTCGTCLCMY 40 (129)
Q Consensus 31 l~C~iC~~~~ 40 (129)
..|.+|..++
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 4677787776
No 150
>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=57.38 E-value=1.4 Score=32.49 Aligned_cols=44 Identities=18% Similarity=0.273 Sum_probs=16.5
Q ss_pred CccccccccccccCCCCceEeecC---C--chhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPC---S--HTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~C---g--H~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
..-.||+|...-. -.++..= | |-+|.-|-..|-.. ...||.|..
T Consensus 171 ~~g~CPvCGs~P~----~s~l~~~~~~G~R~L~Cs~C~t~W~~~------R~~Cp~Cg~ 219 (290)
T PF04216_consen 171 QRGYCPVCGSPPV----LSVLRGGEREGKRYLHCSLCGTEWRFV------RIKCPYCGN 219 (290)
T ss_dssp T-SS-TTT---EE----EEEEE------EEEEEETTT--EEE--------TTS-TTT--
T ss_pred cCCcCCCCCCcCc----eEEEecCCCCccEEEEcCCCCCeeeec------CCCCcCCCC
Confidence 3578999998652 2222221 2 33566777666443 446777754
No 151
>KOG1819|consensus
Probab=56.60 E-value=2.6 Score=33.76 Aligned_cols=34 Identities=15% Similarity=0.344 Sum_probs=21.4
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSR 63 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~ 63 (129)
--.|-.|.-.|+--.+.-.--.||-.||..|-..
T Consensus 901 a~~cmacq~pf~afrrrhhcrncggifcg~cs~a 934 (990)
T KOG1819|consen 901 AEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSCA 934 (990)
T ss_pred chhhhhccCcHHHHHHhhhhcccCceeecccccC
Confidence 4567788877742112222347999999998644
No 152
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=56.29 E-value=5.8 Score=28.70 Aligned_cols=26 Identities=15% Similarity=0.216 Sum_probs=16.3
Q ss_pred ccccccccccccCCCCceEeecCCchh
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTV 56 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~f 56 (129)
.+.||+|...+... .....-+.||+|
T Consensus 2 ~~~CP~C~~~l~~~-~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLE-ENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcC-CCEEEcCCCCCC
Confidence 37899999998521 122233567776
No 153
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=54.82 E-value=2.6 Score=23.14 Aligned_cols=35 Identities=14% Similarity=0.308 Sum_probs=21.9
Q ss_pred ccccc--cccccccCC---CCceEee-cCCchhHHHhHHHH
Q psy11857 30 FLTCG--TCLCMYDGG---EHTPKLL-PCSHTVCLHCLSRI 64 (129)
Q Consensus 30 ~l~C~--iC~~~~~~~---~~~p~~l-~CgH~fC~~Cl~~~ 64 (129)
..-|| -|...+... ....+.- .||+.||..|...|
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 34588 787665432 1223344 48999999997655
No 154
>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=54.14 E-value=8.8 Score=19.04 Aligned_cols=30 Identities=20% Similarity=0.525 Sum_probs=14.5
Q ss_pred hHHHhHHHHHHhccC--CCCccccccCCccee
Q psy11857 56 VCLHCLSRIAASQTR--ETGTLRCPICREQIT 85 (129)
Q Consensus 56 fC~~Cl~~~~~~~~~--~~~~~~CP~Cr~~~~ 85 (129)
+|..|+..+...... ....+.|+.|+-.+.
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 477777776544221 124578999976554
No 155
>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=53.32 E-value=5.7 Score=18.22 Aligned_cols=10 Identities=20% Similarity=0.663 Sum_probs=8.1
Q ss_pred cccccccccc
Q psy11857 31 LTCGTCLCMY 40 (129)
Q Consensus 31 l~C~iC~~~~ 40 (129)
..||||.+.+
T Consensus 2 v~CPiC~~~v 11 (26)
T smart00734 2 VQCPVCFREV 11 (26)
T ss_pred CcCCCCcCcc
Confidence 4699998876
No 156
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=52.86 E-value=6.6 Score=17.75 Aligned_cols=12 Identities=17% Similarity=0.667 Sum_probs=9.6
Q ss_pred cccccccccccc
Q psy11857 30 FLTCGTCLCMYD 41 (129)
Q Consensus 30 ~l~C~iC~~~~~ 41 (129)
...|++|...|+
T Consensus 2 l~~C~~CgR~F~ 13 (25)
T PF13913_consen 2 LVPCPICGRKFN 13 (25)
T ss_pred CCcCCCCCCEEC
Confidence 367999999883
No 157
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=52.56 E-value=13 Score=17.34 Aligned_cols=15 Identities=27% Similarity=0.895 Sum_probs=7.7
Q ss_pred ccccCCcceeeCCCC
Q psy11857 76 RCPICREQITIPRGG 90 (129)
Q Consensus 76 ~CP~Cr~~~~~~~~~ 90 (129)
.||.|...+....+.
T Consensus 1 ~CP~C~s~l~~~~~e 15 (28)
T PF03119_consen 1 TCPVCGSKLVREEGE 15 (28)
T ss_dssp B-TTT--BEEE-CCT
T ss_pred CcCCCCCEeEcCCCC
Confidence 499999888755443
No 158
>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=49.02 E-value=9 Score=23.38 Aligned_cols=37 Identities=24% Similarity=0.577 Sum_probs=26.9
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.-.|.||.... +.+ ||.||..|.- ..-.|.+|++.+.
T Consensus 44 ~~~C~~CK~~v----~q~-----g~~YCq~CAY----------kkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKV----HQP-----GAKYCQTCAY----------KKGICAMCGKKIL 80 (90)
T ss_pred Ccccccccccc----ccC-----CCccChhhhc----------ccCcccccCCeec
Confidence 34788888766 332 7889999952 2348999998874
No 159
>KOG2789|consensus
Probab=48.58 E-value=5.7 Score=30.78 Aligned_cols=33 Identities=30% Similarity=0.696 Sum_probs=25.4
Q ss_pred ccccccccccccCCCCceEee--cCCchhHHHhHHHHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLL--PCSHTVCLHCLSRIAA 66 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l--~CgH~fC~~Cl~~~~~ 66 (129)
...||||+-+| -....+ -|.-++|..|+.++..
T Consensus 74 ~~ecpicflyy----ps~~n~~rcC~~~Ic~ecf~~~~~ 108 (482)
T KOG2789|consen 74 KTECPICFLYY----PSAKNLVRCCSETICGECFAPFGC 108 (482)
T ss_pred cccCceeeeec----ccccchhhhhccchhhhheecccC
Confidence 46899999988 344444 4999999999987543
No 160
>PLN02400 cellulose synthase
Probab=48.20 E-value=11 Score=32.91 Aligned_cols=50 Identities=22% Similarity=0.475 Sum_probs=35.5
Q ss_pred ccccccccccc-CCCCceEee--cCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 31 LTCGTCLCMYD-GGEHTPKLL--PCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 31 l~C~iC~~~~~-~~~~~p~~l--~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
-.|.||.+... ..+-+|.+. .|+--.|+.|.+ +-.. .+.-.||.|+..+.
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YERk----eGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YERK----DGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhh-eecc----cCCccCcccCCccc
Confidence 37999999865 233355554 588889999984 3222 35678999998776
No 161
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=47.42 E-value=9.7 Score=24.88 Aligned_cols=15 Identities=13% Similarity=0.082 Sum_probs=10.6
Q ss_pred CceEeecCCchhHHH
Q psy11857 45 HTPKLLPCSHTVCLH 59 (129)
Q Consensus 45 ~~p~~l~CgH~fC~~ 59 (129)
..-+.-.|||+||..
T Consensus 68 ~rv~rcecghsf~d~ 82 (165)
T COG4647 68 KRVIRCECGHSFGDY 82 (165)
T ss_pred ccEEEEeccccccCh
Confidence 444455799999974
No 162
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=46.40 E-value=12 Score=17.95 Aligned_cols=10 Identities=30% Similarity=0.647 Sum_probs=2.3
Q ss_pred cccccccccc
Q psy11857 31 LTCGTCLCMY 40 (129)
Q Consensus 31 l~C~iC~~~~ 40 (129)
-.||.|...+
T Consensus 3 p~Cp~C~se~ 12 (30)
T PF08274_consen 3 PKCPLCGSEY 12 (30)
T ss_dssp ---TTT----
T ss_pred CCCCCCCCcc
Confidence 3577777766
No 163
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=46.21 E-value=41 Score=28.29 Aligned_cols=53 Identities=17% Similarity=0.374 Sum_probs=29.6
Q ss_pred HHHhHHHHHHhccC--CCCccccccCCcceeeCCC-CCCCCChhHHHHHHHHHHHh
Q psy11857 57 CLHCLSRIAASQTR--ETGTLRCPICREQITIPRG-GVAALPPSFLVNQLLDLMSR 109 (129)
Q Consensus 57 C~~Cl~~~~~~~~~--~~~~~~CP~Cr~~~~~~~~-~~~~~~~n~~l~~l~~~~~~ 109 (129)
|..|...+.....+ ......||.|+-.+.+... +......+..+....+.++.
T Consensus 154 C~~C~~EY~dP~nRRfHAQp~aCp~CGP~~~l~~~~g~~~~~~~~ai~~a~klL~~ 209 (750)
T COG0068 154 CPFCDKEYKDPLNRRFHAQPIACPKCGPHLFLVNHDGEAIAEANEAIRKAAKLLKV 209 (750)
T ss_pred CHHHHHHhcCccccccccccccCcccCCCeEEEcCCCcchhhhhHHHHHHHHHHhh
Confidence 99998876544221 2346899999987776531 21111223345555555443
No 164
>KOG3726|consensus
Probab=44.74 E-value=14 Score=30.69 Aligned_cols=44 Identities=20% Similarity=0.407 Sum_probs=31.8
Q ss_pred cccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcc
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQ 83 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~ 83 (129)
-.|-+|+..-+....-+.++.|+-.||..|...... .||.|.-.
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~~~---------~~~vC~~~ 698 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACSLDYAS---------ISEVCGPD 698 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhhhhhhc---------cCcccCch
Confidence 468889876653334677889999999999765422 58999644
No 165
>KOG1074|consensus
Probab=44.09 E-value=19 Score=30.71 Aligned_cols=44 Identities=23% Similarity=0.431 Sum_probs=29.6
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
-+-..|=||+.++ -|..-|.-+++.+.+ ...|+|-+|.+.+..+
T Consensus 603 TdPNqCiiC~rVl---------------SC~saLqmHyrtHtG-ERPFkCKiCgRAFtTk 646 (958)
T KOG1074|consen 603 TDPNQCIICLRVL---------------SCPSALQMHYRTHTG-ERPFKCKICGRAFTTK 646 (958)
T ss_pred CCccceeeeeecc---------------cchhhhhhhhhcccC-cCccccccccchhccc
Confidence 3467899999877 256666666665442 4577888888777644
No 166
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=42.93 E-value=13 Score=18.76 Aligned_cols=12 Identities=17% Similarity=0.268 Sum_probs=7.2
Q ss_pred eEeec-CCchhHH
Q psy11857 47 PKLLP-CSHTVCL 58 (129)
Q Consensus 47 p~~l~-CgH~fC~ 58 (129)
|..=. |+..||.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 54445 6666665
No 167
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=42.91 E-value=12 Score=20.82 Aligned_cols=12 Identities=33% Similarity=1.118 Sum_probs=6.9
Q ss_pred cccccCCcceee
Q psy11857 75 LRCPICREQITI 86 (129)
Q Consensus 75 ~~CP~Cr~~~~~ 86 (129)
..||.|++.+..
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 579999999886
No 168
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=42.47 E-value=14 Score=16.59 Aligned_cols=12 Identities=25% Similarity=0.916 Sum_probs=9.7
Q ss_pred CccccccCCcce
Q psy11857 73 GTLRCPICREQI 84 (129)
Q Consensus 73 ~~~~CP~Cr~~~ 84 (129)
..+.||.|.+.+
T Consensus 13 k~~~C~~C~k~F 24 (26)
T PF13465_consen 13 KPYKCPYCGKSF 24 (26)
T ss_dssp SSEEESSSSEEE
T ss_pred CCCCCCCCcCee
Confidence 568999998765
No 169
>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=42.41 E-value=4.2 Score=30.41 Aligned_cols=43 Identities=16% Similarity=0.319 Sum_probs=23.7
Q ss_pred ccccccccccccCCCCceEee----cCC--chhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLL----PCS--HTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l----~Cg--H~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
.-.||+|...-. ..++. .=| +-+|.-|-..|-.. ...||.|..
T Consensus 184 ~~~CPvCGs~P~----~s~~~~~~~~~G~RyL~CslC~teW~~~------R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPV----ASMVRQGGKETGLRYLSCSLCATEWHYV------RVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhh----hhhhcccCCCCCceEEEcCCCCCccccc------CccCCCCCC
Confidence 458999997641 11111 112 23466676666443 457888764
No 170
>KOG2462|consensus
Probab=42.08 E-value=24 Score=26.05 Aligned_cols=57 Identities=25% Similarity=0.546 Sum_probs=34.0
Q ss_pred CccccccccccccC----CCC-ceEeecCCchhHHHhHHH-HHHhc-cC---CCCccccccCCccee
Q psy11857 29 SFLTCGTCLCMYDG----GEH-TPKLLPCSHTVCLHCLSR-IAASQ-TR---ETGTLRCPICREQIT 85 (129)
Q Consensus 29 ~~l~C~iC~~~~~~----~~~-~p~~l~CgH~fC~~Cl~~-~~~~~-~~---~~~~~~CP~Cr~~~~ 85 (129)
....|++|...|.. ... .--.|+|.-.+|.+=+.+ |+-+. .+ +...|.||.|++.+.
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFA 226 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFA 226 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhc
Confidence 35789999887762 001 112457777777776654 44331 00 135789999988765
No 171
>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=42.04 E-value=10 Score=16.14 Aligned_cols=11 Identities=36% Similarity=1.216 Sum_probs=8.5
Q ss_pred cccccCCccee
Q psy11857 75 LRCPICREQIT 85 (129)
Q Consensus 75 ~~CP~Cr~~~~ 85 (129)
+.||.|.+.+.
T Consensus 1 y~C~~C~~~f~ 11 (23)
T PF00096_consen 1 YKCPICGKSFS 11 (23)
T ss_dssp EEETTTTEEES
T ss_pred CCCCCCCCccC
Confidence 36999988765
No 172
>KOG2113|consensus
Probab=41.78 E-value=15 Score=27.79 Aligned_cols=43 Identities=7% Similarity=-0.159 Sum_probs=31.6
Q ss_pred ccccccccccccCCCCceEeecCCch-hHHHhHHHHHHhccCCCCccccccCCcce
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHT-VCLHCLSRIAASQTRETGTLRCPICREQI 84 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~-fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~ 84 (129)
.+.|-.|..-+ -.-+..+|+|. ||..|.... -...||.|....
T Consensus 343 ~~~~~~~~~~~----~st~~~~~~~n~~~~~~a~~s--------~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 343 SLKGTSAGFGL----LSTIWSGGNMNLSPGSLASAS--------ASPTSSTCDHND 386 (394)
T ss_pred hcccccccCce----eeeEeecCCcccChhhhhhcc--------cCCccccccccc
Confidence 67888898766 45556689997 899998732 245899997654
No 173
>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=41.20 E-value=24 Score=23.83 Aligned_cols=14 Identities=14% Similarity=0.489 Sum_probs=9.7
Q ss_pred CchhHHHhHHHHHH
Q psy11857 53 SHTVCLHCLSRIAA 66 (129)
Q Consensus 53 gH~fC~~Cl~~~~~ 66 (129)
.+.||.+|=.+.+.
T Consensus 27 ~~~fC~kCG~~tI~ 40 (158)
T PF10083_consen 27 REKFCSKCGAKTIT 40 (158)
T ss_pred HHHHHHHhhHHHHH
Confidence 35688888776554
No 174
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=40.99 E-value=2 Score=19.20 Aligned_cols=7 Identities=43% Similarity=1.118 Sum_probs=3.1
Q ss_pred ccccCCc
Q psy11857 76 RCPICRE 82 (129)
Q Consensus 76 ~CP~Cr~ 82 (129)
.||.|+.
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 3444443
No 175
>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=40.79 E-value=20 Score=19.38 Aligned_cols=25 Identities=24% Similarity=0.697 Sum_probs=12.4
Q ss_pred cCCchhHHHhHHHHHHhccCCCCccccccCC
Q psy11857 51 PCSHTVCLHCLSRIAASQTRETGTLRCPICR 81 (129)
Q Consensus 51 ~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr 81 (129)
.|++.||..|=. +.. .....||-|.
T Consensus 26 ~C~~~FC~dCD~--fiH----E~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDV--FIH----ETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHH--TTT----TTS-SSSTT-
T ss_pred CCCCccccCcCh--hhh----ccccCCcCCC
Confidence 499999999942 111 1355788873
No 176
>PRK10220 hypothetical protein; Provisional
Probab=40.57 E-value=19 Score=22.81 Aligned_cols=11 Identities=27% Similarity=0.661 Sum_probs=8.4
Q ss_pred ccccccccccc
Q psy11857 31 LTCGTCLCMYD 41 (129)
Q Consensus 31 l~C~iC~~~~~ 41 (129)
..||.|...|.
T Consensus 4 P~CP~C~seyt 14 (111)
T PRK10220 4 PHCPKCNSEYT 14 (111)
T ss_pred CcCCCCCCcce
Confidence 56888888775
No 177
>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=40.37 E-value=13 Score=15.51 Aligned_cols=11 Identities=36% Similarity=1.189 Sum_probs=6.5
Q ss_pred cccccCCccee
Q psy11857 75 LRCPICREQIT 85 (129)
Q Consensus 75 ~~CP~Cr~~~~ 85 (129)
+.|+.|...+.
T Consensus 1 ~~C~~C~~~~~ 11 (24)
T PF13894_consen 1 FQCPICGKSFR 11 (24)
T ss_dssp EE-SSTS-EES
T ss_pred CCCcCCCCcCC
Confidence 36999987765
No 178
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=40.18 E-value=42 Score=18.78 Aligned_cols=18 Identities=28% Similarity=0.844 Sum_probs=12.6
Q ss_pred HHHhHHHHHHhccCCCCccccccCCc
Q psy11857 57 CLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 57 C~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
|.+|-.+ ++...||.|..
T Consensus 39 C~~CRk~--------~~~Y~CP~CGF 56 (59)
T PRK14890 39 CEKCRKQ--------SNPYTCPKCGF 56 (59)
T ss_pred chhHHhc--------CCceECCCCCC
Confidence 6777542 46789999964
No 179
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=40.18 E-value=17 Score=17.99 Aligned_cols=13 Identities=31% Similarity=1.147 Sum_probs=10.7
Q ss_pred cccccCCcceeeC
Q psy11857 75 LRCPICREQITIP 87 (129)
Q Consensus 75 ~~CP~Cr~~~~~~ 87 (129)
+.||.|...+.++
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 5799999988754
No 180
>PF12773 DZR: Double zinc ribbon
Probab=39.85 E-value=12 Score=19.62 Aligned_cols=13 Identities=23% Similarity=0.560 Sum_probs=9.0
Q ss_pred CccccccCCccee
Q psy11857 73 GTLRCPICREQIT 85 (129)
Q Consensus 73 ~~~~CP~Cr~~~~ 85 (129)
....||.|...+.
T Consensus 28 ~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 28 SKKICPNCGAENP 40 (50)
T ss_pred CCCCCcCCcCCCc
Confidence 4567888887643
No 181
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=39.52 E-value=16 Score=23.02 Aligned_cols=11 Identities=27% Similarity=0.673 Sum_probs=8.2
Q ss_pred ccccccccccc
Q psy11857 31 LTCGTCLCMYD 41 (129)
Q Consensus 31 l~C~iC~~~~~ 41 (129)
..||-|...|.
T Consensus 3 p~CP~C~seyt 13 (109)
T TIGR00686 3 PPCPKCNSEYT 13 (109)
T ss_pred CcCCcCCCcce
Confidence 46888888775
No 182
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=38.91 E-value=25 Score=18.64 Aligned_cols=35 Identities=11% Similarity=0.330 Sum_probs=25.0
Q ss_pred cccCccccccccccccCCCCceEeecCCchhHHHhHHH
Q psy11857 26 FNESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSR 63 (129)
Q Consensus 26 ~~~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~ 63 (129)
...+=+.|..|...+.. ......=|..||..|..+
T Consensus 22 ~H~~Cf~C~~C~~~l~~---~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 22 WHPECFKCSKCGKPLND---GDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp EETTTSBETTTTCBTTT---SSEEEETTEEEEHHHHHH
T ss_pred EEccccccCCCCCccCC---CeeEeECCEEECHHHHhh
Confidence 34567999999999853 224555678899988765
No 183
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=38.75 E-value=7.4 Score=20.54 Aligned_cols=12 Identities=17% Similarity=0.423 Sum_probs=8.8
Q ss_pred ccccccCCccee
Q psy11857 74 TLRCPICREQIT 85 (129)
Q Consensus 74 ~~~CP~Cr~~~~ 85 (129)
.+.||.|+....
T Consensus 20 ~~vC~~Cg~~~~ 31 (52)
T smart00661 20 RFVCRKCGYEEP 31 (52)
T ss_pred EEECCcCCCeEE
Confidence 567888886655
No 184
>KOG0801|consensus
Probab=38.45 E-value=13 Score=25.36 Aligned_cols=27 Identities=26% Similarity=0.464 Sum_probs=15.0
Q ss_pred CccccccccccccCCCCceEeecCCchh
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKLLPCSHTV 56 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~l~CgH~f 56 (129)
+.-+|.||++.+..++... .|||.-+|
T Consensus 176 dkGECvICLEdL~~GdtIA-RLPCLCIY 202 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIA-RLPCLCIY 202 (205)
T ss_pred cCCcEEEEhhhccCCCcee-ccceEEEe
Confidence 4556777777775443332 45664443
No 185
>KOG0309|consensus
Probab=37.88 E-value=21 Score=30.26 Aligned_cols=42 Identities=19% Similarity=0.408 Sum_probs=30.0
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCcccccc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPI 79 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~ 79 (129)
.+.|.+|.-...+ ..-+-..|||.....|...|+..+. .||.
T Consensus 1028 ~~~C~~C~l~V~g--ss~~Cg~C~Hv~H~sc~~eWf~~gd------~Cps 1069 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRG--SSNFCGTCGHVGHTSCMMEWFRTGD------VCPS 1069 (1081)
T ss_pred eeeeeeEeeEeec--cchhhccccccccHHHHHHHHhcCC------cCCC
Confidence 5678888876621 1122347999999999999999732 6775
No 186
>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=37.57 E-value=20 Score=16.25 Aligned_cols=11 Identities=27% Similarity=0.649 Sum_probs=8.1
Q ss_pred CCccccccCCc
Q psy11857 72 TGTLRCPICRE 82 (129)
Q Consensus 72 ~~~~~CP~Cr~ 82 (129)
+..+.||.|..
T Consensus 14 ~v~f~CPnCG~ 24 (24)
T PF07754_consen 14 AVPFPCPNCGF 24 (24)
T ss_pred CceEeCCCCCC
Confidence 45788998863
No 187
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.05 E-value=25 Score=19.80 Aligned_cols=15 Identities=27% Similarity=0.871 Sum_probs=12.0
Q ss_pred CCccccccCCcceee
Q psy11857 72 TGTLRCPICREQITI 86 (129)
Q Consensus 72 ~~~~~CP~Cr~~~~~ 86 (129)
.+...||.|.+.+.+
T Consensus 46 ~gev~CPYC~t~y~l 60 (62)
T COG4391 46 EGEVVCPYCSTRYRL 60 (62)
T ss_pred CCcEecCccccEEEe
Confidence 467899999987764
No 188
>KOG4718|consensus
Probab=36.81 E-value=28 Score=24.77 Aligned_cols=46 Identities=20% Similarity=0.444 Sum_probs=33.6
Q ss_pred ccccccccccccCCCCceE-eecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPK-LLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~-~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.-.|.+|..+. ..-+ --.||-.+...|+..++.. ...||.|+.-..
T Consensus 181 lk~Cn~Ch~Lv----Iqg~rCg~c~i~~h~~c~qty~q~------~~~cphc~d~w~ 227 (235)
T KOG4718|consen 181 LKNCNLCHCLV----IQGIRCGSCNIQYHRGCIQTYLQR------RDICPHCGDLWT 227 (235)
T ss_pred HHHHhHhHHHh----heeeccCcccchhhhHHHHHHhcc------cCcCCchhcccC
Confidence 45799999987 3333 2357777889999998876 458999976544
No 189
>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=36.76 E-value=23 Score=17.30 Aligned_cols=13 Identities=23% Similarity=0.948 Sum_probs=10.4
Q ss_pred cccccCCcceeeC
Q psy11857 75 LRCPICREQITIP 87 (129)
Q Consensus 75 ~~CP~Cr~~~~~~ 87 (129)
+.||.|.+.+..+
T Consensus 3 ~~CP~C~~~~~v~ 15 (38)
T TIGR02098 3 IQCPNCKTSFRVV 15 (38)
T ss_pred EECCCCCCEEEeC
Confidence 5799999988754
No 190
>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=36.75 E-value=21 Score=19.54 Aligned_cols=13 Identities=31% Similarity=0.925 Sum_probs=10.3
Q ss_pred cccccCCcceeeC
Q psy11857 75 LRCPICREQITIP 87 (129)
Q Consensus 75 ~~CP~Cr~~~~~~ 87 (129)
+.||.|...+.++
T Consensus 3 ~~CP~CG~~iev~ 15 (54)
T TIGR01206 3 FECPDCGAEIELE 15 (54)
T ss_pred cCCCCCCCEEecC
Confidence 5799999888754
No 191
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=36.19 E-value=12 Score=20.54 Aligned_cols=14 Identities=36% Similarity=0.804 Sum_probs=10.2
Q ss_pred CccccccCCcceee
Q psy11857 73 GTLRCPICREQITI 86 (129)
Q Consensus 73 ~~~~CP~Cr~~~~~ 86 (129)
-...||.|++.+-.
T Consensus 27 fPlyCpKCK~EtlI 40 (55)
T PF14205_consen 27 FPLYCPKCKQETLI 40 (55)
T ss_pred ccccCCCCCceEEE
Confidence 35689999887653
No 192
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=36.15 E-value=22 Score=25.49 Aligned_cols=25 Identities=24% Similarity=0.723 Sum_probs=19.7
Q ss_pred hHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 56 VCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 56 fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
-|.+|-.+.-++ ...||.|......
T Consensus 196 ~C~sC~qqIHRN------APiCPlCK~KsRS 220 (230)
T PF10146_consen 196 TCQSCHQQIHRN------APICPLCKAKSRS 220 (230)
T ss_pred hhHhHHHHHhcC------CCCCccccccccc
Confidence 489998887665 4589999988764
No 193
>KOG2979|consensus
Probab=36.13 E-value=19 Score=26.29 Aligned_cols=46 Identities=17% Similarity=0.202 Sum_probs=35.5
Q ss_pred ccccccccccccCCCCceEee-cCCchhHHHhHHHHHHhccCCCCccccccCCcc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLL-PCSHTVCLHCLSRIAASQTRETGTLRCPICREQ 83 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l-~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~ 83 (129)
++.||+=...+ ..|++- .|||.|=+.=+..+... .....||.=+..
T Consensus 176 s~rdPis~~~I----~nPviSkkC~HvydrDsI~~~l~~----~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPI----VNPVISKKCGHVYDRDSIMQILCD----EITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhh----hchhhhcCcCcchhhhhHHHHhcc----CceeecccccCC
Confidence 57899877777 688755 59999999988887776 357789985554
No 194
>KOG4218|consensus
Probab=35.94 E-value=27 Score=26.82 Aligned_cols=12 Identities=17% Similarity=0.071 Sum_probs=9.7
Q ss_pred cccccccccccc
Q psy11857 30 FLTCGTCLCMYD 41 (129)
Q Consensus 30 ~l~C~iC~~~~~ 41 (129)
.-.||+|.+..+
T Consensus 15 ~ElCPVCGDkVS 26 (475)
T KOG4218|consen 15 GELCPVCGDKVS 26 (475)
T ss_pred ccccccccCccc
Confidence 457999999874
No 195
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=35.87 E-value=18 Score=20.49 Aligned_cols=12 Identities=33% Similarity=1.043 Sum_probs=10.1
Q ss_pred ccccccCCccee
Q psy11857 74 TLRCPICREQIT 85 (129)
Q Consensus 74 ~~~CP~Cr~~~~ 85 (129)
...||.|++.+.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 568999999875
No 196
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=35.42 E-value=30 Score=18.00 Aligned_cols=16 Identities=25% Similarity=0.528 Sum_probs=11.5
Q ss_pred CCccccccCCcceeeC
Q psy11857 72 TGTLRCPICREQITIP 87 (129)
Q Consensus 72 ~~~~~CP~Cr~~~~~~ 87 (129)
...+.||.|+..+-.+
T Consensus 17 ~~~irC~~CG~rIlyK 32 (44)
T smart00659 17 KDVVRCRECGYRILYK 32 (44)
T ss_pred CCceECCCCCceEEEE
Confidence 3567899888777654
No 197
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=35.15 E-value=14 Score=18.30 Aligned_cols=13 Identities=31% Similarity=0.920 Sum_probs=10.8
Q ss_pred cccccCCcceeeC
Q psy11857 75 LRCPICREQITIP 87 (129)
Q Consensus 75 ~~CP~Cr~~~~~~ 87 (129)
+.||.|.+.+..+
T Consensus 3 i~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 3 ITCPNCQAKYEID 15 (36)
T ss_pred EECCCCCCEEeCC
Confidence 5899999988755
No 198
>PRK01343 zinc-binding protein; Provisional
Probab=34.34 E-value=24 Score=19.63 Aligned_cols=13 Identities=38% Similarity=0.677 Sum_probs=10.5
Q ss_pred CccccccCCccee
Q psy11857 73 GTLRCPICREQIT 85 (129)
Q Consensus 73 ~~~~CP~Cr~~~~ 85 (129)
....||.|++.+.
T Consensus 8 p~~~CP~C~k~~~ 20 (57)
T PRK01343 8 PTRPCPECGKPST 20 (57)
T ss_pred CCCcCCCCCCcCc
Confidence 4678999998765
No 199
>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=34.27 E-value=15 Score=26.77 Aligned_cols=31 Identities=26% Similarity=0.642 Sum_probs=18.1
Q ss_pred cCCchhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 51 PCSHTVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 51 ~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
-||| |-..++.....+.....||.||+....
T Consensus 159 ~Cgh-----C~~~Fl~~~~~~~tlARCPHCrKvSSV 189 (256)
T PF09788_consen 159 ICGH-----CSNTFLFNTLTSNTLARCPHCRKVSSV 189 (256)
T ss_pred ECCC-----CCCcEeccCCCCCccccCCCCceeccc
Confidence 4666 554544433221235689999987664
No 200
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=33.75 E-value=11 Score=23.46 Aligned_cols=29 Identities=24% Similarity=0.674 Sum_probs=18.5
Q ss_pred cCccccccccccccCCCCceEee--cCCchhHHHh
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLL--PCSHTVCLHC 60 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l--~CgH~fC~~C 60 (129)
.++|+|.-|+-+. +.-.+- .=|+.+|..|
T Consensus 68 ~DEFTCssCFLV~----HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 68 ADEFTCSSCFLVH----HRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCceeeeeeeeEe----chhhhccccCCCEecccc
Confidence 4689999999776 332222 2366777766
No 201
>PRK04023 DNA polymerase II large subunit; Validated
Probab=33.75 E-value=27 Score=30.53 Aligned_cols=47 Identities=17% Similarity=0.267 Sum_probs=30.7
Q ss_pred ccCccccccccccccCCCCceEeecCCc-----hhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 27 NESFLTCGTCLCMYDGGEHTPKLLPCSH-----TVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 27 ~~~~l~C~iC~~~~~~~~~~p~~l~CgH-----~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
......|+-|.... ....--.||. .||..|-.. .....||.|.....
T Consensus 623 EVg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~CG~~--------~~~y~CPKCG~El~ 674 (1121)
T PRK04023 623 EIGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRCGIE--------VEEDECEKCGREPT 674 (1121)
T ss_pred cccCccCCCCCCcC----CcccCCCCCCCCCcceeCccccCc--------CCCCcCCCCCCCCC
Confidence 33467899999875 2322224885 499999321 23457999998766
No 202
>KOG3842|consensus
Probab=33.25 E-value=28 Score=26.37 Aligned_cols=35 Identities=23% Similarity=0.511 Sum_probs=20.6
Q ss_pred ecCCchhHHHhHHHHHHhccC----CCCccccccCCccee
Q psy11857 50 LPCSHTVCLHCLSRIAASQTR----ETGTLRCPICREQIT 85 (129)
Q Consensus 50 l~CgH~fC~~Cl~~~~~~~~~----~~~~~~CP~Cr~~~~ 85 (129)
.||||. |.+=-..+|.+-+. ......||+|-..+.
T Consensus 376 ~PCGHv-~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 376 NPCGHV-CSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred CCcccc-cchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 489995 44444445554211 234568999977654
No 203
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=33.02 E-value=51 Score=17.68 Aligned_cols=30 Identities=17% Similarity=0.386 Sum_probs=19.1
Q ss_pred ccccccccccCCCCceEeecCCchhHHHhHHHH
Q psy11857 32 TCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRI 64 (129)
Q Consensus 32 ~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~ 64 (129)
.|+||.....- -..+-+.=| ..|..|+.+.
T Consensus 1 ~C~iCg~kigl--~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGL--FKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCcccccccc--ccceeccCc-cchHHHHHHh
Confidence 48899886521 123455666 6888888765
No 204
>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=32.39 E-value=9.6 Score=20.71 Aligned_cols=34 Identities=18% Similarity=0.488 Sum_probs=16.6
Q ss_pred ccccc--ccccccCCCCce---Eeec-CCchhHHHhHHHH
Q psy11857 31 LTCGT--CLCMYDGGEHTP---KLLP-CSHTVCLHCLSRI 64 (129)
Q Consensus 31 l~C~i--C~~~~~~~~~~p---~~l~-CgH~fC~~Cl~~~ 64 (129)
..||- |...+...+... +.=+ |++.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 47877 888775222221 2335 8888888886544
No 205
>KOG1609|consensus
Probab=32.14 E-value=46 Score=24.33 Aligned_cols=54 Identities=22% Similarity=0.397 Sum_probs=37.8
Q ss_pred ccccccccccccCCCCceEeecCCc-----hhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSH-----TVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH-----~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
...|-||..........+...||.- .....|+..|... .+...|..|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~----~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSI----KGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcc----ccCeeeecccccceec
Confidence 4679999986642111256677643 2478999999996 5688999998876643
No 206
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=31.49 E-value=9.6 Score=28.61 Aligned_cols=44 Identities=18% Similarity=0.360 Sum_probs=24.1
Q ss_pred CccccccccccccCCCCceEe-e--cCC--chhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 29 SFLTCGTCLCMYDGGEHTPKL-L--PCS--HTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 29 ~~l~C~iC~~~~~~~~~~p~~-l--~Cg--H~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
..-.||+|...-. ..++ + .=| +-+|.-|-..|--. ...||.|..
T Consensus 186 ~~~~CPvCGs~P~----~s~v~~~~~~G~RyL~CslC~teW~~~------R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPV----SSVVQIGTTQGLRYLHCNLCESEWHVV------RVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcch----hheeeccCCCCceEEEcCCCCCccccc------CccCCCCCC
Confidence 3578999998641 1111 1 112 22466676666443 456777764
No 207
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=31.15 E-value=8.6 Score=28.39 Aligned_cols=32 Identities=22% Similarity=0.410 Sum_probs=19.1
Q ss_pred CCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 52 CSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 52 CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
=.|.||..|-.+...... +....||.|+..+.
T Consensus 109 ~~~RFCg~CG~~~~~~~~--g~~~~C~~cg~~~f 140 (279)
T COG2816 109 RSHRFCGRCGTKTYPREG--GWARVCPKCGHEHF 140 (279)
T ss_pred hhCcCCCCCCCcCccccC--ceeeeCCCCCCccC
Confidence 356677777655443322 35667888876654
No 208
>PRK06386 replication factor A; Reviewed
Probab=30.97 E-value=29 Score=26.67 Aligned_cols=12 Identities=25% Similarity=0.811 Sum_probs=9.5
Q ss_pred ccccccCCccee
Q psy11857 74 TLRCPICREQIT 85 (129)
Q Consensus 74 ~~~CP~Cr~~~~ 85 (129)
...||.|++.+.
T Consensus 236 i~rCP~C~R~l~ 247 (358)
T PRK06386 236 FTKCSVCNKIIE 247 (358)
T ss_pred EecCcCCCeEcc
Confidence 468999998765
No 209
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=30.87 E-value=49 Score=18.46 Aligned_cols=28 Identities=21% Similarity=0.470 Sum_probs=19.6
Q ss_pred cccccccccccCCCCceEeecCCchhH-HHhHHHHHHhc
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLPCSHTVC-LHCLSRIAASQ 68 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~CgH~fC-~~Cl~~~~~~~ 68 (129)
-.|++|+... .| .-.|| ..|-..+...+
T Consensus 4 kHC~~CG~~I-----p~-----~~~fCS~~C~~~~~k~q 32 (59)
T PF09889_consen 4 KHCPVCGKPI-----PP-----DESFCSPKCREEYRKRQ 32 (59)
T ss_pred CcCCcCCCcC-----Cc-----chhhhCHHHHHHHHHHH
Confidence 4699998766 22 35688 47888877763
No 210
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=30.78 E-value=31 Score=17.84 Aligned_cols=23 Identities=22% Similarity=0.453 Sum_probs=12.3
Q ss_pred cccccccccCCCCceEeecCCchhHHH
Q psy11857 33 CGTCLCMYDGGEHTPKLLPCSHTVCLH 59 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l~CgH~fC~~ 59 (129)
|..|...- ..-+-|.|+|.+|..
T Consensus 2 C~~C~~~~----~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIE----NLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcC----CeEEecCCCCcccCC
Confidence 55555433 223455677777743
No 211
>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=30.42 E-value=30 Score=16.57 Aligned_cols=11 Identities=36% Similarity=0.954 Sum_probs=7.6
Q ss_pred ccccccccccc
Q psy11857 31 LTCGTCLCMYD 41 (129)
Q Consensus 31 l~C~iC~~~~~ 41 (129)
..|.+|.-+|+
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 35778887773
No 212
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.25 E-value=35 Score=22.26 Aligned_cols=8 Identities=25% Similarity=0.750 Sum_probs=4.5
Q ss_pred hhHHHhHH
Q psy11857 55 TVCLHCLS 62 (129)
Q Consensus 55 ~fC~~Cl~ 62 (129)
.||..|=.
T Consensus 29 afcskcge 36 (160)
T COG4306 29 AFCSKCGE 36 (160)
T ss_pred HHHhhhch
Confidence 46666644
No 213
>KOG3476|consensus
Probab=30.02 E-value=9.8 Score=23.01 Aligned_cols=37 Identities=24% Similarity=0.686 Sum_probs=27.6
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
...|-||.... +.| |..||..|.-+ ...|..|.+.+.
T Consensus 54 ~~kC~iCk~~v----HQ~-----GshYC~tCAY~----------KgiCAMCGKki~ 90 (100)
T KOG3476|consen 54 LAKCRICKQLV----HQP-----GSHYCQTCAYK----------KGICAMCGKKIL 90 (100)
T ss_pred cchhHHHHHHh----cCC-----cchhHhHhhhh----------hhHHHHhhhHhh
Confidence 46799999988 666 55699999632 347999988765
No 214
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=29.88 E-value=32 Score=24.27 Aligned_cols=14 Identities=21% Similarity=0.539 Sum_probs=11.6
Q ss_pred cCcccccccccccc
Q psy11857 28 ESFLTCGTCLCMYD 41 (129)
Q Consensus 28 ~~~l~C~iC~~~~~ 41 (129)
+....||+|...|.
T Consensus 3 ~k~~~CPvC~~~F~ 16 (214)
T PF09986_consen 3 DKKITCPVCGKEFK 16 (214)
T ss_pred CCceECCCCCCeee
Confidence 34789999999994
No 215
>KOG4451|consensus
Probab=29.85 E-value=31 Score=24.87 Aligned_cols=26 Identities=31% Similarity=0.811 Sum_probs=19.8
Q ss_pred hhHHHhHHHHHHhccCCCCccccccCCcceee
Q psy11857 55 TVCLHCLSRIAASQTRETGTLRCPICREQITI 86 (129)
Q Consensus 55 ~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~ 86 (129)
-.|..|-.+.-.+ ...||+|+.....
T Consensus 250 K~ClsChqqIHRN------APiCPlCKaKsRS 275 (286)
T KOG4451|consen 250 KVCLSCHQQIHRN------APICPLCKAKSRS 275 (286)
T ss_pred hHHHHHHHHHhcC------CCCCcchhhcccc
Confidence 3589998877665 5589999988764
No 216
>COG1773 Rubredoxin [Energy production and conversion]
Probab=29.56 E-value=43 Score=18.45 Aligned_cols=42 Identities=21% Similarity=0.374 Sum_probs=25.3
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccCCCCccccccCCc
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTRETGTLRCPICRE 82 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~ 82 (129)
..+|.+|.-+|+...-+|..--++-|- +..- .....||.|+.
T Consensus 3 ~~~C~~CG~vYd~e~Gdp~~gi~pgT~--------fedl---Pd~w~CP~Cg~ 44 (55)
T COG1773 3 RWRCSVCGYVYDPEKGDPRCGIAPGTP--------FEDL---PDDWVCPECGV 44 (55)
T ss_pred ceEecCCceEeccccCCccCCCCCCCc--------hhhC---CCccCCCCCCC
Confidence 468999999997544455433333321 1111 35789999975
No 217
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=29.05 E-value=44 Score=17.20 Aligned_cols=14 Identities=36% Similarity=0.861 Sum_probs=11.1
Q ss_pred ccccccCCcceeeC
Q psy11857 74 TLRCPICREQITIP 87 (129)
Q Consensus 74 ~~~CP~Cr~~~~~~ 87 (129)
.+.||.|+..+...
T Consensus 21 ~~~Cp~CG~~~~~~ 34 (46)
T PRK00398 21 GVRCPYCGYRILFK 34 (46)
T ss_pred ceECCCCCCeEEEc
Confidence 57899999877754
No 218
>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=28.85 E-value=22 Score=18.16 Aligned_cols=14 Identities=29% Similarity=0.690 Sum_probs=6.5
Q ss_pred ceEeec-CCchhHHH
Q psy11857 46 TPKLLP-CSHTVCLH 59 (129)
Q Consensus 46 ~p~~l~-CgH~fC~~ 59 (129)
.|+.=+ |+..||..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 455555 77777764
No 219
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=28.41 E-value=85 Score=22.83 Aligned_cols=48 Identities=21% Similarity=0.325 Sum_probs=33.2
Q ss_pred ccccccccccccCCCCceEee-cCCchhHHHhHHHHHHhccCCCCcccccc--CCccee
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLL-PCSHTVCLHCLSRIAASQTRETGTLRCPI--CREQIT 85 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l-~CgH~fC~~Cl~~~~~~~~~~~~~~~CP~--Cr~~~~ 85 (129)
+.+|||=...+ ..|++- .|.|-|=..=|...+.. .....||. |.+...
T Consensus 189 ~nrCpitl~p~----~~pils~kcnh~~e~D~I~~~lq~----~~trvcp~~~Csq~~~ 239 (275)
T COG5627 189 SNRCPITLNPD----FYPILSSKCNHKPEMDLINKKLQV----ECTRVCPRLICSQKEV 239 (275)
T ss_pred cccCCcccCcc----hhHHHHhhhcccccHHHHHHHhcC----Cceeecchhhcchhee
Confidence 68999977776 477655 49999988888776664 23556775 544433
No 220
>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=28.40 E-value=27 Score=23.00 Aligned_cols=25 Identities=20% Similarity=0.626 Sum_probs=19.0
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSR 63 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~ 63 (129)
...|+.|..+|. . . |..+|..|...
T Consensus 3 l~nC~~CgklF~----~----~-~~~iCp~C~~~ 27 (137)
T TIGR03826 3 LANCPKCGRLFV----K----T-GRDVCPSCYEE 27 (137)
T ss_pred Cccccccchhhh----h----c-CCccCHHHhHH
Confidence 457999999993 2 1 66789999864
No 221
>KOG1818|consensus
Probab=28.04 E-value=23 Score=29.21 Aligned_cols=57 Identities=18% Similarity=0.314 Sum_probs=37.9
Q ss_pred cCccccccccccccCCCCceEeecCCchhHHHhHHHHHHhccC--CCCccccccCCcce
Q psy11857 28 ESFLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQTR--ETGTLRCPICREQI 84 (129)
Q Consensus 28 ~~~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~~--~~~~~~CP~Cr~~~ 84 (129)
.+...|-.|.-.|....+.--...||-.||..|......-..- .....+|-.|-..+
T Consensus 163 ~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C~E~l 221 (634)
T KOG1818|consen 163 IDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSCYELL 221 (634)
T ss_pred ccccccceeeeeeeeccccccccccchhhccCccccccCcccccccccceehhhhHHHh
Confidence 3467899999888754455557789999999998765433110 12356788884433
No 222
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=27.99 E-value=5.2 Score=18.25 Aligned_cols=6 Identities=50% Similarity=1.309 Sum_probs=2.4
Q ss_pred ccccCC
Q psy11857 76 RCPICR 81 (129)
Q Consensus 76 ~CP~Cr 81 (129)
.||.|+
T Consensus 18 fC~~CG 23 (26)
T PF13248_consen 18 FCPNCG 23 (26)
T ss_pred cChhhC
Confidence 344443
No 223
>KOG2066|consensus
Probab=27.90 E-value=29 Score=29.41 Aligned_cols=38 Identities=16% Similarity=0.273 Sum_probs=26.5
Q ss_pred ccccccccccccCCC---CceEeecCCchhHHHhHHHHHHh
Q psy11857 30 FLTCGTCLCMYDGGE---HTPKLLPCSHTVCLHCLSRIAAS 67 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~---~~p~~l~CgH~fC~~Cl~~~~~~ 67 (129)
+-.|..|.+.....+ ..-+++.|||.|...|+......
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~ 824 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR 824 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh
Confidence 448999998764211 23346789999999999765554
No 224
>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=27.78 E-value=22 Score=15.71 Aligned_cols=11 Identities=18% Similarity=0.688 Sum_probs=8.8
Q ss_pred ccccccccccc
Q psy11857 31 LTCGTCLCMYD 41 (129)
Q Consensus 31 l~C~iC~~~~~ 41 (129)
+.|.+|...|.
T Consensus 2 ~~C~~C~~~F~ 12 (27)
T PF13912_consen 2 FECDECGKTFS 12 (27)
T ss_dssp EEETTTTEEES
T ss_pred CCCCccCCccC
Confidence 57889998883
No 225
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=27.77 E-value=67 Score=22.01 Aligned_cols=14 Identities=36% Similarity=0.759 Sum_probs=11.5
Q ss_pred CccccccCCcceee
Q psy11857 73 GTLRCPICREQITI 86 (129)
Q Consensus 73 ~~~~CP~Cr~~~~~ 86 (129)
..|.||.|+..+..
T Consensus 135 ~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 135 YGFRCPQCGEMLEE 148 (178)
T ss_pred cCCcCCCCCCCCee
Confidence 36899999998773
No 226
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.24 E-value=33 Score=21.82 Aligned_cols=26 Identities=8% Similarity=-0.044 Sum_probs=14.1
Q ss_pred cccccccccccCCCCceEeec-CCchh
Q psy11857 31 LTCGTCLCMYDGGEHTPKLLP-CSHTV 56 (129)
Q Consensus 31 l~C~iC~~~~~~~~~~p~~l~-CgH~f 56 (129)
..||-|...|-...++|++-| ||.+|
T Consensus 10 ridPetg~KFYDLNrdPiVsPytG~s~ 36 (129)
T COG4530 10 RIDPETGKKFYDLNRDPIVSPYTGKSY 36 (129)
T ss_pred ccCccccchhhccCCCccccCcccccc
Confidence 456666665543335555555 55555
No 227
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=27.20 E-value=21 Score=18.67 Aligned_cols=7 Identities=43% Similarity=0.842 Sum_probs=5.3
Q ss_pred ecCCchh
Q psy11857 50 LPCSHTV 56 (129)
Q Consensus 50 l~CgH~f 56 (129)
+.|||+|
T Consensus 31 ~~Cg~tf 37 (47)
T PF04606_consen 31 PECGHTF 37 (47)
T ss_pred CcCCCEE
Confidence 3599987
No 228
>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=27.03 E-value=24 Score=23.45 Aligned_cols=14 Identities=43% Similarity=1.054 Sum_probs=10.9
Q ss_pred CCccccccCCccee
Q psy11857 72 TGTLRCPICREQIT 85 (129)
Q Consensus 72 ~~~~~CP~Cr~~~~ 85 (129)
+..+.||.||..+.
T Consensus 7 Gpei~CPhCRQ~ip 20 (163)
T TIGR02652 7 GPEIRCPHCRQNIP 20 (163)
T ss_pred CCcCcCchhhcccc
Confidence 45789999998754
No 229
>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=26.49 E-value=13 Score=17.30 Aligned_cols=9 Identities=22% Similarity=0.663 Sum_probs=3.6
Q ss_pred ccccccccc
Q psy11857 32 TCGTCLCMY 40 (129)
Q Consensus 32 ~C~iC~~~~ 40 (129)
.|+.|...+
T Consensus 3 ~C~rC~~~~ 11 (30)
T PF06827_consen 3 KCPRCWNYI 11 (30)
T ss_dssp B-TTT--BB
T ss_pred cCccCCCcc
Confidence 466666665
No 230
>PRK00420 hypothetical protein; Validated
Probab=26.49 E-value=20 Score=22.75 Aligned_cols=14 Identities=21% Similarity=0.660 Sum_probs=10.5
Q ss_pred CccccccCCcceee
Q psy11857 73 GTLRCPICREQITI 86 (129)
Q Consensus 73 ~~~~CP~Cr~~~~~ 86 (129)
+...||.|+..+..
T Consensus 39 g~~~Cp~Cg~~~~v 52 (112)
T PRK00420 39 GEVVCPVHGKVYIV 52 (112)
T ss_pred CceECCCCCCeeee
Confidence 46689999887664
No 231
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=26.46 E-value=41 Score=18.22 Aligned_cols=12 Identities=50% Similarity=1.234 Sum_probs=9.3
Q ss_pred cccccCCcceee
Q psy11857 75 LRCPICREQITI 86 (129)
Q Consensus 75 ~~CP~Cr~~~~~ 86 (129)
+.||.|+..+..
T Consensus 1 i~CPyCge~~~~ 12 (52)
T PF14255_consen 1 IQCPYCGEPIEI 12 (52)
T ss_pred CCCCCCCCeeEE
Confidence 369999988764
No 232
>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=26.40 E-value=25 Score=23.29 Aligned_cols=14 Identities=36% Similarity=0.961 Sum_probs=10.8
Q ss_pred CCccccccCCccee
Q psy11857 72 TGTLRCPICREQIT 85 (129)
Q Consensus 72 ~~~~~CP~Cr~~~~ 85 (129)
+..+.||.||..+.
T Consensus 4 Gpei~CPhCRq~ip 17 (161)
T PF09654_consen 4 GPEIQCPHCRQTIP 17 (161)
T ss_pred CCcCcCchhhcccc
Confidence 45789999997654
No 233
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=26.30 E-value=72 Score=21.33 Aligned_cols=12 Identities=25% Similarity=0.869 Sum_probs=10.7
Q ss_pred ccccccCCccee
Q psy11857 74 TLRCPICREQIT 85 (129)
Q Consensus 74 ~~~CP~Cr~~~~ 85 (129)
.|.||.|+..+.
T Consensus 128 ~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 128 NFTCPRCGAMLD 139 (158)
T ss_pred CCcCCCCCCEee
Confidence 689999999876
No 234
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=26.16 E-value=27 Score=19.05 Aligned_cols=13 Identities=38% Similarity=0.861 Sum_probs=6.6
Q ss_pred CccccccCCccee
Q psy11857 73 GTLRCPICREQIT 85 (129)
Q Consensus 73 ~~~~CP~Cr~~~~ 85 (129)
...+||.|...+.
T Consensus 23 ~PatCP~C~a~~~ 35 (54)
T PF09237_consen 23 QPATCPICGAVIR 35 (54)
T ss_dssp --EE-TTT--EES
T ss_pred CCCCCCcchhhcc
Confidence 4679999998765
No 235
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.01 E-value=35 Score=19.44 Aligned_cols=14 Identities=29% Similarity=0.719 Sum_probs=11.4
Q ss_pred CccccccCCcceee
Q psy11857 73 GTLRCPICREQITI 86 (129)
Q Consensus 73 ~~~~CP~Cr~~~~~ 86 (129)
....||.|++.+..
T Consensus 6 ~~v~CP~Cgkpv~w 19 (65)
T COG3024 6 ITVPCPTCGKPVVW 19 (65)
T ss_pred ccccCCCCCCcccc
Confidence 35689999999875
No 236
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=24.83 E-value=27 Score=15.05 Aligned_cols=11 Identities=18% Similarity=0.637 Sum_probs=8.2
Q ss_pred ccccccccccc
Q psy11857 31 LTCGTCLCMYD 41 (129)
Q Consensus 31 l~C~iC~~~~~ 41 (129)
+.|.+|...|+
T Consensus 1 ~~C~~C~~~f~ 11 (25)
T PF12874_consen 1 FYCDICNKSFS 11 (25)
T ss_dssp EEETTTTEEES
T ss_pred CCCCCCCCCcC
Confidence 36889988883
No 237
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=24.74 E-value=21 Score=19.16 Aligned_cols=16 Identities=38% Similarity=0.910 Sum_probs=12.3
Q ss_pred CCccccccCCcceeeC
Q psy11857 72 TGTLRCPICREQITIP 87 (129)
Q Consensus 72 ~~~~~CP~Cr~~~~~~ 87 (129)
...+.||.|+..+-..
T Consensus 22 ~~~irCp~Cg~rIl~K 37 (49)
T COG1996 22 TRGIRCPYCGSRILVK 37 (49)
T ss_pred cCceeCCCCCcEEEEe
Confidence 3567899999887765
No 238
>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=24.71 E-value=64 Score=21.56 Aligned_cols=12 Identities=33% Similarity=1.099 Sum_probs=9.2
Q ss_pred CCccccccCCcc
Q psy11857 72 TGTLRCPICREQ 83 (129)
Q Consensus 72 ~~~~~CP~Cr~~ 83 (129)
.+.+.||+|+..
T Consensus 30 ~glv~CP~Cgs~ 41 (148)
T PF06676_consen 30 RGLVSCPVCGST 41 (148)
T ss_pred cCCccCCCCCCC
Confidence 357899999844
No 239
>KOG1842|consensus
Probab=24.22 E-value=25 Score=27.85 Aligned_cols=35 Identities=17% Similarity=0.394 Sum_probs=24.7
Q ss_pred ccccccccccccCCCCceEeecCCchhHHHhHHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRI 64 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~ 64 (129)
...||+|...|.-..+.-----||-.+|..|..-.
T Consensus 180 V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~i 214 (505)
T KOG1842|consen 180 VQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKFI 214 (505)
T ss_pred ccccccccchhhhHHHhhhhhhcchHHHHHHHHhc
Confidence 67899999999532222223359999999997653
No 240
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=24.18 E-value=25 Score=22.36 Aligned_cols=14 Identities=29% Similarity=0.650 Sum_probs=11.0
Q ss_pred ccccccCCcceeeC
Q psy11857 74 TLRCPICREQITIP 87 (129)
Q Consensus 74 ~~~CP~Cr~~~~~~ 87 (129)
.-.|+.|++++.++
T Consensus 85 ~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 85 VDACMHCKEPLTLD 98 (114)
T ss_pred hhccCcCCCcCccC
Confidence 44899999988754
No 241
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=23.71 E-value=46 Score=21.18 Aligned_cols=8 Identities=25% Similarity=0.542 Sum_probs=5.0
Q ss_pred cccccccc
Q psy11857 33 CGTCLCMY 40 (129)
Q Consensus 33 C~iC~~~~ 40 (129)
||+|...+
T Consensus 1 CPvCg~~l 8 (113)
T PF09862_consen 1 CPVCGGEL 8 (113)
T ss_pred CCCCCCce
Confidence 66666655
No 242
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=23.54 E-value=54 Score=16.20 Aligned_cols=11 Identities=18% Similarity=0.416 Sum_probs=8.3
Q ss_pred ccccccccccc
Q psy11857 30 FLTCGTCLCMY 40 (129)
Q Consensus 30 ~l~C~iC~~~~ 40 (129)
...|++|...+
T Consensus 8 ~~~C~~C~~~~ 18 (36)
T PF11781_consen 8 NEPCPVCGSRW 18 (36)
T ss_pred CCcCCCCCCeE
Confidence 45699999875
No 243
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=23.39 E-value=42 Score=18.17 Aligned_cols=15 Identities=20% Similarity=0.645 Sum_probs=11.1
Q ss_pred CccccccCCcceeeC
Q psy11857 73 GTLRCPICREQITIP 87 (129)
Q Consensus 73 ~~~~CP~Cr~~~~~~ 87 (129)
-.+.||-|+....+.
T Consensus 23 leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 23 LEIKCPRCKTINHVR 37 (51)
T ss_pred EEEECCCCCccceEe
Confidence 367999998765543
No 244
>KOG3475|consensus
Probab=23.12 E-value=53 Score=19.77 Aligned_cols=28 Identities=32% Similarity=0.541 Sum_probs=21.0
Q ss_pred CchhHHHhHHHHHHhccCCCCccccccCCccee
Q psy11857 53 SHTVCLHCLSRIAASQTRETGTLRCPICREQIT 85 (129)
Q Consensus 53 gH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~ 85 (129)
.|++|..|=.+.+..| ...|..|..+-.
T Consensus 15 shtlC~RCG~~syH~Q-----KstC~~CGYpaa 42 (92)
T KOG3475|consen 15 SHTLCRRCGRRSYHIQ-----KSTCSSCGYPAA 42 (92)
T ss_pred chHHHHHhCchhhhhh-----cccccccCCcch
Confidence 5899999988877663 457888875543
No 245
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=23.05 E-value=51 Score=15.42 Aligned_cols=8 Identities=25% Similarity=0.505 Sum_probs=5.0
Q ss_pred cccccccc
Q psy11857 33 CGTCLCMY 40 (129)
Q Consensus 33 C~iC~~~~ 40 (129)
|..|.+.+
T Consensus 2 C~~C~~~i 9 (39)
T smart00132 2 CAGCGKPI 9 (39)
T ss_pred ccccCCcc
Confidence 56666665
No 246
>KOG0314|consensus
Probab=23.03 E-value=33 Score=27.18 Aligned_cols=36 Identities=25% Similarity=0.470 Sum_probs=28.4
Q ss_pred cCccccccc-cccccCCCCceEee--cCCchhHHHhHHHHHHh
Q psy11857 28 ESFLTCGTC-LCMYDGGEHTPKLL--PCSHTVCLHCLSRIAAS 67 (129)
Q Consensus 28 ~~~l~C~iC-~~~~~~~~~~p~~l--~CgH~fC~~Cl~~~~~~ 67 (129)
.+.+.|++| .+.| .+..++ -|+.+||..|+.+.+..
T Consensus 217 ~e~~~c~~~~~~~~----~~~~l~~~~~~~~~~~~~i~~~l~~ 255 (448)
T KOG0314|consen 217 PEGLQCPLCGKEVM----LDAALLSKCCLKSFCDKCIRDALIS 255 (448)
T ss_pred CccccCceecchhh----HHHHHhhhhhcccCCcccccccccc
Confidence 457899999 6667 577777 39999999999877665
No 247
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=23.00 E-value=58 Score=15.88 Aligned_cols=13 Identities=23% Similarity=0.754 Sum_probs=9.3
Q ss_pred CccccccCCccee
Q psy11857 73 GTLRCPICREQIT 85 (129)
Q Consensus 73 ~~~~CP~Cr~~~~ 85 (129)
..+.||.|...+.
T Consensus 3 ~~~~C~nC~R~v~ 15 (33)
T PF08209_consen 3 PYVECPNCGRPVA 15 (33)
T ss_dssp -EEE-TTTSSEEE
T ss_pred CeEECCCCcCCcc
Confidence 4678999998876
No 248
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=22.92 E-value=60 Score=18.14 Aligned_cols=14 Identities=21% Similarity=0.244 Sum_probs=11.1
Q ss_pred cCcccccccccccc
Q psy11857 28 ESFLTCGTCLCMYD 41 (129)
Q Consensus 28 ~~~l~C~iC~~~~~ 41 (129)
++...||+|...+.
T Consensus 37 ~~~p~CPlC~s~M~ 50 (59)
T PF14169_consen 37 EEEPVCPLCKSPMV 50 (59)
T ss_pred CCCccCCCcCCccc
Confidence 34689999998884
No 249
>PRK11595 DNA utilization protein GntX; Provisional
Probab=22.61 E-value=48 Score=23.42 Aligned_cols=9 Identities=22% Similarity=0.404 Sum_probs=5.8
Q ss_pred ccccccccc
Q psy11857 32 TCGTCLCMY 40 (129)
Q Consensus 32 ~C~iC~~~~ 40 (129)
.|.+|...+
T Consensus 7 ~C~~C~~~~ 15 (227)
T PRK11595 7 LCWLCRMPL 15 (227)
T ss_pred cCccCCCcc
Confidence 477777655
No 250
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=22.40 E-value=53 Score=16.48 Aligned_cols=15 Identities=20% Similarity=0.463 Sum_probs=9.4
Q ss_pred CCccccccCCcceee
Q psy11857 72 TGTLRCPICREQITI 86 (129)
Q Consensus 72 ~~~~~CP~Cr~~~~~ 86 (129)
+..+.|++|.....+
T Consensus 22 ~~~w~C~~C~~~N~l 36 (40)
T PF04810_consen 22 GKTWICNFCGTKNPL 36 (40)
T ss_dssp TTEEEETTT--EEE-
T ss_pred CCEEECcCCCCcCCC
Confidence 468899999886553
No 251
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=22.22 E-value=49 Score=20.86 Aligned_cols=12 Identities=25% Similarity=0.672 Sum_probs=8.8
Q ss_pred cccccccccccc
Q psy11857 30 FLTCGTCLCMYD 41 (129)
Q Consensus 30 ~l~C~iC~~~~~ 41 (129)
...||.|...|.
T Consensus 3 lp~cp~c~sEyt 14 (112)
T COG2824 3 LPPCPKCNSEYT 14 (112)
T ss_pred CCCCCccCCceE
Confidence 356888988774
No 252
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.01 E-value=59 Score=21.38 Aligned_cols=15 Identities=40% Similarity=0.948 Sum_probs=12.1
Q ss_pred CccccccCCcceeeC
Q psy11857 73 GTLRCPICREQITIP 87 (129)
Q Consensus 73 ~~~~CP~Cr~~~~~~ 87 (129)
+.+.||.|+..+...
T Consensus 122 ~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 122 GTFTCPRCGEELEED 136 (147)
T ss_pred CcEECCCCCCEEEEc
Confidence 459999999998743
No 253
>KOG1356|consensus
Probab=21.99 E-value=18 Score=30.78 Aligned_cols=32 Identities=22% Similarity=0.482 Sum_probs=23.6
Q ss_pred ccccccccccccCCCCceE-ee-cCCchhHHHhHHHHH
Q psy11857 30 FLTCGTCLCMYDGGEHTPK-LL-PCSHTVCLHCLSRIA 65 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~-~l-~CgH~fC~~Cl~~~~ 65 (129)
.-.|..|.... ..-. +- .||+.+|..|+..|.
T Consensus 229 ~~mC~~C~~tl----fn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 229 REMCDRCETTL----FNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred chhhhhhcccc----cceeEEccccCCeeeecchhhcc
Confidence 45788998765 3222 23 599999999999985
No 254
>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=21.26 E-value=52 Score=15.87 Aligned_cols=13 Identities=38% Similarity=1.004 Sum_probs=7.2
Q ss_pred CccccccCCccee
Q psy11857 73 GTLRCPICREQIT 85 (129)
Q Consensus 73 ~~~~CP~Cr~~~~ 85 (129)
..+.||.|+..+-
T Consensus 16 ~~irC~~CG~RIl 28 (32)
T PF03604_consen 16 DPIRCPECGHRIL 28 (32)
T ss_dssp STSSBSSSS-SEE
T ss_pred CcEECCcCCCeEE
Confidence 4566777765543
No 255
>KOG3993|consensus
Probab=21.08 E-value=16 Score=28.71 Aligned_cols=39 Identities=26% Similarity=0.561 Sum_probs=23.4
Q ss_pred ccccccccccccCCCCceEeec---CCchhHHHhHHHHHHhccCCCCccccccCCcceeeC
Q psy11857 30 FLTCGTCLCMYDGGEHTPKLLP---CSHTVCLHCLSRIAASQTRETGTLRCPICREQITIP 87 (129)
Q Consensus 30 ~l~C~iC~~~~~~~~~~p~~l~---CgH~fC~~Cl~~~~~~~~~~~~~~~CP~Cr~~~~~~ 87 (129)
++.|.+|.+.| .++..|. |.-+ . .....||.|.+.+.-+
T Consensus 267 dyiCqLCK~kY----eD~F~LAQHrC~RI------V---------~vEYrCPEC~KVFsCP 308 (500)
T KOG3993|consen 267 DYICQLCKEKY----EDAFALAQHRCPRI------V---------HVEYRCPECDKVFSCP 308 (500)
T ss_pred HHHHHHHHHhh----hhHHHHhhccCCee------E---------EeeecCCcccccccCc
Confidence 56677777777 4665552 3211 0 1256899998887644
No 256
>PF12907 zf-met2: Zinc-binding
Probab=20.51 E-value=25 Score=17.99 Aligned_cols=10 Identities=20% Similarity=0.780 Sum_probs=7.2
Q ss_pred cccccccccc
Q psy11857 31 LTCGTCLCMY 40 (129)
Q Consensus 31 l~C~iC~~~~ 40 (129)
+.|.||...|
T Consensus 2 i~C~iC~qtF 11 (40)
T PF12907_consen 2 IICKICRQTF 11 (40)
T ss_pred cCcHHhhHHH
Confidence 4688888666
No 257
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=20.50 E-value=35 Score=19.88 Aligned_cols=7 Identities=43% Similarity=0.781 Sum_probs=5.4
Q ss_pred ecCCchh
Q psy11857 50 LPCSHTV 56 (129)
Q Consensus 50 l~CgH~f 56 (129)
+.|||+|
T Consensus 33 ~eCg~tF 39 (72)
T PRK09678 33 VNCSATF 39 (72)
T ss_pred CCCCCEE
Confidence 4699987
No 258
>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=20.43 E-value=43 Score=23.87 Aligned_cols=44 Identities=18% Similarity=0.364 Sum_probs=26.3
Q ss_pred cccccccccCCCCceEeecCCchhHHHhHHHHHHhcc--CCCCccccccCCccee
Q psy11857 33 CGTCLCMYDGGEHTPKLLPCSHTVCLHCLSRIAASQT--RETGTLRCPICREQIT 85 (129)
Q Consensus 33 C~iC~~~~~~~~~~p~~l~CgH~fC~~Cl~~~~~~~~--~~~~~~~CP~Cr~~~~ 85 (129)
|+.|.... +|..- .+|..|+.....-.. ..-....||.|++...
T Consensus 1 C~~CG~~~-----~~~~~----~lC~~C~~~~~~i~ei~~~i~v~~C~~Cg~~~~ 46 (236)
T PF04981_consen 1 CPRCGREI-----EPLID----GLCPDCYLKRFDIIEIPDRIEVTICPKCGRYRI 46 (236)
T ss_pred CCCCCCCC-----CCccc----ccChHHhcccCCeeecCCccCceECCCCCCEEC
Confidence 77787744 23211 488999876433211 1124678999987655
No 259
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=20.16 E-value=1.1e+02 Score=21.14 Aligned_cols=14 Identities=29% Similarity=0.705 Sum_probs=11.4
Q ss_pred ccccccCCcceeeC
Q psy11857 74 TLRCPICREQITIP 87 (129)
Q Consensus 74 ~~~CP~Cr~~~~~~ 87 (129)
.+.||.|+..+..-
T Consensus 132 ~F~Cp~Cg~~L~~~ 145 (176)
T COG1675 132 GFTCPKCGEDLEEY 145 (176)
T ss_pred CCCCCCCCchhhhc
Confidence 58999999987743
Done!