Query psy9669
Match_columns 173
No_of_seqs 259 out of 2575
Neff 10.8
Searched_HMMs 46136
Date Sat Aug 17 01:36:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9669.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9669hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4226|consensus 99.9 1.3E-23 2.8E-28 143.1 6.0 108 59-169 110-249 (379)
2 KOG1029|consensus 99.8 6.6E-22 1.4E-26 150.9 3.2 109 59-169 982-1108(1118)
3 KOG4226|consensus 99.8 7.2E-21 1.6E-25 129.8 7.2 108 58-169 6-162 (379)
4 KOG4225|consensus 99.8 2.9E-20 6.2E-25 134.1 7.3 110 57-168 231-488 (489)
5 KOG4348|consensus 99.8 5.8E-21 1.3E-25 137.8 2.6 110 56-169 100-318 (627)
6 KOG4348|consensus 99.8 4.2E-21 9.2E-26 138.5 -0.4 109 58-170 3-156 (627)
7 KOG2996|consensus 99.8 6.3E-19 1.4E-23 131.5 6.3 164 6-171 531-864 (865)
8 KOG1029|consensus 99.7 7.8E-18 1.7E-22 129.0 3.9 111 56-171 693-869 (1118)
9 KOG4792|consensus 99.7 7.7E-17 1.7E-21 107.4 5.3 122 47-171 104-286 (293)
10 PF14604 SH3_9: Variant SH3 do 99.6 2.9E-15 6.2E-20 78.7 5.1 49 117-167 1-49 (49)
11 PF15227 zf-C3HC4_4: zinc fing 99.6 7.5E-16 1.6E-20 77.9 1.8 40 12-52 1-42 (42)
12 PLN03208 E3 ubiquitin-protein 99.5 1.6E-14 3.5E-19 95.3 3.4 52 6-58 15-80 (193)
13 PF14604 SH3_9: Variant SH3 do 99.5 8.7E-14 1.9E-18 73.0 3.8 49 61-111 1-49 (49)
14 PF07653 SH3_2: Variant SH3 do 99.4 2.2E-13 4.7E-18 73.6 4.7 53 115-169 2-55 (55)
15 KOG0823|consensus 99.4 2.2E-13 4.7E-18 91.6 3.1 54 7-61 45-99 (230)
16 PF00018 SH3_1: SH3 domain; I 99.4 9.6E-13 2.1E-17 69.0 4.8 48 116-163 1-48 (48)
17 PF13639 zf-RING_2: Ring finge 99.4 9.2E-14 2E-18 71.5 0.7 41 11-53 2-44 (44)
18 PF13923 zf-C3HC4_2: Zinc fing 99.4 1.6E-13 3.5E-18 68.6 1.3 38 12-52 1-39 (39)
19 PF00097 zf-C3HC4: Zinc finger 99.3 2.8E-13 6.1E-18 68.7 1.3 40 12-52 1-41 (41)
20 PF13920 zf-C3HC4_3: Zinc fing 99.3 4.8E-13 1E-17 70.7 1.9 47 8-57 1-48 (50)
21 PF13445 zf-RING_UBOX: RING-ty 99.3 5.7E-13 1.2E-17 67.3 1.0 38 12-50 1-43 (43)
22 PHA02929 N1R/p28-like protein; 99.3 2.8E-12 6.1E-17 88.3 4.1 49 7-57 172-227 (238)
23 PF00018 SH3_1: SH3 domain; I 99.3 4.2E-12 9.1E-17 66.6 3.7 48 60-107 1-48 (48)
24 TIGR00599 rad18 DNA repair pro 99.3 3.2E-12 7E-17 94.1 3.2 51 4-57 21-71 (397)
25 KOG2070|consensus 99.3 1.8E-12 3.9E-17 95.7 1.8 57 112-170 17-73 (661)
26 PF07653 SH3_2: Variant SH3 do 99.3 5.9E-12 1.3E-16 68.0 3.3 52 59-112 2-54 (55)
27 smart00504 Ubox Modified RING 99.2 7.4E-12 1.6E-16 69.6 3.7 46 9-57 1-46 (63)
28 KOG0317|consensus 99.2 3E-12 6.6E-17 88.7 2.2 48 7-57 237-284 (293)
29 cd00162 RING RING-finger (Real 99.2 1E-11 2.2E-16 64.1 3.2 44 11-55 1-44 (45)
30 PF14634 zf-RING_5: zinc-RING 99.2 9.3E-12 2E-16 63.8 2.5 42 11-54 1-44 (44)
31 KOG0320|consensus 99.2 6.3E-12 1.4E-16 81.1 2.2 49 6-56 128-177 (187)
32 KOG3601|consensus 99.2 7.4E-12 1.6E-16 83.1 2.5 109 59-171 3-220 (222)
33 smart00326 SH3 Src homology 3 99.2 6.9E-11 1.5E-15 64.4 5.5 53 115-168 5-57 (58)
34 KOG0287|consensus 99.2 4E-12 8.6E-17 89.8 0.4 50 5-57 19-68 (442)
35 PHA02926 zinc finger-like prot 99.2 1.7E-11 3.7E-16 82.1 3.0 53 5-57 166-230 (242)
36 cd00174 SH3 Src homology 3 dom 99.2 1.1E-10 2.4E-15 62.6 5.4 52 115-167 2-53 (54)
37 PF14835 zf-RING_6: zf-RING of 99.1 1.4E-11 3E-16 66.3 1.2 47 4-55 2-49 (65)
38 PF12678 zf-rbx1: RING-H2 zinc 99.1 3.5E-11 7.7E-16 68.5 2.0 41 11-53 21-73 (73)
39 KOG2199|consensus 99.1 2.5E-11 5.4E-16 87.6 1.4 56 111-168 214-269 (462)
40 smart00184 RING Ring finger. E 99.1 7.6E-11 1.6E-15 58.8 2.8 39 12-52 1-39 (39)
41 KOG3632|consensus 99.1 2E-10 4.3E-15 91.2 6.1 109 57-169 1139-1307(1335)
42 COG5432 RAD18 RING-finger-cont 99.1 3.6E-11 7.7E-16 83.4 1.6 50 5-57 21-70 (391)
43 KOG2546|consensus 99.1 7.5E-11 1.6E-15 85.7 2.7 67 101-171 414-480 (483)
44 KOG2070|consensus 99.1 1E-10 2.2E-15 86.7 2.9 55 58-114 19-73 (661)
45 KOG2164|consensus 99.0 1.2E-10 2.5E-15 86.8 2.3 49 9-58 186-237 (513)
46 KOG4628|consensus 99.0 2.6E-10 5.7E-15 82.2 2.5 49 10-59 230-280 (348)
47 COG5243 HRD1 HRD ubiquitin lig 99.0 4.9E-10 1.1E-14 80.4 3.9 48 7-56 285-344 (491)
48 KOG1118|consensus 99.0 2.6E-10 5.6E-15 79.8 2.4 55 114-170 308-362 (366)
49 KOG4225|consensus 99.0 6.4E-10 1.4E-14 81.3 4.5 55 115-171 233-287 (489)
50 PF04564 U-box: U-box domain; 99.0 2.6E-10 5.6E-15 65.0 1.8 50 7-58 2-51 (73)
51 smart00326 SH3 Src homology 3 99.0 1E-09 2.3E-14 59.6 3.9 54 58-112 4-57 (58)
52 cd00174 SH3 Src homology 3 dom 99.0 1.4E-09 3.1E-14 58.2 4.4 52 59-111 2-53 (54)
53 KOG2199|consensus 98.9 3.2E-10 7E-15 81.9 1.9 57 55-113 214-270 (462)
54 KOG0162|consensus 98.9 7.1E-10 1.5E-14 85.9 3.6 54 114-169 1053-1106(1106)
55 KOG2177|consensus 98.9 3.1E-10 6.7E-15 83.1 1.4 48 3-53 7-54 (386)
56 PF12861 zf-Apc11: Anaphase-pr 98.9 8E-10 1.7E-14 63.4 2.5 51 6-56 18-81 (85)
57 COG5574 PEX10 RING-finger-cont 98.9 7.4E-10 1.6E-14 76.1 1.8 48 7-56 213-261 (271)
58 TIGR00570 cdk7 CDK-activating 98.8 3E-09 6.6E-14 75.6 4.0 49 8-57 2-54 (309)
59 KOG1118|consensus 98.8 1.1E-09 2.4E-14 76.7 1.5 54 58-113 308-361 (366)
60 COG5540 RING-finger-containing 98.8 1.8E-09 3.8E-14 75.6 2.5 49 8-57 322-372 (374)
61 KOG0162|consensus 98.8 7.1E-09 1.5E-13 80.6 4.3 54 57-112 1052-1105(1106)
62 KOG0311|consensus 98.7 7E-10 1.5E-14 79.1 -2.3 55 2-57 36-90 (381)
63 KOG0978|consensus 98.7 2.5E-09 5.3E-14 83.4 0.2 52 4-57 638-689 (698)
64 KOG0824|consensus 98.7 6.3E-09 1.4E-13 72.8 2.1 47 10-58 8-54 (324)
65 KOG1264|consensus 98.7 1.2E-08 2.6E-13 80.2 3.3 58 113-171 775-832 (1267)
66 KOG2996|consensus 98.7 1.9E-08 4.1E-13 76.4 3.7 57 55-113 804-862 (865)
67 KOG0802|consensus 98.7 9.3E-09 2E-13 80.1 2.1 48 7-56 289-340 (543)
68 KOG1702|consensus 98.6 5.3E-08 1.1E-12 64.6 3.9 55 115-169 210-264 (264)
69 KOG4159|consensus 98.6 2.2E-08 4.8E-13 74.2 1.9 55 5-62 80-134 (398)
70 KOG2660|consensus 98.6 1E-08 2.2E-13 72.7 -0.1 54 4-59 10-63 (331)
71 KOG2856|consensus 98.6 1.2E-08 2.5E-13 73.4 -0.0 56 113-169 415-471 (472)
72 KOG2879|consensus 98.5 6.3E-08 1.4E-12 67.1 3.1 52 6-57 236-287 (298)
73 KOG1785|consensus 98.5 3.6E-08 7.7E-13 71.7 1.4 59 9-68 369-429 (563)
74 PF11789 zf-Nse: Zinc-finger o 98.5 3.8E-08 8.2E-13 52.9 0.6 46 6-51 8-53 (57)
75 KOG1702|consensus 98.5 2.3E-07 5.1E-12 61.6 4.4 56 57-112 208-263 (264)
76 KOG4792|consensus 98.4 8.1E-08 1.8E-12 64.8 0.7 55 115-170 127-181 (293)
77 KOG0515|consensus 98.4 1.3E-07 2.8E-12 71.4 1.4 52 115-168 686-740 (752)
78 KOG2546|consensus 98.4 3.1E-07 6.7E-12 67.4 3.1 55 58-114 425-479 (483)
79 KOG3655|consensus 98.3 2.3E-07 4.9E-12 69.0 1.8 57 112-169 427-483 (484)
80 KOG3523|consensus 98.3 5E-08 1.1E-12 74.4 -1.7 58 114-171 610-667 (695)
81 smart00744 RINGv The RING-vari 98.3 5.6E-07 1.2E-11 46.9 2.3 43 11-53 1-49 (49)
82 COG5219 Uncharacterized conser 98.2 3.5E-07 7.6E-12 73.3 1.3 53 5-57 1465-1523(1525)
83 PF11793 FANCL_C: FANCL C-term 98.2 4.5E-07 9.7E-12 51.1 1.1 48 9-56 2-65 (70)
84 KOG2856|consensus 98.2 3.1E-07 6.7E-12 66.2 0.2 54 58-112 416-470 (472)
85 KOG1264|consensus 98.2 7.7E-07 1.7E-11 70.4 2.3 56 58-114 776-831 (1267)
86 KOG3875|consensus 98.2 4.4E-07 9.5E-12 64.1 0.5 57 114-170 270-331 (362)
87 KOG0297|consensus 98.2 9.2E-07 2E-11 66.3 2.1 52 4-58 16-68 (391)
88 KOG0804|consensus 98.2 8.2E-07 1.8E-11 65.6 1.7 46 5-54 171-219 (493)
89 KOG4172|consensus 98.2 1.2E-07 2.6E-12 49.1 -1.9 48 10-59 8-56 (62)
90 KOG1734|consensus 98.1 4.3E-07 9.3E-12 62.8 -0.1 49 8-56 223-280 (328)
91 KOG1843|consensus 98.1 1.6E-06 3.4E-11 63.5 2.3 56 111-168 415-472 (473)
92 COG5152 Uncharacterized conser 98.1 8E-07 1.7E-11 58.8 0.3 44 9-55 196-239 (259)
93 KOG0515|consensus 98.1 1.7E-06 3.7E-11 65.5 1.8 54 57-112 684-740 (752)
94 KOG0828|consensus 98.1 1.4E-06 3.1E-11 65.2 1.3 50 7-57 569-634 (636)
95 KOG3523|consensus 98.0 8.9E-07 1.9E-11 67.8 -0.3 57 57-113 609-665 (695)
96 KOG4278|consensus 98.0 6.3E-06 1.4E-10 64.4 3.4 57 114-172 92-149 (1157)
97 KOG4265|consensus 97.9 7.4E-06 1.6E-10 59.2 2.9 53 7-62 288-341 (349)
98 KOG3655|consensus 97.9 5.8E-06 1.3E-10 61.7 2.4 55 58-113 429-483 (484)
99 KOG3775|consensus 97.9 8.4E-06 1.8E-10 59.2 2.9 56 115-170 265-320 (482)
100 KOG1039|consensus 97.9 8.6E-06 1.9E-10 59.5 2.2 50 7-56 159-220 (344)
101 KOG3875|consensus 97.8 4.3E-06 9.3E-11 59.2 0.0 57 58-114 270-331 (362)
102 KOG4692|consensus 97.7 1.8E-05 3.9E-10 57.1 2.2 47 7-56 420-466 (489)
103 KOG1813|consensus 97.7 1E-05 2.2E-10 57.0 0.7 44 10-56 242-285 (313)
104 KOG1645|consensus 97.7 2E-05 4.4E-10 57.8 2.0 47 8-54 3-53 (463)
105 COG5194 APC11 Component of SCF 97.7 2.8E-05 6.2E-10 43.7 2.1 28 27-56 53-80 (88)
106 COG5222 Uncharacterized conser 97.7 1.6E-05 3.4E-10 56.1 1.3 44 10-54 275-318 (427)
107 KOG4278|consensus 97.7 0.00022 4.9E-09 56.1 7.5 65 47-114 82-147 (1157)
108 KOG1002|consensus 97.7 1E-05 2.2E-10 61.4 0.3 50 7-57 534-586 (791)
109 KOG1493|consensus 97.7 7.1E-06 1.5E-10 45.7 -0.6 47 10-56 21-80 (84)
110 KOG0827|consensus 97.6 2.1E-05 4.6E-10 57.4 1.4 49 10-58 5-57 (465)
111 KOG0825|consensus 97.6 1.3E-05 2.8E-10 63.5 0.2 56 9-66 123-180 (1134)
112 KOG4367|consensus 97.6 3E-05 6.5E-10 57.6 2.1 39 6-45 1-39 (699)
113 KOG4275|consensus 97.6 3E-06 6.6E-11 59.4 -3.1 47 9-62 300-347 (350)
114 KOG3601|consensus 97.6 4.1E-05 8.8E-10 51.5 2.2 53 59-113 166-218 (222)
115 KOG1843|consensus 97.6 4.4E-05 9.5E-10 56.2 2.1 56 55-112 415-472 (473)
116 KOG1814|consensus 97.5 3.2E-05 7E-10 56.9 1.2 47 7-53 182-236 (445)
117 KOG4773|consensus 97.5 1.5E-05 3.2E-10 57.4 -0.8 56 115-172 178-233 (386)
118 KOG3775|consensus 97.5 7.8E-05 1.7E-09 54.4 2.7 55 59-113 265-319 (482)
119 PF07800 DUF1644: Protein of u 97.4 0.0002 4.3E-09 46.1 3.6 34 8-42 1-47 (162)
120 KOG1941|consensus 97.4 3.2E-05 7E-10 56.6 -0.3 47 8-54 364-413 (518)
121 KOG2528|consensus 97.4 7.7E-05 1.7E-09 55.5 1.6 55 114-169 4-59 (490)
122 KOG2222|consensus 97.4 3.1E-05 6.8E-10 58.3 -0.7 54 114-169 550-603 (848)
123 PHA02825 LAP/PHD finger-like p 97.3 0.00035 7.7E-09 45.1 3.8 49 7-57 6-59 (162)
124 KOG1001|consensus 97.3 9.9E-05 2.1E-09 59.0 1.2 48 9-58 454-501 (674)
125 KOG2817|consensus 97.3 0.00025 5.5E-09 52.2 3.0 50 6-55 331-383 (394)
126 PF12906 RINGv: RING-variant d 97.3 0.00023 5E-09 36.7 2.0 41 12-52 1-47 (47)
127 KOG4185|consensus 97.2 0.00029 6.2E-09 51.3 2.6 48 8-56 2-54 (296)
128 KOG3632|consensus 97.2 0.00035 7.6E-09 57.0 3.2 54 115-170 1141-1203(1335)
129 PF08746 zf-RING-like: RING-li 97.1 0.00027 5.8E-09 35.7 1.4 41 12-52 1-43 (43)
130 KOG2114|consensus 97.1 0.0002 4.3E-09 57.5 1.3 43 9-56 840-882 (933)
131 KOG2222|consensus 97.1 0.0002 4.2E-09 54.2 0.9 54 58-113 550-603 (848)
132 KOG0197|consensus 97.1 0.00021 4.6E-09 54.3 1.0 60 54-113 9-69 (468)
133 KOG0197|consensus 97.0 0.00017 3.6E-09 54.8 0.3 56 114-169 13-69 (468)
134 PF14603 hSH3: Helically-exten 97.0 0.0011 2.4E-08 38.3 3.5 45 125-170 29-73 (89)
135 KOG4575|consensus 97.0 0.00092 2E-08 52.2 4.1 57 113-169 9-65 (874)
136 KOG3002|consensus 97.0 0.00046 1E-08 49.9 2.3 48 6-58 45-92 (299)
137 KOG3557|consensus 97.0 0.00011 2.4E-09 57.1 -1.0 53 115-169 503-555 (721)
138 PF14447 Prok-RING_4: Prokaryo 97.0 0.00044 9.5E-09 36.3 1.4 45 7-56 5-49 (55)
139 KOG2930|consensus 96.9 0.00034 7.3E-09 41.5 0.9 26 27-54 80-105 (114)
140 KOG3039|consensus 96.9 0.00069 1.5E-08 46.8 2.4 47 8-56 220-269 (303)
141 KOG1571|consensus 96.9 0.00025 5.4E-09 51.6 0.2 49 6-60 302-350 (355)
142 PF10367 Vps39_2: Vacuolar sor 96.9 0.00035 7.6E-09 42.9 0.7 34 6-39 75-109 (109)
143 KOG1451|consensus 96.8 0.0011 2.3E-08 51.5 3.0 50 117-168 761-811 (812)
144 PHA02862 5L protein; Provision 96.8 0.0013 2.9E-08 41.6 2.6 45 10-56 3-52 (156)
145 KOG4773|consensus 96.8 0.00028 6E-09 51.1 -0.5 55 58-114 177-231 (386)
146 KOG3557|consensus 96.7 0.00047 1E-08 53.8 0.6 55 58-114 502-556 (721)
147 PF14570 zf-RING_4: RING/Ubox 96.7 0.0014 3E-08 33.6 2.0 43 12-55 1-46 (48)
148 PF08239 SH3_3: Bacterial SH3 96.7 0.0049 1.1E-07 32.7 4.2 39 128-167 16-55 (55)
149 KOG2528|consensus 96.7 0.0012 2.7E-08 49.4 2.3 56 58-114 4-60 (490)
150 KOG3725|consensus 96.6 0.00039 8.5E-09 48.4 -0.6 53 114-168 319-373 (375)
151 KOG3800|consensus 96.6 0.0015 3.2E-08 46.3 2.1 46 11-57 2-51 (300)
152 KOG4739|consensus 96.6 0.001 2.2E-08 46.0 1.3 44 10-57 4-48 (233)
153 COG5236 Uncharacterized conser 96.4 0.0029 6.2E-08 46.0 2.7 51 6-57 58-108 (493)
154 PF02891 zf-MIZ: MIZ/SP-RING z 96.4 0.0018 4E-08 33.8 1.3 45 9-54 2-49 (50)
155 smart00287 SH3b Bacterial SH3 96.4 0.014 3E-07 31.9 4.8 39 128-167 24-62 (63)
156 KOG4575|consensus 96.3 0.0082 1.8E-07 47.2 4.7 56 58-113 10-65 (874)
157 PF04641 Rtf2: Rtf2 RING-finge 96.2 0.0033 7.1E-08 44.9 2.2 50 6-58 110-162 (260)
158 KOG0609|consensus 96.2 0.0023 4.9E-08 49.2 1.4 56 58-113 216-281 (542)
159 KOG0609|consensus 96.2 0.0018 3.9E-08 49.7 0.7 55 114-168 216-280 (542)
160 KOG1451|consensus 96.1 0.0084 1.8E-07 46.8 4.0 53 59-113 759-812 (812)
161 KOG3161|consensus 96.1 0.0013 2.9E-08 51.4 -0.2 42 5-50 7-51 (861)
162 KOG1428|consensus 96.1 0.0041 8.8E-08 53.4 2.4 53 6-58 3483-3545(3738)
163 KOG0199|consensus 95.9 0.012 2.6E-07 47.4 4.0 51 117-167 379-430 (1039)
164 COG5220 TFB3 Cdk activating ki 95.8 0.0032 7E-08 43.4 0.6 49 5-54 6-61 (314)
165 KOG1940|consensus 95.8 0.0051 1.1E-07 43.8 1.5 44 9-54 158-204 (276)
166 PF14603 hSH3: Helically-exten 95.7 0.011 2.3E-07 34.3 2.4 44 69-113 29-72 (89)
167 KOG4429|consensus 95.7 0.0037 8.1E-08 44.5 0.6 53 115-169 366-418 (421)
168 COG5109 Uncharacterized conser 95.7 0.0088 1.9E-07 43.0 2.3 50 5-54 332-384 (396)
169 KOG4362|consensus 95.6 0.002 4.4E-08 51.1 -1.2 52 5-57 17-69 (684)
170 KOG0826|consensus 95.5 0.0095 2.1E-07 43.1 2.0 45 7-53 298-342 (357)
171 COG5175 MOT2 Transcriptional r 95.4 0.0062 1.4E-07 44.2 0.9 45 11-56 16-63 (480)
172 KOG2932|consensus 95.4 0.0078 1.7E-07 43.2 1.2 41 12-56 93-133 (389)
173 PRK10884 SH3 domain-containing 95.3 0.03 6.4E-07 38.5 3.9 40 129-169 48-88 (206)
174 KOG1812|consensus 95.3 0.0075 1.6E-07 45.5 1.0 43 9-51 146-195 (384)
175 PF05883 Baculo_RING: Baculovi 95.3 0.0091 2E-07 37.7 1.2 43 9-53 26-76 (134)
176 PHA03096 p28-like protein; Pro 95.3 0.0082 1.8E-07 43.2 1.1 44 10-53 179-230 (284)
177 PF05290 Baculo_IE-1: Baculovi 95.2 0.013 2.9E-07 36.7 1.7 49 8-57 79-132 (140)
178 KOG3970|consensus 95.2 0.018 3.9E-07 39.5 2.4 47 10-56 51-104 (299)
179 KOG1952|consensus 95.1 0.013 2.8E-07 47.6 1.9 48 7-54 189-244 (950)
180 KOG4445|consensus 95.1 0.0031 6.8E-08 44.9 -1.4 50 8-57 114-186 (368)
181 PF07191 zinc-ribbons_6: zinc- 94.9 0.0018 3.9E-08 36.0 -2.4 44 9-60 1-44 (70)
182 KOG3771|consensus 94.6 0.018 4E-07 43.7 1.5 52 114-167 402-454 (460)
183 KOG0199|consensus 94.5 0.046 1E-06 44.2 3.6 51 61-111 379-430 (1039)
184 KOG4429|consensus 94.5 0.022 4.7E-07 40.7 1.6 53 59-113 366-418 (421)
185 KOG0298|consensus 94.5 0.009 1.9E-07 50.6 -0.3 51 5-57 1149-1199(1394)
186 KOG3725|consensus 94.5 0.014 3E-07 40.9 0.6 54 58-113 319-374 (375)
187 PF06347 SH3_4: Bacterial SH3 94.4 0.35 7.6E-06 25.5 5.8 36 128-166 18-53 (55)
188 KOG3771|consensus 94.1 0.037 8.1E-07 42.1 2.1 55 54-110 398-453 (460)
189 COG3103 SH3 domain protein [Si 94.1 0.12 2.5E-06 35.5 4.3 92 74-168 49-151 (205)
190 PF08239 SH3_3: Bacterial SH3 93.9 0.077 1.7E-06 28.0 2.7 38 73-111 17-55 (55)
191 KOG3705|consensus 93.8 0.05 1.1E-06 40.8 2.4 54 115-168 512-565 (580)
192 KOG2034|consensus 93.8 0.029 6.3E-07 45.9 1.2 37 6-42 814-851 (911)
193 PF10571 UPF0547: Uncharacteri 93.8 0.036 7.7E-07 24.6 1.0 9 11-19 2-10 (26)
194 KOG0824|consensus 93.7 0.12 2.6E-06 37.2 4.1 52 7-60 103-154 (324)
195 KOG1100|consensus 93.6 0.046 9.9E-07 37.7 1.7 42 9-57 158-200 (207)
196 KOG3565|consensus 93.4 0.016 3.5E-07 46.4 -0.7 56 115-170 581-637 (640)
197 KOG3268|consensus 93.4 0.057 1.2E-06 35.7 1.8 30 27-56 189-227 (234)
198 PRK13914 invasion associated s 93.2 0.22 4.7E-06 38.7 4.9 41 128-169 102-142 (481)
199 KOG3705|consensus 93.1 0.073 1.6E-06 39.9 2.2 55 58-112 511-565 (580)
200 COG3103 SH3 domain protein [Si 92.7 0.3 6.6E-06 33.5 4.6 42 128-170 47-89 (205)
201 KOG3039|consensus 92.6 0.06 1.3E-06 37.5 1.2 39 4-43 38-76 (303)
202 KOG3565|consensus 92.4 0.047 1E-06 43.9 0.5 64 50-113 572-636 (640)
203 KOG1815|consensus 92.3 0.06 1.3E-06 41.6 1.0 37 7-43 68-104 (444)
204 COG5183 SSM4 Protein involved 91.6 0.2 4.4E-06 41.0 3.1 50 7-56 10-65 (1175)
205 smart00287 SH3b Bacterial SH3 91.6 0.32 6.9E-06 26.3 3.1 37 73-110 25-61 (63)
206 KOG3579|consensus 91.1 0.19 4E-06 35.9 2.3 37 7-44 266-306 (352)
207 KOG4718|consensus 91.0 0.11 2.5E-06 35.3 1.1 45 8-54 180-224 (235)
208 PF05605 zf-Di19: Drought indu 90.5 0.084 1.8E-06 27.9 0.2 39 8-54 1-39 (54)
209 KOG3812|consensus 90.2 0.1 2.2E-06 38.3 0.3 38 71-108 80-118 (475)
210 PF03854 zf-P11: P-11 zinc fin 89.9 0.058 1.3E-06 27.4 -0.7 43 11-58 4-47 (50)
211 PRK10884 SH3 domain-containing 89.3 0.55 1.2E-05 32.4 3.3 39 74-113 49-88 (206)
212 cd00065 FYVE FYVE domain; Zinc 88.1 0.36 7.7E-06 25.6 1.5 32 10-41 3-37 (57)
213 smart00249 PHD PHD zinc finger 87.5 0.37 7.9E-06 24.0 1.3 30 11-40 1-32 (47)
214 smart00064 FYVE Protein presen 87.3 0.49 1.1E-05 26.2 1.8 35 8-42 9-46 (68)
215 PF10272 Tmpp129: Putative tra 87.2 0.39 8.5E-06 35.9 1.7 25 32-56 315-350 (358)
216 KOG3812|consensus 86.4 0.3 6.4E-06 36.0 0.7 38 127-164 80-118 (475)
217 PF06906 DUF1272: Protein of u 86.3 1.8 4E-05 22.9 3.4 43 10-56 6-51 (57)
218 KOG4185|consensus 86.3 0.093 2E-06 38.3 -1.9 44 10-54 208-264 (296)
219 KOG0040|consensus 85.3 0.017 3.7E-07 49.9 -6.7 54 115-170 971-1024(2399)
220 PF14569 zf-UDP: Zinc-binding 85.1 1 2.2E-05 25.6 2.3 49 8-57 8-62 (80)
221 PF06844 DUF1244: Protein of u 84.7 0.56 1.2E-05 25.7 1.1 13 31-43 11-23 (68)
222 PF12913 SH3_6: SH3 domain of 84.6 4.4 9.4E-05 21.5 4.8 35 127-163 19-54 (54)
223 PLN02189 cellulose synthase 84.4 1.6 3.4E-05 37.3 4.0 47 10-57 35-87 (1040)
224 KOG2979|consensus 84.0 0.56 1.2E-05 33.1 1.2 47 9-55 176-222 (262)
225 PF14446 Prok-RING_1: Prokaryo 83.6 1.2 2.6E-05 23.5 2.0 32 8-39 4-38 (54)
226 KOG2169|consensus 83.5 0.85 1.8E-05 37.1 2.1 53 4-56 301-355 (636)
227 PLN02638 cellulose synthase A 83.3 1.8 3.8E-05 37.1 3.9 48 9-57 17-70 (1079)
228 KOG0309|consensus 83.1 0.74 1.6E-05 37.7 1.6 42 8-51 1027-1069(1081)
229 PF02318 FYVE_2: FYVE-type zin 83.0 0.41 9E-06 29.9 0.2 45 8-53 53-101 (118)
230 KOG0825|consensus 83.0 0.77 1.7E-05 37.7 1.7 49 8-56 95-153 (1134)
231 PLN02436 cellulose synthase A 82.9 2 4.3E-05 36.8 4.0 48 9-57 36-89 (1094)
232 PF05502 Dynactin_p62: Dynacti 82.3 0.54 1.2E-05 36.8 0.6 54 5-58 1-64 (483)
233 COG3807 Uncharacterized protei 81.0 4.4 9.5E-05 26.4 4.2 84 75-163 61-158 (171)
234 smart00743 Agenet Tudor-like d 80.5 3.3 7.1E-05 22.2 3.2 24 130-153 2-25 (61)
235 PF01363 FYVE: FYVE zinc finge 80.3 0.32 6.8E-06 27.1 -0.9 34 7-40 7-43 (69)
236 PF10497 zf-4CXXC_R1: Zinc-fin 80.1 2.4 5.2E-05 25.9 2.8 47 8-54 6-69 (105)
237 COG3813 Uncharacterized protei 79.9 2.8 6E-05 23.5 2.7 42 11-56 7-51 (84)
238 PLN02915 cellulose synthase A 79.4 3 6.4E-05 35.7 3.9 50 8-58 14-69 (1044)
239 TIGR00622 ssl1 transcription f 79.1 2.3 5E-05 26.2 2.5 26 11-36 57-95 (112)
240 KOG3899|consensus 78.6 0.92 2E-05 32.7 0.7 30 28-57 325-365 (381)
241 PF11302 DUF3104: Protein of u 78.6 4.4 9.6E-05 23.0 3.3 27 127-153 2-34 (75)
242 COG4647 AcxC Acetone carboxyla 77.8 1.3 2.8E-05 27.8 1.1 21 14-35 62-82 (165)
243 KOG1812|consensus 77.5 1.3 2.8E-05 33.8 1.2 35 9-44 306-345 (384)
244 PRK13914 invasion associated s 77.3 3.2 6.9E-05 32.5 3.3 38 74-112 104-141 (481)
245 PLN02400 cellulose synthase 77.3 3.4 7.3E-05 35.6 3.6 48 9-57 36-89 (1085)
246 KOG0827|consensus 76.5 0.13 2.8E-06 38.4 -4.0 46 11-58 198-246 (465)
247 KOG1829|consensus 75.9 0.66 1.4E-05 36.9 -0.6 40 9-53 511-557 (580)
248 smart00132 LIM Zinc-binding do 75.9 3.2 6.9E-05 19.5 2.1 36 11-56 1-37 (39)
249 PLN02195 cellulose synthase A 75.8 3.8 8.2E-05 34.9 3.5 49 8-57 5-59 (977)
250 cd00350 rubredoxin_like Rubred 75.1 2.2 4.9E-05 19.9 1.3 10 46-55 17-26 (33)
251 PF13719 zinc_ribbon_5: zinc-r 75.1 0.9 1.9E-05 21.9 -0.1 11 10-20 3-13 (37)
252 KOG3799|consensus 75.1 0.74 1.6E-05 29.1 -0.4 14 6-19 62-75 (169)
253 KOG2231|consensus 74.4 2.6 5.7E-05 34.3 2.3 47 11-58 2-53 (669)
254 KOG1609|consensus 74.3 2.3 5E-05 31.2 1.9 49 9-57 78-134 (323)
255 PF10235 Cript: Microtubule-as 73.5 2.4 5.3E-05 25.0 1.5 36 9-56 44-79 (90)
256 PF09538 FYDLN_acid: Protein o 73.3 2.7 5.8E-05 25.8 1.7 20 1-20 1-20 (108)
257 PF15616 TerY-C: TerY-C metal 72.9 2 4.3E-05 27.3 1.1 44 4-56 72-115 (131)
258 smart00647 IBR In Between Ring 72.8 0.83 1.8E-05 24.7 -0.6 32 9-40 18-58 (64)
259 KOG4218|consensus 72.1 3.1 6.6E-05 30.9 2.0 12 8-19 14-25 (475)
260 KOG3053|consensus 71.3 1.6 3.4E-05 31.0 0.4 51 6-56 17-81 (293)
261 KOG3113|consensus 71.0 4.5 9.8E-05 28.7 2.5 48 7-58 109-159 (293)
262 KOG2066|consensus 71.0 1.8 3.9E-05 35.6 0.7 37 8-44 783-825 (846)
263 KOG0040|consensus 70.2 0.18 3.9E-06 44.2 -5.1 53 59-113 971-1023(2399)
264 cd00730 rubredoxin Rubredoxin; 70.2 2.9 6.2E-05 21.8 1.1 14 4-17 29-42 (50)
265 KOG2068|consensus 69.8 3.9 8.4E-05 30.2 2.1 45 10-56 250-297 (327)
266 PRK11088 rrmA 23S rRNA methylt 69.7 3.2 6.9E-05 29.9 1.7 24 9-32 2-27 (272)
267 PF14169 YdjO: Cold-inducible 69.4 3.5 7.5E-05 22.3 1.4 8 48-55 41-48 (59)
268 TIGR02300 FYDLN_acid conserved 69.2 3.9 8.4E-05 25.8 1.7 20 1-20 1-20 (129)
269 PF09654 DUF2396: Protein of u 69.1 3.7 8E-05 26.2 1.6 41 45-85 5-47 (161)
270 TIGR02652 conserved hypothetic 68.8 3.6 7.8E-05 26.3 1.5 41 45-85 8-50 (163)
271 PF13717 zinc_ribbon_4: zinc-r 68.6 1.7 3.7E-05 20.8 0.1 10 10-19 3-12 (36)
272 smart00734 ZnF_Rad18 Rad18-lik 67.3 2.6 5.7E-05 18.5 0.5 9 11-19 3-11 (26)
273 COG0068 HypF Hydrogenase matur 67.1 3.7 7.9E-05 33.7 1.6 51 6-56 98-183 (750)
274 smart00290 ZnF_UBP Ubiquitin C 67.0 3.9 8.4E-05 20.9 1.3 25 11-36 1-25 (50)
275 PF01485 IBR: IBR domain; Int 66.5 0.99 2.2E-05 24.3 -1.1 31 10-40 19-58 (64)
276 KOG2113|consensus 66.3 7.2 0.00016 28.7 2.8 49 5-58 339-388 (394)
277 PF14353 CpXC: CpXC protein 66.1 6.4 0.00014 24.8 2.4 46 10-56 2-48 (128)
278 PF00301 Rubredoxin: Rubredoxi 65.3 3.7 8E-05 21.0 0.9 14 4-17 29-42 (47)
279 TIGR00100 hypA hydrogenase nic 65.1 4.5 9.7E-05 25.1 1.5 9 46-54 86-94 (115)
280 COG3809 Uncharacterized protei 65.1 1.6 3.5E-05 24.8 -0.4 31 10-41 2-32 (88)
281 PF12773 DZR: Double zinc ribb 64.8 7.8 0.00017 19.8 2.2 27 30-56 12-39 (50)
282 smart00154 ZnF_AN1 AN1-like Zi 63.9 4.8 0.0001 19.7 1.2 23 12-34 1-24 (39)
283 KOG1356|consensus 63.4 1.5 3.2E-05 36.4 -1.1 34 8-41 228-262 (889)
284 PF00628 PHD: PHD-finger; Int 63.3 4.2 9.1E-05 20.8 1.0 43 11-53 1-49 (51)
285 COG3492 Uncharacterized protei 62.9 2.6 5.7E-05 24.7 0.1 13 31-43 42-54 (104)
286 PF14319 Zn_Tnp_IS91: Transpos 62.6 3.1 6.7E-05 25.7 0.4 25 10-37 43-67 (111)
287 PF09297 zf-NADH-PPase: NADH p 62.5 1.5 3.1E-05 20.3 -0.8 25 30-54 3-29 (32)
288 PF07975 C1_4: TFIIH C1-like d 61.6 3 6.5E-05 21.8 0.2 14 24-37 23-36 (51)
289 PF07503 zf-HYPF: HypF finger; 61.0 8.1 0.00017 18.4 1.6 25 32-56 1-31 (35)
290 cd01407 SIR2-fam SIR2 family o 59.9 18 0.0004 25.1 3.9 43 22-64 109-151 (218)
291 TIGR00686 phnA alkylphosphonat 59.4 11 0.00023 23.1 2.3 14 73-86 49-62 (109)
292 COG2824 PhnA Uncharacterized Z 59.1 9.1 0.0002 23.3 1.9 14 73-86 51-64 (112)
293 PF01155 HypA: Hydrogenase exp 59.0 2.5 5.4E-05 26.2 -0.4 22 33-54 73-94 (113)
294 COG3364 Zn-ribbon containing p 58.9 8.2 0.00018 23.3 1.7 28 23-56 3-30 (112)
295 PF13834 DUF4193: Domain of un 58.4 3.2 7E-05 24.9 0.0 29 7-36 68-98 (99)
296 PRK12380 hydrogenase nickel in 58.1 6.9 0.00015 24.2 1.4 10 45-54 85-94 (113)
297 PRK10220 hypothetical protein; 57.6 18 0.0004 22.2 3.1 13 74-86 51-63 (111)
298 PRK00420 hypothetical protein; 57.5 5.8 0.00013 24.5 1.0 11 45-55 39-49 (112)
299 COG1996 RPC10 DNA-directed RNA 56.3 4.5 9.8E-05 20.9 0.3 28 23-56 7-34 (49)
300 PF00412 LIM: LIM domain; Int 55.4 8.5 0.00018 20.1 1.4 26 12-37 1-27 (58)
301 PF04710 Pellino: Pellino; In 55.1 4 8.6E-05 31.0 0.0 34 21-57 302-339 (416)
302 PF03119 DNA_ligase_ZBD: NAD-d 55.1 6.6 0.00014 17.6 0.7 21 11-31 1-23 (28)
303 PF00643 zf-B_box: B-box zinc 54.9 3.3 7.1E-05 20.2 -0.3 32 8-40 2-33 (42)
304 TIGR00143 hypF [NiFe] hydrogen 54.2 6.4 0.00014 32.7 1.0 49 8-56 67-150 (711)
305 TIGR01562 FdhE formate dehydro 53.0 5.7 0.00012 29.3 0.5 45 8-54 183-232 (305)
306 PF14471 DUF4428: Domain of un 52.9 14 0.0003 19.3 1.8 29 11-40 1-30 (51)
307 PRK04023 DNA polymerase II lar 52.8 15 0.00032 31.8 2.8 45 8-57 625-674 (1121)
308 KOG3842|consensus 52.3 16 0.00035 27.0 2.6 49 8-56 340-413 (429)
309 PF00130 C1_1: Phorbol esters/ 52.0 4.6 0.0001 20.9 -0.1 36 5-40 7-46 (53)
310 KOG0269|consensus 51.7 16 0.00034 30.4 2.7 39 10-51 780-820 (839)
311 PF09723 Zn-ribbon_8: Zinc rib 51.6 4.2 9E-05 20.2 -0.3 29 23-54 6-34 (42)
312 PF04216 FdhE: Protein involve 50.6 1.7 3.7E-05 31.7 -2.5 44 9-55 172-220 (290)
313 PRK00564 hypA hydrogenase nick 50.5 15 0.00032 22.9 2.0 7 48-54 90-96 (117)
314 KOG4384|consensus 50.4 16 0.00035 27.4 2.4 52 116-169 140-193 (361)
315 COG4098 comFA Superfamily II D 49.8 5.7 0.00012 29.9 0.1 31 7-37 37-67 (441)
316 PF02146 SIR2: Sir2 family; I 49.3 15 0.00033 24.6 2.1 42 23-64 106-147 (178)
317 PF10146 zf-C4H2: Zinc finger- 48.9 11 0.00024 26.6 1.4 21 32-54 196-216 (230)
318 PF06827 zf-FPG_IleRS: Zinc fi 48.3 2.1 4.5E-05 19.4 -1.5 9 11-19 3-11 (30)
319 PRK03564 formate dehydrogenase 48.0 10 0.00022 28.1 1.1 45 8-54 186-234 (309)
320 PF13832 zf-HC5HC2H_2: PHD-zin 48.0 17 0.00036 22.1 2.0 32 8-39 54-87 (110)
321 COG2816 NPY1 NTP pyrophosphohy 47.7 7.4 0.00016 28.2 0.4 29 28-56 109-139 (279)
322 PRK03681 hypA hydrogenase nick 47.4 13 0.00028 23.1 1.4 8 47-54 88-95 (114)
323 KOG2789|consensus 47.0 11 0.00023 28.8 1.1 33 8-40 73-106 (482)
324 PF10083 DUF2321: Uncharacteri 46.7 10 0.00022 24.9 0.9 24 29-57 27-50 (158)
325 PRK14138 NAD-dependent deacety 44.6 40 0.00086 24.0 3.7 43 22-64 119-161 (244)
326 PF02148 zf-UBP: Zn-finger in 44.2 5.1 0.00011 21.8 -0.7 31 12-42 1-35 (63)
327 COG0375 HybF Zn finger protein 44.1 15 0.00033 22.8 1.3 8 47-54 87-94 (115)
328 PF10186 Atg14: UV radiation r 43.8 13 0.00028 26.9 1.2 11 29-39 10-20 (302)
329 PF04423 Rad50_zn_hook: Rad50 43.7 7.5 0.00016 20.4 -0.1 10 48-57 22-31 (54)
330 PRK13545 tagH teichoic acids e 43.6 73 0.0016 25.9 5.2 39 130-169 371-414 (549)
331 KOG1814|consensus 42.4 14 0.00031 28.3 1.2 35 7-41 366-405 (445)
332 COG2835 Uncharacterized conser 41.2 9 0.0002 20.7 0.0 12 8-19 7-18 (60)
333 PRK14559 putative protein seri 41.1 19 0.00042 29.6 1.8 46 10-57 2-52 (645)
334 PF01428 zf-AN1: AN1-like Zinc 40.8 6.1 0.00013 19.6 -0.6 23 15-37 6-28 (43)
335 KOG3726|consensus 40.2 17 0.00038 29.8 1.4 38 11-53 656-696 (717)
336 COG4306 Uncharacterized protei 40.1 14 0.00031 23.2 0.8 22 31-57 29-50 (160)
337 cd01408 SIRT1 SIRT1: Eukaryoti 40.0 58 0.0013 23.0 3.9 43 22-64 116-158 (235)
338 KOG2682|consensus 40.0 29 0.00063 24.7 2.3 37 27-63 158-194 (314)
339 PF09237 GAGA: GAGA factor; I 39.9 8.7 0.00019 20.1 -0.1 14 45-58 23-36 (54)
340 PRK06266 transcription initiat 39.5 9.2 0.0002 25.8 -0.1 13 45-57 135-147 (178)
341 PRK10144 formate-dependent nit 39.3 12 0.00025 23.8 0.3 7 47-53 41-47 (126)
342 PRK11827 hypothetical protein; 38.7 12 0.00026 20.3 0.3 15 5-19 4-18 (60)
343 KOG4384|consensus 38.6 35 0.00076 25.7 2.7 46 66-113 148-193 (361)
344 TIGR00373 conserved hypothetic 38.5 7.7 0.00017 25.6 -0.6 12 45-56 127-138 (158)
345 KOG1818|consensus 38.0 14 0.00031 30.0 0.7 39 4-42 160-201 (634)
346 PHA00626 hypothetical protein 37.3 18 0.00039 19.3 0.8 10 45-54 22-31 (59)
347 KOG0314|consensus 37.2 8.5 0.00018 29.9 -0.6 46 5-51 215-263 (448)
348 KOG2462|consensus 36.6 23 0.0005 25.6 1.5 50 7-56 159-225 (279)
349 PHA02768 hypothetical protein; 36.4 42 0.00092 17.8 2.1 34 10-55 6-40 (55)
350 COG3357 Predicted transcriptio 36.2 17 0.00037 21.5 0.6 28 21-54 57-84 (97)
351 PF13913 zf-C2HC_2: zinc-finge 36.1 19 0.00041 15.5 0.7 9 11-19 4-12 (25)
352 PTZ00303 phosphatidylinositol 35.9 21 0.00045 30.1 1.3 32 10-41 461-500 (1374)
353 PF11023 DUF2614: Protein of u 35.7 18 0.0004 22.3 0.8 25 33-57 72-96 (114)
354 KOG4443|consensus 35.4 23 0.0005 29.0 1.4 47 7-53 16-69 (694)
355 cd00029 C1 Protein kinase C co 35.4 20 0.00043 17.9 0.8 31 8-38 10-44 (50)
356 COG1545 Predicted nucleic-acid 35.2 21 0.00045 23.1 1.0 22 24-55 31-52 (140)
357 PRK11595 DNA utilization prote 35.1 39 0.00085 23.7 2.4 9 11-19 7-15 (227)
358 PF04810 zf-Sec23_Sec24: Sec23 35.0 14 0.0003 18.0 0.1 10 45-54 23-32 (40)
359 KOG3896|consensus 35.0 16 0.00036 27.2 0.6 52 5-56 20-80 (449)
360 TIGR02098 MJ0042_CXXC MJ0042 f 34.5 20 0.00044 17.0 0.7 8 10-17 3-10 (38)
361 smart00659 RPOLCX RNA polymera 34.4 17 0.00037 18.3 0.4 13 44-56 17-29 (44)
362 PRK14714 DNA polymerase II lar 34.3 25 0.00053 31.3 1.5 48 9-57 667-720 (1337)
363 TIGR03147 cyt_nit_nrfF cytochr 34.1 15 0.00033 23.2 0.2 7 47-53 41-47 (126)
364 PF00096 zf-C2H2: Zinc finger, 33.7 13 0.00028 15.1 -0.1 9 11-19 2-10 (23)
365 PF09862 DUF2089: Protein of u 33.5 22 0.00048 22.1 0.9 8 12-19 1-8 (113)
366 PF08273 Prim_Zn_Ribbon: Zinc- 33.4 23 0.00051 17.4 0.8 25 10-36 4-32 (40)
367 smart00109 C1 Protein kinase C 33.0 26 0.00055 17.3 1.0 33 7-39 9-44 (49)
368 PF06676 DUF1178: Protein of u 32.9 21 0.00045 23.4 0.7 23 27-54 9-40 (148)
369 KOG0801|consensus 32.5 43 0.00094 22.2 2.1 14 44-57 136-149 (205)
370 PRK00418 DNA gyrase inhibitor; 31.9 29 0.00062 19.0 1.0 10 47-56 7-16 (62)
371 PRK03824 hypA hydrogenase nick 31.9 37 0.0008 21.8 1.7 8 47-54 108-115 (135)
372 PF02701 zf-Dof: Dof domain, z 31.8 79 0.0017 17.3 2.7 38 7-44 3-44 (63)
373 KOG2071|consensus 31.7 25 0.00054 28.4 1.1 35 7-41 511-557 (579)
374 PF08882 Acetone_carb_G: Aceto 31.6 23 0.0005 21.8 0.7 12 23-34 24-35 (112)
375 TIGR02605 CxxC_CxxC_SSSS putat 31.2 14 0.0003 19.0 -0.3 28 24-54 7-34 (52)
376 PRK01343 zinc-binding protein; 30.9 32 0.00068 18.5 1.1 11 46-56 9-19 (57)
377 PF13453 zf-TFIIB: Transcripti 30.7 12 0.00026 18.3 -0.5 9 11-19 1-9 (41)
378 PF14205 Cys_rich_KTR: Cystein 30.6 31 0.00067 18.3 1.0 9 10-18 5-13 (55)
379 PF14445 Prok-RING_2: Prokaryo 30.2 7.2 0.00016 20.2 -1.3 32 8-39 6-39 (57)
380 COG3088 CcmH Uncharacterized p 30.0 18 0.00039 23.6 0.1 7 47-53 45-51 (153)
381 TIGR03826 YvyF flagellar opero 29.9 32 0.0007 22.2 1.2 25 9-39 3-27 (137)
382 PF13894 zf-C2H2_4: C2H2-type 29.8 17 0.00038 14.5 -0.0 7 12-18 3-9 (24)
383 KOG1819|consensus 29.7 13 0.00029 29.3 -0.6 29 9-37 901-932 (990)
384 PTZ00410 NAD-dependent SIR2; P 29.6 93 0.002 23.7 3.7 43 22-64 147-189 (349)
385 PF09986 DUF2225: Uncharacteri 29.3 24 0.00053 24.5 0.6 14 7-20 3-16 (214)
386 PF03894 XFP: D-xylulose 5-pho 29.2 2.8 6E-05 28.1 -3.7 37 126-163 52-89 (179)
387 PF12874 zf-met: Zinc-finger o 28.8 17 0.00038 15.1 -0.1 9 11-19 2-10 (25)
388 PRK14892 putative transcriptio 28.7 18 0.00039 21.9 -0.1 12 6-17 18-29 (99)
389 KOG3183|consensus 28.5 35 0.00075 24.2 1.2 53 4-57 5-66 (250)
390 KOG0006|consensus 28.5 40 0.00086 25.1 1.6 34 8-42 220-255 (446)
391 KOG4021|consensus 28.5 30 0.00065 23.7 0.9 21 34-55 97-117 (239)
392 KOG4451|consensus 28.5 31 0.00067 24.3 1.0 21 33-55 252-272 (286)
393 KOG1729|consensus 28.5 13 0.00028 27.2 -0.8 32 8-39 167-202 (288)
394 PF12907 zf-met2: Zinc-binding 28.1 14 0.00031 18.2 -0.5 9 10-18 2-10 (40)
395 PF14311 DUF4379: Domain of un 28.1 39 0.00084 17.6 1.2 6 47-52 50-55 (55)
396 PF04438 zf-HIT: HIT zinc fing 27.9 13 0.00027 17.0 -0.7 21 11-33 4-24 (30)
397 KOG1314|consensus 27.4 1.3E+02 0.0027 23.0 3.9 40 69-109 330-378 (414)
398 PF07649 C1_3: C1-like domain; 27.0 22 0.00048 15.9 0.1 9 11-19 2-10 (30)
399 COG5216 Uncharacterized conser 27.0 29 0.00063 18.6 0.5 27 27-54 26-52 (67)
400 cd01410 SIRT7 SIRT7: Eukaryoti 26.8 1.1E+02 0.0023 21.2 3.5 43 22-64 95-138 (206)
401 CHL00174 accD acetyl-CoA carbo 25.5 35 0.00076 25.2 0.9 9 11-19 40-48 (296)
402 PHA02893 hypothetical protein; 25.5 22 0.00047 20.6 -0.1 40 7-56 32-79 (88)
403 PF01286 XPA_N: XPA protein N- 25.4 39 0.00083 16.0 0.7 9 11-19 5-13 (34)
404 PRK14890 putative Zn-ribbon RN 25.2 68 0.0015 17.3 1.7 17 33-53 39-55 (59)
405 PF03884 DUF329: Domain of unk 25.1 17 0.00038 19.5 -0.5 10 47-56 3-12 (57)
406 PF00575 S1: S1 RNA binding do 25.1 1.3E+02 0.0028 16.3 3.0 35 131-167 2-38 (74)
407 PF03107 C1_2: C1 domain; Int 24.2 44 0.00095 15.0 0.8 9 11-19 2-10 (30)
408 COG0846 SIR2 NAD-dependent pro 24.1 85 0.0019 22.6 2.6 19 46-64 146-165 (250)
409 PRK00762 hypA hydrogenase nick 24.1 68 0.0015 20.2 1.9 8 47-54 93-100 (124)
410 KOG3580|consensus 24.0 1.1E+02 0.0023 25.3 3.3 48 117-164 509-563 (1027)
411 PF13465 zf-H2C2_2: Zinc-finge 24.0 31 0.00067 14.8 0.2 11 9-19 14-24 (26)
412 smart00531 TFIIE Transcription 23.7 41 0.0009 21.8 0.9 12 45-56 122-133 (147)
413 cd00729 rubredoxin_SM Rubredox 23.7 25 0.00055 16.5 -0.1 9 47-55 19-27 (34)
414 PF08940 DUF1918: Domain of un 23.7 92 0.002 16.8 2.0 31 131-161 20-50 (58)
415 PRK12496 hypothetical protein; 23.2 33 0.00072 22.8 0.4 24 33-56 130-153 (164)
416 PF13912 zf-C2H2_6: C2H2-type 23.2 26 0.00055 14.9 -0.1 10 10-19 2-11 (27)
417 COG1198 PriA Primosomal protei 23.2 34 0.00074 28.7 0.5 23 30-55 462-484 (730)
418 PF08201 BssC_TutF: BssC/TutF 23.1 1E+02 0.0022 16.4 2.1 40 48-95 3-42 (57)
419 PF02132 RecR: RecR protein; 23.1 22 0.00048 17.4 -0.4 10 10-19 18-27 (41)
420 cd01413 SIR2_Af2 SIR2_Af2: Arc 23.1 1.6E+02 0.0035 20.6 3.8 42 22-64 113-154 (222)
421 KOG1701|consensus 23.0 54 0.0012 25.5 1.4 10 47-56 395-404 (468)
422 PF14369 zf-RING_3: zinc-finge 22.9 48 0.001 15.7 0.8 11 9-19 21-31 (35)
423 COG4847 Uncharacterized protei 22.7 71 0.0015 19.1 1.6 35 8-43 5-41 (103)
424 KOG2684|consensus 22.7 86 0.0019 24.3 2.4 39 15-54 197-235 (412)
425 PF04606 Ogr_Delta: Ogr/Delta- 22.6 27 0.00058 17.7 -0.1 6 27-32 32-37 (47)
426 PRK05654 acetyl-CoA carboxylas 22.4 42 0.00091 24.7 0.8 10 10-19 28-37 (292)
427 smart00333 TUDOR Tudor domain. 22.4 1.3E+02 0.0027 15.4 3.5 22 131-153 3-24 (57)
428 COG1773 Rubredoxin [Energy pro 22.1 44 0.00096 17.8 0.6 12 5-16 32-43 (55)
429 COG0777 AccD Acetyl-CoA carbox 22.1 39 0.00085 24.6 0.6 31 10-40 29-65 (294)
430 COG1645 Uncharacterized Zn-fin 21.9 23 0.00051 22.6 -0.5 10 44-53 42-51 (131)
431 smart00661 RPOL9 RNA polymeras 21.9 35 0.00075 17.3 0.2 9 46-54 20-28 (52)
432 TIGR00515 accD acetyl-CoA carb 21.9 45 0.00098 24.5 0.9 10 10-19 27-36 (285)
433 PRK00241 nudC NADH pyrophospha 21.8 28 0.0006 25.0 -0.2 26 29-54 98-125 (256)
434 PF09845 DUF2072: Zn-ribbon co 21.1 43 0.00092 21.4 0.5 28 24-57 3-30 (131)
435 PRK04179 rpl37e 50S ribosomal 21.1 31 0.00066 18.8 -0.1 24 29-53 16-39 (62)
436 KOG2186|consensus 21.0 49 0.0011 23.7 0.9 11 9-19 3-13 (276)
437 PF13771 zf-HC5HC2H: PHD-like 20.6 61 0.0013 18.7 1.2 32 8-39 35-68 (90)
438 smart00778 Prim_Zn_Ribbon Zinc 20.5 47 0.001 16.0 0.5 8 10-17 4-11 (37)
439 PRK00398 rpoP DNA-directed RNA 20.4 41 0.00088 16.8 0.3 11 46-56 21-31 (46)
440 TIGR01206 lysW lysine biosynth 20.3 49 0.0011 17.5 0.6 10 47-56 3-12 (54)
441 PF05641 Agenet: Agenet domain 20.2 1.4E+02 0.003 16.3 2.5 22 75-96 1-25 (68)
442 COG4357 Zinc finger domain con 20.2 82 0.0018 18.9 1.5 26 32-57 64-91 (105)
443 COG2093 DNA-directed RNA polym 20.1 57 0.0012 17.9 0.8 9 47-55 19-27 (64)
444 KOG2130|consensus 20.0 2.1E+02 0.0046 21.6 3.9 24 126-153 262-285 (407)
No 1
>KOG4226|consensus
Probab=99.89 E-value=1.3e-23 Score=143.05 Aligned_cols=108 Identities=28% Similarity=0.622 Sum_probs=97.3
Q ss_pred eeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc------------------------
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK------------------------ 114 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~------------------------ 114 (173)
+.+.|.|.++.++||++.+|+.+.|+++..+|||+|.. .|+.||||++|+++..
T Consensus 110 AvVKf~Y~a~~eDELsLtKGtrv~vmEKssDGWWrG~~--ng~VGWFPSNYv~E~~ds~~gd~~s~~~~~~~A~a~n~~~ 187 (379)
T KOG4226|consen 110 AVVKFNYVAEREDELSLTKGTRVTVMEKSSDGWWRGSY--NGQVGWFPSNYVTEEVDSAAGDSPSFLSLRKAASASNGQG 187 (379)
T ss_pred eEEEEeeccccccccccccCcEEEEEEeccCcceeccc--CCeeccccccceehhccccccCCccceecchhhcccCCCC
Confidence 56678899999999999999999999999999999995 4999999999998641
Q ss_pred ------ceecccCCCCCCcceeecCCCEEEEEEcC--CCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 115 ------FRCIVPYPPNSEYELELRVGDLIYVHKKR--DDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 115 ------~~~~~~~~~~~~~el~~~~g~~v~v~~~~--~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
+.++|+|.+.+.+||+|++||.+.++.+. ++.||.++.. .|++|+||.+||..+
T Consensus 188 s~vl~vVvaLYsFsssndeELsFeKGerleivd~Pe~DPdWwkarn~-~G~vGLVPrNYv~vl 249 (379)
T KOG4226|consen 188 SRVLHVVVALYSFSSSNDEELSFEKGERLEIVDKPENDPDWWKARNA-RGQVGLVPRNYVVVL 249 (379)
T ss_pred ceEEEEEEEEecccCCChhhcccccCceeEeccCCCCCchHHhhccc-CCccceeecceEEEe
Confidence 45789999999999999999999998865 6789999987 899999999999875
No 2
>KOG1029|consensus
Probab=99.84 E-value=6.6e-22 Score=150.89 Aligned_cols=109 Identities=27% Similarity=0.610 Sum_probs=98.8
Q ss_pred eeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCc---cCcCCCccccCC---------------cceeccc
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQR---SGVFPGNYVAPA---------------KFRCIVP 120 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~---~G~~p~~~v~~~---------------~~~~~~~ 120 (173)
+.++.+|.+..+..|++..|++|.|.++...|||.|+....|+ .||||.+||+.+ ++.++||
T Consensus 982 AqVia~yvAs~peQLsla~GqlIlIrkKn~sGWWeGELqarGkkrq~GWFPa~yVKvL~~~s~raTPa~~~v~qviamYd 1061 (1118)
T KOG1029|consen 982 AQVIADYVASGPEQLSLAPGQLILIRKKNASGWWEGELQARGKKRQIGWFPAEYVKVLEPGSGRATPATRPVCQVIAMYD 1061 (1118)
T ss_pred hhhhhhhhccCchhccccCccEEEEEecCCCccchhhHhhcCCccccccccHHHhhhccCCCCcCCCCCCccceeEEeec
Confidence 5567899999999999999999999999999999999877664 499999999865 2558999
Q ss_pred CCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 121 YPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 121 ~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
|.+++++||+|++|++|.|+.+.++.||.|... |++|+||+|||.+.
T Consensus 1062 Y~AqndDELsF~kgdiI~VlnkdepeWW~Ge~n--g~sGLFPSNYV~k~ 1108 (1118)
T KOG1029|consen 1062 YEAQNDDELSFKKGDIINVLNKDEPEWWSGERN--GKSGLFPSNYVQKQ 1108 (1118)
T ss_pred cccCCcccccccCCCEEEecCCCChhhhccccc--CccccCcccccccc
Confidence 999999999999999999999999999999998 99999999999653
No 3
>KOG4226|consensus
Probab=99.84 E-value=7.2e-21 Score=129.77 Aligned_cols=108 Identities=27% Similarity=0.598 Sum_probs=95.6
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc-----------------------
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK----------------------- 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~----------------------- 114 (173)
..+|.++|.++...+|.+++++.+.+++. ...||+.+ ++.++.||+|++||+...
T Consensus 6 ~vvak~dy~aq~~qeldikkner~~lldd-sk~wwrvr-ns~n~tgyvpsnyverkn~~~~~si~knlkd~~g~kt~~k~ 83 (379)
T KOG4226|consen 6 IVVAKWDYTAQQDQELDIKKNERLWLLDD-SKTWWRVR-NSANRTGYVPSNYVERKNSLKKGSIVKNLKDTLGLKTRRKT 83 (379)
T ss_pred EEEEEechhcccchhccccccceEEEEcC-Cccceeee-cccccCCcccchhhhcccchhhhHHHHhhhhccccccccCC
Confidence 35688999999999999999999987775 56799999 578999999999998531
Q ss_pred --------------------------ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 115 --------------------------FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 115 --------------------------~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
+.+.+.|.++.++||+|.+|..|.|.++..+|||+|... |+.||||++||.+
T Consensus 84 s~~~~~~sp~~d~~~ppd~~~~~~t~AvVKf~Y~a~~eDELsLtKGtrv~vmEKssDGWWrG~~n--g~VGWFPSNYv~E 161 (379)
T KOG4226|consen 84 SARDASPSPSTDAEYPPDRIYDLNTPAVVKFNYVAEREDELSLTKGTRVTVMEKSSDGWWRGSYN--GQVGWFPSNYVTE 161 (379)
T ss_pred CccccCCCCCccccCCcchhhhcCCceEEEEeeccccccccccccCcEEEEEEeccCcceecccC--Ceeccccccceeh
Confidence 455678999999999999999999999999999999997 9999999999987
Q ss_pred e
Q psy9669 169 S 169 (173)
Q Consensus 169 ~ 169 (173)
.
T Consensus 162 ~ 162 (379)
T KOG4226|consen 162 E 162 (379)
T ss_pred h
Confidence 4
No 4
>KOG4225|consensus
Probab=99.82 E-value=2.9e-20 Score=134.05 Aligned_cols=110 Identities=36% Similarity=0.787 Sum_probs=102.0
Q ss_pred ceeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc----------------------
Q psy9669 57 PEYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK---------------------- 114 (173)
Q Consensus 57 ~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~---------------------- 114 (173)
..++++|+|.++...||.|.+||+|.|+.+.+..|+.|+.+ |+.|+||.+||+.+.
T Consensus 231 ~~aralf~F~~qt~kEL~~~kGDIVyI~rkvD~nWyeGEhh--Gr~GifP~sYvE~~~~~e~~qP~~~~P~q~~~~g~a~ 308 (489)
T KOG4225|consen 231 RAARALFDFEAQTPKELPFNKGDIVYILRKVDQNWYEGEHH--GRVGIFPASYVEILTPREKAQPARPPPQQVLEQGEAI 308 (489)
T ss_pred chhhheeccccCCccccccCCCCEEEEEeeccCceeeeeec--ceecceechheeecCcccccCcCCCCccccccccccc
Confidence 34789999999999999999999999999999999999966 999999999998541
Q ss_pred --------------------------------------------------------------------------------
Q psy9669 115 -------------------------------------------------------------------------------- 114 (173)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (173)
T Consensus 309 A~y~F~~~s~~Els~~kge~v~L~r~vd~nw~eG~i~g~~rqgifP~SyVev~~~~~~~~~~~~~~~p~~p~~s~~~~~~ 388 (489)
T KOG4225|consen 309 AKYNFNADSPVELSLRKGERVTLTRQVDENWYEGKIPGTNRQGIFPASYVEVIKSPKLELPLDYPDLPIPPRSSNELRPL 388 (489)
T ss_pred ccCCCCCCCchhcccccCceEEEEEeccCceeeccccccccccccchhHhhhhhccccccccccCCCCCCcccchhhccc
Confidence
Q ss_pred ----------------------------------------------ceecccCCCCCCcceeecCCCEEEEEEcCCCCee
Q psy9669 115 ----------------------------------------------FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWY 148 (173)
Q Consensus 115 ----------------------------------------------~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~ 148 (173)
++++|.|.+++++||.|.+||+|.|.++.++||+
T Consensus 389 ~~~s~~~~~~~~~t~~~~q~~~n~~qepr~~~~~~~~~qt~~~~l~yrAly~Y~pqnedeLEl~egDii~VmeKcddgWf 468 (489)
T KOG4225|consen 389 SEDSMKNAWPQTHTQSSTQPPENFPQEPRVTEKNDAHSQTSSEPLKYRALYSYRPQNEDELELREGDIIDVMEKCDDGWF 468 (489)
T ss_pred ccchhhhcccccccccccCCCCCcccccccccccCcccCCCCCcccceeccccCCCCchhheeccCCEEeeeecccCcce
Confidence 5788999999999999999999999999999999
Q ss_pred EEEeCCCCcEEEecCCCeEE
Q psy9669 149 KGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 149 ~~~~~~~g~~G~~P~~~v~~ 168 (173)
.|+..++|+.|.||.+||+.
T Consensus 469 vGts~rtg~fGtFPgnyV~~ 488 (489)
T KOG4225|consen 469 VGTSRRTGKFGTFPGNYVKR 488 (489)
T ss_pred eccceecccccccCcccccc
Confidence 99888889999999999975
No 5
>KOG4348|consensus
Probab=99.81 E-value=5.8e-21 Score=137.75 Aligned_cols=110 Identities=35% Similarity=0.789 Sum_probs=98.7
Q ss_pred CceeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc---------------------
Q psy9669 56 VPEYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK--------------------- 114 (173)
Q Consensus 56 i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~--------------------- 114 (173)
-..+++.|.|.++..++|.|..||+|.++....+|||.|..+ |+.|+||+|+|..+.
T Consensus 100 ~r~c~v~f~Y~pqndDELelkVGDiIeli~eVEeGWw~G~Ln--gk~GmFPsNFVkel~~~sde~~~aqd~~~S~stlag 177 (627)
T KOG4348|consen 100 ARICVVTFAYSPQNDDELELKVGDIIELISEVEEGWWKGKLN--GKVGMFPSNFVKELPTPSDESAAAQDPAASASTLAG 177 (627)
T ss_pred ceeEEEEEeecCCCCceeeeeeccHHHhhhHhhhhhhhceec--CcccccchhhceecCCCCcchhhhcCcccchhhhcC
Confidence 345788999999999999999999999999999999999977 999999999998641
Q ss_pred --------------------------------------------------------------------------------
Q psy9669 115 -------------------------------------------------------------------------------- 114 (173)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (173)
T Consensus 178 st~~~ps~s~~SE~a~gsv~qPKkI~g~gfgdIfk~~pVklr~rt~~sete~~p~~~~i~~~l~asT~s~d~tktd~~~~ 257 (627)
T KOG4348|consen 178 STARTPSKSIGSEVAMGSVTQPKKIDGTGFGDIFKPAPVKLRLRTKFSETEKKPEKPFISSALSASTQSVDITKTDTAET 257 (627)
T ss_pred cCCCCCcccccchhhcccccCcccccCCCcccccCCccceecccccccccccccccchhhhccCccccCccccccccccc
Confidence
Q ss_pred ------ceecccCCCCCCcceeecCCCEEEEEEcC--CCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 115 ------FRCIVPYPPNSEYELELRVGDLIYVHKKR--DDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 115 ------~~~~~~~~~~~~~el~~~~g~~v~v~~~~--~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
+++.+.|.+++++||.+++||++.++.+. +.|||.|... |+.|.||.|||+.+
T Consensus 258 tKtKeycrv~F~Ye~qndDELt~KEgdil~lItK~cgdaGWweGELn--Gk~GvFPDNFv~lv 318 (627)
T KOG4348|consen 258 TKTKEYCRVKFVYEPQNDDELTLKEGDILILITKNCGDAGWWEGELN--GKKGVFPDNFVELV 318 (627)
T ss_pred hhhhhheeeeeeecCCCccceeeccccEEEEecccccccceeeeeec--CccccCCchhhhhc
Confidence 56678899999999999999999988765 5699999998 99999999998754
No 6
>KOG4348|consensus
Probab=99.80 E-value=4.2e-21 Score=138.45 Aligned_cols=109 Identities=38% Similarity=0.826 Sum_probs=99.1
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc-----------------------
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK----------------------- 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~----------------------- 114 (173)
.+++.|+|.++..++|.+..|++|..+.+.++|||.|+.| |++|.||.++|.+.+
T Consensus 3 d~ive~dy~a~hddelti~vgeii~nvkk~e~gw~egeln--grrg~fpdnfV~eik~e~k~d~l~nk~~r~~l~q~~s~ 80 (627)
T KOG4348|consen 3 DYIVEYDYDAVHDDELTIRVGEIIRNVKKLEEGWLEGELN--GRRGQFPDNFVVEIKVEFKDDDLVNKLSRDSLVQMTSR 80 (627)
T ss_pred ceeeecccccccCceeeEeHHHHHHhhhhhccceeeceec--cccccCCchhhhhhhhhcccccccccccccchhhcccC
Confidence 4678899999999999999999999888889999999976 999999999987531
Q ss_pred ----------------------ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 115 ----------------------FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 115 ----------------------~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
+.+.|.|.+++++||.|+.||+|.++.++..|||.|... |+.|.||+|||.+..
T Consensus 81 n~l~~~q~v~rtn~~~q~~~r~c~v~f~Y~pqndDELelkVGDiIeli~eVEeGWw~G~Ln--gk~GmFPsNFVkel~ 156 (627)
T KOG4348|consen 81 NPLTVHQQVERTNPPPQPQARICVVTFAYSPQNDDELELKVGDIIELISEVEEGWWKGKLN--GKVGMFPSNFVKELP 156 (627)
T ss_pred CCccccCcccccCCCCCccceeEEEEEeecCCCCceeeeeeccHHHhhhHhhhhhhhceec--CcccccchhhceecC
Confidence 556788999999999999999999999999999999998 999999999998753
No 7
>KOG2996|consensus
Probab=99.77 E-value=6.3e-19 Score=131.47 Aligned_cols=164 Identities=24% Similarity=0.494 Sum_probs=120.1
Q ss_pred cccCCccccccccc----cCCCeeecCCCCCChhhHHHHHhccc-------------------ccCCCCCCCCCceeecc
Q psy9669 6 LNDLLECSVCLDRL----DTSSKVLPCQHTFCKKCLEEIVSSHK-------------------ELRCPECPTFVPEYIAI 62 (173)
Q Consensus 6 ~~~~~~C~iC~~~~----~~~~~~~~Cgh~fc~~Cl~~~~~~~~-------------------~~~CP~Cr~~i~~~~~~ 62 (173)
++.-..|.+|++++ ++.+.+..||-..++.|+.+.-.... .+.----+..++...++
T Consensus 531 F~~~tsCkvC~mllrGtfYQGY~C~~c~~~ahkecl~~vp~cgr~~q~~~Gt~k~~~k~~~~~r~t~~rn~~GLpkm~~v 610 (865)
T KOG2996|consen 531 FKNTTSCKVCQMLLRGTFYQGYKCEKCGADAHKECLGRVPPCGRYLQFAKGTRKEVIKMTGHNRFTNKRNRPGLPKMDVV 610 (865)
T ss_pred ccCCcchHHHHHHhhhhhhcceeeeeccccHHHHhccCCCCcccccccCCcchhhhhhhcCccccccccCCCCCcchhhh
Confidence 45678999999875 47889999999999999965432100 00000001122334444
Q ss_pred CCCCC------CCccccceecCCEEEEEEEc-CCCEEEEEeCCCCccCcCCCccccCCc---------------------
Q psy9669 63 YPYKP------QKDDELELRRGSVYTVTERC-QDGWFKGTSQRTQRSGVFPGNYVAPAK--------------------- 114 (173)
Q Consensus 63 ~~~~~------~~~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~~~~G~~p~~~v~~~~--------------------- 114 (173)
..|.+ .....+.+..|+++.++..+ ...||.|+.-.++..|+||++.|.+..
T Consensus 611 q~ysg~p~Pag~igP~l~~~~gdvlel~~~d~~s~~w~gr~~~sr~sg~fpss~vkp~~~vpr~~~~~~~d~s~~~WyaG 690 (865)
T KOG2996|consen 611 QNYSGIPPPAGSIGPRLVLQEGDVLELLKGDAESSWWEGRNHGSRESGNFPSSTVKPCPSVPRQQDYVPTDYSEFPWYAG 690 (865)
T ss_pred hccCCCCCCCccCCCceEecCCceeehhcCCCCCcccccCCccCCccCCCCccccCcCCCCCCCCCCCccchhhhhhhcc
Confidence 44433 22244778899999877654 456999998778899999999887641
Q ss_pred --------------------------------------------------------------------------------
Q psy9669 115 -------------------------------------------------------------------------------- 114 (173)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (173)
T Consensus 691 ~MERaqaes~Lk~~~ngT~LVR~r~kea~e~AISikynnevKHikI~~~dg~~~i~E~k~F~sl~ELVeyYq~~sLke~F 770 (865)
T KOG2996|consen 691 EMERAQAESTLKNRPNGTYLVRYRTKEAKEFAISIKYNNEVKHIKIETNDGKVHITEDKKFNSLVELVEYYQSHSLKEIF 770 (865)
T ss_pred hHhhhhhhhHhhcCCCceEEEEecccchhheeEEEEeccccceEEEEecCCeEEechhhhhhhHHHHHHHHHhccHHHHH
Confidence
Q ss_pred -------------------------------------ceecccCCCCCCcceeecCCCEEEEEEcC--CCCeeEEEeCCC
Q psy9669 115 -------------------------------------FRCIVPYPPNSEYELELRVGDLIYVHKKR--DDGWYKGTLQRT 155 (173)
Q Consensus 115 -------------------------------------~~~~~~~~~~~~~el~~~~g~~v~v~~~~--~~~w~~~~~~~~ 155 (173)
+++.|+|.+....+|+|++||+|.++.+. +.|||+|...
T Consensus 771 k~LDTtLk~Pyke~e~sa~~~~~~~~~sv~s~~~~g~AvarYdf~ard~~eLSlk~GDvV~i~~k~g~d~GWWkGevn-- 848 (865)
T KOG2996|consen 771 KALDTTLKFPYKEPEHSAGQRGNRAGNSVLSPKVVGTAVARYDFCARDMRELSLKEGDVVKIYDKVGEDQGWWKGEVN-- 848 (865)
T ss_pred HHhhhhhcCCCcChhhhhhhccccccccccCcceeeeeeeccccCCCchhhcccccCCEEEEehhccccCceecceec--
Confidence 45668888888899999999999998876 5799999998
Q ss_pred CcEEEecCCCeEEecc
Q psy9669 156 GRTGLFPASFMKQSDF 171 (173)
Q Consensus 156 g~~G~~P~~~v~~~~~ 171 (173)
|+.||||.+||++.+.
T Consensus 849 grvGwFPstYVee~~~ 864 (865)
T KOG2996|consen 849 GRVGWFPSTYVEEDDP 864 (865)
T ss_pred CcccccccccccccCC
Confidence 9999999999998765
No 8
>KOG1029|consensus
Probab=99.70 E-value=7.8e-18 Score=128.99 Aligned_cols=111 Identities=31% Similarity=0.661 Sum_probs=94.8
Q ss_pred CceeeccCCCCCCCccccceecCCEEEEEEE--cCCCEEEEEeCCCCccCcCCCccccCCc-------------------
Q psy9669 56 VPEYIAIYPYKPQKDDELELRRGSVYTVTER--CQDGWFKGTSQRTQRSGVFPGNYVAPAK------------------- 114 (173)
Q Consensus 56 i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~--~~~~w~~~~~~~~~~~G~~p~~~v~~~~------------------- 114 (173)
+-.++|+|+|.+...++++|..||+|.|... ..+||..|.. .|+.||||.+|++.+.
T Consensus 693 ~vkyrAly~FeaRs~dEisf~pGDII~V~esq~aEPGWlaGel--~gktGWFPenyvEki~~~e~p~~v~Pv~~l~~~~~ 770 (1118)
T KOG1029|consen 693 TVKYRALYPFEARSHDEISFEPGDIIIVFESQAAEPGWLAGEL--RGKTGWFPENYVEKIPAVETPGGVPPVQNLPPTMT 770 (1118)
T ss_pred eEEEeeecccccCCcccccccCCCEEEEehhccCCccccccee--ccccCcCcHHHHhhcccCCCCCCCCchhcCCCCCC
Confidence 4468899999999999999999999987765 4678999995 4999999999998531
Q ss_pred ---------------------------------------------ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeE
Q psy9669 115 ---------------------------------------------FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYK 149 (173)
Q Consensus 115 ---------------------------------------------~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~ 149 (173)
+.+.|.+.+...+.|+|.+||+|.|+++. .-||.
T Consensus 771 psas~nq~a~~ad~~~~~~n~~~~t~~aA~p~~tapg~~eve~lq~iA~y~wrakke~dLsFskgd~I~Vlekq-emwW~ 849 (1118)
T KOG1029|consen 771 PSASVNQIAVVADTKNESANAMGLTEGAAPPALTAPGQGEVEILQAIALYPWRAKKENDLSFSKGDTITVLEKQ-EMWWF 849 (1118)
T ss_pred cccccccceeecccccchhhccCCCCCCCCccccCCCchhhhhhhHHhhccccccccccccccCCCeeeeehhc-cceec
Confidence 34567888888999999999999999984 55889
Q ss_pred EEeCCCCcEEEecCCCeEEecc
Q psy9669 150 GTLQRTGRTGLFPASFMKQSDF 171 (173)
Q Consensus 150 ~~~~~~g~~G~~P~~~v~~~~~ 171 (173)
|... |..||||.+||++++.
T Consensus 850 G~v~--g~~GwFPksYVk~~~~ 869 (1118)
T KOG1029|consen 850 GEVA--GEIGWFPKSYVKEVGA 869 (1118)
T ss_pred cccc--CccCcCcHHhhhhccc
Confidence 9887 9999999999997654
No 9
>KOG4792|consensus
Probab=99.67 E-value=7.7e-17 Score=107.39 Aligned_cols=122 Identities=25% Similarity=0.536 Sum_probs=99.2
Q ss_pred cCCCCCCCCC----------ce-eeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc-
Q psy9669 47 LRCPECPTFV----------PE-YIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK- 114 (173)
Q Consensus 47 ~~CP~Cr~~i----------~~-~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~- 114 (173)
+.=|.||... .. ..++++|.+...++|.|++|+++.|+++.++.||..+ ++.|+.|++|..||+.+.
T Consensus 104 Li~p~~r~~~~~~~~~~~~~~~~vr~~fdF~G~deeDLPFkkGeiL~I~~K~eeqWW~Ar-ns~Gk~GmIPvpYVe~~~~ 182 (293)
T KOG4792|consen 104 LIEPAKRSRQGSGVILRQEEAEYVRALFDFNGNDEEDLPFKKGEILRIRDKPEEQWWNAR-NSEGKRGMIPVPYVEKYRP 182 (293)
T ss_pred ccccccccccccCcccchhhhhheeeeeccCCCccccCCcccCcEEEEecCcHHHhhhhh-ccCCcccceechHHHhhhh
Confidence 3457777544 12 3468999999999999999999999999999999999 588999999999998541
Q ss_pred -----------------------------------------------ceecccCCCCCC--cceeecCCCEEEEEEcCCC
Q psy9669 115 -----------------------------------------------FRCIVPYPPNSE--YELELRVGDLIYVHKKRDD 145 (173)
Q Consensus 115 -----------------------------------------------~~~~~~~~~~~~--~el~~~~g~~v~v~~~~~~ 145 (173)
+++.++..+... ..|.++.|++|.|.+...+
T Consensus 183 ~~~~~~~~~~ga~e~si~q~~~g~e~~s~a~~s~~~~l~l~~~lPa~Arv~q~RVPnAYDkTaL~levGdiVkVTk~nin 262 (293)
T KOG4792|consen 183 ASASVSALIGGASESSIPQSGGGAERFSSASTSSDTPLPLQQNLPAYARVIQKRVPNAYDKTALALEVGDIVKVTKKNIN 262 (293)
T ss_pred hhcccccccCCcccccCCCCCCCCCCCCCCCcccCCcCccccCCChheeeehhcCCCccChhhhhhhcCcEEEEEeeccC
Confidence 233333333332 3689999999999999999
Q ss_pred CeeEEEeCCCCcEEEecCCCeEEecc
Q psy9669 146 GWYKGTLQRTGRTGLFPASFMKQSDF 171 (173)
Q Consensus 146 ~w~~~~~~~~g~~G~~P~~~v~~~~~ 171 (173)
|.|.++.. |+.|.||.+||+..+.
T Consensus 263 GqwegEln--Gk~G~fPfThvrf~d~ 286 (293)
T KOG4792|consen 263 GQWEGELN--GKIGHFPFTHVRFTDV 286 (293)
T ss_pred ceeeeeec--CccccccceeEEeecc
Confidence 99999998 9999999999987654
No 10
>PF14604 SH3_9: Variant SH3 domain; PDB: 2CRE_A 2E5K_A 2CT3_A 2DE0_X 2D8H_A 2DA9_A 2X3X_E 2X3W_D 2KRN_A 2ED0_A ....
Probab=99.59 E-value=2.9e-15 Score=78.69 Aligned_cols=49 Identities=43% Similarity=0.847 Sum_probs=43.5
Q ss_pred ecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeE
Q psy9669 117 CIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMK 167 (173)
Q Consensus 117 ~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~ 167 (173)
++++|.++.++||+|++||+|.++.+.+++||.++.. |+.|+||++||+
T Consensus 1 Al~~y~~~~~dELs~~~Gd~i~v~~~~~~~W~~g~~~--g~~G~~P~~yV~ 49 (49)
T PF14604_consen 1 ALYDYEAQDPDELSFKKGDVITVLEKSDDGWWYGRNT--GRTGLFPANYVE 49 (49)
T ss_dssp ESSCBCSSSTTB-EB-TTEEEEEEEESSTSEEEEEET--TEEEEEEGGGEE
T ss_pred CCccCCCCCcCEeeEcCCCEEEEEEeCCCCEEEEEEC--CEEEEECHHhCC
Confidence 4689999999999999999999999989999999975 999999999985
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.58 E-value=7.5e-16 Score=77.92 Aligned_cols=40 Identities=43% Similarity=1.152 Sum_probs=31.4
Q ss_pred cccccccccCCCeeecCCCCCChhhHHHHHhcccc--cCCCCC
Q psy9669 12 CSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKE--LRCPEC 52 (173)
Q Consensus 12 C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~--~~CP~C 52 (173)
||||+++| .+|+.++|||+||+.||.++...... +.||.|
T Consensus 1 CpiC~~~~-~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF-KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB--SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh-CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999 89999999999999999999886433 579987
No 12
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.49 E-value=1.6e-14 Score=95.30 Aligned_cols=52 Identities=29% Similarity=0.731 Sum_probs=43.9
Q ss_pred cccCCccccccccccCCCeeecCCCCCChhhHHHHHhc--------------ccccCCCCCCCCCce
Q psy9669 6 LNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSS--------------HKELRCPECPTFVPE 58 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~--------------~~~~~CP~Cr~~i~~ 58 (173)
..++++|+||++.+ ..++++.|||.||..||..|+.. .+..+||+||..+..
T Consensus 15 ~~~~~~CpICld~~-~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 15 SGGDFDCNICLDQV-RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCCccCCccCCCcC-CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 45789999999999 89999999999999999999752 124689999988754
No 13
>PF14604 SH3_9: Variant SH3 domain; PDB: 2CRE_A 2E5K_A 2CT3_A 2DE0_X 2D8H_A 2DA9_A 2X3X_E 2X3W_D 2KRN_A 2ED0_A ....
Probab=99.46 E-value=8.7e-14 Score=73.04 Aligned_cols=49 Identities=49% Similarity=0.994 Sum_probs=43.5
Q ss_pred ccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCcccc
Q psy9669 61 AIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVA 111 (173)
Q Consensus 61 ~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~ 111 (173)
|+++|.++..++|+|.+||.+.++.+.+++||.++. +|+.|+||++||+
T Consensus 1 Al~~y~~~~~dELs~~~Gd~i~v~~~~~~~W~~g~~--~g~~G~~P~~yV~ 49 (49)
T PF14604_consen 1 ALYDYEAQDPDELSFKKGDVITVLEKSDDGWWYGRN--TGRTGLFPANYVE 49 (49)
T ss_dssp ESSCBCSSSTTB-EB-TTEEEEEEEESSTSEEEEEE--TTEEEEEEGGGEE
T ss_pred CCccCCCCCcCEeeEcCCCEEEEEEeCCCCEEEEEE--CCEEEEECHHhCC
Confidence 578999999999999999999999999999999995 7999999999974
No 14
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=99.44 E-value=2.2e-13 Score=73.61 Aligned_cols=53 Identities=40% Similarity=0.805 Sum_probs=45.7
Q ss_pred ceecccCCCCCCcceeecCCCEEEEE-EcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVH-KKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~-~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
++++.+|.+..+++|++.+||+|.++ +...++||.++.. |+.||||.++|+++
T Consensus 2 ~~a~~d~~~~~~~~Ls~~~Gd~i~v~~~~~~~~ww~~~~~--g~~G~~P~~~v~~~ 55 (55)
T PF07653_consen 2 YRAIFDYVAEDPDELSFKKGDVIEVLGEKDDDGWWLGENN--GRRGWFPSSYVEEI 55 (55)
T ss_dssp EEESSSBESSSTTB-EB-TTEEEEEEEEECSTSEEEEEET--TEEEEEEGGGEEEH
T ss_pred EEEeEEECCCCCCceEEecCCEEEEEEeecCCCEEEEEEC--CcEEEEcHHHEEEC
Confidence 46788999999999999999999999 7777899999995 99999999999874
No 15
>KOG0823|consensus
Probab=99.39 E-value=2.2e-13 Score=91.62 Aligned_cols=54 Identities=28% Similarity=0.660 Sum_probs=46.2
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhcc-cccCCCCCCCCCceeec
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSH-KELRCPECPTFVPEYIA 61 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~-~~~~CP~Cr~~i~~~~~ 61 (173)
...+.|-||++.- ++|+++.|||.||..||.+|++.+ +...||+|++.+....+
T Consensus 45 ~~~FdCNICLd~a-kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 45 GGFFDCNICLDLA-KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCceeeeeecccc-CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 5679999999999 899999999999999999999954 33568999988876443
No 16
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=99.38 E-value=9.6e-13 Score=69.02 Aligned_cols=48 Identities=35% Similarity=0.693 Sum_probs=43.5
Q ss_pred eecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecC
Q psy9669 116 RCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPA 163 (173)
Q Consensus 116 ~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~ 163 (173)
+++++|.+...++|++++||.+.|++..+++||.++...+++.|+||+
T Consensus 1 ~Alydf~~~~~~eLs~~~Gd~i~v~~~~~~~Ww~~~~~~~~~~G~vP~ 48 (48)
T PF00018_consen 1 RALYDFDAEDPDELSFKKGDIIEVLEKSDDGWWKVRNESTGKEGWVPS 48 (48)
T ss_dssp EESSCBETSSTTBSEB-TTEEEEEEEESSSSEEEEEETTTTEEEEEEG
T ss_pred CCCeeeCCCCCCEEeEECCCEEEEEEecCCCEEEEEECCCCcEEEeeC
Confidence 478999999999999999999999999999999999996789999995
No 17
>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=99.38 E-value=9.2e-14 Score=71.52 Aligned_cols=41 Identities=34% Similarity=0.966 Sum_probs=35.1
Q ss_pred cccccccccc--CCCeeecCCCCCChhhHHHHHhcccccCCCCCC
Q psy9669 11 ECSVCLDRLD--TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 11 ~C~iC~~~~~--~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
+|+||++.+. ...+.++|||.||.+||.+|+..+ .+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~--~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN--NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS--SB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC--CcCCccC
Confidence 6999999884 577889999999999999999875 4899996
No 18
>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=99.37 E-value=1.6e-13 Score=68.64 Aligned_cols=38 Identities=45% Similarity=1.226 Sum_probs=31.7
Q ss_pred cccccccccCCC-eeecCCCCCChhhHHHHHhcccccCCCCC
Q psy9669 12 CSVCLDRLDTSS-KVLPCQHTFCKKCLEEIVSSHKELRCPEC 52 (173)
Q Consensus 12 C~iC~~~~~~~~-~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~C 52 (173)
|+||++.+ ..+ +.++|||.||.+|+.+|+..+ .+||+|
T Consensus 1 C~iC~~~~-~~~~~~~~CGH~fC~~C~~~~~~~~--~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL-RDPVVVTPCGHSFCKECIEKYLEKN--PKCPVC 39 (39)
T ss_dssp ETTTTSB--SSEEEECTTSEEEEHHHHHHHHHCT--SB-TTT
T ss_pred CCCCCCcc-cCcCEECCCCCchhHHHHHHHHHCc--CCCcCC
Confidence 89999999 556 789999999999999999873 689987
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.35 E-value=2.8e-13 Score=68.70 Aligned_cols=40 Identities=35% Similarity=1.131 Sum_probs=35.3
Q ss_pred cccccccccCCCe-eecCCCCCChhhHHHHHhcccccCCCCC
Q psy9669 12 CSVCLDRLDTSSK-VLPCQHTFCKKCLEEIVSSHKELRCPEC 52 (173)
Q Consensus 12 C~iC~~~~~~~~~-~~~Cgh~fc~~Cl~~~~~~~~~~~CP~C 52 (173)
|+||.+.+ ..+. +++|||.||..|+.+|+...+...||+|
T Consensus 1 C~iC~~~~-~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF-EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC-SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccc-cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999 5665 9999999999999999996566789987
No 20
>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=99.34 E-value=4.8e-13 Score=70.74 Aligned_cols=47 Identities=30% Similarity=0.866 Sum_probs=39.0
Q ss_pred cCCccccccccccCCCeeecCCCC-CChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 8 DLLECSVCLDRLDTSSKVLPCQHT-FCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~Cgh~-fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
++..|.||++.. ..+.+++|||. ||..|+.+++.. ...||+||.++.
T Consensus 1 ~~~~C~iC~~~~-~~~~~~pCgH~~~C~~C~~~~~~~--~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENP-RDVVLLPCGHLCFCEECAERLLKR--KKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSB-SSEEEETTCEEEEEHHHHHHHHHT--TSBBTTTTBB-S
T ss_pred CcCCCccCCccC-CceEEeCCCChHHHHHHhHHhccc--CCCCCcCChhhc
Confidence 357899999998 78999999999 999999999984 357999998764
No 21
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.30 E-value=5.7e-13 Score=67.25 Aligned_cols=38 Identities=37% Similarity=1.125 Sum_probs=23.3
Q ss_pred ccccccccc---CCCeeecCCCCCChhhHHHHHhcc--cccCCC
Q psy9669 12 CSVCLDRLD---TSSKVLPCQHTFCKKCLEEIVSSH--KELRCP 50 (173)
Q Consensus 12 C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~~~~--~~~~CP 50 (173)
||||.+ +. ++|+.++|||+||.+||+++...+ +.++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 62 358999999999999999999854 467887
No 22
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.29 E-value=2.8e-12 Score=88.31 Aligned_cols=49 Identities=24% Similarity=0.672 Sum_probs=39.5
Q ss_pred ccCCccccccccccCC-------CeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 7 NDLLECSVCLDRLDTS-------SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~-------~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
.++.+|+||++.+..+ +++.+|+|.||..||.+|+... .+||+||..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~--~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK--NTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC--CCCCCCCCEee
Confidence 4578999999976433 2566899999999999999854 47999997664
No 23
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=99.28 E-value=4.2e-12 Score=66.55 Aligned_cols=48 Identities=31% Similarity=0.720 Sum_probs=43.7
Q ss_pred eccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCC
Q psy9669 60 IAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPG 107 (173)
Q Consensus 60 ~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~ 107 (173)
+|+|+|.+...++|++.+||.+.|+++.+.+||.++...+++.|+||+
T Consensus 1 ~Alydf~~~~~~eLs~~~Gd~i~v~~~~~~~Ww~~~~~~~~~~G~vP~ 48 (48)
T PF00018_consen 1 RALYDFDAEDPDELSFKKGDIIEVLEKSDDGWWKVRNESTGKEGWVPS 48 (48)
T ss_dssp EESSCBETSSTTBSEB-TTEEEEEEEESSSSEEEEEETTTTEEEEEEG
T ss_pred CCCeeeCCCCCCEEeEECCCEEEEEEecCCCEEEEEECCCCcEEEeeC
Confidence 478999999999999999999999999999999999877789999995
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.26 E-value=3.2e-12 Score=94.06 Aligned_cols=51 Identities=29% Similarity=0.760 Sum_probs=45.1
Q ss_pred hhcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 4 WTLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
+.+++.+.|+||.+.+ ..|++++|||.||..||.+++... ..||.|+..+.
T Consensus 21 ~~Le~~l~C~IC~d~~-~~PvitpCgH~FCs~CI~~~l~~~--~~CP~Cr~~~~ 71 (397)
T TIGR00599 21 YPLDTSLRCHICKDFF-DVPVLTSCSHTFCSLCIRRCLSNQ--PKCPLCRAEDQ 71 (397)
T ss_pred cccccccCCCcCchhh-hCccCCCCCCchhHHHHHHHHhCC--CCCCCCCCccc
Confidence 6788999999999999 788899999999999999999764 37999997665
No 25
>KOG2070|consensus
Probab=99.26 E-value=1.8e-12 Score=95.70 Aligned_cols=57 Identities=33% Similarity=0.734 Sum_probs=52.8
Q ss_pred CCcceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 112 PAKFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 112 ~~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
++.+++.+.|...+.+||+|.+||+|.|....++|||.|+.. |++||||.+||.++.
T Consensus 17 pLvvrAkf~F~gsNnDELsf~KgDvItVTq~eeGGWWEGTln--g~TGWFPsnYV~eik 73 (661)
T KOG2070|consen 17 PLVVRAKFNFQGSNNDELSFSKGDVITVTQVEEGGWWEGTLN--GRTGWFPSNYVREIK 73 (661)
T ss_pred ceEEEEEeecccCCCceeccccCCEEEEEEeccCcceecccc--CccCccchHHHHHHh
Confidence 456788999999999999999999999999999999999998 999999999998764
No 26
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=99.25 E-value=5.9e-12 Score=67.97 Aligned_cols=52 Identities=40% Similarity=0.825 Sum_probs=45.2
Q ss_pred eeccCCCCCCCccccceecCCEEEEE-EEcCCCEEEEEeCCCCccCcCCCccccC
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVT-ERCQDGWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~-~~~~~~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
++++.+|.+..+++|++.+||++.|+ +...++||.++. .|+.||||.+++++
T Consensus 2 ~~a~~d~~~~~~~~Ls~~~Gd~i~v~~~~~~~~ww~~~~--~g~~G~~P~~~v~~ 54 (55)
T PF07653_consen 2 YRAIFDYVAEDPDELSFKKGDVIEVLGEKDDDGWWLGEN--NGRRGWFPSSYVEE 54 (55)
T ss_dssp EEESSSBESSSTTB-EB-TTEEEEEEEEECSTSEEEEEE--TTEEEEEEGGGEEE
T ss_pred EEEeEEECCCCCCceEEecCCEEEEEEeecCCCEEEEEE--CCcEEEEcHHHEEE
Confidence 57889999999999999999999999 788889999996 69999999999864
No 27
>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=99.25 E-value=7.4e-12 Score=69.63 Aligned_cols=46 Identities=17% Similarity=0.333 Sum_probs=40.3
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
++.||||.+.+ ..|+.++|||+||+.||.+|+.. ...||.|+..+.
T Consensus 1 ~~~Cpi~~~~~-~~Pv~~~~G~v~~~~~i~~~~~~--~~~cP~~~~~~~ 46 (63)
T smart00504 1 EFLCPISLEVM-KDPVILPSGQTYERRAIEKWLLS--HGTDPVTGQPLT 46 (63)
T ss_pred CcCCcCCCCcC-CCCEECCCCCEEeHHHHHHHHHH--CCCCCCCcCCCC
Confidence 47899999999 78899999999999999999986 357999997663
No 28
>KOG0317|consensus
Probab=99.24 E-value=3e-12 Score=88.67 Aligned_cols=48 Identities=31% Similarity=0.765 Sum_probs=42.3
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
++...|.+|++.. ..|..++|||.||.+||.+|..... .||+||..+.
T Consensus 237 ~a~~kC~LCLe~~-~~pSaTpCGHiFCWsCI~~w~~ek~--eCPlCR~~~~ 284 (293)
T KOG0317|consen 237 EATRKCSLCLENR-SNPSATPCGHIFCWSCILEWCSEKA--ECPLCREKFQ 284 (293)
T ss_pred CCCCceEEEecCC-CCCCcCcCcchHHHHHHHHHHcccc--CCCcccccCC
Confidence 4668999999999 8999999999999999999998654 5999997653
No 29
>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=99.22 E-value=1e-11 Score=64.14 Aligned_cols=44 Identities=36% Similarity=0.989 Sum_probs=34.9
Q ss_pred ccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCC
Q psy9669 11 ECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 11 ~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
+|+||.+.+.....+.+|||.||..|+.+|+.. ...+||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~-~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS-GKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHh-CcCCCCCCCCc
Confidence 599999988434444459999999999999986 34579999864
No 30
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.21 E-value=9.3e-12 Score=63.85 Aligned_cols=42 Identities=31% Similarity=1.050 Sum_probs=35.5
Q ss_pred ccccccccc--cCCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 11 ECSVCLDRL--DTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 11 ~C~iC~~~~--~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
.|++|.+.+ ...+.+++|||+||..|+.... .....||+|+.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc--CCCCCCcCCCC
Confidence 489999988 3578999999999999999988 34468999973
No 31
>KOG0320|consensus
Probab=99.21 E-value=6.3e-12 Score=81.14 Aligned_cols=49 Identities=24% Similarity=0.826 Sum_probs=40.0
Q ss_pred cccCCccccccccccCC-CeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 6 LNDLLECSVCLDRLDTS-SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~-~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
-++.+.||||++.+.+. ++-+.|||.||+.||++.+.... .||+|+..+
T Consensus 128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~--~CP~C~kkI 177 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTN--KCPTCRKKI 177 (187)
T ss_pred cccccCCCceecchhhccccccccchhHHHHHHHHHHHhCC--CCCCccccc
Confidence 34668999999988544 46689999999999999998654 699999644
No 32
>KOG3601|consensus
Probab=99.20 E-value=7.4e-12 Score=83.06 Aligned_cols=109 Identities=25% Similarity=0.474 Sum_probs=89.5
Q ss_pred eeccCCCCCCCccccceecCCEEEEEEEcCC-CEEEEEeCCCCccCcCCCccccCCc-----------------------
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTERCQD-GWFKGTSQRTQRSGVFPGNYVAPAK----------------------- 114 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~-~w~~~~~~~~~~~G~~p~~~v~~~~----------------------- 114 (173)
+++++++.+...+||+|.+|+.+.+++..+. .|...+ ..|..|++|.+++....
T Consensus 3 a~a~n~f~a~i~dELsFlkg~~lk~l~~~d~~nw~~ae--l~g~~g~~P~Nai~~~~~~wve~~i~r~~ae~~l~~~~~G 80 (222)
T KOG3601|consen 3 AVAKNDFLAGIRDELSFLKGDNLKILNMEDDINWYKAE--LDGPEGFIPKNAIRMKPHEWVEGLIPRPLAEDLLSKKRDG 80 (222)
T ss_pred hhhhhhhhhcCcccceeecCCceEecchHHhhhhhhHh--hcCccccCcccccccccccceecccccchhhhhhhccCcc
Confidence 4567888899999999999999988887544 577777 45889999999883200
Q ss_pred --------------------------------------------------------------------------------
Q psy9669 115 -------------------------------------------------------------------------------- 114 (173)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (173)
T Consensus 81 ~fl~r~s~sSPg~fsgsvr~~d~vqhfkvvrpa~~k~~lw~skfnslnplv~Y~rt~s~~r~~qi~l~d~~~~~~~~~~~ 160 (222)
T KOG3601|consen 81 DFLIRLSESSPGDFSGSVRFPDGVQHFKVVRPAFGKYFLWSSKFNSLNPLVSYHRTASQSRNQQIFLRDMEPPPAPLPPA 160 (222)
T ss_pred hhhhhhhhcCcccccccccCCCCceeccccccCccccccchhhccCCCCCcccCcccccccceeeeecccccccccCCCC
Confidence
Q ss_pred -----ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEecc
Q psy9669 115 -----FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSDF 171 (173)
Q Consensus 115 -----~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~~ 171 (173)
..+.+++.+..+.++.+++|+.+.+....+.-||.|... |+.|+||++|+...++
T Consensus 161 ~~~~yqQa~~df~~~pp~ql~f~~gq~~~v~~~ss~~ww~Gs~l--g~agiFpagyv~p~d~ 220 (222)
T KOG3601|consen 161 PTNYYQQALYDFQPQPPGQLAFRRGQQIQVLDSSSPFWWFGSKL--GRAGIFPAGYVAPSDL 220 (222)
T ss_pred ccchhhhhcCCCCCCCchhhccccCCcceeecCCCcchhhcccc--CceeeecCcccccccc
Confidence 123466777778899999999999999999999999998 9999999999988765
No 33
>smart00326 SH3 Src homology 3 domains. Src homology 3 (SH3) domains bind to target proteins through sequences containing proline and hydrophobic amino acids. Pro-containing polypeptides may bind to SH3 domains in 2 different binding orientations.
Probab=99.19 E-value=6.9e-11 Score=64.36 Aligned_cols=53 Identities=40% Similarity=0.866 Sum_probs=48.1
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
++++++|.+....+|++++||.+.+.....++||.++.. +++.|+||.+|++.
T Consensus 5 ~~a~~~~~~~~~~~l~~~~Gd~v~v~~~~~~~w~~~~~~-~~~~G~vP~~~v~~ 57 (58)
T smart00326 5 VRALYDYTAQDPDELSFKKGDIITVLEKSDDGWWKGRLG-RGKEGLFPSNYVEE 57 (58)
T ss_pred EEEeeeeCCCCCCCCCCCCCCEEEEEEcCCCCeEEEEeC-CCCEEEEchHHEEE
Confidence 578889999999999999999999999888999999987 49999999999975
No 34
>KOG0287|consensus
Probab=99.18 E-value=4e-12 Score=89.80 Aligned_cols=50 Identities=38% Similarity=0.962 Sum_probs=44.7
Q ss_pred hcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 5 TLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
.+++.+.|.||+++| +-|++++|+|+||.-||+.++..+ ..||.|+..+.
T Consensus 19 ~lD~lLRC~IC~eyf-~ip~itpCsHtfCSlCIR~~L~~~--p~CP~C~~~~~ 68 (442)
T KOG0287|consen 19 TLDDLLRCGICFEYF-NIPMITPCSHTFCSLCIRKFLSYK--PQCPTCCVTVT 68 (442)
T ss_pred hhHHHHHHhHHHHHh-cCceeccccchHHHHHHHHHhccC--CCCCceecccc
Confidence 467889999999999 899999999999999999999854 57999997665
No 35
>PHA02926 zinc finger-like protein; Provisional
Probab=99.17 E-value=1.7e-11 Score=82.07 Aligned_cols=53 Identities=23% Similarity=0.600 Sum_probs=41.0
Q ss_pred hcccCCccccccccccCC--------CeeecCCCCCChhhHHHHHhccc----ccCCCCCCCCCc
Q psy9669 5 TLNDLLECSVCLDRLDTS--------SKVLPCQHTFCKKCLEEIVSSHK----ELRCPECPTFVP 57 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~--------~~~~~Cgh~fc~~Cl~~~~~~~~----~~~CP~Cr~~i~ 57 (173)
..+++.+|+||++....+ ..+.+|+|.||..||..|..... ...||+||..+.
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 346789999999876332 46779999999999999997531 346999997664
No 36
>cd00174 SH3 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of signal pathway components and mediate multiprotein complex assemblies.
Probab=99.16 E-value=1.1e-10 Score=62.59 Aligned_cols=52 Identities=38% Similarity=0.836 Sum_probs=46.3
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeE
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMK 167 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~ 167 (173)
++++++|.+...++|++.+||.+.+++...++||.++.. .++.||||.+|++
T Consensus 2 ~~a~~~~~~~~~~~l~~~~Gd~v~v~~~~~~~w~~~~~~-~~~~G~vP~~~v~ 53 (54)
T cd00174 2 VRALYDYDARDPDELSFKKGDIIEVLEKSDDGWWEGRLL-GGKRGLFPSNYVE 53 (54)
T ss_pred EEEEEeeCCCCCCCCCCCCCCEEEEEEcCCCCeEEEEEC-CCCEEEEccccCc
Confidence 467889999999999999999999999888899999987 3399999999986
No 37
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.14 E-value=1.4e-11 Score=66.34 Aligned_cols=47 Identities=38% Similarity=0.906 Sum_probs=27.2
Q ss_pred hhcccCCccccccccccCCC-eeecCCCCCChhhHHHHHhcccccCCCCCCCC
Q psy9669 4 WTLNDLLECSVCLDRLDTSS-KVLPCQHTFCKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~~~~-~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
+.+++.+.|++|.++| +.| .+..|.|.||..|+..-+.. .||+|..+
T Consensus 2 ~~le~lLrCs~C~~~l-~~pv~l~~CeH~fCs~Ci~~~~~~----~CPvC~~P 49 (65)
T PF14835_consen 2 ERLEELLRCSICFDIL-KEPVCLGGCEHIFCSSCIRDCIGS----ECPVCHTP 49 (65)
T ss_dssp HHHHHTTS-SSS-S---SS-B---SSS--B-TTTGGGGTTT----B-SSS--B
T ss_pred hHHHHhcCCcHHHHHh-cCCceeccCccHHHHHHhHHhcCC----CCCCcCCh
Confidence 5678899999999999 566 56789999999999886553 49999854
No 38
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.11 E-value=3.5e-11 Score=68.47 Aligned_cols=41 Identities=27% Similarity=0.776 Sum_probs=32.2
Q ss_pred cccccccccc------------CCCeeecCCCCCChhhHHHHHhcccccCCCCCC
Q psy9669 11 ECSVCLDRLD------------TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 11 ~C~iC~~~~~------------~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
.|+||++.+. .......|||.||..||.+|+..+. +||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~--~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN--TCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS--B-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC--cCCCCC
Confidence 4999999882 1225568999999999999998654 799997
No 39
>KOG2199|consensus
Probab=99.10 E-value=2.5e-11 Score=87.56 Aligned_cols=56 Identities=30% Similarity=0.644 Sum_probs=51.6
Q ss_pred cCCcceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 111 APAKFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 111 ~~~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
...+++++|||++...+||+|++||||.|++..+..||+|+.. +..|+||.+||..
T Consensus 214 ~~rkVRALYDFeAaE~nELsFkaGdIItVLd~s~~~WWKG~~~--~~~GlFPsnfVT~ 269 (462)
T KOG2199|consen 214 VVRKVRALYDFEAAEDNELSFKAGDIITVLDDSDPNWWKGENH--RGIGLFPSNFVTA 269 (462)
T ss_pred cchhhhhhhcccccCCCccceecCcEEEEcccCCcchhccccC--Ccccccchhhhhh
Confidence 3446899999999999999999999999999999999999998 8899999999975
No 40
>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=99.09 E-value=7.6e-11 Score=58.81 Aligned_cols=39 Identities=44% Similarity=1.152 Sum_probs=33.9
Q ss_pred cccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCC
Q psy9669 12 CSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPEC 52 (173)
Q Consensus 12 C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~C 52 (173)
|+||++.. ..+..++|||.||..|+.+|+.. ....||+|
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 89999987 79999999999999999999883 33579987
No 41
>KOG3632|consensus
Probab=99.09 E-value=2e-10 Score=91.17 Aligned_cols=109 Identities=36% Similarity=0.713 Sum_probs=87.0
Q ss_pred ceeeccCCCCCC--------CccccceecCCEEEEEE-EcCCCEEEEEeCCCCccCcCCCccccCCc-------------
Q psy9669 57 PEYIAIYPYKPQ--------KDDELELRRGSVYTVTE-RCQDGWFKGTSQRTQRSGVFPGNYVAPAK------------- 114 (173)
Q Consensus 57 ~~~~~~~~~~~~--------~~~el~~~~g~~v~v~~-~~~~~w~~~~~~~~~~~G~~p~~~v~~~~------------- 114 (173)
..++|++||++. ...||.|.+|++|.|.. ++.+|++.|+.+ ++.|+||.|+|.+..
T Consensus 1139 rifVAlfDYDpl~MSpNpDAaEeELpFregqIikV~GDkDadgFY~GE~n--gr~GlIPcNmvae~~vd~eq~~~r~rqG 1216 (1335)
T KOG3632|consen 1139 RIFVALFDYDPLQMSPNPDAAEEELPFREGQIIKVLGDKDADGFYMGELN--GRRGLIPCNMVAEQPVDNEQTDRRWRQG 1216 (1335)
T ss_pred eeeEeeeccCccccCCCCChhhhccccccCcEEEEeccccccceeecccc--cccccccccccccccCCcHHHHHHHHhc
Confidence 357889999863 45689999999998776 567789999965 899999999998751
Q ss_pred ------------------------------ceecccCCCCC-------CcceeecCCCEEEEEEcC-CCCeeEEEeCCCC
Q psy9669 115 ------------------------------FRCIVPYPPNS-------EYELELRVGDLIYVHKKR-DDGWYKGTLQRTG 156 (173)
Q Consensus 115 ------------------------------~~~~~~~~~~~-------~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~g 156 (173)
.++.+||.++. ..+|.|..|+||.|.++. ++|++.|.+. |
T Consensus 1217 ~lPsv~~~e~~~gs~~s~g~~k~vp~~p~~mvaa~dydpqeSSpg~dgeAelafraGdIitVfg~mdddgfyyGeln--g 1294 (1335)
T KOG3632|consen 1217 LLPSVPTEEMRKGSAFSDGQQKMVPWPPRQMVAASDYDPQESSPGLDGEAELAFRAGDIITVFGKMDDDGFYYGELN--G 1294 (1335)
T ss_pred cCCCCCchhhhcccccCCCCccccCCchhhhhhhhcCCcccCCCCcccceeeccccCCeEEeeccccCCcccccccC--C
Confidence 22345666543 248999999999998876 5689999998 9
Q ss_pred cEEEecCCCeEEe
Q psy9669 157 RTGLFPASFMKQS 169 (173)
Q Consensus 157 ~~G~~P~~~v~~~ 169 (173)
+.|+||.++++..
T Consensus 1295 qkglvpsnfle~p 1307 (1335)
T KOG3632|consen 1295 QKGLVPSNFLEAP 1307 (1335)
T ss_pred ccCccccccccCC
Confidence 9999999998764
No 42
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.08 E-value=3.6e-11 Score=83.41 Aligned_cols=50 Identities=28% Similarity=0.662 Sum_probs=43.9
Q ss_pred hcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 5 TLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
.|+..+.|.||.+.+ .-|..++|||+||.-||++++..+ .-||+||.+..
T Consensus 21 ~LDs~lrC~IC~~~i-~ip~~TtCgHtFCslCIR~hL~~q--p~CP~Cr~~~~ 70 (391)
T COG5432 21 GLDSMLRCRICDCRI-SIPCETTCGHTFCSLCIRRHLGTQ--PFCPVCREDPC 70 (391)
T ss_pred cchhHHHhhhhhhee-ecceecccccchhHHHHHHHhcCC--CCCccccccHH
Confidence 466788999999999 899999999999999999999865 46999997654
No 43
>KOG2546|consensus
Probab=99.06 E-value=7.5e-11 Score=85.74 Aligned_cols=67 Identities=36% Similarity=0.733 Sum_probs=60.5
Q ss_pred ccCcCCCccccCCcceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEecc
Q psy9669 101 RSGVFPGNYVAPAKFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSDF 171 (173)
Q Consensus 101 ~~G~~p~~~v~~~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~~ 171 (173)
..||.|.+|++ +++++|||.+...+||+|.+|.++.++++.++|||.+... |.+|+||.+||+++..
T Consensus 414 sp~w~p~syLE--kVv~iydy~~~KddeLsf~E~ailyv~kknddgw~EgV~~--~VTglFpgnyve~~~~ 480 (483)
T KOG2546|consen 414 SPAWVPTSYLE--KVVAIYDYTADKDDELSFAEGAILYVLKKNDDGWYEGVQD--GVTGLFPGNYVEPLKA 480 (483)
T ss_pred CcccccHHHHH--HHHhhcccccccccccccccccEEEEEEecCCcchhheec--CcceeccCcccccccc
Confidence 35899999985 4588999999999999999999999999999999999987 9999999999998753
No 44
>KOG2070|consensus
Probab=99.05 E-value=1e-10 Score=86.68 Aligned_cols=55 Identities=38% Similarity=0.696 Sum_probs=50.7
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~ 114 (173)
.++|.|.|.....|||+|.+||+|.|....++|||.|+.+ |+.||||++||.+.+
T Consensus 19 vvrAkf~F~gsNnDELsf~KgDvItVTq~eeGGWWEGTln--g~TGWFPsnYV~eik 73 (661)
T KOG2070|consen 19 VVRAKFNFQGSNNDELSFSKGDVITVTQVEEGGWWEGTLN--GRTGWFPSNYVREIK 73 (661)
T ss_pred EEEEEeecccCCCceeccccCCEEEEEEeccCcceecccc--CccCccchHHHHHHh
Confidence 4678899999999999999999999999999999999976 999999999998764
No 45
>KOG2164|consensus
Probab=99.02 E-value=1.2e-10 Score=86.79 Aligned_cols=49 Identities=22% Similarity=0.615 Sum_probs=40.7
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcc---cccCCCCCCCCCce
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSH---KELRCPECPTFVPE 58 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~---~~~~CP~Cr~~i~~ 58 (173)
+..||||++.. .-+..+.|||.||..||..++... .-..||+|+..+..
T Consensus 186 ~~~CPICL~~~-~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPP-SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCC-CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 88999999988 667777899999999999998854 23579999976654
No 46
>KOG4628|consensus
Probab=98.98 E-value=2.6e-10 Score=82.19 Aligned_cols=49 Identities=24% Similarity=0.741 Sum_probs=41.4
Q ss_pred Ccccccccccc--CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCcee
Q psy9669 10 LECSVCLDRLD--TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEY 59 (173)
Q Consensus 10 ~~C~iC~~~~~--~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~ 59 (173)
.+|+||++.+. ...+.|+|.|.||..||..|+...+ ..||+|+..++..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r-~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTR-TFCPVCKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcC-ccCCCCCCcCCCC
Confidence 49999999884 4679999999999999999999763 4699999877543
No 47
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=4.9e-10 Score=80.37 Aligned_cols=48 Identities=31% Similarity=0.741 Sum_probs=40.3
Q ss_pred ccCCccccccccccCC------------CeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDRLDTS------------SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~------------~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
+++-.|.||++.+..+ |..++|||.+|.+||+.|+..++ +||+||.++
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ--TCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ--TCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc--CCCcccCcc
Confidence 5788999999985333 48899999999999999998654 799999774
No 48
>KOG1118|consensus
Probab=98.98 E-value=2.6e-10 Score=79.81 Aligned_cols=55 Identities=31% Similarity=0.725 Sum_probs=51.6
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
.++++|+|++++.+||.|.+|++|.+....+.+||.|... |++|+||.+||+.+-
T Consensus 308 ~cralYdFepenEgEL~fkeGDlI~l~~QIdenWyeG~~~--g~sG~FPvnYv~vlv 362 (366)
T KOG1118|consen 308 CCRALYDFEPENEGELDFKEGDLITLTNQIDENWYEGEKH--GESGMFPVNYVEVLV 362 (366)
T ss_pred hheeeeccCCCCCCccCcccCceeeehhhcCcchhhheec--CccCccccceeEEec
Confidence 4789999999999999999999999999999999999998 999999999998763
No 49
>KOG4225|consensus
Probab=98.98 E-value=6.4e-10 Score=81.30 Aligned_cols=55 Identities=33% Similarity=0.742 Sum_probs=51.8
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEecc
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSDF 171 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~~ 171 (173)
++++++|.++...||.|++||||.|+++.+..|+.|... |+.|+||++||+.+..
T Consensus 233 aralf~F~~qt~kEL~~~kGDIVyI~rkvD~nWyeGEhh--Gr~GifP~sYvE~~~~ 287 (489)
T KOG4225|consen 233 ARALFDFEAQTPKELPFNKGDIVYILRKVDQNWYEGEHH--GRVGIFPASYVEILTP 287 (489)
T ss_pred hhheeccccCCccccccCCCCEEEEEeeccCceeeeeec--ceecceechheeecCc
Confidence 678999999999999999999999999999999999998 9999999999998753
No 50
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.97 E-value=2.6e-10 Score=65.04 Aligned_cols=50 Identities=18% Similarity=0.295 Sum_probs=39.3
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
-+.+.|||+.++| ..|+++++||+|++.||+.|+.. +...||+++..+..
T Consensus 2 P~~f~CpIt~~lM-~dPVi~~~G~tyer~~I~~~l~~-~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 2 PDEFLCPITGELM-RDPVILPSGHTYERSAIERWLEQ-NGGTDPFTRQPLSE 51 (73)
T ss_dssp SGGGB-TTTSSB--SSEEEETTSEEEEHHHHHHHHCT-TSSB-TTT-SB-SG
T ss_pred CcccCCcCcCcHh-hCceeCCcCCEEcHHHHHHHHHc-CCCCCCCCCCcCCc
Confidence 3678999999999 89999999999999999999997 23589999877654
No 51
>smart00326 SH3 Src homology 3 domains. Src homology 3 (SH3) domains bind to target proteins through sequences containing proline and hydrophobic amino acids. Pro-containing polypeptides may bind to SH3 domains in 2 different binding orientations.
Probab=98.96 E-value=1e-09 Score=59.60 Aligned_cols=54 Identities=43% Similarity=0.880 Sum_probs=47.7
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccC
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
..+++++|.+...++|++.+||.+.++....++||.++... ++.|+||.+|++.
T Consensus 4 ~~~a~~~~~~~~~~~l~~~~Gd~v~v~~~~~~~w~~~~~~~-~~~G~vP~~~v~~ 57 (58)
T smart00326 4 QVRALYDYTAQDPDELSFKKGDIITVLEKSDDGWWKGRLGR-GKEGLFPSNYVEE 57 (58)
T ss_pred EEEEeeeeCCCCCCCCCCCCCCEEEEEEcCCCCeEEEEeCC-CCEEEEchHHEEE
Confidence 45788999999999999999999999999889999999643 8999999998764
No 52
>cd00174 SH3 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of signal pathway components and mediate multiprotein complex assemblies.
Probab=98.95 E-value=1.4e-09 Score=58.19 Aligned_cols=52 Identities=37% Similarity=0.828 Sum_probs=45.7
Q ss_pred eeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCcccc
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVA 111 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~ 111 (173)
++++++|.+...+++++.+||.+.++....++||.++.. .++.|+||.++++
T Consensus 2 ~~a~~~~~~~~~~~l~~~~Gd~v~v~~~~~~~w~~~~~~-~~~~G~vP~~~v~ 53 (54)
T cd00174 2 VRALYDYDARDPDELSFKKGDIIEVLEKSDDGWWEGRLL-GGKRGLFPSNYVE 53 (54)
T ss_pred EEEEEeeCCCCCCCCCCCCCCEEEEEEcCCCCeEEEEEC-CCCEEEEccccCc
Confidence 467889999999999999999999999888899999964 3389999999875
No 53
>KOG2199|consensus
Probab=98.94 E-value=3.2e-10 Score=81.93 Aligned_cols=57 Identities=30% Similarity=0.698 Sum_probs=51.7
Q ss_pred CCceeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 55 FVPEYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 55 ~i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
..+..+|+|||.+...+||+|+.||+|.|++..+..||.|.. .+..|+||++||...
T Consensus 214 ~~rkVRALYDFeAaE~nELsFkaGdIItVLd~s~~~WWKG~~--~~~~GlFPsnfVT~~ 270 (462)
T KOG2199|consen 214 VVRKVRALYDFEAAEDNELSFKAGDIITVLDDSDPNWWKGEN--HRGIGLFPSNFVTAD 270 (462)
T ss_pred cchhhhhhhcccccCCCccceecCcEEEEcccCCcchhcccc--CCcccccchhhhhhh
Confidence 456688999999999999999999999999999999999994 578899999999864
No 54
>KOG0162|consensus
Probab=98.93 E-value=7.1e-10 Score=85.92 Aligned_cols=54 Identities=30% Similarity=0.727 Sum_probs=50.3
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
.+.++|+|.++..+||+|++||+|.+..++..|||.++.. |+.||||.+||.++
T Consensus 1053 ~~~A~Y~y~gq~~dEls~~~~diIei~~edpSGWw~gk~~--~keG~~P~~Yv~~~ 1106 (1106)
T KOG0162|consen 1053 VCEALYDYPGQDVDELSFKKGDIIEIMREDPSGWWLGKLN--GKEGLFPGNYVTEY 1106 (1106)
T ss_pred ceeeeccCCCCCcccccccCCCEEEEeccCCCcchhhccC--CccccccccccccC
Confidence 3678999999999999999999999999999999999987 99999999999863
No 55
>KOG2177|consensus
Probab=98.92 E-value=3.1e-10 Score=83.09 Aligned_cols=48 Identities=35% Similarity=0.877 Sum_probs=42.6
Q ss_pred hhhcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCC
Q psy9669 3 EWTLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 3 ~~~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
...+.+.+.|+||++.+ ..+.+++|||+||..|+..+.. ....||.||
T Consensus 7 ~~~~~~~~~C~iC~~~~-~~p~~l~C~H~~c~~C~~~~~~--~~~~Cp~cr 54 (386)
T KOG2177|consen 7 LEVLQEELTCPICLEYF-REPVLLPCGHNFCRACLTRSWE--GPLSCPVCR 54 (386)
T ss_pred hhhccccccChhhHHHh-hcCccccccchHhHHHHHHhcC--CCcCCcccC
Confidence 35678999999999999 6779999999999999999988 447899999
No 56
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.91 E-value=8e-10 Score=63.41 Aligned_cols=51 Identities=22% Similarity=0.460 Sum_probs=38.5
Q ss_pred cccCCcccccccccc-----------C-CCeeecCCCCCChhhHHHHHhcc-cccCCCCCCCCC
Q psy9669 6 LNDLLECSVCLDRLD-----------T-SSKVLPCQHTFCKKCLEEIVSSH-KELRCPECPTFV 56 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~-----------~-~~~~~~Cgh~fc~~Cl~~~~~~~-~~~~CP~Cr~~i 56 (173)
+.++-.|.||+..|. . +.+.-.|+|.||..||.+|+.++ ....||+||...
T Consensus 18 ~~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 18 VANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred cCCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 345778888887773 1 23445799999999999999963 346899999754
No 57
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=7.4e-10 Score=76.10 Aligned_cols=48 Identities=29% Similarity=0.598 Sum_probs=40.0
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHH-HHhcccccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEE-IVSSHKELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~-~~~~~~~~~CP~Cr~~i 56 (173)
.+++.|+||.+.. ..+..++|||.||..||.. |.... .-.||+||+-.
T Consensus 213 ~~d~kC~lC~e~~-~~ps~t~CgHlFC~~Cl~~~~t~~k-~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEP-EVPSCTPCGHLFCLSCLLISWTKKK-YEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeeccc-CCcccccccchhhHHHHHHHHHhhc-cccCchhhhhc
Confidence 4688999999999 8999999999999999988 66543 23599999643
No 58
>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=98.84 E-value=3e-09 Score=75.61 Aligned_cols=49 Identities=31% Similarity=0.605 Sum_probs=36.6
Q ss_pred cCCcccccccccc-CCC---eeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 8 DLLECSVCLDRLD-TSS---KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 8 ~~~~C~iC~~~~~-~~~---~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
++..||+|...-+ ++- .+.+|||.||.+|+.+.+... ...||.|+..+.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~-~~~CP~C~~~lr 54 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG-SGSCPECDTPLR 54 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC-CCCCCCCCCccc
Confidence 4578999998533 222 233799999999999988653 358999997665
No 59
>KOG1118|consensus
Probab=98.83 E-value=1.1e-09 Score=76.71 Aligned_cols=54 Identities=31% Similarity=0.748 Sum_probs=49.7
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
.++++|+|.++..+||.|+.||+|.+.+..+++||.|.. -|.+|+||.+|++.+
T Consensus 308 ~cralYdFepenEgEL~fkeGDlI~l~~QIdenWyeG~~--~g~sG~FPvnYv~vl 361 (366)
T KOG1118|consen 308 CCRALYDFEPENEGELDFKEGDLITLTNQIDENWYEGEK--HGESGMFPVNYVEVL 361 (366)
T ss_pred hheeeeccCCCCCCccCcccCceeeehhhcCcchhhhee--cCccCccccceeEEe
Confidence 467899999999999999999999999999999999995 488999999999765
No 60
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=1.8e-09 Score=75.57 Aligned_cols=49 Identities=31% Similarity=0.808 Sum_probs=40.5
Q ss_pred cCCcccccccccc--CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 8 DLLECSVCLDRLD--TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 8 ~~~~C~iC~~~~~--~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
...+|.||++.+. +..+.++|.|.||..|+..|+...+ ..||+||.+++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~-~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS-NKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhc-ccCCccCCCCC
Confidence 4478999999874 4578899999999999999998422 36999998875
No 61
>KOG0162|consensus
Probab=98.78 E-value=7.1e-09 Score=80.57 Aligned_cols=54 Identities=35% Similarity=0.768 Sum_probs=50.1
Q ss_pred ceeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccC
Q psy9669 57 PEYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 57 ~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
+.+.|+|+|.++..+||+|++|+++.++.++..|||.|.. .++.||||.+|+++
T Consensus 1052 p~~~A~Y~y~gq~~dEls~~~~diIei~~edpSGWw~gk~--~~keG~~P~~Yv~~ 1105 (1106)
T KOG0162|consen 1052 PVCEALYDYPGQDVDELSFKKGDIIEIMREDPSGWWLGKL--NGKEGLFPGNYVTE 1105 (1106)
T ss_pred cceeeeccCCCCCcccccccCCCEEEEeccCCCcchhhcc--CCcccccccccccc
Confidence 4578999999999999999999999999999999999994 59999999999975
No 62
>KOG0311|consensus
Probab=98.73 E-value=7e-10 Score=79.09 Aligned_cols=55 Identities=25% Similarity=0.579 Sum_probs=44.6
Q ss_pred ChhhcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 2 DEWTLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 2 ~~~~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
++..+...+.|+||++++........|+|.||.+||..-+..++ -.||.||..+.
T Consensus 36 ~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn-~ecptcRk~l~ 90 (381)
T KOG0311|consen 36 DLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGN-NECPTCRKKLV 90 (381)
T ss_pred cHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcC-CCCchHHhhcc
Confidence 45678889999999999954555557999999999998888755 48999996543
No 63
>KOG0978|consensus
Probab=98.71 E-value=2.5e-09 Score=83.41 Aligned_cols=52 Identities=29% Similarity=0.774 Sum_probs=44.7
Q ss_pred hhcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 4 WTLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
..+.+.+.||+|.+-+ ...+++.|||.||..|++..+.... .+||.|...|+
T Consensus 638 k~yK~~LkCs~Cn~R~-Kd~vI~kC~H~FC~~Cvq~r~etRq-RKCP~Cn~aFg 689 (698)
T KOG0978|consen 638 KEYKELLKCSVCNTRW-KDAVITKCGHVFCEECVQTRYETRQ-RKCPKCNAAFG 689 (698)
T ss_pred HHHHhceeCCCccCch-hhHHHHhcchHHHHHHHHHHHHHhc-CCCCCCCCCCC
Confidence 4577899999999888 7899999999999999998887533 58999987764
No 64
>KOG0824|consensus
Probab=98.71 E-value=6.3e-09 Score=72.80 Aligned_cols=47 Identities=26% Similarity=0.579 Sum_probs=41.2
Q ss_pred CccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
-+|+||+... +.|+.+.|+|.||+-||+......+ ..|++||.+++.
T Consensus 8 ~eC~IC~nt~-n~Pv~l~C~HkFCyiCiKGsy~ndk-~~CavCR~pids 54 (324)
T KOG0824|consen 8 KECLICYNTG-NCPVNLYCFHKFCYICIKGSYKNDK-KTCAVCRFPIDS 54 (324)
T ss_pred CcceeeeccC-CcCccccccchhhhhhhcchhhcCC-CCCceecCCCCc
Confidence 3899999999 7889999999999999999888643 579999998875
No 65
>KOG1264|consensus
Probab=98.69 E-value=1.2e-08 Score=80.21 Aligned_cols=58 Identities=19% Similarity=0.463 Sum_probs=52.5
Q ss_pred CcceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEecc
Q psy9669 113 AKFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSDF 171 (173)
Q Consensus 113 ~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~~ 171 (173)
..++++++|.+..++||+|.++.+|....+..+|||.|.++ +...+|||++||++++.
T Consensus 775 vt~kAL~~Yka~r~DELSFpk~aiItnv~keeg~wWrGdYG-g~iq~wfPsnyVeei~~ 832 (1267)
T KOG1264|consen 775 VTVKALYDYKAKRSDELSFPKGAIITNVSKEEGGWWRGDYG-GRIQQWFPSNYVEEIST 832 (1267)
T ss_pred hhhhhhhccccCCcccccccccceeEeeeccCCceeecccc-cceeeeccHHHhhhhcc
Confidence 35789999999999999999999999999988999999998 56789999999998754
No 66
>KOG2996|consensus
Probab=98.67 E-value=1.9e-08 Score=76.41 Aligned_cols=57 Identities=32% Similarity=0.645 Sum_probs=48.9
Q ss_pred CCceeeccCCCCCCCccccceecCCEEEEEEEc--CCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 55 FVPEYIAIYPYKPQKDDELELRRGSVYTVTERC--QDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 55 ~i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~--~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
.+..+++-|++-+..-.+|++..||++.+..+. +.|||.|+.+ |+.||||++||++.
T Consensus 804 ~~g~AvarYdf~ard~~eLSlk~GDvV~i~~k~g~d~GWWkGevn--grvGwFPstYVee~ 862 (865)
T KOG2996|consen 804 VVGTAVARYDFCARDMRELSLKEGDVVKIYDKVGEDQGWWKGEVN--GRVGWFPSTYVEED 862 (865)
T ss_pred eeeeeeeccccCCCchhhcccccCCEEEEehhccccCceecceec--Cccccccccccccc
Confidence 355677788888888899999999999998864 4699999976 99999999999875
No 67
>KOG0802|consensus
Probab=98.67 E-value=9.3e-09 Score=80.15 Aligned_cols=48 Identities=33% Similarity=0.755 Sum_probs=40.7
Q ss_pred ccCCccccccccccCC----CeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDRLDTS----SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~----~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
..+..|+||.+.+... +..++|+|.||..||++|+... ..||+||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~--qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ--QTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHh--CcCCcchhhh
Confidence 3477999999999433 8999999999999999999975 4799999744
No 68
>KOG1702|consensus
Probab=98.60 E-value=5.3e-08 Score=64.61 Aligned_cols=55 Identities=36% Similarity=0.675 Sum_probs=50.1
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
+++++||.++..++++|..||.|......++||..++..++|.+|..|+||++.+
T Consensus 210 yra~ydysaqdedevsF~dgd~ivnvq~iddGWmygtv~rtg~tGmlpaNyie~v 264 (264)
T KOG1702|consen 210 YRAFYDYSAQDEDEVSFVDGDYIVNVQSIDDGWMYGTVVRTGWTGMLPANYIEFV 264 (264)
T ss_pred chhhccCcccCcceeEEecCCeEEEEEeccCCceeeEEEeccccCCCchhheeeC
Confidence 6788999999999999999999988888889999999888999999999999753
No 69
>KOG4159|consensus
Probab=98.58 E-value=2.2e-08 Score=74.15 Aligned_cols=55 Identities=35% Similarity=0.773 Sum_probs=45.3
Q ss_pred hcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceeecc
Q psy9669 5 TLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAI 62 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~ 62 (173)
.+..++.|.||...+ .+|+.++|||+||..||.+.+.. ...||.||..+....+.
T Consensus 80 ~~~sef~c~vc~~~l-~~pv~tpcghs~c~~Cl~r~ld~--~~~cp~Cr~~l~e~~~~ 134 (398)
T KOG4159|consen 80 EIRSEFECCVCSRAL-YPPVVTPCGHSFCLECLDRSLDQ--ETECPLCRDELVELPAL 134 (398)
T ss_pred cccchhhhhhhHhhc-CCCccccccccccHHHHHHHhcc--CCCCcccccccccchHH
Confidence 457899999999999 78888899999999999996653 35799999888764433
No 70
>KOG2660|consensus
Probab=98.57 E-value=1e-08 Score=72.74 Aligned_cols=54 Identities=28% Similarity=0.672 Sum_probs=46.3
Q ss_pred hhcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCcee
Q psy9669 4 WTLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEY 59 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~ 59 (173)
..+.+..+|++|..+|.....+..|-|+||++||-+++... ..||.|...+...
T Consensus 10 ~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~--~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 10 TELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEES--KYCPTCDIVIHKT 63 (331)
T ss_pred hhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHh--ccCCccceeccCc
Confidence 46788999999999997777888999999999999999873 4799999766543
No 71
>KOG2856|consensus
Probab=98.56 E-value=1.2e-08 Score=73.39 Aligned_cols=56 Identities=30% Similarity=0.684 Sum_probs=48.9
Q ss_pred CcceecccCCCCCCcceeecCCCEEEEEEcC-CCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 113 AKFRCIVPYPPNSEYELELRVGDLIYVHKKR-DDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 113 ~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
..++++|||.++..+||+|++||.+..+... ..||..|+.. .|+.|++|++||+-+
T Consensus 415 v~vraLYDY~gqE~DElsfkaGd~l~kl~eeDeqGWC~Grl~-~G~vGLyPAnYVe~~ 471 (472)
T KOG2856|consen 415 VRVRALYDYAGQEGDELSFKAGDELEKLEEEDEQGWCKGRLD-SGRVGLYPANYVECI 471 (472)
T ss_pred eeEEeeeccCcccccchhhccccHhhhcCCcccccccccccc-CCcccccchhhhhcc
Confidence 4578999999999999999999998776655 5699999987 799999999999754
No 72
>KOG2879|consensus
Probab=98.54 E-value=6.3e-08 Score=67.06 Aligned_cols=52 Identities=23% Similarity=0.475 Sum_probs=42.6
Q ss_pred cccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 6 LNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
-..+.+||+|.+....|.+..+|||+||.-|+..-.....-++||.|..+..
T Consensus 236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3578899999998866777778999999999988776555579999987654
No 73
>KOG1785|consensus
Probab=98.51 E-value=3.6e-08 Score=71.70 Aligned_cols=59 Identities=27% Similarity=0.676 Sum_probs=48.2
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCce--eeccCCCCCC
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE--YIAIYPYKPQ 68 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~--~~~~~~~~~~ 68 (173)
...|.||-+.= ....+.+|||..|..||-.|..+.....||.||..+.- .+.+..|.+.
T Consensus 369 FeLCKICaend-KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid~F~pr 429 (563)
T KOG1785|consen 369 FELCKICAEND-KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIIDPFDPR 429 (563)
T ss_pred HHHHHHhhccC-CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccceeeeccCCC
Confidence 34799999876 78999999999999999999987666789999988763 4556666653
No 74
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.48 E-value=3.8e-08 Score=52.95 Aligned_cols=46 Identities=26% Similarity=0.505 Sum_probs=31.2
Q ss_pred cccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCC
Q psy9669 6 LNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPE 51 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~ 51 (173)
-.-.+.|||....|.++.+...|||+|.++.|..+++..+...||+
T Consensus 8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3457899999999944445569999999999999997666778998
No 75
>KOG1702|consensus
Probab=98.47 E-value=2.3e-07 Score=61.60 Aligned_cols=56 Identities=34% Similarity=0.659 Sum_probs=51.9
Q ss_pred ceeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccC
Q psy9669 57 PEYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 57 ~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
..+.++|+|.++..++++|..||.|......++||..|+...+|..|..|++|++-
T Consensus 208 ktyra~ydysaqdedevsF~dgd~ivnvq~iddGWmygtv~rtg~tGmlpaNyie~ 263 (264)
T KOG1702|consen 208 KTYRAFYDYSAQDEDEVSFVDGDYIVNVQSIDDGWMYGTVVRTGWTGMLPANYIEF 263 (264)
T ss_pred ccchhhccCcccCcceeEEecCCeEEEEEeccCCceeeEEEeccccCCCchhheee
Confidence 56889999999999999999999999899999999999988899999999999863
No 76
>KOG4792|consensus
Probab=98.39 E-value=8.1e-08 Score=64.83 Aligned_cols=55 Identities=18% Similarity=0.605 Sum_probs=50.0
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
.+++++|.+...++|.|++||++.+..+....||..+.. .|+.|.+|..||+...
T Consensus 127 vr~~fdF~G~deeDLPFkkGeiL~I~~K~eeqWW~Arns-~Gk~GmIPvpYVe~~~ 181 (293)
T KOG4792|consen 127 VRALFDFNGNDEEDLPFKKGEILRIRDKPEEQWWNARNS-EGKRGMIPVPYVEKYR 181 (293)
T ss_pred eeeeeccCCCccccCCcccCcEEEEecCcHHHhhhhhcc-CCcccceechHHHhhh
Confidence 566899999999999999999999999988899999986 8999999999998753
No 77
>KOG0515|consensus
Probab=98.37 E-value=1.3e-07 Score=71.37 Aligned_cols=52 Identities=25% Similarity=0.503 Sum_probs=45.2
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCC---CCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRD---DGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~---~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
+.+++||.++..+||+|.+||.+.|+++.+ ..||+++.. |+.|+||.+|+.-
T Consensus 686 vYAlwdYeaqf~DELsf~eGd~lTvirr~d~~eteWWwa~ln--g~eGyVPRnylgL 740 (752)
T KOG0515|consen 686 VYALWDYEAQFEDELSFDEGDELTVIRRDDEVETEWWWARLN--GEEGYVPRNYLGL 740 (752)
T ss_pred eEEeecccccccccccccCCceeEEEecCCcchhhhhhHhhc--Ccccccchhhhhc
Confidence 567899999999999999999999998753 368888877 9999999999753
No 78
>KOG2546|consensus
Probab=98.36 E-value=3.1e-07 Score=67.39 Aligned_cols=55 Identities=44% Similarity=0.934 Sum_probs=50.2
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~ 114 (173)
+.+++|+|.+...++|+|..|-++.++++.+++||+|..+ +-.|+||.+|++++.
T Consensus 425 kVv~iydy~~~KddeLsf~E~ailyv~kknddgw~EgV~~--~VTglFpgnyve~~~ 479 (483)
T KOG2546|consen 425 KVVAIYDYTADKDDELSFAEGAILYVLKKNDDGWYEGVQD--GVTGLFPGNYVEPLK 479 (483)
T ss_pred HHHhhcccccccccccccccccEEEEEEecCCcchhheec--CcceeccCccccccc
Confidence 4678999999999999999999999999999999999954 779999999998864
No 79
>KOG3655|consensus
Probab=98.33 E-value=2.3e-07 Score=68.99 Aligned_cols=57 Identities=28% Similarity=0.613 Sum_probs=51.5
Q ss_pred CCcceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 112 PAKFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 112 ~~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
+..++++|+|.+-...+++|..++.|.++...+.|||.|... +|..|+||+|||+-+
T Consensus 427 ~q~A~A~~dyqAAddtEisf~p~d~it~Id~vdegww~g~~p-dG~~glfPaNyV~li 483 (484)
T KOG3655|consen 427 PQTARALYDYQAADDTEISFDPPDAITLIDQVDEGWWTGQGP-DGEVGLFPANYVELI 483 (484)
T ss_pred CCCccccccccccCCcccccCCccccccccccCCccccccCC-CCCcCcccccccccC
Confidence 345788999999999999999999999999999999999987 899999999999754
No 80
>KOG3523|consensus
Probab=98.33 E-value=5e-08 Score=74.39 Aligned_cols=58 Identities=31% Similarity=0.681 Sum_probs=52.5
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEecc
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSDF 171 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~~ 171 (173)
++.+...|.+..++++++..+|++.|+.+..+||+.|...++|..||||.+|++++..
T Consensus 610 Qv~~~~sy~a~q~Del~Le~~Dvv~v~~k~~DGWl~GeRl~Dge~GWFP~~~veeI~~ 667 (695)
T KOG3523|consen 610 QVQCVHSYKAKQPDELTLELADVVNVLQKTPDGWLEGERLRDGERGWFPSSYVEEITN 667 (695)
T ss_pred hhheeeccccCCCceeeeehhhhhhhhhcCCCccccccccccCccCcchHHHHHHhcC
Confidence 3556778999999999999999999999999999999999899999999999988743
No 81
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.29 E-value=5.6e-07 Score=46.91 Aligned_cols=43 Identities=28% Similarity=0.658 Sum_probs=34.5
Q ss_pred cccccccccc-CCCeeecCC-----CCCChhhHHHHHhcccccCCCCCC
Q psy9669 11 ECSVCLDRLD-TSSKVLPCQ-----HTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 11 ~C~iC~~~~~-~~~~~~~Cg-----h~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
.|.||++... ..+.+.+|. |.+|..||.+|+..++..+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899997221 567888986 779999999999876667899994
No 82
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.24 E-value=3.5e-07 Score=73.29 Aligned_cols=53 Identities=26% Similarity=0.657 Sum_probs=43.8
Q ss_pred hcccCCcccccccccc------CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 5 TLNDLLECSVCLDRLD------TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~------~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
.++..-+|+||...+. ..-++..|.|-||..||-.|+.+++.-+||+||..++
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 4566779999998763 2346678999999999999999888889999997663
No 83
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.23 E-value=4.5e-07 Score=51.09 Aligned_cols=48 Identities=29% Similarity=0.565 Sum_probs=22.6
Q ss_pred CCccccccccccCC---C-eee---cCCCCCChhhHHHHHhcccc---------cCCCCCCCCC
Q psy9669 9 LLECSVCLDRLDTS---S-KVL---PCQHTFCKKCLEEIVSSHKE---------LRCPECPTFV 56 (173)
Q Consensus 9 ~~~C~iC~~~~~~~---~-~~~---~Cgh~fc~~Cl~~~~~~~~~---------~~CP~Cr~~i 56 (173)
+..|+||+...... + ..- .|++.||..||.+|+..... -.||.|+.++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 56899999876311 2 111 69999999999999884211 2499998765
No 84
>KOG2856|consensus
Probab=98.21 E-value=3.1e-07 Score=66.25 Aligned_cols=54 Identities=35% Similarity=0.655 Sum_probs=46.3
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEE-cCCCEEEEEeCCCCccCcCCCccccC
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTER-CQDGWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~-~~~~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
.++++|||.++..++|+|+.||.+..+.. +..||..|+. ..|+.|++|.+||+-
T Consensus 416 ~vraLYDY~gqE~DElsfkaGd~l~kl~eeDeqGWC~Grl-~~G~vGLyPAnYVe~ 470 (472)
T KOG2856|consen 416 RVRALYDYAGQEGDELSFKAGDELEKLEEEDEQGWCKGRL-DSGRVGLYPANYVEC 470 (472)
T ss_pred eEEeeeccCcccccchhhccccHhhhcCCccccccccccc-cCCcccccchhhhhc
Confidence 46799999999999999999999976664 4558999995 469999999999874
No 85
>KOG1264|consensus
Probab=98.20 E-value=7.7e-07 Score=70.41 Aligned_cols=56 Identities=30% Similarity=0.641 Sum_probs=49.7
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~ 114 (173)
.++|+++|.+...+||+|.++-+|..+.+..++||.|.. .+...+|||++||+.+.
T Consensus 776 t~kAL~~Yka~r~DELSFpk~aiItnv~keeg~wWrGdY-Gg~iq~wfPsnyVeei~ 831 (1267)
T KOG1264|consen 776 TVKALYDYKAKRSDELSFPKGAIITNVSKEEGGWWRGDY-GGRIQQWFPSNYVEEIS 831 (1267)
T ss_pred hhhhhhccccCCcccccccccceeEeeeccCCceeeccc-ccceeeeccHHHhhhhc
Confidence 367999999999999999999999999999999999995 44567999999999763
No 86
>KOG3875|consensus
Probab=98.17 E-value=4.4e-07 Score=64.05 Aligned_cols=57 Identities=25% Similarity=0.384 Sum_probs=46.1
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcCC-----CCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKRD-----DGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~-----~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
.+++.|||.+.++.|++|++||++.|..+.+ ..||..+....+.+|+||.+||+-+.
T Consensus 270 ~arA~YdF~a~np~ElSlk~Gdml~ia~K~dq~~~~~~gW~lat~dg~~tG~iP~NYvkIi~ 331 (362)
T KOG3875|consen 270 FARALYDFVARNPVELSLKKGDMLAIASKEDQQGVRCEGWLLATRDGGTTGLIPINYVKIIG 331 (362)
T ss_pred HHHHHhhhhcCCHHHhhhhcCchhhcccccccCCCCCcceeeeeccCCeeeeeehhhhhhhh
Confidence 3688999999999999999999998866542 34777766546889999999998653
No 87
>KOG0297|consensus
Probab=98.17 E-value=9.2e-07 Score=66.29 Aligned_cols=52 Identities=31% Similarity=0.740 Sum_probs=43.7
Q ss_pred hhcccCCccccccccccCCCee-ecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 4 WTLNDLLECSVCLDRLDTSSKV-LPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~~~~~~-~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
.++++++.|++|...+ ..|.. +.|||.||..|+..|... ...||.|+..+..
T Consensus 16 ~~~~~~l~C~~C~~vl-~~p~~~~~cgh~fC~~C~~~~~~~--~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 16 RPLDENLLCPICMSVL-RDPVQTTTCGHRFCAGCLLESLSN--HQKCPVCRQELTQ 68 (391)
T ss_pred CCCcccccCccccccc-cCCCCCCCCCCcccccccchhhcc--CcCCcccccccch
Confidence 4578899999999999 67777 599999999999999987 3579999866543
No 88
>KOG0804|consensus
Probab=98.16 E-value=8.2e-07 Score=65.64 Aligned_cols=46 Identities=39% Similarity=0.858 Sum_probs=38.0
Q ss_pred hcccCCccccccccccCCC---eeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 5 TLNDLLECSVCLDRLDTSS---KVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~---~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
.+-+.-+||||++-|+... +.+.|.|+|+..|+..|... +||+||.
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~----scpvcR~ 219 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS----SCPVCRY 219 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC----cChhhhh
Confidence 3557789999999996433 67789999999999999864 5999994
No 89
>KOG4172|consensus
Probab=98.16 E-value=1.2e-07 Score=49.06 Aligned_cols=48 Identities=23% Similarity=0.588 Sum_probs=39.0
Q ss_pred CccccccccccCCCeeecCCCC-CChhhHHHHHhcccccCCCCCCCCCcee
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHT-FCKKCLEEIVSSHKELRCPECPTFVPEY 59 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~-fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~ 59 (173)
-+|-||.+.. .+.++..|||. .|..|-.+.....+ -.||+||+++...
T Consensus 8 dECTICye~p-vdsVlYtCGHMCmCy~Cg~rl~~~~~-g~CPiCRapi~dv 56 (62)
T KOG4172|consen 8 DECTICYEHP-VDSVLYTCGHMCMCYACGLRLKKALH-GCCPICRAPIKDV 56 (62)
T ss_pred cceeeeccCc-chHHHHHcchHHhHHHHHHHHHHccC-CcCcchhhHHHHH
Confidence 5899999988 78889999995 79999888777533 4799999887543
No 90
>KOG1734|consensus
Probab=98.14 E-value=4.3e-07 Score=62.84 Aligned_cols=49 Identities=29% Similarity=0.599 Sum_probs=41.3
Q ss_pred cCCcccccccccc---------CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 8 DLLECSVCLDRLD---------TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 8 ~~~~C~iC~~~~~---------~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
++..|+||...+. ++...+.|+|.||-.||++|.--+++.+||.|+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 5678999998764 245788999999999999999888888999998655
No 91
>KOG1843|consensus
Probab=98.11 E-value=1.6e-06 Score=63.53 Aligned_cols=56 Identities=27% Similarity=0.615 Sum_probs=48.8
Q ss_pred cCCcceecccCCCCCCcceeecCCCEEEEEEcCC--CCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 111 APAKFRCIVPYPPNSEYELELRVGDLIYVHKKRD--DGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 111 ~~~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~--~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
++..+.++++|..+.+..++|++||++.++++.+ +.||.++.. +++|.||++||+.
T Consensus 415 ~~n~a~a~ysfage~~GDl~f~kgDii~il~ks~s~~dwwtgr~~--~~egifPanyv~~ 472 (473)
T KOG1843|consen 415 EPNIATALYSFAGEQPGDLSFQKGDIITILKKSDSANDWWTGRGN--GYEGIFPANYVSL 472 (473)
T ss_pred CcceeeeeehhccCCCCCcccccCceEEEecCCcchhhHHHhhcc--ccccccccceecc
Confidence 3445788899999999999999999999988764 579999987 9999999999974
No 92
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.08 E-value=8e-07 Score=58.80 Aligned_cols=44 Identities=25% Similarity=0.563 Sum_probs=36.6
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCC
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
.+.|-||...+ ..|+.+.|||.||..|..+-.+.+ ..|-+|...
T Consensus 196 PF~C~iCKkdy-~spvvt~CGH~FC~~Cai~~y~kg--~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDY-ESPVVTECGHSFCSLCAIRKYQKG--DECGVCGKA 239 (259)
T ss_pred ceeehhchhhc-cchhhhhcchhHHHHHHHHHhccC--Ccceecchh
Confidence 46899999999 899999999999999987666533 469999743
No 93
>KOG0515|consensus
Probab=98.07 E-value=1.7e-06 Score=65.48 Aligned_cols=54 Identities=28% Similarity=0.501 Sum_probs=46.3
Q ss_pred ceeeccCCCCCCCccccceecCCEEEEEEEcCC---CEEEEEeCCCCccCcCCCccccC
Q psy9669 57 PEYIAIYPYKPQKDDELELRRGSVYTVTERCQD---GWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 57 ~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~---~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
+...|+++|.++..+||+|..||.+.|+.+.++ .||..+.+ |+.|++|.+|+-.
T Consensus 684 G~vYAlwdYeaqf~DELsf~eGd~lTvirr~d~~eteWWwa~ln--g~eGyVPRnylgL 740 (752)
T KOG0515|consen 684 GVVYALWDYEAQFEDELSFDEGDELTVIRRDDEVETEWWWARLN--GEEGYVPRNYLGL 740 (752)
T ss_pred ceeEEeecccccccccccccCCceeEEEecCCcchhhhhhHhhc--Ccccccchhhhhc
Confidence 456789999999999999999999999998543 68888854 8999999999754
No 94
>KOG0828|consensus
Probab=98.06 E-value=1.4e-06 Score=65.20 Aligned_cols=50 Identities=28% Similarity=0.774 Sum_probs=39.6
Q ss_pred ccCCcccccccccc----------------CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 7 NDLLECSVCLDRLD----------------TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 7 ~~~~~C~iC~~~~~----------------~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
+....|+||+.... ..+.+++|-|.|+..||++|...- +..||.||.+++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y-kl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY-KLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh-cccCCccCCCCC
Confidence 45678999996531 236778999999999999999842 357999998875
No 95
>KOG3523|consensus
Probab=98.03 E-value=8.9e-07 Score=67.80 Aligned_cols=57 Identities=33% Similarity=0.660 Sum_probs=52.4
Q ss_pred ceeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 57 PEYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 57 ~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
+....+..|.+..++++.+..+|++.|+.+..+||..|....+|..||||.+|++.+
T Consensus 609 pQv~~~~sy~a~q~Del~Le~~Dvv~v~~k~~DGWl~GeRl~Dge~GWFP~~~veeI 665 (695)
T KOG3523|consen 609 PQVQCVHSYKAKQPDELTLELADVVNVLQKTPDGWLEGERLRDGERGWFPSSYVEEI 665 (695)
T ss_pred ChhheeeccccCCCceeeeehhhhhhhhhcCCCccccccccccCccCcchHHHHHHh
Confidence 455677889999999999999999999999999999999888999999999999876
No 96
>KOG4278|consensus
Probab=97.98 E-value=6.3e-06 Score=64.36 Aligned_cols=57 Identities=16% Similarity=0.464 Sum_probs=48.1
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcCCCC-eeEEEeCCCCcEEEecCCCeEEeccc
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKRDDG-WYKGTLQRTGRTGLFPASFMKQSDFF 172 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~-w~~~~~~~~g~~G~~P~~~v~~~~~~ 172 (173)
-++++|||.+.+++.|++.+||-+.|++...+| |..++.. +|+ ||||.||+.++.+|
T Consensus 92 LFVALYDFvasGdntLSitKGeklRvLGYN~NgEWcEartK-NGq-GWVPSNyItPvNSL 149 (1157)
T KOG4278|consen 92 LFVALYDFVASGDNTLSITKGEKLRVLGYNKNGEWCEARTK-NGQ-GWVPSNYITPVNSL 149 (1157)
T ss_pred eeEeeeeeeccccceeeeecCceEEEeeecCCCcceeeccc-CCC-ccccccccccccch
Confidence 478999999999999999999999999987554 7777764 454 99999999988664
No 97
>KOG4265|consensus
Probab=97.93 E-value=7.4e-06 Score=59.21 Aligned_cols=53 Identities=30% Similarity=0.751 Sum_probs=41.9
Q ss_pred ccCCccccccccccCCCeeecCCCC-CChhhHHHHHhcccccCCCCCCCCCceeecc
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHT-FCKKCLEEIVSSHKELRCPECPTFVPEYIAI 62 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~-fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~ 62 (173)
++.-+|-||++.. ....+++|.|. .|.+|.+...-+.+ .||+||.++.....+
T Consensus 288 ~~gkeCVIClse~-rdt~vLPCRHLCLCs~Ca~~Lr~q~n--~CPICRqpi~~ll~i 341 (349)
T KOG4265|consen 288 ESGKECVICLSES-RDTVVLPCRHLCLCSGCAKSLRYQTN--NCPICRQPIEELLEI 341 (349)
T ss_pred cCCCeeEEEecCC-cceEEecchhhehhHhHHHHHHHhhc--CCCccccchHhhhee
Confidence 4467999999999 89999999997 69999876653333 599999988654433
No 98
>KOG3655|consensus
Probab=97.93 E-value=5.8e-06 Score=61.73 Aligned_cols=55 Identities=27% Similarity=0.630 Sum_probs=49.6
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
.+.|+++|.+....+++|..++.|.+++..++|||.|.- .+|..|+||.|||+..
T Consensus 429 ~A~A~~dyqAAddtEisf~p~d~it~Id~vdegww~g~~-pdG~~glfPaNyV~li 483 (484)
T KOG3655|consen 429 TARALYDYQAADDTEISFDPPDAITLIDQVDEGWWTGQG-PDGEVGLFPANYVELI 483 (484)
T ss_pred CccccccccccCCcccccCCccccccccccCCccccccC-CCCCcCcccccccccC
Confidence 467899999999999999999999999999999999996 5789999999998753
No 99
>KOG3775|consensus
Probab=97.92 E-value=8.4e-06 Score=59.22 Aligned_cols=56 Identities=38% Similarity=0.735 Sum_probs=51.6
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
.++++.|.+..++||.|..||.|.|..+.++-|..+.+.++|+.|.||+.|+-+++
T Consensus 265 HR~~~rFvPRHpDELeLEIgDav~Ve~eadD~W~~G~NlRTG~~GIFPA~ya~evd 320 (482)
T KOG3775|consen 265 HRAVFRFVPRHPDELELEIGDAVLVEAEADDFWFEGFNLRTGERGIFPAFYAHEVD 320 (482)
T ss_pred hhhhhhccCCCcceeeeecCCeeEeeecccchhhccccccccccccccceeEEecC
Confidence 56788899999999999999999999998999999999999999999999998865
No 100
>KOG1039|consensus
Probab=97.86 E-value=8.6e-06 Score=59.52 Aligned_cols=50 Identities=22% Similarity=0.699 Sum_probs=38.3
Q ss_pred ccCCccccccccccCCC-------eeecCCCCCChhhHHHHHhccc-----ccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDRLDTSS-------KVLPCQHTFCKKCLEEIVSSHK-----ELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~-------~~~~Cgh~fc~~Cl~~~~~~~~-----~~~CP~Cr~~i 56 (173)
..+-+|.||++.....+ .+.+|.|.||..|+..|-+..+ ...||+||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 34789999999874333 2256999999999999986544 36899999654
No 101
>KOG3875|consensus
Probab=97.81 E-value=4.3e-06 Score=59.19 Aligned_cols=57 Identities=19% Similarity=0.302 Sum_probs=47.4
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcC-----CCEEEEEeCCCCccCcCCCccccCCc
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQ-----DGWFKGTSQRTQRSGVFPGNYVAPAK 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~-----~~w~~~~~~~~~~~G~~p~~~v~~~~ 114 (173)
.++|+|+|.+..+.|++|++||.+.|..+.+ ..||.......+..|+||.+|++.+.
T Consensus 270 ~arA~YdF~a~np~ElSlk~Gdml~ia~K~dq~~~~~~gW~lat~dg~~tG~iP~NYvkIi~ 331 (362)
T KOG3875|consen 270 FARALYDFVARNPVELSLKKGDMLAIASKEDQQGVRCEGWLLATRDGGTTGLIPINYVKIIG 331 (362)
T ss_pred HHHHHhhhhcCCHHHhhhhcCchhhcccccccCCCCCcceeeeeccCCeeeeeehhhhhhhh
Confidence 3678999999999999999999998887642 35888876556788999999998764
No 102
>KOG4692|consensus
Probab=97.73 E-value=1.8e-05 Score=57.12 Aligned_cols=47 Identities=26% Similarity=0.572 Sum_probs=40.0
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
.++-.||||.-.. ...++.+|+|.-|+.||.+++... ++|-.|+..+
T Consensus 420 sEd~lCpICyA~p-i~Avf~PC~H~SC~~CI~qHlmN~--k~CFfCktTv 466 (489)
T KOG4692|consen 420 SEDNLCPICYAGP-INAVFAPCSHRSCYGCITQHLMNC--KRCFFCKTTV 466 (489)
T ss_pred cccccCcceeccc-chhhccCCCCchHHHHHHHHHhcC--CeeeEeccee
Confidence 4677899999877 678999999999999999999854 4799998655
No 103
>KOG1813|consensus
Probab=97.71 E-value=1e-05 Score=56.96 Aligned_cols=44 Identities=23% Similarity=0.571 Sum_probs=37.1
Q ss_pred CccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
+.|-||...+ ..|+.+.|+|.||..|-...++.+ ..|.+|..++
T Consensus 242 f~c~icr~~f-~~pVvt~c~h~fc~~ca~~~~qk~--~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYF-YRPVVTKCGHYFCEVCALKPYQKG--EKCYVCSQQT 285 (313)
T ss_pred cccccccccc-ccchhhcCCceeehhhhccccccC--Ccceeccccc
Confidence 5699999999 799999999999999987766643 4799998654
No 104
>KOG1645|consensus
Probab=97.69 E-value=2e-05 Score=57.84 Aligned_cols=47 Identities=28% Similarity=0.706 Sum_probs=38.4
Q ss_pred cCCcccccccccc----CCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 8 DLLECSVCLDRLD----TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 8 ~~~~C~iC~~~~~----~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
...+||||++.+. ...+.+.|||.|=.+||++|+......+||.|..
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ 53 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG 53 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence 4568999999874 2347778999999999999998555678999974
No 105
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.69 E-value=2.8e-05 Score=43.69 Aligned_cols=28 Identities=21% Similarity=0.509 Sum_probs=24.3
Q ss_pred cCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 27 PCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 27 ~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
.|-|.|+..||.+|+..++ .||+++...
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~--~CPld~q~w 80 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKG--VCPLDRQTW 80 (88)
T ss_pred ecchHHHHHHHHHHHhhCC--CCCCCCcee
Confidence 5999999999999999754 699998654
No 106
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.69 E-value=1.6e-05 Score=56.13 Aligned_cols=44 Identities=32% Similarity=0.873 Sum_probs=35.4
Q ss_pred CccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
+.|+.|..++.++...-.|+|.||..||..-+.. ..+.||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~d-sDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLD-SDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhh-ccccCCCccc
Confidence 8999999999444444479999999999987764 3478999963
No 107
>KOG4278|consensus
Probab=97.68 E-value=0.00022 Score=56.08 Aligned_cols=65 Identities=23% Similarity=0.553 Sum_probs=50.7
Q ss_pred cCCCCCCCCCceeeccCCCCCCCccccceecCCEEEEEEEcCCC-EEEEEeCCCCccCcCCCccccCCc
Q psy9669 47 LRCPECPTFVPEYIAIYPYKPQKDDELELRRGSVYTVTERCQDG-WFKGTSQRTQRSGVFPGNYVAPAK 114 (173)
Q Consensus 47 ~~CP~Cr~~i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~-w~~~~~~~~~~~G~~p~~~v~~~~ 114 (173)
..|+.= .....++|+|||.+...+.|++.+|+.+.|+.-..++ |...+. .+..||+|++|+.++.
T Consensus 82 la~~se-ndpNLFVALYDFvasGdntLSitKGeklRvLGYN~NgEWcEart--KNGqGWVPSNyItPvN 147 (1157)
T KOG4278|consen 82 LACSSE-NDPNLFVALYDFVASGDNTLSITKGEKLRVLGYNKNGEWCEART--KNGQGWVPSNYITPVN 147 (1157)
T ss_pred hccccc-CCCceeEeeeeeeccccceeeeecCceEEEeeecCCCcceeecc--cCCCcccccccccccc
Confidence 446542 2334578999999999999999999999999976555 666663 4556999999999874
No 108
>KOG1002|consensus
Probab=97.68 E-value=1e-05 Score=61.35 Aligned_cols=50 Identities=30% Similarity=0.752 Sum_probs=42.0
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhc---ccccCCCCCCCCCc
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSS---HKELRCPECPTFVP 57 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~---~~~~~CP~Cr~~i~ 57 (173)
.....|.+|.+.- ..++...|-|.||+.|+.++... +...+||.|-..+.
T Consensus 534 k~~~~C~lc~d~a-ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 534 KGEVECGLCHDPA-EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred cCceeecccCChh-hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 4678999999998 89999999999999999988763 44589999975553
No 109
>KOG1493|consensus
Probab=97.66 E-value=7.1e-06 Score=45.68 Aligned_cols=47 Identities=21% Similarity=0.511 Sum_probs=34.4
Q ss_pred Ccccccccccc-----------CCC-eeecCCCCCChhhHHHHHhc-ccccCCCCCCCCC
Q psy9669 10 LECSVCLDRLD-----------TSS-KVLPCQHTFCKKCLEEIVSS-HKELRCPECPTFV 56 (173)
Q Consensus 10 ~~C~iC~~~~~-----------~~~-~~~~Cgh~fc~~Cl~~~~~~-~~~~~CP~Cr~~i 56 (173)
.+|.||...|+ +-| +.-.|.|.|+..||.+|+.. ++...||+||...
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 38888888774 112 22259999999999999984 3445799999654
No 110
>KOG0827|consensus
Probab=97.64 E-value=2.1e-05 Score=57.39 Aligned_cols=49 Identities=27% Similarity=0.623 Sum_probs=35.1
Q ss_pred Ccccccccccc--CCC-eeecCCCCCChhhHHHHHhcccc-cCCCCCCCCCce
Q psy9669 10 LECSVCLDRLD--TSS-KVLPCQHTFCKKCLEEIVSSHKE-LRCPECPTFVPE 58 (173)
Q Consensus 10 ~~C~iC~~~~~--~~~-~~~~Cgh~fc~~Cl~~~~~~~~~-~~CP~Cr~~i~~ 58 (173)
..|.||.+.+. .+. -+-.|||+|+..||..|+....- ..||+|+-.++.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~ 57 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE 57 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence 47999977663 122 33359999999999999985332 579999944443
No 111
>KOG0825|consensus
Probab=97.63 E-value=1.3e-05 Score=63.45 Aligned_cols=56 Identities=18% Similarity=0.320 Sum_probs=40.7
Q ss_pred CCccccccccccC--CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceeeccCCCC
Q psy9669 9 LLECSVCLDRLDT--SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAIYPYK 66 (173)
Q Consensus 9 ~~~C~iC~~~~~~--~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~~~~~ 66 (173)
.-.||+|+..+.. ...-.+|+|.||..||..|...- -+||+||..+...++...+.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a--qTCPiDR~EF~~v~V~eS~~ 180 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA--QTCPVDRGEFGEVKVLESTG 180 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc--ccCchhhhhhheeeeecccc
Confidence 4478888876632 22344799999999999999854 37999998887766544443
No 112
>KOG4367|consensus
Probab=97.63 E-value=3e-05 Score=57.60 Aligned_cols=39 Identities=28% Similarity=0.769 Sum_probs=34.1
Q ss_pred cccCCccccccccccCCCeeecCCCCCChhhHHHHHhccc
Q psy9669 6 LNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHK 45 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~ 45 (173)
+++++.|+||...+ .+|++++|+|..|+.|....+.+..
T Consensus 1 meeelkc~vc~~f~-~epiil~c~h~lc~~ca~~~~~~tp 39 (699)
T KOG4367|consen 1 MEEELKCPVCGSFY-REPIILPCSHNLCQACARNILVQTP 39 (699)
T ss_pred CcccccCceehhhc-cCceEeecccHHHHHHHHhhcccCC
Confidence 36889999999988 9999999999999999987766544
No 113
>KOG4275|consensus
Probab=97.61 E-value=3e-06 Score=59.41 Aligned_cols=47 Identities=28% Similarity=0.742 Sum_probs=37.3
Q ss_pred CCccccccccccCCCeeecCCC-CCChhhHHHHHhcccccCCCCCCCCCceeecc
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQH-TFCKKCLEEIVSSHKELRCPECPTFVPEYIAI 62 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh-~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~ 62 (173)
+..|+||++.. .+-++++||| .-|..|=++.. .||+||..+..++-+
T Consensus 300 ~~LC~ICmDaP-~DCvfLeCGHmVtCt~CGkrm~------eCPICRqyi~rvvri 347 (350)
T KOG4275|consen 300 RRLCAICMDAP-RDCVFLECGHMVTCTKCGKRMN------ECPICRQYIVRVVRI 347 (350)
T ss_pred HHHHHHHhcCC-cceEEeecCcEEeehhhccccc------cCchHHHHHHHHHhh
Confidence 67899999999 8999999999 56999976543 599999766544433
No 114
>KOG3601|consensus
Probab=97.60 E-value=4.1e-05 Score=51.54 Aligned_cols=53 Identities=36% Similarity=0.747 Sum_probs=47.7
Q ss_pred eeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
..+.+++.++.+.++.+.+|+.+.++...+..||.|.. -|+.|+||++|+.+.
T Consensus 166 qQa~~df~~~pp~ql~f~~gq~~~v~~~ss~~ww~Gs~--lg~agiFpagyv~p~ 218 (222)
T KOG3601|consen 166 QQALYDFQPQPPGQLAFRRGQQIQVLDSSSPFWWFGSK--LGRAGIFPAGYVAPS 218 (222)
T ss_pred hhhcCCCCCCCchhhccccCCcceeecCCCcchhhccc--cCceeeecCcccccc
Confidence 35788889999999999999999999999999999994 499999999998765
No 115
>KOG1843|consensus
Probab=97.56 E-value=4.4e-05 Score=56.19 Aligned_cols=56 Identities=23% Similarity=0.603 Sum_probs=48.0
Q ss_pred CCceeeccCCCCCCCccccceecCCEEEEEEEc--CCCEEEEEeCCCCccCcCCCccccC
Q psy9669 55 FVPEYIAIYPYKPQKDDELELRRGSVYTVTERC--QDGWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 55 ~i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~--~~~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
....+.+++++..+...++.|.+||++.++++. .+.||.+.. .+++|+||.+|++.
T Consensus 415 ~~n~a~a~ysfage~~GDl~f~kgDii~il~ks~s~~dwwtgr~--~~~egifPanyv~~ 472 (473)
T KOG1843|consen 415 EPNIATALYSFAGEQPGDLSFQKGDIITILKKSDSANDWWTGRG--NGYEGIFPANYVSL 472 (473)
T ss_pred CcceeeeeehhccCCCCCcccccCceEEEecCCcchhhHHHhhc--cccccccccceecc
Confidence 334688999999999999999999999988874 447999994 59999999999864
No 116
>KOG1814|consensus
Probab=97.54 E-value=3.2e-05 Score=56.90 Aligned_cols=47 Identities=36% Similarity=0.940 Sum_probs=36.7
Q ss_pred ccCCcccccccccc--CCCeeecCCCCCChhhHHHHHhcc------cccCCCCCC
Q psy9669 7 NDLLECSVCLDRLD--TSSKVLPCQHTFCKKCLEEIVSSH------KELRCPECP 53 (173)
Q Consensus 7 ~~~~~C~iC~~~~~--~~~~~~~Cgh~fc~~Cl~~~~~~~------~~~~CP~Cr 53 (173)
...+.|.||++... ...+.++|+|.||++|++.++... +..+||.+.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 57789999998763 346888999999999999998731 235687765
No 117
>KOG4773|consensus
Probab=97.51 E-value=1.5e-05 Score=57.39 Aligned_cols=56 Identities=36% Similarity=0.667 Sum_probs=50.0
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEeccc
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSDFF 172 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~~~ 172 (173)
..+..+|......||.|..|+++.+..+.+.+||.|+.. +.+||+|.+|+...+.|
T Consensus 178 ~~a~~df~gns~~EL~l~agdV~~~~~r~ek~W~~gk~R--~~~g~yp~sF~~~ld~f 233 (386)
T KOG4773|consen 178 AEASFDFPGNSKLELNLVAGDVEFLLSRDEKYWLLGKVR--GLTGYYPDSFVKQLDDF 233 (386)
T ss_pred HHhhccCCCCccceeeeehhhHHHHHhhcccceeeeeec--cccccccHHhhhhhccC
Confidence 466788988888999999999999999989999999998 99999999999887654
No 118
>KOG3775|consensus
Probab=97.50 E-value=7.8e-05 Score=54.36 Aligned_cols=55 Identities=35% Similarity=0.641 Sum_probs=50.3
Q ss_pred eeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
-++++.|.+..++||.+..||-+.|....++-|.+|...++|++|.||+.|+..+
T Consensus 265 HR~~~rFvPRHpDELeLEIgDav~Ve~eadD~W~~G~NlRTG~~GIFPA~ya~ev 319 (482)
T KOG3775|consen 265 HRAVFRFVPRHPDELELEIGDAVLVEAEADDFWFEGFNLRTGERGIFPAFYAHEV 319 (482)
T ss_pred hhhhhhccCCCcceeeeecCCeeEeeecccchhhccccccccccccccceeEEec
Confidence 4678889999999999999999999999999999999999999999999988754
No 119
>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=97.43 E-value=0.0002 Score=46.09 Aligned_cols=34 Identities=18% Similarity=0.704 Sum_probs=25.3
Q ss_pred cCCccccccccccCCCeeec------------CCCCC-ChhhHHHHHh
Q psy9669 8 DLLECSVCLDRLDTSSKVLP------------CQHTF-CKKCLEEIVS 42 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~------------Cgh~f-c~~Cl~~~~~ 42 (173)
++.+||||++.. ...++|- |+..| +..||.++-.
T Consensus 1 ed~~CpICme~P-HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHP-HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCC-CceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 467999999998 6777775 44443 6789987765
No 120
>KOG1941|consensus
Probab=97.39 E-value=3.2e-05 Score=56.59 Aligned_cols=47 Identities=32% Similarity=0.815 Sum_probs=39.5
Q ss_pred cCCcccccccccc---CCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 8 DLLECSVCLDRLD---TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 8 ~~~~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
-.+-|..|-+.+. ....-++|.|+||..|+.+++..+....||.||.
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3577999998764 3457789999999999999998877789999993
No 121
>KOG2528|consensus
Probab=97.39 E-value=7.7e-05 Score=55.53 Aligned_cols=55 Identities=27% Similarity=0.639 Sum_probs=48.1
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcC-CCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKR-DDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
+.+++|+|...+..+++...+|++.+..+. ..|||.+... .|.+|+||+.||+..
T Consensus 4 k~RamyDf~~E~~sElsi~~~evl~i~~e~~~~GwLeg~Ns-rge~GlfPa~yVeV~ 59 (490)
T KOG2528|consen 4 KARAMYDFQSEGHSELSIWEGEVLSITSEDVIEGWLEGSNS-RGERGLFPASYVEVT 59 (490)
T ss_pred chhhhcchhhcccccccccccceeeecCcccccccccCCCc-cCccCCCcccceeee
Confidence 468899999999999999999999887754 6789999987 799999999999864
No 122
>KOG2222|consensus
Probab=97.36 E-value=3.1e-05 Score=58.33 Aligned_cols=54 Identities=26% Similarity=0.545 Sum_probs=48.4
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
+++++.||.....++|.|++.+++.++.+-+...|.|... |-.||||+.+|+-+
T Consensus 550 rakal~df~r~dddelgfrkndiitiisekdehcwvgeln--glrgwfpakfvell 603 (848)
T KOG2222|consen 550 RAKALHDFAREDDDELGFRKNDIITIISEKDEHCWVGELN--GLRGWFPAKFVELL 603 (848)
T ss_pred HHHHHhhhhhccccccccccccEEEEeecCCcceeeeccc--cccccchHHHHHHH
Confidence 4678889999999999999999999999888889999997 99999999988754
No 123
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.32 E-value=0.00035 Score=45.05 Aligned_cols=49 Identities=24% Similarity=0.360 Sum_probs=38.1
Q ss_pred ccCCccccccccccCCCeeecCCCCC-----ChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTF-----CKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~f-----c~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
..+-.|-||++.- . ....+|...- |.+||++|+..++...|++|+.+..
T Consensus 6 ~~~~~CRIC~~~~-~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEY-D-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCC-C-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 4566999999876 2 2335777654 9999999999888889999987653
No 124
>KOG1001|consensus
Probab=97.28 E-value=9.9e-05 Score=58.98 Aligned_cols=48 Identities=31% Similarity=0.750 Sum_probs=41.6
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
...|++|.+ . ..+.++.|||.||.+|+...+.......||.||..+.+
T Consensus 454 ~~~c~ic~~-~-~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 454 SHWCHICCD-L-DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred ccccccccc-c-ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 389999999 6 89999999999999999999887666689999976643
No 125
>KOG2817|consensus
Probab=97.26 E-value=0.00025 Score=52.19 Aligned_cols=50 Identities=22% Similarity=0.586 Sum_probs=41.7
Q ss_pred cccCCcccccccccc--CCCeeecCCCCCChhhHHHHHhccc-ccCCCCCCCC
Q psy9669 6 LNDLLECSVCLDRLD--TSSKVLPCQHTFCKKCLEEIVSSHK-ELRCPECPTF 55 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~--~~~~~~~Cgh~fc~~Cl~~~~~~~~-~~~CP~Cr~~ 55 (173)
+...+.|||=.+.-. ++|+.+.|||.-+++-|.+....+. .+.||.|+..
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 567889999888664 7999999999999999999887532 4889999753
No 126
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.26 E-value=0.00023 Score=36.71 Aligned_cols=41 Identities=24% Similarity=0.710 Sum_probs=27.9
Q ss_pred cccccccccC-CCeeecCCCCC-----ChhhHHHHHhcccccCCCCC
Q psy9669 12 CSVCLDRLDT-SSKVLPCQHTF-----CKKCLEEIVSSHKELRCPEC 52 (173)
Q Consensus 12 C~iC~~~~~~-~~~~~~Cgh~f-----c~~Cl~~~~~~~~~~~CP~C 52 (173)
|.||++.-.. .+.+.+|.-.- |.+||.+|+...+..+|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 7799986543 35788887754 99999999997666789887
No 127
>KOG4185|consensus
Probab=97.18 E-value=0.00029 Score=51.26 Aligned_cols=48 Identities=27% Similarity=0.804 Sum_probs=39.1
Q ss_pred cCCcccccccccc-----CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 8 DLLECSVCLDRLD-----TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 8 ~~~~C~iC~~~~~-----~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
..+.|-||.+.+. ..|+.+.|||++|..|+...+.... ..||.||...
T Consensus 2 ~~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~-i~cpfcR~~~ 54 (296)
T KOG4185|consen 2 SFPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSR-ILCPFCRETT 54 (296)
T ss_pred CCCceeecCccccccCcccCCcccccCceehHhHHHHHhcCce-eeccCCCCcc
Confidence 3568999998774 4689999999999999998887644 5689999763
No 128
>KOG3632|consensus
Probab=97.18 E-value=0.00035 Score=56.99 Aligned_cols=54 Identities=37% Similarity=0.717 Sum_probs=44.8
Q ss_pred ceecccCCCCC--------CcceeecCCCEEEEEEcC-CCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 115 FRCIVPYPPNS--------EYELELRVGDLIYVHKKR-DDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 115 ~~~~~~~~~~~--------~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
+++++||.+.. ..||.|++|+||.|++.. .+|++.++.. |+.|+||.|+|.++.
T Consensus 1141 fVAlfDYDpl~MSpNpDAaEeELpFregqIikV~GDkDadgFY~GE~n--gr~GlIPcNmvae~~ 1203 (1335)
T KOG3632|consen 1141 FVALFDYDPLQMSPNPDAAEEELPFREGQIIKVLGDKDADGFYMGELN--GRRGLIPCNMVAEQP 1203 (1335)
T ss_pred eEeeeccCccccCCCCChhhhccccccCcEEEEeccccccceeecccc--ccccccccccccccc
Confidence 56778887533 358999999999998854 5799999998 999999999998863
No 129
>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=97.12 E-value=0.00027 Score=35.67 Aligned_cols=41 Identities=17% Similarity=0.682 Sum_probs=24.5
Q ss_pred cccccccccCCCeee--cCCCCCChhhHHHHHhcccccCCCCC
Q psy9669 12 CSVCLDRLDTSSKVL--PCQHTFCKKCLEEIVSSHKELRCPEC 52 (173)
Q Consensus 12 C~iC~~~~~~~~~~~--~Cgh~fc~~Cl~~~~~~~~~~~CP~C 52 (173)
|.+|.++.....+.. .|+-.+|..|+..+++.....+||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678999875555555 49999999999999997665579987
No 130
>KOG2114|consensus
Probab=97.11 E-value=0.0002 Score=57.45 Aligned_cols=43 Identities=35% Similarity=0.780 Sum_probs=36.7
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
...|..|...+..|.+...|||.||+.|+. .+...||.|+...
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e-----~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE-----DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCccccceeeeecccHHHHHhhc-----cCcccCCccchhh
Confidence 468999999997788999999999999998 2556899998644
No 131
>KOG2222|consensus
Probab=97.07 E-value=0.0002 Score=54.21 Aligned_cols=54 Identities=22% Similarity=0.407 Sum_probs=48.4
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
.++++.+|.....+++.|.++|++.++..-++.-|.|+.+ |-+||||..+|+.+
T Consensus 550 rakal~df~r~dddelgfrkndiitiisekdehcwvgeln--glrgwfpakfvell 603 (848)
T KOG2222|consen 550 RAKALHDFAREDDDELGFRKNDIITIISEKDEHCWVGELN--GLRGWFPAKFVELL 603 (848)
T ss_pred HHHHHhhhhhccccccccccccEEEEeecCCcceeeeccc--cccccchHHHHHHH
Confidence 4678889999999999999999999999888889999966 89999999999865
No 132
>KOG0197|consensus
Probab=97.06 E-value=0.00021 Score=54.30 Aligned_cols=60 Identities=27% Similarity=0.590 Sum_probs=51.6
Q ss_pred CCCceeeccCCCCCCCccccceecCCE-EEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 54 TFVPEYIAIYPYKPQKDDELELRRGSV-YTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 54 ~~i~~~~~~~~~~~~~~~el~~~~g~~-v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
......++.++|.+....+|+|..|+. ..+++..+..||..+....+..|++|+||+...
T Consensus 9 ~~~~~~valyd~~s~~~~dLsf~~Gd~~~~~~~~~~~~Ww~ar~~~~~~~g~ip~N~v~~~ 69 (468)
T KOG0197|consen 9 SHETIVVALYDYASRTPEDLSFRKGDVVLILLETTNGDWWRARSLQLGQEGYIPSNYVARN 69 (468)
T ss_pred cccceEEEeccccCCCccccccccCceEEEeeccCChhHHHHHHhhcCCCCcCcCceeecc
Confidence 344567899999999999999999999 777777778999988766889999999999864
No 133
>KOG0197|consensus
Probab=97.04 E-value=0.00017 Score=54.85 Aligned_cols=56 Identities=16% Similarity=0.517 Sum_probs=47.7
Q ss_pred cceecccCCCCCCcceeecCCCE-EEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDL-IYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~-v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
.+.+.+++.+....+|+|..|+. ..++...+..||..+....+..|++|.|||...
T Consensus 13 ~~valyd~~s~~~~dLsf~~Gd~~~~~~~~~~~~Ww~ar~~~~~~~g~ip~N~v~~~ 69 (468)
T KOG0197|consen 13 IVVALYDYASRTPEDLSFRKGDVVLILLETTNGDWWRARSLQLGQEGYIPSNYVARN 69 (468)
T ss_pred eEEEeccccCCCccccccccCceEEEeeccCChhHHHHHHhhcCCCCcCcCceeecc
Confidence 36788999999999999999999 666777678899988766789999999999864
No 134
>PF14603 hSH3: Helically-extended SH3 domain; PDB: 1RI9_A.
Probab=97.04 E-value=0.0011 Score=38.28 Aligned_cols=45 Identities=20% Similarity=0.248 Sum_probs=30.6
Q ss_pred CCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 125 SEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 125 ~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
+...|.+.+||++.|+...+..-|.++.. .|+.|+||.+++-+.+
T Consensus 29 G~kDLpi~~GE~LeVI~~t~~~kvlCRN~-~GKYGYV~~~~L~~~d 73 (89)
T PF14603_consen 29 GGKDLPIKPGEILEVIQFTDDNKVLCRNS-EGKYGYVLRSHLLPLD 73 (89)
T ss_dssp -TTB----TT-B-EEEEESSSSEEEEEET-TTEEEEEEGGGS----
T ss_pred CcccCCcCCCCEEEEEEeCCCCeEEEeCC-CCceeEEEHHHccCCC
Confidence 34689999999999999888888899987 8999999999886654
No 135
>KOG4575|consensus
Probab=97.02 E-value=0.00092 Score=52.20 Aligned_cols=57 Identities=26% Similarity=0.510 Sum_probs=46.5
Q ss_pred CcceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 113 AKFRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 113 ~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
...++.|.+.++..+++.|-+||++.+..-.++.||-+....+...|+||.|+|.-.
T Consensus 9 ~~vrA~y~w~ge~eGdl~f~egDlie~trI~dgkwwi~lhrNk~~~g~fpsNFvhcL 65 (874)
T KOG4575|consen 9 CMVRALYAWPGEREGDLKFTEGDLIEQTRIEDGKWWILLHRNKDEDGLFPSNFVHCL 65 (874)
T ss_pred ceEEeeccCCCCcccccceecccceeEEeeccceeeeeeeecccccccCcccceeec
Confidence 346788899999999999999999999888767677666654667899999999543
No 136
>KOG3002|consensus
Probab=97.02 E-value=0.00046 Score=49.85 Aligned_cols=48 Identities=27% Similarity=0.591 Sum_probs=38.1
Q ss_pred cccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 6 LNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
.-+.+.||||.+.+..+..+-.=||..|.+|-.+.. -+||.||.+++.
T Consensus 45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~-----~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVS-----NKCPTCRLPIGN 92 (299)
T ss_pred chhhccCchhhccCcccceecCCCcEehhhhhhhhc-----ccCCcccccccc
Confidence 457899999999995566666779999999986533 369999988763
No 137
>KOG3557|consensus
Probab=96.99 E-value=0.00011 Score=57.14 Aligned_cols=53 Identities=19% Similarity=0.441 Sum_probs=45.8
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
+.+.|||.+.+..||++.+||++.++.. ...||+++.. .|+.||||.+.+..+
T Consensus 503 ~~~~Ydf~arNs~ELsV~k~E~LEvl~d-~R~WW~~kn~-~G~~GyvP~nIL~~~ 555 (721)
T KOG3557|consen 503 VLVLYDFQARNSSELSVKKGEVLEVLDD-GRKWWKVKNG-HGRAGYVPSNILAPL 555 (721)
T ss_pred eeeehhhhcccchhhhhhhhhhhhhhhc-cccceeccCc-cCCCCCcchhhhccC
Confidence 5678999999999999999999988776 4679999987 799999999887654
No 138
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.97 E-value=0.00044 Score=36.35 Aligned_cols=45 Identities=31% Similarity=0.581 Sum_probs=32.6
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
.....|-.|...- ....+++|||..|..|....--+ .||+|..++
T Consensus 5 ~~~~~~~~~~~~~-~~~~~~pCgH~I~~~~f~~~rYn----gCPfC~~~~ 49 (55)
T PF14447_consen 5 QPEQPCVFCGFVG-TKGTVLPCGHLICDNCFPGERYN----GCPFCGTPF 49 (55)
T ss_pred ccceeEEEccccc-cccccccccceeeccccChhhcc----CCCCCCCcc
Confidence 3455666676655 57788999999999997653322 499998766
No 139
>KOG2930|consensus
Probab=96.94 E-value=0.00034 Score=41.49 Aligned_cols=26 Identities=23% Similarity=0.618 Sum_probs=22.8
Q ss_pred cCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 27 PCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 27 ~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
.|-|.||..||.+|+.+.+ .||+|..
T Consensus 80 ~CNHaFH~hCisrWlktr~--vCPLdn~ 105 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRN--VCPLDNK 105 (114)
T ss_pred ecchHHHHHHHHHHHhhcC--cCCCcCc
Confidence 5999999999999999764 6999964
No 140
>KOG3039|consensus
Probab=96.92 E-value=0.00069 Score=46.78 Aligned_cols=47 Identities=21% Similarity=0.409 Sum_probs=38.0
Q ss_pred cCCccccccccccC---CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 8 DLLECSVCLDRLDT---SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 8 ~~~~C~iC~~~~~~---~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
..+.||+|.+.+.+ -.++-+|||.||..|++.++... ..||+|..++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D--~v~pv~d~pl 269 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD--MVDPVTDKPL 269 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc--ccccCCCCcC
Confidence 67899999998853 24666899999999999999854 4699986544
No 141
>KOG1571|consensus
Probab=96.90 E-value=0.00025 Score=51.57 Aligned_cols=49 Identities=31% Similarity=0.571 Sum_probs=37.2
Q ss_pred cccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceee
Q psy9669 6 LNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYI 60 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~ 60 (173)
+.....|-||.+.. .....++|||.-| |..-..+. ..||+||..+....
T Consensus 302 ~~~p~lcVVcl~e~-~~~~fvpcGh~cc--ct~cs~~l---~~CPvCR~rI~~~~ 350 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEP-KSAVFVPCGHVCC--CTLCSKHL---PQCPVCRQRIRLVR 350 (355)
T ss_pred cCCCCceEEecCCc-cceeeecCCcEEE--chHHHhhC---CCCchhHHHHHHHH
Confidence 34566899999998 5699999999977 77655543 35999998775443
No 142
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.89 E-value=0.00035 Score=42.86 Aligned_cols=34 Identities=32% Similarity=0.707 Sum_probs=27.6
Q ss_pred cccCCccccccccccCC-CeeecCCCCCChhhHHH
Q psy9669 6 LNDLLECSVCLDRLDTS-SKVLPCQHTFCKKCLEE 39 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~-~~~~~Cgh~fc~~Cl~~ 39 (173)
+.++..|++|...+... -...||||.||..|+.+
T Consensus 75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred ECCCCCccCcCCcCCCceEEEeCCCeEEecccccC
Confidence 46788999999988543 46679999999999864
No 143
>KOG1451|consensus
Probab=96.82 E-value=0.0011 Score=51.46 Aligned_cols=50 Identities=28% Similarity=0.647 Sum_probs=39.8
Q ss_pred ecccCCCCCCcceeecCCCEEEE-EEcCCCCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 117 CIVPYPPNSEYELELRVGDLIYV-HKKRDDGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 117 ~~~~~~~~~~~el~~~~g~~v~v-~~~~~~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
.++.-.+....++++..|.++.- .....+||..|+.. |++|++|.|||++
T Consensus 761 ~lyAc~a~h~selsf~~gt~f~nv~~S~e~Gwl~GtLn--Gktglip~nyve~ 811 (812)
T KOG1451|consen 761 TLYACTADHHSELSFEPGTIFTNVYESNEDGWLVGTLN--GKTGLIPSNYVEP 811 (812)
T ss_pred ceeccCCCCcccccccCcceeeeecccCCCCceeeecC--CCcccCcccccCc
Confidence 34444555566899999998864 44567899999998 9999999999986
No 144
>PHA02862 5L protein; Provisional
Probab=96.76 E-value=0.0013 Score=41.64 Aligned_cols=45 Identities=22% Similarity=0.355 Sum_probs=35.1
Q ss_pred CccccccccccCCCeeecCCCC-----CChhhHHHHHhcccccCCCCCCCCC
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHT-----FCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~-----fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
-.|-||++.- .+. ..+|..+ .|++||.+|+..+++..|++|+.+.
T Consensus 3 diCWIC~~~~-~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVC-DER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcC-CCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 4799999865 222 4677664 5999999999987888999999655
No 145
>KOG4773|consensus
Probab=96.75 E-value=0.00028 Score=51.06 Aligned_cols=55 Identities=22% Similarity=0.364 Sum_probs=48.5
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~ 114 (173)
.+.++++|.+....+|.+..|+++.++.+.+.+||.|+ .++..||+|..|+..++
T Consensus 177 ~~~a~~df~gns~~EL~l~agdV~~~~~r~ek~W~~gk--~R~~~g~yp~sF~~~ld 231 (386)
T KOG4773|consen 177 RAEASFDFPGNSKLELNLVAGDVEFLLSRDEKYWLLGK--VRGLTGYYPDSFVKQLD 231 (386)
T ss_pred HHHhhccCCCCccceeeeehhhHHHHHhhcccceeeee--eccccccccHHhhhhhc
Confidence 35678889999999999999999999999999999999 45999999999988763
No 146
>KOG3557|consensus
Probab=96.74 E-value=0.00047 Score=53.79 Aligned_cols=55 Identities=25% Similarity=0.580 Sum_probs=47.5
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCc
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAK 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~ 114 (173)
.+...|++.++...++++.+||++.|+.. ...||..+ +..|+.||+|.+.+.++.
T Consensus 502 ~~~~~Ydf~arNs~ELsV~k~E~LEvl~d-~R~WW~~k-n~~G~~GyvP~nIL~~~~ 556 (721)
T KOG3557|consen 502 WVLVLYDFQARNSSELSVKKGEVLEVLDD-GRKWWKVK-NGHGRAGYVPSNILAPLQ 556 (721)
T ss_pred eeeeehhhhcccchhhhhhhhhhhhhhhc-cccceecc-CccCCCCCcchhhhccCC
Confidence 35678899999999999999999988886 56799999 478999999999988764
No 147
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.71 E-value=0.0014 Score=33.64 Aligned_cols=43 Identities=30% Similarity=0.819 Sum_probs=21.2
Q ss_pred ccccccccc-CCCeee--cCCCCCChhhHHHHHhcccccCCCCCCCC
Q psy9669 12 CSVCLDRLD-TSSKVL--PCQHTFCKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 12 C~iC~~~~~-~~~~~~--~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
||+|.+.+. ....+. +||+..|..|..+.... ..-+||-||.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~-~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN-EGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS-S-SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc-cCCCCCCCCCC
Confidence 789998874 223333 58888999999888863 23479999964
No 148
>PF08239 SH3_3: Bacterial SH3 domain; InterPro: IPR013247 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. A homologue of the SH3 domain has been found in a number of different bacterial proteins including glycyl-glycine endopeptidase, bacteriocin and some hypothetical proteins.; PDB: 3PVQ_B 3NPF_B 3H41_A 2KQ8_A 2KRS_A 2KYB_A 2KT8_A.
Probab=96.68 E-value=0.0049 Score=32.72 Aligned_cols=39 Identities=31% Similarity=0.560 Sum_probs=30.1
Q ss_pred ceeecCCCEEEEEEcCCCC-eeEEEeCCCCcEEEecCCCeE
Q psy9669 128 ELELRVGDLIYVHKKRDDG-WYKGTLQRTGRTGLFPASFMK 167 (173)
Q Consensus 128 el~~~~g~~v~v~~~~~~~-w~~~~~~~~g~~G~~P~~~v~ 167 (173)
--.+..|+.+.++....++ |++.+.. ++..||++..|++
T Consensus 16 i~~l~~g~~v~v~~~~~~~~W~~V~~~-~g~~GwV~~~~l~ 55 (55)
T PF08239_consen 16 IGQLPKGEKVTVLGESGDGNWYKVRTY-DGKTGWVSSSYLS 55 (55)
T ss_dssp EEEEETTSEEEEEEEETT--EEEEEEE-TTEEEEEEGGCEE
T ss_pred hEEEeCCCEEEEEEEcCCcEEEEEECc-CCcEEEEEccccC
Confidence 3457889999998876555 9999444 5889999999875
No 149
>KOG2528|consensus
Probab=96.67 E-value=0.0012 Score=49.36 Aligned_cols=56 Identities=27% Similarity=0.659 Sum_probs=48.0
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEc-CCCEEEEEeCCCCccCcCCCccccCCc
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERC-QDGWFKGTSQRTQRSGVFPGNYVAPAK 114 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~~~~G~~p~~~v~~~~ 114 (173)
..+++|++......+++...++.+.+.... .++||.|. |.+|..|.||..|++...
T Consensus 4 k~RamyDf~~E~~sElsi~~~evl~i~~e~~~~GwLeg~-Nsrge~GlfPa~yVeV~~ 60 (490)
T KOG2528|consen 4 KARAMYDFQSEGHSELSIWEGEVLSITSEDVIEGWLEGS-NSRGERGLFPASYVEVTR 60 (490)
T ss_pred chhhhcchhhcccccccccccceeeecCcccccccccCC-CccCccCCCcccceeeec
Confidence 457889999999999999999999887764 66898888 689999999999998764
No 150
>KOG3725|consensus
Probab=96.60 E-value=0.00039 Score=48.35 Aligned_cols=53 Identities=25% Similarity=0.447 Sum_probs=46.8
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcC--CCCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKR--DDGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~--~~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
+++++|||++-...|+++-..+++.|+.-. +..|..+..+ ++.|.||-+|++-
T Consensus 319 kArVlyDYdAa~s~ElslladeiitVyslpGMD~dwlmgErG--nkkGKvPvtYlEL 373 (375)
T KOG3725|consen 319 KARVLYDYDAALSQELSLLADEIITVYSLPGMDADWLMGERG--NKKGKVPVTYLEL 373 (375)
T ss_pred ceeeeecccccchhhhhhhhcceEEEEecCCCChHHhhhhhc--CCCCCcchhHHHh
Confidence 578999999999999999999999988755 6789999987 9999999999863
No 151
>KOG3800|consensus
Probab=96.59 E-value=0.0015 Score=46.31 Aligned_cols=46 Identities=26% Similarity=0.688 Sum_probs=34.5
Q ss_pred cccccccccc-CC---CeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 11 ECSVCLDRLD-TS---SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 11 ~C~iC~~~~~-~~---~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
.||+|...-+ ++ ..+-+|+|.-|-+|+.+.+..+. ..||.|...+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~-~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP-AQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC-CCCCcccchhh
Confidence 5999997543 22 23448999999999999998643 57999986554
No 152
>KOG4739|consensus
Probab=96.58 E-value=0.001 Score=45.99 Aligned_cols=44 Identities=25% Similarity=0.677 Sum_probs=31.9
Q ss_pred Ccccccccccc-CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 10 LECSVCLDRLD-TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 10 ~~C~iC~~~~~-~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
..|-.|..... .+-.++.|+|+||..|..--.. ..||+|+..+.
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~----~~C~lCkk~ir 48 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP----DVCPLCKKSIR 48 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCc----cccccccceee
Confidence 46777776553 3447778999999999975332 26999997764
No 153
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.40 E-value=0.0029 Score=46.03 Aligned_cols=51 Identities=25% Similarity=0.587 Sum_probs=40.0
Q ss_pred cccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 6 LNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
-+++..|-||-..+ .-...+||+|..|.-|--+.-.--+...||+||..-.
T Consensus 58 DEen~~C~ICA~~~-TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 58 DEENMNCQICAGST-TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccceeEEecCCc-eEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 35778999999988 6778889999999999766544334467999996543
No 154
>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=96.39 E-value=0.0018 Score=33.78 Aligned_cols=45 Identities=22% Similarity=0.591 Sum_probs=24.4
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHh---cccccCCCCCCC
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVS---SHKELRCPECPT 54 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~---~~~~~~CP~Cr~ 54 (173)
.+.||+....+..+.+...|.|..|.+= ..++. ..+...||+|..
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT--
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcC
Confidence 4789999999877888889999988753 33433 234478999974
No 155
>smart00287 SH3b Bacterial SH3 domain homologues.
Probab=96.36 E-value=0.014 Score=31.86 Aligned_cols=39 Identities=26% Similarity=0.382 Sum_probs=31.1
Q ss_pred ceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeE
Q psy9669 128 ELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMK 167 (173)
Q Consensus 128 el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~ 167 (173)
-..+..|+.+.++....++|.+.+.. +|..||++..++.
T Consensus 24 ~~~l~~g~~v~i~~~~~~~W~~v~~~-~g~~Gwi~~~~~~ 62 (63)
T smart00287 24 IGTLKKGDKVKVLGVDGQDWAKITYG-SGQRGYVPGYVVN 62 (63)
T ss_pred eEEecCCCEEEEEEccCCceEEEEcC-CCCEEEEEeeeec
Confidence 35578999999988755589999875 6899999877653
No 156
>KOG4575|consensus
Probab=96.27 E-value=0.0082 Score=47.17 Aligned_cols=56 Identities=20% Similarity=0.448 Sum_probs=45.5
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
..+|.|...++..+++.|-.||++.+..-.+..||-+....+...|+||+++|.-+
T Consensus 10 ~vrA~y~w~ge~eGdl~f~egDlie~trI~dgkwwi~lhrNk~~~g~fpsNFvhcL 65 (874)
T KOG4575|consen 10 MVRALYAWPGEREGDLKFTEGDLIEQTRIEDGKWWILLHRNKDEDGLFPSNFVHCL 65 (874)
T ss_pred eEEeeccCCCCcccccceecccceeEEeeccceeeeeeeecccccccCcccceeec
Confidence 35788889999999999999999998887666666666544678899999999544
No 157
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.21 E-value=0.0033 Score=44.90 Aligned_cols=50 Identities=26% Similarity=0.494 Sum_probs=38.4
Q ss_pred cccCCccccccccccC---CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 6 LNDLLECSVCLDRLDT---SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~---~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
-...+.|||....|+. -..+-+|||.|+..+|++.- ....||+|..++..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k---~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK---KSKKCPVCGKPFTE 162 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc---ccccccccCCcccc
Confidence 4678899999998842 23455899999999999884 22469999977754
No 158
>KOG0609|consensus
Probab=96.21 E-value=0.0023 Score=49.19 Aligned_cols=56 Identities=20% Similarity=0.496 Sum_probs=44.2
Q ss_pred eeeccCCCCCCCcc-------ccceecCCEEEEEEEcCCCEEEEEeCC---CCccCcCCCccccCC
Q psy9669 58 EYIAIYPYKPQKDD-------ELELRRGSVYTVTERCQDGWFKGTSQR---TQRSGVFPGNYVAPA 113 (173)
Q Consensus 58 ~~~~~~~~~~~~~~-------el~~~~g~~v~v~~~~~~~w~~~~~~~---~~~~G~~p~~~v~~~ 113 (173)
..+|.++|.+...+ .+.|.+||++.|+++.+..||.+.... .+..|.+|+......
T Consensus 216 ~vra~FdYdP~~D~~IPCkEagl~F~~GDILqIv~qdD~nWWQA~~~~~~~~~~AGLiPS~~~qer 281 (542)
T KOG0609|consen 216 FVRALFDYDPKEDDLIPCKEAGLPFQRGDILQIVSQDDPNWWQARRVGDPFGGLAGLIPSKELQER 281 (542)
T ss_pred eehhhcCcCcccCCcccchhcCCcccccceeeeccCCCcchhhhhcccCccccccccccCHHHHHH
Confidence 45788899886654 367999999999999999999998643 256799998776543
No 159
>KOG0609|consensus
Probab=96.16 E-value=0.0018 Score=49.73 Aligned_cols=55 Identities=22% Similarity=0.539 Sum_probs=43.6
Q ss_pred cceecccCCCCCCc-------ceeecCCCEEEEEEcCCCCeeEEEeCCC---CcEEEecCCCeEE
Q psy9669 114 KFRCIVPYPPNSEY-------ELELRVGDLIYVHKKRDDGWYKGTLQRT---GRTGLFPASFMKQ 168 (173)
Q Consensus 114 ~~~~~~~~~~~~~~-------el~~~~g~~v~v~~~~~~~w~~~~~~~~---g~~G~~P~~~v~~ 168 (173)
.++++++|.+..+. .+.|.+|||+.+..+.+.-||.++...+ +..|++|+...++
T Consensus 216 ~vra~FdYdP~~D~~IPCkEagl~F~~GDILqIv~qdD~nWWQA~~~~~~~~~~AGLiPS~~~qe 280 (542)
T KOG0609|consen 216 FVRALFDYDPKEDDLIPCKEAGLPFQRGDILQIVSQDDPNWWQARRVGDPFGGLAGLIPSKELQE 280 (542)
T ss_pred eehhhcCcCcccCCcccchhcCCcccccceeeeccCCCcchhhhhcccCccccccccccCHHHHH
Confidence 36778888876643 6999999999999999999999987732 4578999876543
No 160
>KOG1451|consensus
Probab=96.12 E-value=0.0084 Score=46.79 Aligned_cols=53 Identities=30% Similarity=0.686 Sum_probs=42.1
Q ss_pred eeccCCCCCCCccccceecCCEEEEEE-EcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTE-RCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~-~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
+..++.-.+....++++..|.++.-.. ...+||..|+.+ |+.|++|++||+++
T Consensus 759 ~k~lyAc~a~h~selsf~~gt~f~nv~~S~e~Gwl~GtLn--Gktglip~nyve~l 812 (812)
T KOG1451|consen 759 VKTLYACTADHHSELSFEPGTIFTNVYESNEDGWLVGTLN--GKTGLIPSNYVEPL 812 (812)
T ss_pred ccceeccCCCCcccccccCcceeeeecccCCCCceeeecC--CCcccCcccccCcC
Confidence 345566667777889999998886444 667899999976 99999999999864
No 161
>KOG3161|consensus
Probab=96.12 E-value=0.0013 Score=51.43 Aligned_cols=42 Identities=31% Similarity=0.748 Sum_probs=33.8
Q ss_pred hcccCCcccccccccc---CCCeeecCCCCCChhhHHHHHhcccccCCC
Q psy9669 5 TLNDLLECSVCLDRLD---TSSKVLPCQHTFCKKCLEEIVSSHKELRCP 50 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP 50 (173)
.+.+.+.|+||...|. ..|+.+-|||+.|+.|++..... .||
T Consensus 7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~----scp 51 (861)
T KOG3161|consen 7 KWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA----SCP 51 (861)
T ss_pred hhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc----cCC
Confidence 3557789999976653 57899999999999999887764 477
No 162
>KOG1428|consensus
Probab=96.09 E-value=0.0041 Score=53.41 Aligned_cols=53 Identities=21% Similarity=0.557 Sum_probs=39.7
Q ss_pred cccCCcccccccc-cc-CCCeeecCCCCCChhhHHHHHhcc---c-----ccCCCCCCCCCce
Q psy9669 6 LNDLLECSVCLDR-LD-TSSKVLPCQHTFCKKCLEEIVSSH---K-----ELRCPECPTFVPE 58 (173)
Q Consensus 6 ~~~~~~C~iC~~~-~~-~~~~~~~Cgh~fc~~Cl~~~~~~~---~-----~~~CP~Cr~~i~~ 58 (173)
-+.+-.|-||+.. +. .+.+.+.|+|.|+..|.++.+... . -..||+|+..+.+
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 3566789999964 32 577899999999999998877632 1 1469999987753
No 163
>KOG0199|consensus
Probab=95.88 E-value=0.012 Score=47.37 Aligned_cols=51 Identities=25% Similarity=0.281 Sum_probs=41.7
Q ss_pred ecccCCCCCCcceeecCCCEEEEEEcCC-CCeeEEEeCCCCcEEEecCCCeE
Q psy9669 117 CIVPYPPNSEYELELRVGDLIYVHKKRD-DGWYKGTLQRTGRTGLFPASFMK 167 (173)
Q Consensus 117 ~~~~~~~~~~~el~~~~g~~v~v~~~~~-~~w~~~~~~~~g~~G~~P~~~v~ 167 (173)
+...++...++.|.+..||.|.|++... +-||.+...++++.|.||.+.|.
T Consensus 379 a~~~~d~~ep~aLh~~kgD~IvVIegs~a~y~WfgQn~Rn~kvG~Fprsvvt 430 (1039)
T KOG0199|consen 379 ARETYDSIEPGALHLTKGDEIVVIEGSGAGYDWFGQNKRNQKVGTFPRSVVT 430 (1039)
T ss_pred eeeeccccCCCceeeccCCeEEEEecCCccceeeccccccceecccCcceee
Confidence 3455666778899999999998888654 45999988778999999999876
No 164
>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=95.79 E-value=0.0032 Score=43.39 Aligned_cols=49 Identities=29% Similarity=0.692 Sum_probs=34.7
Q ss_pred hcccCCccccccccccCCC--e--eec-CCCCCChhhHHHHHhcccccCCC--CCCC
Q psy9669 5 TLNDLLECSVCLDRLDTSS--K--VLP-CQHTFCKKCLEEIVSSHKELRCP--ECPT 54 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~--~--~~~-Cgh~fc~~Cl~~~~~~~~~~~CP--~Cr~ 54 (173)
.-..+-.||+|...-+..| . +.| |-|..|-+|+.+.+..+. ..|| -|..
T Consensus 6 ~~~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~Gp-AqCP~~gC~k 61 (314)
T COG5220 6 EEMEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGP-AQCPYKGCGK 61 (314)
T ss_pred hhhhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCC-CCCCCccHHH
Confidence 3345669999997644222 2 224 999999999999998643 5799 4543
No 165
>KOG1940|consensus
Probab=95.76 E-value=0.0051 Score=43.81 Aligned_cols=44 Identities=30% Similarity=0.782 Sum_probs=36.9
Q ss_pred CCcccccccccc---CCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 9 LLECSVCLDRLD---TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 9 ~~~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
...||||.+.+. ..+..++|||.-+..|++.....+ .+||+|..
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~--y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG--YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC--CCCCcccc
Confidence 345999998764 567888999999999999988765 78999987
No 166
>PF14603 hSH3: Helically-extended SH3 domain; PDB: 1RI9_A.
Probab=95.72 E-value=0.011 Score=34.33 Aligned_cols=44 Identities=14% Similarity=0.209 Sum_probs=30.5
Q ss_pred CccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 69 KDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 69 ~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
...+|.+.+|+++.|++..+..-|.++ |..|+-|+++.+++-+.
T Consensus 29 G~kDLpi~~GE~LeVI~~t~~~kvlCR-N~~GKYGYV~~~~L~~~ 72 (89)
T PF14603_consen 29 GGKDLPIKPGEILEVIQFTDDNKVLCR-NSEGKYGYVLRSHLLPL 72 (89)
T ss_dssp -TTB----TT-B-EEEEESSSSEEEEE-ETTTEEEEEEGGGS---
T ss_pred CcccCCcCCCCEEEEEEeCCCCeEEEe-CCCCceeEEEHHHccCC
Confidence 456799999999999999999999999 47899999999887543
No 167
>KOG4429|consensus
Probab=95.69 E-value=0.0037 Score=44.46 Aligned_cols=53 Identities=19% Similarity=0.297 Sum_probs=46.1
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
..+.|.|.+...++|....|+++.+-+.-..|||.++.. |..|-||+.+|++.
T Consensus 366 cdafYSfqarqddel~~e~gditif~Ekkeeg~~f~rl~--gd~~hf~Aa~iEea 418 (421)
T KOG4429|consen 366 CDAFYSFQARQDDELGGEIGDITIFDEKKEEGPTFCRLL--GDFEHFHAAEIEEA 418 (421)
T ss_pred hhhhhccccccccccCCcccceeeecCcccCCCceeeec--cccCCCcHHHHHHh
Confidence 456788999999999999999998877778899999998 99999999988653
No 168
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.66 E-value=0.0088 Score=43.01 Aligned_cols=50 Identities=24% Similarity=0.578 Sum_probs=41.1
Q ss_pred hcccCCcccccccccc--CCCeeecCCCCCChhhHHHHHhcc-cccCCCCCCC
Q psy9669 5 TLNDLLECSVCLDRLD--TSSKVLPCQHTFCKKCLEEIVSSH-KELRCPECPT 54 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~--~~~~~~~Cgh~fc~~Cl~~~~~~~-~~~~CP~Cr~ 54 (173)
.+...+.||+=.+.-+ ++|+++.|||..=+.-+.+..+.+ ..+.||.|+.
T Consensus 332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 4678899999888765 789999999999999998887743 3478999973
No 169
>KOG4362|consensus
Probab=95.58 E-value=0.002 Score=51.11 Aligned_cols=52 Identities=31% Similarity=0.800 Sum_probs=42.2
Q ss_pred hcccCCccccccccccCCCeeecCCCCCChhhHHHHHhccc-ccCCCCCCCCCc
Q psy9669 5 TLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHK-ELRCPECPTFVP 57 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~-~~~CP~Cr~~i~ 57 (173)
.+...++|+||.... ..+..+.|-|.||..|+...+...+ ...||+|+..+.
T Consensus 17 ~~~k~lEc~ic~~~~-~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 17 AMQKILECPICLEHV-KEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred HHhhhccCCceeEEe-eccchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 355778999999988 6779999999999999987776544 468999986553
No 170
>KOG0826|consensus
Probab=95.49 E-value=0.0095 Score=43.07 Aligned_cols=45 Identities=24% Similarity=0.488 Sum_probs=35.4
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCC
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
.+.-.||+|...-.++.++..=|-.||..|+-.+....+ +||+=.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~--~CPVT~ 342 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYG--HCPVTG 342 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcC--CCCccC
Confidence 466789999988745666666799999999999998543 698743
No 171
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.42 E-value=0.0062 Score=44.22 Aligned_cols=45 Identities=29% Similarity=0.729 Sum_probs=30.2
Q ss_pred cccccccccc-CCC--eeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 11 ECSVCLDRLD-TSS--KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 11 ~C~iC~~~~~-~~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
.||.|.+.++ .+- .-.+||-..|+-|....-+.-+ -+||.||...
T Consensus 16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~ln-grcpacrr~y 63 (480)
T COG5175 16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLN-GRCPACRRKY 63 (480)
T ss_pred cCcccccccccccCCcccCCcccHHHHHHHHHHHhhcc-CCChHhhhhc
Confidence 4999999875 122 3335777779988765554323 4799999543
No 172
>KOG2932|consensus
Probab=95.35 E-value=0.0078 Score=43.18 Aligned_cols=41 Identities=29% Similarity=0.775 Sum_probs=28.1
Q ss_pred cccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 12 CSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 12 C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
|--|---+..-.++++|.|.||.+|-...- .+.||.|-..+
T Consensus 93 Cd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~----dK~Cp~C~d~V 133 (389)
T KOG2932|consen 93 CDRCDFPIAIYGRMIPCKHVFCLECARSDS----DKICPLCDDRV 133 (389)
T ss_pred ecccCCcceeeecccccchhhhhhhhhcCc----cccCcCcccHH
Confidence 556655443456888999999999985422 35699996433
No 173
>PRK10884 SH3 domain-containing protein; Provisional
Probab=95.33 E-value=0.03 Score=38.52 Aligned_cols=40 Identities=15% Similarity=0.215 Sum_probs=33.0
Q ss_pred eeecCCCEEEEEEcCC-CCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 129 LELRVGDLIYVHKKRD-DGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 129 l~~~~g~~v~v~~~~~-~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
-++..|+.+.++...+ .+|.+.+.. +|++|||+..|+...
T Consensus 48 ~~l~~G~~v~vl~~~~~~~w~~Vr~~-~G~~GWV~~~~Ls~~ 88 (206)
T PRK10884 48 GTLNAGEEVTLLQVNANTNYAQIRDS-KGRTAWIPLKQLSTT 88 (206)
T ss_pred EEEcCCCEEEEEEEcCCCCEEEEEeC-CCCEEeEEHHHhcCC
Confidence 4688999999988764 689999875 699999999988753
No 174
>KOG1812|consensus
Probab=95.28 E-value=0.0075 Score=45.49 Aligned_cols=43 Identities=33% Similarity=0.867 Sum_probs=30.1
Q ss_pred CCcccccc-ccccC--CCeeecCCCCCChhhHHHHHhc----ccccCCCC
Q psy9669 9 LLECSVCL-DRLDT--SSKVLPCQHTFCKKCLEEIVSS----HKELRCPE 51 (173)
Q Consensus 9 ~~~C~iC~-~~~~~--~~~~~~Cgh~fc~~Cl~~~~~~----~~~~~CP~ 51 (173)
..+|.||. +.... .-....|+|.||.+|+++++.. ....+||.
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~ 195 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH 195 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence 56899999 44321 1225679999999999998873 23456765
No 175
>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=95.28 E-value=0.0091 Score=37.67 Aligned_cols=43 Identities=26% Similarity=0.529 Sum_probs=31.1
Q ss_pred CCccccccccccC--CCeeecCC------CCCChhhHHHHHhcccccCCCCCC
Q psy9669 9 LLECSVCLDRLDT--SSKVLPCQ------HTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 9 ~~~C~iC~~~~~~--~~~~~~Cg------h~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
..+|.||.+.+.. ..+.++|| |.||.+|+++|.+.. .+-|.=|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~--~rDPfnR 76 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER--NRDPFNR 76 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc--cCCCccc
Confidence 7899999998854 45666776 459999999996432 3455544
No 176
>PHA03096 p28-like protein; Provisional
Probab=95.26 E-value=0.0082 Score=43.24 Aligned_cols=44 Identities=18% Similarity=0.395 Sum_probs=31.6
Q ss_pred CccccccccccCC-------CeeecCCCCCChhhHHHHHhcc-cccCCCCCC
Q psy9669 10 LECSVCLDRLDTS-------SKVLPCQHTFCKKCLEEIVSSH-KELRCPECP 53 (173)
Q Consensus 10 ~~C~iC~~~~~~~-------~~~~~Cgh~fc~~Cl~~~~~~~-~~~~CP~Cr 53 (173)
-.|.||++..... ..+..|-|.||..|+..|-... ....||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 5799999865432 2444799999999999997742 234566665
No 177
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.20 E-value=0.013 Score=36.72 Aligned_cols=49 Identities=24% Similarity=0.630 Sum_probs=36.2
Q ss_pred cCCccccccccccCCCeeec----CCCCCChhhHHHHH-hcccccCCCCCCCCCc
Q psy9669 8 DLLECSVCLDRLDTSSKVLP----CQHTFCKKCLEEIV-SSHKELRCPECPTFVP 57 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~----Cgh~fc~~Cl~~~~-~~~~~~~CP~Cr~~i~ 57 (173)
...+|-||++.- .+..++. ||=..|..|--..+ ...--+.||.|+..+.
T Consensus 79 ~lYeCnIC~etS-~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETS-AEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCccccc-chhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 568999999987 4554443 99999999964444 4444568999997764
No 178
>KOG3970|consensus
Probab=95.15 E-value=0.018 Score=39.47 Aligned_cols=47 Identities=30% Similarity=0.634 Sum_probs=36.7
Q ss_pred Ccccccccccc-CCCeeecCCCCCChhhHHHHHhcc------cccCCCCCCCCC
Q psy9669 10 LECSVCLDRLD-TSSKVLPCQHTFCKKCLEEIVSSH------KELRCPECPTFV 56 (173)
Q Consensus 10 ~~C~iC~~~~~-~~~~~~~Cgh~fc~~Cl~~~~~~~------~~~~CP~Cr~~i 56 (173)
-.|..|...+- .+.+-+.|-|.|+..|+.++...- ...+||.|..+|
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 47999998773 356788999999999999997732 235799998655
No 179
>KOG1952|consensus
Probab=95.09 E-value=0.013 Score=47.57 Aligned_cols=48 Identities=29% Similarity=0.751 Sum_probs=37.3
Q ss_pred ccCCccccccccccCC---CeeecCCCCCChhhHHHHHhcc-----cccCCCCCCC
Q psy9669 7 NDLLECSVCLDRLDTS---SKVLPCQHTFCKKCLEEIVSSH-----KELRCPECPT 54 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~---~~~~~Cgh~fc~~Cl~~~~~~~-----~~~~CP~Cr~ 54 (173)
...++|-||.+.+... .....|-|+|+..||++|..+. ...+||.|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 5788999999988522 2344699999999999998852 3468999983
No 180
>KOG4445|consensus
Probab=95.06 E-value=0.0031 Score=44.92 Aligned_cols=50 Identities=26% Similarity=0.533 Sum_probs=36.9
Q ss_pred cCCccccccccccCC--CeeecCCCCCChhhHHHHHhccc---------------------ccCCCCCCCCCc
Q psy9669 8 DLLECSVCLDRLDTS--SKVLPCQHTFCKKCLEEIVSSHK---------------------ELRCPECPTFVP 57 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~--~~~~~Cgh~fc~~Cl~~~~~~~~---------------------~~~CP~Cr~~i~ 57 (173)
..-.|.||+--|-.. -..+.|-|-||..||.+++..-. ...||+||..+.
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 456899999766333 36778999999999988876210 135999997665
No 181
>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=94.86 E-value=0.0018 Score=35.97 Aligned_cols=44 Identities=20% Similarity=0.495 Sum_probs=24.7
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceee
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYI 60 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~ 60 (173)
++.||.|...|. .. . +|.+|..|-..+... ..||-|..++....
T Consensus 1 e~~CP~C~~~L~-~~---~-~~~~C~~C~~~~~~~---a~CPdC~~~Le~Lk 44 (70)
T PF07191_consen 1 ENTCPKCQQELE-WQ---G-GHYHCEACQKDYKKE---AFCPDCGQPLEVLK 44 (70)
T ss_dssp --B-SSS-SBEE-EE---T-TEEEETTT--EEEEE---EE-TTT-SB-EEEE
T ss_pred CCcCCCCCCccE-Ee---C-CEEECccccccceec---ccCCCcccHHHHHH
Confidence 468999998873 11 1 888999999876643 46999987775544
No 182
>KOG3771|consensus
Probab=94.59 E-value=0.018 Score=43.66 Aligned_cols=52 Identities=21% Similarity=0.255 Sum_probs=39.5
Q ss_pred cceecccCCCCCCcceeecCCCEEEEEEcC-CCCeeEEEeCCCCcEEEecCCCeE
Q psy9669 114 KFRCIVPYPPNSEYELELRVGDLIYVHKKR-DDGWYKGTLQRTGRTGLFPASFMK 167 (173)
Q Consensus 114 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~g~~G~~P~~~v~ 167 (173)
...++++|.+...++|+|..|++|.++... .+.||.|++. |..+-+|.+|+.
T Consensus 402 ~v~a~~dy~a~~~deLsf~~gd~i~vi~s~~~~e~~eg~~m--g~ke~~~~~~~~ 454 (460)
T KOG3771|consen 402 KVKALHDYAAQDTDELSFEAGDVILVIPSDNPEEQDEGWLM--GVKESDWNGLFP 454 (460)
T ss_pred ceeccccccccccccccccCCCEEEEecCCCccchhhHHHh--hhccccccccee
Confidence 457789999999999999999999887754 3567777776 655555555553
No 183
>KOG0199|consensus
Probab=94.55 E-value=0.046 Score=44.23 Aligned_cols=51 Identities=27% Similarity=0.384 Sum_probs=41.5
Q ss_pred ccCCCCCCCccccceecCCEEEEEEEcC-CCEEEEEeCCCCccCcCCCcccc
Q psy9669 61 AIYPYKPQKDDELELRRGSVYTVTERCQ-DGWFKGTSQRTQRSGVFPGNYVA 111 (173)
Q Consensus 61 ~~~~~~~~~~~el~~~~g~~v~v~~~~~-~~w~~~~~~~~~~~G~~p~~~v~ 111 (173)
+...++....+.|.+.+||.|.|++... ..||.|.....++.|.||.+.+.
T Consensus 379 a~~~~d~~ep~aLh~~kgD~IvVIegs~a~y~WfgQn~Rn~kvG~Fprsvvt 430 (1039)
T KOG0199|consen 379 ARETYDSIEPGALHLTKGDEIVVIEGSGAGYDWFGQNKRNQKVGTFPRSVVT 430 (1039)
T ss_pred eeeeccccCCCceeeccCCeEEEEecCCccceeeccccccceecccCcceee
Confidence 3445667788899999999999888654 46999987778899999998776
No 184
>KOG4429|consensus
Probab=94.54 E-value=0.022 Score=40.74 Aligned_cols=53 Identities=21% Similarity=0.218 Sum_probs=45.4
Q ss_pred eeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
..+.|.+.+...+++....|+++.+-++..++||.++.+ |..|-||+.+++..
T Consensus 366 cdafYSfqarqddel~~e~gditif~Ekkeeg~~f~rl~--gd~~hf~Aa~iEea 418 (421)
T KOG4429|consen 366 CDAFYSFQARQDDELGGEIGDITIFDEKKEEGPTFCRLL--GDFEHFHAAEIEEA 418 (421)
T ss_pred hhhhhccccccccccCCcccceeeecCcccCCCceeeec--cccCCCcHHHHHHh
Confidence 456788999999999999999998888888999999976 78888998887653
No 185
>KOG0298|consensus
Probab=94.54 E-value=0.009 Score=50.57 Aligned_cols=51 Identities=29% Similarity=0.658 Sum_probs=41.8
Q ss_pred hcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 5 TLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
++.....|+||.+.+.+--.+..|||.+|..|..-|+..+ ..||+|+....
T Consensus 1149 ~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~--s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1149 NLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYAS--SRCPICKSIKG 1199 (1394)
T ss_pred HhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHh--ccCcchhhhhh
Confidence 3556678999999995577888999999999999999865 47999985443
No 186
>KOG3725|consensus
Probab=94.51 E-value=0.014 Score=40.94 Aligned_cols=54 Identities=24% Similarity=0.446 Sum_probs=45.2
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEE--cCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTER--CQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~--~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
.+++++||++....++++-.++++.|..- -+.+|..|+ ..++.|-+|..|++.+
T Consensus 319 kArVlyDYdAa~s~ElslladeiitVyslpGMD~dwlmgE--rGnkkGKvPvtYlELL 374 (375)
T KOG3725|consen 319 KARVLYDYDAALSQELSLLADEIITVYSLPGMDADWLMGE--RGNKKGKVPVTYLELL 374 (375)
T ss_pred ceeeeecccccchhhhhhhhcceEEEEecCCCChHHhhhh--hcCCCCCcchhHHHhc
Confidence 57789999999999999999999987764 356799998 5789999999998643
No 187
>PF06347 SH3_4: Bacterial SH3 domain; InterPro: IPR010466 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This family consists of several hypothetical bacterial proteins of unknown function, but that contain an SH-3 region.
Probab=94.36 E-value=0.35 Score=25.52 Aligned_cols=36 Identities=31% Similarity=0.428 Sum_probs=29.0
Q ss_pred ceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCe
Q psy9669 128 ELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFM 166 (173)
Q Consensus 128 el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v 166 (173)
-..+..|..+.+... .++|.+.+. +|.+||++.+.+
T Consensus 18 v~~l~~g~~v~v~~~-~~~W~~V~~--~g~~GWv~~~~l 53 (55)
T PF06347_consen 18 VARLEPGVPVRVIEC-RGGWCKVRA--DGRTGWVHKSLL 53 (55)
T ss_pred EEEECCCCEEEEEEc-cCCeEEEEE--CCeEEeEEeeec
Confidence 467788988888755 678999994 599999998765
No 188
>KOG3771|consensus
Probab=94.07 E-value=0.037 Score=42.08 Aligned_cols=55 Identities=20% Similarity=0.123 Sum_probs=40.2
Q ss_pred CCCceeeccCCCCCCCccccceecCCEEEEEEEc-CCCEEEEEeCCCCccCcCCCccc
Q psy9669 54 TFVPEYIAIYPYKPQKDDELELRRGSVYTVTERC-QDGWFKGTSQRTQRSGVFPGNYV 110 (173)
Q Consensus 54 ~~i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~~~~G~~p~~~v 110 (173)
..+....++++|.+...++|+|..|+.|.|+... .+.||.|..+ |..+-++.+|+
T Consensus 398 ~~~~~v~a~~dy~a~~~deLsf~~gd~i~vi~s~~~~e~~eg~~m--g~ke~~~~~~~ 453 (460)
T KOG3771|consen 398 GFLYKVKALHDYAAQDTDELSFEAGDVILVIPSDNPEEQDEGWLM--GVKESDWNGLF 453 (460)
T ss_pred CCccceeccccccccccccccccCCCEEEEecCCCccchhhHHHh--hhcccccccce
Confidence 3444577899999999999999999999888753 4468888754 44444444444
No 189
>COG3103 SH3 domain protein [Signal transduction mechanisms]
Probab=94.06 E-value=0.12 Score=35.51 Aligned_cols=92 Identities=16% Similarity=0.259 Sum_probs=62.4
Q ss_pred ceecCCEEEEEEEcCC-CEEEEEeCCCCccCcCCCccccCCcceecccCCC----------CCCcceeecCCCEEEEEEc
Q psy9669 74 ELRRGSVYTVTERCQD-GWFKGTSQRTQRSGVFPGNYVAPAKFRCIVPYPP----------NSEYELELRVGDLIYVHKK 142 (173)
Q Consensus 74 ~~~~g~~v~v~~~~~~-~w~~~~~~~~~~~G~~p~~~v~~~~~~~~~~~~~----------~~~~el~~~~g~~v~v~~~ 142 (173)
++..|+.+.|+..... +|...+. ..|+.|||++.++........+-... ...-.-.++.|..+.+...
T Consensus 49 ~i~~Ge~vtvl~~~~~~~~~qI~~-~~g~t~wi~~~~lt~e~s~~~~~p~~~~nVr~~t~t~~~v~g~~~~~t~~~~~sk 127 (205)
T COG3103 49 SIKAGEKVTVLGTDGNTGYYQIRD-SSGRTGWILSKNLTSEPSSNERVPDLELNVRELTKTLSNVDGTWKQGTAVMQISK 127 (205)
T ss_pred EecCCcEEEEEEEcCcccEEEEEe-cCCceEEEechhhccccccceecCchhhhhhhcccchhhhhhhhhcCcEEEEEee
Confidence 5788999999998655 6888885 57999999998876542211111000 0011223566777777777
Q ss_pred CCCCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 143 RDDGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 143 ~~~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
..++|....+. ++.|++-..|+..
T Consensus 128 ~~~~w~~~~~~--~k~~~vs~q~~~~ 151 (205)
T COG3103 128 TQNNWYIITLK--GKNGYVSGQLVTA 151 (205)
T ss_pred ccccchhhhhh--cccchhhhhheec
Confidence 77899988887 8999887776654
No 190
>PF08239 SH3_3: Bacterial SH3 domain; InterPro: IPR013247 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. A homologue of the SH3 domain has been found in a number of different bacterial proteins including glycyl-glycine endopeptidase, bacteriocin and some hypothetical proteins.; PDB: 3PVQ_B 3NPF_B 3H41_A 2KQ8_A 2KRS_A 2KYB_A 2KT8_A.
Probab=93.91 E-value=0.077 Score=27.98 Aligned_cols=38 Identities=26% Similarity=0.528 Sum_probs=29.0
Q ss_pred cceecCCEEEEEEEcCCC-EEEEEeCCCCccCcCCCcccc
Q psy9669 73 LELRRGSVYTVTERCQDG-WFKGTSQRTQRSGVFPGNYVA 111 (173)
Q Consensus 73 l~~~~g~~v~v~~~~~~~-w~~~~~~~~~~~G~~p~~~v~ 111 (173)
-.+..|+.+.++.....+ |.+... ..+..||++..|++
T Consensus 17 ~~l~~g~~v~v~~~~~~~~W~~V~~-~~g~~GwV~~~~l~ 55 (55)
T PF08239_consen 17 GQLPKGEKVTVLGESGDGNWYKVRT-YDGKTGWVSSSYLS 55 (55)
T ss_dssp EEEETTSEEEEEEEETT--EEEEEE-ETTEEEEEEGGCEE
T ss_pred EEEeCCCEEEEEEEcCCcEEEEEEC-cCCcEEEEEccccC
Confidence 357889999999987665 988843 45779999998863
No 191
>KOG3705|consensus
Probab=93.84 E-value=0.05 Score=40.77 Aligned_cols=54 Identities=33% Similarity=0.511 Sum_probs=45.2
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEE
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQ 168 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~ 168 (173)
..+.++..++..+++.++.||.|.+.+..=+|.-+|+...+++.|+||+--|++
T Consensus 512 ~ivi~aH~prt~~ei~l~vGD~vgvAGNHWdGySKG~Nr~t~~~GlfPSyKvre 565 (580)
T KOG3705|consen 512 VIVIEAHIPRTNKEIDLKVGDKVGVAGNHWDGYSKGTNRQTYKEGLFPSYKVRE 565 (580)
T ss_pred eEEEEecCCCcccccCcccCCeeeecccccccccccccccccccCCCccceeee
Confidence 456777888888999999999999888766777788877789999999977765
No 192
>KOG2034|consensus
Probab=93.76 E-value=0.029 Score=45.89 Aligned_cols=37 Identities=32% Similarity=0.546 Sum_probs=29.4
Q ss_pred cccCCcccccccccc-CCCeeecCCCCCChhhHHHHHh
Q psy9669 6 LNDLLECSVCLDRLD-TSSKVLPCQHTFCKKCLEEIVS 42 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~-~~~~~~~Cgh~fc~~Cl~~~~~ 42 (173)
++..-.|.+|...+- .+-.+.+|||.||.+||.+...
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 456678999998653 4557789999999999977654
No 193
>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=93.76 E-value=0.036 Score=24.60 Aligned_cols=9 Identities=22% Similarity=0.700 Sum_probs=4.6
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
+||-|....
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 355555544
No 194
>KOG0824|consensus
Probab=93.74 E-value=0.12 Score=37.17 Aligned_cols=52 Identities=23% Similarity=0.649 Sum_probs=39.1
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceee
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYI 60 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~ 60 (173)
.++-.|-+|...+..+...-.|+|.||..|.+.|....+ .||.|+.......
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~--~~~d~~~~~~pv~ 154 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGN--DCPDCRGKISPVL 154 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhh--ccchhhcCcCcee
Confidence 456678889988865666667999999999999988543 5888875554433
No 195
>KOG1100|consensus
Probab=93.57 E-value=0.046 Score=37.66 Aligned_cols=42 Identities=31% Similarity=0.717 Sum_probs=31.4
Q ss_pred CCccccccccccCCCeeecCCC-CCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQH-TFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh-~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
.-.|..|...- ....++||.| ..|..|=.. ...||+|+....
T Consensus 158 ~~~Cr~C~~~~-~~VlllPCrHl~lC~~C~~~------~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 158 MRSCRKCGERE-ATVLLLPCRHLCLCGICDES------LRICPICRSPKT 200 (207)
T ss_pred cccceecCcCC-ceEEeecccceEeccccccc------CccCCCCcChhh
Confidence 34488888766 5688899999 689999754 235999986553
No 196
>KOG3565|consensus
Probab=93.41 E-value=0.016 Score=46.37 Aligned_cols=56 Identities=23% Similarity=0.604 Sum_probs=45.9
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcC-CCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKR-DDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
..+.+.|.+.+++++++.+|+++.+++.. .+||=+++....+..|+||++|++...
T Consensus 581 ~~a~~~~~~~s~~~~si~~~~il~~ie~~~g~gwt~~r~~~~~~~g~~Ptsyl~~~~ 637 (640)
T KOG3565|consen 581 SKALYAFEGQSEGTISIDPGEILQVIEEDKGDGWTRGRLEPNGEKGYVPTSYLDVTE 637 (640)
T ss_pred eecccCcCCCCCCccccCcchhHHHHhhcccCCCCCCCCCCCCcCCCCCcccccccc
Confidence 45678899999999999999999887765 568888883336899999999998654
No 197
>KOG3268|consensus
Probab=93.35 E-value=0.057 Score=35.68 Aligned_cols=30 Identities=23% Similarity=0.639 Sum_probs=22.7
Q ss_pred cCCCCCChhhHHHHHhcc----cc-----cCCCCCCCCC
Q psy9669 27 PCQHTFCKKCLEEIVSSH----KE-----LRCPECPTFV 56 (173)
Q Consensus 27 ~Cgh~fc~~Cl~~~~~~~----~~-----~~CP~Cr~~i 56 (173)
.||..||+-||..|++.- +. -.||.|..++
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 599999999999999831 11 2499997654
No 198
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=93.17 E-value=0.22 Score=38.65 Aligned_cols=41 Identities=22% Similarity=0.496 Sum_probs=34.0
Q ss_pred ceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 128 ELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 128 el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
--++..|+.|.++....+||++.+.. +|+.|||-..|+...
T Consensus 102 Igsl~~G~~V~Vl~~~~ngW~kI~~~-~GktGwV~~~YLs~~ 142 (481)
T PRK13914 102 ITSIKGGTKVTVETTESNGWHKITYN-DGKTGFVNGKYLTDK 142 (481)
T ss_pred eeeecCCCEEEEeecccCCeEEEEcC-CCCEEEEecccccCC
Confidence 35688999999976557899999986 689999999998764
No 199
>KOG3705|consensus
Probab=93.07 E-value=0.073 Score=39.94 Aligned_cols=55 Identities=31% Similarity=0.512 Sum_probs=44.5
Q ss_pred eeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccC
Q psy9669 58 EYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 58 ~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
+.+++++..++..+++.++.||.+.|-...-+|.-.|+...+++.|.||+--+.+
T Consensus 511 n~ivi~aH~prt~~ei~l~vGD~vgvAGNHWdGySKG~Nr~t~~~GlfPSyKvre 565 (580)
T KOG3705|consen 511 NVIVIEAHIPRTNKEIDLKVGDKVGVAGNHWDGYSKGTNRQTYKEGLFPSYKVRE 565 (580)
T ss_pred ceEEEEecCCCcccccCcccCCeeeecccccccccccccccccccCCCccceeee
Confidence 4567888899999999999999998877666666677766678999999865544
No 200
>COG3103 SH3 domain protein [Signal transduction mechanisms]
Probab=92.70 E-value=0.3 Score=33.54 Aligned_cols=42 Identities=19% Similarity=0.339 Sum_probs=34.5
Q ss_pred ceeecCCCEEEEEEcCCC-CeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 128 ELELRVGDLIYVHKKRDD-GWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 128 el~~~~g~~v~v~~~~~~-~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
--+++.||.+.++..... +|...+.. .|+.||||..++....
T Consensus 47 ~~~i~~Ge~vtvl~~~~~~~~~qI~~~-~g~t~wi~~~~lt~e~ 89 (205)
T COG3103 47 VGSIKAGEKVTVLGTDGNTGYYQIRDS-SGRTGWILSKNLTSEP 89 (205)
T ss_pred eeEecCCcEEEEEEEcCcccEEEEEec-CCceEEEechhhcccc
Confidence 346889999999988655 79999987 8999999998876654
No 201
>KOG3039|consensus
Probab=92.62 E-value=0.06 Score=37.54 Aligned_cols=39 Identities=15% Similarity=0.221 Sum_probs=33.5
Q ss_pred hhcccCCccccccccccCCCeeecCCCCCChhhHHHHHhc
Q psy9669 4 WTLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSS 43 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~ 43 (173)
+.+.+.--|..|+..+ ..|++.+=||.||..||.+++..
T Consensus 38 DsiK~FdcCsLtLqPc-~dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPC-RDPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred cccCCcceeeeecccc-cCCccCCCCeeeeHHHHHHHHHH
Confidence 4566777899999999 89999999999999999887653
No 202
>KOG3565|consensus
Probab=92.39 E-value=0.047 Score=43.87 Aligned_cols=64 Identities=22% Similarity=0.467 Sum_probs=52.3
Q ss_pred CCCCCCCceeeccCCCCCCCccccceecCCEEEEEEEc-CCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 50 PECPTFVPEYIAIYPYKPQKDDELELRRGSVYTVTERC-QDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 50 P~Cr~~i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
|.-..+++...+++.|.++.++++++..|+++.++... .++|-+++.+..+..|++|.+|++..
T Consensus 572 ~~~~p~~~~~~a~~~~~~~s~~~~si~~~~il~~ie~~~g~gwt~~r~~~~~~~g~~Ptsyl~~~ 636 (640)
T KOG3565|consen 572 PIPSPPIRTSKALYAFEGQSEGTISIDPGEILQVIEEDKGDGWTRGRLEPNGEKGYVPTSYLDVT 636 (640)
T ss_pred CCCCCCccceecccCcCCCCCCccccCcchhHHHHhhcccCCCCCCCCCCCCcCCCCCccccccc
Confidence 55566777888999999999999999999999877764 55787777555688999999998643
No 203
>KOG1815|consensus
Probab=92.30 E-value=0.06 Score=41.62 Aligned_cols=37 Identities=24% Similarity=0.694 Sum_probs=30.5
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhHHHHHhc
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSS 43 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~ 43 (173)
....+|.||.+........+.|||.||..|...++..
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhh
Confidence 3457999999988335788899999999999998873
No 204
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.58 E-value=0.2 Score=41.01 Aligned_cols=50 Identities=20% Similarity=0.517 Sum_probs=40.7
Q ss_pred ccCCcccccccc-ccCCCeeecCCCC-----CChhhHHHHHhcccccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDR-LDTSSKVLPCQHT-----FCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~-~~~~~~~~~Cgh~-----fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
+++-.|.||... ....|..-||..+ .|.+||-+|...++...|-+|..++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 456799999964 3267888899887 4999999999988888999998655
No 205
>smart00287 SH3b Bacterial SH3 domain homologues.
Probab=91.57 E-value=0.32 Score=26.32 Aligned_cols=37 Identities=27% Similarity=0.345 Sum_probs=28.4
Q ss_pred cceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccc
Q psy9669 73 LELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYV 110 (173)
Q Consensus 73 l~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v 110 (173)
..+..|+.+.++....++|..... ..|..||++..++
T Consensus 25 ~~l~~g~~v~i~~~~~~~W~~v~~-~~g~~Gwi~~~~~ 61 (63)
T smart00287 25 GTLKKGDKVKVLGVDGQDWAKITY-GSGQRGYVPGYVV 61 (63)
T ss_pred EEecCCCEEEEEEccCCceEEEEc-CCCCEEEEEeeee
Confidence 357789999998875558998884 4588999977654
No 206
>KOG3579|consensus
Probab=91.10 E-value=0.19 Score=35.95 Aligned_cols=37 Identities=30% Similarity=0.792 Sum_probs=30.2
Q ss_pred ccCCccccccccccCCCeeecC----CCCCChhhHHHHHhcc
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPC----QHTFCKKCLEEIVSSH 44 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~C----gh~fc~~Cl~~~~~~~ 44 (173)
.+.+.|-+|++-+ ++.-+..| .|-||+.|-++.+..+
T Consensus 266 ~apLcCTLC~ERL-EDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 266 SAPLCCTLCHERL-EDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CCceeehhhhhhh-ccCceeecCCCcccceecccCHHHHHhh
Confidence 4568999999998 77777777 6999999998887754
No 207
>KOG4718|consensus
Probab=90.99 E-value=0.11 Score=35.34 Aligned_cols=45 Identities=18% Similarity=0.552 Sum_probs=38.0
Q ss_pred cCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 8 DLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
+.-.|-+|..+.....++-.|+-.++..|+..+++. ...||.|.-
T Consensus 180 nlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~--~~~cphc~d 224 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQR--RDICPHCGD 224 (235)
T ss_pred HHHHHhHhHHHhheeeccCcccchhhhHHHHHHhcc--cCcCCchhc
Confidence 445799999987678888899999999999999986 457999953
No 208
>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=90.54 E-value=0.084 Score=27.93 Aligned_cols=39 Identities=28% Similarity=0.674 Sum_probs=23.3
Q ss_pred cCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 8 DLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
+.+.||.|...+. .. .+...|........+...||+|..
T Consensus 1 ~~f~CP~C~~~~~-~~-------~L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 1 DSFTCPYCGKGFS-ES-------SLVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred CCcCCCCCCCccC-HH-------HHHHHHHhHCcCCCCCccCCCchh
Confidence 4678999998552 21 123344444444444578999975
No 209
>KOG3812|consensus
Probab=90.16 E-value=0.1 Score=38.29 Aligned_cols=38 Identities=13% Similarity=0.418 Sum_probs=30.7
Q ss_pred cccceecCCEEEEEEEcCCCEEEEEeCC-CCccCcCCCc
Q psy9669 71 DELELRRGSVYTVTERCQDGWFKGTSQR-TQRSGVFPGN 108 (173)
Q Consensus 71 ~el~~~~g~~v~v~~~~~~~w~~~~~~~-~~~~G~~p~~ 108 (173)
..++|...|.+.|-++.+++||.|+.-. ....||+|+.
T Consensus 80 ~aisF~~kDFlHIkeKynnDWWIGRlVkeg~e~gFiPsp 118 (475)
T KOG3812|consen 80 HAISFEAKDFLHIKEKYNNDWWIGRLVKEGCEIGFIPSP 118 (475)
T ss_pred ceeeeccccceeehhhcccchhHHHHhhcCCccccccch
Confidence 3478999999999999999999998533 3456999974
No 210
>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=89.88 E-value=0.058 Score=27.40 Aligned_cols=43 Identities=30% Similarity=0.872 Sum_probs=22.2
Q ss_pred ccccccccccCCCeeecCC-CCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 11 ECSVCLDRLDTSSKVLPCQ-HTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 11 ~C~iC~~~~~~~~~~~~Cg-h~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
-|.-|. | ..--+..|. |-.|..||...+..+. .||+|..++|.
T Consensus 4 nCKsCW--f-~~k~Li~C~dHYLCl~CLt~ml~~s~--~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCW--F-ANKGLIKCSDHYLCLNCLTLMLSRSD--RCPICGKPLPT 47 (50)
T ss_dssp ---SS---S---SSEEE-SS-EEEHHHHHHT-SSSS--EETTTTEE---
T ss_pred cChhhh--h-cCCCeeeecchhHHHHHHHHHhcccc--CCCcccCcCcc
Confidence 344454 2 333445665 5569999998887553 69999877653
No 211
>PRK10884 SH3 domain-containing protein; Provisional
Probab=89.27 E-value=0.55 Score=32.41 Aligned_cols=39 Identities=13% Similarity=0.152 Sum_probs=31.6
Q ss_pred ceecCCEEEEEEEcC-CCEEEEEeCCCCccCcCCCccccCC
Q psy9669 74 ELRRGSVYTVTERCQ-DGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 74 ~~~~g~~v~v~~~~~-~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
.+..|+.+.++.... .+|...+. ..|..||++..|+...
T Consensus 49 ~l~~G~~v~vl~~~~~~~w~~Vr~-~~G~~GWV~~~~Ls~~ 88 (206)
T PRK10884 49 TLNAGEEVTLLQVNANTNYAQIRD-SKGRTAWIPLKQLSTT 88 (206)
T ss_pred EEcCCCEEEEEEEcCCCCEEEEEe-CCCCEEeEEHHHhcCC
Confidence 477899999998765 57888885 5689999999998753
No 212
>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=88.13 E-value=0.36 Score=25.63 Aligned_cols=32 Identities=22% Similarity=0.563 Sum_probs=23.5
Q ss_pred Ccccccccccc---CCCeeecCCCCCChhhHHHHH
Q psy9669 10 LECSVCLDRLD---TSSKVLPCQHTFCKKCLEEIV 41 (173)
Q Consensus 10 ~~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~ 41 (173)
..|.+|...|. .....-.||+.||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46889987663 344556799999999986543
No 213
>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 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 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=87.23 E-value=0.39 Score=35.91 Aligned_cols=25 Identities=24% Similarity=0.778 Sum_probs=19.3
Q ss_pred CChhhHHHHHhccc-----------ccCCCCCCCCC
Q psy9669 32 FCKKCLEEIVSSHK-----------ELRCPECPTFV 56 (173)
Q Consensus 32 fc~~Cl~~~~~~~~-----------~~~CP~Cr~~i 56 (173)
-|.+|+.+|+.+++ +..||+||+.+
T Consensus 315 WC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 315 WCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred HHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 48899999988533 25699999865
No 216
>KOG3812|consensus
Probab=86.45 E-value=0.3 Score=35.98 Aligned_cols=38 Identities=18% Similarity=0.566 Sum_probs=30.1
Q ss_pred cceeecCCCEEEEEEcCCCCeeEEEeCCC-CcEEEecCC
Q psy9669 127 YELELRVGDLIYVHKKRDDGWYKGTLQRT-GRTGLFPAS 164 (173)
Q Consensus 127 ~el~~~~g~~v~v~~~~~~~w~~~~~~~~-g~~G~~P~~ 164 (173)
..++|+..|.+-+-.+-.+.||-|+.-.. ...||+|+.
T Consensus 80 ~aisF~~kDFlHIkeKynnDWWIGRlVkeg~e~gFiPsp 118 (475)
T KOG3812|consen 80 HAISFEAKDFLHIKEKYNNDWWIGRLVKEGCEIGFIPSP 118 (475)
T ss_pred ceeeeccccceeehhhcccchhHHHHhhcCCccccccch
Confidence 36889999998888888899999986543 467999963
No 217
>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=86.34 E-value=1.8 Score=22.91 Aligned_cols=43 Identities=26% Similarity=0.678 Sum_probs=29.6
Q ss_pred CccccccccccC---CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 10 LECSVCLDRLDT---SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 10 ~~C~iC~~~~~~---~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
-.|-.|...+-. ...+-.=-.+||..|....+.. .||.|...+
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~----~CPNCgGel 51 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNG----VCPNCGGEL 51 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcC----cCcCCCCcc
Confidence 357777776631 2444445569999999998853 599998654
No 218
>KOG4185|consensus
Probab=86.28 E-value=0.093 Score=38.26 Aligned_cols=44 Identities=30% Similarity=0.700 Sum_probs=34.6
Q ss_pred Ccccccccccc-----CCCeeec--------CCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 10 LECSVCLDRLD-----TSSKVLP--------CQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 10 ~~C~iC~~~~~-----~~~~~~~--------Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
..|.||...+. ..|.++. |||..|..|+...+.... ..||.|+.
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~-~~cp~~~~ 264 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAG-IKCPFCTW 264 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhh-hcCCcccc
Confidence 45888886653 3466666 999999999999887655 78999984
No 219
>KOG0040|consensus
Probab=85.35 E-value=0.017 Score=49.89 Aligned_cols=54 Identities=24% Similarity=0.561 Sum_probs=47.1
Q ss_pred ceecccCCCCCCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEec
Q psy9669 115 FRCIVPYPPNSEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQSD 170 (173)
Q Consensus 115 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~~ 170 (173)
..++|+|....+.+.+.+.||+..++....-.||.++.. .+.|+||..||+.++
T Consensus 971 v~alyd~q~kSprev~mKkgDvltll~s~nkdwwkve~~--d~qg~vpa~yvk~~~ 1024 (2399)
T KOG0040|consen 971 VLALYDYQEKSPREVTMKKGDVLTLLNSINKDWWKVEVN--DRQGFVPAAYVKRLD 1024 (2399)
T ss_pred HHHHHHHHhcCHHHHHHhhhhHHHHHhhcccccccchhh--hhcCcchHHHHHHhc
Confidence 456789999999999999999998888777889999988 889999999987654
No 220
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=85.05 E-value=1 Score=25.59 Aligned_cols=49 Identities=22% Similarity=0.525 Sum_probs=19.6
Q ss_pred cCCcccccccccc---C-CC--eeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 8 DLLECSVCLDRLD---T-SS--KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 8 ~~~~C~iC~~~~~---~-~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
....|-||-+... + .+ ....|+-..|+.|.+=-... ....||.|+....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErke-g~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKE-GNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHT-S-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhc-CcccccccCCCcc
Confidence 3468999998653 1 12 23368889999998643333 4468999986543
No 221
>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=84.72 E-value=0.56 Score=25.70 Aligned_cols=13 Identities=31% Similarity=0.894 Sum_probs=9.6
Q ss_pred CCChhhHHHHHhc
Q psy9669 31 TFCKKCLEEIVSS 43 (173)
Q Consensus 31 ~fc~~Cl~~~~~~ 43 (173)
.||..||.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999874
No 222
>PF12913 SH3_6: SH3 domain of the SH3b1 type; PDB: 3M1U_B.
Probab=84.60 E-value=4.4 Score=21.48 Aligned_cols=35 Identities=17% Similarity=0.259 Sum_probs=23.3
Q ss_pred cceeecCCCEEEEEEcC-CCCeeEEEeCCCCcEEEecC
Q psy9669 127 YELELRVGDLIYVHKKR-DDGWYKGTLQRTGRTGLFPA 163 (173)
Q Consensus 127 ~el~~~~g~~v~v~~~~-~~~w~~~~~~~~g~~G~~P~ 163 (173)
.+-.+..|+-|.|++.. +..|..+... ...|||++
T Consensus 19 Q~s~l~~gtPv~i~H~S~D~~W~fV~t~--~~~GWV~s 54 (54)
T PF12913_consen 19 QNSALHPGTPVYILHTSRDGAWAFVQTP--FYSGWVKS 54 (54)
T ss_dssp EEEEE-TT-EEEEEEE-TTSSEEEEE-S--S-EEEEEG
T ss_pred hhcccCCCCCEEEEEECCCCCEEEEecC--CeeEeeeC
Confidence 35678899999888866 5568888876 78999874
No 223
>PLN02189 cellulose synthase
Probab=84.42 E-value=1.6 Score=37.28 Aligned_cols=47 Identities=23% Similarity=0.591 Sum_probs=33.6
Q ss_pred Ccccccccccc----CCC--eeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 10 LECSVCLDRLD----TSS--KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 10 ~~C~iC~~~~~----~~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
..|.||-+... -.+ .+-.|+-..|..|. ++-+......||.|+....
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cy-eyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCY-EYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchh
Confidence 48999999753 122 22358888999999 4655555568999997665
No 224
>KOG2979|consensus
Probab=84.01 E-value=0.56 Score=33.13 Aligned_cols=47 Identities=13% Similarity=0.237 Sum_probs=37.3
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCC
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
++.||+=...+.++.+...|||.|=.+=+..++......+||+-.+.
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 45788876666577788899999999999999886556789986544
No 225
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=83.61 E-value=1.2 Score=23.52 Aligned_cols=32 Identities=19% Similarity=0.558 Sum_probs=23.8
Q ss_pred cCCcccccccccc--CC-CeeecCCCCCChhhHHH
Q psy9669 8 DLLECSVCLDRLD--TS-SKVLPCQHTFCKKCLEE 39 (173)
Q Consensus 8 ~~~~C~iC~~~~~--~~-~~~~~Cgh~fc~~Cl~~ 39 (173)
....|++|.+.|. .+ .+.-.||-.+|..|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 3468999999883 22 34446999999999865
No 226
>KOG2169|consensus
Probab=83.47 E-value=0.85 Score=37.10 Aligned_cols=53 Identities=23% Similarity=0.464 Sum_probs=39.6
Q ss_pred hhcccCCccccccccccCCCeeecCCCCCChhhHHHHHhc--ccccCCCCCCCCC
Q psy9669 4 WTLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSS--HKELRCPECPTFV 56 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~--~~~~~CP~Cr~~i 56 (173)
..+.-.+.||++..-+..+.+-..|.|.-|++=+.-.... .....||+|....
T Consensus 301 t~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~ 355 (636)
T KOG2169|consen 301 TSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAA 355 (636)
T ss_pred ccceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccc
Confidence 3466788999999988678888999999998877543332 2346799997544
No 227
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=83.32 E-value=1.8 Score=37.13 Aligned_cols=48 Identities=23% Similarity=0.551 Sum_probs=35.0
Q ss_pred CCcccccccccc----CCC--eeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 9 LLECSVCLDRLD----TSS--KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 9 ~~~C~iC~~~~~----~~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
...|.||-+... -.+ .+-.|+-..|..|. ++-+......||.|+....
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchh
Confidence 348999998753 122 34469999999999 5666555578999997665
No 228
>KOG0309|consensus
Probab=83.11 E-value=0.74 Score=37.66 Aligned_cols=42 Identities=21% Similarity=0.471 Sum_probs=31.4
Q ss_pred cCCcccccccccc-CCCeeecCCCCCChhhHHHHHhcccccCCCC
Q psy9669 8 DLLECSVCLDRLD-TSSKVLPCQHTFCKKCLEEIVSSHKELRCPE 51 (173)
Q Consensus 8 ~~~~C~iC~~~~~-~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~ 51 (173)
..+.|.+|.-... ..-++..|||..|.+|-.+|+..+. .||.
T Consensus 1027 ~~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd--~Cps 1069 (1081)
T KOG0309|consen 1027 FTFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGD--VCPS 1069 (1081)
T ss_pred ceeeeeeEeeEeeccchhhccccccccHHHHHHHHhcCC--cCCC
Confidence 3456777775542 3456778999999999999999754 5775
No 229
>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=83.04 E-value=0.41 Score=29.86 Aligned_cols=45 Identities=22% Similarity=0.499 Sum_probs=28.7
Q ss_pred cCCcccccccccc----CCCeeecCCCCCChhhHHHHHhcccccCCCCCC
Q psy9669 8 DLLECSVCLDRLD----TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 8 ~~~~C~iC~~~~~----~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
..-.|.+|...|. .......|+|.+|..|-.. ........|-+|.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQ 101 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhH
Confidence 4568999987542 3557778999999999754 2122334577764
No 230
>KOG0825|consensus
Probab=82.99 E-value=0.77 Score=37.73 Aligned_cols=49 Identities=20% Similarity=0.304 Sum_probs=30.5
Q ss_pred cCCccccccccccC---CCeee---cCCCCCChhhHHHHHhc----ccccCCCCCCCCC
Q psy9669 8 DLLECSVCLDRLDT---SSKVL---PCQHTFCKKCLEEIVSS----HKELRCPECPTFV 56 (173)
Q Consensus 8 ~~~~C~iC~~~~~~---~~~~~---~Cgh~fc~~Cl~~~~~~----~~~~~CP~Cr~~i 56 (173)
+.-+|++|..-+.. .--+. .|+|.||..||..|..+ .....|++|..-+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 33456666654421 12233 49999999999999874 2234578886544
No 231
>PLN02436 cellulose synthase A
Probab=82.92 E-value=2 Score=36.84 Aligned_cols=48 Identities=23% Similarity=0.600 Sum_probs=34.0
Q ss_pred CCcccccccccc----CCC--eeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 9 LLECSVCLDRLD----TSS--KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 9 ~~~C~iC~~~~~----~~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
...|.||-+... -++ .+-.|+-..|..|. ++-+......||.|+....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cy-eyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCY-EYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchh
Confidence 348999998753 122 23358889999999 4555545568999997665
No 232
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=82.28 E-value=0.54 Score=36.84 Aligned_cols=54 Identities=24% Similarity=0.437 Sum_probs=34.3
Q ss_pred hcccCCccccccccccCCCeeecCCCCCChhhHHHHHhc---------c-cccCCCCCCCCCce
Q psy9669 5 TLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSS---------H-KELRCPECPTFVPE 58 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~---------~-~~~~CP~Cr~~i~~ 58 (173)
+|...+-|..|+.+--..-+...=--.||..||..+-.+ . +-+.||.|...+..
T Consensus 1 pl~~L~fC~~C~~irc~~c~~~Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~~ 64 (483)
T PF05502_consen 1 PLEELYFCEHCHKIRCPRCVSEEIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSV 64 (483)
T ss_pred CcccceecccccccCChhhcccccceeECccccccCChhhheeccceeccccccCCCCCCccee
Confidence 356778899998765222222234457999999766432 1 23679999876654
No 233
>COG3807 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=81.04 E-value=4.4 Score=26.37 Aligned_cols=84 Identities=18% Similarity=0.322 Sum_probs=46.6
Q ss_pred eecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCCcceecccCCCCC------------Cc--ceeecCCCEEEEE
Q psy9669 75 LRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPAKFRCIVPYPPNS------------EY--ELELRVGDLIYVH 140 (173)
Q Consensus 75 ~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~~~~~~~~~~~~~------------~~--el~~~~g~~v~v~ 140 (173)
+++|.-+.|..+. +.|-+.+ ...|..||+..+.+.-.+-....++.... .. ...+.+| ++.-+
T Consensus 61 ~k~GlPVEIvqEy-~~WRrir-DadG~egWv~qsllsG~Rtai~apw~~~kg~~i~l~k~~~~~a~V~A~lepg-v~~sl 137 (171)
T COG3807 61 LKKGLPVEIVQEY-DNWRRIR-DADGTEGWVHQSLLSGKRTAIIAPWMRDKGVEINLRKSADDGARVVAKLEPG-VVGSL 137 (171)
T ss_pred eccCCceehhhhh-hhhhhee-CCCCCceeeeeecccCcceEEecccccCcceeEEEeeCCCCCCeEEEEecCc-eEEEe
Confidence 5667667666653 3454444 57888999887766543311111111111 10 1222232 33345
Q ss_pred EcCCCCeeEEEeCCCCcEEEecC
Q psy9669 141 KKRDDGWYKGTLQRTGRTGLFPA 163 (173)
Q Consensus 141 ~~~~~~w~~~~~~~~g~~G~~P~ 163 (173)
++..++|.+.+.. |.+||+-.
T Consensus 138 ~~C~g~wC~~~~~--g~~GWi~q 158 (171)
T COG3807 138 KKCKGQWCRLTAK--GYSGWISQ 158 (171)
T ss_pred cccccceEEEEcc--Cccceeec
Confidence 6667889888876 99999753
No 234
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=80.53 E-value=3.3 Score=22.20 Aligned_cols=24 Identities=25% Similarity=0.720 Sum_probs=19.9
Q ss_pred eecCCCEEEEEEcCCCCeeEEEeC
Q psy9669 130 ELRVGDLIYVHKKRDDGWYKGTLQ 153 (173)
Q Consensus 130 ~~~~g~~v~v~~~~~~~w~~~~~~ 153 (173)
.++.|+.|.+....+++||.+...
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~ 25 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVT 25 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEE
Confidence 468899999888778899998765
No 235
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=80.34 E-value=0.32 Score=27.05 Aligned_cols=34 Identities=15% Similarity=0.549 Sum_probs=16.8
Q ss_pred ccCCcccccccccc---CCCeeecCCCCCChhhHHHH
Q psy9669 7 NDLLECSVCLDRLD---TSSKVLPCQHTFCKKCLEEI 40 (173)
Q Consensus 7 ~~~~~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~ 40 (173)
++...|.+|...|. ..--.-.||+.||..|....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 45578999998873 12233369999999998543
No 236
>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=80.06 E-value=2.4 Score=25.90 Aligned_cols=47 Identities=21% Similarity=0.605 Sum_probs=28.5
Q ss_pred cCCccccccccccC-CCee------ecC---CCCCChhhHHHHHhc-------ccccCCCCCCC
Q psy9669 8 DLLECSVCLDRLDT-SSKV------LPC---QHTFCKKCLEEIVSS-------HKELRCPECPT 54 (173)
Q Consensus 8 ~~~~C~iC~~~~~~-~~~~------~~C---gh~fc~~Cl~~~~~~-------~~~~~CP~Cr~ 54 (173)
....|..|...-.. .... ..| .-.||..||...... .....||.||.
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 34567777764311 1122 345 667999999665542 23467999984
No 237
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.87 E-value=2.8 Score=23.45 Aligned_cols=42 Identities=29% Similarity=0.721 Sum_probs=28.7
Q ss_pred cccccccccc---CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 11 ECSVCLDRLD---TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 11 ~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
.|--|-..+- ....+-.-.|+||.+|.+..++. .||.|...+
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~g----~CPnCGGel 51 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAENRLHG----LCPNCGGEL 51 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHHhhcC----cCCCCCchh
Confidence 3444555442 24466667889999999987763 599997544
No 238
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=79.42 E-value=3 Score=35.75 Aligned_cols=50 Identities=30% Similarity=0.604 Sum_probs=35.6
Q ss_pred cCCcccccccccc----CCC--eeecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 8 DLLECSVCLDRLD----TSS--KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 8 ~~~~C~iC~~~~~----~~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
....|.||-+... -++ .+-.|+-..|..|. ++-.......||.|+.....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cy-eye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCY-EYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchhh
Confidence 4467999998753 122 33469999999999 56655555789999976653
No 239
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=79.08 E-value=2.3 Score=26.22 Aligned_cols=26 Identities=23% Similarity=0.626 Sum_probs=16.2
Q ss_pred ccccccccccCC-------------CeeecCCCCCChhh
Q psy9669 11 ECSVCLDRLDTS-------------SKVLPCQHTFCKKC 36 (173)
Q Consensus 11 ~C~iC~~~~~~~-------------~~~~~Cgh~fc~~C 36 (173)
.|--|+..|... .....|.+.||.+|
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC 95 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDC 95 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCcccccc
Confidence 477777766322 22556777787777
No 240
>KOG3899|consensus
Probab=78.65 E-value=0.92 Score=32.71 Aligned_cols=30 Identities=27% Similarity=0.829 Sum_probs=20.7
Q ss_pred CCCCCChhhHHHHHhccc-----------ccCCCCCCCCCc
Q psy9669 28 CQHTFCKKCLEEIVSSHK-----------ELRCPECPTFVP 57 (173)
Q Consensus 28 Cgh~fc~~Cl~~~~~~~~-----------~~~CP~Cr~~i~ 57 (173)
|.-..|.+||.+|+.... ...||+||..+-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 334458899988876321 257999997663
No 241
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=78.60 E-value=4.4 Score=23.00 Aligned_cols=27 Identities=26% Similarity=0.628 Sum_probs=19.4
Q ss_pred cceeecCCCEEEEEEcC------CCCeeEEEeC
Q psy9669 127 YELELRVGDLIYVHKKR------DDGWYKGTLQ 153 (173)
Q Consensus 127 ~el~~~~g~~v~v~~~~------~~~w~~~~~~ 153 (173)
..|.++.|+.|.+.... +..||.|...
T Consensus 2 ~FL~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi 34 (75)
T PF11302_consen 2 VFLSVKPGDTVIVQDEQEVGQKQDKDWWMGQVI 34 (75)
T ss_pred cccccCCCCEEEEecCccccccCCCCcEEEEEE
Confidence 35788999998775543 4579988654
No 242
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=77.82 E-value=1.3 Score=27.85 Aligned_cols=21 Identities=19% Similarity=0.406 Sum_probs=14.9
Q ss_pred cccccccCCCeeecCCCCCChh
Q psy9669 14 VCLDRLDTSSKVLPCQHTFCKK 35 (173)
Q Consensus 14 iC~~~~~~~~~~~~Cgh~fc~~ 35 (173)
||++.- .......|||+||..
T Consensus 62 i~qs~~-~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQ-KRVIRCECGHSFGDY 82 (165)
T ss_pred EEeccc-ccEEEEeccccccCh
Confidence 566655 456667899999963
No 243
>KOG1812|consensus
Probab=77.47 E-value=1.3 Score=33.77 Aligned_cols=35 Identities=20% Similarity=0.527 Sum_probs=25.3
Q ss_pred CCcccccccccc-----CCCeeecCCCCCChhhHHHHHhcc
Q psy9669 9 LLECSVCLDRLD-----TSSKVLPCQHTFCKKCLEEIVSSH 44 (173)
Q Consensus 9 ~~~C~iC~~~~~-----~~~~~~~Cgh~fc~~Cl~~~~~~~ 44 (173)
-..||.|.-.+. +..+. .|||-||..|...|...+
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~C-rC~~~fcy~C~~~~~~~~ 345 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTC-RCGHQFCYMCGGDWKTHN 345 (384)
T ss_pred cCcCcccceeeeecCCcceEEe-eccccchhhcCcchhhCC
Confidence 457999986542 23344 499999999998887644
No 244
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=77.34 E-value=3.2 Score=32.52 Aligned_cols=38 Identities=26% Similarity=0.538 Sum_probs=31.2
Q ss_pred ceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccC
Q psy9669 74 ELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAP 112 (173)
Q Consensus 74 ~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~ 112 (173)
.+..|+.+.++...+.+|+.... ..|+.||+-+.|+..
T Consensus 104 sl~~G~~V~Vl~~~~ngW~kI~~-~~GktGwV~~~YLs~ 141 (481)
T PRK13914 104 SIKGGTKVTVETTESNGWHKITY-NDGKTGFVNGKYLTD 141 (481)
T ss_pred eecCCCEEEEeecccCCeEEEEc-CCCCEEEEecccccC
Confidence 57889999997655678999985 468999999999875
No 245
>PLN02400 cellulose synthase
Probab=77.25 E-value=3.4 Score=35.58 Aligned_cols=48 Identities=23% Similarity=0.527 Sum_probs=34.5
Q ss_pred CCcccccccccc----CCC--eeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 9 LLECSVCLDRLD----TSS--KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 9 ~~~C~iC~~~~~----~~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
...|.||-+... -++ .+-.|+=..|..|- ++-+......||.|+....
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchh-heecccCCccCcccCCccc
Confidence 348999998753 122 33468999999999 5666555568999997665
No 246
>KOG0827|consensus
Probab=76.49 E-value=0.13 Score=38.36 Aligned_cols=46 Identities=20% Similarity=0.529 Sum_probs=35.8
Q ss_pred cccccccccc---CCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 11 ECSVCLDRLD---TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 11 ~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
.|.||...+. .....+.|||.++..||..|+... ..||.|+..++.
T Consensus 198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~--~kl~~~~rel~~ 246 (465)
T KOG0827|consen 198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATK--RKLPSCRRELPK 246 (465)
T ss_pred hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHH--HHhHHHHhhhhh
Confidence 5788887653 345667899999999999999863 369999877763
No 247
>KOG1829|consensus
Probab=75.90 E-value=0.66 Score=36.93 Aligned_cols=40 Identities=28% Similarity=0.693 Sum_probs=26.0
Q ss_pred CCcccccccc--cc-----CCCeeecCCCCCChhhHHHHHhcccccCCCCCC
Q psy9669 9 LLECSVCLDR--LD-----TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 9 ~~~C~iC~~~--~~-----~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
.+.|.+|+.. ++ .--....|++.||+.|+.+- ...||-|-
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~-----s~~CPrC~ 557 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRK-----SPCCPRCE 557 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhcc-----CCCCCchH
Confidence 4567777532 21 11345679999999999862 23499984
No 248
>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=75.89 E-value=3.2 Score=19.50 Aligned_cols=36 Identities=14% Similarity=0.495 Sum_probs=21.5
Q ss_pred ccccccccccCC-CeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 11 ECSVCLDRLDTS-SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 11 ~C~iC~~~~~~~-~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
.|..|...+... ..+..=+..||..|. +|..|+..+
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf----------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECF----------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCC----------CCcccCCcC
Confidence 478888877332 344445666766654 466676543
No 249
>PLN02195 cellulose synthase A
Probab=75.84 E-value=3.8 Score=34.90 Aligned_cols=49 Identities=20% Similarity=0.444 Sum_probs=35.6
Q ss_pred cCCcccccccccc----CCC--eeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 8 DLLECSVCLDRLD----TSS--KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 8 ~~~~C~iC~~~~~----~~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
....|.||-+... -.+ .+-.|+-..|+.|. ++-+......||.|+....
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 3457999998653 122 34469999999999 5666555678999997654
No 250
>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=75.09 E-value=2.2 Score=19.88 Aligned_cols=10 Identities=30% Similarity=0.690 Sum_probs=7.3
Q ss_pred ccCCCCCCCC
Q psy9669 46 ELRCPECPTF 55 (173)
Q Consensus 46 ~~~CP~Cr~~ 55 (173)
...||+|...
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 3579999754
No 251
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=75.08 E-value=0.9 Score=21.92 Aligned_cols=11 Identities=27% Similarity=0.869 Sum_probs=7.7
Q ss_pred Ccccccccccc
Q psy9669 10 LECSVCLDRLD 20 (173)
Q Consensus 10 ~~C~iC~~~~~ 20 (173)
.+||-|...+.
T Consensus 3 i~CP~C~~~f~ 13 (37)
T PF13719_consen 3 ITCPNCQTRFR 13 (37)
T ss_pred EECCCCCceEE
Confidence 46888887663
No 252
>KOG3799|consensus
Probab=75.08 E-value=0.74 Score=29.10 Aligned_cols=14 Identities=21% Similarity=0.582 Sum_probs=10.9
Q ss_pred cccCCccccccccc
Q psy9669 6 LNDLLECSVCLDRL 19 (173)
Q Consensus 6 ~~~~~~C~iC~~~~ 19 (173)
..++.+|.||+..-
T Consensus 62 v~ddatC~IC~KTK 75 (169)
T KOG3799|consen 62 VGDDATCGICHKTK 75 (169)
T ss_pred cCcCcchhhhhhcc
Confidence 46788999999643
No 253
>KOG2231|consensus
Probab=74.35 E-value=2.6 Score=34.29 Aligned_cols=47 Identities=21% Similarity=0.490 Sum_probs=35.1
Q ss_pred ccccccccccCCCeeecCCC-CCChhhHHHHHhccc----ccCCCCCCCCCce
Q psy9669 11 ECSVCLDRLDTSSKVLPCQH-TFCKKCLEEIVSSHK----ELRCPECPTFVPE 58 (173)
Q Consensus 11 ~C~iC~~~~~~~~~~~~Cgh-~fc~~Cl~~~~~~~~----~~~CP~Cr~~i~~ 58 (173)
.|+||-... .-...-.||| ..|..|.-+..-..+ ...||+|+..+..
T Consensus 2 ~c~ic~~s~-~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSP-DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCc-cccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 589999877 5667778999 999999877755433 2457999875543
No 254
>KOG1609|consensus
Probab=74.33 E-value=2.3 Score=31.22 Aligned_cols=49 Identities=24% Similarity=0.560 Sum_probs=37.2
Q ss_pred CCccccccccccCC---CeeecCCCC-----CChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 9 LLECSVCLDRLDTS---SKVLPCQHT-----FCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 9 ~~~C~iC~~~~~~~---~~~~~Cgh~-----fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
...|.||....... +...+|... .|..|+..|....+...|.+|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 36799999865211 567777664 49999999999877789999986543
No 255
>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=73.49 E-value=2.4 Score=25.00 Aligned_cols=36 Identities=19% Similarity=0.597 Sum_probs=25.0
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
.-.|.||..... - =||.||..|--. . -.|++|...+
T Consensus 44 ~~~C~~CK~~v~-q-----~g~~YCq~CAYk-----k-GiCamCGKki 79 (90)
T PF10235_consen 44 SSKCKICKTKVH-Q-----PGAKYCQTCAYK-----K-GICAMCGKKI 79 (90)
T ss_pred Cccccccccccc-c-----CCCccChhhhcc-----c-CcccccCCee
Confidence 457888887662 1 278999999642 2 2699998654
No 256
>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=73.26 E-value=2.7 Score=25.83 Aligned_cols=20 Identities=20% Similarity=0.330 Sum_probs=12.9
Q ss_pred CChhhcccCCcccccccccc
Q psy9669 1 MDEWTLNDLLECSVCLDRLD 20 (173)
Q Consensus 1 ~~~~~~~~~~~C~iC~~~~~ 20 (173)
|+-..|....+||-|..-||
T Consensus 1 MakpelGtKR~Cp~CG~kFY 20 (108)
T PF09538_consen 1 MAKPELGTKRTCPSCGAKFY 20 (108)
T ss_pred CCccccCCcccCCCCcchhc
Confidence 45556666677777776663
No 257
>PF15616 TerY-C: TerY-C metal binding domain
Probab=72.89 E-value=2 Score=27.34 Aligned_cols=44 Identities=25% Similarity=0.461 Sum_probs=30.2
Q ss_pred hhcccCCccccccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 4 WTLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
+.|...-.||-|-..+ .-. +-.||+.+|.+= .....||-|....
T Consensus 72 seL~g~PgCP~CGn~~-~fa-~C~CGkl~Ci~g-------~~~~~CPwCg~~g 115 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQY-AFA-VCGCGKLFCIDG-------EGEVTCPWCGNEG 115 (131)
T ss_pred HHhcCCCCCCCCcChh-cEE-EecCCCEEEeCC-------CCCEECCCCCCee
Confidence 4455567899999876 333 348999988521 2346899998654
No 258
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=72.81 E-value=0.83 Score=24.69 Aligned_cols=32 Identities=22% Similarity=0.480 Sum_probs=20.9
Q ss_pred CCccc--cccccccC------CCeee-cCCCCCChhhHHHH
Q psy9669 9 LLECS--VCLDRLDT------SSKVL-PCQHTFCKKCLEEI 40 (173)
Q Consensus 9 ~~~C~--iC~~~~~~------~~~~~-~Cgh~fc~~Cl~~~ 40 (173)
..-|| -|...+.. ..+.- .|+|.||..|...|
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 34588 88755421 12233 58999999998876
No 259
>KOG4218|consensus
Probab=72.14 E-value=3.1 Score=30.94 Aligned_cols=12 Identities=33% Similarity=0.490 Sum_probs=9.1
Q ss_pred cCCccccccccc
Q psy9669 8 DLLECSVCLDRL 19 (173)
Q Consensus 8 ~~~~C~iC~~~~ 19 (173)
.+-.||+|-+..
T Consensus 14 l~ElCPVCGDkV 25 (475)
T KOG4218|consen 14 LGELCPVCGDKV 25 (475)
T ss_pred cccccccccCcc
Confidence 344899999865
No 260
>KOG3053|consensus
Probab=71.31 E-value=1.6 Score=30.99 Aligned_cols=51 Identities=22% Similarity=0.509 Sum_probs=32.9
Q ss_pred cccCCccccccccccCC---CeeecCCC-----CCChhhHHHHHhccc------ccCCCCCCCCC
Q psy9669 6 LNDLLECSVCLDRLDTS---SKVLPCQH-----TFCKKCLEEIVSSHK------ELRCPECPTFV 56 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~---~~~~~Cgh-----~fc~~Cl~~~~~~~~------~~~CP~Cr~~i 56 (173)
-+.+-.|-||+..=.+. .-.-||.. ..|++||.+|+...+ ...||.|+...
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 34566899999643111 12335654 479999999988422 35799998643
No 261
>KOG3113|consensus
Probab=71.04 E-value=4.5 Score=28.72 Aligned_cols=48 Identities=23% Similarity=0.378 Sum_probs=35.7
Q ss_pred ccCCccccccccccCCC---eeecCCCCCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 7 NDLLECSVCLDRLDTSS---KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~---~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
...+.|||=.-.|+... .+-.|||.|=..-|++.-.+ .|++|.+.+..
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeikas----~C~~C~a~y~~ 159 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKAS----VCHVCGAAYQE 159 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHhhhc----cccccCCcccc
Confidence 46789999988884333 33479999999888876643 59999876654
No 262
>KOG2066|consensus
Probab=70.97 E-value=1.8 Score=35.65 Aligned_cols=37 Identities=27% Similarity=0.429 Sum_probs=27.6
Q ss_pred cCCcccccccccc------CCCeeecCCCCCChhhHHHHHhcc
Q psy9669 8 DLLECSVCLDRLD------TSSKVLPCQHTFCKKCLEEIVSSH 44 (173)
Q Consensus 8 ~~~~C~iC~~~~~------~~~~~~~Cgh~fc~~Cl~~~~~~~ 44 (173)
-+-.|..|.+... .....+.|||.|++.|+......+
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~ 825 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN 825 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence 3448999987643 345778899999999997766543
No 263
>KOG0040|consensus
Probab=70.20 E-value=0.18 Score=44.16 Aligned_cols=53 Identities=26% Similarity=0.615 Sum_probs=46.0
Q ss_pred eeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 59 YIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 59 ~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
..++|+|....+-+...++||+...+......||.++++ -+.|++|..|++..
T Consensus 971 v~alyd~q~kSprev~mKkgDvltll~s~nkdwwkve~~--d~qg~vpa~yvk~~ 1023 (2399)
T KOG0040|consen 971 VLALYDYQEKSPREVTMKKGDVLTLLNSINKDWWKVEVN--DRQGFVPAAYVKRL 1023 (2399)
T ss_pred HHHHHHHHhcCHHHHHHhhhhHHHHHhhcccccccchhh--hhcCcchHHHHHHh
Confidence 357889999999999999999998888888899999976 67899999998765
No 264
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=70.20 E-value=2.9 Score=21.77 Aligned_cols=14 Identities=36% Similarity=0.454 Sum_probs=8.7
Q ss_pred hhcccCCccccccc
Q psy9669 4 WTLNDLLECSVCLD 17 (173)
Q Consensus 4 ~~~~~~~~C~iC~~ 17 (173)
++|.++..||+|..
T Consensus 29 ~~Lp~~w~CP~C~a 42 (50)
T cd00730 29 EDLPDDWVCPVCGA 42 (50)
T ss_pred hHCCCCCCCCCCCC
Confidence 45666667777753
No 265
>KOG2068|consensus
Probab=69.75 E-value=3.9 Score=30.20 Aligned_cols=45 Identities=31% Similarity=0.708 Sum_probs=31.8
Q ss_pred Ccccccccccc-CC--CeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 10 LECSVCLDRLD-TS--SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 10 ~~C~iC~~~~~-~~--~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
-.||||-+.+. .. ..-.+|++.-|..|+....... .+||.||.+.
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~--~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGD--GRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccC--CCCCccCCcc
Confidence 57999998763 23 3334688888888887766643 5899999443
No 266
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=69.67 E-value=3.2 Score=29.90 Aligned_cols=24 Identities=25% Similarity=0.612 Sum_probs=15.8
Q ss_pred CCccccccccccCCCeee--cCCCCC
Q psy9669 9 LLECSVCLDRLDTSSKVL--PCQHTF 32 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~--~Cgh~f 32 (173)
.+.||+|...+......+ +.+|+|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 478999999885333333 456666
No 267
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=69.44 E-value=3.5 Score=22.26 Aligned_cols=8 Identities=38% Similarity=0.953 Sum_probs=3.8
Q ss_pred CCCCCCCC
Q psy9669 48 RCPECPTF 55 (173)
Q Consensus 48 ~CP~Cr~~ 55 (173)
.||+|..+
T Consensus 41 ~CPlC~s~ 48 (59)
T PF14169_consen 41 VCPLCKSP 48 (59)
T ss_pred cCCCcCCc
Confidence 45555443
No 268
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=69.16 E-value=3.9 Score=25.78 Aligned_cols=20 Identities=15% Similarity=0.082 Sum_probs=13.4
Q ss_pred CChhhcccCCcccccccccc
Q psy9669 1 MDEWTLNDLLECSVCLDRLD 20 (173)
Q Consensus 1 ~~~~~~~~~~~C~iC~~~~~ 20 (173)
|+-..|.....||-|...||
T Consensus 1 m~k~elGtKr~Cp~cg~kFY 20 (129)
T TIGR02300 1 MAKPDLGTKRICPNTGSKFY 20 (129)
T ss_pred CCchhhCccccCCCcCcccc
Confidence 45556667777777777664
No 269
>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=69.14 E-value=3.7 Score=26.23 Aligned_cols=41 Identities=20% Similarity=0.451 Sum_probs=22.3
Q ss_pred cccCCCCCCCCCceeeccCCCC--CCCccccceecCCEEEEEE
Q psy9669 45 KELRCPECPTFVPEYIAIYPYK--PQKDDELELRRGSVYTVTE 85 (173)
Q Consensus 45 ~~~~CP~Cr~~i~~~~~~~~~~--~~~~~el~~~~g~~v~v~~ 85 (173)
....||.||..++.....-.|- ....-|.+-+.|+.|.+..
T Consensus 5 pei~CPhCRq~ipALtLTDtYLC~rHGaFEAdp~t~eLVHLqS 47 (161)
T PF09654_consen 5 PEIQCPHCRQTIPALTLTDTYLCPRHGAFEADPKTGELVHLQS 47 (161)
T ss_pred CcCcCchhhcccchheecceeeccCccccccCCCCCceEEeec
Confidence 3467999998776544322232 2223344555666665544
No 270
>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=68.82 E-value=3.6 Score=26.32 Aligned_cols=41 Identities=22% Similarity=0.451 Sum_probs=22.3
Q ss_pred cccCCCCCCCCCceeeccCCCC--CCCccccceecCCEEEEEE
Q psy9669 45 KELRCPECPTFVPEYIAIYPYK--PQKDDELELRRGSVYTVTE 85 (173)
Q Consensus 45 ~~~~CP~Cr~~i~~~~~~~~~~--~~~~~el~~~~g~~v~v~~ 85 (173)
....||.||..++.....-.|- ....-|.+-..|+.|.+..
T Consensus 8 pei~CPhCRQ~ipALtLTDtYLC~rHGaFEAdP~t~eLVHLqS 50 (163)
T TIGR02652 8 PEIRCPHCRQNIPALTLTDTYLCNRHGAFEADPETGELVHLQS 50 (163)
T ss_pred CcCcCchhhcccchheecceeeccCCCccccCCCCCceEEeec
Confidence 4467999998777544322232 2223344455566665444
No 271
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=68.65 E-value=1.7 Score=20.80 Aligned_cols=10 Identities=20% Similarity=0.823 Sum_probs=6.6
Q ss_pred Cccccccccc
Q psy9669 10 LECSVCLDRL 19 (173)
Q Consensus 10 ~~C~iC~~~~ 19 (173)
++||-|...+
T Consensus 3 i~Cp~C~~~y 12 (36)
T PF13717_consen 3 ITCPNCQAKY 12 (36)
T ss_pred EECCCCCCEE
Confidence 4677777655
No 272
>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=67.32 E-value=2.6 Score=18.52 Aligned_cols=9 Identities=33% Similarity=1.198 Sum_probs=5.0
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.||||...+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 466665543
No 273
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=67.13 E-value=3.7 Score=33.67 Aligned_cols=51 Identities=24% Similarity=0.583 Sum_probs=35.1
Q ss_pred cccCCccccccccccCC---------CeeecCCCCC--------------------ChhhHHHHHhccc------ccCCC
Q psy9669 6 LNDLLECSVCLDRLDTS---------SKVLPCQHTF--------------------CKKCLEEIVSSHK------ELRCP 50 (173)
Q Consensus 6 ~~~~~~C~iC~~~~~~~---------~~~~~Cgh~f--------------------c~~Cl~~~~~~~~------~~~CP 50 (173)
..+--+|+-|+..+..+ ..++.||-+| |..|.+++..-.+ ...||
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp 177 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACP 177 (750)
T ss_pred CCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCc
Confidence 34667899999765311 2456788888 9999988866321 25699
Q ss_pred CCCCCC
Q psy9669 51 ECPTFV 56 (173)
Q Consensus 51 ~Cr~~i 56 (173)
.|...+
T Consensus 178 ~CGP~~ 183 (750)
T COG0068 178 KCGPHL 183 (750)
T ss_pred ccCCCe
Confidence 997433
No 274
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=66.95 E-value=3.9 Score=20.89 Aligned_cols=25 Identities=28% Similarity=0.475 Sum_probs=17.8
Q ss_pred ccccccccccCCCeeecCCCCCChhh
Q psy9669 11 ECSVCLDRLDTSSKVLPCQHTFCKKC 36 (173)
Q Consensus 11 ~C~iC~~~~~~~~~~~~Cgh~fc~~C 36 (173)
.|..|...- .-.+.+.|+|.+|..-
T Consensus 1 ~C~~C~~~~-~l~~CL~C~~~~c~~~ 25 (50)
T smart00290 1 RCSVCGTIE-NLWLCLTCGQVGCGRY 25 (50)
T ss_pred CcccCCCcC-CeEEecCCCCcccCCC
Confidence 377777655 4567788999998654
No 275
>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=66.53 E-value=0.99 Score=24.33 Aligned_cols=31 Identities=29% Similarity=0.528 Sum_probs=17.2
Q ss_pred Ccccc--cccccc-----CC--CeeecCCCCCChhhHHHH
Q psy9669 10 LECSV--CLDRLD-----TS--SKVLPCQHTFCKKCLEEI 40 (173)
Q Consensus 10 ~~C~i--C~~~~~-----~~--~~~~~Cgh~fc~~Cl~~~ 40 (173)
.-||- |...+. .. .....|++.||..|...|
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 887653 11 233349999999998776
No 276
>KOG2113|consensus
Probab=66.31 E-value=7.2 Score=28.69 Aligned_cols=49 Identities=10% Similarity=-0.140 Sum_probs=36.1
Q ss_pred hcccCCccccccccccCCCeeecCCC-CCChhhHHHHHhcccccCCCCCCCCCce
Q psy9669 5 TLNDLLECSVCLDRLDTSSKVLPCQH-TFCKKCLEEIVSSHKELRCPECPTFVPE 58 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~~~~~Cgh-~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~ 58 (173)
.|-..++|-.|..-+ ......+|+| .||.+|-. + .....||.|......
T Consensus 339 ~~~s~~~~~~~~~~~-~st~~~~~~~n~~~~~~a~--~--s~~~~~~~c~~~~~~ 388 (394)
T KOG2113|consen 339 GLMSSLKGTSAGFGL-LSTIWSGGNMNLSPGSLAS--A--SASPTSSTCDHNDHT 388 (394)
T ss_pred cchhhcccccccCce-eeeEeecCCcccChhhhhh--c--ccCCcccccccccee
Confidence 455678888898777 5777789999 58999987 2 233689999865543
No 277
>PF14353 CpXC: CpXC protein
Probab=66.08 E-value=6.4 Score=24.80 Aligned_cols=46 Identities=15% Similarity=0.292 Sum_probs=20.9
Q ss_pred CccccccccccCCCeeecCCCCCChhhHHHHHhc-ccccCCCCCCCCC
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSS-HKELRCPECPTFV 56 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~-~~~~~CP~Cr~~i 56 (173)
++||.|...+. ..+-+.---..=..=.+..+.. -...+||.|...+
T Consensus 2 itCP~C~~~~~-~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~ 48 (128)
T PF14353_consen 2 ITCPHCGHEFE-FEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKF 48 (128)
T ss_pred cCCCCCCCeeE-EEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCce
Confidence 57888887662 1111111111111112223321 1236799998655
No 278
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=65.27 E-value=3.7 Score=21.05 Aligned_cols=14 Identities=36% Similarity=0.454 Sum_probs=7.1
Q ss_pred hhcccCCccccccc
Q psy9669 4 WTLNDLLECSVCLD 17 (173)
Q Consensus 4 ~~~~~~~~C~iC~~ 17 (173)
++|.++..||+|..
T Consensus 29 ~~Lp~~w~CP~C~a 42 (47)
T PF00301_consen 29 EDLPDDWVCPVCGA 42 (47)
T ss_dssp GGS-TT-B-TTTSS
T ss_pred HHCCCCCcCcCCCC
Confidence 45666777777753
No 279
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=65.12 E-value=4.5 Score=25.13 Aligned_cols=9 Identities=44% Similarity=1.165 Sum_probs=6.8
Q ss_pred ccCCCCCCC
Q psy9669 46 ELRCPECPT 54 (173)
Q Consensus 46 ~~~CP~Cr~ 54 (173)
.+.||.|..
T Consensus 86 ~~~CP~Cgs 94 (115)
T TIGR00100 86 LYRCPKCHG 94 (115)
T ss_pred CccCcCCcC
Confidence 467999974
No 280
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.10 E-value=1.6 Score=24.82 Aligned_cols=31 Identities=23% Similarity=0.463 Sum_probs=16.0
Q ss_pred CccccccccccCCCeeecCCCCCChhhHHHHH
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHTFCKKCLEEIV 41 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~ 41 (173)
+.||+|.-.+ .......-.--+|..|-.-|+
T Consensus 2 llCP~C~v~l-~~~~rs~vEiD~CPrCrGVWL 32 (88)
T COG3809 2 LLCPICGVEL-VMSVRSGVEIDYCPRCRGVWL 32 (88)
T ss_pred cccCcCCcee-eeeeecCceeeeCCccccEee
Confidence 5799998766 333332333334444444444
No 281
>PF12773 DZR: Double zinc ribbon
Probab=64.81 E-value=7.8 Score=19.75 Aligned_cols=27 Identities=22% Similarity=0.600 Sum_probs=15.9
Q ss_pred CCCChhhHHHHHh-cccccCCCCCCCCC
Q psy9669 30 HTFCKKCLEEIVS-SHKELRCPECPTFV 56 (173)
Q Consensus 30 h~fc~~Cl~~~~~-~~~~~~CP~Cr~~i 56 (173)
-.||..|=..... ......||.|...+
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~ 39 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAEN 39 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCC
Confidence 4567777554441 22345799887654
No 282
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=63.94 E-value=4.8 Score=19.65 Aligned_cols=23 Identities=26% Similarity=0.722 Sum_probs=12.7
Q ss_pred cccccccccC-CCeeecCCCCCCh
Q psy9669 12 CSVCLDRLDT-SSKVLPCQHTFCK 34 (173)
Q Consensus 12 C~iC~~~~~~-~~~~~~Cgh~fc~ 34 (173)
|.+|...... +-....|+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 5566654322 3333348888876
No 283
>KOG1356|consensus
Probab=63.38 E-value=1.5 Score=36.36 Aligned_cols=34 Identities=18% Similarity=0.316 Sum_probs=26.9
Q ss_pred cCCcccccccccc-CCCeeecCCCCCChhhHHHHH
Q psy9669 8 DLLECSVCLDRLD-TSSKVLPCQHTFCKKCLEEIV 41 (173)
Q Consensus 8 ~~~~C~iC~~~~~-~~~~~~~Cgh~fc~~Cl~~~~ 41 (173)
..-.|..|...+. ..-++-.||+.+|..|++.|.
T Consensus 228 ~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 228 IREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred cchhhhhhcccccceeEEccccCCeeeecchhhcc
Confidence 3457889987553 367888999999999999885
No 284
>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=63.32 E-value=4.2 Score=20.81 Aligned_cols=43 Identities=21% Similarity=0.574 Sum_probs=25.8
Q ss_pred ccccccccccCCC--eeecCCCCCChhhHHHHHhc----ccccCCCCCC
Q psy9669 11 ECSVCLDRLDTSS--KVLPCQHTFCKKCLEEIVSS----HKELRCPECP 53 (173)
Q Consensus 11 ~C~iC~~~~~~~~--~~~~Cgh~fc~~Cl~~~~~~----~~~~~CP~Cr 53 (173)
.|+||........ ....|+..||..|+..-... .....||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 4888988442222 22368889999998554331 1245677663
No 285
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.92 E-value=2.6 Score=24.70 Aligned_cols=13 Identities=31% Similarity=0.887 Sum_probs=11.5
Q ss_pred CCChhhHHHHHhc
Q psy9669 31 TFCKKCLEEIVSS 43 (173)
Q Consensus 31 ~fc~~Cl~~~~~~ 43 (173)
.||..||..|.+.
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999984
No 286
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=62.62 E-value=3.1 Score=25.67 Aligned_cols=25 Identities=20% Similarity=0.598 Sum_probs=13.6
Q ss_pred CccccccccccCCCeeecCCCCCChhhH
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHTFCKKCL 37 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl 37 (173)
..|+-|... ...-..|+|++|..|-
T Consensus 43 ~~C~~Cg~~---~~~~~SCk~R~CP~C~ 67 (111)
T PF14319_consen 43 YRCEDCGHE---KIVYNSCKNRHCPSCQ 67 (111)
T ss_pred eecCCCCce---EEecCcccCcCCCCCC
Confidence 345555532 2334467777777774
No 287
>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=62.53 E-value=1.5 Score=20.32 Aligned_cols=25 Identities=32% Similarity=0.776 Sum_probs=11.8
Q ss_pred CCCChhhHHHHHhc--ccccCCCCCCC
Q psy9669 30 HTFCKKCLEEIVSS--HKELRCPECPT 54 (173)
Q Consensus 30 h~fc~~Cl~~~~~~--~~~~~CP~Cr~ 54 (173)
|.||..|=...... .....||.|..
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 67788776544332 22356887763
No 288
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=61.56 E-value=3 Score=21.79 Aligned_cols=14 Identities=29% Similarity=0.906 Sum_probs=7.0
Q ss_pred eeecCCCCCChhhH
Q psy9669 24 KVLPCQHTFCKKCL 37 (173)
Q Consensus 24 ~~~~Cgh~fc~~Cl 37 (173)
+.-.|++.||.+|=
T Consensus 23 ~C~~C~~~FC~dCD 36 (51)
T PF07975_consen 23 RCPKCKNHFCIDCD 36 (51)
T ss_dssp --TTTT--B-HHHH
T ss_pred ECCCCCCccccCcC
Confidence 33468999999993
No 289
>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=61.03 E-value=8.1 Score=18.40 Aligned_cols=25 Identities=24% Similarity=0.701 Sum_probs=13.1
Q ss_pred CChhhHHHHHhccc------ccCCCCCCCCC
Q psy9669 32 FCKKCLEEIVSSHK------ELRCPECPTFV 56 (173)
Q Consensus 32 fc~~Cl~~~~~~~~------~~~CP~Cr~~i 56 (173)
.|..|++++....+ ...|+.|...+
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~CGPr~ 31 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTNCGPRY 31 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTTCC-SC
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCCCCCCE
Confidence 37888888765322 24688886443
No 290
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=59.89 E-value=18 Score=25.10 Aligned_cols=43 Identities=14% Similarity=0.440 Sum_probs=24.8
Q ss_pred CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceeeccCC
Q psy9669 22 SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAIYP 64 (173)
Q Consensus 22 ~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~~~ 64 (173)
..+++.|++.+-..=+.........+.||.|...+...+..++
T Consensus 109 ~~~C~~C~~~~~~~~~~~~~~~~~~p~C~~Cg~~lrP~Vv~fg 151 (218)
T cd01407 109 RVRCTKCGKEYPRDELQADIDREEVPRCPKCGGLLRPDVVFFG 151 (218)
T ss_pred cceeCCCcCCCcHHHHhHhhccCCCCcCCCCCCccCCCeEECC
Confidence 4456677777654322111222334689999987766665554
No 291
>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=59.45 E-value=11 Score=23.13 Aligned_cols=14 Identities=14% Similarity=0.107 Sum_probs=9.1
Q ss_pred cceecCCEEEEEEE
Q psy9669 73 LELRRGSVYTVTER 86 (173)
Q Consensus 73 l~~~~g~~v~v~~~ 86 (173)
-.|..||.+.+++.
T Consensus 49 ~~L~dGDsV~liKD 62 (109)
T TIGR00686 49 NLLANGDSVILIKD 62 (109)
T ss_pred CCccCCCEEEEEee
Confidence 34667777776664
No 292
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=59.08 E-value=9.1 Score=23.30 Aligned_cols=14 Identities=21% Similarity=0.166 Sum_probs=9.1
Q ss_pred cceecCCEEEEEEE
Q psy9669 73 LELRRGSVYTVTER 86 (173)
Q Consensus 73 l~~~~g~~v~v~~~ 86 (173)
-.+..||.+.++..
T Consensus 51 n~L~dGDsV~lIKD 64 (112)
T COG2824 51 NLLADGDSVTLIKD 64 (112)
T ss_pred cEeccCCeEEEEEe
Confidence 34667777776664
No 293
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=58.98 E-value=2.5 Score=26.15 Aligned_cols=22 Identities=27% Similarity=0.883 Sum_probs=10.1
Q ss_pred ChhhHHHHHhcccccCCCCCCC
Q psy9669 33 CKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 33 c~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
|..|-..+........||.|..
T Consensus 73 C~~Cg~~~~~~~~~~~CP~Cgs 94 (113)
T PF01155_consen 73 CRDCGHEFEPDEFDFSCPRCGS 94 (113)
T ss_dssp ETTTS-EEECHHCCHH-SSSSS
T ss_pred CCCCCCEEecCCCCCCCcCCcC
Confidence 3344433433323356999974
No 294
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=58.86 E-value=8.2 Score=23.29 Aligned_cols=28 Identities=25% Similarity=0.494 Sum_probs=18.6
Q ss_pred CeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 23 SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 23 ~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
-+++.|||.|=.. ...+.+ .||-|....
T Consensus 3 H~CtrCG~vf~~g--~~~il~----GCp~CG~nk 30 (112)
T COG3364 3 HQCTRCGEVFDDG--SEEILS----GCPKCGCNK 30 (112)
T ss_pred ceecccccccccc--cHHHHc----cCccccchh
Confidence 3677899998775 333332 399998654
No 295
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=58.44 E-value=3.2 Score=24.87 Aligned_cols=29 Identities=24% Similarity=0.564 Sum_probs=19.0
Q ss_pred ccCCccccccccccCCCeeec--CCCCCChhh
Q psy9669 7 NDLLECSVCLDRLDTSSKVLP--CQHTFCKKC 36 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~--Cgh~fc~~C 36 (173)
.++++|.-|+-.- ...++.. =|+.+|..|
T Consensus 68 ~DEFTCssCFLV~-HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 68 ADEFTCSSCFLVH-HRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCceeeeeeeeEe-chhhhccccCCCEecccc
Confidence 4789999999665 3333322 367777777
No 296
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=58.14 E-value=6.9 Score=24.23 Aligned_cols=10 Identities=30% Similarity=1.079 Sum_probs=6.9
Q ss_pred cccCCCCCCC
Q psy9669 45 KELRCPECPT 54 (173)
Q Consensus 45 ~~~~CP~Cr~ 54 (173)
..+.||.|..
T Consensus 85 ~~~~CP~Cgs 94 (113)
T PRK12380 85 HDAQCPHCHG 94 (113)
T ss_pred cCccCcCCCC
Confidence 3356999974
No 297
>PRK10220 hypothetical protein; Provisional
Probab=57.61 E-value=18 Score=22.16 Aligned_cols=13 Identities=23% Similarity=0.304 Sum_probs=8.0
Q ss_pred ceecCCEEEEEEE
Q psy9669 74 ELRRGSVYTVTER 86 (173)
Q Consensus 74 ~~~~g~~v~v~~~ 86 (173)
.|..||.+.+++.
T Consensus 51 ~L~dGDsV~viKD 63 (111)
T PRK10220 51 LLADGDSVTIVKD 63 (111)
T ss_pred CccCCCEEEEEee
Confidence 3566777766654
No 298
>PRK00420 hypothetical protein; Validated
Probab=57.53 E-value=5.8 Score=24.53 Aligned_cols=11 Identities=27% Similarity=0.510 Sum_probs=6.9
Q ss_pred cccCCCCCCCC
Q psy9669 45 KELRCPECPTF 55 (173)
Q Consensus 45 ~~~~CP~Cr~~ 55 (173)
+...||.|...
T Consensus 39 g~~~Cp~Cg~~ 49 (112)
T PRK00420 39 GEVVCPVHGKV 49 (112)
T ss_pred CceECCCCCCe
Confidence 34568888653
No 299
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=56.30 E-value=4.5 Score=20.91 Aligned_cols=28 Identities=25% Similarity=0.608 Sum_probs=15.8
Q ss_pred CeeecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 23 SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 23 ~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
+..+.||-.| +..+.....+||.|...+
T Consensus 7 Y~C~~Cg~~~------~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 7 YKCARCGREV------ELDQETRGIRCPYCGSRI 34 (49)
T ss_pred EEhhhcCCee------ehhhccCceeCCCCCcEE
Confidence 3444555555 233334557899997543
No 300
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=55.41 E-value=8.5 Score=20.10 Aligned_cols=26 Identities=15% Similarity=0.390 Sum_probs=14.5
Q ss_pred cccccccccCCCee-ecCCCCCChhhH
Q psy9669 12 CSVCLDRLDTSSKV-LPCQHTFCKKCL 37 (173)
Q Consensus 12 C~iC~~~~~~~~~~-~~Cgh~fc~~Cl 37 (173)
|+.|...+...... ..-+..||..|+
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf 27 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECF 27 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTS
T ss_pred CCCCCCCccCcEEEEEeCCcEEEcccc
Confidence 56666666333333 356666666666
No 301
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=55.07 E-value=4 Score=30.98 Aligned_cols=34 Identities=21% Similarity=0.378 Sum_probs=0.0
Q ss_pred CCCeeecCCCCCChhhHHHHHhcc----cccCCCCCCCCCc
Q psy9669 21 TSSKVLPCQHTFCKKCLEEIVSSH----KELRCPECPTFVP 57 (173)
Q Consensus 21 ~~~~~~~Cgh~fc~~Cl~~~~~~~----~~~~CP~Cr~~i~ 57 (173)
++.+.+.|||.+=.. .|-... ....||+|+..-+
T Consensus 302 qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 302 QPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp -----------------------------------------
T ss_pred Cceeeccccceeeec---ccccccccccccccCCCccccCC
Confidence 466888999986442 232211 2457999996443
No 302
>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=55.06 E-value=6.6 Score=17.59 Aligned_cols=21 Identities=24% Similarity=0.588 Sum_probs=8.1
Q ss_pred cccccccccc--CCCeeecCCCC
Q psy9669 11 ECSVCLDRLD--TSSKVLPCQHT 31 (173)
Q Consensus 11 ~C~iC~~~~~--~~~~~~~Cgh~ 31 (173)
.||+|...+. ..-+...|...
T Consensus 1 ~CP~C~s~l~~~~~ev~~~C~N~ 23 (28)
T PF03119_consen 1 TCPVCGSKLVREEGEVDIRCPNP 23 (28)
T ss_dssp B-TTT--BEEE-CCTTCEEE--C
T ss_pred CcCCCCCEeEcCCCCEeEECCCC
Confidence 4777877654 23334445444
No 303
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=54.89 E-value=3.3 Score=20.25 Aligned_cols=32 Identities=16% Similarity=0.290 Sum_probs=23.2
Q ss_pred cCCccccccccccCCCeeecCCCCCChhhHHHH
Q psy9669 8 DLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEI 40 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~ 40 (173)
+...|+.+.+.. .......|+-.+|..|...-
T Consensus 2 ~~~~C~~H~~~~-~~~~C~~C~~~~C~~C~~~~ 33 (42)
T PF00643_consen 2 QEPKCPEHPEEP-LSLFCEDCNEPLCSECTVSG 33 (42)
T ss_dssp SSSB-SSTTTSB-EEEEETTTTEEEEHHHHHTS
T ss_pred cCccCccCCccc-eEEEecCCCCccCccCCCCC
Confidence 355788888754 46677789999999998653
No 304
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=54.20 E-value=6.4 Score=32.71 Aligned_cols=49 Identities=27% Similarity=0.678 Sum_probs=33.3
Q ss_pred cCCccccccccccCC---------CeeecCCCCC--------------------ChhhHHHHHhccc------ccCCCCC
Q psy9669 8 DLLECSVCLDRLDTS---------SKVLPCQHTF--------------------CKKCLEEIVSSHK------ELRCPEC 52 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~---------~~~~~Cgh~f--------------------c~~Cl~~~~~~~~------~~~CP~C 52 (173)
+.-.|+-|...+.++ ..++.||-.| |..|++++....+ ...||.|
T Consensus 67 D~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C~~C 146 (711)
T TIGR00143 67 DVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIACPRC 146 (711)
T ss_pred chhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccCCCC
Confidence 566899998766211 1455688777 9999999865321 2469999
Q ss_pred CCCC
Q psy9669 53 PTFV 56 (173)
Q Consensus 53 r~~i 56 (173)
...+
T Consensus 147 gp~l 150 (711)
T TIGR00143 147 GPQL 150 (711)
T ss_pred CcEE
Confidence 7554
No 305
>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=53.01 E-value=5.7 Score=29.29 Aligned_cols=45 Identities=18% Similarity=0.299 Sum_probs=28.1
Q ss_pred cCCccccccccccCCCeee---cCC--CCCChhhHHHHHhcccccCCCCCCC
Q psy9669 8 DLLECSVCLDRLDTSSKVL---PCQ--HTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~---~Cg--h~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
..-.||||-.......+.. .=| +.+|.-|-.+|--. ...||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~--R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV--RVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc--CccCCCCCC
Confidence 3559999998652121111 223 34688888888663 357999964
No 306
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=52.88 E-value=14 Score=19.25 Aligned_cols=29 Identities=21% Similarity=0.642 Sum_probs=20.1
Q ss_pred cccccccccc-CCCeeecCCCCCChhhHHHH
Q psy9669 11 ECSVCLDRLD-TSSKVLPCQHTFCKKCLEEI 40 (173)
Q Consensus 11 ~C~iC~~~~~-~~~~~~~Cgh~fc~~Cl~~~ 40 (173)
.|+||.+... ...+-+.=| ..|.+|+...
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 4899997652 222455667 6899999775
No 307
>PRK04023 DNA polymerase II large subunit; Validated
Probab=52.78 E-value=15 Score=31.75 Aligned_cols=45 Identities=20% Similarity=0.372 Sum_probs=30.0
Q ss_pred cCCccccccccccCCCeeecCCC-----CCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 8 DLLECSVCLDRLDTSSKVLPCQH-----TFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~Cgh-----~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
....|+-|.... ....+-.||. .||..|-.. . ....||-|.....
T Consensus 625 g~RfCpsCG~~t-~~frCP~CG~~Te~i~fCP~CG~~--~--~~y~CPKCG~El~ 674 (1121)
T PRK04023 625 GRRKCPSCGKET-FYRRCPFCGTHTEPVYRCPRCGIE--V--EEDECEKCGREPT 674 (1121)
T ss_pred cCccCCCCCCcC-CcccCCCCCCCCCcceeCccccCc--C--CCCcCCCCCCCCC
Confidence 445799998876 4555656885 499999332 1 2346999986553
No 308
>KOG3842|consensus
Probab=52.32 E-value=16 Score=27.01 Aligned_cols=49 Identities=24% Similarity=0.411 Sum_probs=28.6
Q ss_pred cCCccccccccc-------------c-----CCCeeecCCCCCChhhHHHHHhc---c----cccCCCCCCCCC
Q psy9669 8 DLLECSVCLDRL-------------D-----TSSKVLPCQHTFCKKCLEEIVSS---H----KELRCPECPTFV 56 (173)
Q Consensus 8 ~~~~C~iC~~~~-------------~-----~~~~~~~Cgh~fc~~Cl~~~~~~---~----~~~~CP~Cr~~i 56 (173)
.+-+||+|...- + ..-.+.+|||..=..=..=|.+. + -...||+|-..+
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 467899999541 0 01145589998555555545441 1 124699997554
No 309
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=52.05 E-value=4.6 Score=20.87 Aligned_cols=36 Identities=25% Similarity=0.461 Sum_probs=25.4
Q ss_pred hcccCCccccccccc----cCCCeeecCCCCCChhhHHHH
Q psy9669 5 TLNDLLECSVCLDRL----DTSSKVLPCQHTFCKKCLEEI 40 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~----~~~~~~~~Cgh~fc~~Cl~~~ 40 (173)
.+.....|.+|.+.+ ........|+-..+..|+...
T Consensus 7 ~~~~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~ 46 (53)
T PF00130_consen 7 TFSKPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKV 46 (53)
T ss_dssp ESSSTEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTS
T ss_pred cCCCCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhc
Confidence 345677899999877 245677789999999998653
No 310
>KOG0269|consensus
Probab=51.68 E-value=16 Score=30.44 Aligned_cols=39 Identities=18% Similarity=0.289 Sum_probs=27.1
Q ss_pred CccccccccccCCC--eeecCCCCCChhhHHHHHhcccccCCCC
Q psy9669 10 LECSVCLDRLDTSS--KVLPCQHTFCKKCLEEIVSSHKELRCPE 51 (173)
Q Consensus 10 ~~C~iC~~~~~~~~--~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~ 51 (173)
-.|-+|...+ ... ..--|||.-|-+|+..|+.... .||.
T Consensus 780 ~~CtVC~~vi-~G~~~~c~~C~H~gH~sh~~sw~~~~s--~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVI-RGVDVWCQVCGHGGHDSHLKSWFFKAS--PCAK 820 (839)
T ss_pred cCceeeccee-eeeEeecccccccccHHHHHHHHhcCC--CCcc
Confidence 3577777665 222 2225999999999999998543 4665
No 311
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=51.57 E-value=4.2 Score=20.16 Aligned_cols=29 Identities=28% Similarity=0.555 Sum_probs=16.0
Q ss_pred CeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 23 SKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 23 ~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
.+...|||.|-..-- .. ......||.|+.
T Consensus 6 y~C~~Cg~~fe~~~~--~~-~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQS--IS-EDDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEE--cC-CCCCCcCCCCCC
Confidence 344567777654321 11 123467999986
No 312
>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=50.60 E-value=1.7 Score=31.69 Aligned_cols=44 Identities=23% Similarity=0.320 Sum_probs=19.0
Q ss_pred CCccccccccccCCCeeec-----CCCCCChhhHHHHHhcccccCCCCCCCC
Q psy9669 9 LLECSVCLDRLDTSSKVLP-----CQHTFCKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~-----Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
.-.||||-.... -.++.. -.|.+|.-|=.+|-.. ...||.|...
T Consensus 172 ~g~CPvCGs~P~-~s~l~~~~~~G~R~L~Cs~C~t~W~~~--R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPV-LSVLRGGEREGKRYLHCSLCGTEWRFV--RIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EE-EEEEE------EEEEEETTT--EEE----TTS-TTT---
T ss_pred CCcCCCCCCcCc-eEEEecCCCCccEEEEcCCCCCeeeec--CCCCcCCCCC
Confidence 469999997642 111111 2455788888888653 3579999743
No 313
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=50.48 E-value=15 Score=22.93 Aligned_cols=7 Identities=29% Similarity=1.051 Sum_probs=5.6
Q ss_pred CCCCCCC
Q psy9669 48 RCPECPT 54 (173)
Q Consensus 48 ~CP~Cr~ 54 (173)
+||.|..
T Consensus 90 ~CP~Cgs 96 (117)
T PRK00564 90 VCEKCHS 96 (117)
T ss_pred cCcCCCC
Confidence 5999974
No 314
>KOG4384|consensus
Probab=50.36 E-value=16 Score=27.38 Aligned_cols=52 Identities=23% Similarity=0.432 Sum_probs=40.5
Q ss_pred eecccCCCC--CCcceeecCCCEEEEEEcCCCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 116 RCIVPYPPN--SEYELELRVGDLIYVHKKRDDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 116 ~~~~~~~~~--~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
++.-++.++ ..+++.+..|+++.++....-+.|.+... ++.|-|+..||..+
T Consensus 140 ~~~t~~tp~p~~~d~lk~~~~~~i~~~~~~~~~~~~g~~~--~kv~~f~~~~v~~~ 193 (361)
T KOG4384|consen 140 RVHTDFTPSPYDTDSLKIKKGDIIDIIEKPPMGTWLGLLN--NKVGSFKFIYVDVI 193 (361)
T ss_pred cccccCCCCcccccchhhcccchhhccccCcccccccccc--Ccccccccceeccc
Confidence 344445443 44678888999999999888888898887 99999999888765
No 315
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=49.78 E-value=5.7 Score=29.88 Aligned_cols=31 Identities=29% Similarity=0.688 Sum_probs=23.4
Q ss_pred ccCCccccccccccCCCeeecCCCCCChhhH
Q psy9669 7 NDLLECSVCLDRLDTSSKVLPCQHTFCKKCL 37 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl 37 (173)
+..+.|--|.+.-...-..++||..||.+||
T Consensus 37 ~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl 67 (441)
T COG4098 37 NGKYRCNRCGNTHIELFAKLPCGCLYCRNCL 67 (441)
T ss_pred cCcEEehhcCCcchhhhcccccceEeehhhh
Confidence 3567899998432255667899999999998
No 316
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=49.29 E-value=15 Score=24.56 Aligned_cols=42 Identities=12% Similarity=0.468 Sum_probs=24.6
Q ss_pred CeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceeeccCC
Q psy9669 23 SKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAIYP 64 (173)
Q Consensus 23 ~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~~~ 64 (173)
.++..|++.+-..=+...........||.|...+...+..+.
T Consensus 106 ~~C~~C~~~~~~~~~~~~~~~~~~~~C~~C~~~lrp~vv~fg 147 (178)
T PF02146_consen 106 LRCSKCGKEYDREDIVDSIDEEEPPRCPKCGGLLRPDVVLFG 147 (178)
T ss_dssp EEETTTSBEEEGHHHHHHHHTTSSCBCTTTSCBEEEEE--BT
T ss_pred eeecCCCccccchhhcccccccccccccccCccCCCCeeecC
Confidence 344566666654444433344444689999988777676664
No 317
>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=48.89 E-value=11 Score=26.57 Aligned_cols=21 Identities=29% Similarity=0.787 Sum_probs=14.7
Q ss_pred CChhhHHHHHhcccccCCCCCCC
Q psy9669 32 FCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 32 fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
.|.+|-+..-+ +...||+|++
T Consensus 196 ~C~sC~qqIHR--NAPiCPlCK~ 216 (230)
T PF10146_consen 196 TCQSCHQQIHR--NAPICPLCKA 216 (230)
T ss_pred hhHhHHHHHhc--CCCCCccccc
Confidence 47888765443 4578999985
No 318
>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=48.34 E-value=2.1 Score=19.39 Aligned_cols=9 Identities=22% Similarity=0.929 Sum_probs=3.6
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.|+.|...+
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 466666655
No 319
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=48.04 E-value=10 Score=28.10 Aligned_cols=45 Identities=20% Similarity=0.373 Sum_probs=28.8
Q ss_pred cCCccccccccccCCCeee--cCC--CCCChhhHHHHHhcccccCCCCCCC
Q psy9669 8 DLLECSVCLDRLDTSSKVL--PCQ--HTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~--~Cg--h~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
..-.||+|-.......+.. .=| +.+|.-|-.+|--. ...||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~--R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVV--RVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccccc--CccCCCCCC
Confidence 5679999998753221111 223 34588888888664 357999964
No 320
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=48.01 E-value=17 Score=22.11 Aligned_cols=32 Identities=25% Similarity=0.485 Sum_probs=20.1
Q ss_pred cCCccccccccccCCCeeec--CCCCCChhhHHH
Q psy9669 8 DLLECSVCLDRLDTSSKVLP--CQHTFCKKCLEE 39 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~--Cgh~fc~~Cl~~ 39 (173)
....|.||......-.+... |...||..|...
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 36899999985321222222 667888888754
No 321
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=47.66 E-value=7.4 Score=28.23 Aligned_cols=29 Identities=24% Similarity=0.544 Sum_probs=20.5
Q ss_pred CCCCCChhhHHHHHhcc--cccCCCCCCCCC
Q psy9669 28 CQHTFCKKCLEEIVSSH--KELRCPECPTFV 56 (173)
Q Consensus 28 Cgh~fc~~Cl~~~~~~~--~~~~CP~Cr~~i 56 (173)
=.|.||..|-.+..... -...||.|+...
T Consensus 109 ~~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 109 RSHRFCGRCGTKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred hhCcCCCCCCCcCccccCceeeeCCCCCCcc
Confidence 57999999987765532 235799998543
No 322
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=47.44 E-value=13 Score=23.06 Aligned_cols=8 Identities=50% Similarity=1.356 Sum_probs=6.1
Q ss_pred cCCCCCCC
Q psy9669 47 LRCPECPT 54 (173)
Q Consensus 47 ~~CP~Cr~ 54 (173)
..||.|..
T Consensus 88 ~~CP~Cgs 95 (114)
T PRK03681 88 RRCPQCHG 95 (114)
T ss_pred CcCcCcCC
Confidence 56999974
No 323
>KOG2789|consensus
Probab=46.99 E-value=11 Score=28.82 Aligned_cols=33 Identities=24% Similarity=0.622 Sum_probs=22.9
Q ss_pred cCCccccccccccC-CCeeecCCCCCChhhHHHH
Q psy9669 8 DLLECSVCLDRLDT-SSKVLPCQHTFCKKCLEEI 40 (173)
Q Consensus 8 ~~~~C~iC~~~~~~-~~~~~~Cgh~fc~~Cl~~~ 40 (173)
...+||||+-+.-. .-..-.|.-+.|..|+-..
T Consensus 73 r~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 73 RKTECPICFLYYPSAKNLVRCCSETICGECFAPF 106 (482)
T ss_pred ccccCceeeeecccccchhhhhccchhhhheecc
Confidence 34689999976521 2334468999999998544
No 324
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=46.71 E-value=10 Score=24.87 Aligned_cols=24 Identities=33% Similarity=0.953 Sum_probs=19.0
Q ss_pred CCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 29 QHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 29 gh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
-+.||..|=.+.+. .||.|..+++
T Consensus 27 ~~~fC~kCG~~tI~-----~Cp~C~~~Ir 50 (158)
T PF10083_consen 27 REKFCSKCGAKTIT-----SCPNCSTPIR 50 (158)
T ss_pred HHHHHHHhhHHHHH-----HCcCCCCCCC
Confidence 35699999888775 4999998774
No 325
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=44.59 E-value=40 Score=24.03 Aligned_cols=43 Identities=14% Similarity=0.370 Sum_probs=23.5
Q ss_pred CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceeeccCC
Q psy9669 22 SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAIYP 64 (173)
Q Consensus 22 ~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~~~ 64 (173)
..++..|++.|-..=+...+.......||.|...+...+..|.
T Consensus 119 ~~~C~~C~~~~~~~~~~~~~~~~~~p~Cp~Cgg~lrP~Vv~Fg 161 (244)
T PRK14138 119 EYYCVRCGKRYTVEDVIEKLEKSDVPRCDDCSGLIRPNIVFFG 161 (244)
T ss_pred eeEECCCCCcccHHHHHHHHhcCCCCCCCCCCCeECCCEEECC
Confidence 3445556665543222222222234679999987776666664
No 326
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=44.20 E-value=5.1 Score=21.77 Aligned_cols=31 Identities=23% Similarity=0.302 Sum_probs=18.7
Q ss_pred cccccccccCCCeeecCCCCCChh----hHHHHHh
Q psy9669 12 CSVCLDRLDTSSKVLPCQHTFCKK----CLEEIVS 42 (173)
Q Consensus 12 C~iC~~~~~~~~~~~~Cgh~fc~~----Cl~~~~~ 42 (173)
|..|.....+..+.+.||+.+|.. ....+..
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~ 35 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGRYSNGHALKHYK 35 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETTTSTSHHHHHHH
T ss_pred CCCCCCcCCceEEeCCCCcccccCCcCcHHHHhhc
Confidence 556665421455788999999996 5555544
No 327
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=44.12 E-value=15 Score=22.82 Aligned_cols=8 Identities=50% Similarity=1.514 Sum_probs=6.1
Q ss_pred cCCCCCCC
Q psy9669 47 LRCPECPT 54 (173)
Q Consensus 47 ~~CP~Cr~ 54 (173)
..||.|.+
T Consensus 87 ~~CP~C~s 94 (115)
T COG0375 87 YRCPKCGS 94 (115)
T ss_pred eECCCCCC
Confidence 45999974
No 328
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=43.83 E-value=13 Score=26.95 Aligned_cols=11 Identities=18% Similarity=0.969 Sum_probs=6.1
Q ss_pred CCCCChhhHHH
Q psy9669 29 QHTFCKKCLEE 39 (173)
Q Consensus 29 gh~fc~~Cl~~ 39 (173)
.+.+|..|+..
T Consensus 10 ~~~~C~~C~~~ 20 (302)
T PF10186_consen 10 RRFYCANCVNN 20 (302)
T ss_pred CCeECHHHHHH
Confidence 34556666643
No 329
>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=43.69 E-value=7.5 Score=20.37 Aligned_cols=10 Identities=30% Similarity=0.703 Sum_probs=4.9
Q ss_pred CCCCCCCCCc
Q psy9669 48 RCPECPTFVP 57 (173)
Q Consensus 48 ~CP~Cr~~i~ 57 (173)
.||+|..++.
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 7999987664
No 330
>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional
Probab=43.64 E-value=73 Score=25.87 Aligned_cols=39 Identities=23% Similarity=0.472 Sum_probs=29.7
Q ss_pred eecCCCEEEEEEcC-----CCCeeEEEeCCCCcEEEecCCCeEEe
Q psy9669 130 ELRVGDLIYVHKKR-----DDGWYKGTLQRTGRTGLFPASFMKQS 169 (173)
Q Consensus 130 ~~~~g~~v~v~~~~-----~~~w~~~~~~~~g~~G~~P~~~v~~~ 169 (173)
...-|++..|.+.. +-.|.+.... +|..||+-..|++++
T Consensus 371 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 414 (549)
T PRK13545 371 VANFGDIFTISDSNKNEKKDVEWIQITLS-NGEIGWISTKFIEPF 414 (549)
T ss_pred EEecCceEEEcccccccccCcceEEEEec-CCccceeeeeeeeec
Confidence 34458887775543 3479999887 899999999999886
No 331
>KOG1814|consensus
Probab=42.40 E-value=14 Score=28.32 Aligned_cols=35 Identities=20% Similarity=0.490 Sum_probs=27.0
Q ss_pred ccCCcccccccccc-----CCCeeecCCCCCChhhHHHHH
Q psy9669 7 NDLLECSVCLDRLD-----TSSKVLPCQHTFCKKCLEEIV 41 (173)
Q Consensus 7 ~~~~~C~iC~~~~~-----~~~~~~~Cgh~fc~~Cl~~~~ 41 (173)
...-.||-|.-.+. ++...+.|+|.||.-|-....
T Consensus 366 ~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 366 SNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLY 405 (445)
T ss_pred hcCCCCCcccceeecCCCccceeeccccccceeehhhhcC
Confidence 45678999997653 566888999999999976544
No 332
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=41.16 E-value=9 Score=20.72 Aligned_cols=12 Identities=42% Similarity=1.038 Sum_probs=6.2
Q ss_pred cCCccccccccc
Q psy9669 8 DLLECSVCLDRL 19 (173)
Q Consensus 8 ~~~~C~iC~~~~ 19 (173)
+.+.||+|...+
T Consensus 7 eiLaCP~~kg~L 18 (60)
T COG2835 7 EILACPVCKGPL 18 (60)
T ss_pred eeeeccCcCCcc
Confidence 344555555543
No 333
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=41.15 E-value=19 Score=29.63 Aligned_cols=46 Identities=24% Similarity=0.502 Sum_probs=21.6
Q ss_pred CccccccccccC-CCeeecCCCC----CChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 10 LECSVCLDRLDT-SSKVLPCQHT----FCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 10 ~~C~iC~~~~~~-~~~~~~Cgh~----fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
..||-|...... .-++-.||.. .|..|=...-. ....||.|...+.
T Consensus 2 ~~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~CG~~~~~--~~~fC~~CG~~~~ 52 (645)
T PRK14559 2 LICPQCQFENPNNNRFCQKCGTSLTHKPCPQCGTEVPV--DEAHCPNCGAETG 52 (645)
T ss_pred CcCCCCCCcCCCCCccccccCCCCCCCcCCCCCCCCCc--ccccccccCCccc
Confidence 468888765422 1233345544 34444433222 1234666665443
No 334
>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=40.78 E-value=6.1 Score=19.64 Aligned_cols=23 Identities=26% Similarity=0.423 Sum_probs=9.7
Q ss_pred ccccccCCCeeecCCCCCChhhH
Q psy9669 15 CLDRLDTSSKVLPCQHTFCKKCL 37 (173)
Q Consensus 15 C~~~~~~~~~~~~Cgh~fc~~Cl 37 (173)
|......+.....|+..||..=.
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~Hr 28 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLKHR 28 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TTTH
T ss_pred CcCccCCCeECCCCCcccCcccc
Confidence 66655223333348888887543
No 335
>KOG3726|consensus
Probab=40.16 E-value=17 Score=29.78 Aligned_cols=38 Identities=24% Similarity=0.516 Sum_probs=27.1
Q ss_pred cccccccccc---CCCeeecCCCCCChhhHHHHHhcccccCCCCCC
Q psy9669 11 ECSVCLDRLD---TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 11 ~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
.|-+|+..-+ .-+..+.|+..||.+|-..+-+ .||+|.
T Consensus 656 ~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~~~-----~~~vC~ 696 (717)
T KOG3726|consen 656 TCKVCQLPEDSETDVCRTTFCYTPYCVACSLDYAS-----ISEVCG 696 (717)
T ss_pred HHHHhcCCcCccccccCccccCCcchHhhhhhhhc-----cCcccC
Confidence 6888886442 2345667999999998765443 599995
No 336
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.15 E-value=14 Score=23.20 Aligned_cols=22 Identities=36% Similarity=1.013 Sum_probs=16.0
Q ss_pred CCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 31 TFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 31 ~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
.||..|=...+. .||.|..+++
T Consensus 29 afcskcgeati~-----qcp~csasir 50 (160)
T COG4306 29 AFCSKCGEATIT-----QCPICSASIR 50 (160)
T ss_pred HHHhhhchHHHh-----cCCccCCccc
Confidence 478888766553 4999987774
No 337
>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.
Probab=40.01 E-value=58 Score=23.05 Aligned_cols=43 Identities=19% Similarity=0.531 Sum_probs=23.9
Q ss_pred CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceeeccCC
Q psy9669 22 SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAIYP 64 (173)
Q Consensus 22 ~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~~~ 64 (173)
..++..|++.|=..=+...........||.|...+...+..|.
T Consensus 116 ~~~C~~C~~~~~~~~~~~~~~~~~~p~C~~Cgg~lrP~Vv~FG 158 (235)
T cd01408 116 TAHCIKCKHKYPGDWMREDIFNQEVPKCPRCGGLVKPDIVFFG 158 (235)
T ss_pred ccccccCCCcCCHHHHHHHHhCCCCccCCCCCCCccCcEEECC
Confidence 3345557765533222222222224679999987776666665
No 338
>KOG2682|consensus
Probab=39.97 E-value=29 Score=24.75 Aligned_cols=37 Identities=19% Similarity=0.482 Sum_probs=28.0
Q ss_pred cCCCCCChhhHHHHHhcccccCCCCCCCCCceeeccC
Q psy9669 27 PCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAIY 63 (173)
Q Consensus 27 ~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~~ 63 (173)
.|+|.|=.+-++.-+.+....+|+.|..-+...++.+
T Consensus 158 ~C~~~yp~e~~ka~i~~~~vpkC~vC~~lVKP~IVFf 194 (314)
T KOG2682|consen 158 SCRHEYPLEWMKAKIMSEVVPKCEVCQGLVKPDIVFF 194 (314)
T ss_pred hhcCcCCHHHHHHHHHhccCCCCchhhccccccEEEe
Confidence 5888888877777777667789999997776555544
No 339
>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=39.89 E-value=8.7 Score=20.06 Aligned_cols=14 Identities=21% Similarity=0.726 Sum_probs=6.6
Q ss_pred cccCCCCCCCCCce
Q psy9669 45 KELRCPECPTFVPE 58 (173)
Q Consensus 45 ~~~~CP~Cr~~i~~ 58 (173)
...+||+|...++.
T Consensus 23 ~PatCP~C~a~~~~ 36 (54)
T PF09237_consen 23 QPATCPICGAVIRQ 36 (54)
T ss_dssp --EE-TTT--EESS
T ss_pred CCCCCCcchhhccc
Confidence 34579999876654
No 340
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=39.46 E-value=9.2 Score=25.81 Aligned_cols=13 Identities=31% Similarity=0.956 Sum_probs=10.1
Q ss_pred cccCCCCCCCCCc
Q psy9669 45 KELRCPECPTFVP 57 (173)
Q Consensus 45 ~~~~CP~Cr~~i~ 57 (173)
..|.||.|...+-
T Consensus 135 ~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 135 YGFRCPQCGEMLE 147 (178)
T ss_pred cCCcCCCCCCCCe
Confidence 4589999987763
No 341
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=39.29 E-value=12 Score=23.77 Aligned_cols=7 Identities=71% Similarity=1.939 Sum_probs=3.8
Q ss_pred cCCCCCC
Q psy9669 47 LRCPECP 53 (173)
Q Consensus 47 ~~CP~Cr 53 (173)
.+||.|.
T Consensus 41 LRC~vCq 47 (126)
T PRK10144 41 LRCPQCQ 47 (126)
T ss_pred CCCCCCC
Confidence 4555555
No 342
>PRK11827 hypothetical protein; Provisional
Probab=38.65 E-value=12 Score=20.31 Aligned_cols=15 Identities=33% Similarity=0.882 Sum_probs=11.4
Q ss_pred hcccCCccccccccc
Q psy9669 5 TLNDLLECSVCLDRL 19 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~ 19 (173)
.+-+.+.||+|...+
T Consensus 4 ~LLeILaCP~ckg~L 18 (60)
T PRK11827 4 RLLEIIACPVCNGKL 18 (60)
T ss_pred HHHhheECCCCCCcC
Confidence 355678899998766
No 343
>KOG4384|consensus
Probab=38.60 E-value=35 Score=25.68 Aligned_cols=46 Identities=24% Similarity=0.436 Sum_probs=37.5
Q ss_pred CCCCccccceecCCEEEEEEEcCCCEEEEEeCCCCccCcCCCccccCC
Q psy9669 66 KPQKDDELELRRGSVYTVTERCQDGWFKGTSQRTQRSGVFPGNYVAPA 113 (173)
Q Consensus 66 ~~~~~~el~~~~g~~v~v~~~~~~~w~~~~~~~~~~~G~~p~~~v~~~ 113 (173)
.+...+++.+..|+++.++.+..-+-|.+..+ ++.|-|+..|+...
T Consensus 148 ~p~~~d~lk~~~~~~i~~~~~~~~~~~~g~~~--~kv~~f~~~~v~~~ 193 (361)
T KOG4384|consen 148 SPYDTDSLKIKKGDIIDIIEKPPMGTWLGLLN--NKVGSFKFIYVDVI 193 (361)
T ss_pred CcccccchhhcccchhhccccCcccccccccc--Ccccccccceeccc
Confidence 45667889999999999999988888999866 78888888777643
No 344
>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=38.46 E-value=7.7 Score=25.59 Aligned_cols=12 Identities=25% Similarity=0.944 Sum_probs=9.3
Q ss_pred cccCCCCCCCCC
Q psy9669 45 KELRCPECPTFV 56 (173)
Q Consensus 45 ~~~~CP~Cr~~i 56 (173)
..+.||.|...+
T Consensus 127 ~~F~Cp~Cg~~L 138 (158)
T TIGR00373 127 LNFTCPRCGAML 138 (158)
T ss_pred cCCcCCCCCCEe
Confidence 358999998765
No 345
>KOG1818|consensus
Probab=37.98 E-value=14 Score=30.03 Aligned_cols=39 Identities=21% Similarity=0.459 Sum_probs=29.0
Q ss_pred hhcccCCcccccccccc---CCCeeecCCCCCChhhHHHHHh
Q psy9669 4 WTLNDLLECSVCLDRLD---TSSKVLPCQHTFCKKCLEEIVS 42 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl~~~~~ 42 (173)
.++.+...|-.|...|. .+-=+..||-.||..|....+.
T Consensus 160 pdW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~ 201 (634)
T KOG1818|consen 160 PDWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLT 201 (634)
T ss_pred cccccccccceeeeeeeeccccccccccchhhccCccccccC
Confidence 45667789999988764 3445567999999999865544
No 346
>PHA00626 hypothetical protein
Probab=37.31 E-value=18 Score=19.28 Aligned_cols=10 Identities=20% Similarity=0.677 Sum_probs=6.6
Q ss_pred cccCCCCCCC
Q psy9669 45 KELRCPECPT 54 (173)
Q Consensus 45 ~~~~CP~Cr~ 54 (173)
+...||-|.-
T Consensus 22 nrYkCkdCGY 31 (59)
T PHA00626 22 DDYVCCDCGY 31 (59)
T ss_pred cceEcCCCCC
Confidence 4467888863
No 347
>KOG0314|consensus
Probab=37.16 E-value=8.5 Score=29.92 Aligned_cols=46 Identities=26% Similarity=0.683 Sum_probs=31.9
Q ss_pred hcccCCccccc-cccccCCCeee--cCCCCCChhhHHHHHhcccccCCCC
Q psy9669 5 TLNDLLECSVC-LDRLDTSSKVL--PCQHTFCKKCLEEIVSSHKELRCPE 51 (173)
Q Consensus 5 ~~~~~~~C~iC-~~~~~~~~~~~--~Cgh~fc~~Cl~~~~~~~~~~~CP~ 51 (173)
.+.+.+.|++| ...+ ....++ .|.-+||..|++..+.......|.-
T Consensus 215 ~~~e~~~c~~~~~~~~-~~~~l~~~~~~~~~~~~~i~~~l~~~~~~~c~~ 263 (448)
T KOG0314|consen 215 ELPEGLQCPLCGKEVM-LDAALLSKCCLKSFCDKCIRDALISKSMCVCGA 263 (448)
T ss_pred cCCccccCceecchhh-HHHHHhhhhhcccCCccccccccccccCCcchh
Confidence 35688899999 5556 444444 5889999999998887654333333
No 348
>KOG2462|consensus
Probab=36.57 E-value=23 Score=25.64 Aligned_cols=50 Identities=22% Similarity=0.579 Sum_probs=28.8
Q ss_pred ccCCccccccccccC--------CCeeecCCCCCChhhH-HHHHhcc--------cccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDRLDT--------SSKVLPCQHTFCKKCL-EEIVSSH--------KELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~--------~~~~~~Cgh~fc~~Cl-~~~~~~~--------~~~~CP~Cr~~i 56 (173)
.....|++|-..+.. ..=.++|...+|..=. ..|+.++ +.+.||.|+..+
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAF 225 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAF 225 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchh
Confidence 355788899866531 1112456666666554 2344332 247899998655
No 349
>PHA02768 hypothetical protein; Provisional
Probab=36.35 E-value=42 Score=17.84 Aligned_cols=34 Identities=21% Similarity=0.499 Sum_probs=18.9
Q ss_pred CccccccccccCCCeeecCCCCCChhhHHHHHhccc-ccCCCCCCCC
Q psy9669 10 LECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSSHK-ELRCPECPTF 55 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~-~~~CP~Cr~~ 55 (173)
+.|+.|...|. ..+=|..+...+. ...|..|...
T Consensus 6 y~C~~CGK~Fs------------~~~~L~~H~r~H~k~~kc~~C~k~ 40 (55)
T PHA02768 6 YECPICGEIYI------------KRKSMITHLRKHNTNLKLSNCKRI 40 (55)
T ss_pred cCcchhCCeec------------cHHHHHHHHHhcCCcccCCcccce
Confidence 47788877772 1233444444332 4678888653
No 350
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=36.17 E-value=17 Score=21.47 Aligned_cols=28 Identities=25% Similarity=0.667 Sum_probs=17.8
Q ss_pred CCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 21 TSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 21 ~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
.++++-.||-.|=..=| ....+||.|++
T Consensus 57 ~Pa~CkkCGfef~~~~i------k~pSRCP~CKS 84 (97)
T COG3357 57 RPARCKKCGFEFRDDKI------KKPSRCPKCKS 84 (97)
T ss_pred cChhhcccCcccccccc------CCcccCCcchh
Confidence 56777778777654222 23457999984
No 351
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=36.12 E-value=19 Score=15.48 Aligned_cols=9 Identities=22% Similarity=0.962 Sum_probs=4.3
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.|++|...|
T Consensus 4 ~C~~CgR~F 12 (25)
T PF13913_consen 4 PCPICGRKF 12 (25)
T ss_pred cCCCCCCEE
Confidence 455555444
No 352
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=35.87 E-value=21 Score=30.10 Aligned_cols=32 Identities=16% Similarity=0.409 Sum_probs=22.9
Q ss_pred CccccccccccCC--------CeeecCCCCCChhhHHHHH
Q psy9669 10 LECSVCLDRLDTS--------SKVLPCQHTFCKKCLEEIV 41 (173)
Q Consensus 10 ~~C~iC~~~~~~~--------~~~~~Cgh~fc~~Cl~~~~ 41 (173)
..|..|...|..- -=+-.||..||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 4699999988311 1134699999999986554
No 353
>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=35.69 E-value=18 Score=22.29 Aligned_cols=25 Identities=16% Similarity=0.389 Sum_probs=15.0
Q ss_pred ChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 33 CKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 33 c~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
|.+|=+...--++.-.|+.|+.++.
T Consensus 72 CP~C~K~TKmLGr~D~CM~C~~pLT 96 (114)
T PF11023_consen 72 CPNCGKQTKMLGRVDACMHCKEPLT 96 (114)
T ss_pred CCCCCChHhhhchhhccCcCCCcCc
Confidence 5566544433334457999987763
No 354
>KOG4443|consensus
Probab=35.42 E-value=23 Score=28.96 Aligned_cols=47 Identities=19% Similarity=0.432 Sum_probs=31.4
Q ss_pred ccCCcccccccccc----CCCeeecCCCCCChhhHHHHHhc---ccccCCCCCC
Q psy9669 7 NDLLECSVCLDRLD----TSSKVLPCQHTFCKKCLEEIVSS---HKELRCPECP 53 (173)
Q Consensus 7 ~~~~~C~iC~~~~~----~~~~~~~Cgh~fc~~Cl~~~~~~---~~~~~CP~Cr 53 (173)
...+.|++|...-. .-+....||-.||..|+..|++. .+..+||-||
T Consensus 16 ~~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~cr 69 (694)
T KOG4443|consen 16 IVCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCR 69 (694)
T ss_pred hhhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCce
Confidence 34566777775421 12344569999999999988763 2346798887
No 355
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=35.38 E-value=20 Score=17.90 Aligned_cols=31 Identities=23% Similarity=0.409 Sum_probs=15.4
Q ss_pred cCCcccccccccc----CCCeeecCCCCCChhhHH
Q psy9669 8 DLLECSVCLDRLD----TSSKVLPCQHTFCKKCLE 38 (173)
Q Consensus 8 ~~~~C~iC~~~~~----~~~~~~~Cgh~fc~~Cl~ 38 (173)
....|.+|.+.+. .......|+-..+..|..
T Consensus 10 ~~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~ 44 (50)
T cd00029 10 KPTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCAD 44 (50)
T ss_pred CCCChhhcchhhhccccceeEcCCCCCchhhhhhc
Confidence 3445777776552 112233455555555554
No 356
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=35.24 E-value=21 Score=23.07 Aligned_cols=22 Identities=23% Similarity=0.605 Sum_probs=14.8
Q ss_pred eeecCCCCCChhhHHHHHhcccccCCCCCCCC
Q psy9669 24 KVLPCQHTFCKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 24 ~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
++-.|||.|.. ....||.|...
T Consensus 31 kC~~CG~v~~P----------Pr~~Cp~C~~~ 52 (140)
T COG1545 31 KCKKCGRVYFP----------PRAYCPKCGSE 52 (140)
T ss_pred EcCCCCeEEcC----------CcccCCCCCCC
Confidence 44567777766 34569999754
No 357
>PRK11595 DNA utilization protein GntX; Provisional
Probab=35.14 E-value=39 Score=23.68 Aligned_cols=9 Identities=33% Similarity=0.615 Sum_probs=5.2
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.|.+|...+
T Consensus 7 ~C~~C~~~~ 15 (227)
T PRK11595 7 LCWLCRMPL 15 (227)
T ss_pred cCccCCCcc
Confidence 466666544
No 358
>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=35.03 E-value=14 Score=18.04 Aligned_cols=10 Identities=40% Similarity=0.637 Sum_probs=5.7
Q ss_pred cccCCCCCCC
Q psy9669 45 KELRCPECPT 54 (173)
Q Consensus 45 ~~~~CP~Cr~ 54 (173)
+...|++|..
T Consensus 23 ~~w~C~~C~~ 32 (40)
T PF04810_consen 23 KTWICNFCGT 32 (40)
T ss_dssp TEEEETTT--
T ss_pred CEEECcCCCC
Confidence 3467888863
No 359
>KOG3896|consensus
Probab=35.01 E-value=16 Score=27.22 Aligned_cols=52 Identities=27% Similarity=0.608 Sum_probs=30.0
Q ss_pred hcccCCccccccccccCCCeeecCCCCCChhhHHHHHhc---------ccccCCCCCCCCC
Q psy9669 5 TLNDLLECSVCLDRLDTSSKVLPCQHTFCKKCLEEIVSS---------HKELRCPECPTFV 56 (173)
Q Consensus 5 ~~~~~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~---------~~~~~CP~Cr~~i 56 (173)
.+.+.+-|.-|..+-...-+.-.-...||..||+..-.. -+-+-||-|...+
T Consensus 20 pl~~L~FCRyC~klrc~~Cv~hEvdshfCp~CLEn~ps~EArlKKn~CAnCfDCP~C~htL 80 (449)
T KOG3896|consen 20 PLPDLVFCRYCFKLRCDDCVLHEVDSHFCPRCLENSPSPEARLKKNKCANCFDCPKCAHTL 80 (449)
T ss_pred cccceeeeecccccccccccccccccccchhhccCCCchHHHhhhccccccccCcchhhhh
Confidence 456667777777654233333344567999999755331 0124577776544
No 360
>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=34.51 E-value=20 Score=16.97 Aligned_cols=8 Identities=25% Similarity=0.982 Sum_probs=5.0
Q ss_pred Cccccccc
Q psy9669 10 LECSVCLD 17 (173)
Q Consensus 10 ~~C~iC~~ 17 (173)
++||-|..
T Consensus 3 ~~CP~C~~ 10 (38)
T TIGR02098 3 IQCPNCKT 10 (38)
T ss_pred EECCCCCC
Confidence 45666665
No 361
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=34.38 E-value=17 Score=18.27 Aligned_cols=13 Identities=31% Similarity=0.713 Sum_probs=9.0
Q ss_pred ccccCCCCCCCCC
Q psy9669 44 HKELRCPECPTFV 56 (173)
Q Consensus 44 ~~~~~CP~Cr~~i 56 (173)
....+||.|...+
T Consensus 17 ~~~irC~~CG~rI 29 (44)
T smart00659 17 KDVVRCRECGYRI 29 (44)
T ss_pred CCceECCCCCceE
Confidence 3457899997544
No 362
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=34.30 E-value=25 Score=31.30 Aligned_cols=48 Identities=19% Similarity=0.512 Sum_probs=31.1
Q ss_pred CCccccccccccCCCeeecCCCCC-----ChhhHHHHHhc-ccccCCCCCCCCCc
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTF-----CKKCLEEIVSS-HKELRCPECPTFVP 57 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~f-----c~~Cl~~~~~~-~~~~~CP~Cr~~i~ 57 (173)
...||-|.... ...++-.||... |..|=...-.. .....||.|..++.
T Consensus 667 ~rkCPkCG~~t-~~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 667 RRRCPSCGTET-YENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EEECCCCCCcc-ccccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 47899999865 345666688764 88886543221 11347999986553
No 363
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=34.14 E-value=15 Score=23.25 Aligned_cols=7 Identities=71% Similarity=1.939 Sum_probs=3.5
Q ss_pred cCCCCCC
Q psy9669 47 LRCPECP 53 (173)
Q Consensus 47 ~~CP~Cr 53 (173)
.+||.|.
T Consensus 41 LRC~vCq 47 (126)
T TIGR03147 41 LRCPQCQ 47 (126)
T ss_pred CCCCCCC
Confidence 4455554
No 364
>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=33.73 E-value=13 Score=15.14 Aligned_cols=9 Identities=22% Similarity=0.947 Sum_probs=4.8
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.|++|...|
T Consensus 2 ~C~~C~~~f 10 (23)
T PF00096_consen 2 KCPICGKSF 10 (23)
T ss_dssp EETTTTEEE
T ss_pred CCCCCCCcc
Confidence 455555544
No 365
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=33.54 E-value=22 Score=22.07 Aligned_cols=8 Identities=50% Similarity=1.119 Sum_probs=5.4
Q ss_pred cccccccc
Q psy9669 12 CSVCLDRL 19 (173)
Q Consensus 12 C~iC~~~~ 19 (173)
||+|...+
T Consensus 1 CPvCg~~l 8 (113)
T PF09862_consen 1 CPVCGGEL 8 (113)
T ss_pred CCCCCCce
Confidence 67777655
No 366
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=33.35 E-value=23 Score=17.41 Aligned_cols=25 Identities=16% Similarity=0.551 Sum_probs=10.5
Q ss_pred CccccccccccCCCeeec----CCCCCChhh
Q psy9669 10 LECSVCLDRLDTSSKVLP----CQHTFCKKC 36 (173)
Q Consensus 10 ~~C~iC~~~~~~~~~~~~----Cgh~fc~~C 36 (173)
.-||+|-..= .-.+.+ =|+.+|..|
T Consensus 4 ~pCP~CGG~D--rFri~~d~~~~G~~~C~~C 32 (40)
T PF08273_consen 4 GPCPICGGKD--RFRIFDDKDGRGTWICRQC 32 (40)
T ss_dssp E--TTTT-TT--TEEEETT----S-EEETTT
T ss_pred CCCCCCcCcc--ccccCcCcccCCCEECCCC
Confidence 3588886421 111112 278888777
No 367
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=32.96 E-value=26 Score=17.29 Aligned_cols=33 Identities=24% Similarity=0.450 Sum_probs=18.2
Q ss_pred ccCCccccccccccC---CCeeecCCCCCChhhHHH
Q psy9669 7 NDLLECSVCLDRLDT---SSKVLPCQHTFCKKCLEE 39 (173)
Q Consensus 7 ~~~~~C~iC~~~~~~---~~~~~~Cgh~fc~~Cl~~ 39 (173)
.....|.+|.+.+.. ......|+-..+..|...
T Consensus 9 ~~~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 9 KKPTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 345568888776631 233334555556666544
No 368
>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=32.89 E-value=21 Score=23.37 Aligned_cols=23 Identities=26% Similarity=0.463 Sum_probs=15.7
Q ss_pred cCCCCCChhhHHHHHhcc---------cccCCCCCCC
Q psy9669 27 PCQHTFCKKCLEEIVSSH---------KELRCPECPT 54 (173)
Q Consensus 27 ~Cgh~fc~~Cl~~~~~~~---------~~~~CP~Cr~ 54 (173)
.+||.|=. |+.+. +...||+|..
T Consensus 9 ~~gH~FEg-----WF~ss~~fd~Q~~~glv~CP~Cgs 40 (148)
T PF06676_consen 9 ENGHEFEG-----WFRSSAAFDRQQARGLVSCPVCGS 40 (148)
T ss_pred CCCCccce-----ecCCHHHHHHHHHcCCccCCCCCC
Confidence 47788744 77642 3478999974
No 369
>KOG0801|consensus
Probab=32.49 E-value=43 Score=22.21 Aligned_cols=14 Identities=43% Similarity=1.179 Sum_probs=9.9
Q ss_pred ccccCCCCCCCCCc
Q psy9669 44 HKELRCPECPTFVP 57 (173)
Q Consensus 44 ~~~~~CP~Cr~~i~ 57 (173)
.+.++||+|...++
T Consensus 136 ~~g~KCPvC~K~V~ 149 (205)
T KOG0801|consen 136 HSGMKCPVCHKVVP 149 (205)
T ss_pred cCCccCCccccccC
Confidence 34578999986654
No 370
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=31.94 E-value=29 Score=19.00 Aligned_cols=10 Identities=40% Similarity=1.022 Sum_probs=8.1
Q ss_pred cCCCCCCCCC
Q psy9669 47 LRCPECPTFV 56 (173)
Q Consensus 47 ~~CP~Cr~~i 56 (173)
..||+|+..+
T Consensus 7 v~CP~C~k~~ 16 (62)
T PRK00418 7 VNCPTCGKPV 16 (62)
T ss_pred ccCCCCCCcc
Confidence 5799999765
No 371
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.88 E-value=37 Score=21.76 Aligned_cols=8 Identities=50% Similarity=1.597 Sum_probs=6.1
Q ss_pred cCCCCCCC
Q psy9669 47 LRCPECPT 54 (173)
Q Consensus 47 ~~CP~Cr~ 54 (173)
..||.|..
T Consensus 108 ~~CP~Cgs 115 (135)
T PRK03824 108 LKCPKCGS 115 (135)
T ss_pred cCCcCCCC
Confidence 56999964
No 372
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=31.85 E-value=79 Score=17.28 Aligned_cols=38 Identities=21% Similarity=0.349 Sum_probs=25.2
Q ss_pred ccCCcccccccccc----CCCeeecCCCCCChhhHHHHHhcc
Q psy9669 7 NDLLECSVCLDRLD----TSSKVLPCQHTFCKKCLEEIVSSH 44 (173)
Q Consensus 7 ~~~~~C~iC~~~~~----~~~~~~~Cgh~fc~~Cl~~~~~~~ 44 (173)
+..+.||-|...-+ -.-..+.=--.||+.|-.-|.+.+
T Consensus 3 ~~~~~CPRC~S~nTKFcYyNNy~~~QPR~~Ck~C~rywT~GG 44 (63)
T PF02701_consen 3 EQPLPCPRCDSTNTKFCYYNNYNLSQPRYFCKSCRRYWTHGG 44 (63)
T ss_pred ccCCCCCCcCCCCCEEEeecCCCCCCcchhhHHHHHHHHhcc
Confidence 46688999986421 111223455679999999998853
No 373
>KOG2071|consensus
Probab=31.67 E-value=25 Score=28.39 Aligned_cols=35 Identities=23% Similarity=0.551 Sum_probs=25.4
Q ss_pred ccCCcccccccccc------------CCCeeecCCCCCChhhHHHHH
Q psy9669 7 NDLLECSVCLDRLD------------TSSKVLPCQHTFCKKCLEEIV 41 (173)
Q Consensus 7 ~~~~~C~iC~~~~~------------~~~~~~~Cgh~fc~~Cl~~~~ 41 (173)
+....|+||.+.|. ...+-+.-|-+||..|+.+-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 45678999998762 344555678899999987644
No 374
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=31.65 E-value=23 Score=21.82 Aligned_cols=12 Identities=33% Similarity=0.800 Sum_probs=9.2
Q ss_pred CeeecCCCCCCh
Q psy9669 23 SKVLPCQHTFCK 34 (173)
Q Consensus 23 ~~~~~Cgh~fc~ 34 (173)
.+.-.|||.||.
T Consensus 24 ~vkc~CGh~f~d 35 (112)
T PF08882_consen 24 VVKCDCGHEFCD 35 (112)
T ss_pred eeeccCCCeecC
Confidence 444579999996
No 375
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=31.20 E-value=14 Score=19.02 Aligned_cols=28 Identities=29% Similarity=0.538 Sum_probs=14.4
Q ss_pred eeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 24 KVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 24 ~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
+...|||.|=..- .........||.|..
T Consensus 7 ~C~~Cg~~fe~~~---~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 7 RCTACGHRFEVLQ---KMSDDPLATCPECGG 34 (52)
T ss_pred EeCCCCCEeEEEE---ecCCCCCCCCCCCCC
Confidence 4445666654320 011123457999985
No 376
>PRK01343 zinc-binding protein; Provisional
Probab=30.89 E-value=32 Score=18.48 Aligned_cols=11 Identities=36% Similarity=0.748 Sum_probs=8.5
Q ss_pred ccCCCCCCCCC
Q psy9669 46 ELRCPECPTFV 56 (173)
Q Consensus 46 ~~~CP~Cr~~i 56 (173)
...||+|+.++
T Consensus 9 ~~~CP~C~k~~ 19 (57)
T PRK01343 9 TRPCPECGKPS 19 (57)
T ss_pred CCcCCCCCCcC
Confidence 35799999765
No 377
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=30.68 E-value=12 Score=18.28 Aligned_cols=9 Identities=33% Similarity=0.837 Sum_probs=6.4
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.||.|...|
T Consensus 1 ~CP~C~~~l 9 (41)
T PF13453_consen 1 KCPRCGTEL 9 (41)
T ss_pred CcCCCCccc
Confidence 477887766
No 378
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=30.61 E-value=31 Score=18.27 Aligned_cols=9 Identities=22% Similarity=0.999 Sum_probs=6.3
Q ss_pred Ccccccccc
Q psy9669 10 LECSVCLDR 18 (173)
Q Consensus 10 ~~C~iC~~~ 18 (173)
+.||+|..-
T Consensus 5 i~CP~CgnK 13 (55)
T PF14205_consen 5 ILCPICGNK 13 (55)
T ss_pred EECCCCCCc
Confidence 468888853
No 379
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=30.15 E-value=7.2 Score=20.17 Aligned_cols=32 Identities=16% Similarity=0.516 Sum_probs=22.9
Q ss_pred cCCccccccccccC--CCeeecCCCCCChhhHHH
Q psy9669 8 DLLECSVCLDRLDT--SSKVLPCQHTFCKKCLEE 39 (173)
Q Consensus 8 ~~~~C~iC~~~~~~--~~~~~~Cgh~fc~~Cl~~ 39 (173)
+.+.|..|.+.+.. --+..-||...|.+|.+.
T Consensus 6 sry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~d 39 (57)
T PF14445_consen 6 SRYSCDLCNSSHPISELRQCVLCGRWACNSCWQD 39 (57)
T ss_pred hhHhHHhhcccCcHHHHHHHhhhchhhhhhhhhh
Confidence 35789999986621 124556999999999764
No 380
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=30.02 E-value=18 Score=23.62 Aligned_cols=7 Identities=71% Similarity=1.939 Sum_probs=4.2
Q ss_pred cCCCCCC
Q psy9669 47 LRCPECP 53 (173)
Q Consensus 47 ~~CP~Cr 53 (173)
.+||.|.
T Consensus 45 LRCp~CQ 51 (153)
T COG3088 45 LRCPQCQ 51 (153)
T ss_pred cCCCcCC
Confidence 4566665
No 381
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=29.91 E-value=32 Score=22.17 Aligned_cols=25 Identities=28% Similarity=0.687 Sum_probs=18.0
Q ss_pred CCccccccccccCCCeeecCCCCCChhhHHH
Q psy9669 9 LLECSVCLDRLDTSSKVLPCQHTFCKKCLEE 39 (173)
Q Consensus 9 ~~~C~iC~~~~~~~~~~~~Cgh~fc~~Cl~~ 39 (173)
...|+.|..+| ... +..+|.+|.+.
T Consensus 3 l~nC~~CgklF-~~~-----~~~iCp~C~~~ 27 (137)
T TIGR03826 3 LANCPKCGRLF-VKT-----GRDVCPSCYEE 27 (137)
T ss_pred Cccccccchhh-hhc-----CCccCHHHhHH
Confidence 44799999988 331 67788888843
No 382
>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=29.79 E-value=17 Score=14.49 Aligned_cols=7 Identities=29% Similarity=1.065 Sum_probs=2.2
Q ss_pred ccccccc
Q psy9669 12 CSVCLDR 18 (173)
Q Consensus 12 C~iC~~~ 18 (173)
|++|...
T Consensus 3 C~~C~~~ 9 (24)
T PF13894_consen 3 CPICGKS 9 (24)
T ss_dssp -SSTS-E
T ss_pred CcCCCCc
Confidence 4444433
No 383
>KOG1819|consensus
Probab=29.66 E-value=13 Score=29.27 Aligned_cols=29 Identities=24% Similarity=0.615 Sum_probs=18.7
Q ss_pred CCcccccccccc---CCCeeecCCCCCChhhH
Q psy9669 9 LLECSVCLDRLD---TSSKVLPCQHTFCKKCL 37 (173)
Q Consensus 9 ~~~C~iC~~~~~---~~~~~~~Cgh~fc~~Cl 37 (173)
--.|-.|+..|+ ..--+-.||-+||..|-
T Consensus 901 a~~cmacq~pf~afrrrhhcrncggifcg~cs 932 (990)
T KOG1819|consen 901 AEQCMACQMPFNAFRRRHHCRNCGGIFCGKCS 932 (990)
T ss_pred chhhhhccCcHHHHHHhhhhcccCceeecccc
Confidence 346777777663 22344578888888774
No 384
>PTZ00410 NAD-dependent SIR2; Provisional
Probab=29.58 E-value=93 Score=23.65 Aligned_cols=43 Identities=14% Similarity=0.276 Sum_probs=23.1
Q ss_pred CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceeeccCC
Q psy9669 22 SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAIYP 64 (173)
Q Consensus 22 ~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~~~ 64 (173)
..++..|++.|-..=...-........||.|...+...++.+.
T Consensus 147 ~~~C~~C~~~~~~~~~~~~~~~~~vP~C~~CgG~lRPdVVlFG 189 (349)
T PTZ00410 147 AASCIECHTPYDIEQAYLEARSGKVPHCSTCGGIVKPDVVFFG 189 (349)
T ss_pred eeEeCCCCCCcchhHHHHHhhcCCCCCCCCCCCccCCcEEecC
Confidence 3445567766543211111112234679999987776666654
No 385
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=29.33 E-value=24 Score=24.55 Aligned_cols=14 Identities=21% Similarity=0.693 Sum_probs=11.1
Q ss_pred ccCCcccccccccc
Q psy9669 7 NDLLECSVCLDRLD 20 (173)
Q Consensus 7 ~~~~~C~iC~~~~~ 20 (173)
+...+||+|...|.
T Consensus 3 ~k~~~CPvC~~~F~ 16 (214)
T PF09986_consen 3 DKKITCPVCGKEFK 16 (214)
T ss_pred CCceECCCCCCeee
Confidence 56788999998874
No 386
>PF03894 XFP: D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; InterPro: IPR005593 Phosphoketolases (PK) are key enzymes of the pentose phosphate pathway of heterofermentative and facultative homofermentative lactic acid bacteria and of the D-fructose 6-phosphate shunt of bifidobacteria. PK activity has been sporadically reported in other microorganisms including eukaryotic yeasts. Xylulose-5-phosphate/fructose-6-phosphate phosphoketolase is a thiamine diphosphate (ThdP)-dependent enzyme found in bacteria such as Bifidobacterium sp [, ]. This enzyme has dual-specificity with the following catalytic activities: 4.1.2.9 from EC: xylose 5-P + Pi = acetyl-P + glyeraldehyde-3-P 4.1.2.22 from EC: fructose-6-P + Pi = acetyl-P + erythrose-4-P Phosphoketolases are distantly related to transketolases, e.g. IPR005475 from INTERPRO.; GO: 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3AI7_B 3AHC_A 3AHJ_A 3AHG_A 3AHE_A 3AHI_A 3AHD_A 3AHF_A 3AHH_A.
Probab=29.18 E-value=2.8 Score=28.11 Aligned_cols=37 Identities=35% Similarity=0.577 Sum_probs=24.9
Q ss_pred CcceeecCCCEEEEEEcC-CCCeeEEEeCCCCcEEEecC
Q psy9669 126 EYELELRVGDLIYVHKKR-DDGWYKGTLQRTGRTGLFPA 163 (173)
Q Consensus 126 ~~el~~~~g~~v~v~~~~-~~~w~~~~~~~~g~~G~~P~ 163 (173)
.+......|.++.++.+. ..||..|... +|+.|+|++
T Consensus 52 ~~~~~~~~G~V~e~LSEh~c~G~leGY~L-tGrhglf~s 89 (179)
T PF03894_consen 52 DDEHLAPGGRVMEVLSEHQCQGWLEGYLL-TGRHGLFAS 89 (179)
T ss_dssp T-TTEESS-SEEE-S-HHHHHHHHHHHHH-TT-EEEEEE
T ss_pred chhhcccCCeeeeecCHHHHHHHHHHHHh-cCCcccccc
Confidence 345667778888887765 4689999877 899999875
No 387
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=28.82 E-value=17 Score=15.10 Aligned_cols=9 Identities=22% Similarity=0.859 Sum_probs=5.6
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.|.+|...+
T Consensus 2 ~C~~C~~~f 10 (25)
T PF12874_consen 2 YCDICNKSF 10 (25)
T ss_dssp EETTTTEEE
T ss_pred CCCCCCCCc
Confidence 466676555
No 388
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=28.69 E-value=18 Score=21.86 Aligned_cols=12 Identities=33% Similarity=0.819 Sum_probs=8.0
Q ss_pred cccCCccccccc
Q psy9669 6 LNDLLECSVCLD 17 (173)
Q Consensus 6 ~~~~~~C~iC~~ 17 (173)
+...+.||-|.+
T Consensus 18 lpt~f~CP~Cge 29 (99)
T PRK14892 18 LPKIFECPRCGK 29 (99)
T ss_pred CCcEeECCCCCC
Confidence 345677777774
No 389
>KOG3183|consensus
Probab=28.55 E-value=35 Score=24.22 Aligned_cols=53 Identities=21% Similarity=0.293 Sum_probs=30.9
Q ss_pred hhcccCCcccccccc-ccCCCeeecCCCCCChhhHHHHHh--------cccccCCCCCCCCCc
Q psy9669 4 WTLNDLLECSVCLDR-LDTSSKVLPCQHTFCKKCLEEIVS--------SHKELRCPECPTFVP 57 (173)
Q Consensus 4 ~~~~~~~~C~iC~~~-~~~~~~~~~Cgh~fc~~Cl~~~~~--------~~~~~~CP~Cr~~i~ 57 (173)
-+|...-.=+.|..+ | .+-..-.|++.||.+=...-.+ .-....||+|..+++
T Consensus 5 pDlGkHCs~~~CkqlDF-LPf~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~ 66 (250)
T KOG3183|consen 5 PDLGKHCSVPYCKQLDF-LPFKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVP 66 (250)
T ss_pred cccccccCcchhhhccc-cceeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCC
Confidence 344442222478764 4 6778888999999753322221 112357898876654
No 390
>KOG0006|consensus
Probab=28.53 E-value=40 Score=25.10 Aligned_cols=34 Identities=24% Similarity=0.580 Sum_probs=28.2
Q ss_pred cCCccccccccccCCCeeecCC--CCCChhhHHHHHh
Q psy9669 8 DLLECSVCLDRLDTSSKVLPCQ--HTFCKKCLEEIVS 42 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~~~~~Cg--h~fc~~Cl~~~~~ 42 (173)
....|..|.+.- .+...+.|. |..|..|..-+..
T Consensus 220 ~ni~C~~Ctdv~-~~vlvf~Cns~HvtC~dCFr~yc~ 255 (446)
T KOG0006|consen 220 RNITCITCTDVR-SPVLVFQCNSRHVTCLDCFRLYCV 255 (446)
T ss_pred ccceeEEecCCc-cceEEEecCCceeehHHhhhhHhh
Confidence 567899999877 778888999 9999999876654
No 391
>KOG4021|consensus
Probab=28.52 E-value=30 Score=23.67 Aligned_cols=21 Identities=24% Similarity=0.419 Sum_probs=12.7
Q ss_pred hhhHHHHHhcccccCCCCCCCC
Q psy9669 34 KKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 34 ~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
+.||.+.-...+ -.||+||-.
T Consensus 97 ktCIrkn~~~~g-npCPICRDe 117 (239)
T KOG4021|consen 97 KTCIRKNGRFLG-NPCPICRDE 117 (239)
T ss_pred hHHHhhcCeecC-CCCCccccc
Confidence 567766544322 259999943
No 392
>KOG4451|consensus
Probab=28.47 E-value=31 Score=24.25 Aligned_cols=21 Identities=29% Similarity=0.713 Sum_probs=12.5
Q ss_pred ChhhHHHHHhcccccCCCCCCCC
Q psy9669 33 CKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 33 c~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
|.+|-...-+ +...||+|+..
T Consensus 252 ClsChqqIHR--NAPiCPlCKaK 272 (286)
T KOG4451|consen 252 CLSCHQQIHR--NAPICPLCKAK 272 (286)
T ss_pred HHHHHHHHhc--CCCCCcchhhc
Confidence 5555443332 45789999853
No 393
>KOG1729|consensus
Probab=28.47 E-value=13 Score=27.22 Aligned_cols=32 Identities=22% Similarity=0.543 Sum_probs=22.1
Q ss_pred cCCccccccc-ccc---CCCeeecCCCCCChhhHHH
Q psy9669 8 DLLECSVCLD-RLD---TSSKVLPCQHTFCKKCLEE 39 (173)
Q Consensus 8 ~~~~C~iC~~-~~~---~~~~~~~Cgh~fc~~Cl~~ 39 (173)
+...|.+|.. .|. ..=-.-.||++||..|-..
T Consensus 167 ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n 202 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRN 202 (288)
T ss_pred cceecccCCCccccHHHHHHHHHhcchHhhhhhhcC
Confidence 5678999987 442 1112346999999999765
No 394
>PF12907 zf-met2: Zinc-binding
Probab=28.14 E-value=14 Score=18.20 Aligned_cols=9 Identities=22% Similarity=0.918 Sum_probs=5.0
Q ss_pred Ccccccccc
Q psy9669 10 LECSVCLDR 18 (173)
Q Consensus 10 ~~C~iC~~~ 18 (173)
+.|.||...
T Consensus 2 i~C~iC~qt 10 (40)
T PF12907_consen 2 IICKICRQT 10 (40)
T ss_pred cCcHHhhHH
Confidence 456666643
No 395
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=28.13 E-value=39 Score=17.64 Aligned_cols=6 Identities=50% Similarity=1.376 Sum_probs=3.6
Q ss_pred cCCCCC
Q psy9669 47 LRCPEC 52 (173)
Q Consensus 47 ~~CP~C 52 (173)
..||.|
T Consensus 50 ~~CP~C 55 (55)
T PF14311_consen 50 KGCPYC 55 (55)
T ss_pred CCCCCC
Confidence 356665
No 396
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=27.91 E-value=13 Score=17.00 Aligned_cols=21 Identities=29% Similarity=0.725 Sum_probs=9.0
Q ss_pred ccccccccccCCCeeecCCCCCC
Q psy9669 11 ECSVCLDRLDTSSKVLPCQHTFC 33 (173)
Q Consensus 11 ~C~iC~~~~~~~~~~~~Cgh~fc 33 (173)
.|.||.. . ..+..-.|+-.+|
T Consensus 4 ~C~vC~~-~-~kY~Cp~C~~~~C 24 (30)
T PF04438_consen 4 LCSVCGN-P-AKYRCPRCGARYC 24 (30)
T ss_dssp EETSSSS-E-ESEE-TTT--EES
T ss_pred CCccCcC-C-CEEECCCcCCcee
Confidence 4666665 3 3444444444444
No 397
>KOG1314|consensus
Probab=27.39 E-value=1.3e+02 Score=23.03 Aligned_cols=40 Identities=25% Similarity=0.474 Sum_probs=26.4
Q ss_pred CccccceecCCEEEEEEEcCCCEEEEEe------CCCC---ccCcCCCcc
Q psy9669 69 KDDELELRRGSVYTVTERCQDGWFKGTS------QRTQ---RSGVFPGNY 109 (173)
Q Consensus 69 ~~~el~~~~g~~v~v~~~~~~~w~~~~~------~~~~---~~G~~p~~~ 109 (173)
++..+++++||.+.+..- .+.|..|.. +.++ -+||||.+.
T Consensus 330 ddprisL~p~d~i~~tr~-~~~wlyg~~~l~e~~~E~~~rkiRgwfP~~~ 378 (414)
T KOG1314|consen 330 DDPRISLPPGDGIKATRG-FNHWLYGEEILSEMFNESRERKIRGWFPRNC 378 (414)
T ss_pred CCcccccCCCcceeeeee-eecccchhhhhhHHHhhcchhhhcccccccc
Confidence 345688999999865554 567877731 1112 369999887
No 398
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=27.03 E-value=22 Score=15.90 Aligned_cols=9 Identities=22% Similarity=0.815 Sum_probs=2.6
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.|.+|....
T Consensus 2 ~C~~C~~~~ 10 (30)
T PF07649_consen 2 RCDACGKPI 10 (30)
T ss_dssp --TTTS---
T ss_pred cCCcCCCcC
Confidence 466666655
No 399
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=27.01 E-value=29 Score=18.64 Aligned_cols=27 Identities=33% Similarity=0.776 Sum_probs=15.5
Q ss_pred cCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 27 PCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 27 ~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
+||.+|=- -|+.........+||.|..
T Consensus 26 PCGDRFeI-sLeDl~~GE~VArCPSCSL 52 (67)
T COG5216 26 PCGDRFEI-SLEDLRNGEVVARCPSCSL 52 (67)
T ss_pred CCCCEeEE-EHHHhhCCceEEEcCCceE
Confidence 57777643 2343333333468999964
No 400
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=26.79 E-value=1.1e+02 Score=21.19 Aligned_cols=43 Identities=12% Similarity=0.252 Sum_probs=22.7
Q ss_pred CCeeecCCCCCChhhHH-HHHhcccccCCCCCCCCCceeeccCC
Q psy9669 22 SSKVLPCQHTFCKKCLE-EIVSSHKELRCPECPTFVPEYIAIYP 64 (173)
Q Consensus 22 ~~~~~~Cgh~fc~~Cl~-~~~~~~~~~~CP~Cr~~i~~~~~~~~ 64 (173)
..++..|++.+-..=.. ........+.||.|...+...++.|.
T Consensus 95 ~~~C~~C~~~~~~~~~~~~~~~~~~~p~C~~Cgg~lrP~VV~Fg 138 (206)
T cd01410 95 IEVCKSCGPEYVRDDVVETRGDKETGRRCHACGGILKDTIVDFG 138 (206)
T ss_pred cccCCCCCCccchHHHHHHhhcCCCCCcCCCCcCccCCcEEECC
Confidence 33444566665432111 11111223679999887776666664
No 401
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=25.55 E-value=35 Score=25.16 Aligned_cols=9 Identities=22% Similarity=0.652 Sum_probs=4.5
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.||-|...+
T Consensus 40 kc~~C~~~~ 48 (296)
T CHL00174 40 QCENCYGLN 48 (296)
T ss_pred ECCCccchh
Confidence 455555443
No 402
>PHA02893 hypothetical protein; Provisional
Probab=25.50 E-value=22 Score=20.61 Aligned_cols=40 Identities=20% Similarity=0.540 Sum_probs=21.9
Q ss_pred ccCCcccccccccc-----CCCe---eecCCCCCChhhHHHHHhcccccCCCCCCCCC
Q psy9669 7 NDLLECSVCLDRLD-----TSSK---VLPCQHTFCKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 7 ~~~~~C~iC~~~~~-----~~~~---~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
++-.+|.+|+.-+. .... .+.+|-.||. +.++|..|...+
T Consensus 32 d~C~TCSsC~SKLV~~Sdvtk~sl~~~~~~Gk~~~~----------~tL~CaACGS~L 79 (88)
T PHA02893 32 DACTTCQICQSKLVMFSGVNKYKLKDYLNIGKAFSN----------SNIKCIACGSSL 79 (88)
T ss_pred CCCcchhhhhcceeeeeccchhhhHHHHhccccCCC----------Cceeehhhchhh
Confidence 34567888887552 1111 2345554443 446787776544
No 403
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=25.43 E-value=39 Score=16.00 Aligned_cols=9 Identities=22% Similarity=0.741 Sum_probs=2.6
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.|--|...+
T Consensus 5 ~C~eC~~~f 13 (34)
T PF01286_consen 5 KCDECGKPF 13 (34)
T ss_dssp E-TTT--EE
T ss_pred hHhHhCCHH
Confidence 344444444
No 404
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=25.22 E-value=68 Score=17.34 Aligned_cols=17 Identities=35% Similarity=1.140 Sum_probs=9.6
Q ss_pred ChhhHHHHHhcccccCCCCCC
Q psy9669 33 CKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 33 c~~Cl~~~~~~~~~~~CP~Cr 53 (173)
|..|-+. .+..+||.|.
T Consensus 39 C~~CRk~----~~~Y~CP~CG 55 (59)
T PRK14890 39 CEKCRKQ----SNPYTCPKCG 55 (59)
T ss_pred chhHHhc----CCceECCCCC
Confidence 5555542 2445688775
No 405
>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=25.07 E-value=17 Score=19.45 Aligned_cols=10 Identities=40% Similarity=1.016 Sum_probs=5.0
Q ss_pred cCCCCCCCCC
Q psy9669 47 LRCPECPTFV 56 (173)
Q Consensus 47 ~~CP~Cr~~i 56 (173)
..||.|+..+
T Consensus 3 v~CP~C~k~~ 12 (57)
T PF03884_consen 3 VKCPICGKPV 12 (57)
T ss_dssp EE-TTT--EE
T ss_pred ccCCCCCCee
Confidence 4699998654
No 406
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=25.06 E-value=1.3e+02 Score=16.35 Aligned_cols=35 Identities=31% Similarity=0.420 Sum_probs=21.3
Q ss_pred ecCCCEEE--EEEcCCCCeeEEEeCCCCcEEEecCCCeE
Q psy9669 131 LRVGDLIY--VHKKRDDGWYKGTLQRTGRTGLFPASFMK 167 (173)
Q Consensus 131 ~~~g~~v~--v~~~~~~~w~~~~~~~~g~~G~~P~~~v~ 167 (173)
++.|+++. +.+-...|. ..... .+..|++|.+.+.
T Consensus 2 ~~~G~iv~g~V~~v~~~g~-~V~l~-~~~~g~ip~~~l~ 38 (74)
T PF00575_consen 2 LKEGDIVEGKVTSVEDFGV-FVDLG-NGIEGFIPISELS 38 (74)
T ss_dssp SSTTSEEEEEEEEEETTEE-EEEES-TSSEEEEEGGGSS
T ss_pred CCCCCEEEEEEEEEECCEE-EEEEC-CcEEEEEEeehhc
Confidence 46777775 333334444 44444 5889999987654
No 407
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=24.24 E-value=44 Score=14.98 Aligned_cols=9 Identities=33% Similarity=0.948 Sum_probs=6.5
Q ss_pred ccccccccc
Q psy9669 11 ECSVCLDRL 19 (173)
Q Consensus 11 ~C~iC~~~~ 19 (173)
.|.+|....
T Consensus 2 ~C~~C~~~~ 10 (30)
T PF03107_consen 2 WCDVCRRKI 10 (30)
T ss_pred CCCCCCCCc
Confidence 577887766
No 408
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=24.15 E-value=85 Score=22.58 Aligned_cols=19 Identities=21% Similarity=0.551 Sum_probs=13.4
Q ss_pred ccCCCCCCC-CCceeeccCC
Q psy9669 46 ELRCPECPT-FVPEYIAIYP 64 (173)
Q Consensus 46 ~~~CP~Cr~-~i~~~~~~~~ 64 (173)
..+||.|.. .++..++.|.
T Consensus 146 ~p~C~~Cg~~~lrP~VV~fG 165 (250)
T COG0846 146 IPRCPKCGGPVLRPDVVWFG 165 (250)
T ss_pred CCcCccCCCccccCCEEEeC
Confidence 367999998 6666665553
No 409
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=24.10 E-value=68 Score=20.21 Aligned_cols=8 Identities=38% Similarity=1.281 Sum_probs=6.1
Q ss_pred cCCCCCCC
Q psy9669 47 LRCPECPT 54 (173)
Q Consensus 47 ~~CP~Cr~ 54 (173)
..||.|..
T Consensus 93 ~~CP~Cgs 100 (124)
T PRK00762 93 IECPVCGN 100 (124)
T ss_pred CcCcCCCC
Confidence 46999973
No 410
>KOG3580|consensus
Probab=24.00 E-value=1.1e+02 Score=25.32 Aligned_cols=48 Identities=13% Similarity=0.225 Sum_probs=33.7
Q ss_pred ecccCCCCCCcceeecCCCEEEEEEcCC----CCeeEEEeCC---CCcEEEecCC
Q psy9669 117 CIVPYPPNSEYELELRVGDLIYVHKKRD----DGWYKGTLQR---TGRTGLFPAS 164 (173)
Q Consensus 117 ~~~~~~~~~~~el~~~~g~~v~v~~~~~----~~w~~~~~~~---~g~~G~~P~~ 164 (173)
..+.+....+..|.|.+|++..+..... +.|+..+.+. .-..|.+|..
T Consensus 509 tHFE~Eke~P~gL~FtrGeVFrvvDTLy~GklG~WLAvRiG~dlrE~ErGiIPNk 563 (1027)
T KOG3580|consen 509 THFECEKETPQGLAFTRGEVFRVVDTLYDGKLGNWLAVRIGNDLRELERGIIPNK 563 (1027)
T ss_pred eeeeecCCCCccccccccceeeeeecccCCCCcceEEEeecccHHHHhcccCCCc
Confidence 3456677778899999999998876543 3477777652 1247888864
No 411
>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=23.96 E-value=31 Score=14.82 Aligned_cols=11 Identities=18% Similarity=0.579 Sum_probs=6.5
Q ss_pred CCccccccccc
Q psy9669 9 LLECSVCLDRL 19 (173)
Q Consensus 9 ~~~C~iC~~~~ 19 (173)
.+.|+.|...|
T Consensus 14 ~~~C~~C~k~F 24 (26)
T PF13465_consen 14 PYKCPYCGKSF 24 (26)
T ss_dssp SEEESSSSEEE
T ss_pred CCCCCCCcCee
Confidence 45666666544
No 412
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=23.73 E-value=41 Score=21.80 Aligned_cols=12 Identities=25% Similarity=0.772 Sum_probs=9.0
Q ss_pred cccCCCCCCCCC
Q psy9669 45 KELRCPECPTFV 56 (173)
Q Consensus 45 ~~~~CP~Cr~~i 56 (173)
+.+.||.|...+
T Consensus 122 ~~f~Cp~Cg~~l 133 (147)
T smart00531 122 GTFTCPRCGEEL 133 (147)
T ss_pred CcEECCCCCCEE
Confidence 338899998665
No 413
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=23.69 E-value=25 Score=16.45 Aligned_cols=9 Identities=33% Similarity=0.851 Sum_probs=6.7
Q ss_pred cCCCCCCCC
Q psy9669 47 LRCPECPTF 55 (173)
Q Consensus 47 ~~CP~Cr~~ 55 (173)
..||+|...
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 479999754
No 414
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=23.67 E-value=92 Score=16.78 Aligned_cols=31 Identities=23% Similarity=0.253 Sum_probs=19.0
Q ss_pred ecCCCEEEEEEcCCCCeeEEEeCCCCcEEEe
Q psy9669 131 LRVGDLIYVHKKRDDGWYKGTLQRTGRTGLF 161 (173)
Q Consensus 131 ~~~g~~v~v~~~~~~~w~~~~~~~~g~~G~~ 161 (173)
-+.|+|+.+.......-+.++...+|++++|
T Consensus 20 ~r~GeIveV~g~dG~PPY~VRw~D~Ghe~lv 50 (58)
T PF08940_consen 20 DRHGEIVEVRGPDGSPPYLVRWDDTGHESLV 50 (58)
T ss_dssp EEEEEEEE-S-SSS-S-EEEEETTTTEEEEE
T ss_pred CcEeEEEEEECCCCCCCEEEEecCCCcEEEE
Confidence 3567888777766555677887745888765
No 415
>PRK12496 hypothetical protein; Provisional
Probab=23.23 E-value=33 Score=22.80 Aligned_cols=24 Identities=25% Similarity=0.512 Sum_probs=14.2
Q ss_pred ChhhHHHHHhcccccCCCCCCCCC
Q psy9669 33 CKKCLEEIVSSHKELRCPECPTFV 56 (173)
Q Consensus 33 c~~Cl~~~~~~~~~~~CP~Cr~~i 56 (173)
|..|-..+-.....-.||.|..++
T Consensus 130 C~gC~~~~~~~~~~~~C~~CG~~~ 153 (164)
T PRK12496 130 CKGCKKKYPEDYPDDVCEICGSPV 153 (164)
T ss_pred CCCCCccccCCCCCCcCCCCCChh
Confidence 667765553321223599998765
No 416
>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=23.23 E-value=26 Score=14.90 Aligned_cols=10 Identities=30% Similarity=0.836 Sum_probs=6.2
Q ss_pred Cccccccccc
Q psy9669 10 LECSVCLDRL 19 (173)
Q Consensus 10 ~~C~iC~~~~ 19 (173)
++|.+|...|
T Consensus 2 ~~C~~C~~~F 11 (27)
T PF13912_consen 2 FECDECGKTF 11 (27)
T ss_dssp EEETTTTEEE
T ss_pred CCCCccCCcc
Confidence 3566666655
No 417
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=23.21 E-value=34 Score=28.71 Aligned_cols=23 Identities=26% Similarity=0.547 Sum_probs=12.7
Q ss_pred CCCChhhHHHHHhcccccCCCCCCCC
Q psy9669 30 HTFCKKCLEEIVSSHKELRCPECPTF 55 (173)
Q Consensus 30 h~fc~~Cl~~~~~~~~~~~CP~Cr~~ 55 (173)
...|..|-.. ......||.|...
T Consensus 462 ~L~CH~Cg~~---~~~p~~Cp~Cgs~ 484 (730)
T COG1198 462 QLRCHYCGYQ---EPIPQSCPECGSE 484 (730)
T ss_pred eeEeCCCCCC---CCCCCCCCCCCCC
Confidence 3445555433 1233579999865
No 418
>PF08201 BssC_TutF: BssC/TutF protein; InterPro: IPR013161 BssC short protein (57 amino acids) has been described as the gamma-subunit of benzylsuccinate synthase from Thauera aromatica strain K172 []. TutF has been identified and described as highly similar to BssC in T. aromatica strain T1 [].
Probab=23.13 E-value=1e+02 Score=16.36 Aligned_cols=40 Identities=25% Similarity=0.571 Sum_probs=24.0
Q ss_pred CCCCCCCCCceeeccCCCCCCCccccceecCCEEEEEEEcCCCEEEEE
Q psy9669 48 RCPECPTFVPEYIAIYPYKPQKDDELELRRGSVYTVTERCQDGWFKGT 95 (173)
Q Consensus 48 ~CP~Cr~~i~~~~~~~~~~~~~~~el~~~~g~~v~v~~~~~~~w~~~~ 95 (173)
+|-.|+.-++ .+...++....+||-|.-......-.|..+
T Consensus 3 tCkeC~~fF~--------vpE~adD~e~gKGDCV~e~~D~kgkywlsK 42 (57)
T PF08201_consen 3 TCKECRFFFP--------VPEDADDFEPGKGDCVREKEDEKGKYWLSK 42 (57)
T ss_pred chhhhHhhcC--------CCcccccccCCCCCeeeeeecCcCCeeecc
Confidence 4666764432 234455666678888865555455577665
No 419
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=23.13 E-value=22 Score=17.43 Aligned_cols=10 Identities=30% Similarity=0.527 Sum_probs=3.4
Q ss_pred Cccccccccc
Q psy9669 10 LECSVCLDRL 19 (173)
Q Consensus 10 ~~C~iC~~~~ 19 (173)
-.|.+|..+-
T Consensus 18 ~~C~~C~nls 27 (41)
T PF02132_consen 18 KFCSICGNLS 27 (41)
T ss_dssp EE-SSS--EE
T ss_pred CccCCCCCcC
Confidence 3455555544
No 420
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=23.08 E-value=1.6e+02 Score=20.60 Aligned_cols=42 Identities=14% Similarity=0.450 Sum_probs=21.7
Q ss_pred CCeeecCCCCCChhhHHHHHhcccccCCCCCCCCCceeeccCC
Q psy9669 22 SSKVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVPEYIAIYP 64 (173)
Q Consensus 22 ~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~~~~~~~~ 64 (173)
..++..|++.|=..=+.. ........||.|...+...+..+.
T Consensus 113 ~~~C~~C~~~~~~~~~~~-~~~~~~p~C~~Cgg~lrP~Vv~fg 154 (222)
T cd01413 113 TAYCVNCGSKYDLEEVKY-AKKHEVPRCPKCGGIIRPDVVLFG 154 (222)
T ss_pred cceECCCCCCcchhHHHH-hccCCCCcCCCCCCccCCCEEECC
Confidence 344455665543322211 111234679999877766555553
No 421
>KOG1701|consensus
Probab=22.96 E-value=54 Score=25.52 Aligned_cols=10 Identities=30% Similarity=0.737 Sum_probs=6.3
Q ss_pred cCCCCCCCCC
Q psy9669 47 LRCPECPTFV 56 (173)
Q Consensus 47 ~~CP~Cr~~i 56 (173)
.+|.+|..+|
T Consensus 395 PrCs~C~~PI 404 (468)
T KOG1701|consen 395 PRCSVCGNPI 404 (468)
T ss_pred cchhhccCCc
Confidence 4677776544
No 422
>PF14369 zf-RING_3: zinc-finger
Probab=22.90 E-value=48 Score=15.67 Aligned_cols=11 Identities=18% Similarity=0.558 Sum_probs=7.4
Q ss_pred CCccccccccc
Q psy9669 9 LLECSVCLDRL 19 (173)
Q Consensus 9 ~~~C~iC~~~~ 19 (173)
...||.|.+-|
T Consensus 21 ~~~CP~C~~gF 31 (35)
T PF14369_consen 21 DVACPRCHGGF 31 (35)
T ss_pred CcCCcCCCCcE
Confidence 33588888765
No 423
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.73 E-value=71 Score=19.11 Aligned_cols=35 Identities=17% Similarity=0.268 Sum_probs=24.5
Q ss_pred cCCccccccccccCC--CeeecCCCCCChhhHHHHHhc
Q psy9669 8 DLLECSVCLDRLDTS--SKVLPCQHTFCKKCLEEIVSS 43 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~--~~~~~Cgh~fc~~Cl~~~~~~ 43 (173)
....|.||....... -.+++ .-+.|.+|+.+-.+.
T Consensus 5 kewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~~ 41 (103)
T COG4847 5 KEWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKRK 41 (103)
T ss_pred ceeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHhc
Confidence 457899999876422 24445 678899999876653
No 424
>KOG2684|consensus
Probab=22.68 E-value=86 Score=24.30 Aligned_cols=39 Identities=18% Similarity=0.387 Sum_probs=26.8
Q ss_pred ccccccCCCeeecCCCCCChhhHHHHHhcccccCCCCCCC
Q psy9669 15 CLDRLDTSSKVLPCQHTFCKKCLEEIVSSHKELRCPECPT 54 (173)
Q Consensus 15 C~~~~~~~~~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~ 54 (173)
|+..| ....++.|++.+=.+=+..-+.......||-|..
T Consensus 197 ~HGSf-~t~sCt~C~~k~~~~~~~~~~~~~~vp~CP~C~~ 235 (412)
T KOG2684|consen 197 CHGSF-KTASCTKCGYKKPFEELREDIRNQEVPVCPDCEG 235 (412)
T ss_pred ecccc-ceeeecccccccChHHHHHHHhcCcCccCccccc
Confidence 45556 6777888888877775555455555678999953
No 425
>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=22.60 E-value=27 Score=17.68 Aligned_cols=6 Identities=67% Similarity=1.414 Sum_probs=4.4
Q ss_pred cCCCCC
Q psy9669 27 PCQHTF 32 (173)
Q Consensus 27 ~Cgh~f 32 (173)
.|||+|
T Consensus 32 ~Cg~tf 37 (47)
T PF04606_consen 32 ECGHTF 37 (47)
T ss_pred cCCCEE
Confidence 488876
No 426
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=22.42 E-value=42 Score=24.73 Aligned_cols=10 Identities=30% Similarity=0.694 Sum_probs=5.8
Q ss_pred Cccccccccc
Q psy9669 10 LECSVCLDRL 19 (173)
Q Consensus 10 ~~C~iC~~~~ 19 (173)
..||-|...+
T Consensus 28 ~~c~~c~~~~ 37 (292)
T PRK05654 28 TKCPSCGQVL 37 (292)
T ss_pred eECCCccchh
Confidence 3566666554
No 427
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=22.42 E-value=1.3e+02 Score=15.39 Aligned_cols=22 Identities=27% Similarity=0.693 Sum_probs=14.2
Q ss_pred ecCCCEEEEEEcCCCCeeEEEeC
Q psy9669 131 LRVGDLIYVHKKRDDGWYKGTLQ 153 (173)
Q Consensus 131 ~~~g~~v~v~~~~~~~w~~~~~~ 153 (173)
++.|+.+.+.- .++.|++++..
T Consensus 3 ~~~G~~~~a~~-~d~~wyra~I~ 24 (57)
T smart00333 3 FKVGDKVAARW-EDGEWYRARII 24 (57)
T ss_pred CCCCCEEEEEe-CCCCEEEEEEE
Confidence 46677766655 56667777654
No 428
>COG1773 Rubredoxin [Energy production and conversion]
Probab=22.13 E-value=44 Score=17.78 Aligned_cols=12 Identities=33% Similarity=0.509 Sum_probs=5.7
Q ss_pred hcccCCcccccc
Q psy9669 5 TLNDLLECSVCL 16 (173)
Q Consensus 5 ~~~~~~~C~iC~ 16 (173)
+|.++..||.|.
T Consensus 32 dlPd~w~CP~Cg 43 (55)
T COG1773 32 DLPDDWVCPECG 43 (55)
T ss_pred hCCCccCCCCCC
Confidence 344444555554
No 429
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=22.06 E-value=39 Score=24.61 Aligned_cols=31 Identities=19% Similarity=0.353 Sum_probs=17.7
Q ss_pred Ccccccccccc------CCCeeecCCCCCChhhHHHH
Q psy9669 10 LECSVCLDRLD------TSSKVLPCQHTFCKKCLEEI 40 (173)
Q Consensus 10 ~~C~iC~~~~~------~~~~~~~Cgh~fc~~Cl~~~ 40 (173)
..||-|...++ +-.++..|+|.+--+-.++.
T Consensus 29 ~KCp~c~~~~y~~eL~~n~~vcp~c~~h~ri~A~~Ri 65 (294)
T COG0777 29 TKCPSCGEMLYRKELESNLKVCPKCGHHMRISARERL 65 (294)
T ss_pred eECCCccceeeHHHHHhhhhcccccCcccccCHHHHH
Confidence 46888887664 22344456666665554443
No 430
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=21.89 E-value=23 Score=22.56 Aligned_cols=10 Identities=40% Similarity=0.952 Sum_probs=6.4
Q ss_pred ccccCCCCCC
Q psy9669 44 HKELRCPECP 53 (173)
Q Consensus 44 ~~~~~CP~Cr 53 (173)
++...||+|.
T Consensus 42 dG~v~CPvC~ 51 (131)
T COG1645 42 DGEVFCPVCG 51 (131)
T ss_pred CCeEECCCCC
Confidence 3455677775
No 431
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=21.88 E-value=35 Score=17.35 Aligned_cols=9 Identities=22% Similarity=0.748 Sum_probs=6.5
Q ss_pred ccCCCCCCC
Q psy9669 46 ELRCPECPT 54 (173)
Q Consensus 46 ~~~CP~Cr~ 54 (173)
...||.|..
T Consensus 20 ~~vC~~Cg~ 28 (52)
T smart00661 20 RFVCRKCGY 28 (52)
T ss_pred EEECCcCCC
Confidence 457999973
No 432
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=21.86 E-value=45 Score=24.47 Aligned_cols=10 Identities=30% Similarity=0.670 Sum_probs=5.4
Q ss_pred Cccccccccc
Q psy9669 10 LECSVCLDRL 19 (173)
Q Consensus 10 ~~C~iC~~~~ 19 (173)
..||-|...+
T Consensus 27 ~~c~~c~~~~ 36 (285)
T TIGR00515 27 TKCPKCGQVL 36 (285)
T ss_pred eECCCCcchh
Confidence 3566666544
No 433
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=21.77 E-value=28 Score=25.04 Aligned_cols=26 Identities=27% Similarity=0.746 Sum_probs=15.6
Q ss_pred CCCCChhhHHHHHh--cccccCCCCCCC
Q psy9669 29 QHTFCKKCLEEIVS--SHKELRCPECPT 54 (173)
Q Consensus 29 gh~fc~~Cl~~~~~--~~~~~~CP~Cr~ 54 (173)
.|.||..|=..... ......||.|..
T Consensus 98 ~~~fC~~CG~~~~~~~~~~~~~C~~c~~ 125 (256)
T PRK00241 98 SHRFCGYCGHPMHPSKTEWAMLCPHCRE 125 (256)
T ss_pred cCccccccCCCCeecCCceeEECCCCCC
Confidence 47788887654432 223356888863
No 434
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=21.13 E-value=43 Score=21.41 Aligned_cols=28 Identities=29% Similarity=0.492 Sum_probs=16.5
Q ss_pred eeecCCCCCChhhHHHHHhcccccCCCCCCCCCc
Q psy9669 24 KVLPCQHTFCKKCLEEIVSSHKELRCPECPTFVP 57 (173)
Q Consensus 24 ~~~~Cgh~fc~~Cl~~~~~~~~~~~CP~Cr~~i~ 57 (173)
+++.||+.|=-.=.. .+ ..||.|....-
T Consensus 3 ~Ct~Cg~~f~dgs~e-il-----~GCP~CGg~kF 30 (131)
T PF09845_consen 3 QCTKCGRVFEDGSKE-IL-----SGCPECGGNKF 30 (131)
T ss_pred ccCcCCCCcCCCcHH-HH-----ccCcccCCcce
Confidence 456788887543322 11 24999986543
No 435
>PRK04179 rpl37e 50S ribosomal protein L37e; Reviewed
Probab=21.08 E-value=31 Score=18.82 Aligned_cols=24 Identities=25% Similarity=0.634 Sum_probs=18.4
Q ss_pred CCCCChhhHHHHHhcccccCCCCCC
Q psy9669 29 QHTFCKKCLEEIVSSHKELRCPECP 53 (173)
Q Consensus 29 gh~fc~~Cl~~~~~~~~~~~CP~Cr 53 (173)
.|+.|..|=...++.+. ..|..|.
T Consensus 16 tHt~CrRCG~~syh~qK-~~CasCG 39 (62)
T PRK04179 16 THIRCRRCGRHSYNVRK-KYCAACG 39 (62)
T ss_pred ccchhcccCcccccccc-cchhhcC
Confidence 58889998877777543 5799986
No 436
>KOG2186|consensus
Probab=20.98 E-value=49 Score=23.74 Aligned_cols=11 Identities=27% Similarity=0.942 Sum_probs=8.7
Q ss_pred CCccccccccc
Q psy9669 9 LLECSVCLDRL 19 (173)
Q Consensus 9 ~~~C~iC~~~~ 19 (173)
.++|-+|.+..
T Consensus 3 ~FtCnvCgEsv 13 (276)
T KOG2186|consen 3 FFTCNVCGESV 13 (276)
T ss_pred EEehhhhhhhc
Confidence 36889999876
No 437
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=20.63 E-value=61 Score=18.67 Aligned_cols=32 Identities=22% Similarity=0.523 Sum_probs=19.3
Q ss_pred cCCccccccccccCCC--eeecCCCCCChhhHHH
Q psy9669 8 DLLECSVCLDRLDTSS--KVLPCQHTFCKKCLEE 39 (173)
Q Consensus 8 ~~~~C~iC~~~~~~~~--~~~~Cgh~fc~~Cl~~ 39 (173)
..+.|.+|........ ..-.|...||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 4578999997531111 1124777788877654
No 438
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=20.53 E-value=47 Score=16.02 Aligned_cols=8 Identities=25% Similarity=0.501 Sum_probs=5.2
Q ss_pred Cccccccc
Q psy9669 10 LECSVCLD 17 (173)
Q Consensus 10 ~~C~iC~~ 17 (173)
.-||+|-.
T Consensus 4 ~pCP~CGG 11 (37)
T smart00778 4 GPCPNCGG 11 (37)
T ss_pred cCCCCCCC
Confidence 45777764
No 439
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=20.37 E-value=41 Score=16.81 Aligned_cols=11 Identities=36% Similarity=0.908 Sum_probs=8.3
Q ss_pred ccCCCCCCCCC
Q psy9669 46 ELRCPECPTFV 56 (173)
Q Consensus 46 ~~~CP~Cr~~i 56 (173)
..+||.|...+
T Consensus 21 ~~~Cp~CG~~~ 31 (46)
T PRK00398 21 GVRCPYCGYRI 31 (46)
T ss_pred ceECCCCCCeE
Confidence 46899998654
No 440
>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=20.34 E-value=49 Score=17.52 Aligned_cols=10 Identities=30% Similarity=1.128 Sum_probs=7.7
Q ss_pred cCCCCCCCCC
Q psy9669 47 LRCPECPTFV 56 (173)
Q Consensus 47 ~~CP~Cr~~i 56 (173)
+.||.|...+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 5799998655
No 441
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=20.24 E-value=1.4e+02 Score=16.33 Aligned_cols=22 Identities=23% Similarity=0.566 Sum_probs=12.0
Q ss_pred eecCCEEEEEEEcCC---CEEEEEe
Q psy9669 75 LRRGSVYTVTERCQD---GWFKGTS 96 (173)
Q Consensus 75 ~~~g~~v~v~~~~~~---~w~~~~~ 96 (173)
|++|+.+.|....++ .|+.+..
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V 25 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATV 25 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEE
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEE
Confidence 467888888776432 4777664
No 442
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=20.16 E-value=82 Score=18.94 Aligned_cols=26 Identities=19% Similarity=0.453 Sum_probs=14.0
Q ss_pred CChhhHHHHHhc--ccccCCCCCCCCCc
Q psy9669 32 FCKKCLEEIVSS--HKELRCPECPTFVP 57 (173)
Q Consensus 32 fc~~Cl~~~~~~--~~~~~CP~Cr~~i~ 57 (173)
.|.-|....... .....||.|++++.
T Consensus 64 iCGvC~~~LT~~EY~~~~~Cp~C~spFN 91 (105)
T COG4357 64 ICGVCRKLLTRAEYGMCGSCPYCQSPFN 91 (105)
T ss_pred EhhhhhhhhhHHHHhhcCCCCCcCCCCC
Confidence 355565444331 12246899987663
No 443
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=20.12 E-value=57 Score=17.86 Aligned_cols=9 Identities=33% Similarity=0.785 Sum_probs=6.5
Q ss_pred cCCCCCCCC
Q psy9669 47 LRCPECPTF 55 (173)
Q Consensus 47 ~~CP~Cr~~ 55 (173)
..||.|...
T Consensus 19 e~CP~Cgs~ 27 (64)
T COG2093 19 EICPVCGST 27 (64)
T ss_pred ccCCCCCCc
Confidence 359999754
No 444
>KOG2130|consensus
Probab=20.05 E-value=2.1e+02 Score=21.58 Aligned_cols=24 Identities=25% Similarity=0.599 Sum_probs=18.4
Q ss_pred CcceeecCCCEEEEEEcCCCCeeEEEeC
Q psy9669 126 EYELELRVGDLIYVHKKRDDGWYKGTLQ 153 (173)
Q Consensus 126 ~~el~~~~g~~v~v~~~~~~~w~~~~~~ 153 (173)
+.|....+||.+.| .+|||.+...
T Consensus 262 PIEc~q~pGEt~fV----P~GWWHvVlN 285 (407)
T KOG2130|consen 262 PIECLQKPGETMFV----PSGWWHVVLN 285 (407)
T ss_pred CceeeecCCceEEe----cCCeEEEEec
Confidence 34777888988844 6799999876
Done!