Query psy7814
Match_columns 460
No_of_seqs 316 out of 2486
Neff 8.6
Searched_HMMs 46136
Date Fri Aug 16 19:29:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7814.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7814hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03778 MATH_TRAF2 Tumor Necro 100.0 1E-43 2.2E-48 309.1 17.8 156 296-456 4-164 (164)
2 cd03777 MATH_TRAF3 Tumor Necro 100.0 1.1E-40 2.4E-45 299.2 20.8 176 277-457 5-185 (186)
3 cd03779 MATH_TRAF1 Tumor Necro 100.0 4.5E-38 9.7E-43 271.3 15.8 141 311-456 1-147 (147)
4 cd03780 MATH_TRAF5 Tumor Necro 100.0 5.2E-37 1.1E-41 266.1 15.7 141 311-456 1-148 (148)
5 KOG0297|consensus 100.0 5.8E-37 1.3E-41 306.8 15.1 363 10-420 15-388 (391)
6 cd03783 MATH_Meprin_Alpha Mepr 100.0 5.3E-36 1.2E-40 259.1 14.9 140 312-456 3-167 (167)
7 cd03782 MATH_Meprin_Beta Mepri 100.0 1.7E-35 3.7E-40 254.2 15.1 140 312-456 3-167 (167)
8 cd03771 MATH_Meprin Meprin fam 100.0 1.4E-33 3E-38 247.7 14.9 141 311-456 2-167 (167)
9 cd03776 MATH_TRAF6 Tumor Necro 100.0 2.7E-32 5.9E-37 238.8 16.4 142 311-456 1-147 (147)
10 cd03781 MATH_TRAF4 Tumor Necro 100.0 2.5E-32 5.3E-37 240.4 16.2 143 311-456 1-154 (154)
11 cd00270 MATH_TRAF_C Tumor Necr 100.0 1.3E-30 2.8E-35 229.1 17.1 142 311-456 1-149 (149)
12 cd03773 MATH_TRIM37 Tripartite 99.9 2.1E-22 4.6E-27 173.1 12.1 120 311-456 5-130 (132)
13 cd03774 MATH_SPOP Speckle-type 99.9 1.4E-21 3E-26 169.5 13.1 131 310-459 4-138 (139)
14 cd03775 MATH_Ubp21p Ubiquitin- 99.9 2.6E-21 5.7E-26 166.6 11.0 124 312-455 2-133 (134)
15 cd03772 MATH_HAUSP Herpesvirus 99.8 4.2E-20 9E-25 159.8 13.2 125 310-457 2-132 (137)
16 cd00121 MATH MATH (meprin and 99.8 8.2E-19 1.8E-23 148.5 13.0 124 311-456 1-126 (126)
17 PF00917 MATH: MATH domain; I 99.7 8E-18 1.7E-22 141.5 10.6 118 317-457 1-119 (119)
18 smart00061 MATH meprin and TRA 99.5 2.2E-14 4.8E-19 115.3 7.9 94 313-430 2-95 (95)
19 smart00504 Ubox Modified RING 99.1 1.8E-10 4E-15 85.3 5.5 62 16-79 1-62 (63)
20 PF15227 zf-C3HC4_4: zinc fing 99.1 1.1E-10 2.4E-15 78.3 3.2 40 19-58 1-42 (42)
21 PLN03208 E3 ubiquitin-protein 99.0 5.6E-10 1.2E-14 99.0 4.8 61 9-69 11-85 (193)
22 PF04564 U-box: U-box domain; 98.9 8.3E-10 1.8E-14 84.1 4.3 67 13-80 1-67 (73)
23 PF02176 zf-TRAF: TRAF-type zi 98.9 3.1E-10 6.6E-15 83.2 1.8 60 101-182 1-60 (60)
24 COG5077 Ubiquitin carboxyl-ter 98.9 3.2E-09 7E-14 109.5 8.0 128 312-459 40-172 (1089)
25 PF13923 zf-C3HC4_2: Zinc fing 98.8 4.2E-09 9.1E-14 69.8 2.9 38 19-58 1-39 (39)
26 KOG0823|consensus 98.7 4.8E-09 1E-13 94.7 2.9 57 13-69 44-101 (230)
27 TIGR00599 rad18 DNA repair pro 98.7 9.2E-09 2E-13 102.3 5.0 66 10-78 20-85 (397)
28 KOG3002|consensus 98.7 1.6E-08 3.6E-13 97.1 5.2 93 13-113 45-140 (299)
29 COG5432 RAD18 RING-finger-cont 98.7 1.4E-08 3.1E-13 93.6 3.8 63 13-78 22-84 (391)
30 KOG0320|consensus 98.7 1.3E-08 2.8E-13 87.9 3.2 56 12-69 127-184 (187)
31 PF00097 zf-C3HC4: Zinc finger 98.6 2.2E-08 4.7E-13 67.2 3.2 40 19-58 1-41 (41)
32 PF13920 zf-C3HC4_3: Zinc fing 98.6 2.2E-08 4.8E-13 70.3 3.1 47 15-63 1-48 (50)
33 KOG0287|consensus 98.6 9.9E-09 2.2E-13 96.6 1.4 64 12-78 19-82 (442)
34 PF14835 zf-RING_6: zf-RING of 98.6 8.6E-09 1.9E-13 73.8 -0.2 57 13-73 4-61 (65)
35 KOG0317|consensus 98.6 3.4E-08 7.4E-13 91.9 3.5 54 12-67 235-288 (293)
36 PF13639 zf-RING_2: Ring finge 98.5 6.4E-08 1.4E-12 65.9 2.4 40 18-59 2-44 (44)
37 PF13445 zf-RING_UBOX: RING-ty 98.5 9.3E-08 2E-12 64.2 2.4 37 19-56 1-43 (43)
38 PHA02929 N1R/p28-like protein; 98.4 1.8E-07 3.8E-12 87.0 4.0 50 13-64 171-228 (238)
39 KOG0311|consensus 98.4 5.3E-08 1.1E-12 92.8 -1.2 72 9-81 36-109 (381)
40 PLN03086 PRLI-interacting fact 98.3 6.1E-07 1.3E-11 92.9 3.8 103 79-188 405-539 (567)
41 TIGR00570 cdk7 CDK-activating 98.3 1.1E-06 2.4E-11 84.1 5.2 63 15-78 2-73 (309)
42 cd00162 RING RING-finger (Real 98.3 9.1E-07 2E-11 60.0 3.4 43 18-61 1-44 (45)
43 PF14634 zf-RING_5: zinc-RING 98.2 7.9E-07 1.7E-11 60.5 2.8 41 18-60 1-44 (44)
44 smart00184 RING Ring finger. E 98.1 1.9E-06 4E-11 56.4 3.1 39 19-58 1-39 (39)
45 PHA02926 zinc finger-like prot 98.1 1.7E-06 3.7E-11 77.8 3.4 51 13-63 167-230 (242)
46 KOG2164|consensus 98.1 2.2E-06 4.7E-11 86.0 2.9 55 16-70 186-243 (513)
47 COG5574 PEX10 RING-finger-cont 98.0 2.8E-06 6.2E-11 78.3 2.2 52 14-66 213-265 (271)
48 KOG0978|consensus 97.9 3.6E-06 7.8E-11 88.6 1.5 56 13-69 640-695 (698)
49 KOG2177|consensus 97.7 1.2E-05 2.6E-10 78.9 1.4 49 10-60 7-55 (386)
50 KOG1987|consensus 97.7 0.00021 4.5E-09 70.0 9.3 119 313-457 6-125 (297)
51 KOG2879|consensus 97.6 4.2E-05 9.1E-10 70.8 3.4 53 11-63 234-287 (298)
52 PF11789 zf-Nse: Zinc-finger o 97.6 3.1E-05 6.8E-10 55.5 1.6 45 14-58 9-54 (57)
53 PF12678 zf-rbx1: RING-H2 zinc 97.6 5.6E-05 1.2E-09 57.4 2.8 39 19-59 22-73 (73)
54 COG5222 Uncharacterized conser 97.5 9.2E-05 2E-09 69.1 4.3 64 15-79 273-338 (427)
55 KOG2660|consensus 97.5 4.2E-05 9.2E-10 72.9 1.9 70 9-80 8-82 (331)
56 KOG4159|consensus 97.5 5.3E-05 1.1E-09 75.8 2.5 55 8-64 76-130 (398)
57 COG5152 Uncharacterized conser 97.5 7.4E-05 1.6E-09 65.7 3.0 61 15-78 195-255 (259)
58 PF03145 Sina: Seven in absent 97.1 0.00021 4.6E-09 65.6 1.4 45 69-113 2-48 (198)
59 PF02176 zf-TRAF: TRAF-type zi 97.0 0.00014 3.1E-09 52.9 -0.1 52 80-149 8-60 (60)
60 PLN03086 PRLI-interacting fact 97.0 0.00094 2E-08 69.7 5.1 97 54-186 455-563 (567)
61 KOG0824|consensus 96.9 0.00046 1E-08 65.0 2.3 49 16-65 7-55 (324)
62 PF12861 zf-Apc11: Anaphase-pr 96.9 0.00092 2E-08 51.5 3.1 48 16-63 21-82 (85)
63 KOG0802|consensus 96.8 0.00052 1.1E-08 72.8 2.0 48 15-64 290-342 (543)
64 KOG1813|consensus 96.8 0.00056 1.2E-08 64.3 1.8 46 17-64 242-287 (313)
65 COG5243 HRD1 HRD ubiquitin lig 96.7 0.0011 2.3E-08 64.1 3.0 50 13-64 284-346 (491)
66 KOG4172|consensus 96.7 0.00044 9.5E-09 47.7 0.2 46 17-63 8-54 (62)
67 PF07800 DUF1644: Protein of u 96.5 0.0024 5.2E-08 54.8 3.1 90 15-106 1-133 (162)
68 PF14447 Prok-RING_4: Prokaryo 96.5 0.0016 3.4E-08 45.5 1.6 48 15-66 6-53 (55)
69 KOG4628|consensus 96.4 0.0031 6.7E-08 61.7 3.8 47 17-64 230-279 (348)
70 COG5540 RING-finger-containing 96.2 0.003 6.6E-08 59.5 2.7 47 17-64 324-373 (374)
71 KOG3039|consensus 96.1 0.004 8.7E-08 56.9 2.6 51 15-67 220-274 (303)
72 KOG1002|consensus 95.8 0.0043 9.3E-08 62.6 1.7 51 15-65 535-588 (791)
73 KOG1785|consensus 95.5 0.0053 1.2E-07 59.9 1.0 53 18-70 371-424 (563)
74 KOG4265|consensus 95.4 0.0096 2.1E-07 57.9 2.4 49 14-64 288-337 (349)
75 KOG0804|consensus 95.3 0.04 8.7E-07 55.0 6.3 49 11-63 170-222 (493)
76 KOG1863|consensus 95.2 0.026 5.6E-07 64.7 5.5 124 312-458 28-152 (1093)
77 KOG1734|consensus 95.1 0.0061 1.3E-07 56.5 0.2 51 15-65 223-283 (328)
78 PF14570 zf-RING_4: RING/Ubox 95.0 0.018 3.9E-07 39.4 2.2 43 19-62 1-47 (48)
79 KOG4692|consensus 95.0 0.013 2.8E-07 56.4 1.9 48 14-63 420-467 (489)
80 KOG1039|consensus 94.9 0.015 3.3E-07 57.2 2.3 50 14-63 159-221 (344)
81 KOG4367|consensus 94.7 0.017 3.7E-07 57.0 2.1 38 13-50 1-38 (699)
82 PF04641 Rtf2: Rtf2 RING-finge 94.5 0.031 6.8E-07 53.5 3.4 59 12-73 109-171 (260)
83 smart00744 RINGv The RING-vari 94.3 0.046 1E-06 37.8 2.9 42 18-59 1-49 (49)
84 KOG1814|consensus 94.2 0.035 7.5E-07 54.9 2.9 91 15-106 183-297 (445)
85 KOG1645|consensus 94.2 0.027 5.9E-07 55.5 2.1 57 16-72 4-65 (463)
86 KOG4275|consensus 94.2 0.0078 1.7E-07 56.5 -1.5 44 15-64 299-343 (350)
87 KOG3800|consensus 93.9 0.051 1.1E-06 51.3 3.3 60 18-78 2-70 (300)
88 PF05290 Baculo_IE-1: Baculovi 93.8 0.051 1.1E-06 45.2 2.7 51 15-65 79-134 (140)
89 COG5194 APC11 Component of SCF 93.5 0.064 1.4E-06 40.3 2.5 30 33-64 53-82 (88)
90 KOG1001|consensus 93.1 0.025 5.3E-07 61.1 -0.3 49 17-66 455-503 (674)
91 KOG0825|consensus 93.0 0.028 6.1E-07 59.5 -0.0 47 16-64 123-172 (1134)
92 KOG0826|consensus 92.7 0.065 1.4E-06 51.4 2.0 51 12-64 296-347 (357)
93 PF11793 FANCL_C: FANCL C-term 92.7 0.044 9.6E-07 41.1 0.7 49 16-64 2-67 (70)
94 COG5219 Uncharacterized conser 92.1 0.074 1.6E-06 57.6 1.7 52 12-63 1465-1523(1525)
95 COG5175 MOT2 Transcriptional r 91.7 0.12 2.6E-06 49.7 2.5 53 12-66 11-67 (480)
96 KOG1812|consensus 91.3 0.12 2.7E-06 52.2 2.3 86 15-100 145-252 (384)
97 KOG3161|consensus 90.7 0.12 2.6E-06 53.8 1.5 73 10-84 5-84 (861)
98 COG5236 Uncharacterized conser 90.5 0.24 5.3E-06 47.8 3.2 95 9-103 54-174 (493)
99 KOG1571|consensus 90.3 0.17 3.6E-06 49.5 2.0 48 12-64 301-348 (355)
100 KOG2817|consensus 89.8 0.29 6.3E-06 48.4 3.3 52 12-63 330-385 (394)
101 KOG1941|consensus 89.5 0.14 3.1E-06 50.1 0.9 45 16-60 365-413 (518)
102 KOG4185|consensus 88.8 0.26 5.6E-06 48.2 2.2 45 17-62 4-54 (296)
103 KOG4739|consensus 88.3 0.16 3.4E-06 47.1 0.3 46 17-66 4-51 (233)
104 PF08746 zf-RING-like: RING-li 86.2 0.66 1.4E-05 31.1 2.3 40 19-58 1-43 (43)
105 PF02891 zf-MIZ: MIZ/SP-RING z 86.1 0.61 1.3E-05 32.4 2.2 45 16-61 2-50 (50)
106 KOG3579|consensus 85.9 0.9 1.9E-05 42.8 3.8 67 13-80 265-339 (352)
107 KOG1493|consensus 85.7 0.25 5.5E-06 36.9 0.1 46 18-63 22-81 (84)
108 KOG0827|consensus 85.7 0.6 1.3E-05 45.9 2.6 49 16-64 4-57 (465)
109 COG5220 TFB3 Cdk activating ki 85.6 0.24 5.2E-06 45.4 -0.1 61 16-77 10-82 (314)
110 KOG0828|consensus 85.2 0.44 9.5E-06 48.3 1.5 50 13-63 568-634 (636)
111 KOG3039|consensus 82.6 1 2.2E-05 41.6 2.6 40 11-50 38-77 (303)
112 KOG2930|consensus 80.4 1.2 2.5E-05 35.5 1.9 28 33-62 80-107 (114)
113 KOG2932|consensus 80.4 0.53 1.2E-05 44.9 0.0 75 17-103 91-168 (389)
114 PF14569 zf-UDP: Zinc-binding 79.7 2.2 4.8E-05 32.1 3.1 48 16-64 9-63 (80)
115 KOG3113|consensus 79.0 1.4 3.1E-05 40.9 2.3 64 14-81 109-176 (293)
116 PF07191 zinc-ribbons_6: zinc- 78.4 0.21 4.5E-06 37.0 -2.7 42 16-64 1-42 (70)
117 KOG2114|consensus 76.0 1.4 3.1E-05 47.8 1.6 43 15-62 839-882 (933)
118 KOG0298|consensus 75.9 0.9 2E-05 51.5 0.1 46 14-61 1151-1197(1394)
119 KOG4362|consensus 74.0 0.85 1.8E-05 48.7 -0.6 52 13-64 18-70 (684)
120 COG3813 Uncharacterized protei 74.0 2.6 5.6E-05 31.1 2.0 45 29-77 22-66 (84)
121 PF10367 Vps39_2: Vacuolar sor 71.7 1.5 3.2E-05 35.5 0.4 33 12-44 74-108 (109)
122 COG5109 Uncharacterized conser 68.8 3.7 8E-05 39.5 2.4 50 12-61 332-385 (396)
123 PHA02825 LAP/PHD finger-like p 68.1 6.6 0.00014 34.1 3.6 49 15-64 7-60 (162)
124 PHA02862 5L protein; Provision 67.4 4.4 9.4E-05 34.5 2.3 49 18-66 4-56 (156)
125 PF03854 zf-P11: P-11 zinc fin 67.0 2 4.3E-05 29.1 0.2 44 17-64 3-47 (50)
126 PF05883 Baculo_RING: Baculovi 66.0 2.9 6.2E-05 35.3 1.0 36 16-51 26-70 (134)
127 KOG0297|consensus 65.6 3.5 7.5E-05 42.0 1.7 68 80-176 113-181 (391)
128 PF03145 Sina: Seven in absent 64.2 3.9 8.4E-05 37.3 1.6 28 158-186 13-40 (198)
129 KOG2231|consensus 63.6 8.7 0.00019 41.3 4.2 46 18-63 2-52 (669)
130 PLN02638 cellulose synthase A 61.9 9.1 0.0002 43.4 4.1 46 17-63 18-70 (1079)
131 PHA03096 p28-like protein; Pro 60.5 5.3 0.00011 38.6 1.8 45 17-61 179-232 (284)
132 PF13913 zf-C2HC_2: zinc-finge 58.4 7.7 0.00017 22.5 1.6 22 159-185 2-23 (25)
133 PF06906 DUF1272: Protein of u 57.1 9.7 0.00021 26.9 2.1 45 18-66 7-55 (57)
134 PLN02195 cellulose synthase A 55.9 9.8 0.00021 42.7 3.1 47 17-64 7-60 (977)
135 PF10426 zf-RAG1: Recombinatio 55.4 3 6.5E-05 25.4 -0.5 25 80-104 1-25 (30)
136 KOG1940|consensus 55.3 10 0.00023 36.3 2.8 42 17-60 159-204 (276)
137 PLN02189 cellulose synthase 55.2 8.4 0.00018 43.5 2.5 46 17-63 35-87 (1040)
138 COG1382 GimC Prefoldin, chaper 55.1 58 0.0012 27.1 6.7 42 263-304 69-110 (119)
139 PF05605 zf-Di19: Drought indu 54.7 15 0.00032 25.7 2.9 43 136-184 7-50 (54)
140 PLN02436 cellulose synthase A 54.7 8.7 0.00019 43.5 2.5 46 17-63 37-89 (1094)
141 PLN02915 cellulose synthase A 54.5 13 0.00029 42.0 3.9 47 16-63 15-68 (1044)
142 KOG4718|consensus 54.4 7 0.00015 35.5 1.4 44 16-61 181-225 (235)
143 KOG3970|consensus 54.1 17 0.00038 33.3 3.9 63 17-79 51-123 (299)
144 PF05377 FlaC_arch: Flagella a 52.4 35 0.00075 24.2 4.3 31 268-298 11-41 (55)
145 PF10571 UPF0547: Uncharacteri 51.9 8.2 0.00018 22.8 1.0 10 18-27 2-11 (26)
146 cd00350 rubredoxin_like Rubred 50.7 11 0.00025 23.4 1.6 8 54-61 19-26 (33)
147 PF10272 Tmpp129: Putative tra 50.4 11 0.00024 37.6 2.3 34 33-66 310-354 (358)
148 PRK04406 hypothetical protein; 49.9 77 0.0017 24.0 6.3 22 269-290 9-30 (75)
149 PF04102 SlyX: SlyX; InterPro 49.8 96 0.0021 22.9 6.7 34 266-299 6-39 (69)
150 KOG1100|consensus 49.3 11 0.00024 34.7 1.9 40 19-64 161-201 (207)
151 PF00170 bZIP_1: bZIP transcri 48.4 99 0.0021 22.3 6.6 34 265-298 27-60 (64)
152 PLN02400 cellulose synthase 47.9 10 0.00022 43.0 1.7 46 17-63 37-89 (1085)
153 PF15146 FANCAA: Fanconi anemi 47.9 3.2E+02 0.0069 27.8 12.5 86 265-356 7-104 (435)
154 KOG1815|consensus 46.0 13 0.00027 38.7 2.0 36 14-49 68-104 (444)
155 PF04216 FdhE: Protein involve 44.7 4.6 9.9E-05 39.3 -1.4 46 15-62 171-221 (290)
156 PF12906 RINGv: RING-variant d 43.6 16 0.00035 24.8 1.6 40 19-58 1-47 (47)
157 KOG2979|consensus 43.5 28 0.00061 32.8 3.6 76 16-91 176-257 (262)
158 KOG3002|consensus 43.5 26 0.00056 34.2 3.6 48 136-186 115-162 (299)
159 PF13894 zf-C2H2_4: C2H2-type 42.8 21 0.00045 19.5 1.8 21 161-185 2-22 (24)
160 PF05377 FlaC_arch: Flagella a 42.6 1.2E+02 0.0026 21.5 5.9 32 268-299 4-35 (55)
161 PRK02119 hypothetical protein; 41.8 1.1E+02 0.0024 23.0 6.0 33 267-299 12-44 (73)
162 smart00734 ZnF_Rad18 Rad18-lik 41.5 20 0.00044 21.0 1.6 22 160-186 2-23 (26)
163 PF05253 zf-U11-48K: U11-48K-l 41.5 19 0.0004 21.4 1.4 24 159-186 2-25 (27)
164 PF04102 SlyX: SlyX; InterPro 41.4 1.1E+02 0.0024 22.6 5.9 35 269-303 16-50 (69)
165 PF08209 Sgf11: Sgf11 (transcr 41.1 9 0.00019 24.0 0.0 24 81-106 4-27 (33)
166 PF09538 FYDLN_acid: Protein o 41.0 19 0.00042 29.4 1.9 14 52-65 26-39 (108)
167 PRK04325 hypothetical protein; 40.6 1.1E+02 0.0023 23.2 5.8 35 265-299 10-44 (74)
168 PF04606 Ogr_Delta: Ogr/Delta- 40.5 11 0.00024 25.6 0.4 41 54-97 1-41 (47)
169 PF07975 C1_4: TFIIH C1-like d 40.1 18 0.00039 25.2 1.4 39 19-59 2-50 (51)
170 smart00338 BRLZ basic region l 40.1 1.4E+02 0.003 21.5 6.3 34 265-298 27-60 (65)
171 KOG2462|consensus 39.8 53 0.0011 31.4 4.8 135 13-187 127-267 (279)
172 PRK00736 hypothetical protein; 39.2 1.6E+02 0.0034 21.8 6.6 34 266-299 7-40 (68)
173 KOG2462|consensus 39.1 33 0.00071 32.7 3.4 102 53-185 131-237 (279)
174 KOG4445|consensus 38.7 9 0.00019 36.7 -0.4 33 16-48 115-150 (368)
175 PRK04325 hypothetical protein; 38.3 1.6E+02 0.0035 22.1 6.5 29 269-297 7-35 (74)
176 PF11853 DUF3373: Protein of u 38.1 88 0.0019 32.7 6.5 51 272-323 32-82 (489)
177 PRK03564 formate dehydrogenase 37.9 18 0.0004 35.3 1.6 44 15-60 186-234 (309)
178 PRK00295 hypothetical protein; 37.6 1.7E+02 0.0036 21.7 6.6 34 266-299 7-40 (68)
179 KOG1812|consensus 37.0 16 0.00035 37.0 1.1 36 16-51 306-346 (384)
180 PRK09343 prefoldin subunit bet 36.6 1.5E+02 0.0033 24.6 6.7 43 263-305 70-112 (121)
181 cd00632 Prefoldin_beta Prefold 36.6 1.5E+02 0.0032 23.8 6.6 41 264-304 63-103 (105)
182 PRK04406 hypothetical protein; 36.5 1.4E+02 0.003 22.6 5.8 36 264-299 11-46 (75)
183 KOG2169|consensus 36.5 58 0.0013 35.5 5.3 70 10-79 300-372 (636)
184 KOG0289|consensus 36.1 28 0.0006 35.3 2.5 49 17-67 1-50 (506)
185 TIGR02338 gimC_beta prefoldin, 36.1 1.5E+02 0.0032 24.1 6.5 40 263-302 66-105 (110)
186 PF04977 DivIC: Septum formati 36.0 1.5E+02 0.0032 22.0 6.2 23 268-290 28-50 (80)
187 TIGR01562 FdhE formate dehydro 35.4 11 0.00024 36.9 -0.4 45 15-61 183-233 (305)
188 PF06156 DUF972: Protein of un 35.1 1.3E+02 0.0028 24.5 5.9 29 269-297 27-55 (107)
189 PF00096 zf-C2H2: Zinc finger, 34.4 31 0.00068 18.9 1.6 21 161-185 2-22 (23)
190 KOG3899|consensus 33.6 23 0.0005 33.8 1.5 33 34-66 325-368 (381)
191 PRK00295 hypothetical protein; 33.5 1.5E+02 0.0033 21.9 5.6 23 274-296 22-44 (68)
192 PRK00846 hypothetical protein; 33.4 1.7E+02 0.0036 22.4 5.8 19 270-288 12-30 (77)
193 PF12329 TMF_DNA_bd: TATA elem 33.1 2.1E+02 0.0045 21.5 6.3 36 264-299 33-68 (74)
194 smart00154 ZnF_AN1 AN1-like Zi 33.1 28 0.0006 22.7 1.4 22 19-40 1-24 (39)
195 PF14446 Prok-RING_1: Prokaryo 32.9 37 0.00081 23.9 2.0 30 16-45 5-38 (54)
196 PF11853 DUF3373: Protein of u 32.9 51 0.0011 34.4 3.9 97 271-369 25-130 (489)
197 PRK02793 phi X174 lysis protei 32.7 1.7E+02 0.0036 21.9 5.7 35 265-299 9-43 (72)
198 PRK00736 hypothetical protein; 32.3 1.4E+02 0.0031 22.0 5.3 28 271-298 19-46 (68)
199 PRK13169 DNA replication intia 32.2 1.6E+02 0.0034 24.2 5.9 9 345-353 82-90 (110)
200 PRK04023 DNA polymerase II lar 32.0 42 0.00091 37.9 3.3 65 15-83 625-697 (1121)
201 PF10779 XhlA: Haemolysin XhlA 31.8 1.5E+02 0.0032 22.0 5.3 30 269-298 18-47 (71)
202 cd00729 rubredoxin_SM Rubredox 31.5 34 0.00074 21.5 1.5 8 54-61 20-27 (34)
203 PF06844 DUF1244: Protein of u 30.9 29 0.00063 25.4 1.3 13 37-49 11-23 (68)
204 COG2900 SlyX Uncharacterized p 30.8 2.1E+02 0.0045 21.5 5.7 28 269-296 6-33 (72)
205 PF13909 zf-H2C2_5: C2H2-type 30.0 34 0.00075 19.1 1.3 20 161-185 2-21 (24)
206 PRK02119 hypothetical protein; 29.8 2.4E+02 0.0052 21.1 6.6 30 269-298 7-36 (73)
207 PF06698 DUF1192: Protein of u 29.8 2.2E+02 0.0047 20.5 5.8 29 266-294 23-51 (59)
208 PF01428 zf-AN1: AN1-like Zinc 29.2 27 0.00059 23.1 0.9 24 19-42 1-27 (43)
209 PF05531 NPV_P10: Nucleopolyhe 28.6 1.6E+02 0.0034 22.4 4.8 23 263-285 10-32 (75)
210 PF13248 zf-ribbon_3: zinc-rib 28.6 12 0.00025 22.0 -0.9 6 55-60 19-24 (26)
211 PRK13729 conjugal transfer pil 28.0 1.4E+02 0.0029 31.1 5.9 16 266-281 78-93 (475)
212 PF03119 DNA_ligase_ZBD: NAD-d 27.6 24 0.00053 21.1 0.4 10 55-64 2-11 (28)
213 KOG1428|consensus 27.0 38 0.00083 39.7 1.9 51 14-64 3484-3545(3738)
214 PF08317 Spc7: Spc7 kinetochor 26.9 1.2E+02 0.0027 29.9 5.4 20 179-198 146-165 (325)
215 PF15616 TerY-C: TerY-C metal 26.5 36 0.00077 28.8 1.3 45 12-64 73-117 (131)
216 KOG2068|consensus 26.2 43 0.00093 32.8 1.9 46 17-64 250-299 (327)
217 PF01920 Prefoldin_2: Prefoldi 26.1 2.7E+02 0.0059 21.8 6.5 40 262-301 60-99 (106)
218 KOG0825|consensus 25.9 55 0.0012 35.8 2.8 53 11-63 91-154 (1134)
219 PF04859 DUF641: Plant protein 25.9 2.8E+02 0.006 23.5 6.5 43 263-305 86-128 (131)
220 smart00064 FYVE Protein presen 25.5 52 0.0011 23.9 1.9 32 16-47 10-45 (68)
221 KOG0314|consensus 25.3 33 0.00072 35.2 1.0 47 11-60 214-263 (448)
222 PF04508 Pox_A_type_inc: Viral 25.2 95 0.002 17.8 2.4 15 282-296 5-19 (23)
223 PF10235 Cript: Microtubule-as 25.0 44 0.00095 26.3 1.4 35 18-63 46-80 (90)
224 PRK09678 DNA-binding transcrip 24.3 53 0.0011 24.7 1.7 46 54-102 3-48 (72)
225 PRK11088 rrmA 23S rRNA methylt 24.2 41 0.00089 32.2 1.5 23 16-38 2-27 (272)
226 PF01363 FYVE: FYVE zinc finge 24.2 29 0.00064 25.4 0.3 30 16-45 9-42 (69)
227 PLN02248 cellulose synthase-li 23.5 57 0.0012 37.4 2.5 31 32-64 148-178 (1135)
228 PF00412 LIM: LIM domain; Int 23.3 55 0.0012 22.7 1.7 31 15-45 25-56 (58)
229 TIGR03689 pup_AAA proteasome A 23.0 3.2E+02 0.0068 29.0 7.8 17 339-357 63-79 (512)
230 PF10805 DUF2730: Protein of u 22.7 2.3E+02 0.0049 23.0 5.3 15 268-282 46-60 (106)
231 KOG1701|consensus 22.7 26 0.00056 35.5 -0.3 44 17-64 361-406 (468)
232 PF11471 Sugarporin_N: Maltopo 22.6 1.8E+02 0.0039 21.0 4.1 26 269-294 30-55 (60)
233 PF10779 XhlA: Haemolysin XhlA 22.6 3.2E+02 0.007 20.1 6.3 23 269-291 4-26 (71)
234 COG3058 FdhE Uncharacterized p 22.6 75 0.0016 30.4 2.7 47 14-62 183-235 (308)
235 PRK00888 ftsB cell division pr 22.6 4.2E+02 0.009 21.4 7.0 26 266-291 36-61 (105)
236 COG1645 Uncharacterized Zn-fin 22.5 34 0.00073 28.9 0.4 12 17-28 29-40 (131)
237 PF10497 zf-4CXXC_R1: Zinc-fin 22.4 81 0.0018 25.6 2.6 45 17-61 8-70 (105)
238 TIGR02300 FYDLN_acid conserved 22.3 57 0.0012 27.4 1.7 14 52-65 26-39 (129)
239 KOG3268|consensus 22.2 61 0.0013 28.7 1.9 32 33-64 189-229 (234)
240 PF14353 CpXC: CpXC protein 22.2 80 0.0017 26.4 2.7 40 54-95 3-50 (128)
241 KOG0006|consensus 22.2 89 0.0019 30.4 3.1 31 15-46 220-253 (446)
242 KOG2042|consensus 21.7 1.2E+02 0.0027 34.3 4.5 67 12-80 866-933 (943)
243 smart00647 IBR In Between Ring 21.5 28 0.0006 24.8 -0.3 30 17-46 19-58 (64)
244 PF05502 Dynactin_p62: Dynacti 21.2 23 0.0005 37.1 -1.0 52 12-64 1-64 (483)
245 KOG3325|consensus 20.8 81 0.0018 27.3 2.3 26 361-386 51-76 (183)
246 COG4647 AcxC Acetone carboxyla 20.6 46 0.001 27.7 0.8 21 21-41 62-82 (165)
247 PF12773 DZR: Double zinc ribb 20.5 77 0.0017 21.4 1.8 10 54-63 31-40 (50)
248 PTZ00173 60S ribosomal protein 20.3 22 0.00047 32.6 -1.2 14 342-355 81-94 (213)
249 PF11932 DUF3450: Protein of u 20.2 3.1E+02 0.0068 25.8 6.6 28 269-296 61-88 (251)
250 PF10083 DUF2321: Uncharacteri 20.2 28 0.00061 30.2 -0.5 27 35-66 27-53 (158)
251 PF14205 Cys_rich_KTR: Cystein 20.1 46 0.001 23.4 0.6 14 15-28 3-16 (55)
252 PF10393 Matrilin_ccoil: Trime 20.1 3E+02 0.0065 18.8 5.3 24 268-291 20-43 (47)
253 CHL00037 petA cytochrome f 20.0 2.8E+02 0.0061 26.9 5.9 88 336-428 180-275 (320)
No 1
>cd03778 MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF2 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF2 associates with the receptors TNFR-1, TNFR-2, RANK (which mediates differentiation and maturation of osteoclasts) and CD40 (which is important for the proliferation and activation of B cells), among others. It regulates distinct pathways that lead to the activation of nuclear factor-kappaB and Jun NH2-terminal kinases. TRAF2 also indirectly associates with death receptors through its interaction with TRADD (TNFR-associated death domain protein). It is involved in regulating oxidative stress or ROS-induced cell death and in the preconditioning of cells by sublethal stress for protection from subsequent injury. TRAF2 contains a RING finger domain, five z
Probab=100.00 E-value=1e-43 Score=309.10 Aligned_cols=156 Identities=29% Similarity=0.541 Sum_probs=141.8
Q ss_pred HHHHHhhhhhccccCcEEEEEECChHHHHHHhhh-cCCeEeccCceeCCCccEEEEEEEeCCCC---CCeEEEEEEEecC
Q psy7814 296 QTEEIEDNVVLKLCNGVYFWKMYNFPAKLKEMKE-INRYFYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQG 371 (460)
Q Consensus 296 ~l~~~~~~~~~~~~~g~~~w~I~~fs~~~~~~~~-~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~---~~~lS~~l~l~~g 371 (460)
++++.+++++.+.++|+|+|+|.|||+++++++. ....++||+|||+++||+|+|++||||++ ++||||||+||+|
T Consensus 4 ~~~~~~~~l~~~~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~~~g~~LSly~~l~~G 83 (164)
T cd03778 4 DLEQKVLEXEASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKG 83 (164)
T ss_pred HHHHHhhhccccccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEecC
Confidence 3444455667889999999999999999998877 66789999999999999999999999975 7899999999999
Q ss_pred CCCCCCCCCCCceeEEEEEcCCCCCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccC-CCCcccccCCeEE
Q psy7814 372 ENDDILDWPFVGRIRFTALNTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLD-PGRGFLMEDDTFV 450 (460)
Q Consensus 372 ~~D~~l~Wp~~~~~~l~lldq~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~-~~~~~yl~dD~l~ 450 (460)
++|+.|+|||..++||+|+||++++|+..++.++++..+|+||.. ++|. +|||+.|+++++|.. ++ ||+||+|+
T Consensus 84 e~D~~L~WPf~~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~-~~n~-~~G~~~Fv~l~~l~~~~~---Yv~dDtlf 158 (164)
T cd03778 84 PNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVN-DMNI-ASGCPLFCPVSKXEAKNS---YVRDDAIF 158 (164)
T ss_pred CcCcccCCceeeEEEEEEECCCCCCcceeEEEcCcchHhcCCCCc-cccc-CcCcceEEEhhHccccCC---cccCCeEE
Confidence 999999999999999999999988899999999999999999987 7776 799999999999976 45 99999999
Q ss_pred EEEEEe
Q psy7814 451 IKTQVT 456 (460)
Q Consensus 451 i~~~v~ 456 (460)
|+|+|+
T Consensus 159 Ik~~Vd 164 (164)
T cd03778 159 IKAIVD 164 (164)
T ss_pred EEEEEC
Confidence 999884
No 2
>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al
Probab=100.00 E-value=1.1e-40 Score=299.16 Aligned_cols=176 Identities=27% Similarity=0.489 Sum_probs=148.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccCcEEEEEECChHHHHHHhhh-cCCeEeccCceeCCCccEEEEEEEeC
Q psy7814 277 EQSMLEQKIKVNNFELNLKQTEEIEDNVVLKLCNGVYFWKMYNFPAKLKEMKE-INRYFYSACFYSSCFGYRFCTRVNIS 355 (460)
Q Consensus 277 ~~~~~~l~~~~~~l~~~l~~l~~~~~~~~~~~~~g~~~w~I~~fs~~~~~~~~-~~~~~~S~~F~~~~~Gyk~~l~~yp~ 355 (460)
+.++.+++..+......+.+++..+++++..+++|+|+|+|+|||++++.+.. ....++|++||||++||+|+|++|||
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypn 84 (186)
T cd03777 5 ESQLSRHDQMLSVHDIRLADMDLRFQVLETASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLN 84 (186)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcC
Confidence 33444444445555555666666666677899999999999999999877655 34489999999999999999999999
Q ss_pred CCC---CCeEEEEEEEecCCCCCCCCCCCCceeEEEEEcCCC-CCeeeEEEecCCCCCCCCCCcccCCCccCCCccceee
Q psy7814 356 RED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTALNTSS-EFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIR 431 (460)
Q Consensus 356 G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~~l~lldq~~-~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~ 431 (460)
|.+ ++||||||+|++|+||+.|+|||+++++|+|+||++ ..++..++.++|....|+||.. +.|. +|||+.||+
T Consensus 85 G~g~~~~~~iSvyl~L~~ge~D~~L~WP~~~~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~-~~n~-~~G~~~Fi~ 162 (186)
T cd03777 85 GDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTG-EMNI-ASGCPVFVA 162 (186)
T ss_pred CCCCCCCCEEEEEEEEecCCcccccCCceeEEEEEEEEcCCCccccccceeccCCccccccCCcc-CCCC-CCCchheeE
Confidence 965 679999999999999999999999999999999974 4677888898888888999987 6664 799999999
Q ss_pred cccccCCCCcccccCCeEEEEEEEee
Q psy7814 432 VADVLDPGRGFLMEDDTFVIKTQVTE 457 (460)
Q Consensus 432 ~~~l~~~~~~~yl~dD~l~i~~~v~v 457 (460)
+++|++++ ||+||+|+|+|+|+.
T Consensus 163 ~~~Le~~~---ylkdD~l~Irv~v~~ 185 (186)
T cd03777 163 QTVLENGT---YIKDDTIFIKVIVDT 185 (186)
T ss_pred HHHhccCC---cEeCCEEEEEEEEec
Confidence 99999887 999999999999863
No 3
>cd03779 MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF1 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF1 expression is the most restricted among the TRAFs. It is found exclusively in activated lymphocytes, dendritic cells and certain epithelia. TRAF1 associates, directly or indirectly through heterodimerization with TRAF2, with the TNFR family receptors TNFR-2, CD30, RANK, CD40 and LMP1, among others. It also binds the intracellular proteins TRADD, TANK, TRIP, RIP1, RIP2 and FLIP. TRAF1 is unique among the TRAFs in that it lacks a RING domain, which is critical for the activation of nuclear factor-kappaB and Jun NH2-terminal kinase. Studies on TRAF1-deficient mice suggest that TRAF1 has a negative regulatory role in TNFR-mediat
Probab=100.00 E-value=4.5e-38 Score=271.27 Aligned_cols=141 Identities=30% Similarity=0.607 Sum_probs=126.5
Q ss_pred cEEEEEECChHHHHHHhhh-cCCeEeccCceeCCCccEEEEEEEeCCCC---CCeEEEEEEEecCCCCCCCCCCCCceeE
Q psy7814 311 GVYFWKMYNFPAKLKEMKE-INRYFYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIR 386 (460)
Q Consensus 311 g~~~w~I~~fs~~~~~~~~-~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~~ 386 (460)
|+|+|+|+||++++++|+. ...+++||+|||+++||+|+|++||||.+ ++||||||+|++|+||+.|+|||+++++
T Consensus 1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~t 80 (147)
T cd03779 1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVT 80 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceEEEEE
Confidence 7899999999999999887 56789999999999999999999999965 6899999999999999999999999999
Q ss_pred EEEEcCCCCCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCC--CCcccccCCeEEEEEEEe
Q psy7814 387 FTALNTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDP--GRGFLMEDDTFVIKTQVT 456 (460)
Q Consensus 387 l~lldq~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~--~~~~yl~dD~l~i~~~v~ 456 (460)
|+||||++..++..++.+.++...|+||.. ..|. +|||++||++++|++. + ||+||+|+|+|+|.
T Consensus 81 fsLlDq~~~~~~~~~~~~~~~~~~F~rP~~-~~n~-~~G~~~Fi~~~~Le~s~~~---ylkDD~~~Irc~V~ 147 (147)
T cd03779 81 FMLLDQNNREHVIDAFRPDLSSASFQRPVS-DMNV-ASGCPLFFPLKKLQSPKHA---YCKDDTIYIKCVVD 147 (147)
T ss_pred EEEECCCCCCCCcEeecCCcccccccCccc-CCCC-CcchhheeEHHHhcccCCC---cEeCCEEEEEEEEC
Confidence 999999876666677766655678999987 5654 7999999999999875 6 99999999999984
No 4
>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive
Probab=100.00 E-value=5.2e-37 Score=266.09 Aligned_cols=141 Identities=32% Similarity=0.586 Sum_probs=123.4
Q ss_pred cEEEEEECChHHHHHHhhh-cCCeEeccCceeCCCccEEEEEEEeCCCC---CCeEEEEEEEecCCCCCCCCCCCCceeE
Q psy7814 311 GVYFWKMYNFPAKLKEMKE-INRYFYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIR 386 (460)
Q Consensus 311 g~~~w~I~~fs~~~~~~~~-~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~~ 386 (460)
|+|+|+|++||++++.+.. ....++|++|||+.+||+|+|++||||.+ ++||||||+|++|+||+.|+|||+++++
T Consensus 1 g~~vwkI~~ys~~~~~~~~g~~~~i~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wp~~~~~t 80 (148)
T cd03780 1 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVT 80 (148)
T ss_pred CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceEEEEE
Confidence 6899999999999876555 33389999999999999999999999965 6899999999999999999999999999
Q ss_pred EEEEcCCCCC-eeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCC--CCcccccCCeEEEEEEEe
Q psy7814 387 FTALNTSSEF-SITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDP--GRGFLMEDDTFVIKTQVT 456 (460)
Q Consensus 387 l~lldq~~~~-~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~--~~~~yl~dD~l~i~~~v~ 456 (460)
|+|+||++.. ++..++.++|+...|+||.. ++|. +||+++||++++|+.. + ||+||+|+|+|.|.
T Consensus 81 fsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~-~~n~-~~G~~~Fi~~~~Le~s~~~---ylkdD~~~Ik~~v~ 148 (148)
T cd03780 81 LMLLDQSGKKNHIMETFKADPNSSSFKRPDG-EMNI-ASGCPRFVAHSVLENAKNT---YIKDDTLFLKVAVD 148 (148)
T ss_pred EEEECCCCCCCCcceeeecCCccccccCCCC-CCCC-CcChhheeEHHHhhcccCC---cCcCCEEEEEEEEC
Confidence 9999998543 44567777777788999987 6664 7999999999999864 5 99999999999884
No 5
>KOG0297|consensus
Probab=100.00 E-value=5.8e-37 Score=306.77 Aligned_cols=363 Identities=23% Similarity=0.459 Sum_probs=234.2
Q ss_pred CCCCCCccccccccccccccee-cCCCCcccHhhHHHHHhcCCCCCCCCCcccccc-cccccchHHHHHHHhccccCCC-
Q psy7814 10 KLNLDPRFECSICLEYLKDAIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK-DDIFIDNYTRREILENNLTCPY- 86 (460)
Q Consensus 10 ~~~~~~~l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~-~~~~~~~~~~~~i~~l~v~C~n- 86 (460)
+.++++++.|++|..++.+|++ +.|||.||..|+..|..... .||.|+..+.. ..+..++...+++.++.+.|++
T Consensus 15 ~~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~--~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~ 92 (391)
T KOG0297|consen 15 GRPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQ--KCPVCRQELTQAEELPVPRALRRELLKLPIRCIFA 92 (391)
T ss_pred CCCCcccccCccccccccCCCCCCCCCCcccccccchhhccCc--CCcccccccchhhccCchHHHHHHHHhcccccccC
Confidence 4458889999999999999999 59999999999999998733 59999888776 4445588899999999999998
Q ss_pred -CCCCceeeccccccccccccccccCCCcccccCCCCCCCCCCCCCCccCCCCccccccchhhhhhhcCCCCCccccccc
Q psy7814 87 -KQCSSQLSIPEYESHVNTCYLKYSQPSVEDITDSPTSSFRNTSGIPTNKRNSKILTVTVFPEHLNMQGSSNENFPCKFY 165 (460)
Q Consensus 87 -~gC~~~~~l~~l~~H~~~C~~~~~~C~~~~~~~h~~c~~~~~~~~~~~~~c~~~~~r~~l~~H~~~~c~~~~~v~Cp~~ 165 (460)
.||.|.+.+..++.|+..| ..++|| ..|+..+++.++.+|+...|+ .....|.+
T Consensus 93 ~~GC~~~~~l~~~~~Hl~~c--~~~~C~---------------------~~C~~~~~~~d~~~hl~~~C~-~~~~~c~~- 147 (391)
T KOG0297|consen 93 SRGCRADLELEALQGHLSTC--DPLKCP---------------------HRCGVQVPRDDLEDHLEAECP-RRSLKCSL- 147 (391)
T ss_pred CCCccccccHHHHHhHhccC--CcccCc---------------------cccccccchHHHHHHHhcccc-cccccchh-
Confidence 8999999999999999999 788886 458888999999999877775 56677776
Q ss_pred cccccccccchhHHHHHhhhchHHHHHHHHHHhhccCcccCCCCC--CCCCCchhHHHHHHHHHhhhhhcccccCCCCCC
Q psy7814 166 QVGCREVFKSQALLEKHYDLKTSFHLELLFNKYCSDGSQSTNTPS--HGRQDTSNQKEIEAYLMKNKEHESKLWDPNKNQ 243 (460)
Q Consensus 166 ~~GC~~~~~r~~~l~~H~~~~~~~Hl~ll~~~~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (460)
|.....-.. +..|... .... +. +.+......+.+ ...+...--+++....+...+..... ......
T Consensus 148 ---~~~~~~~~~-~~~h~~~-~~~~--~~----c~~k~~~~~l~~~~~~~qs~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 215 (391)
T KOG0297|consen 148 ---CQSDSILIL-LEAHEEN-PQAE--VS----CELKCGKQKLKRRMLANQSEEPAKRIQELIMQLKEEFERI-AALLNP 215 (391)
T ss_pred ---hcCccchhh-hhhcCCC-CCcc--cc----ccccchhhhhhhHHHHHHhhhhhhhhhHHHHHHHHhhhhh-hhhccc
Confidence 433332333 4555542 0000 00 000000000000 00000000000000000000000000 000000
Q ss_pred CCCCCCCCCCCcccCCCChHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccCcEEEEEECChHH
Q psy7814 244 AGDDKSSEGDCSCKTCGDNSHLLK-LVYERMVLLEQSMLEQKIKVNNFELNLKQTEEIEDNVVLKLCNGVYFWKMYNFPA 322 (460)
Q Consensus 244 ~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~~~~~~~~g~~~w~I~~fs~ 322 (460)
.+ .......+ .......+.++ .+.+.+..+......++..-+.+ ..+..+......++...|+|.++|+|.+|+.
T Consensus 216 ~~-~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~~lE~~~~~~-~~~~~~~~~~~~~~~~~~~g~~iwki~~~~~ 291 (391)
T KOG0297|consen 216 RV-STSGNIQC--TPDAPLEEYIKDSLKESGCTLSQRVQLLESRHEGR-QPLGDMALSVREMEVRSYDGTLIWKIPDYGR 291 (391)
T ss_pred cc-ccccceee--cCchhHHHHHhhHHHHhhccccccHHHhhhhhhhh-hhhHHHHHHHHHhhhhccCCEEEEEecchhh
Confidence 00 00000000 00000111111 22222222222222222100000 1122223334556678999999999999999
Q ss_pred HHHHhhh-cCCeEeccCceeCCCccEEEEEEEeCCCC---CCeEEEEEEEecCCCCCCCCCCCCceeEEEEEcCCCCCee
Q psy7814 323 KLKEMKE-INRYFYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTALNTSSEFSI 398 (460)
Q Consensus 323 ~~~~~~~-~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~~l~lldq~~~~~~ 398 (460)
++.++.. ....++|++||++.+||+|+.++|.||++ +.++|+|+++|+|+||..|.|||+.++||+++|| +.
T Consensus 292 ~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~~~v~~~l~dq----~~ 367 (391)
T KOG0297|consen 292 KKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFRQKVTLMLLDQ----HV 367 (391)
T ss_pred hhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCCCceEEEEecc----cc
Confidence 9888888 88899999999999999999999999974 7899999999999999999999999999999999 66
Q ss_pred eEEEecCCCCCCCCCCcccCCC
Q psy7814 399 TDEIQSDKNFDSFKRPVNFFLN 420 (460)
Q Consensus 399 ~~~~~~~~~~~~f~~p~~~~~~ 420 (460)
..+++++++...|.||.+ +.+
T Consensus 368 ~~~~~~~~~~~~f~r~~~-~~~ 388 (391)
T KOG0297|consen 368 IDAFKPDLNSSSFQRPVG-EMN 388 (391)
T ss_pred cccccccchhhhcCCCCC-ccc
Confidence 678889999999999998 555
No 6
>cd03783 MATH_Meprin_Alpha Meprin family, Alpha subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The alpha subunit is synthesized as a membrane spanning protein, however, it is cleaved during biosynthesis and loses its transmembrane domain. It oligomerizes into large complexes, containing 10-100 subunits (dimers that associate noncovalently), which are secreted as latent proteases and can move through extracellular spaces in a nondestructive manner. This allows delivery of the concentrated protease to sites containing activating enzymes, such as sites of inflammation, infection or cancerous growth. Meprin alpha shows preference for small or hydrophobic residues at the P1 and P1' sites of its substrate. Both
Probab=100.00 E-value=5.3e-36 Score=259.10 Aligned_cols=140 Identities=24% Similarity=0.499 Sum_probs=121.4
Q ss_pred EEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCC----CCeEEEEEEEecCCCCCCCCCCC-CceeE
Q psy7814 312 VYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISRED----AQYLSLFIHLVQGENDDILDWPF-VGRIR 386 (460)
Q Consensus 312 ~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~----~~~lS~~l~l~~g~~D~~l~Wp~-~~~~~ 386 (460)
.++|+|.||++++++|+ .+..++||+||++ +||+|+|++||||++ ++|||||++||+|+||+.|+||| ..++|
T Consensus 3 ~~iWkI~nfs~~~~~a~-~~~~i~Sp~Fyt~-~GYk~~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP~~~~~it 80 (167)
T cd03783 3 NAVWRVRNFSQILENTT-KGDVLQSPRFYSP-EGYGYGVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALNRQAI 80 (167)
T ss_pred ceeEEECcHHHHHHhCc-CCCeEECCCCccC-CCceEEEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCCCcCCEEE
Confidence 58999999999999876 6789999999995 899999999999864 68999999999999999999995 56899
Q ss_pred EEEEcCCC----CCeeeEEEecCCC--CC------CCCCCccc--------CCCccCCCccceeecccccCCCCcccccC
Q psy7814 387 FTALNTSS----EFSITDEIQSDKN--FD------SFKRPVNF--------FLNKKAFGFNNFIRVADVLDPGRGFLMED 446 (460)
Q Consensus 387 l~lldq~~----~~~~~~~~~~~~~--~~------~f~~p~~~--------~~~~~~~G~~~fi~~~~l~~~~~~~yl~d 446 (460)
|+||||++ +.++.++++++++ +. +|+||+.. ..++.||||+.||+|++|+.++ ||+|
T Consensus 81 l~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~~r~---yikd 157 (167)
T cd03783 81 ITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLRRRS---FLKN 157 (167)
T ss_pred EEEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHhhCC---cccC
Confidence 99999974 4577788988873 22 39999641 2356699999999999999988 9999
Q ss_pred CeEEEEEEEe
Q psy7814 447 DTFVIKTQVT 456 (460)
Q Consensus 447 D~l~i~~~v~ 456 (460)
|+|+|+++++
T Consensus 158 DtlfI~~~~~ 167 (167)
T cd03783 158 DDLIIFVDFE 167 (167)
T ss_pred CeEEEEEecC
Confidence 9999999874
No 7
>cd03782 MATH_Meprin_Beta Meprin family, Beta subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The beta subunit is a type I membrane protein, which forms homodimers or heterotetramers (alpha2beta2 or alpha3beta). Meprin beta shows preference for acidic residues at the P1 and P1' sites of its substrate. Among its best substrates are growth factors and chemokines such as gastrin and osteopontin. Both alpha and beta subunits contain a catalytic astacin (M12 family) protease domain followed by the adhesion or interaction domains MAM, MATH and AM. The MATH and MAM domains provide symmetrical intersubunit disulfide bonds necessary for the dimerization of meprin subunits. The MATH domain may also be required for f
Probab=100.00 E-value=1.7e-35 Score=254.18 Aligned_cols=140 Identities=22% Similarity=0.413 Sum_probs=119.1
Q ss_pred EEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCC--CCeEEEEEEEecCCCCCCCCCCCC-ceeEEE
Q psy7814 312 VYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISRED--AQYLSLFIHLVQGENDDILDWPFV-GRIRFT 388 (460)
Q Consensus 312 ~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~--~~~lS~~l~l~~g~~D~~l~Wp~~-~~~~l~ 388 (460)
.|+|+|.||++++++ ...+..++||+||++ +||||++++||||.+ ++|||||++||+|+||+.|+|||. .++||+
T Consensus 3 ~~iWkI~~fs~~~~~-~~~~~~i~Sp~FYt~-~GYkl~l~~ylnG~g~~~~~lsl~~~lm~Ge~D~~L~WPf~~~qit~~ 80 (167)
T cd03782 3 EHIWHIRNFTQLLAT-TPPNGKIYSPPFLSS-TGYSFQVGLYLNGTDDYPGNLAIYLHLTSGPNDDQLQWPCPWQQATMM 80 (167)
T ss_pred cEEEEeCcHHHHHHh-cCCCceEECCCCcCc-cCceeEEEEEecCCCCCCCEEEEEEEEeccCCCccccCCCcCCeEEEE
Confidence 689999999999988 336789999999997 999999999999965 679999999999999999999999 899999
Q ss_pred EEcCCC----CCeeeEEE--ecCCCCC---CC--CCCcc-----cCC------CccCCCccceeecccccCCCCcccccC
Q psy7814 389 ALNTSS----EFSITDEI--QSDKNFD---SF--KRPVN-----FFL------NKKAFGFNNFIRVADVLDPGRGFLMED 446 (460)
Q Consensus 389 lldq~~----~~~~~~~~--~~~~~~~---~f--~~p~~-----~~~------~~~~~G~~~fi~~~~l~~~~~~~yl~d 446 (460)
||||++ +.|+.+++ .|++++. .| +||.. .++ .+.+||++.||+|++|+++. ||+|
T Consensus 81 LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~~r~---yikd 157 (167)
T cd03782 81 LLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLRSRD---FIKG 157 (167)
T ss_pred EEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHhhcC---cccC
Confidence 999974 46777744 4444444 45 99942 033 14689999999999999988 9999
Q ss_pred CeEEEEEEEe
Q psy7814 447 DTFVIKTQVT 456 (460)
Q Consensus 447 D~l~i~~~v~ 456 (460)
|+++|-++++
T Consensus 158 D~ifi~~~~e 167 (167)
T cd03782 158 DDVIFLLTME 167 (167)
T ss_pred CeEEEEEecC
Confidence 9999998874
No 8
>cd03771 MATH_Meprin Meprin family, MATH domain; Meprins are multidomain, highly glycosylated extracellular metalloproteases, which are either anchored to the membrane or secreted into extracellular spaces. They are expressed in renal and intestinal brush border membranes, leukocytes, and cancer cells, and are capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. Meprin proteases are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. Despite their similarity, the two subunits differ in their ability to self-associate, in proteolytic processing during biosynthesis and in substrate specificity. Both subunits are synthesized as membrane spanning proteins, however, the alpha subunit is cleaved during biosynthesis and loses its transmembrane domain. Meprin beta forms homodimers or heterotetramers while meprin alpha oligomerizes into large complexes co
Probab=100.00 E-value=1.4e-33 Score=247.67 Aligned_cols=141 Identities=26% Similarity=0.500 Sum_probs=121.3
Q ss_pred cEEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCC--CCeEEEEEEEecCCCCCCCCCCC-CceeEE
Q psy7814 311 GVYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISRED--AQYLSLFIHLVQGENDDILDWPF-VGRIRF 387 (460)
Q Consensus 311 g~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~--~~~lS~~l~l~~g~~D~~l~Wp~-~~~~~l 387 (460)
++|+|+|.|||++++. ...+..++|++||+ .+||+|+|++||||.+ ++||||||+|++|++|+.|+||| .++++|
T Consensus 2 p~hvwkI~~yS~~~~~-~~~g~~i~S~~Fys-vgGy~w~I~~YPnG~~~~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t~ 79 (167)
T cd03771 2 PEAVWRVRNFSQLLET-TPKGTKIYSPRFYS-PEGYAFQVGLYPNGTESYPGYTGLYFHLCSGENDDVLEWPCPNRQATM 79 (167)
T ss_pred CeEEEEEcCchhhhhc-CCCCCEEECCCCCc-cCCeEEEEEEEeCCCCCCCCcceEEEEEecCCccccccCcceeEEEEE
Confidence 4799999999999654 23677899999998 5899999999999975 78999999999999999999997 789999
Q ss_pred EEEcCCC----CCeeeEEEecCCCCCC-------CCCCccc-----C------CCccCCCccceeecccccCCCCccccc
Q psy7814 388 TALNTSS----EFSITDEIQSDKNFDS-------FKRPVNF-----F------LNKKAFGFNNFIRVADVLDPGRGFLME 445 (460)
Q Consensus 388 ~lldq~~----~~~~~~~~~~~~~~~~-------f~~p~~~-----~------~~~~~~G~~~fi~~~~l~~~~~~~yl~ 445 (460)
+||||.+ +.++.++|+++|+..+ |+||... + .++.||||+.||+|++|+.++ ||+
T Consensus 80 ~LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~~r~---ylk 156 (167)
T cd03771 80 TLLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLRRRD---FLK 156 (167)
T ss_pred EEECCCCcccccCcceEEEecCCcccccccccccccCCccccccccccccccccccCccccccceeHHHhccCC---CCc
Confidence 9999974 3577889999986554 9999531 2 244689999999999999988 999
Q ss_pred CCeEEEEEEEe
Q psy7814 446 DDTFVIKTQVT 456 (460)
Q Consensus 446 dD~l~i~~~v~ 456 (460)
||+|+|+++|+
T Consensus 157 ~dtl~i~~~~~ 167 (167)
T cd03771 157 GDDLIILLDFE 167 (167)
T ss_pred CCEEEEEEEeC
Confidence 99999999984
No 9
>cd03776 MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF6 is the most divergent in its TRAF domain among the mammalian TRAFs. In addition to mediating TNFR family signaling, it is also an essential signaling molecule of the interleukin-1/Toll-like receptor superfamily. Whereas other TRAF molecules display similar and overlapping TNFR-binding specificities, TRAF6 binds completely different sites on receptors such as CD40 and RANK. TRAF6 serves as a molecular bridge between innate and adaptive immunity and plays a central role in osteoimmunology. DTRAF2, as an activator of nuclear factor-kapp
Probab=100.00 E-value=2.7e-32 Score=238.79 Aligned_cols=142 Identities=39% Similarity=0.760 Sum_probs=120.3
Q ss_pred cEEEEEECChHHHHHHhhh-cCCeEeccCceeCCCccEEEEEEEeCCCC---CCeEEEEEEEecCCCCCCCCCCCCceeE
Q psy7814 311 GVYFWKMYNFPAKLKEMKE-INRYFYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIR 386 (460)
Q Consensus 311 g~~~w~I~~fs~~~~~~~~-~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~~ 386 (460)
|+|+|+|.+||.+++.+.. ....++|++||+|.+||+|+|++||||.. ++|||+||+|++|++|+.|+||++++++
T Consensus 1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~wpv~a~~~ 80 (147)
T cd03776 1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQGTIT 80 (147)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCcccCCcccceeE
Confidence 6899999999987665443 22258999999988899999999999964 5799999999999999999999999999
Q ss_pred EEEEcCCC-CCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccCCeEEEEEEEe
Q psy7814 387 FTALNTSS-EFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVT 456 (460)
Q Consensus 387 l~lldq~~-~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~ 456 (460)
|+|+||++ ..++..++.+.+....|++|.. +.+..+|||+.||++++|+..+ ||+||+|+|+|+|+
T Consensus 81 ~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~-~~~~~~~G~~~fi~~~~Le~~~---yl~dD~l~I~c~V~ 147 (147)
T cd03776 81 LTLLDQSEPRQNIHETMMSKPELLAFQRPTT-DRNPKGFGYVEFAHIEDLLQRG---FVKNDTLLIKIEVN 147 (147)
T ss_pred EEEECCCcccCccEEEEEcCCChHhhcCCCc-CCCCCCeeEceeeEHHHhhhCC---CccCCEEEEEEEEC
Confidence 99999985 3344445555566678999876 5566689999999999998877 99999999999984
No 10
>cd03781 MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF4, including the Drosophila protein DTRAF1. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF4 is highly expressed during embryogenesis, especially in the central and peripheral nervous system. Studies using TRAF4-deficient mice show that TRAF4 is required for neurogenesis, as well as the development of the trachea and the axial skeleton. In addition, TRAF4 augments nuclear factor-kappaB activation triggered by GITR (glucocorticoid-induced TNFR), a receptor expressed in T-cells, B-cells and macrophages. It also participates in counteracting the signaling mediated by Toll-like receptors through its association with TRAF6 and TR
Probab=100.00 E-value=2.5e-32 Score=240.38 Aligned_cols=143 Identities=29% Similarity=0.612 Sum_probs=122.7
Q ss_pred cEEEEEECChHHHHHHhhh-cCCeEeccCceeCCCccEEEEEEEeCCCC---CCeEEEEEEEecCCCCCCCCCCCCceeE
Q psy7814 311 GVYFWKMYNFPAKLKEMKE-INRYFYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIR 386 (460)
Q Consensus 311 g~~~w~I~~fs~~~~~~~~-~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~~ 386 (460)
|+|+|+|++||.++..++. .+..+.|++||+|.+||+|+|++||||.. ++|||+||+|++|++|+.|+|||+++++
T Consensus 1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~wp~~a~~~ 80 (154)
T cd03781 1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLEWPFSHRIT 80 (154)
T ss_pred CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCCCCCCCEEEEEEEEecCCcccccCCceeeEEE
Confidence 7899999999999876655 56789999999999999999999999954 6899999999999999999999999999
Q ss_pred EEEEcCCCC-----CeeeEEEecCCCCCCCCCCccc--CCCccCCCccceeecccccCCCCcccccCCeEEEEEEEe
Q psy7814 387 FTALNTSSE-----FSITDEIQSDKNFDSFKRPVNF--FLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVT 456 (460)
Q Consensus 387 l~lldq~~~-----~~~~~~~~~~~~~~~f~~p~~~--~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~ 456 (460)
|+||||.++ .++...+.++++..+|+||... ..+..+|||..||++++|+..+ ||+||+|+|+|+|+
T Consensus 81 ~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le~~~---yl~dD~l~Irc~v~ 154 (154)
T cd03781 81 FTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLKKRN---YIKDDAIFLRASVE 154 (154)
T ss_pred EEEECCCCCccccCcceEEEEEcCCchhhhcCCcccccCCCCCccchhHeeEHHHHhhCC---cccCCEEEEEEEeC
Confidence 999999754 2333566666777889998730 1233579999999999999877 99999999999984
No 11
>cd00270 MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link cell surface TNFRs and receptors of the interleukin-1/Toll-like family to downstream kinase signaling cascades which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. There are at least six mammalian and three Drosophila proteins containing TRAF domains. The mammalian TRAFs display varying expression profiles, indicating independent and cell type-specific regulation. They display distinct, as well as overlapping functions and interactions with receptors. Most TRAFs, except TRAF1, share N-terminal homology and contain a RING domain, multiple zinc finger domains, and a TRAF domain. TRAFs form homo- and heterotrimers through its TRAF domain. The TRAF domain can be divided into a more divergent N-ter
Probab=99.97 E-value=1.3e-30 Score=229.07 Aligned_cols=142 Identities=37% Similarity=0.736 Sum_probs=120.2
Q ss_pred cEEEEEECChHHHHHHhhh-cCCeEeccCceeCCCccEEEEEEEeCCCC---CCeEEEEEEEecCCCCCCCCCCCCceeE
Q psy7814 311 GVYFWKMYNFPAKLKEMKE-INRYFYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIR 386 (460)
Q Consensus 311 g~~~w~I~~fs~~~~~~~~-~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~~ 386 (460)
|+|+|+|.+||+++..+.. .+..++|++|++|..||+|+|++||||.+ ++||||||+|++|++|+.++||++++++
T Consensus 1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~w~~~~~~~ 80 (149)
T cd00270 1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRGKIT 80 (149)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCccccCCccceEE
Confidence 6899999999999775443 56789999999998899999999999963 5799999999999999999999999999
Q ss_pred EEEEcCCC---CCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccCCeEEEEEEEe
Q psy7814 387 FTALNTSS---EFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVT 456 (460)
Q Consensus 387 l~lldq~~---~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~ 456 (460)
|+|+||.+ .+++..++.+.+....|++|.. ..+..+|||.+||++++|++.+ ||+||+|+|+|+|+
T Consensus 81 ~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~-~~~~~~~G~~~fi~~~~L~~~g---fl~dD~l~I~~~v~ 149 (149)
T cd00270 81 LTLLDQSDDSKRKHITETFMPDPNSSAFQRPPT-GENNIGFGYPEFVPLEKLESRG---YVKDDTLFIKVEVD 149 (149)
T ss_pred EEEECCCCccccCceEEEEEcCCchHhhcCCCc-ccCCCCcCcceEeEHHHhccCC---CEeCCEEEEEEEEC
Confidence 99999987 3555556666665667875443 2334589999999999998777 99999999999984
No 12
>cd03773 MATH_TRIM37 Tripartite motif containing protein 37 (TRIM37) family, MATH domain; TRIM37 is a peroxisomal protein and is a member of the tripartite motif (TRIM) protein subfamily, also known as the RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger proteins. Mutations in the human TRIM37 gene (also known as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism, a rare growth disorder of prenatal onset characterized by dysmorphic features, pericardial constriction and hepatomegaly. TRIM37, similar to other TRIMs, contains a cysteine-rich, zinc-binding RING-finger domain followed by another cysteine-rich zinc-binding domain, the B-box, and a coiled-coil domain. TRIM37 is autoubiquitinated in a RING domain-dependent manner, indicating that it functions as an ubiquitin E3 ligase. In addition to the tripartite motif, TRIM37 also contains a MATH domain C-terminal to the coiled-coil domain. The MATH domain of TRIM37 has been shown to interact with the TRAF domain of six known TRAFs i
Probab=99.88 E-value=2.1e-22 Score=173.11 Aligned_cols=120 Identities=20% Similarity=0.343 Sum_probs=95.2
Q ss_pred cEEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCC---CCeEEEEEEEecCCCCCCCCCCCCceeEE
Q psy7814 311 GVYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRF 387 (460)
Q Consensus 311 g~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~~l 387 (460)
++++|+|.|||.++. .+..++|++|++| ||+|+|++||+|.. ++||||||.++.+ ..|+..++++|
T Consensus 5 ~~~~~~I~~fS~~~~----~~~~~~S~~F~vg--G~~W~i~~yP~G~~~~~~~~lSl~L~l~~~-----~~~~~~~~~~l 73 (132)
T cd03773 5 DSATFTLENFSTLRQ----SADPVYSDPLNVD--GLCWRLKVYPDGNGEVRGNFLSVFLELCSG-----LGEASKYEYRV 73 (132)
T ss_pred cccEEEECChhhhhc----CCcceeCCCeEeC--CccEEEEEECCCCCCCCCCEEEEEEEeecC-----CCCceeEEEEE
Confidence 469999999998832 4567999999998 99999999999964 6799999999764 24778889999
Q ss_pred EEEcCC-CCCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccC--CeEEEEEEEe
Q psy7814 388 TALNTS-SEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMED--DTFVIKTQVT 456 (460)
Q Consensus 388 ~lldq~-~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~d--D~l~i~~~v~ 456 (460)
+|+||. +..+..... .+.|. ...+|||+.|+++++|.+.| ||+| |+|+|+|.|.
T Consensus 74 ~llnq~~~~~~~~~~~-----~~~f~-------~~~~wG~~~Fi~~~~L~~~g---fl~~~~D~l~i~~~v~ 130 (132)
T cd03773 74 EMVHQANPTKNIKREF-----ASDFE-------VGECWGYNRFFRLDLLINEG---YLLPENDTLILRFSVR 130 (132)
T ss_pred EEEcCCCCccceEEec-----ccccc-------CCCCcCHHHhccHHHHhhCC---CcCCCCCEEEEEEEEe
Confidence 999994 443332221 12232 12479999999999998766 9999 9999999985
No 13
>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP. SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta
Probab=99.87 E-value=1.4e-21 Score=169.52 Aligned_cols=131 Identities=27% Similarity=0.437 Sum_probs=98.9
Q ss_pred CcEEEEEECChHHHHHHhhhcCCeEeccCceeCCC-ccEEEEEEEeCCCC---CCeEEEEEEEecCCCCCCCCCCCCcee
Q psy7814 310 NGVYFWKMYNFPAKLKEMKEINRYFYSACFYSSCF-GYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRI 385 (460)
Q Consensus 310 ~g~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~-Gyk~~l~~yp~G~~---~~~lS~~l~l~~g~~D~~l~Wp~~~~~ 385 (460)
..+|+|+|+|||+++. ..+..+.|++|.+|.. ||+|+|++||+|.. .+||||||.++.++ .||++++|
T Consensus 4 ~~~~~w~I~~fS~~~~---~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~~~~~~iSlyL~l~~~~-----~~~v~a~f 75 (139)
T cd03774 4 KFCYMWTISNFSFCRE---EMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCP-----KSEVRAKF 75 (139)
T ss_pred EEEEEEEECCchhhhh---cCCCEEECCCeecCCcCCceEEEEEeCCCCCCCCCCeEEEEEEEccCC-----CCcEEEEE
Confidence 3579999999998753 2567899999999721 36999999999953 68999999997532 46899999
Q ss_pred EEEEEcCCCCCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccCCeEEEEEEEeecc
Q psy7814 386 RFTALNTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVTEMT 459 (460)
Q Consensus 386 ~l~lldq~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~v~~ 459 (460)
+|+|+||+++.... ........|. ...+|||..||++++|.+.. .+||+||+|+|+|+|+|+.
T Consensus 76 ~~~l~n~~~~~~~~---~~~~~~~~f~-------~~~~wG~~~fi~~~~L~~~~-~g~l~dD~l~I~c~I~V~~ 138 (139)
T cd03774 76 KFSILNAKGEETKA---MESQRAYRFV-------QGKDWGFKKFIRRDFLLDEA-NGLLPDDKLTLFCEVSVVQ 138 (139)
T ss_pred EEEEEecCCCeeee---ecccCcEeCC-------CCCccCHHHeeeHHHhhhhh-cccccCCEEEEEEEEEEEc
Confidence 99999998653211 1111123342 12479999999999996432 2399999999999999985
No 14
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=99.85 E-value=2.6e-21 Score=166.57 Aligned_cols=124 Identities=15% Similarity=0.335 Sum_probs=95.1
Q ss_pred EEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCC-CCeEEEEEEEecCCCC---CCCCCCCCceeEE
Q psy7814 312 VYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISRED-AQYLSLFIHLVQGEND---DILDWPFVGRIRF 387 (460)
Q Consensus 312 ~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~-~~~lS~~l~l~~g~~D---~~l~Wp~~~~~~l 387 (460)
+|+|+|+|||.+ +..+.|++|.+| ||+|+|.+||+|.. .+||||||.++..+.. ..-.|++.++|+|
T Consensus 2 ~f~w~I~~fS~~-------~~~~~S~~F~vG--G~~W~l~~yP~G~~~~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~ 72 (134)
T cd03775 2 SFTWRIKNWSEL-------EKKVHSPKFKCG--GFEWRILLFPQGNSQTGGVSIYLEPHPEEEEKAPLDEDWSVCAQFAL 72 (134)
T ss_pred cEEEEECCcccC-------CcceeCCCEEEC--CeeEEEEEeCCCCCCCCeEEEEEEecCcccccccCCCCCeEEEEEEE
Confidence 599999999985 356999999998 99999999999976 6899999999764432 1357999999999
Q ss_pred EEEcCCC-CCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCC---CCcccccCCeEEEEEEE
Q psy7814 388 TALNTSS-EFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDP---GRGFLMEDDTFVIKTQV 455 (460)
Q Consensus 388 ~lldq~~-~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~---~~~~yl~dD~l~i~~~v 455 (460)
+|+||.. ..+... ...+.|.. ...+|||.+||++++|.+. ...|||+||+|+|+|.|
T Consensus 73 ~l~n~~~~~~~~~~-----~~~~~F~~------~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~ 133 (134)
T cd03775 73 VISNPGDPSIQLSN-----VAHHRFNA------EDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYV 133 (134)
T ss_pred EEEcCCCCccceEc-----cceeEeCC------CCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEE
Confidence 9999864 222221 11234542 1247999999999999842 11349999999999987
No 15
>cd03772 MATH_HAUSP Herpesvirus-associated ubiquitin-specific protease (HAUSP, also known as USP7) family, N-terminal MATH (TRAF-like) domain; composed of proteins similar to human HAUSP, an enzyme that specifically catalyzes the deubiquitylation of p53 and MDM2, hence playing an important role in the p53-MDM2 pathway. It contains an N-terminal TRAF-like domain and a C-terminal catalytic protease (C19 family) domain. The tumor suppressor p53 protein is a transcription factor that responds to many cellular stress signals and is regulated primarily through ubiquitylation and subsequent degradation. MDM2 is a RING-finger E3 ubiquitin ligase that promotes p53 ubiquitinylation. p53 and MDM2 bind to the same site in the N-terminal TRAF-like domain of HAUSP in a mutually exclusive manner. HAUSP also interacts with the Epstein-Barr nuclear antigen 1 (EBNA1) protein of the Epstein-Barr virus (EBV), which efficiently immortalizes infected cells predisposing the host to a variety of cancers. EBNA1
Probab=99.83 E-value=4.2e-20 Score=159.79 Aligned_cols=125 Identities=18% Similarity=0.307 Sum_probs=95.8
Q ss_pred CcEEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCC-----CCeEEEEEEEecCCCCCCCCCCCCce
Q psy7814 310 NGVYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISRED-----AQYLSLFIHLVQGENDDILDWPFVGR 384 (460)
Q Consensus 310 ~g~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~-----~~~lS~~l~l~~g~~D~~l~Wp~~~~ 384 (460)
.|+|+|+|+|||.+ +..++|+.|.+| ||.|+|++||+|.. .++|||||.+.... ....|++.++
T Consensus 2 ~~~~~~~I~~~S~l-------~e~~~S~~f~vg--G~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~--~~~~w~i~a~ 70 (137)
T cd03772 2 EATFSFTVERFSRL-------SESVLSPPCFVR--NLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAES--DSTSWSCHAQ 70 (137)
T ss_pred CcEEEEEECCcccC-------CCcEECCCEEEC--CcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcC--CCCCCeEEEE
Confidence 47899999999987 346999999997 99999999999943 37999999997532 2338999999
Q ss_pred eEEEEEcCCCC-CeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccCCeEEEEEEEee
Q psy7814 385 IRFTALNTSSE-FSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVTE 457 (460)
Q Consensus 385 ~~l~lldq~~~-~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~v 457 (460)
|+|+|+||.+. .+...... +.|.+ +..+|||++||++++|.+.. .+||+||+|+|+|.|++
T Consensus 71 ~~~~l~~~~~~~~~~~~~~~-----~~f~~------~~~~~G~~~fi~~~~L~~~~-sgyl~~D~l~Ie~~V~~ 132 (137)
T cd03772 71 AVLRIINYKDDEPSFSRRIS-----HLFFS------KENDWGFSNFMTWSEVTDPE-KGFIEDDTITLEVYVQA 132 (137)
T ss_pred EEEEEEcCCCCcccEEEeee-----eEEcC------CCCCccchheeEHHHhcCCC-CCcEECCEEEEEEEEEe
Confidence 99999999742 23222211 22422 12379999999999996321 22999999999999976
No 16
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=99.80 E-value=8.2e-19 Score=148.51 Aligned_cols=124 Identities=27% Similarity=0.493 Sum_probs=100.4
Q ss_pred cEEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCC--CCeEEEEEEEecCCCCCCCCCCCCceeEEE
Q psy7814 311 GVYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISRED--AQYLSLFIHLVQGENDDILDWPFVGRIRFT 388 (460)
Q Consensus 311 g~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~--~~~lS~~l~l~~g~~D~~l~Wp~~~~~~l~ 388 (460)
++|+|+|.+|+.. .+..++|+.|..+ |+.|+|++||+|.. .+||||||.+..++.+ ...|++.++++|+
T Consensus 1 ~~~~~~i~~~~~~------~~~~~~S~~f~~~--g~~W~l~~~p~~~~~~~~~lsv~L~~~~~~~~-~~~~~~~~~~~~~ 71 (126)
T cd00121 1 GKHTWKIVNFSEL------EGESIYSPPFEVG--GYKWRIRIYPNGDGESGDYLSLYLELDKGESD-LEKWSVRAEFTLK 71 (126)
T ss_pred CEEEEEECCCCCC------CCcEEECCCEEEc--CEeEEEEEEcCCCCCCCCEEEEEEEecCCCCC-CCCCcEEEEEEEE
Confidence 4799999999972 5678999999997 99999999999974 5799999999877654 6789999999999
Q ss_pred EEcCCCCCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccCCeEEEEEEEe
Q psy7814 389 ALNTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVT 456 (460)
Q Consensus 389 lldq~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~ 456 (460)
|+||+++++........ |. .....+|||+.||++++|.+.. ++.||+|+|+|+|.
T Consensus 72 l~~~~~~~~~~~~~~~~-----~~-----~~~~~~~G~~~fi~~~~l~~~~---~~~~d~l~i~~~v~ 126 (126)
T cd00121 72 LVNQNGGKSLSKSFTHV-----FF-----SEKGSGWGFPKFISWDDLEDSY---YLVDDSLTIEVEVK 126 (126)
T ss_pred EECCCCCccceEeccCC-----cC-----CCCCCCCChHHeeEHHHhccCC---cEECCEEEEEEEEC
Confidence 99998655544433221 11 0123489999999999998765 69999999999984
No 17
>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []. Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....
Probab=99.75 E-value=8e-18 Score=141.54 Aligned_cols=118 Identities=30% Similarity=0.527 Sum_probs=92.2
Q ss_pred ECChHHHHHHhhhcCCeEec-cCceeCCCccEEEEEEEeCCCCCCeEEEEEEEecCCCCCCCCCCCCceeEEEEEcCCCC
Q psy7814 317 MYNFPAKLKEMKEINRYFYS-ACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDILDWPFVGRIRFTALNTSSE 395 (460)
Q Consensus 317 I~~fs~~~~~~~~~~~~~~S-~~F~~~~~Gyk~~l~~yp~G~~~~~lS~~l~l~~g~~D~~l~Wp~~~~~~l~lldq~~~ 395 (460)
|+|||++. .+...++ +.|. .+||.|+|++||+|+ ++++|+||++..++.+..+.||+.++++|.|+++.+.
T Consensus 1 i~nfs~l~-----~~~~~~~s~~~~--~~g~~W~l~~~~~~~-~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~ 72 (119)
T PF00917_consen 1 IKNFSKLK-----EGEEYSSSFVFS--HGGYPWRLKVYPKGN-GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGK 72 (119)
T ss_dssp ETTGGGHH-----TSEEEEEEEESS--TTSEEEEEEEETTES-TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSC
T ss_pred CcccceEe-----CCCcEECCCeEE--ECCEEEEEEEEeCCC-cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCC
Confidence 78999983 2222333 4443 469999999999998 8899999999999988888999999999999998776
Q ss_pred CeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccCCeEEEEEEEee
Q psy7814 396 FSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVTE 457 (460)
Q Consensus 396 ~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~v 457 (460)
.. ..... .+.|..+ .+|||..|++.++|.+.+ |++||+|+|+|+|+|
T Consensus 73 ~~-~~~~~----~~~F~~~-------~~~g~~~fi~~~~l~~~~---fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 73 SI-SKRIK----SHSFNNP-------SSWGWSSFISWEDLEDPY---FLVDDSLTIEVEVKI 119 (119)
T ss_dssp EE-EEEEE----CEEECTT-------SEEEEEEEEEHHHHTTCT---TSBTTEEEEEEEEEE
T ss_pred cc-eeeee----eeEEeee-------cccchhheeEHHHhCccC---CeECCEEEEEEEEEC
Confidence 52 22222 1223322 379999999999999877 999999999999975
No 18
>smart00061 MATH meprin and TRAF homology.
Probab=99.53 E-value=2.2e-14 Score=115.31 Aligned_cols=94 Identities=17% Similarity=0.331 Sum_probs=73.8
Q ss_pred EEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCCCCeEEEEEEEecCCCCCCCCCCCCceeEEEEEcC
Q psy7814 313 YFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDILDWPFVGRIRFTALNT 392 (460)
Q Consensus 313 ~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~~~~lS~~l~l~~g~~D~~l~Wp~~~~~~l~lldq 392 (460)
++|.|++|+.+ ..+..++|++|.++ ||.|+|++||+ ++|||+||.+.+++.+. ..|++.++++|+|+||
T Consensus 2 ~~~~~~~~~~~-----~~~~~~~S~~f~~~--g~~W~i~~~p~---~~~lsl~L~~~~~~~~~-~~w~v~a~~~~~l~~~ 70 (95)
T smart00061 2 LSHTFKNVSRL-----EEGESYFSPSEEHF--NIPWRLKIYRK---NGFLSLYLHCEKEECDS-RKWSIEAEFTLKLVSQ 70 (95)
T ss_pred ceeEEEchhhc-----ccCceEeCChhEEc--CceeEEEEEEc---CCEEEEEEEeCCCcCCC-CCeEEEEEEEEEEEeC
Confidence 58999999987 24677999999996 99999999999 57999999998766544 3899999999999999
Q ss_pred CCCCeeeEEEecCCCCCCCCCCcccCCCccCCCcccee
Q psy7814 393 SSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFI 430 (460)
Q Consensus 393 ~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi 430 (460)
++... .. .....|.+ ..+|||+.||
T Consensus 71 ~~~~~-~~-----~~~~~F~~-------~~~~G~~~fi 95 (95)
T smart00061 71 NGKSL-SK-----KDKHVFEK-------PSGWGFSKFI 95 (95)
T ss_pred CCCEE-ee-----eeeEEEcC-------CCccceeeEC
Confidence 87543 11 11233543 2379999986
No 19
>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=99.08 E-value=1.8e-10 Score=85.25 Aligned_cols=62 Identities=27% Similarity=0.554 Sum_probs=54.5
Q ss_pred cccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHHh
Q psy7814 16 RFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREILE 79 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~ 79 (460)
+|.||||+.++.+|+.++|||+||+.||.+|+...+ .||.|+.++..+++.++..+.+.+.+
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~--~cP~~~~~~~~~~l~~~~~l~~~i~~ 62 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHG--TDPVTGQPLTHEDLIPNLALKSAIQE 62 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCC--CCCCCcCCCChhhceeCHHHHHHHHh
Confidence 478999999999999999999999999999998744 59999999988888888777776653
No 20
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.06 E-value=1.1e-10 Score=78.33 Aligned_cols=40 Identities=35% Similarity=0.894 Sum_probs=31.8
Q ss_pred ccccccccccceecCCCCcccHhhHHHHHhcCCC--CCCCCC
Q psy7814 19 CSICLEYLKDAILTSCGHKFCAACIDSWIDVKGK--NYCPID 58 (460)
Q Consensus 19 C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~--~~CP~C 58 (460)
||||.++|.+|+.+.|||+||..||.++++.... ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999999999999999999999999976543 359987
No 21
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.97 E-value=5.6e-10 Score=99.04 Aligned_cols=61 Identities=28% Similarity=0.752 Sum_probs=49.1
Q ss_pred CCCCCCCcccccccccccccceecCCCCcccHhhHHHHHhcC--------------CCCCCCCCccccccccccc
Q psy7814 9 NKLNLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVK--------------GKNYCPIDEKVLTKDDIFI 69 (460)
Q Consensus 9 ~~~~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~--------------~~~~CP~Cr~~~~~~~~~~ 69 (460)
..-...+.+.|+||.+.+.+|+.+.|||.||..||.+|+... +...||.|+.++....+.+
T Consensus 11 ~~~~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvP 85 (193)
T PLN03208 11 TLVDSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVP 85 (193)
T ss_pred eeccCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEE
Confidence 334556789999999999999999999999999999997531 2246999999988765543
No 22
>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=98.94 E-value=8.3e-10 Score=84.07 Aligned_cols=67 Identities=22% Similarity=0.510 Sum_probs=53.5
Q ss_pred CCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHHhc
Q psy7814 13 LDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREILEN 80 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l 80 (460)
+++.|.|||++.++.+||.+++||+|++.+|.+|+...+. .||.++.++...++.++..+.+.|...
T Consensus 1 iP~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~-~~P~t~~~l~~~~l~pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 1 IPDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGG-TDPFTRQPLSESDLIPNRALKSAIEEW 67 (73)
T ss_dssp SSGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSS-B-TTT-SB-SGGGSEE-HHHHHHHHHH
T ss_pred CCcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCC-CCCCCCCcCCcccceECHHHHHHHHHH
Confidence 3678999999999999999999999999999999987443 599999999998899998888877654
No 23
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=98.94 E-value=3.1e-10 Score=83.18 Aligned_cols=60 Identities=22% Similarity=0.473 Sum_probs=44.0
Q ss_pred ccccccccccCCCcccccCCCCCCCCCCCCCCccCCCCccccccchhhhhhhcCCCCCccccccccccccccccchhHHH
Q psy7814 101 HVNTCYLKYSQPSVEDITDSPTSSFRNTSGIPTNKRNSKILTVTVFPEHLNMQGSSNENFPCKFYQVGCREVFKSQALLE 180 (460)
Q Consensus 101 H~~~C~~~~~~C~~~~~~~h~~c~~~~~~~~~~~~~c~~~~~r~~l~~H~~~~c~~~~~v~Cp~~~~GC~~~~~r~~~l~ 180 (460)
|...|++..|.|| +.+|...++|.+|..|+++.|+ ...++|+|+.+||.+++.+.+ |+
T Consensus 1 H~~~C~~~~v~C~--------------------~~cc~~~i~r~~l~~H~~~~C~-~~~v~C~~~~~GC~~~~~~~~-l~ 58 (60)
T PF02176_consen 1 HEEECPFRPVPCP--------------------NGCCNEMIPRKELDDHLENECP-KRPVPCPYSPYGCKERVPRED-LE 58 (60)
T ss_dssp HHTTSTTSEEE-T--------------------T--S-BEEECCCHHHHHHTTST-TSEEE-SS----S--EEEHHH-HH
T ss_pred CcccCCCCEeeCC--------------------CCCcccceeHHHHHHHHHccCC-CCcEECCCCCCCCCCccchhH-Hh
Confidence 7778999999997 2246677999999999998897 789999999999999999999 98
Q ss_pred HH
Q psy7814 181 KH 182 (460)
Q Consensus 181 ~H 182 (460)
+|
T Consensus 59 ~H 60 (60)
T PF02176_consen 59 EH 60 (60)
T ss_dssp HC
T ss_pred CC
Confidence 87
No 24
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=3.2e-09 Score=109.46 Aligned_cols=128 Identities=20% Similarity=0.350 Sum_probs=94.9
Q ss_pred EEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCCCCeEEEEEEEecCCCCCCC--CCCCCceeEEEE
Q psy7814 312 VYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDIL--DWPFVGRIRFTA 389 (460)
Q Consensus 312 ~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~~~~lS~~l~l~~g~~D~~l--~Wp~~~~~~l~l 389 (460)
.|.|+|++||.+-+ ...||+|-+| |+.|.|.++|.|.....+||||.....+.+..- .|-+-++|-|.|
T Consensus 40 sftW~vk~wsel~~-------k~~Sp~F~vg--~~twki~lfPqG~nq~~~sVyLe~~pqe~e~~~gk~~~ccaqFaf~I 110 (1089)
T COG5077 40 SFTWKVKRWSELAK-------KVESPPFSVG--GHTWKIILFPQGNNQCNVSVYLEYEPQELEETGGKYYDCCAQFAFDI 110 (1089)
T ss_pred ccceecCChhhhhh-------hccCCccccc--CeeEEEEEecccCCccccEEEEEeccchhhhhcCcchhhhhheeeec
Confidence 58999999999832 4899999887 999999999999875559999988865544322 388889999999
Q ss_pred EcCCC-CCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccC--CCCcccccCCeEEEEEEEeecc
Q psy7814 390 LNTSS-EFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLD--PGRGFLMEDDTFVIKTQVTEMT 459 (460)
Q Consensus 390 ldq~~-~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~--~~~~~yl~dD~l~i~~~v~v~~ 459 (460)
-+... .-.. +. ...+.|..- ...|||..|+.+.+|.. .|...|+.++++.|++.|.|++
T Consensus 111 s~p~~pti~~---iN--~sHhrFs~~------~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlk 172 (1089)
T COG5077 111 SNPKYPTIEY---IN--KSHHRFSME------STDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLK 172 (1089)
T ss_pred CCCCCCchhh---hh--ccccccccc------ccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEe
Confidence 88432 2111 00 111345322 24899999999999864 2334499999999999998875
No 25
>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=98.78 E-value=4.2e-09 Score=69.80 Aligned_cols=38 Identities=42% Similarity=1.187 Sum_probs=32.1
Q ss_pred ccccccccccce-ecCCCCcccHhhHHHHHhcCCCCCCCCC
Q psy7814 19 CSICLEYLKDAI-LTSCGHKFCAACIDSWIDVKGKNYCPID 58 (460)
Q Consensus 19 C~iC~~~l~~p~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 58 (460)
|+||.+.+.+|+ .++|||.||..|+.+++..+. .||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~--~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNP--KCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTS--B-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcC--CCcCC
Confidence 899999999995 589999999999999998843 59987
No 26
>KOG0823|consensus
Probab=98.74 E-value=4.8e-09 Score=94.71 Aligned_cols=57 Identities=32% Similarity=0.813 Sum_probs=48.4
Q ss_pred CCCcccccccccccccceecCCCCcccHhhHHHHHhcCCC-CCCCCCccccccccccc
Q psy7814 13 LDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGK-NYCPIDEKVLTKDDIFI 69 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~-~~CP~Cr~~~~~~~~~~ 69 (460)
....|.|.||++..++||++.|||.||..||.+|+..... ..||+|+..++.+.+.|
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP 101 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP 101 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence 3457899999999999999999999999999999987433 35899999888766544
No 27
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.74 E-value=9.2e-09 Score=102.28 Aligned_cols=66 Identities=27% Similarity=0.617 Sum_probs=54.1
Q ss_pred CCCCCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHH
Q psy7814 10 KLNLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREIL 78 (460)
Q Consensus 10 ~~~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~ 78 (460)
...++..+.|+||..++.+|++++|||.||..||..++.... .||.|+..+....+.++..+ ++|.
T Consensus 20 l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~--~CP~Cr~~~~~~~Lr~N~~L-~~iV 85 (397)
T TIGR00599 20 LYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP--KCPLCRAEDQESKLRSNWLV-SEIV 85 (397)
T ss_pred ccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCC--CCCCCCCccccccCccchHH-HHHH
Confidence 357888999999999999999999999999999999997654 49999999887655554444 4443
No 28
>KOG3002|consensus
Probab=98.69 E-value=1.6e-08 Score=97.14 Aligned_cols=93 Identities=17% Similarity=0.320 Sum_probs=81.8
Q ss_pred CCCcccccccccccccce-ecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHHhccccCCC--CCC
Q psy7814 13 LDPRFECSICLEYLKDAI-LTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREILENNLTCPY--KQC 89 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n--~gC 89 (460)
..+-+.||+|...+..|+ |..-||..|.+|-.+.. ..||.|+.+++. ++..+.++.+.+..|.|+| .||
T Consensus 45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~-----~~CP~Cr~~~g~---~R~~amEkV~e~~~vpC~~~~~GC 116 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVS-----NKCPTCRLPIGN---IRCRAMEKVAEAVLVPCKNAKLGC 116 (299)
T ss_pred chhhccCchhhccCcccceecCCCcEehhhhhhhhc-----ccCCcccccccc---HHHHHHHHHHHhceecccccccCC
Confidence 456788999999999998 58889999999976543 249999999983 4888899999999999999 899
Q ss_pred CceeeccccccccccccccccCCC
Q psy7814 90 SSQLSIPEYESHVNTCYLKYSQPS 113 (460)
Q Consensus 90 ~~~~~l~~l~~H~~~C~~~~~~C~ 113 (460)
.|.+...+-..|.+.|.|.+..||
T Consensus 117 ~~~~~Y~~~~~HE~~C~f~~~~CP 140 (299)
T KOG3002|consen 117 TKSFPYGEKSKHEKVCEFRPCSCP 140 (299)
T ss_pred ceeeccccccccccccccCCcCCC
Confidence 999999999999999999888886
No 29
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.67 E-value=1.4e-08 Score=93.65 Aligned_cols=63 Identities=29% Similarity=0.565 Sum_probs=49.3
Q ss_pred CCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHH
Q psy7814 13 LDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREIL 78 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~ 78 (460)
+..-+.|.||...++.|+.++|||+||.-||.+.+..+.. ||+|+.+..... .+-....++|.
T Consensus 22 LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~--CP~Cr~~~~esr-lr~~s~~~ei~ 84 (391)
T COG5432 22 LDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPF--CPVCREDPCESR-LRGSSGSREIN 84 (391)
T ss_pred chhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCC--CccccccHHhhh-cccchhHHHHH
Confidence 4556889999999999999999999999999999987763 999998765432 23344444443
No 30
>KOG0320|consensus
Probab=98.66 E-value=1.3e-08 Score=87.85 Aligned_cols=56 Identities=30% Similarity=0.761 Sum_probs=45.6
Q ss_pred CCCCcccccccccccccce--ecCCCCcccHhhHHHHHhcCCCCCCCCCccccccccccc
Q psy7814 12 NLDPRFECSICLEYLKDAI--LTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFI 69 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~--~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~ 69 (460)
.-...|.||||+.-+.+-+ -+.|||.||+.||+..+..+.. ||+|++.++..++++
T Consensus 127 ~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~--CP~C~kkIt~k~~~r 184 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNK--CPTCRKKITHKQFHR 184 (187)
T ss_pred ccccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCC--CCCcccccchhhhee
Confidence 3345699999999997644 4899999999999999988764 999999887655543
No 31
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.64 E-value=2.2e-08 Score=67.18 Aligned_cols=40 Identities=43% Similarity=1.173 Sum_probs=35.5
Q ss_pred ccccccccccce-ecCCCCcccHhhHHHHHhcCCCCCCCCC
Q psy7814 19 CSICLEYLKDAI-LTSCGHKFCAACIDSWIDVKGKNYCPID 58 (460)
Q Consensus 19 C~iC~~~l~~p~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 58 (460)
|+||.+.+.+|+ .++|||.||..|+.+++...+...||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999999 6899999999999999985444569987
No 32
>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=98.64 E-value=2.2e-08 Score=70.29 Aligned_cols=47 Identities=36% Similarity=0.843 Sum_probs=39.5
Q ss_pred CcccccccccccccceecCCCCc-ccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 15 PRFECSICLEYLKDAILTSCGHK-FCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
++..|+||.+...+++..+|||. ||..|+.+++.... .||+||.++.
T Consensus 1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~--~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKK--KCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTS--BBTTTTBB-S
T ss_pred CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCC--CCCcCChhhc
Confidence 35789999999999999999999 99999999998554 4999999875
No 33
>KOG0287|consensus
Probab=98.62 E-value=9.9e-09 Score=96.63 Aligned_cols=64 Identities=34% Similarity=0.780 Sum_probs=53.7
Q ss_pred CCCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHH
Q psy7814 12 NLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREIL 78 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~ 78 (460)
.+.+-|.|.||.++|+.|+.++|||+||.-||..++..+.. ||.|..++....+ +.+.+..+|.
T Consensus 19 ~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~--CP~C~~~~~Es~L-r~n~il~Eiv 82 (442)
T KOG0287|consen 19 TLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQ--CPTCCVTVTESDL-RNNRILDEIV 82 (442)
T ss_pred hhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCC--CCceecccchhhh-hhhhHHHHHH
Confidence 45677999999999999999999999999999999987764 9999999887655 5555555554
No 34
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.58 E-value=8.6e-09 Score=73.84 Aligned_cols=57 Identities=33% Similarity=0.716 Sum_probs=29.5
Q ss_pred CCCccccccccccccccee-cCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHH
Q psy7814 13 LDPRFECSICLEYLKDAIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYT 73 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 73 (460)
++..+.|++|..++++||. ..|.|.||+.|+...+.. .||+|+.|....++..++.+
T Consensus 4 le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~----~CPvC~~Paw~qD~~~NrqL 61 (65)
T PF14835_consen 4 LEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS----ECPVCHTPAWIQDIQINRQL 61 (65)
T ss_dssp HHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT----B-SSS--B-S-SS----HHH
T ss_pred HHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC----CCCCcCChHHHHHHHhhhhh
Confidence 3456889999999999997 699999999999875432 39999999887666554444
No 35
>KOG0317|consensus
Probab=98.58 E-value=3.4e-08 Score=91.86 Aligned_cols=54 Identities=31% Similarity=0.720 Sum_probs=47.2
Q ss_pred CCCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCccccccccc
Q psy7814 12 NLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDI 67 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~ 67 (460)
-.+....|.+|++...+|..++|||.||.+||..|...+. .||.||.++.++++
T Consensus 235 i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~--eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA--ECPLCREKFQPSKV 288 (293)
T ss_pred CCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc--CCCcccccCCCcce
Confidence 3445689999999999999999999999999999998776 49999999887653
No 36
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=98.50 E-value=6.4e-08 Score=65.94 Aligned_cols=40 Identities=38% Similarity=0.989 Sum_probs=33.0
Q ss_pred cccccccccc---cceecCCCCcccHhhHHHHHhcCCCCCCCCCc
Q psy7814 18 ECSICLEYLK---DAILTSCGHKFCAACIDSWIDVKGKNYCPIDE 59 (460)
Q Consensus 18 ~C~iC~~~l~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr 59 (460)
.|+||.+.+. .++.++|||.||.+||.+|++.+. .||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~--~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNN--SCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSS--B-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCC--cCCccC
Confidence 5999999984 344579999999999999998865 499996
No 37
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.47 E-value=9.3e-08 Score=64.15 Aligned_cols=37 Identities=32% Similarity=0.933 Sum_probs=23.2
Q ss_pred cccccccccc----ceecCCCCcccHhhHHHHHhcC--CCCCCC
Q psy7814 19 CSICLEYLKD----AILTSCGHKFCAACIDSWIDVK--GKNYCP 56 (460)
Q Consensus 19 C~iC~~~l~~----p~~~~CgH~fC~~Ci~~~~~~~--~~~~CP 56 (460)
||||.+ +.+ |+.++|||+||.+|+.++...+ +.+.||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 877 8999999999999999998864 345677
No 38
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.42 E-value=1.8e-07 Score=86.95 Aligned_cols=50 Identities=38% Similarity=0.856 Sum_probs=40.8
Q ss_pred CCCcccccccccccccc--------eecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 13 LDPRFECSICLEYLKDA--------ILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p--------~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
..+...|+||.+.+.++ +.++|||.||..||.+|+.... .||+||.++..
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~--tCPlCR~~~~~ 228 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN--TCPVCRTPFIS 228 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC--CCCCCCCEeeE
Confidence 34568899999987653 3468999999999999997655 59999998763
No 39
>KOG0311|consensus
Probab=98.35 E-value=5.3e-08 Score=92.77 Aligned_cols=72 Identities=29% Similarity=0.470 Sum_probs=61.4
Q ss_pred CCCCCCCcccccccccccccceec-CCCCcccHhhHHHHHhcCCCCCCCCCcccccc-cccccchHHHHHHHhcc
Q psy7814 9 NKLNLDPRFECSICLEYLKDAILT-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK-DDIFIDNYTRREILENN 81 (460)
Q Consensus 9 ~~~~~~~~l~C~iC~~~l~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~-~~~~~~~~~~~~i~~l~ 81 (460)
....+...+.|+||+.++...+.+ .|+|+||.+||...++.++. .||.||+.+.. ..+.+|+.+...|..+.
T Consensus 36 ~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~-ecptcRk~l~SkrsLr~Dp~fdaLis~i~ 109 (381)
T KOG0311|consen 36 DLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNN-ECPTCRKKLVSKRSLRIDPNFDALISKIY 109 (381)
T ss_pred cHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCC-CCchHHhhccccccCCCCccHHHHHHHHh
Confidence 344567789999999999999885 89999999999999998875 69999999886 67888888887777664
No 40
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.26 E-value=6.1e-07 Score=92.93 Aligned_cols=103 Identities=14% Similarity=0.208 Sum_probs=78.3
Q ss_pred hccccCCCCCCCceeeccccccccccccccccCCC---------cccccCCCCCCCCCCC------------C-CCccCC
Q psy7814 79 ENNLTCPYKQCSSQLSIPEYESHVNTCYLKYSQPS---------VEDITDSPTSSFRNTS------------G-IPTNKR 136 (460)
Q Consensus 79 ~l~v~C~n~gC~~~~~l~~l~~H~~~C~~~~~~C~---------~~~~~~h~~c~~~~~~------------~-~~~~~~ 136 (460)
.-.|.|+| |.|.+.+.++..|+..|.|..+.|| +.++..|..|++.... + .|+.|.
T Consensus 405 ~~~V~C~N--C~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~s~LekH~~~~Hkpv~Cp 482 (567)
T PLN03086 405 VDTVECRN--CKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQGEMEKHMKVFHEPLQCP 482 (567)
T ss_pred CCeEECCC--CCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccchHHHHHHHHhcCCCccCC
Confidence 34678987 9999999999999999999999998 2578888777653221 0 122223
Q ss_pred CCccccccchhhhhhhcCCCCCccccccccccccccccch----------hHHHHHhhhchH
Q psy7814 137 NSKILTVTVFPEHLNMQGSSNENFPCKFYQVGCREVFKSQ----------ALLEKHYDLKTS 188 (460)
Q Consensus 137 c~~~~~r~~l~~H~~~~c~~~~~v~Cp~~~~GC~~~~~r~----------~~l~~H~~~~~~ 188 (460)
|+..+.|.+|..|+...|| ..++.|+| |...+++. ..|..|+..+-.
T Consensus 483 Cg~~~~R~~L~~H~~thCp-~Kpi~C~f----C~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~ 539 (567)
T PLN03086 483 CGVVLEKEQMVQHQASTCP-LRLITCRF----CGDMVQAGGSAMDVRDRLRGMSEHESICGS 539 (567)
T ss_pred CCCCcchhHHHhhhhccCC-CCceeCCC----CCCccccCccccchhhhhhhHHHHHHhcCC
Confidence 8888899999999998997 78999999 99888643 127777665433
No 41
>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=98.26 E-value=1.1e-06 Score=84.07 Aligned_cols=63 Identities=24% Similarity=0.571 Sum_probs=49.5
Q ss_pred Ccccccccccc-cccce---e-cCCCCcccHhhHHHHHhcCCCCCCCCCcccccccc----cccchHHHHHHH
Q psy7814 15 PRFECSICLEY-LKDAI---L-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDD----IFIDNYTRREIL 78 (460)
Q Consensus 15 ~~l~C~iC~~~-l~~p~---~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~----~~~~~~~~~~i~ 78 (460)
++..||+|..- ...|. . ..|||.||.+|+...+..+. ..||.|+.++.... +|.|..+.+++.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~-~~CP~C~~~lrk~~fr~q~F~D~~vekEV~ 73 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGS-GSCPECDTPLRKNNFRVQLFEDPTVEKEVD 73 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCC-CCCCCCCCccchhhccccccccHHHHHHHH
Confidence 35789999993 34553 2 27999999999999876543 35999999988765 889999988886
No 42
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.25 E-value=9.1e-07 Score=60.04 Aligned_cols=43 Identities=42% Similarity=1.106 Sum_probs=36.0
Q ss_pred cccccccccccceec-CCCCcccHhhHHHHHhcCCCCCCCCCccc
Q psy7814 18 ECSICLEYLKDAILT-SCGHKFCAACIDSWIDVKGKNYCPIDEKV 61 (460)
Q Consensus 18 ~C~iC~~~l~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 61 (460)
.|+||...+.+++.+ +|||.||..|+..|+.... ..||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~-~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGK-NTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCc-CCCCCCCCc
Confidence 499999999888875 5999999999999988633 359999875
No 43
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.24 E-value=7.9e-07 Score=60.48 Aligned_cols=41 Identities=41% Similarity=0.894 Sum_probs=32.8
Q ss_pred ccccccccc---ccceecCCCCcccHhhHHHHHhcCCCCCCCCCcc
Q psy7814 18 ECSICLEYL---KDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEK 60 (460)
Q Consensus 18 ~C~iC~~~l---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 60 (460)
.|++|...+ ..|+.++|||+||..|+.... .....||+|++
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 346678999999999999987 22235999974
No 44
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.15 E-value=1.9e-06 Score=56.39 Aligned_cols=39 Identities=51% Similarity=1.234 Sum_probs=33.5
Q ss_pred ccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCC
Q psy7814 19 CSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPID 58 (460)
Q Consensus 19 C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 58 (460)
|+||......++.++|||.||..|+..|+.... ..||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~-~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGN-NTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCc-CCCCCC
Confidence 789999988888999999999999999987333 359987
No 45
>PHA02926 zinc finger-like protein; Provisional
Probab=98.13 E-value=1.7e-06 Score=77.76 Aligned_cols=51 Identities=33% Similarity=0.826 Sum_probs=39.7
Q ss_pred CCCccccccccccccc---------ceecCCCCcccHhhHHHHHhcCC----CCCCCCCccccc
Q psy7814 13 LDPRFECSICLEYLKD---------AILTSCGHKFCAACIDSWIDVKG----KNYCPIDEKVLT 63 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~---------p~~~~CgH~fC~~Ci~~~~~~~~----~~~CP~Cr~~~~ 63 (460)
..++..|+||.+...+ ++..+|+|.||..||..|..... ...||.||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4567899999998744 23459999999999999987531 235999999876
No 46
>KOG2164|consensus
Probab=98.06 E-value=2.2e-06 Score=85.99 Aligned_cols=55 Identities=35% Similarity=0.735 Sum_probs=46.4
Q ss_pred cccccccccccccceecCCCCcccHhhHHHHHhcC---CCCCCCCCcccccccccccc
Q psy7814 16 RFECSICLEYLKDAILTSCGHKFCAACIDSWIDVK---GKNYCPIDEKVLTKDDIFID 70 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~---~~~~CP~Cr~~~~~~~~~~~ 70 (460)
.+.||||+....-|+.+.|||.||..||-.++... +...||+|+..+...++.+.
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv 243 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV 243 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence 78899999999999999999999999999988764 22469999998887665443
No 47
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=2.8e-06 Score=78.26 Aligned_cols=52 Identities=29% Similarity=0.706 Sum_probs=43.4
Q ss_pred CCcccccccccccccceecCCCCcccHhhHHH-HHhcCCCCCCCCCcccccccc
Q psy7814 14 DPRFECSICLEYLKDAILTSCGHKFCAACIDS-WIDVKGKNYCPIDEKVLTKDD 66 (460)
Q Consensus 14 ~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~-~~~~~~~~~CP~Cr~~~~~~~ 66 (460)
..+|.|+||.+....|..++|||.||..||-. |-..+.. .||.||+.....+
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~-~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYE-FCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccc-cCchhhhhccchh
Confidence 45899999999999999999999999999998 5444332 4999999877644
No 48
>KOG0978|consensus
Probab=97.91 E-value=3.6e-06 Score=88.55 Aligned_cols=56 Identities=29% Similarity=0.747 Sum_probs=49.0
Q ss_pred CCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCccccccccccc
Q psy7814 13 LDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFI 69 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~ 69 (460)
...-+.||+|..-..+.+.+.|||.||..|+...+..... .||.|+++|..+++.+
T Consensus 640 yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqR-KCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 640 YKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQR-KCPKCNAAFGANDVHR 695 (698)
T ss_pred HHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcC-CCCCCCCCCCcccccc
Confidence 4567899999998899999999999999999999887665 5999999999887654
No 49
>KOG2177|consensus
Probab=97.71 E-value=1.2e-05 Score=78.91 Aligned_cols=49 Identities=37% Similarity=0.905 Sum_probs=42.6
Q ss_pred CCCCCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcc
Q psy7814 10 KLNLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEK 60 (460)
Q Consensus 10 ~~~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 60 (460)
...+.+.+.|+||.+.+.+|+.++|||.||..|+..++. ....||.|+.
T Consensus 7 ~~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 7 LEVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred hhhccccccChhhHHHhhcCccccccchHhHHHHHHhcC--CCcCCcccCC
Confidence 346778899999999999997789999999999999987 3346999995
No 50
>KOG1987|consensus
Probab=97.66 E-value=0.00021 Score=70.00 Aligned_cols=119 Identities=21% Similarity=0.334 Sum_probs=84.9
Q ss_pred EEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCCCCeEEEEEEEecCCCCCCCCCCCCceeEEEEEcC
Q psy7814 313 YFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDILDWPFVGRIRFTALNT 392 (460)
Q Consensus 313 ~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~~~~lS~~l~l~~g~~D~~l~Wp~~~~~~l~lldq 392 (460)
+.|.|.+|+... ..+||.+|-.+ |=+|++.+||+|+ ++|.|+.+.... .|-+.+.++|.+.||
T Consensus 6 ~~~~~~~~~~~~-------l~~ys~~~~~~--~~~~~~~~~~~~~---~~~~~~~~~~~~-----~~~~~~~~~l~v~n~ 68 (297)
T KOG1987|consen 6 FTWVISNFSSVG-------LVIYSNGFVKG--GCKWRLSAYPKGN---YLSLTLSVSDSP-----GWERYAKLRLTVVNQ 68 (297)
T ss_pred cceeeccCcchh-------hhccccceeec--CceEEEEEecCCC---EEEEEEEeccCC-----CcceeEEEEEEEccC
Confidence 449999999873 56899999886 7788999999997 789999886554 799999999999999
Q ss_pred CCCCe-eeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccCCeEEEEEEEee
Q psy7814 393 SSEFS-ITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVTE 457 (460)
Q Consensus 393 ~~~~~-~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~v 457 (460)
...+. .... ... ..|... .-...||+..+++...+.+.. +||+.+..+.+-..+.|
T Consensus 69 ~~~~~~~~~~--~~~--~~~~~~----~~~~~~g~~~~~~~~~~~~~~-~g~~~~~~~~~~a~~~V 125 (297)
T KOG1987|consen 69 KSEKYLSTVE--EGF--SWFRFN----KVLKEWGFGKMLPLTLLIDCS-NGFLVAHKLVLVARSEV 125 (297)
T ss_pred CCcceeeeee--eeE--Eecccc----ccccccCcccccChHHhhccc-CcEEEcCceEEEeeecc
Confidence 87643 2110 111 111111 002379999999998887653 44999877776665444
No 51
>KOG2879|consensus
Probab=97.62 E-value=4.2e-05 Score=70.85 Aligned_cols=53 Identities=23% Similarity=0.409 Sum_probs=44.6
Q ss_pred CCCCCcccccccccccccceec-CCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 11 LNLDPRFECSICLEYLKDAILT-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 11 ~~~~~~l~C~iC~~~l~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
+.-...-+||+|+.....|.+. +|||.||..|+.........+.||.|+.+..
T Consensus 234 s~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3456678899999999999995 7999999999998876555567999998765
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.58 E-value=3.1e-05 Score=55.47 Aligned_cols=45 Identities=29% Similarity=0.679 Sum_probs=31.6
Q ss_pred CCccccccccccccccee-cCCCCcccHhhHHHHHhcCCCCCCCCC
Q psy7814 14 DPRFECSICLEYLKDAIL-TSCGHKFCAACIDSWIDVKGKNYCPID 58 (460)
Q Consensus 14 ~~~l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~C 58 (460)
...+.|||.+.++.+||. ..|||+|.+..|..++...+...||.-
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~ 54 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVA 54 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCC
Confidence 346899999999999998 599999999999999955444469984
No 53
>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=97.56 E-value=5.6e-05 Score=57.40 Aligned_cols=39 Identities=41% Similarity=0.998 Sum_probs=31.7
Q ss_pred ccccccccccc------------ee-cCCCCcccHhhHHHHHhcCCCCCCCCCc
Q psy7814 19 CSICLEYLKDA------------IL-TSCGHKFCAACIDSWIDVKGKNYCPIDE 59 (460)
Q Consensus 19 C~iC~~~l~~p------------~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr 59 (460)
|+||+..+.+| +. ..|||.|...||.+|+.... .||+||
T Consensus 22 C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~--~CP~CR 73 (73)
T PF12678_consen 22 CAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN--TCPLCR 73 (73)
T ss_dssp ETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS--B-TTSS
T ss_pred ccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC--cCCCCC
Confidence 99999999432 33 48999999999999998766 499997
No 54
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.52 E-value=9.2e-05 Score=69.09 Aligned_cols=64 Identities=25% Similarity=0.527 Sum_probs=51.1
Q ss_pred Ccccccccccccccceec-CCCCcccHhhHHHHHhcCCCCCCCCCccc-ccccccccchHHHHHHHh
Q psy7814 15 PRFECSICLEYLKDAILT-SCGHKFCAACIDSWIDVKGKNYCPIDEKV-LTKDDIFIDNYTRREILE 79 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~-~~~~~~~~~~~~~~~i~~ 79 (460)
-.|.|++|..++++|+.+ +|||.||..||...+-... +.||.|... +..+.+.+|.....++..
T Consensus 273 i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsD-f~CpnC~rkdvlld~l~pD~dk~~EvE~ 338 (427)
T COG5222 273 ISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSD-FKCPNCSRKDVLLDGLTPDIDKKLEVEK 338 (427)
T ss_pred ccccCcchhhhhhCcccCccccchHHHHHHhhhhhhcc-ccCCCcccccchhhccCccHHHHHHHHH
Confidence 348999999999999987 8999999999998887665 469999753 444667777776666654
No 55
>KOG2660|consensus
Probab=97.50 E-value=4.2e-05 Score=72.89 Aligned_cols=70 Identities=31% Similarity=0.643 Sum_probs=54.1
Q ss_pred CCCCCCCccccccccccccccee-cCCCCcccHhhHHHHHhcCCCCCCCCCcccccc----cccccchHHHHHHHhc
Q psy7814 9 NKLNLDPRFECSICLEYLKDAIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK----DDIFIDNYTRREILEN 80 (460)
Q Consensus 9 ~~~~~~~~l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~----~~~~~~~~~~~~i~~l 80 (460)
.-..+....+|.+|..++.+|.. +.|-|+||++||.+.+.... .||.|...+.. ..+..|+.++..+..|
T Consensus 8 k~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~--~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKL 82 (331)
T KOG2660|consen 8 KLTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESK--YCPTCDIVIHKTHPLLNIRSDRTLQDIVYKL 82 (331)
T ss_pred hhhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhc--cCCccceeccCccccccCCcchHHHHHHHHH
Confidence 34467778999999999999997 69999999999999998854 49999987654 2455566555444444
No 56
>KOG4159|consensus
Probab=97.50 E-value=5.3e-05 Score=75.80 Aligned_cols=55 Identities=31% Similarity=0.773 Sum_probs=47.1
Q ss_pred CCCCCCCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 8 NNKLNLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 8 ~~~~~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
+....+..+|.|.||...+..|+.++|||.||..|+.+.+.... .||.|+.++..
T Consensus 76 s~~~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~--~cp~Cr~~l~e 130 (398)
T KOG4159|consen 76 SGPEEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQET--ECPLCRDELVE 130 (398)
T ss_pred ccCccccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCC--CCccccccccc
Confidence 34455678999999999999999999999999999999877544 49999988774
No 57
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.48 E-value=7.4e-05 Score=65.67 Aligned_cols=61 Identities=21% Similarity=0.470 Sum_probs=46.1
Q ss_pred CcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHH
Q psy7814 15 PRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREIL 78 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~ 78 (460)
-.|.|.||..-+..|+.+.|||.||..|..+-.+.+. .|-+|++...-. ...+..+.+.+.
T Consensus 195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~--~C~~Cgk~t~G~-f~V~~d~~kmL~ 255 (259)
T COG5152 195 IPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGD--ECGVCGKATYGR-FWVVSDLQKMLN 255 (259)
T ss_pred CceeehhchhhccchhhhhcchhHHHHHHHHHhccCC--cceecchhhccc-eeHHhhHHHHHh
Confidence 3488999999999999999999999999998776554 499998765432 233444444443
No 58
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=97.07 E-value=0.00021 Score=65.56 Aligned_cols=45 Identities=11% Similarity=0.230 Sum_probs=22.7
Q ss_pred cchHHHHHHHhccccCCC--CCCCceeeccccccccccccccccCCC
Q psy7814 69 IDNYTRREILENNLTCPY--KQCSSQLSIPEYESHVNTCYLKYSQPS 113 (460)
Q Consensus 69 ~~~~~~~~i~~l~v~C~n--~gC~~~~~l~~l~~H~~~C~~~~~~C~ 113 (460)
++..+++.+..+.+.|+| .||.+.....+...|...|+|++..||
T Consensus 2 R~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~CP 48 (198)
T PF03145_consen 2 RNRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFRPCSCP 48 (198)
T ss_dssp -------------EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE-S
T ss_pred CcHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCcCCcCC
Confidence 345667777789999999 799999999999999999998887665
No 59
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=97.04 E-value=0.00014 Score=52.85 Aligned_cols=52 Identities=15% Similarity=0.289 Sum_probs=36.1
Q ss_pred ccccCCCCCCCceeeccccccccc-cccccccCCCcccccCCCCCCCCCCCCCCccCCCCccccccchhhh
Q psy7814 80 NNLTCPYKQCSSQLSIPEYESHVN-TCYLKYSQPSVEDITDSPTSSFRNTSGIPTNKRNSKILTVTVFPEH 149 (460)
Q Consensus 80 l~v~C~n~gC~~~~~l~~l~~H~~-~C~~~~~~C~~~~~~~h~~c~~~~~~~~~~~~~c~~~~~r~~l~~H 149 (460)
..|.|||.+|...+...+|..|+. +|++..+.|+.. ..+|...++|.+|.+|
T Consensus 8 ~~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~------------------~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYS------------------PYGCKERVPREDLEEH 60 (60)
T ss_dssp SEEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----------------------S--EEEHHHHHHC
T ss_pred CEeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCC------------------CCCCCCccchhHHhCC
Confidence 458899888888899999999996 999999999611 1369999999999887
No 60
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.96 E-value=0.00094 Score=69.68 Aligned_cols=97 Identities=16% Similarity=0.344 Sum_probs=68.5
Q ss_pred CCCCCcccccccccccchHHHHHHHhccccCCCCCCCceeecccccccc-ccccccccCCCcccccCCCCCCCCCCCCCC
Q psy7814 54 YCPIDEKVLTKDDIFIDNYTRREILENNLTCPYKQCSSQLSIPEYESHV-NTCYLKYSQPSVEDITDSPTSSFRNTSGIP 132 (460)
Q Consensus 54 ~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n~gC~~~~~l~~l~~H~-~~C~~~~~~C~~~~~~~h~~c~~~~~~~~~ 132 (460)
.|+.|+..+....+ .....+-..++.|+ |+......+|..|. ..|+..++.|+
T Consensus 455 ~C~~Cgk~f~~s~L----ekH~~~~Hkpv~Cp---Cg~~~~R~~L~~H~~thCp~Kpi~C~------------------- 508 (567)
T PLN03086 455 HCEKCGQAFQQGEM----EKHMKVFHEPLQCP---CGVVLEKEQMVQHQASTCPLRLITCR------------------- 508 (567)
T ss_pred cCCCCCCccchHHH----HHHHHhcCCCccCC---CCCCcchhHHHhhhhccCCCCceeCC-------------------
Confidence 48888777643222 11222224677885 87777777788887 57888888885
Q ss_pred ccCCCCcccccc-----------chhhhhhhcCCCCCccccccccccccccccchhHHHHHhhhc
Q psy7814 133 TNKRNSKILTVT-----------VFPEHLNMQGSSNENFPCKFYQVGCREVFKSQALLEKHYDLK 186 (460)
Q Consensus 133 ~~~~c~~~~~r~-----------~l~~H~~~~c~~~~~v~Cp~~~~GC~~~~~r~~~l~~H~~~~ 186 (460)
.|+..+++. .|..|... |+ ...+.|.. |+..+..++ |..|+...
T Consensus 509 ---fC~~~v~~g~~~~d~~d~~s~Lt~HE~~-CG-~rt~~C~~----Cgk~Vrlrd-m~~H~~~~ 563 (567)
T PLN03086 509 ---FCGDMVQAGGSAMDVRDRLRGMSEHESI-CG-SRTAPCDS----CGRSVMLKE-MDIHQIAV 563 (567)
T ss_pred ---CCCCccccCccccchhhhhhhHHHHHHh-cC-CcceEccc----cCCeeeehh-HHHHHHHh
Confidence 566666543 68899876 44 67899976 999999999 99998654
No 61
>KOG0824|consensus
Probab=96.93 E-value=0.00046 Score=64.98 Aligned_cols=49 Identities=27% Similarity=0.474 Sum_probs=42.4
Q ss_pred cccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCccccccc
Q psy7814 16 RFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKD 65 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~ 65 (460)
.-.|+||..-..-|+.+.|+|.||.-||+........ .|++||.++..+
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~-~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKK-TCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcCCC-CCceecCCCCcc
Confidence 3469999999999999999999999999987766553 599999998864
No 62
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.88 E-value=0.00092 Score=51.46 Aligned_cols=48 Identities=27% Similarity=0.682 Sum_probs=35.0
Q ss_pred cccccccccccc-----------c-cee-cCCCCcccHhhHHHHHhcC-CCCCCCCCccccc
Q psy7814 16 RFECSICLEYLK-----------D-AIL-TSCGHKFCAACIDSWIDVK-GKNYCPIDEKVLT 63 (460)
Q Consensus 16 ~l~C~iC~~~l~-----------~-p~~-~~CgH~fC~~Ci~~~~~~~-~~~~CP~Cr~~~~ 63 (460)
+-.|.||...|. + |+. -.|+|.|-..||.+|++.+ ....||.||++..
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 445666665554 3 544 4899999999999999863 2346999998765
No 63
>KOG0802|consensus
Probab=96.83 E-value=0.00052 Score=72.82 Aligned_cols=48 Identities=35% Similarity=0.727 Sum_probs=41.3
Q ss_pred Cccccccccccccc-----ceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 15 PRFECSICLEYLKD-----AILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 15 ~~l~C~iC~~~l~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
.+-.|+||.+.+.. |..++|||.|+..|+..|++... .||.||..+..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q--tCP~CR~~~~~ 342 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ--TCPTCRTVLYD 342 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC--cCCcchhhhhc
Confidence 36789999999988 67789999999999999999866 49999984443
No 64
>KOG1813|consensus
Probab=96.81 E-value=0.00056 Score=64.26 Aligned_cols=46 Identities=28% Similarity=0.647 Sum_probs=40.0
Q ss_pred ccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 17 FECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 17 l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
|-|-||...+.+||.+.|||.||..|....++.+. .|++|......
T Consensus 242 f~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~--~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGE--KCYVCSQQTHG 287 (313)
T ss_pred ccccccccccccchhhcCCceeehhhhccccccCC--cceeccccccc
Confidence 56999999999999999999999999988876655 39999887653
No 65
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.72 E-value=0.0011 Score=64.11 Aligned_cols=50 Identities=22% Similarity=0.639 Sum_probs=41.0
Q ss_pred CCCcccccccccccccc-------------eecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 13 LDPRFECSICLEYLKDA-------------ILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p-------------~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
-.++-.|.||.+-+..| -.++|||.+-..|++.|.+.+. +||+||.|+.-
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ--TCPICr~p~if 346 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ--TCPICRRPVIF 346 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc--CCCcccCcccc
Confidence 45678899999975433 4589999999999999998876 49999998543
No 66
>KOG4172|consensus
Probab=96.71 E-value=0.00044 Score=47.65 Aligned_cols=46 Identities=35% Similarity=0.663 Sum_probs=38.2
Q ss_pred ccccccccccccceecCCCCc-ccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 17 FECSICLEYLKDAILTSCGHK-FCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 17 l~C~iC~~~l~~p~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
-.|.||.+-..+.|...|||. .|..|-.+.++..+ ..||+||.++.
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~-g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALH-GCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccC-CcCcchhhHHH
Confidence 469999999888888999994 59999999887543 35999998864
No 67
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.46 E-value=0.0024 Score=54.76 Aligned_cols=90 Identities=21% Similarity=0.423 Sum_probs=61.8
Q ss_pred CcccccccccccccceecCCC-------Cccc------HhhHHHHHhcC-----------------------------CC
Q psy7814 15 PRFECSICLEYLKDAILTSCG-------HKFC------AACIDSWIDVK-----------------------------GK 52 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~~Cg-------H~fC------~~Ci~~~~~~~-----------------------------~~ 52 (460)
++.+||||.+..-++|.+-|. --.| ..|+.++.... ..
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE 80 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence 356899999999999976442 1122 46777665421 01
Q ss_pred CCCCCCcccccccccccchHHHHHHHhccccCCCCCCCceeecccccccc-cccc
Q psy7814 53 NYCPIDEKVLTKDDIFIDNYTRREILENNLTCPYKQCSSQLSIPEYESHV-NTCY 106 (460)
Q Consensus 53 ~~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n~gC~~~~~l~~l~~H~-~~C~ 106 (460)
..||.||-.+.-= .....+.+.+...+-.|...+|.+.|.+.+|++|. ..-|
T Consensus 81 L~CPLCRG~V~GW--tvve~AR~~LN~K~RsC~~e~C~F~GtY~eLrKHar~~HP 133 (162)
T PF07800_consen 81 LACPLCRGEVKGW--TVVEPARRFLNAKKRSCSQESCSFSGTYSELRKHARSEHP 133 (162)
T ss_pred ccCccccCceece--EEchHHHHHhccCCccCcccccccccCHHHHHHHHHhhCC
Confidence 3599999887641 22333555566667778889999999999999998 4444
No 68
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.46 E-value=0.0016 Score=45.52 Aligned_cols=48 Identities=25% Similarity=0.475 Sum_probs=37.6
Q ss_pred CcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccc
Q psy7814 15 PRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDD 66 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 66 (460)
....|-.|...-...+.++|||..|..|+.-.-.+ .||.|+.++...+
T Consensus 6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rYn----gCPfC~~~~~~~~ 53 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERYN----GCPFCGTPFEFDD 53 (55)
T ss_pred cceeEEEccccccccccccccceeeccccChhhcc----CCCCCCCcccCCC
Confidence 44567788888788888999999999998765322 3999999987654
No 69
>KOG4628|consensus
Probab=96.37 E-value=0.0031 Score=61.70 Aligned_cols=47 Identities=32% Similarity=0.885 Sum_probs=39.4
Q ss_pred ccccccccccccc--e-ecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 17 FECSICLEYLKDA--I-LTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 17 l~C~iC~~~l~~p--~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
..|.||++-+..- + .++|+|.|-..||..|+...+. .||+|+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~-~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRT-FCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCc-cCCCCCCcCCC
Confidence 5899999988753 3 3799999999999999988765 49999986654
No 70
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.003 Score=59.49 Aligned_cols=47 Identities=26% Similarity=0.791 Sum_probs=37.8
Q ss_pred cccccccccccc--ce-ecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 17 FECSICLEYLKD--AI-LTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 17 l~C~iC~~~l~~--p~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
..|.||..-+.. -+ .++|.|.|-..|+.+|+..-.. .||+||.++.+
T Consensus 324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~-~CPvCrt~iPP 373 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSN-KCPVCRTAIPP 373 (374)
T ss_pred ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcc-cCCccCCCCCC
Confidence 679999997743 23 3799999999999999986543 49999998753
No 71
>KOG3039|consensus
Probab=96.07 E-value=0.004 Score=56.93 Aligned_cols=51 Identities=24% Similarity=0.479 Sum_probs=43.5
Q ss_pred Cccccccccccccccee----cCCCCcccHhhHHHHHhcCCCCCCCCCccccccccc
Q psy7814 15 PRFECSICLEYLKDAIL----TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDI 67 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~----~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~ 67 (460)
..|+||+|...|.+.+. -+|||.||..|.++.++... .||+|..++..+++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~--v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM--VDPVTDKPLKDRDI 274 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc--cccCCCCcCcccce
Confidence 68999999999987652 38999999999999987665 49999999887665
No 72
>KOG1002|consensus
Probab=95.80 E-value=0.0043 Score=62.62 Aligned_cols=51 Identities=33% Similarity=0.751 Sum_probs=42.9
Q ss_pred CcccccccccccccceecCCCCcccHhhHHHHHhc---CCCCCCCCCccccccc
Q psy7814 15 PRFECSICLEYLKDAILTSCGHKFCAACIDSWIDV---KGKNYCPIDEKVLTKD 65 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~---~~~~~CP~Cr~~~~~~ 65 (460)
....|.+|.++..+++...|-|.||+-|+.++... +...+||.|..++..+
T Consensus 535 ~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred CceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 45789999999999999999999999999888764 2224799999888764
No 73
>KOG1785|consensus
Probab=95.49 E-value=0.0053 Score=59.88 Aligned_cols=53 Identities=32% Similarity=0.787 Sum_probs=40.3
Q ss_pred cccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc-cccccc
Q psy7814 18 ECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK-DDIFID 70 (460)
Q Consensus 18 ~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~-~~~~~~ 70 (460)
.|-||-+-=.+-.+-+|||..|..|+..|-.+.....||.||..+.- +.+..|
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid 424 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIID 424 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccceeee
Confidence 58899887777666799999999999999755433469999998774 334333
No 74
>KOG4265|consensus
Probab=95.38 E-value=0.0096 Score=57.85 Aligned_cols=49 Identities=29% Similarity=0.650 Sum_probs=40.0
Q ss_pred CCcccccccccccccceecCCCCcc-cHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 14 DPRFECSICLEYLKDAILTSCGHKF-CAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 14 ~~~l~C~iC~~~l~~p~~~~CgH~f-C~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
+.--.|.||+.-.++-+.++|.|.. |..|.+...-..+ .||+||.++..
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n--~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTN--NCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhc--CCCccccchHh
Confidence 3357899999999999999999954 9999987654444 39999998763
No 75
>KOG0804|consensus
Probab=95.27 E-value=0.04 Score=54.97 Aligned_cols=49 Identities=29% Similarity=0.697 Sum_probs=39.0
Q ss_pred CCCCCcccccccccccccce---e-cCCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 11 LNLDPRFECSICLEYLKDAI---L-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 11 ~~~~~~l~C~iC~~~l~~p~---~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
..+-+--+||||++-+..-+ . +.|.|.|=.+|+.+|+.. .||+||-...
T Consensus 170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~----scpvcR~~q~ 222 (493)
T KOG0804|consen 170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS----SCPVCRYCQS 222 (493)
T ss_pred CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC----cChhhhhhcC
Confidence 34556678999999997655 3 599999999999999753 4999997655
No 76
>KOG1863|consensus
Probab=95.21 E-value=0.026 Score=64.75 Aligned_cols=124 Identities=11% Similarity=0.076 Sum_probs=87.6
Q ss_pred EEEEEECChHHHHHHhhhcCCeEeccCceeCCCccEEEEEEEeCCCCCCeEEEEEEEecCCCCCCCCCCCCceeEEEEEc
Q psy7814 312 VYFWKMYNFPAKLKEMKEINRYFYSACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDILDWPFVGRIRFTALN 391 (460)
Q Consensus 312 ~~~w~I~~fs~~~~~~~~~~~~~~S~~F~~~~~Gyk~~l~~yp~G~~~~~lS~~l~l~~g~~D~~l~Wp~~~~~~l~lld 391 (460)
.+.|.+.+...... ...||.|-. +|++|.+.+.|+|.....+++|+..+....+ -.|-+.+++.+.++|
T Consensus 28 ~~~~~~~~~~~~~~-------~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~s~~~~~~~~v~~ 96 (1093)
T KOG1863|consen 28 STTIDGIDDKSLLY-------RALSSNFGA--GATKWKILIAPKVNSLQSTRKKLEVMPSQSL--KSWSCGAQAVLRVKN 96 (1093)
T ss_pred cccccCcCcchhhh-------HhcCccccc--cccceeeeeccccCcccceeEEeeeccCCCC--cceEecchhhhcccc
Confidence 44577777666533 256777744 4999999999999876789999998866554 449999999999999
Q ss_pred C-CCCCeeeEEEecCCCCCCCCCCcccCCCccCCCccceeecccccCCCCcccccCCeEEEEEEEeec
Q psy7814 392 T-SSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFVIKTQVTEM 458 (460)
Q Consensus 392 q-~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~G~~~fi~~~~l~~~~~~~yl~dD~l~i~~~v~v~ 458 (460)
. ++...... +..+.|. .....|||..|+..+++.... .+|+.+|++.+++.|.+-
T Consensus 97 ~~~~~~~~~~-----~~~h~~~------~~~~dwg~~~~~~~~~~~~~~-~~~~~~~~~~~~~~v~v~ 152 (1093)
T KOG1863|consen 97 TIDNLPDPEK-----AIHHVFT------ADERDWGFSCFSTSSDIRKPE-DGYVRNGLEKLEKRVRVE 152 (1093)
T ss_pred CCCCchhhhh-----hhhhccc------ccccchhhccchhHhhccCcc-cccccccceeeeeeeeee
Confidence 2 22211111 1113332 222479999999999997654 339999999999988764
No 77
>KOG1734|consensus
Probab=95.11 E-value=0.0061 Score=56.54 Aligned_cols=51 Identities=25% Similarity=0.559 Sum_probs=41.2
Q ss_pred Ccccccccccccccce----------ecCCCCcccHhhHHHHHhcCCCCCCCCCccccccc
Q psy7814 15 PRFECSICLEYLKDAI----------LTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKD 65 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~----------~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~ 65 (460)
++-.|.+|..-+...+ +++|+|.|-..||..|--.++..+||.|++.+...
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 4567999999775433 57999999999999998776666899999877653
No 78
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.01 E-value=0.018 Score=39.36 Aligned_cols=43 Identities=26% Similarity=0.698 Sum_probs=21.6
Q ss_pred ccccccccccc---ee-cCCCCcccHhhHHHHHhcCCCCCCCCCcccc
Q psy7814 19 CSICLEYLKDA---IL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVL 62 (460)
Q Consensus 19 C~iC~~~l~~p---~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 62 (460)
||+|.+.+..- .. .+||..+|..|+.+.+.+.+. .||.||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g-~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGG-RCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-S-B-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCC-CCCCCCCCC
Confidence 78888887322 12 589999999999999874332 499999864
No 79
>KOG4692|consensus
Probab=95.00 E-value=0.013 Score=56.44 Aligned_cols=48 Identities=21% Similarity=0.490 Sum_probs=41.2
Q ss_pred CCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 14 DPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 14 ~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
.++-.||||.--...++..+|+|.-|+.||.+.+-+.+. |=.|++.+.
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~--CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKR--CFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhcCCe--eeEecceee
Confidence 566779999999899999999999999999999887654 888887654
No 80
>KOG1039|consensus
Probab=94.90 E-value=0.015 Score=57.19 Aligned_cols=50 Identities=28% Similarity=0.773 Sum_probs=39.8
Q ss_pred CCcccccccccccccce-----e---cCCCCcccHhhHHHHHhcCC-----CCCCCCCccccc
Q psy7814 14 DPRFECSICLEYLKDAI-----L---TSCGHKFCAACIDSWIDVKG-----KNYCPIDEKVLT 63 (460)
Q Consensus 14 ~~~l~C~iC~~~l~~p~-----~---~~CgH~fC~~Ci~~~~~~~~-----~~~CP~Cr~~~~ 63 (460)
..+..|.||.+...++. . ..|-|.||..||..|-.... ...||.||.+..
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45788999999887766 3 47999999999999985433 235999998755
No 81
>KOG4367|consensus
Probab=94.71 E-value=0.017 Score=56.99 Aligned_cols=38 Identities=21% Similarity=0.789 Sum_probs=33.6
Q ss_pred CCCcccccccccccccceecCCCCcccHhhHHHHHhcC
Q psy7814 13 LDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVK 50 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~ 50 (460)
+++++.|+||...+++|++++|||..|..|....+...
T Consensus 1 meeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~t 38 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYREPIILPCSHNLCQACARNILVQT 38 (699)
T ss_pred CcccccCceehhhccCceEeecccHHHHHHHHhhcccC
Confidence 35789999999999999999999999999998776543
No 82
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.54 E-value=0.031 Score=53.52 Aligned_cols=59 Identities=24% Similarity=0.430 Sum_probs=44.6
Q ss_pred CCCCccccccccccccc--cee--cCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHH
Q psy7814 12 NLDPRFECSICLEYLKD--AIL--TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYT 73 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~--p~~--~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 73 (460)
.-...|.|||....|.. +.. -+|||.|+..++.... ... .||+|..++...++.+-+..
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~--~Cp~c~~~f~~~DiI~Lnp~ 171 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSK--KCPVCGKPFTEEDIIPLNPP 171 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccc--cccccCCccccCCEEEecCC
Confidence 35678999999999953 233 3999999999999984 222 49999999998776554433
No 83
>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=94.29 E-value=0.046 Score=37.83 Aligned_cols=42 Identities=26% Similarity=0.730 Sum_probs=31.7
Q ss_pred ccccccc--ccccceecCCC-----CcccHhhHHHHHhcCCCCCCCCCc
Q psy7814 18 ECSICLE--YLKDAILTSCG-----HKFCAACIDSWIDVKGKNYCPIDE 59 (460)
Q Consensus 18 ~C~iC~~--~l~~p~~~~Cg-----H~fC~~Ci~~~~~~~~~~~CP~Cr 59 (460)
.|.||.. .-.+|...+|. +.+=.+|+.+|+..++...||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889987 33456666773 678899999999887655799985
No 84
>KOG1814|consensus
Probab=94.20 E-value=0.035 Score=54.86 Aligned_cols=91 Identities=20% Similarity=0.503 Sum_probs=53.1
Q ss_pred Cccccccccccccc--cee-cCCCCcccHhhHHHHHhcC---CC---CCCCCCcccccc--c---ccccchHH-------
Q psy7814 15 PRFECSICLEYLKD--AIL-TSCGHKFCAACIDSWIDVK---GK---NYCPIDEKVLTK--D---DIFIDNYT------- 73 (460)
Q Consensus 15 ~~l~C~iC~~~l~~--p~~-~~CgH~fC~~Ci~~~~~~~---~~---~~CP~Cr~~~~~--~---~~~~~~~~------- 73 (460)
..|.|.||..-... -.+ ++|+|.||+.|+..+.... +. ..||.+..+-.. . .+..+...
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe~l~ 262 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYEKLM 262 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHHHHH
Confidence 46889999997754 334 7999999999999887641 11 248876543221 1 11111111
Q ss_pred -HHHHHhc--cccCCCCCCCceeecccccccccccc
Q psy7814 74 -RREILEN--NLTCPYKQCSSQLSIPEYESHVNTCY 106 (460)
Q Consensus 74 -~~~i~~l--~v~C~n~gC~~~~~l~~l~~H~~~C~ 106 (460)
.+.+..+ .++||+.-|+... ..+...-+..|.
T Consensus 263 lqk~l~~msdv~yCPr~~Cq~p~-~~d~~~~l~~Cs 297 (445)
T KOG1814|consen 263 LQKTLELMSDVVYCPRACCQLPV-KQDPGRALAICS 297 (445)
T ss_pred HHHHHHhhcccccCChhhccCcc-ccCchhhhhhhc
Confidence 1112222 4899997777655 445555554444
No 85
>KOG1645|consensus
Probab=94.19 E-value=0.027 Score=55.45 Aligned_cols=57 Identities=33% Similarity=0.616 Sum_probs=42.9
Q ss_pred cccccccccccccce-----ecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchH
Q psy7814 16 RFECSICLEYLKDAI-----LTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNY 72 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~-----~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 72 (460)
--+||||++-...|. .+.|||.|-.+||++|+.......||.|...-..+.+++--+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~a 65 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEYA 65 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHHH
Confidence 457999999887664 369999999999999996433346999987766665554433
No 86
>KOG4275|consensus
Probab=94.16 E-value=0.0078 Score=56.49 Aligned_cols=44 Identities=30% Similarity=0.767 Sum_probs=36.5
Q ss_pred CcccccccccccccceecCCCCcc-cHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 15 PRFECSICLEYLKDAILTSCGHKF-CAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~~CgH~f-C~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
.+..|.||.+..++-+.++|||.. |..|-.+.- .||+||+.+..
T Consensus 299 ~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~------eCPICRqyi~r 343 (350)
T KOG4275|consen 299 TRRLCAICMDAPRDCVFLECGHMVTCTKCGKRMN------ECPICRQYIVR 343 (350)
T ss_pred HHHHHHHHhcCCcceEEeecCcEEeehhhccccc------cCchHHHHHHH
Confidence 378899999999999999999955 999966642 49999986643
No 87
>KOG3800|consensus
Probab=93.91 E-value=0.051 Score=51.32 Aligned_cols=60 Identities=27% Similarity=0.612 Sum_probs=42.4
Q ss_pred ccccccc-cccccee----cCCCCcccHhhHHHHHhcCCCCCCCCCccccccc----ccccchHHHHHHH
Q psy7814 18 ECSICLE-YLKDAIL----TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKD----DIFIDNYTRREIL 78 (460)
Q Consensus 18 ~C~iC~~-~l~~p~~----~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~----~~~~~~~~~~~i~ 78 (460)
.||+|.. .+.+|-. -+|||+.|.+|+.+.+.-+. ..||.|...+-.+ ++|-|..+.++..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~-~~CpeC~~iLRk~nfr~q~fED~~vekEv~ 70 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP-AQCPECMVILRKNNFRVQTFEDPTVEKEVD 70 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC-CCCCcccchhhhcccchhhcchhHHHHHHH
Confidence 4899987 4556642 38999999999999887554 3599999877653 3455555554443
No 88
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.80 E-value=0.051 Score=45.24 Aligned_cols=51 Identities=24% Similarity=0.573 Sum_probs=42.0
Q ss_pred Ccccccccccccccceec----CCCCcccHhhHHHHHhcCC-CCCCCCCccccccc
Q psy7814 15 PRFECSICLEYLKDAILT----SCGHKFCAACIDSWIDVKG-KNYCPIDEKVLTKD 65 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~----~CgH~fC~~Ci~~~~~~~~-~~~CP~Cr~~~~~~ 65 (460)
.-|.|.||.+...+..-+ .||-..|..|....|.... .+.||+|++++..+
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 578999999999988753 6999999999998776533 24699999998864
No 89
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=93.45 E-value=0.064 Score=40.34 Aligned_cols=30 Identities=40% Similarity=0.996 Sum_probs=26.4
Q ss_pred CCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 33 SCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
.|-|.|=..||.+|+..++ .||.|+++...
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~--~CPld~q~w~~ 82 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKG--VCPLDRQTWVL 82 (88)
T ss_pred ecchHHHHHHHHHHHhhCC--CCCCCCceeEE
Confidence 6999999999999999876 49999988754
No 90
>KOG1001|consensus
Probab=93.08 E-value=0.025 Score=61.09 Aligned_cols=49 Identities=33% Similarity=0.795 Sum_probs=40.8
Q ss_pred ccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccc
Q psy7814 17 FECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDD 66 (460)
Q Consensus 17 l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 66 (460)
+.|++|.+ ...++.+.|||.||..|+...+.......||.|+..+....
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 79999999 77888899999999999999887755445999987665433
No 91
>KOG0825|consensus
Probab=92.96 E-value=0.028 Score=59.48 Aligned_cols=47 Identities=28% Similarity=0.717 Sum_probs=37.8
Q ss_pred ccccccccccccccee---cCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 16 RFECSICLEYLKDAIL---TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~~---~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
.-.||+|..-+.+-.. ..|+|.||..||..|-+... +||+||..+..
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq--TCPiDR~EF~~ 172 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ--TCPVDRGEFGE 172 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc--cCchhhhhhhe
Confidence 3458899888776543 48999999999999988766 49999987654
No 92
>KOG0826|consensus
Probab=92.72 E-value=0.065 Score=51.43 Aligned_cols=51 Identities=25% Similarity=0.513 Sum_probs=42.5
Q ss_pred CCCCcccccccccccccceec-CCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 12 NLDPRFECSICLEYLKDAILT-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
.+.+.-.||+|..-..+|..+ .-|-.||..|+-.++.+.+. ||+-+.|...
T Consensus 296 l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~--CPVT~~p~~v 347 (357)
T KOG0826|consen 296 LPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGH--CPVTGYPASV 347 (357)
T ss_pred CCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCC--CCccCCcchH
Confidence 445667899999999999875 67999999999999987664 9998877654
No 93
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=92.67 E-value=0.044 Score=41.09 Aligned_cols=49 Identities=31% Similarity=0.721 Sum_probs=24.0
Q ss_pred cccccccccccc-c---cee----cCCCCcccHhhHHHHHhcC--CC-------CCCCCCcccccc
Q psy7814 16 RFECSICLEYLK-D---AIL----TSCGHKFCAACIDSWIDVK--GK-------NYCPIDEKVLTK 64 (460)
Q Consensus 16 ~l~C~iC~~~l~-~---p~~----~~CgH~fC~~Ci~~~~~~~--~~-------~~CP~Cr~~~~~ 64 (460)
+..|+||...+. + |.. ..|+..|=..|+.+|+... .. ..||.|+.++..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 467999998754 2 443 2689999999999999751 11 249999988763
No 94
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.09 E-value=0.074 Score=57.61 Aligned_cols=52 Identities=25% Similarity=0.639 Sum_probs=41.7
Q ss_pred CCCCcccccccccccc-----ccee--cCCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 12 NLDPRFECSICLEYLK-----DAIL--TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~-----~p~~--~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
.+...-.|+||-.++. -|.. ..|.|-|-..|+.+|++.++...||.||..++
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 3445667999999885 2443 37999999999999999988778999997654
No 95
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.75 E-value=0.12 Score=49.71 Aligned_cols=53 Identities=17% Similarity=0.516 Sum_probs=38.4
Q ss_pred CCCCcccccccccccccce----ecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccc
Q psy7814 12 NLDPRFECSICLEYLKDAI----LTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDD 66 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~----~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 66 (460)
.-++++ ||+|.+.+...- -++||-..|.-|+....++-+ ..||.||.......
T Consensus 11 edeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~ln-grcpacrr~y~den 67 (480)
T COG5175 11 EDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLN-GRCPACRRKYDDEN 67 (480)
T ss_pred cccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhcc-CCChHhhhhccccc
Confidence 344566 999999885322 268999999999998776533 24999998665543
No 96
>KOG1812|consensus
Probab=91.30 E-value=0.12 Score=52.21 Aligned_cols=86 Identities=35% Similarity=0.725 Sum_probs=52.6
Q ss_pred Ccccccccccccccc-e---ecCCCCcccHhhHHHHHhcC----CCCCCCCCcc--ccccc---ccccchH-------HH
Q psy7814 15 PRFECSICLEYLKDA-I---LTSCGHKFCAACIDSWIDVK----GKNYCPIDEK--VLTKD---DIFIDNY-------TR 74 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p-~---~~~CgH~fC~~Ci~~~~~~~----~~~~CP~Cr~--~~~~~---~~~~~~~-------~~ 74 (460)
...+|.||..-...+ . ...|+|.||..|+.+.+... ....||.-+. .++.. .+.+... +.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~llt~kl~e~~e~~~~ 224 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRKLLTPKLREMWEQRLK 224 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhhhcCHHHHHHHHHHHH
Confidence 367899999433333 2 35799999999999888743 2235886443 33332 2222211 11
Q ss_pred HHHH--hccccCCCCCCCceeecccccc
Q psy7814 75 REIL--ENNLTCPYKQCSSQLSIPEYES 100 (460)
Q Consensus 75 ~~i~--~l~v~C~n~gC~~~~~l~~l~~ 100 (460)
+++. .-.++||+..|.+.....++..
T Consensus 225 e~~i~~~~~~ycp~~~C~~l~~~~el~~ 252 (384)
T KOG1812|consen 225 EEVIPSLDRVYCPYPRCSSLMSKTELSS 252 (384)
T ss_pred HHhhhhhhcccCCCCCchHhhhhhhhcc
Confidence 1111 1255999999998888877765
No 97
>KOG3161|consensus
Probab=90.66 E-value=0.12 Score=53.79 Aligned_cols=73 Identities=18% Similarity=0.302 Sum_probs=46.2
Q ss_pred CCCCCCccccccccccc----ccceecCCCCcccHhhHHHHHhcCCCCCCCCCccccc--ccccccchHHHHHHH-hccc
Q psy7814 10 KLNLDPRFECSICLEYL----KDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLT--KDDIFIDNYTRREIL-ENNL 82 (460)
Q Consensus 10 ~~~~~~~l~C~iC~~~l----~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~--~~~~~~~~~~~~~i~-~l~v 82 (460)
+..+.+.+.|+||...+ ..|+.+.|||+.|..|++...+.... ||.+..... .++...+.++++.+. ...+
T Consensus 5 a~~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~scp--~~~De~~~~~~~~e~p~n~alL~~~~d~~~~ 82 (861)
T KOG3161|consen 5 ALKWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNASCP--TKRDEDSSLMQLKEEPRNYALLRREHDAQIV 82 (861)
T ss_pred chhhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhccCC--CCccccchhcChhhcchhHHHHHhhcchhhh
Confidence 44566788999998776 46888999999999999987754321 445543322 234444444444333 3334
Q ss_pred cC
Q psy7814 83 TC 84 (460)
Q Consensus 83 ~C 84 (460)
.|
T Consensus 83 ~~ 84 (861)
T KOG3161|consen 83 HI 84 (861)
T ss_pred hc
Confidence 55
No 98
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.47 E-value=0.24 Score=47.78 Aligned_cols=95 Identities=21% Similarity=0.433 Sum_probs=60.1
Q ss_pred CCCCCCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc----c----c--------------
Q psy7814 9 NKLNLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK----D----D-------------- 66 (460)
Q Consensus 9 ~~~~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~----~----~-------------- 66 (460)
..+.-+++-.|.||-.-+.--..++|+|..|.-|--+.-.--....||.|++.-.. . +
T Consensus 54 addtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI~D~~~~k~~~EK~ 133 (493)
T COG5236 54 ADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADITDRRQWKGREEKV 133 (493)
T ss_pred ccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcchhHhhhcccccce
Confidence 33455677889999998887778899999999998764322122249999864211 0 0
Q ss_pred --cccchHHHHHHH-hccccCCCCCCCcee-eccccccccc
Q psy7814 67 --IFIDNYTRREIL-ENNLTCPYKQCSSQL-SIPEYESHVN 103 (460)
Q Consensus 67 --~~~~~~~~~~i~-~l~v~C~n~gC~~~~-~l~~l~~H~~ 103 (460)
.+.+..+..+.. -|...||-..|..+. .+.++..|++
T Consensus 134 GI~y~~E~v~~E~~~LL~F~CP~skc~~~C~~~k~lk~H~K 174 (493)
T COG5236 134 GIFYEGEDVRDEMEDLLSFKCPKSKCHRRCGSLKELKKHYK 174 (493)
T ss_pred eeeecchHHHHHHHHHHHhcCCchhhhhhhhhHHHHHHHHH
Confidence 222333334443 467889985555332 2667777763
No 99
>KOG1571|consensus
Probab=90.31 E-value=0.17 Score=49.53 Aligned_cols=48 Identities=27% Similarity=0.611 Sum_probs=36.4
Q ss_pred CCCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 12 NLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
..+....|.||..-..+.+..+|||..| |..-.... ..||+||..+..
T Consensus 301 ~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~l---~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKHL---PQCPVCRQRIRL 348 (355)
T ss_pred ccCCCCceEEecCCccceeeecCCcEEE--chHHHhhC---CCCchhHHHHHH
Confidence 4455677999999999988899999877 66544332 249999987653
No 100
>KOG2817|consensus
Probab=89.84 E-value=0.29 Score=48.43 Aligned_cols=52 Identities=15% Similarity=0.300 Sum_probs=39.6
Q ss_pred CCCCcccccccccccc---cceecCCCCcccHhhHHHHHhcCC-CCCCCCCccccc
Q psy7814 12 NLDPRFECSICLEYLK---DAILTSCGHKFCAACIDSWIDVKG-KNYCPIDEKVLT 63 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~---~p~~~~CgH~fC~~Ci~~~~~~~~-~~~CP~Cr~~~~ 63 (460)
.....|.|||=.+.-. .|+.+.|||..|++-+.+...++. .+.||.|.....
T Consensus 330 ~fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 330 HFHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL 385 (394)
T ss_pred cccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence 3566789998777553 377899999999999999876544 257999965544
No 101
>KOG1941|consensus
Probab=89.48 E-value=0.14 Score=50.13 Aligned_cols=45 Identities=24% Similarity=0.625 Sum_probs=37.1
Q ss_pred cccccccccccc-c--cee-cCCCCcccHhhHHHHHhcCCCCCCCCCcc
Q psy7814 16 RFECSICLEYLK-D--AIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEK 60 (460)
Q Consensus 16 ~l~C~iC~~~l~-~--p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 60 (460)
.+.|..|++.+- . ..+ ++|.|+|-..|+.+++.+.++..||.||.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 478999999772 2 234 69999999999999998877778999984
No 102
>KOG4185|consensus
Probab=88.80 E-value=0.26 Score=48.19 Aligned_cols=45 Identities=27% Similarity=0.603 Sum_probs=37.6
Q ss_pred ccccccccccc------cceecCCCCcccHhhHHHHHhcCCCCCCCCCcccc
Q psy7814 17 FECSICLEYLK------DAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVL 62 (460)
Q Consensus 17 l~C~iC~~~l~------~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 62 (460)
+.|-||.+.+. .|..+.|||.+|..|+...+..... .||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i-~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRI-LCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCcee-eccCCCCcc
Confidence 56889988774 4777889999999999999887665 499999984
No 103
>KOG4739|consensus
Probab=88.34 E-value=0.16 Score=47.07 Aligned_cols=46 Identities=26% Similarity=0.761 Sum_probs=32.2
Q ss_pred cccccccccc-cccee-cCCCCcccHhhHHHHHhcCCCCCCCCCcccccccc
Q psy7814 17 FECSICLEYL-KDAIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDD 66 (460)
Q Consensus 17 l~C~iC~~~l-~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 66 (460)
..|-.|..-. .+|.. +.|+|.||..|...... ..||+|+.++....
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~----~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP----DVCPLCKKSIRIIQ 51 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCc----cccccccceeeeee
Confidence 4577776644 34544 69999999999775432 14999999866533
No 104
>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=86.24 E-value=0.66 Score=31.08 Aligned_cols=40 Identities=20% Similarity=0.556 Sum_probs=25.1
Q ss_pred ccccccccccceecC---CCCcccHhhHHHHHhcCCCCCCCCC
Q psy7814 19 CSICLEYLKDAILTS---CGHKFCAACIDSWIDVKGKNYCPID 58 (460)
Q Consensus 19 C~iC~~~l~~p~~~~---CgH~fC~~Ci~~~~~~~~~~~CP~C 58 (460)
|.+|.++...-+..+ |+-++=..|+..+++......||.|
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 778999998888754 9988999999999987654359987
No 105
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=86.15 E-value=0.61 Score=32.38 Aligned_cols=45 Identities=22% Similarity=0.521 Sum_probs=22.7
Q ss_pred ccccccccccccccee-cCCCCcccHhhHHHHH---hcCCCCCCCCCccc
Q psy7814 16 RFECSICLEYLKDAIL-TSCGHKFCAACIDSWI---DVKGKNYCPIDEKV 61 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~---~~~~~~~CP~Cr~~ 61 (460)
.|.||+....+..|+. ..|.|.-|.+= ..++ ...+.-.||+|+++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence 4789999999999998 69999988543 2222 22333459999764
No 106
>KOG3579|consensus
Probab=85.86 E-value=0.9 Score=42.85 Aligned_cols=67 Identities=30% Similarity=0.594 Sum_probs=48.4
Q ss_pred CCCcccccccccccccceecCC----CCcccHhhHHHHHhcCCC---CCCCC-CcccccccccccchHHHHHHHhc
Q psy7814 13 LDPRFECSICLEYLKDAILTSC----GHKFCAACIDSWIDVKGK---NYCPI-DEKVLTKDDIFIDNYTRREILEN 80 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~~~C----gH~fC~~Ci~~~~~~~~~---~~CP~-Cr~~~~~~~~~~~~~~~~~i~~l 80 (460)
....|.|.+|.+-|.|-...+| .|-||..|-.+.+..++. ..||. +++++.-+. .|=.+++-+|..+
T Consensus 265 ~~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~-vPWAFMQGEIatI 339 (352)
T KOG3579|consen 265 PSAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSN-VPWAFMQGEIATI 339 (352)
T ss_pred CCCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCc-ccHHHhhhhHHHH
Confidence 3445999999999999876666 799999999998876543 34774 455665443 3556777777654
No 107
>KOG1493|consensus
Probab=85.70 E-value=0.25 Score=36.88 Aligned_cols=46 Identities=28% Similarity=0.693 Sum_probs=32.8
Q ss_pred cccccccccc-----------c-ceec-CCCCcccHhhHHHHHhcCC-CCCCCCCccccc
Q psy7814 18 ECSICLEYLK-----------D-AILT-SCGHKFCAACIDSWIDVKG-KNYCPIDEKVLT 63 (460)
Q Consensus 18 ~C~iC~~~l~-----------~-p~~~-~CgH~fC~~Ci~~~~~~~~-~~~CP~Cr~~~~ 63 (460)
.|.||...|. + |.+. .|.|.|=..||.+|+.... ...||.||+...
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 5666666553 2 4443 6899999999999997632 235999998764
No 108
>KOG0827|consensus
Probab=85.67 E-value=0.6 Score=45.95 Aligned_cols=49 Identities=29% Similarity=0.664 Sum_probs=34.2
Q ss_pred cccccccccccccce--e-c-CCCCcccHhhHHHHHhcCCC-CCCCCCcccccc
Q psy7814 16 RFECSICLEYLKDAI--L-T-SCGHKFCAACIDSWIDVKGK-NYCPIDEKVLTK 64 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~--~-~-~CgH~fC~~Ci~~~~~~~~~-~~CP~Cr~~~~~ 64 (460)
.-.|.||.+....-. + + .|||+|-..|+..|+..... ..||+|+..+..
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~ 57 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE 57 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence 346999965543322 2 3 59999999999999975332 259999955444
No 109
>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=85.63 E-value=0.24 Score=45.38 Aligned_cols=61 Identities=25% Similarity=0.550 Sum_probs=39.8
Q ss_pred ccccccccc-cccccee-----cCCCCcccHhhHHHHHhcCCCCCCC--CCcccccc----cccccchHHHHHH
Q psy7814 16 RFECSICLE-YLKDAIL-----TSCGHKFCAACIDSWIDVKGKNYCP--IDEKVLTK----DDIFIDNYTRREI 77 (460)
Q Consensus 16 ~l~C~iC~~-~l~~p~~-----~~CgH~fC~~Ci~~~~~~~~~~~CP--~Cr~~~~~----~~~~~~~~~~~~i 77 (460)
+-.||+|.. .+.+|-. ..|-|+.|.+|+.+.+..+.. .|| -|++-+.. .+.|.|..+.+++
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpA-qCP~~gC~kILRK~kf~~qtFeD~~vEkEv 82 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPA-QCPYKGCGKILRKIKFIKQTFEDITVEKEV 82 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCC-CCCCccHHHHHHHhcccccccchhhhhhhh
Confidence 457999987 3345531 259999999999999876543 599 66654332 2345555555444
No 110
>KOG0828|consensus
Probab=85.19 E-value=0.44 Score=48.28 Aligned_cols=50 Identities=28% Similarity=0.639 Sum_probs=38.0
Q ss_pred CCCccccccccccccc-----------------ceecCCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 13 LDPRFECSICLEYLKD-----------------AILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~-----------------p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
.+..--|+||.....- =+.++|.|.|-..|+.+|....+. .||+||.++.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl-~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKL-ICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcc-cCCccCCCCC
Confidence 4455679999886531 113599999999999999985553 4999999875
No 111
>KOG3039|consensus
Probab=82.56 E-value=1 Score=41.63 Aligned_cols=40 Identities=25% Similarity=0.330 Sum_probs=33.7
Q ss_pred CCCCCcccccccccccccceecCCCCcccHhhHHHHHhcC
Q psy7814 11 LNLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVK 50 (460)
Q Consensus 11 ~~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~ 50 (460)
..+.+.-.|.+|+++.++||.++=||.||+.||.+++-.+
T Consensus 38 DsiK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~ilaq 77 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYILAQ 77 (303)
T ss_pred cccCCcceeeeecccccCCccCCCCeeeeHHHHHHHHHHH
Confidence 3455566789999999999999999999999999876543
No 112
>KOG2930|consensus
Probab=80.39 E-value=1.2 Score=35.51 Aligned_cols=28 Identities=36% Similarity=0.981 Sum_probs=24.1
Q ss_pred CCCCcccHhhHHHHHhcCCCCCCCCCcccc
Q psy7814 33 SCGHKFCAACIDSWIDVKGKNYCPIDEKVL 62 (460)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 62 (460)
.|.|.|-..||.+|+.... .||+|.+.-
T Consensus 80 ~CNHaFH~hCisrWlktr~--vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRN--VCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcC--cCCCcCcce
Confidence 5899999999999998876 499997753
No 113
>KOG2932|consensus
Probab=80.38 E-value=0.53 Score=44.88 Aligned_cols=75 Identities=21% Similarity=0.465 Sum_probs=48.1
Q ss_pred cccccccccccc-ceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHHhccccCCC-CCCCc-ee
Q psy7814 17 FECSICLEYLKD-AILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREILENNLTCPY-KQCSS-QL 93 (460)
Q Consensus 17 l~C~iC~~~l~~-p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n-~gC~~-~~ 93 (460)
-.|--|...+.. -..++|.|.||.+|-..- . . ..||.|-.++. .+++....-..-|.- .||.- ..
T Consensus 91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~--~-d-K~Cp~C~d~Vq--------rIeq~~~g~iFmC~~~~GC~RTyL 158 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGRMIPCKHVFCLECARSD--S-D-KICPLCDDRVQ--------RIEQIMMGGIFMCAAPHGCLRTYL 158 (389)
T ss_pred EeecccCCcceeeecccccchhhhhhhhhcC--c-c-ccCcCcccHHH--------HHHHhcccceEEeecchhHHHHHh
Confidence 458888876543 445799999999996532 1 2 24999965443 234444444556755 68874 45
Q ss_pred eccccccccc
Q psy7814 94 SIPEYESHVN 103 (460)
Q Consensus 94 ~l~~l~~H~~ 103 (460)
.-.||+.|.+
T Consensus 159 sqrDlqAHIn 168 (389)
T KOG2932|consen 159 SQRDLQAHIN 168 (389)
T ss_pred hHHHHHHHhh
Confidence 6667787764
No 114
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=79.70 E-value=2.2 Score=32.15 Aligned_cols=48 Identities=17% Similarity=0.455 Sum_probs=20.8
Q ss_pred cccccccccccc-----cceec--CCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 16 RFECSICLEYLK-----DAILT--SCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 16 ~l~C~iC~~~l~-----~p~~~--~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
.-+|.||.+-+- ++..+ .|+--.|+.|++--.+.... .||.|+.+...
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q-~CpqCkt~ykr 63 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQ-VCPQCKTRYKR 63 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-S-B-TTT--B---
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcc-cccccCCCccc
Confidence 356999998663 34443 78999999999976665554 59999987764
No 115
>KOG3113|consensus
Probab=79.03 E-value=1.4 Score=40.87 Aligned_cols=64 Identities=17% Similarity=0.304 Sum_probs=48.3
Q ss_pred CCccccccccccccccee----cCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHHhcc
Q psy7814 14 DPRFECSICLEYLKDAIL----TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREILENN 81 (460)
Q Consensus 14 ~~~l~C~iC~~~l~~p~~----~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l~ 81 (460)
...|+|||=...+..-.+ -+|||.|-..-+.+... ..|++|+..+...++.+-|.-..++.-+.
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeika----s~C~~C~a~y~~~dvIvlNg~~E~~dllk 176 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKA----SVCHVCGAAYQEDDVIVLNGTEEDVDLLK 176 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHhhh----ccccccCCcccccCeEeeCCCHHHHHHHH
Confidence 456999999998877653 39999999988887752 24999999998877766666555555443
No 116
>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=78.36 E-value=0.21 Score=37.04 Aligned_cols=42 Identities=26% Similarity=0.540 Sum_probs=23.0
Q ss_pred cccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 16 RFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
++.||.|...|.-- -|+.+|..|-..+... . .||.|+.++..
T Consensus 1 e~~CP~C~~~L~~~----~~~~~C~~C~~~~~~~-a--~CPdC~~~Le~ 42 (70)
T PF07191_consen 1 ENTCPKCQQELEWQ----GGHYHCEACQKDYKKE-A--FCPDCGQPLEV 42 (70)
T ss_dssp --B-SSS-SBEEEE----TTEEEETTT--EEEEE-E--E-TTT-SB-EE
T ss_pred CCcCCCCCCccEEe----CCEEECccccccceec-c--cCCCcccHHHH
Confidence 35799999986422 2888899997764332 2 49999998874
No 117
>KOG2114|consensus
Probab=75.95 E-value=1.4 Score=47.81 Aligned_cols=43 Identities=26% Similarity=0.556 Sum_probs=35.0
Q ss_pred Cccccccccccccccee-cCCCCcccHhhHHHHHhcCCCCCCCCCcccc
Q psy7814 15 PRFECSICLEYLKDAIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVL 62 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 62 (460)
+.-.|..|...|.-|++ ..|||.|-..|+++ +...||.|+...
T Consensus 839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e~-----~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLED-----KEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccceeeeecccHHHHHhhcc-----CcccCCccchhh
Confidence 34679999999999998 79999999999982 223599997643
No 118
>KOG0298|consensus
Probab=75.88 E-value=0.9 Score=51.48 Aligned_cols=46 Identities=33% Similarity=0.928 Sum_probs=39.0
Q ss_pred CCcccccccccccc-cceecCCCCcccHhhHHHHHhcCCCCCCCCCccc
Q psy7814 14 DPRFECSICLEYLK-DAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKV 61 (460)
Q Consensus 14 ~~~l~C~iC~~~l~-~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 61 (460)
.....|+||.++++ .-..+.|||.+|..|...|+..+.. ||.|...
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~--~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSR--CPICKSI 1197 (1394)
T ss_pred hcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhcc--Ccchhhh
Confidence 34568999999998 5667899999999999999988764 9999743
No 119
>KOG4362|consensus
Probab=73.97 E-value=0.85 Score=48.73 Aligned_cols=52 Identities=29% Similarity=0.650 Sum_probs=43.0
Q ss_pred CCCcccccccccccccceecCCCCcccHhhHHHHHhcCC-CCCCCCCcccccc
Q psy7814 13 LDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKG-KNYCPIDEKVLTK 64 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~-~~~CP~Cr~~~~~ 64 (460)
+...+.|+||.....+|+.+.|-|.||..|+...+.... ...||+|+..+..
T Consensus 18 ~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 18 MQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred HhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 455788999999999998899999999999998776543 3469999876654
No 120
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.96 E-value=2.6 Score=31.15 Aligned_cols=45 Identities=24% Similarity=0.364 Sum_probs=32.1
Q ss_pred ceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHH
Q psy7814 29 AILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREI 77 (460)
Q Consensus 29 p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i 77 (460)
..++.=.++||.+|.+..+. + .||.|+-.+..+.+.|...+.+.-
T Consensus 22 A~ICtfEcTFCadCae~~l~--g--~CPnCGGelv~RP~RPaa~L~r~P 66 (84)
T COG3813 22 ARICTFECTFCADCAENRLH--G--LCPNCGGELVARPIRPAAKLARYP 66 (84)
T ss_pred eeEEEEeeehhHhHHHHhhc--C--cCCCCCchhhcCcCChHHHHhhCc
Confidence 33444468999999997764 3 499999988887777766555433
No 121
>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=71.70 E-value=1.5 Score=35.47 Aligned_cols=33 Identities=27% Similarity=0.672 Sum_probs=26.7
Q ss_pred CCCCccccccccccccccee--cCCCCcccHhhHH
Q psy7814 12 NLDPRFECSICLEYLKDAIL--TSCGHKFCAACID 44 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~~--~~CgH~fC~~Ci~ 44 (460)
.+.+.-.|++|...+.++.. .+|||.|...|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 34566779999999987664 5999999999975
No 122
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=68.82 E-value=3.7 Score=39.47 Aligned_cols=50 Identities=16% Similarity=0.348 Sum_probs=38.5
Q ss_pred CCCCcccccccccccc---cceecCCCCcccHhhHHHHHhcCCC-CCCCCCccc
Q psy7814 12 NLDPRFECSICLEYLK---DAILTSCGHKFCAACIDSWIDVKGK-NYCPIDEKV 61 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~---~p~~~~CgH~fC~~Ci~~~~~~~~~-~~CP~Cr~~ 61 (460)
.+..-|+||+=.+.-. .|+.+.|||..-+.-+.+..+++.. +.||.|...
T Consensus 332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~ 385 (396)
T COG5109 332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEM 385 (396)
T ss_pred cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcc
Confidence 5667899998777653 4777999999999999887766433 569999654
No 123
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=68.05 E-value=6.6 Score=34.12 Aligned_cols=49 Identities=18% Similarity=0.468 Sum_probs=35.1
Q ss_pred Ccccccccccccccceec--CCCC---cccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 15 PRFECSICLEYLKDAILT--SCGH---KFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~--~CgH---~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
..-.|-||.+--. +... .|.. ..-.+|+++|+..++...|+.|+.++..
T Consensus 7 ~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 7 MDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 3567999988754 2233 3422 2357999999998777789999988765
No 124
>PHA02862 5L protein; Provisional
Probab=67.39 E-value=4.4 Score=34.54 Aligned_cols=49 Identities=18% Similarity=0.434 Sum_probs=35.0
Q ss_pred ccccccccccccee-cCC-C--CcccHhhHHHHHhcCCCCCCCCCcccccccc
Q psy7814 18 ECSICLEYLKDAIL-TSC-G--HKFCAACIDSWIDVKGKNYCPIDEKVLTKDD 66 (460)
Q Consensus 18 ~C~iC~~~l~~p~~-~~C-g--H~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 66 (460)
.|-||.+--.+... +.| | ...-.+|+.+|+...++..||.|+.+.....
T Consensus 4 iCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 4 ICWICNDVCDERNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred EEEEecCcCCCCcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 58889887654433 344 2 3445899999998877678999999876533
No 125
>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=67.03 E-value=2 Score=29.14 Aligned_cols=44 Identities=30% Similarity=0.662 Sum_probs=23.1
Q ss_pred ccccccccccccceecCC-CCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 17 FECSICLEYLKDAILTSC-GHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 17 l~C~iC~~~l~~p~~~~C-gH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
+.|--|...-+ -...| .|-.|..|+...+..+.. ||+|..+++.
T Consensus 3 ~nCKsCWf~~k--~Li~C~dHYLCl~CLt~ml~~s~~--C~iC~~~LPt 47 (50)
T PF03854_consen 3 YNCKSCWFANK--GLIKCSDHYLCLNCLTLMLSRSDR--CPICGKPLPT 47 (50)
T ss_dssp ----SS-S--S--SEEE-SS-EEEHHHHHHT-SSSSE--ETTTTEE---
T ss_pred ccChhhhhcCC--CeeeecchhHHHHHHHHHhccccC--CCcccCcCcc
Confidence 34555554333 23345 577899999998877664 9999998764
No 126
>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=65.95 E-value=2.9 Score=35.32 Aligned_cols=36 Identities=28% Similarity=0.832 Sum_probs=28.0
Q ss_pred ccccccccccccc--cee-cCCC------CcccHhhHHHHHhcCC
Q psy7814 16 RFECSICLEYLKD--AIL-TSCG------HKFCAACIDSWIDVKG 51 (460)
Q Consensus 16 ~l~C~iC~~~l~~--p~~-~~Cg------H~fC~~Ci~~~~~~~~ 51 (460)
...|.||.+.+.+ -++ .+|| |.||.+|+.+|.+...
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~ 70 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERN 70 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhcc
Confidence 5679999998876 565 4664 7899999999965443
No 127
>KOG0297|consensus
Probab=65.65 E-value=3.5 Score=41.99 Aligned_cols=68 Identities=18% Similarity=0.368 Sum_probs=47.1
Q ss_pred ccccCCCCCCCceeecccccccc-ccccccccCCCcccccCCCCCCCCCCCCCCccCCCCccccccchhhhhhhcCCCCC
Q psy7814 80 NNLTCPYKQCSSQLSIPEYESHV-NTCYLKYSQPSVEDITDSPTSSFRNTSGIPTNKRNSKILTVTVFPEHLNMQGSSNE 158 (460)
Q Consensus 80 l~v~C~n~gC~~~~~l~~l~~H~-~~C~~~~~~C~~~~~~~h~~c~~~~~~~~~~~~~c~~~~~r~~l~~H~~~~c~~~~ 158 (460)
..+.|+| +|...+...++.+|+ ..|++....|. -|.....-..+..|... | ..
T Consensus 113 ~~~~C~~-~C~~~~~~~d~~~hl~~~C~~~~~~c~----------------------~~~~~~~~~~~~~h~~~--~-~~ 166 (391)
T KOG0297|consen 113 DPLKCPH-RCGVQVPRDDLEDHLEAECPRRSLKCS----------------------LCQSDSILILLEAHEEN--P-QA 166 (391)
T ss_pred CcccCcc-ccccccchHHHHHHHhcccccccccch----------------------hhcCccchhhhhhcCCC--C-Cc
Confidence 5788998 599999999999998 89999999884 33333334445566544 2 45
Q ss_pred ccccccccccccccccch
Q psy7814 159 NFPCKFYQVGCREVFKSQ 176 (460)
Q Consensus 159 ~v~Cp~~~~GC~~~~~r~ 176 (460)
.+.|+. .|.....+.
T Consensus 167 ~~~c~~---k~~~~~l~~ 181 (391)
T KOG0297|consen 167 EVSCEL---KCGKQKLKR 181 (391)
T ss_pred cccccc---cchhhhhhh
Confidence 677774 465554433
No 128
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=64.23 E-value=3.9 Score=37.34 Aligned_cols=28 Identities=32% Similarity=0.579 Sum_probs=14.6
Q ss_pred CccccccccccccccccchhHHHHHhhhc
Q psy7814 158 ENFPCKFYQVGCREVFKSQALLEKHYDLK 186 (460)
Q Consensus 158 ~~v~Cp~~~~GC~~~~~r~~~l~~H~~~~ 186 (460)
..++|+|+..||+...+-.+ +.+|++++
T Consensus 13 ~~~pC~~~~~GC~~~~~~~~-~~~HE~~C 40 (198)
T PF03145_consen 13 IKFPCKNAKYGCTETFPYSE-KREHEEEC 40 (198)
T ss_dssp --EE-CCGGGT---EE-GGG-HHHHHHT-
T ss_pred ceecCCCCCCCCcccccccC-hhhHhccC
Confidence 35677777777777777777 77777664
No 129
>KOG2231|consensus
Probab=63.62 E-value=8.7 Score=41.33 Aligned_cols=46 Identities=28% Similarity=0.528 Sum_probs=34.0
Q ss_pred cccccccccccceecCCCC-cccHhhHHHHHhcCC----CCCCCCCccccc
Q psy7814 18 ECSICLEYLKDAILTSCGH-KFCAACIDSWIDVKG----KNYCPIDEKVLT 63 (460)
Q Consensus 18 ~C~iC~~~l~~p~~~~CgH-~fC~~Ci~~~~~~~~----~~~CP~Cr~~~~ 63 (460)
-|+||-.-+.-+..-.||| ..|..|..+...... ...||+|+..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 3888888777666779999 899999988654433 234799987544
No 130
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=61.92 E-value=9.1 Score=43.40 Aligned_cols=46 Identities=20% Similarity=0.505 Sum_probs=33.6
Q ss_pred ccccccccccc-----ccee-c-CCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 17 FECSICLEYLK-----DAIL-T-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 17 l~C~iC~~~l~-----~p~~-~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
-.|.||++-+- +|.+ + .||--.|+.|++--.++ +...||.|++...
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~e-G~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKD-GNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhc-CCccCCccCCchh
Confidence 37999999753 3544 3 79999999999644333 4346999998765
No 131
>PHA03096 p28-like protein; Provisional
Probab=60.50 E-value=5.3 Score=38.63 Aligned_cols=45 Identities=31% Similarity=0.582 Sum_probs=30.9
Q ss_pred cccccccccccc-c-------eecCCCCcccHhhHHHHHhcCCC-CCCCCCccc
Q psy7814 17 FECSICLEYLKD-A-------ILTSCGHKFCAACIDSWIDVKGK-NYCPIDEKV 61 (460)
Q Consensus 17 l~C~iC~~~l~~-p-------~~~~CgH~fC~~Ci~~~~~~~~~-~~CP~Cr~~ 61 (460)
-.|.||.+.... | ....|-|.||..|+..|...... ..||.|+..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~ 232 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL 232 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence 569999996643 1 12479999999999999765321 236666543
No 132
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=58.39 E-value=7.7 Score=22.54 Aligned_cols=22 Identities=36% Similarity=0.783 Sum_probs=18.3
Q ss_pred ccccccccccccccccchhHHHHHhhh
Q psy7814 159 NFPCKFYQVGCREVFKSQALLEKHYDL 185 (460)
Q Consensus 159 ~v~Cp~~~~GC~~~~~r~~~l~~H~~~ 185 (460)
.++||+ |.-++.... +..|+..
T Consensus 2 l~~C~~----CgR~F~~~~-l~~H~~~ 23 (25)
T PF13913_consen 2 LVPCPI----CGRKFNPDR-LEKHEKI 23 (25)
T ss_pred CCcCCC----CCCEECHHH-HHHHHHh
Confidence 478988 999998888 9999765
No 133
>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=57.07 E-value=9.7 Score=26.86 Aligned_cols=45 Identities=29% Similarity=0.619 Sum_probs=30.3
Q ss_pred ccccccccccc----ceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccccc
Q psy7814 18 ECSICLEYLKD----AILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDD 66 (460)
Q Consensus 18 ~C~iC~~~l~~----p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 66 (460)
.|-.|...|.. +.+.+=..+||..|.+..+. + .||.|+-.+..++
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~--~--~CPNCgGelv~RP 55 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLN--G--VCPNCGGELVRRP 55 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc--C--cCcCCCCccccCC
Confidence 46667665532 23333356899999998873 2 4999998877543
No 134
>PLN02195 cellulose synthase A
Probab=55.87 E-value=9.8 Score=42.69 Aligned_cols=47 Identities=21% Similarity=0.437 Sum_probs=34.6
Q ss_pred ccccccccccc-----ccee-c-CCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 17 FECSICLEYLK-----DAIL-T-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 17 l~C~iC~~~l~-----~p~~-~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
-.|.||++-+- +|.+ + .||--.|+.|++-- +..+...||.|++....
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeye-r~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYE-IKEGRKVCLRCGGPYDA 60 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhh-hhcCCccCCccCCcccc
Confidence 36999999553 4555 3 79999999999544 44444469999998874
No 135
>PF10426 zf-RAG1: Recombination-activating protein 1 zinc-finger domain; InterPro: IPR019485 During lymphocyte development, the genes encoding immunoglobulins and T-cell receptors are assembled from variable (V), diversity (D), and joining (J) gene segments. This combinatorial process, known as V(D)J recombination, allows the generation of an enormous range of binding specificities from a limited amount of genetic information. The V(D)J recombination-activating proteins 1 and 2 (RAG1 and RAG2) form a complex that initiates this process by binding to the conserved recombination signal sequences (RSS) and introducing a double-strand break between the RSS and the adjacent coding segment. These breaks are generated in two steps, nicking of one strand (hydrolysis), followed by hairpin formation (transesterification). RAG1/2 has also been shown to function as a transposase in vitro, and to possess RSS-independent endonuclease activity (end processing) and hairpin opening. RAG1 alone can bind to RSS but stable, efficient binding requires RAG2. All known catalytic activities require the presence of both proteins. For more information see []. 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc-finger domain found in the RAG1 protein. The structure contains the characteristic two-stranded beta-sheet and alpha-helix of a classical zinc-finger. The domain binds one zinc and, in complex with an adjacent RING-type zinc finger domain, helps to stabilise the whole of the dimerisation region of recombination activating protein 1 (RAG1) []. The function of the whole is to bind double-stranded DNA. ; GO: 0016788 hydrolase activity, acting on ester bonds, 0016881 acid-amino acid ligase activity; PDB: 1RMD_A.
Probab=55.37 E-value=3 Score=25.38 Aligned_cols=25 Identities=28% Similarity=0.757 Sum_probs=16.3
Q ss_pred ccccCCCCCCCceeecccccccccc
Q psy7814 80 NNLTCPYKQCSSQLSIPEYESHVNT 104 (460)
Q Consensus 80 l~v~C~n~gC~~~~~l~~l~~H~~~ 104 (460)
|.|+||-.+|...+.+..+..|+.+
T Consensus 1 L~vrCPvkdC~EEv~lgKY~~H~ss 25 (30)
T PF10426_consen 1 LVVRCPVKDCDEEVSLGKYSHHLSS 25 (30)
T ss_dssp -EEE--STT---EEEHHHHHHHHHT
T ss_pred CccccccccCcchhhhhhhcccccc
Confidence 4578999999999999999998754
No 136
>KOG1940|consensus
Probab=55.33 E-value=10 Score=36.29 Aligned_cols=42 Identities=40% Similarity=0.752 Sum_probs=32.9
Q ss_pred cccccccccccc----ceecCCCCcccHhhHHHHHhcCCCCCCCCCcc
Q psy7814 17 FECSICLEYLKD----AILTSCGHKFCAACIDSWIDVKGKNYCPIDEK 60 (460)
Q Consensus 17 l~C~iC~~~l~~----p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 60 (460)
..||||.+.+.. |...+|||..=..|+......+ ..||+|..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~--y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG--YTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccC--CCCCcccc
Confidence 349999997753 4457999988889999877655 46999988
No 137
>PLN02189 cellulose synthase
Probab=55.23 E-value=8.4 Score=43.47 Aligned_cols=46 Identities=22% Similarity=0.493 Sum_probs=33.9
Q ss_pred ccccccccccc-----ccee-c-CCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 17 FECSICLEYLK-----DAIL-T-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 17 l~C~iC~~~l~-----~p~~-~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
-.|.||.+-+- +|.+ + .||--.|+.|++.-.+++. ..||.|++...
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~-q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGT-QNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCC-ccCcccCCchh
Confidence 48999999763 3444 3 6999999999965444443 46999998766
No 138
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=55.12 E-value=58 Score=27.07 Aligned_cols=42 Identities=12% Similarity=0.095 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy7814 263 SHLLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEEIEDNV 304 (460)
Q Consensus 263 ~~~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~~ 304 (460)
.+...+|.+|+..|+-+++.|+.....++.++.++.+.+++.
T Consensus 69 ~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~ 110 (119)
T COG1382 69 EEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKA 110 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678889999999999999888888888888887765443
No 139
>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=54.68 E-value=15 Score=25.71 Aligned_cols=43 Identities=21% Similarity=0.354 Sum_probs=28.2
Q ss_pred CCCccccccchhhhhhhc-CCCCCccccccccccccccccchhHHHHHhh
Q psy7814 136 RNSKILTVTVFPEHLNMQ-GSSNENFPCKFYQVGCREVFKSQALLEKHYD 184 (460)
Q Consensus 136 ~c~~~~~r~~l~~H~~~~-c~~~~~v~Cp~~~~GC~~~~~r~~~l~~H~~ 184 (460)
.|++.+....|..|+... ..+...+.||. |..... .+ |..|+.
T Consensus 7 ~C~~~~~~~~L~~H~~~~H~~~~~~v~CPi----C~~~~~-~~-l~~Hl~ 50 (54)
T PF05605_consen 7 YCGKGFSESSLVEHCEDEHRSESKNVVCPI----CSSRVT-DN-LIRHLN 50 (54)
T ss_pred CCCCccCHHHHHHHHHhHCcCCCCCccCCC----chhhhh-hH-HHHHHH
Confidence 566667788899998643 11234789998 886543 25 666664
No 140
>PLN02436 cellulose synthase A
Probab=54.66 E-value=8.7 Score=43.47 Aligned_cols=46 Identities=17% Similarity=0.480 Sum_probs=33.8
Q ss_pred ccccccccccc-----ccee-c-CCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 17 FECSICLEYLK-----DAIL-T-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 17 l~C~iC~~~l~-----~p~~-~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
-.|.||.+-+- +|.+ + .||--.|+.|++.-.+++. ..||.|++...
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~-~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGN-QACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCC-ccCcccCCchh
Confidence 48999999762 3544 3 6999999999965444443 46999998766
No 141
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=54.52 E-value=13 Score=41.96 Aligned_cols=47 Identities=19% Similarity=0.524 Sum_probs=34.4
Q ss_pred cccccccccccc-----ccee-c-CCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 16 RFECSICLEYLK-----DAIL-T-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 16 ~l~C~iC~~~l~-----~p~~-~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
.-.|.||++-+- +|.+ + .|+--.|+.|++--.++ +...||.|+++..
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~-g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSE-GNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhc-CCccCCccCCchh
Confidence 467999999753 3554 3 79999999999644443 4346999998766
No 142
>KOG4718|consensus
Probab=54.43 E-value=7 Score=35.52 Aligned_cols=44 Identities=20% Similarity=0.589 Sum_probs=35.9
Q ss_pred cccccccccccccceec-CCCCcccHhhHHHHHhcCCCCCCCCCccc
Q psy7814 16 RFECSICLEYLKDAILT-SCGHKFCAACIDSWIDVKGKNYCPIDEKV 61 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 61 (460)
-..|.+|..++..-+.+ .||-.+-..|+...+.... .||.|+.-
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~--~cphc~d~ 225 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRD--ICPHCGDL 225 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccC--cCCchhcc
Confidence 45799999999887765 8888888899999998754 49999643
No 143
>KOG3970|consensus
Probab=54.11 E-value=17 Score=33.26 Aligned_cols=63 Identities=19% Similarity=0.265 Sum_probs=43.0
Q ss_pred cccccccccccc--ceecCCCCcccHhhHHHHHhcC------CCCCCCCCcccccc--cccccchHHHHHHHh
Q psy7814 17 FECSICLEYLKD--AILTSCGHKFCAACIDSWIDVK------GKNYCPIDEKVLTK--DDIFIDNYTRREILE 79 (460)
Q Consensus 17 l~C~iC~~~l~~--p~~~~CgH~fC~~Ci~~~~~~~------~~~~CP~Cr~~~~~--~~~~~~~~~~~~i~~ 79 (460)
-.|.+|...+.. -+.+.|-|.|-..|+.++-.+- ....||-|..++-. +.+.|.....++.+.
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~ 123 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLK 123 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHH
Confidence 459999998854 4568999999999999986541 11359999887654 334444444444443
No 144
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=52.40 E-value=35 Score=24.15 Aligned_cols=31 Identities=16% Similarity=0.095 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 268 LVYERMVLLEQSMLEQKIKVNNFELNLKQTE 298 (460)
Q Consensus 268 ~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~ 298 (460)
.+...+.++..++.++...++.++..+.++-
T Consensus 11 ~~~~~i~tvk~en~~i~~~ve~i~envk~ll 41 (55)
T PF05377_consen 11 RIESSINTVKKENEEISESVEKIEENVKDLL 41 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555555555555555555444443
No 145
>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=51.93 E-value=8.2 Score=22.77 Aligned_cols=10 Identities=20% Similarity=0.491 Sum_probs=5.3
Q ss_pred cccccccccc
Q psy7814 18 ECSICLEYLK 27 (460)
Q Consensus 18 ~C~iC~~~l~ 27 (460)
.||.|...+.
T Consensus 2 ~CP~C~~~V~ 11 (26)
T PF10571_consen 2 TCPECGAEVP 11 (26)
T ss_pred cCCCCcCCch
Confidence 3566655543
No 146
>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=50.74 E-value=11 Score=23.41 Aligned_cols=8 Identities=25% Similarity=0.621 Sum_probs=6.0
Q ss_pred CCCCCccc
Q psy7814 54 YCPIDEKV 61 (460)
Q Consensus 54 ~CP~Cr~~ 61 (460)
.||+|+.+
T Consensus 19 ~CP~Cg~~ 26 (33)
T cd00350 19 VCPVCGAP 26 (33)
T ss_pred cCcCCCCc
Confidence 59999764
No 147
>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=50.36 E-value=11 Score=37.55 Aligned_cols=34 Identities=26% Similarity=0.681 Sum_probs=24.2
Q ss_pred CCCCcccHhhHHHHHhcC-----------CCCCCCCCcccccccc
Q psy7814 33 SCGHKFCAACIDSWIDVK-----------GKNYCPIDEKVLTKDD 66 (460)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~-----------~~~~CP~Cr~~~~~~~ 66 (460)
-|.-..|.+|+-+|+..+ ++..||.||+.+-..+
T Consensus 310 ~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 310 YCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred cccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 355566899999998653 2235999999876544
No 148
>PRK04406 hypothetical protein; Provisional
Probab=49.86 E-value=77 Score=24.00 Aligned_cols=22 Identities=23% Similarity=0.241 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNF 290 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l 290 (460)
+.+||..|+.++.-++..++.|
T Consensus 9 le~Ri~~LE~~lAfQE~tIe~L 30 (75)
T PRK04406 9 LEERINDLECQLAFQEQTIEEL 30 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444433333333
No 149
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=49.76 E-value=96 Score=22.94 Aligned_cols=34 Identities=9% Similarity=0.145 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 266 LKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 266 ~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
+.+|+.+++-++.-+.+|...+..+...|..+.+
T Consensus 6 i~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~ 39 (69)
T PF04102_consen 6 IEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQR 39 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555555554444444444444
No 150
>KOG1100|consensus
Probab=49.28 E-value=11 Score=34.72 Aligned_cols=40 Identities=33% Similarity=0.642 Sum_probs=28.4
Q ss_pred ccccccccccceecCCCC-cccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 19 CSICLEYLKDAILTSCGH-KFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 19 C~iC~~~l~~p~~~~CgH-~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
|-.|..--..-+.++|.| .+|..|-.. ...||+|+.+...
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~------~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES------LRICPICRSPKTS 201 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc------CccCCCCcChhhc
Confidence 888887766644579998 669999443 1259999876543
No 151
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=48.43 E-value=99 Score=22.28 Aligned_cols=34 Identities=15% Similarity=0.204 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 265 LLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTE 298 (460)
Q Consensus 265 ~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~ 298 (460)
.+..|..++..|+.++..|...+..|...+..|.
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~ 60 (64)
T PF00170_consen 27 YIEELEEKVEELESENEELKKELEQLKKEIQSLK 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556777777777777777766666666665554
No 152
>PLN02400 cellulose synthase
Probab=47.95 E-value=10 Score=43.04 Aligned_cols=46 Identities=22% Similarity=0.535 Sum_probs=33.5
Q ss_pred ccccccccccc-----ccee-c-CCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 17 FECSICLEYLK-----DAIL-T-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 17 l~C~iC~~~l~-----~p~~-~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
-.|.||.+-+- +|.+ + .|+--.|+.|++-- +..+...||.|++...
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYE-RkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYE-RKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhhee-cccCCccCcccCCccc
Confidence 37999999753 3544 3 79999999999643 3333346999998766
No 153
>PF15146 FANCAA: Fanconi anemia-associated
Probab=47.89 E-value=3.2e+02 Score=27.84 Aligned_cols=86 Identities=14% Similarity=0.089 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------hhhh---ccccCcEEEEEECChHHHHHHhhhcCCeE
Q psy7814 265 LLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEEIE-------DNVV---LKLCNGVYFWKMYNFPAKLKEMKEINRYF 334 (460)
Q Consensus 265 ~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~-------~~~~---~~~~~g~~~w~I~~fs~~~~~~~~~~~~~ 334 (460)
.+|+|...|....++.--|+..+.+.++.|..+.+-+ ..-+ ...+.. ...||.++....-....+
T Consensus 7 rIKeLLSgIG~VsERvS~LK~avdqrN~aL~~LNqvmnVS~aLLss~~~~kpI~C~~-----tt~WSrll~qD~L~~tCv 81 (435)
T PF15146_consen 7 RIKELLSGIGDVSERVSSLKKAVDQRNQALTCLNQVMNVSCALLSSREGPKPISCTV-----TTSWSRLLLQDSLTATCV 81 (435)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCceeEE-----echhhHHHhhcceeeEEE
Confidence 4555666665555555555555555555555444311 1111 111222 456788765311122333
Q ss_pred --eccCceeCCCccEEEEEEEeCC
Q psy7814 335 --YSACFYSSCFGYRFCTRVNISR 356 (460)
Q Consensus 335 --~S~~F~~~~~Gyk~~l~~yp~G 356 (460)
.|++|.- ..||.|+|.+.+..
T Consensus 82 LeNsS~~sL-e~GWtLCiqv~~~s 104 (435)
T PF15146_consen 82 LENSSDFSL-ERGWTLCIQVLSSS 104 (435)
T ss_pred EecCCCccc-cCCceEEEEeccCC
Confidence 2777877 56999999997663
No 154
>KOG1815|consensus
Probab=46.04 E-value=13 Score=38.66 Aligned_cols=36 Identities=31% Similarity=0.828 Sum_probs=29.7
Q ss_pred CCccccccccccccc-ceecCCCCcccHhhHHHHHhc
Q psy7814 14 DPRFECSICLEYLKD-AILTSCGHKFCAACIDSWIDV 49 (460)
Q Consensus 14 ~~~l~C~iC~~~l~~-p~~~~CgH~fC~~Ci~~~~~~ 49 (460)
.....|.||...+.. ...+.|||.||..|+..++..
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhh
Confidence 445789999998876 444799999999999998865
No 155
>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=44.71 E-value=4.6 Score=39.32 Aligned_cols=46 Identities=24% Similarity=0.385 Sum_probs=22.0
Q ss_pred CcccccccccccccceecCC---C--CcccHhhHHHHHhcCCCCCCCCCcccc
Q psy7814 15 PRFECSICLEYLKDAILTSC---G--HKFCAACIDSWIDVKGKNYCPIDEKVL 62 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~~C---g--H~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 62 (460)
..-.||+|+....-.+...= | +.+|.-|-..|..... .||.|+..-
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~--~Cp~Cg~~~ 221 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRI--KCPYCGNTD 221 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TT--S-TTT---S
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCC--CCcCCCCCC
Confidence 34689999998776665322 4 5669999999865544 499997653
No 156
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=43.58 E-value=16 Score=24.84 Aligned_cols=40 Identities=30% Similarity=0.816 Sum_probs=23.1
Q ss_pred cccccccccc--ceecCCC-----CcccHhhHHHHHhcCCCCCCCCC
Q psy7814 19 CSICLEYLKD--AILTSCG-----HKFCAACIDSWIDVKGKNYCPID 58 (460)
Q Consensus 19 C~iC~~~l~~--p~~~~Cg-----H~fC~~Ci~~~~~~~~~~~CP~C 58 (460)
|-||.+.-.+ |.+.+|+ ...=..|+.+|+..++...|++|
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 5677765543 4555553 13456899999987655568877
No 157
>KOG2979|consensus
Probab=43.49 E-value=28 Score=32.79 Aligned_cols=76 Identities=14% Similarity=0.172 Sum_probs=52.2
Q ss_pred ccccccccccccccee-cCCCCcccHhhHHHHHhcCCCCCCCCCccc--cc--ccccccchHHHHHHHh-ccccCCCCCC
Q psy7814 16 RFECSICLEYLKDAIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKV--LT--KDDIFIDNYTRREILE-NNLTCPYKQC 89 (460)
Q Consensus 16 ~l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~--~~--~~~~~~~~~~~~~i~~-l~v~C~n~gC 89 (460)
.+.||+=..++.+|+. ..|||.|=++=+...+.......||+=++. .. ..-+.++..+++.|.+ ....|+-.+|
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~~~~~~~~~~l~~d~el~~kIr~~qe~~~~~~~~ 255 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCENPYYIQPGHLDEDKELQQKIRQSQEPAIPDETS 255 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCCccccccccccCchHHHHHHHHHhcccccccccc
Confidence 4679999999999998 799999999999998876433459975554 22 1234455556666663 4555655555
Q ss_pred Cc
Q psy7814 90 SS 91 (460)
Q Consensus 90 ~~ 91 (460)
+.
T Consensus 256 s~ 257 (262)
T KOG2979|consen 256 SE 257 (262)
T ss_pred ch
Confidence 54
No 158
>KOG3002|consensus
Probab=43.48 E-value=26 Score=34.21 Aligned_cols=48 Identities=13% Similarity=0.092 Sum_probs=30.6
Q ss_pred CCCccccccchhhhhhhcCCCCCccccccccccccccccchhHHHHHhhhc
Q psy7814 136 RNSKILTVTVFPEHLNMQGSSNENFPCKFYQVGCREVFKSQALLEKHYDLK 186 (460)
Q Consensus 136 ~c~~~~~r~~l~~H~~~~c~~~~~v~Cp~~~~GC~~~~~r~~~l~~H~~~~ 186 (460)
+|.+.++=.+=..|.+.| ...+-.||+....|.+.+.-.+ +-.|....
T Consensus 115 GC~~~~~Y~~~~~HE~~C--~f~~~~CP~p~~~C~~~G~~~~-l~~H~~~~ 162 (299)
T KOG3002|consen 115 GCTKSFPYGEKSKHEKVC--EFRPCSCPVPGAECKYTGSYKD-LYAHLNDT 162 (299)
T ss_pred CCceeecccccccccccc--ccCCcCCCCCcccCCccCcHHH-HHHHHHhh
Confidence 444444333335665544 2457788887778999988888 87887653
No 159
>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=42.75 E-value=21 Score=19.48 Aligned_cols=21 Identities=29% Similarity=0.702 Sum_probs=15.0
Q ss_pred ccccccccccccccchhHHHHHhhh
Q psy7814 161 PCKFYQVGCREVFKSQALLEKHYDL 185 (460)
Q Consensus 161 ~Cp~~~~GC~~~~~r~~~l~~H~~~ 185 (460)
.|++ |........+|..|+.+
T Consensus 2 ~C~~----C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 2 QCPI----CGKSFRSKSELRQHMRT 22 (24)
T ss_dssp E-SS----TS-EESSHHHHHHHHHH
T ss_pred CCcC----CCCcCCcHHHHHHHHHh
Confidence 4776 99888888778888764
No 160
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=42.56 E-value=1.2e+02 Score=21.47 Aligned_cols=32 Identities=16% Similarity=0.162 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 268 LVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 268 ~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
+++.++.+++..+..+....+.+...+.++++
T Consensus 4 elEn~~~~~~~~i~tvk~en~~i~~~ve~i~e 35 (55)
T PF05377_consen 4 ELENELPRIESSINTVKKENEEISESVEKIEE 35 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445554444444444444444444444
No 161
>PRK02119 hypothetical protein; Provisional
Probab=41.77 E-value=1.1e+02 Score=22.99 Aligned_cols=33 Identities=6% Similarity=0.054 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 267 KLVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 267 ~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
..|+.+++-.+.-+.+|...+..+.+.|..+.+
T Consensus 12 ~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ 44 (73)
T PRK02119 12 AELEMKIAFQENLLEELNQALIEQQFVIDKMQV 44 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444433
No 162
>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=41.53 E-value=20 Score=21.03 Aligned_cols=22 Identities=18% Similarity=0.403 Sum_probs=16.4
Q ss_pred cccccccccccccccchhHHHHHhhhc
Q psy7814 160 FPCKFYQVGCREVFKSQALLEKHYDLK 186 (460)
Q Consensus 160 v~Cp~~~~GC~~~~~r~~~l~~H~~~~ 186 (460)
+.||. |...+.... +..|+..+
T Consensus 2 v~CPi----C~~~v~~~~-in~HLD~C 23 (26)
T smart00734 2 VQCPV----CFREVPENL-INSHLDSC 23 (26)
T ss_pred CcCCC----CcCcccHHH-HHHHHHHh
Confidence 67887 888886666 88887654
No 163
>PF05253 zf-U11-48K: U11-48K-like CHHC zinc finger; InterPro: IPR022776 This zinc binding domain [] has four conserved zinc chelating residues in a CHHC pattern. This domain is predicted to have an RNA-binding function []. ; PDB: 2VY5_A 2VY4_A.
Probab=41.50 E-value=19 Score=21.36 Aligned_cols=24 Identities=17% Similarity=0.256 Sum_probs=14.1
Q ss_pred ccccccccccccccccchhHHHHHhhhc
Q psy7814 159 NFPCKFYQVGCREVFKSQALLEKHYDLK 186 (460)
Q Consensus 159 ~v~Cp~~~~GC~~~~~r~~~l~~H~~~~ 186 (460)
.+.||| --.-.+.+.+ |+.|+..+
T Consensus 2 ~v~CPy---n~~H~v~~~~-l~~Hi~~C 25 (27)
T PF05253_consen 2 LVRCPY---NPSHRVPASE-LQKHIKKC 25 (27)
T ss_dssp EEE-TT---TSS-EEEGGG-HHHHHHHH
T ss_pred ceeCCC---CCCcCcCHHH-HHHHHHHc
Confidence 356776 3455666777 88887654
No 164
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=41.44 E-value=1.1e+02 Score=22.62 Aligned_cols=35 Identities=14% Similarity=0.184 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFELNLKQTEEIEDN 303 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~ 303 (460)
+...|..|+..+.++...|..|+.++..+...+.+
T Consensus 16 qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~ 50 (69)
T PF04102_consen 16 QEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRE 50 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555555555555443333
No 165
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=41.08 E-value=9 Score=24.05 Aligned_cols=24 Identities=21% Similarity=0.805 Sum_probs=15.4
Q ss_pred cccCCCCCCCceeecccccccccccc
Q psy7814 81 NLTCPYKQCSSQLSIPEYESHVNTCY 106 (460)
Q Consensus 81 ~v~C~n~gC~~~~~l~~l~~H~~~C~ 106 (460)
.+.|+| |.-.+....+..|++.|.
T Consensus 4 ~~~C~n--C~R~v~a~RfA~HLekCm 27 (33)
T PF08209_consen 4 YVECPN--CGRPVAASRFAPHLEKCM 27 (33)
T ss_dssp EEE-TT--TSSEEEGGGHHHHHHHHT
T ss_pred eEECCC--CcCCcchhhhHHHHHHHH
Confidence 355643 777777777777777664
No 166
>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=41.00 E-value=19 Score=29.40 Aligned_cols=14 Identities=14% Similarity=0.261 Sum_probs=9.5
Q ss_pred CCCCCCCccccccc
Q psy7814 52 KNYCPIDEKVLTKD 65 (460)
Q Consensus 52 ~~~CP~Cr~~~~~~ 65 (460)
+..||.|+..+...
T Consensus 26 PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 26 PIVCPKCGTEFPPE 39 (108)
T ss_pred CccCCCCCCccCcc
Confidence 34588888776654
No 167
>PRK04325 hypothetical protein; Provisional
Probab=40.65 E-value=1.1e+02 Score=23.17 Aligned_cols=35 Identities=9% Similarity=0.025 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 265 LLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 265 ~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
.+..|+.+++-.+.-+.+|...+..+...|..+.+
T Consensus 10 Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ 44 (74)
T PRK04325 10 RITELEIQLAFQEDLIDGLNATVARQQQTLDLLQA 44 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555555555555544443
No 168
>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=40.54 E-value=11 Score=25.65 Aligned_cols=41 Identities=12% Similarity=0.088 Sum_probs=27.9
Q ss_pred CCCCCcccccccccccchHHHHHHHhccccCCCCCCCceeeccc
Q psy7814 54 YCPIDEKVLTKDDIFIDNYTRREILENNLTCPYKQCSSQLSIPE 97 (460)
Q Consensus 54 ~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n~gC~~~~~l~~ 97 (460)
.||.|+.+... .....+...+.++...|.|..|++......
T Consensus 1 ~CP~Cg~~a~i---r~S~~~s~~~~~~Y~qC~N~~Cg~tfv~~~ 41 (47)
T PF04606_consen 1 RCPHCGSKARI---RTSRQLSPLTRELYCQCTNPECGHTFVANL 41 (47)
T ss_pred CcCCCCCeeEE---EEchhhCcceEEEEEEECCCcCCCEEEEEE
Confidence 39999987654 233444556667888899988887765443
No 169
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=40.12 E-value=18 Score=25.17 Aligned_cols=39 Identities=26% Similarity=0.484 Sum_probs=19.0
Q ss_pred ccccccccccc---------ee-cCCCCcccHhhHHHHHhcCCCCCCCCCc
Q psy7814 19 CSICLEYLKDA---------IL-TSCGHKFCAACIDSWIDVKGKNYCPIDE 59 (460)
Q Consensus 19 C~iC~~~l~~p---------~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr 59 (460)
|--|...+..+ .+ ..|++.||.+|=.=.- .....||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiH--E~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIH--ETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTT--TTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhh--ccccCCcCCC
Confidence 55566666554 23 3799999999944221 1223599884
No 170
>smart00338 BRLZ basic region leucin zipper.
Probab=40.11 E-value=1.4e+02 Score=21.54 Aligned_cols=34 Identities=12% Similarity=0.143 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 265 LLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTE 298 (460)
Q Consensus 265 ~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~ 298 (460)
.+..|..++..|+.++.+|...+..+...+..+.
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk 60 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIERLRRELEKLK 60 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777777777777777777666665554
No 171
>KOG2462|consensus
Probab=39.78 E-value=53 Score=31.35 Aligned_cols=135 Identities=18% Similarity=0.233 Sum_probs=72.4
Q ss_pred CCCcccccccccccccceec-CCCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHH--hccccCCCCCC
Q psy7814 13 LDPRFECSICLEYLKDAILT-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREIL--ENNLTCPYKQC 89 (460)
Q Consensus 13 ~~~~l~C~iC~~~l~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~--~l~v~C~n~gC 89 (460)
....+.|+-|+..+..-.-+ .-..+-| .+.....+.|+.|.+.... .+ ++...|. .|.-.| .-|
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~------~~~s~ka~~C~~C~K~YvS---mp--ALkMHirTH~l~c~C--~iC 193 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHR------SLDSKKAFSCKYCGKVYVS---MP--ALKMHIRTHTLPCEC--GIC 193 (279)
T ss_pred cCCceeccccccccccccccchhhcccc------cccccccccCCCCCceeee---hH--HHhhHhhccCCCccc--ccc
Confidence 45667788777776543311 0011111 1122222458888776543 22 3333444 445455 334
Q ss_pred Cceee-ccccccccccccc-cccCCCcccccCCCCCCCCCCCCCCccCCCCc-cccccchhhhhhhcCCCCCcccccccc
Q psy7814 90 SSQLS-IPEYESHVNTCYL-KYSQPSVEDITDSPTSSFRNTSGIPTNKRNSK-ILTVTVFPEHLNMQGSSNENFPCKFYQ 166 (460)
Q Consensus 90 ~~~~~-l~~l~~H~~~C~~-~~~~C~~~~~~~h~~c~~~~~~~~~~~~~c~~-~~~r~~l~~H~~~~c~~~~~v~Cp~~~ 166 (460)
+.... ..-|+.|+++-.- .+..|+ .|++ -.-|+.|-.|+++--- .....|+-
T Consensus 194 GKaFSRPWLLQGHiRTHTGEKPF~C~----------------------hC~kAFADRSNLRAHmQTHS~-~K~~qC~~-- 248 (279)
T KOG2462|consen 194 GKAFSRPWLLQGHIRTHTGEKPFSCP----------------------HCGKAFADRSNLRAHMQTHSD-VKKHQCPR-- 248 (279)
T ss_pred cccccchHHhhcccccccCCCCccCC----------------------cccchhcchHHHHHHHHhhcC-CccccCcc--
Confidence 43222 2235566644332 222343 5554 3568899999876432 34667775
Q ss_pred ccccccccchhHHHHHhhhch
Q psy7814 167 VGCREVFKSQALLEKHYDLKT 187 (460)
Q Consensus 167 ~GC~~~~~r~~~l~~H~~~~~ 187 (460)
|...+-++..|.+|+++.+
T Consensus 249 --C~KsFsl~SyLnKH~ES~C 267 (279)
T KOG2462|consen 249 --CGKSFALKSYLNKHSESAC 267 (279)
T ss_pred --hhhHHHHHHHHHHhhhhcc
Confidence 9999988887888988754
No 172
>PRK00736 hypothetical protein; Provisional
Probab=39.21 E-value=1.6e+02 Score=21.80 Aligned_cols=34 Identities=15% Similarity=0.065 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 266 LKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 266 ~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
+..|+.+++-.+.-+.+|...+..+.+.|..+.+
T Consensus 7 i~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ 40 (68)
T PRK00736 7 LTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRK 40 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666555555555555555555544444443
No 173
>KOG2462|consensus
Probab=39.12 E-value=33 Score=32.70 Aligned_cols=102 Identities=20% Similarity=0.404 Sum_probs=61.6
Q ss_pred CCCCCCcccccc-cccccchHHHHHHHhccc-cCCCCCCC-ceeeccccccccccccccccCCCcccccCCCCCCCCCCC
Q psy7814 53 NYCPIDEKVLTK-DDIFIDNYTRREILENNL-TCPYKQCS-SQLSIPEYESHVNTCYLKYSQPSVEDITDSPTSSFRNTS 129 (460)
Q Consensus 53 ~~CP~Cr~~~~~-~~~~~~~~~~~~i~~l~v-~C~n~gC~-~~~~l~~l~~H~~~C~~~~~~C~~~~~~~h~~c~~~~~~ 129 (460)
..||.|++.... ..+.+...+.+-+.+.++ .|++ |+ ....+..|+-|+.+-. ....|
T Consensus 131 ~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~--C~K~YvSmpALkMHirTH~-l~c~C----------------- 190 (279)
T KOG2462|consen 131 YKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKY--CGKVYVSMPALKMHIRTHT-LPCEC----------------- 190 (279)
T ss_pred eeccccccccccccccchhhcccccccccccccCCC--CCceeeehHHHhhHhhccC-CCccc-----------------
Confidence 358888877654 455555555555554433 3533 43 3455556666654433 11112
Q ss_pred CCCccCCCCcccccc-chhhhhhhcCCCCCcccccccccccccccc-chhHHHHHhhh
Q psy7814 130 GIPTNKRNSKILTVT-VFPEHLNMQGSSNENFPCKFYQVGCREVFK-SQALLEKHYDL 185 (460)
Q Consensus 130 ~~~~~~~c~~~~~r~-~l~~H~~~~c~~~~~v~Cp~~~~GC~~~~~-r~~~l~~H~~~ 185 (460)
.-|++...|. .|+.|+++-.. +.+..||. |..-+- |.. |.-|+.+
T Consensus 191 -----~iCGKaFSRPWLLQGHiRTHTG-EKPF~C~h----C~kAFADRSN-LRAHmQT 237 (279)
T KOG2462|consen 191 -----GICGKAFSRPWLLQGHIRTHTG-EKPFSCPH----CGKAFADRSN-LRAHMQT 237 (279)
T ss_pred -----ccccccccchHHhhcccccccC-CCCccCCc----ccchhcchHH-HHHHHHh
Confidence 2688877776 46889887654 56888886 887664 555 8888776
No 174
>KOG4445|consensus
Probab=38.73 E-value=9 Score=36.71 Aligned_cols=33 Identities=27% Similarity=0.631 Sum_probs=26.1
Q ss_pred ccccccccccccc-c-ee-cCCCCcccHhhHHHHHh
Q psy7814 16 RFECSICLEYLKD-A-IL-TSCGHKFCAACIDSWID 48 (460)
Q Consensus 16 ~l~C~iC~~~l~~-p-~~-~~CgH~fC~~Ci~~~~~ 48 (460)
.-.|.||+.-|.+ | .. +.|.|.|-..|+.+++.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~ 150 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLT 150 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHH
Confidence 5679999987754 4 33 79999999999988775
No 175
>PRK04325 hypothetical protein; Provisional
Probab=38.30 E-value=1.6e+02 Score=22.14 Aligned_cols=29 Identities=14% Similarity=0.213 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFELNLKQT 297 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~~~l~~l 297 (460)
+.+||..|+.++.-++..++.|+..+.+-
T Consensus 7 ~e~Ri~~LE~klAfQE~tIe~LN~vv~~Q 35 (74)
T PRK04325 7 MEDRITELEIQLAFQEDLIDGLNATVARQ 35 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444444443
No 176
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=38.06 E-value=88 Score=32.68 Aligned_cols=51 Identities=12% Similarity=0.096 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccCcEEEEEECChHHH
Q psy7814 272 RMVLLEQSMLEQKIKVNNFELNLKQTEEIEDNVVLKLCNGVYFWKMYNFPAK 323 (460)
Q Consensus 272 ~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~~~~~~~~g~~~w~I~~fs~~ 323 (460)
+|+.|++++.+|+.++..++.++++++.. ....--..++-|..++++..-+
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v~k~e~~-s~~d~lk~~~DfRt~~Dsi~yk 82 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRVDKVEKH-SAGDNLKFGGDFRTRYDSIQYK 82 (489)
T ss_pred HHHHHHHHHHHHHHhhcccccccchhhHh-hhcCcEEEeeEEEEEEeccccc
Confidence 56666666555555555444444443321 1111123456677777776544
No 177
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=37.92 E-value=18 Score=35.34 Aligned_cols=44 Identities=25% Similarity=0.508 Sum_probs=31.1
Q ss_pred Cccccccccccccccee---cCCCC--cccHhhHHHHHhcCCCCCCCCCcc
Q psy7814 15 PRFECSICLEYLKDAIL---TSCGH--KFCAACIDSWIDVKGKNYCPIDEK 60 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~---~~CgH--~fC~~Ci~~~~~~~~~~~CP~Cr~ 60 (460)
..-.||+|+....-.+. ..=|. .+|.-|-.+|--... .||.|+.
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~--~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRV--KCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCc--cCCCCCC
Confidence 56789999998754443 23454 558899998876544 4999975
No 178
>PRK00295 hypothetical protein; Provisional
Probab=37.61 E-value=1.7e+02 Score=21.65 Aligned_cols=34 Identities=3% Similarity=0.008 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 266 LKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 266 ~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
+..|+.+++-.+.-+.+|...+..+.+.|..+.+
T Consensus 7 i~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ 40 (68)
T PRK00295 7 VTELESRQAFQDDTIQALNDVLVEQQRVIERLQL 40 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555555554444444444443
No 179
>KOG1812|consensus
Probab=37.03 E-value=16 Score=37.03 Aligned_cols=36 Identities=28% Similarity=0.779 Sum_probs=28.1
Q ss_pred cccccccccccc-----cceecCCCCcccHhhHHHHHhcCC
Q psy7814 16 RFECSICLEYLK-----DAILTSCGHKFCAACIDSWIDVKG 51 (460)
Q Consensus 16 ~l~C~iC~~~l~-----~p~~~~CgH~fC~~Ci~~~~~~~~ 51 (460)
...||.|...+. ..+++.|||-||..|...|...++
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~ 346 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNG 346 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCc
Confidence 567999998764 345667999999999998876554
No 180
>PRK09343 prefoldin subunit beta; Provisional
Probab=36.59 E-value=1.5e+02 Score=24.62 Aligned_cols=43 Identities=19% Similarity=0.176 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q psy7814 263 SHLLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEEIEDNVV 305 (460)
Q Consensus 263 ~~~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~~~ 305 (460)
.+....+.+|+..++.++..++.....++.++.+++..++++-
T Consensus 70 ~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll 112 (121)
T PRK09343 70 TKVEKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEML 112 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455678888888888888888888888888887776555543
No 181
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=36.59 E-value=1.5e+02 Score=23.81 Aligned_cols=41 Identities=15% Similarity=0.154 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy7814 264 HLLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEEIEDNV 304 (460)
Q Consensus 264 ~~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~~ 304 (460)
+....+.+++..++.++..+...+..+..++++++..+.++
T Consensus 63 ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~ 103 (105)
T cd00632 63 EARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQA 103 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556777777777777777777777777777776654443
No 182
>PRK04406 hypothetical protein; Provisional
Probab=36.49 E-value=1.4e+02 Score=22.60 Aligned_cols=36 Identities=11% Similarity=0.155 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 264 HLLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 264 ~~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
..+..|+.+++-++.-+.+|...+..+...|..+.+
T Consensus 11 ~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ 46 (75)
T PRK04406 11 ERINDLECQLAFQEQTIEELNDALSQQQLLITKMQD 46 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445567777666666666666666555555555443
No 183
>KOG2169|consensus
Probab=36.47 E-value=58 Score=35.50 Aligned_cols=70 Identities=16% Similarity=0.277 Sum_probs=47.5
Q ss_pred CCCCCCccccccccccccccee-cCCCCcccHhhHHHHHhcCC--CCCCCCCcccccccccccchHHHHHHHh
Q psy7814 10 KLNLDPRFECSICLEYLKDAIL-TSCGHKFCAACIDSWIDVKG--KNYCPIDEKVLTKDDIFIDNYTRREILE 79 (460)
Q Consensus 10 ~~~~~~~l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~~~~~--~~~CP~Cr~~~~~~~~~~~~~~~~~i~~ 79 (460)
...+.-.|.||+++.-+.-|.. ..|.|.=|.+-..-.-.+.. .-.||+|.+....+.+..|-++...+..
T Consensus 300 tt~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~iD~~~~~iL~~ 372 (636)
T KOG2169|consen 300 TTSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLIIDGYFLNILQS 372 (636)
T ss_pred eccceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchhhhHHHHHHHhh
Confidence 3456778999999999988887 58888777655443222222 2359999988877666666666555443
No 184
>KOG0289|consensus
Probab=36.08 E-value=28 Score=35.31 Aligned_cols=49 Identities=27% Similarity=0.517 Sum_probs=43.2
Q ss_pred cccccccccccccee-cCCCCcccHhhHHHHHhcCCCCCCCCCccccccccc
Q psy7814 17 FECSICLEYLKDAIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDI 67 (460)
Q Consensus 17 l~C~iC~~~l~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~ 67 (460)
+.|.|=.++.++||. ..-||.|=++=|++++.+.+. ||+-+.++..+++
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G~--DPIt~~pLs~eel 50 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETGK--DPITNEPLSIEEL 50 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHHHHcCC--CCCCCCcCCHHHe
Confidence 469999999999998 689999999999999998885 9999999887554
No 185
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=36.07 E-value=1.5e+02 Score=24.08 Aligned_cols=40 Identities=15% Similarity=0.128 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy7814 263 SHLLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEEIED 302 (460)
Q Consensus 263 ~~~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~ 302 (460)
.+....+.+++..++..+..++..+..++.++.++++.++
T Consensus 66 ~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~ 105 (110)
T TIGR02338 66 EEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQ 105 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667777777777777777777777777777665443
No 186
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=35.97 E-value=1.5e+02 Score=22.01 Aligned_cols=23 Identities=13% Similarity=0.127 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 268 LVYERMVLLEQSMLEQKIKVNNF 290 (460)
Q Consensus 268 ~l~~~i~~l~~~~~~l~~~~~~l 290 (460)
.+..++..+.++..+|...+..+
T Consensus 28 ~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 28 ELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444444444443333333
No 187
>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=35.36 E-value=11 Score=36.85 Aligned_cols=45 Identities=22% Similarity=0.432 Sum_probs=31.1
Q ss_pred Cccccccccccccccee-c---CCC--CcccHhhHHHHHhcCCCCCCCCCccc
Q psy7814 15 PRFECSICLEYLKDAIL-T---SCG--HKFCAACIDSWIDVKGKNYCPIDEKV 61 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~-~---~Cg--H~fC~~Ci~~~~~~~~~~~CP~Cr~~ 61 (460)
..-.||+|+....-.+. . .-| +.+|.-|-.+|--... .||.|+..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~--~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRV--KCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCc--cCCCCCCC
Confidence 45589999998754443 2 345 4558899888866544 49999763
No 188
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=35.09 E-value=1.3e+02 Score=24.51 Aligned_cols=29 Identities=10% Similarity=0.148 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFELNLKQT 297 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~~~l~~l 297 (460)
++..+..|..++..|......|...|.++
T Consensus 27 LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~ 55 (107)
T PF06156_consen 27 LKKQLQELLEENARLRIENEHLRERLEEL 55 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444443
No 189
>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=34.39 E-value=31 Score=18.92 Aligned_cols=21 Identities=29% Similarity=0.668 Sum_probs=16.0
Q ss_pred ccccccccccccccchhHHHHHhhh
Q psy7814 161 PCKFYQVGCREVFKSQALLEKHYDL 185 (460)
Q Consensus 161 ~Cp~~~~GC~~~~~r~~~l~~H~~~ 185 (460)
.|+. |...+.+...|..|+..
T Consensus 2 ~C~~----C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCPI----CGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EETT----TTEEESSHHHHHHHHHH
T ss_pred CCCC----CCCccCCHHHHHHHHhH
Confidence 4665 98888888778888764
No 190
>KOG3899|consensus
Probab=33.62 E-value=23 Score=33.81 Aligned_cols=33 Identities=24% Similarity=0.577 Sum_probs=23.3
Q ss_pred CCCcccHhhHHHHHhcC-----------CCCCCCCCcccccccc
Q psy7814 34 CGHKFCAACIDSWIDVK-----------GKNYCPIDEKVLTKDD 66 (460)
Q Consensus 34 CgH~fC~~Ci~~~~~~~-----------~~~~CP~Cr~~~~~~~ 66 (460)
|....|.+|+.+|+... +...||.||+.+-..+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 56667889999887532 2245999999876544
No 191
>PRK00295 hypothetical protein; Provisional
Probab=33.50 E-value=1.5e+02 Score=21.86 Aligned_cols=23 Identities=17% Similarity=0.368 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 274 VLLEQSMLEQKIKVNNFELNLKQ 296 (460)
Q Consensus 274 ~~l~~~~~~l~~~~~~l~~~l~~ 296 (460)
..|+..+.++...|..|+.++..
T Consensus 22 e~Ln~~v~~Qq~~I~~L~~ql~~ 44 (68)
T PRK00295 22 QALNDVLVEQQRVIERLQLQMAA 44 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333
No 192
>PRK00846 hypothetical protein; Provisional
Probab=33.42 E-value=1.7e+02 Score=22.35 Aligned_cols=19 Identities=26% Similarity=0.239 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy7814 270 YERMVLLEQSMLEQKIKVN 288 (460)
Q Consensus 270 ~~~i~~l~~~~~~l~~~~~ 288 (460)
..||..|+.++.-++..++
T Consensus 12 e~Ri~~LE~rlAfQe~tIe 30 (77)
T PRK00846 12 EARLVELETRLSFQEQALT 30 (77)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444433333333
No 193
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=33.09 E-value=2.1e+02 Score=21.54 Aligned_cols=36 Identities=28% Similarity=0.370 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 264 HLLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 264 ~~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
.+++.|...+..++..+..+...++.+...+..+..
T Consensus 33 ~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~ 68 (74)
T PF12329_consen 33 NTIKKLRAKIKELEKQIKELKKKLEELEKELESLEE 68 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666666665555555555555443
No 194
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=33.06 E-value=28 Score=22.68 Aligned_cols=22 Identities=27% Similarity=0.792 Sum_probs=15.7
Q ss_pred cccccccccc-ceecC-CCCcccH
Q psy7814 19 CSICLEYLKD-AILTS-CGHKFCA 40 (460)
Q Consensus 19 C~iC~~~l~~-p~~~~-CgH~fC~ 40 (460)
|.+|.....- |.... |+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 5667765555 88864 9999985
No 195
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=32.91 E-value=37 Score=23.92 Aligned_cols=30 Identities=23% Similarity=0.712 Sum_probs=23.6
Q ss_pred ccccccccccc--ccce-e-cCCCCcccHhhHHH
Q psy7814 16 RFECSICLEYL--KDAI-L-TSCGHKFCAACIDS 45 (460)
Q Consensus 16 ~l~C~iC~~~l--~~p~-~-~~CgH~fC~~Ci~~ 45 (460)
.-.|++|...| .+.+ + ..||-.+=++|+.+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 45799999999 4554 4 48999999999775
No 196
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=32.90 E-value=51 Score=34.38 Aligned_cols=97 Identities=10% Similarity=0.091 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccCcEEEEEECChHHHHHHhhhcCCe---Eec----cCceeCC
Q psy7814 271 ERMVLLEQSMLEQKIKVNNFELNLKQTEEIEDNVVLKLCNGVYFWKMYNFPAKLKEMKEINRY---FYS----ACFYSSC 343 (460)
Q Consensus 271 ~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~~~~~~~~g~~~w~I~~fs~~~~~~~~~~~~---~~S----~~F~~~~ 343 (460)
..+..++ ++.+|+.+++.|++++.+++.+++++|.......+.|-++ |....+....+... +.- .+=+...
T Consensus 25 ~~~~~~q-kie~L~kql~~Lk~q~~~l~~~v~k~e~~s~~d~lk~~~D-fRt~~Dsi~yk~~~~~~~~~~~~~~~g~~~~ 102 (489)
T PF11853_consen 25 DDIDLLQ-KIEALKKQLEELKAQQDDLNDRVDKVEKHSAGDNLKFGGD-FRTRYDSIQYKTVDYGQMMNPNQMVPGYKYN 102 (489)
T ss_pred hhhHHHH-HHHHHHHHHHHHHHhhcccccccchhhHhhhcCcEEEeeE-EEEEEeccccccccccccccccCCCCCcCcc
Confidence 3344444 8888888888888888887777788887777777777653 44443321111000 000 0011111
Q ss_pred CccEEEEEEEeCCCC--CCeEEEEEEEe
Q psy7814 344 FGYRFCTRVNISRED--AQYLSLFIHLV 369 (460)
Q Consensus 344 ~Gyk~~l~~yp~G~~--~~~lS~~l~l~ 369 (460)
..-.|.-|+.+|..- .++++++-.|.
T Consensus 103 Nd~l~TNRl~Lnm~ak~~dn~~f~grL~ 130 (489)
T PF11853_consen 103 NDSLYTNRLRLNMKAKATDNVSFTGRLS 130 (489)
T ss_pred ccceeeeeeecccccccCCCeEEEEEEe
Confidence 222355566666532 56788877665
No 197
>PRK02793 phi X174 lysis protein; Provisional
Probab=32.65 E-value=1.7e+02 Score=21.95 Aligned_cols=35 Identities=17% Similarity=0.300 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 265 LLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEE 299 (460)
Q Consensus 265 ~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~ 299 (460)
-+.+|+.+++-.+.-+.+|...+..+...|..+.+
T Consensus 9 Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~ 43 (72)
T PRK02793 9 RLAELESRLAFQEITIEELNVTVTAHEMEMAKLRD 43 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555544445555544444444444443
No 198
>PRK00736 hypothetical protein; Provisional
Probab=32.30 E-value=1.4e+02 Score=22.00 Aligned_cols=28 Identities=18% Similarity=0.182 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 271 ERMVLLEQSMLEQKIKVNNFELNLKQTE 298 (460)
Q Consensus 271 ~~i~~l~~~~~~l~~~~~~l~~~l~~l~ 298 (460)
.-|..|+..+.++...|..|..++..+.
T Consensus 19 ~tie~Ln~~v~~Qq~~i~~L~~ql~~L~ 46 (68)
T PRK00736 19 KTIEELSDQLAEQWKTVEQMRKKLDALT 46 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444443
No 199
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=32.15 E-value=1.6e+02 Score=24.22 Aligned_cols=9 Identities=22% Similarity=0.730 Sum_probs=3.8
Q ss_pred ccEEEEEEE
Q psy7814 345 GYRFCTRVN 353 (460)
Q Consensus 345 Gyk~~l~~y 353 (460)
||..|=.+|
T Consensus 82 GFHICn~~y 90 (110)
T PRK13169 82 GFHICNLHY 90 (110)
T ss_pred CceecHHHh
Confidence 444443333
No 200
>PRK04023 DNA polymerase II large subunit; Validated
Probab=31.98 E-value=42 Score=37.91 Aligned_cols=65 Identities=17% Similarity=0.166 Sum_probs=38.7
Q ss_pred CcccccccccccccceecCCCC-----cccHhhHHHHHhcCCCCCCCCCccccccc---ccccchHHHHHHHhcccc
Q psy7814 15 PRFECSICLEYLKDAILTSCGH-----KFCAACIDSWIDVKGKNYCPIDEKVLTKD---DIFIDNYTRREILENNLT 83 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~~~CgH-----~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~---~~~~~~~~~~~i~~l~v~ 83 (460)
....|+-|...........||. .||..|-.. .....||.|+...... .+.....+.+.+.++.+.
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~----~~~y~CPKCG~El~~~s~~~i~l~~~~~~A~~~lg~~ 697 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE----VEEDECEKCGREPTPYSKRKIDLKELYDRALENLGER 697 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCCCCcceeCccccCc----CCCCcCCCCCCCCCccceEEecHHHHHHHHHHHhCCc
Confidence 3567999999863332235985 599999332 1223599999887752 222233444555555543
No 201
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=31.80 E-value=1.5e+02 Score=22.05 Aligned_cols=30 Identities=20% Similarity=0.253 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFELNLKQTE 298 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~ 298 (460)
..+++..++.....++..+.++..+|++++
T Consensus 18 ~~~~i~~lE~~~~~~e~~i~~~~~~l~~I~ 47 (71)
T PF10779_consen 18 HEERIDKLEKRDAANEKDIKNLNKQLEKIK 47 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444443
No 202
>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=31.46 E-value=34 Score=21.50 Aligned_cols=8 Identities=38% Similarity=0.617 Sum_probs=6.0
Q ss_pred CCCCCccc
Q psy7814 54 YCPIDEKV 61 (460)
Q Consensus 54 ~CP~Cr~~ 61 (460)
.||+|+.+
T Consensus 20 ~CP~Cg~~ 27 (34)
T cd00729 20 KCPICGAP 27 (34)
T ss_pred cCcCCCCc
Confidence 49998764
No 203
>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=30.90 E-value=29 Score=25.38 Aligned_cols=13 Identities=31% Similarity=1.094 Sum_probs=9.5
Q ss_pred cccHhhHHHHHhc
Q psy7814 37 KFCAACIDSWIDV 49 (460)
Q Consensus 37 ~fC~~Ci~~~~~~ 49 (460)
.||+.|+.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999875
No 204
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.85 E-value=2.1e+02 Score=21.45 Aligned_cols=28 Identities=18% Similarity=0.248 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFELNLKQ 296 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~~~l~~ 296 (460)
+.+||..|+.++.-.+..|+.|...+.+
T Consensus 6 lE~Ri~eLE~r~AfQE~tieeLn~~laE 33 (72)
T COG2900 6 LEARIIELEIRLAFQEQTIEELNDALAE 33 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555554444443
No 205
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=29.97 E-value=34 Score=19.12 Aligned_cols=20 Identities=20% Similarity=0.466 Sum_probs=12.6
Q ss_pred ccccccccccccccchhHHHHHhhh
Q psy7814 161 PCKFYQVGCREVFKSQALLEKHYDL 185 (460)
Q Consensus 161 ~Cp~~~~GC~~~~~r~~~l~~H~~~ 185 (460)
.|++ |++...+.. |.+|++.
T Consensus 2 ~C~~----C~y~t~~~~-l~~H~~~ 21 (24)
T PF13909_consen 2 KCPH----CSYSTSKSN-LKRHLKR 21 (24)
T ss_dssp E-SS----SS-EESHHH-HHHHHHH
T ss_pred CCCC----CCCcCCHHH-HHHHHHh
Confidence 4666 887777444 8888764
No 206
>PRK02119 hypothetical protein; Provisional
Probab=29.84 E-value=2.4e+02 Score=21.14 Aligned_cols=30 Identities=17% Similarity=0.196 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFELNLKQTE 298 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~ 298 (460)
+.+||..|+.++.-++..+..|+..+.+-.
T Consensus 7 ~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq 36 (73)
T PRK02119 7 LENRIAELEMKIAFQENLLEELNQALIEQQ 36 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555444444444444444444433
No 207
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=29.81 E-value=2.2e+02 Score=20.55 Aligned_cols=29 Identities=17% Similarity=0.231 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 266 LKLVYERMVLLEQSMLEQKIKVNNFELNL 294 (460)
Q Consensus 266 ~~~l~~~i~~l~~~~~~l~~~~~~l~~~l 294 (460)
+.+|.++|..|+.++..++..+.......
T Consensus 23 v~EL~~RIa~L~aEI~R~~~~~~~K~a~r 51 (59)
T PF06698_consen 23 VEELEERIALLEAEIARLEAAIAKKSASR 51 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999998888777666654433
No 208
>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=29.23 E-value=27 Score=23.14 Aligned_cols=24 Identities=29% Similarity=0.623 Sum_probs=13.6
Q ss_pred ccc--cccccccceec-CCCCcccHhh
Q psy7814 19 CSI--CLEYLKDAILT-SCGHKFCAAC 42 (460)
Q Consensus 19 C~i--C~~~l~~p~~~-~CgH~fC~~C 42 (460)
|.+ |......|+.. .|+..||..=
T Consensus 1 C~~~~C~~~~~~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 1 CSFPGCKKKDFLPFKCKHCGKSFCLKH 27 (43)
T ss_dssp -SSTTT--BCTSHEE-TTTS-EE-TTT
T ss_pred CccCcCcCccCCCeECCCCCcccCccc
Confidence 455 88877788886 4999999654
No 209
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=28.62 E-value=1.6e+02 Score=22.40 Aligned_cols=23 Identities=13% Similarity=0.137 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 263 SHLLKLVYERMVLLEQSMLEQKI 285 (460)
Q Consensus 263 ~~~~~~l~~~i~~l~~~~~~l~~ 285 (460)
++-++++..|+..|++.+..+..
T Consensus 10 r~dIk~vd~KVdaLq~~V~~l~~ 32 (75)
T PF05531_consen 10 RQDIKAVDDKVDALQTQVDDLES 32 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455666666666666655544
No 210
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=28.59 E-value=12 Score=21.98 Aligned_cols=6 Identities=33% Similarity=0.661 Sum_probs=2.5
Q ss_pred CCCCcc
Q psy7814 55 CPIDEK 60 (460)
Q Consensus 55 CP~Cr~ 60 (460)
||.|+.
T Consensus 19 C~~CG~ 24 (26)
T PF13248_consen 19 CPNCGA 24 (26)
T ss_pred ChhhCC
Confidence 444433
No 211
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=27.96 E-value=1.4e+02 Score=31.15 Aligned_cols=16 Identities=0% Similarity=-0.035 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHH
Q psy7814 266 LKLVYERMVLLEQSML 281 (460)
Q Consensus 266 ~~~l~~~i~~l~~~~~ 281 (460)
..++++++..|.+++.
T Consensus 78 asELEKqLaaLrqElq 93 (475)
T PRK13729 78 AAQMQKQYEEIRRELD 93 (475)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445555555544443
No 212
>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=27.62 E-value=24 Score=21.12 Aligned_cols=10 Identities=30% Similarity=0.776 Sum_probs=5.5
Q ss_pred CCCCcccccc
Q psy7814 55 CPIDEKVLTK 64 (460)
Q Consensus 55 CP~Cr~~~~~ 64 (460)
||.|+..+..
T Consensus 2 CP~C~s~l~~ 11 (28)
T PF03119_consen 2 CPVCGSKLVR 11 (28)
T ss_dssp -TTT--BEEE
T ss_pred cCCCCCEeEc
Confidence 9999988764
No 213
>KOG1428|consensus
Probab=27.00 E-value=38 Score=39.72 Aligned_cols=51 Identities=25% Similarity=0.535 Sum_probs=36.9
Q ss_pred CCccccccccccc--ccc-eecCCCCcccHhhHHHHHhcC--CC------CCCCCCcccccc
Q psy7814 14 DPRFECSICLEYL--KDA-ILTSCGHKFCAACIDSWIDVK--GK------NYCPIDEKVLTK 64 (460)
Q Consensus 14 ~~~l~C~iC~~~l--~~p-~~~~CgH~fC~~Ci~~~~~~~--~~------~~CP~Cr~~~~~ 64 (460)
+.+-.|-||..-- ..| +++.|+|.|-..|..+.+.+. ++ ..||+|..++.-
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 3455799998733 334 458999999999999888763 11 259999987653
No 214
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=26.93 E-value=1.2e+02 Score=29.90 Aligned_cols=20 Identities=30% Similarity=0.268 Sum_probs=10.1
Q ss_pred HHHHhhhchHHHHHHHHHHh
Q psy7814 179 LEKHYDLKTSFHLELLFNKY 198 (460)
Q Consensus 179 l~~H~~~~~~~Hl~ll~~~~ 198 (460)
+.+.+...+..|+..|....
T Consensus 146 ll~gl~~~L~~~~~~L~~D~ 165 (325)
T PF08317_consen 146 LLEGLKEGLEENLELLQEDY 165 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444445555555554443
No 215
>PF15616 TerY-C: TerY-C metal binding domain
Probab=26.50 E-value=36 Score=28.84 Aligned_cols=45 Identities=24% Similarity=0.389 Sum_probs=30.4
Q ss_pred CCCCcccccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 12 NLDPRFECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
.+...=.||-|...+--.+ ..||+.+|.+ .....+||-|+.....
T Consensus 73 eL~g~PgCP~CGn~~~fa~-C~CGkl~Ci~-------g~~~~~CPwCg~~g~~ 117 (131)
T PF15616_consen 73 ELIGAPGCPHCGNQYAFAV-CGCGKLFCID-------GEGEVTCPWCGNEGSF 117 (131)
T ss_pred HhcCCCCCCCCcChhcEEE-ecCCCEEEeC-------CCCCEECCCCCCeeee
Confidence 3444467999998865443 4899999842 2223469999876554
No 216
>KOG2068|consensus
Probab=26.18 E-value=43 Score=32.82 Aligned_cols=46 Identities=33% Similarity=0.689 Sum_probs=34.9
Q ss_pred ccccccccccc---ccee-cCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 17 FECSICLEYLK---DAIL-TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 17 l~C~iC~~~l~---~p~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
-.||+|...+. .+.. ++||++.|..|........+ .||.||.+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~--~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDG--RCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCC--CCCccCCcccc
Confidence 46999999773 2333 68999999999998876655 49999976553
No 217
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=26.09 E-value=2.7e+02 Score=21.84 Aligned_cols=40 Identities=18% Similarity=0.233 Sum_probs=29.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7814 262 NSHLLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEEIE 301 (460)
Q Consensus 262 ~~~~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~ 301 (460)
..+....+.+++..++.++..+...+..+..++.++...+
T Consensus 60 ~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l 99 (106)
T PF01920_consen 60 KEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKL 99 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677888888888888888888877777777766543
No 218
>KOG0825|consensus
Probab=25.92 E-value=55 Score=35.83 Aligned_cols=53 Identities=11% Similarity=0.164 Sum_probs=36.2
Q ss_pred CCCCCcccccccccccccce----ec---CCCCcccHhhHHHHHhc----CCCCCCCCCccccc
Q psy7814 11 LNLDPRFECSICLEYLKDAI----LT---SCGHKFCAACIDSWIDV----KGKNYCPIDEKVLT 63 (460)
Q Consensus 11 ~~~~~~l~C~iC~~~l~~p~----~~---~CgH~fC~~Ci~~~~~~----~~~~~CP~Cr~~~~ 63 (460)
+...+.-.|.+|..-+.+|+ .+ .|+|.+|..||..|... .....|+.|..-+.
T Consensus 91 eK~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 91 EKTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred cccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 34455667888888777754 23 49999999999999764 22234777765443
No 219
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=25.87 E-value=2.8e+02 Score=23.52 Aligned_cols=43 Identities=12% Similarity=0.166 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q psy7814 263 SHLLKLVYERMVLLEQSMLEQKIKVNNFELNLKQTEEIEDNVV 305 (460)
Q Consensus 263 ~~~~~~l~~~i~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~~~ 305 (460)
+.+++.....+.+|+.+++..+..+..|+.+|.++.+....++
T Consensus 86 qsli~~yE~~~~kLe~e~~~Kdsei~~Lr~~L~~~~~~n~~Le 128 (131)
T PF04859_consen 86 QSLIKTYEIVVKKLEAELRAKDSEIDRLREKLDELNRANKSLE 128 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4455556666778888888888888888888888776554443
No 220
>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 KOG0314|consensus
Probab=25.29 E-value=33 Score=35.22 Aligned_cols=47 Identities=28% Similarity=0.514 Sum_probs=37.9
Q ss_pred CCCCCccccccc-ccccccceec--CCCCcccHhhHHHHHhcCCCCCCCCCcc
Q psy7814 11 LNLDPRFECSIC-LEYLKDAILT--SCGHKFCAACIDSWIDVKGKNYCPIDEK 60 (460)
Q Consensus 11 ~~~~~~l~C~iC-~~~l~~p~~~--~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 60 (460)
-.+++.+.|++| ...+.+..++ .|...||..|+...+..+. |+.|..
T Consensus 214 ~~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~~~---~~~c~~ 263 (448)
T KOG0314|consen 214 GELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALISKS---MCVCGA 263 (448)
T ss_pred ccCCccccCceecchhhHHHHHhhhhhcccCCcccccccccccc---CCcchh
Confidence 356788999999 8888988875 7899999999999887665 555544
No 222
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=25.18 E-value=95 Score=17.79 Aligned_cols=15 Identities=13% Similarity=0.390 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHH
Q psy7814 282 EQKIKVNNFELNLKQ 296 (460)
Q Consensus 282 ~l~~~~~~l~~~l~~ 296 (460)
.+...|..|+.+|++
T Consensus 5 rlr~rI~dLer~L~~ 19 (23)
T PF04508_consen 5 RLRNRISDLERQLSE 19 (23)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444443
No 223
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=25.01 E-value=44 Score=26.28 Aligned_cols=35 Identities=31% Similarity=0.800 Sum_probs=25.4
Q ss_pred cccccccccccceecCCCCcccHhhHHHHHhcCCCCCCCCCccccc
Q psy7814 18 ECSICLEYLKDAILTSCGHKFCAACIDSWIDVKGKNYCPIDEKVLT 63 (460)
Q Consensus 18 ~C~iC~~~l~~p~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 63 (460)
.|-+|..-+..| |+.||..|-.. .+ .|..|+..+.
T Consensus 46 ~C~~CK~~v~q~-----g~~YCq~CAYk----kG--iCamCGKki~ 80 (90)
T PF10235_consen 46 KCKICKTKVHQP-----GAKYCQTCAYK----KG--ICAMCGKKIL 80 (90)
T ss_pred cccccccccccC-----CCccChhhhcc----cC--cccccCCeec
Confidence 588887765533 88999999443 23 4999998764
No 224
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=24.31 E-value=53 Score=24.70 Aligned_cols=46 Identities=17% Similarity=0.278 Sum_probs=30.5
Q ss_pred CCCCCcccccccccccchHHHHHHHhccccCCCCCCCceeecccccccc
Q psy7814 54 YCPIDEKVLTKDDIFIDNYTRREILENNLTCPYKQCSSQLSIPEYESHV 102 (460)
Q Consensus 54 ~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n~gC~~~~~l~~l~~H~ 102 (460)
.||.|+..... ...+.+...+..+.-.|.|..|+.......--.|.
T Consensus 3 ~CP~Cg~~a~i---rtSr~~s~~~~~~Y~qC~N~eCg~tF~t~es~s~t 48 (72)
T PRK09678 3 HCPLCQHAAHA---RTSRYITDTTKERYHQCQNVNCSATFITYESVQRY 48 (72)
T ss_pred cCCCCCCccEE---EEChhcChhhheeeeecCCCCCCCEEEEEEEEEEE
Confidence 49999987632 23344445567778889997888777655544443
No 225
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=24.19 E-value=41 Score=32.17 Aligned_cols=23 Identities=22% Similarity=0.639 Sum_probs=15.8
Q ss_pred ccccccccccccc---ceecCCCCcc
Q psy7814 16 RFECSICLEYLKD---AILTSCGHKF 38 (460)
Q Consensus 16 ~l~C~iC~~~l~~---p~~~~CgH~f 38 (460)
.|.||+|...+.. ...+..||+|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 3789999998852 2235567766
No 226
>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=24.18 E-value=29 Score=25.38 Aligned_cols=30 Identities=23% Similarity=0.628 Sum_probs=14.6
Q ss_pred cccccccccccc---cceec-CCCCcccHhhHHH
Q psy7814 16 RFECSICLEYLK---DAILT-SCGHKFCAACIDS 45 (460)
Q Consensus 16 ~l~C~iC~~~l~---~p~~~-~CgH~fC~~Ci~~ 45 (460)
.-.|.+|...|. ..... .||+.||..|...
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 456999988773 23333 7999999988653
No 227
>PLN02248 cellulose synthase-like protein
Probab=23.54 E-value=57 Score=37.43 Aligned_cols=31 Identities=26% Similarity=0.583 Sum_probs=26.6
Q ss_pred cCCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 32 TSCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 32 ~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
+.|+...|++|+...+..++ .||-|+.+...
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~ 178 (1135)
T PLN02248 148 CECGFKICRDCYIDAVKSGG--ICPGCKEPYKV 178 (1135)
T ss_pred ccccchhHHhHhhhhhhcCC--CCCCCcccccc
Confidence 67899999999999988866 49999988754
No 228
>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=23.33 E-value=55 Score=22.67 Aligned_cols=31 Identities=29% Similarity=0.641 Sum_probs=22.4
Q ss_pred Ccccccccccccccce-ecCCCCcccHhhHHH
Q psy7814 15 PRFECSICLEYLKDAI-LTSCGHKFCAACIDS 45 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~-~~~CgH~fC~~Ci~~ 45 (460)
+-|.|..|...+.... ...=|..||..|..+
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHHhh
Confidence 3577888888877653 456678888888765
No 229
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=23.01 E-value=3.2e+02 Score=29.02 Aligned_cols=17 Identities=18% Similarity=0.354 Sum_probs=13.6
Q ss_pred ceeCCCccEEEEEEEeCCC
Q psy7814 339 FYSSCFGYRFCTRVNISRE 357 (460)
Q Consensus 339 F~~~~~Gyk~~l~~yp~G~ 357 (460)
-|++ |-+|++.+-|+-+
T Consensus 63 v~~~--g~~~~~~~~~~~~ 79 (512)
T TIGR03689 63 VFTA--GRRMRVTVSPNVN 79 (512)
T ss_pred EEeC--CceEEEEeCCCCC
Confidence 4565 9999999999953
No 230
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=22.73 E-value=2.3e+02 Score=22.96 Aligned_cols=15 Identities=20% Similarity=0.129 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHH
Q psy7814 268 LVYERMVLLEQSMLE 282 (460)
Q Consensus 268 ~l~~~i~~l~~~~~~ 282 (460)
....|+..+|++++.
T Consensus 46 ~~~~Rl~~lE~~l~~ 60 (106)
T PF10805_consen 46 EHDRRLQALETKLEH 60 (106)
T ss_pred HHHHHHHHHHHHHHh
Confidence 345555555555443
No 231
>KOG1701|consensus
Probab=22.72 E-value=26 Score=35.45 Aligned_cols=44 Identities=16% Similarity=0.394 Sum_probs=21.2
Q ss_pred ccccccccccc-cceec-CCCCcccHhhHHHHHhcCCCCCCCCCcccccc
Q psy7814 17 FECSICLEYLK-DAILT-SCGHKFCAACIDSWIDVKGKNYCPIDEKVLTK 64 (460)
Q Consensus 17 l~C~iC~~~l~-~p~~~-~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 64 (460)
|+|.+|..-|. .|..+ .-...+|..|+.+.+. ..|-+|..++..
T Consensus 361 F~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfA----PrCs~C~~PI~P 406 (468)
T KOG1701|consen 361 FTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFA----PRCSVCGNPILP 406 (468)
T ss_pred eEEEEeccccCCccccccCCCceeeehhhhhhcC----cchhhccCCccC
Confidence 45555555443 23332 3444555555554432 136666666543
No 232
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=22.59 E-value=1.8e+02 Score=21.00 Aligned_cols=26 Identities=19% Similarity=0.275 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFELNL 294 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~~~l 294 (460)
++.|+..||+++.+.+.+....+.++
T Consensus 30 iEqRLa~LE~rL~~ae~ra~~ae~~~ 55 (60)
T PF11471_consen 30 IEQRLAALEQRLQAAEQRAQAAEARA 55 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666666666666555444444433
No 233
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=22.57 E-value=3.2e+02 Score=20.15 Aligned_cols=23 Identities=13% Similarity=0.378 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFE 291 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~ 291 (460)
+.+++.+++.++.+++..+..++
T Consensus 4 i~e~l~~ie~~l~~~~~~i~~lE 26 (71)
T PF10779_consen 4 IKEKLNRIETKLDNHEERIDKLE 26 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555444444444443
No 234
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=22.56 E-value=75 Score=30.41 Aligned_cols=47 Identities=26% Similarity=0.582 Sum_probs=32.9
Q ss_pred CCccccccccccccccee----cCCCCcc--cHhhHHHHHhcCCCCCCCCCcccc
Q psy7814 14 DPRFECSICLEYLKDAIL----TSCGHKF--CAACIDSWIDVKGKNYCPIDEKVL 62 (460)
Q Consensus 14 ~~~l~C~iC~~~l~~p~~----~~CgH~f--C~~Ci~~~~~~~~~~~CP~Cr~~~ 62 (460)
+..-.||+|+.....-++ +.-|-+| |.-|...|.....+ |..|...-
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~K--C~nC~~t~ 235 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRVK--CSNCEQSK 235 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHHH--hccccccC
Confidence 445579999997665443 2456665 99999999876553 88887643
No 235
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=22.56 E-value=4.2e+02 Score=21.40 Aligned_cols=26 Identities=4% Similarity=0.013 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 266 LKLVYERMVLLEQSMLEQKIKVNNFE 291 (460)
Q Consensus 266 ~~~l~~~i~~l~~~~~~l~~~~~~l~ 291 (460)
+..++.++..+++++..|...+..++
T Consensus 36 ~~~~~~e~~~l~~~n~~L~~eI~~L~ 61 (105)
T PRK00888 36 VAAQQQTNAKLKARNDQLFAEIDDLK 61 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444455555555555555555444
No 236
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=22.54 E-value=34 Score=28.91 Aligned_cols=12 Identities=25% Similarity=0.312 Sum_probs=7.8
Q ss_pred cccccccccccc
Q psy7814 17 FECSICLEYLKD 28 (460)
Q Consensus 17 l~C~iC~~~l~~ 28 (460)
..||.|+.+|+.
T Consensus 29 ~hCp~Cg~PLF~ 40 (131)
T COG1645 29 KHCPKCGTPLFR 40 (131)
T ss_pred hhCcccCCccee
Confidence 457777776654
No 237
>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=22.43 E-value=81 Score=25.58 Aligned_cols=45 Identities=24% Similarity=0.499 Sum_probs=27.4
Q ss_pred cccccccccccccee--------cCC---CCcccHhhHHHHHhcC-------CCCCCCCCccc
Q psy7814 17 FECSICLEYLKDAIL--------TSC---GHKFCAACIDSWIDVK-------GKNYCPIDEKV 61 (460)
Q Consensus 17 l~C~iC~~~l~~p~~--------~~C---gH~fC~~Ci~~~~~~~-------~~~~CP~Cr~~ 61 (460)
..|..|..--.+... ..| .-.||..|+....... ..-.||.|+.-
T Consensus 8 ~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 8 KTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred CCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 457777764443332 234 6679999988766531 22359988753
No 238
>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=22.34 E-value=57 Score=27.36 Aligned_cols=14 Identities=7% Similarity=0.195 Sum_probs=9.0
Q ss_pred CCCCCCCccccccc
Q psy7814 52 KNYCPIDEKVLTKD 65 (460)
Q Consensus 52 ~~~CP~Cr~~~~~~ 65 (460)
+..||.|+..+...
T Consensus 26 p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 26 PAVSPYTGEQFPPE 39 (129)
T ss_pred CccCCCcCCccCcc
Confidence 34688888765543
No 239
>KOG3268|consensus
Probab=22.25 E-value=61 Score=28.67 Aligned_cols=32 Identities=22% Similarity=0.639 Sum_probs=24.7
Q ss_pred CCCCcccHhhHHHHHhcC----CC-----CCCCCCcccccc
Q psy7814 33 SCGHKFCAACIDSWIDVK----GK-----NYCPIDEKVLTK 64 (460)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~----~~-----~~CP~Cr~~~~~ 64 (460)
+||..|-.-|+..|++.- .. ..||.|..|+..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 799999999999999841 10 259999888764
No 240
>PF14353 CpXC: CpXC protein
Probab=22.19 E-value=80 Score=26.35 Aligned_cols=40 Identities=23% Similarity=0.478 Sum_probs=23.0
Q ss_pred CCCCCccccccc-----ccccchHHHHHHHh---ccccCCCCCCCceeec
Q psy7814 54 YCPIDEKVLTKD-----DIFIDNYTRREILE---NNLTCPYKQCSSQLSI 95 (460)
Q Consensus 54 ~CP~Cr~~~~~~-----~~~~~~~~~~~i~~---l~v~C~n~gC~~~~~l 95 (460)
+||.|+..+... +...+..+...|.+ ..+.||+ |+..+.+
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~--Cg~~~~~ 50 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPS--CGHKFRL 50 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCC--CCCceec
Confidence 599999876542 12244455566654 3556864 6655543
No 241
>KOG0006|consensus
Probab=22.17 E-value=89 Score=30.39 Aligned_cols=31 Identities=23% Similarity=0.731 Sum_probs=23.2
Q ss_pred Cccccccccccccccee-cCCC--CcccHhhHHHH
Q psy7814 15 PRFECSICLEYLKDAIL-TSCG--HKFCAACIDSW 46 (460)
Q Consensus 15 ~~l~C~iC~~~l~~p~~-~~Cg--H~fC~~Ci~~~ 46 (460)
....|-.|..+ ++|+. .+|. |.-|.+|+.-+
T Consensus 220 ~ni~C~~Ctdv-~~~vlvf~Cns~HvtC~dCFr~y 253 (446)
T KOG0006|consen 220 RNITCITCTDV-RSPVLVFQCNSRHVTCLDCFRLY 253 (446)
T ss_pred ccceeEEecCC-ccceEEEecCCceeehHHhhhhH
Confidence 45678888876 45664 6886 99999999854
No 242
>KOG2042|consensus
Probab=21.73 E-value=1.2e+02 Score=34.26 Aligned_cols=67 Identities=12% Similarity=0.123 Sum_probs=57.3
Q ss_pred CCCCcccccccccccccceecC-CCCcccHhhHHHHHhcCCCCCCCCCcccccccccccchHHHHHHHhc
Q psy7814 12 NLDPRFECSICLEYLKDAILTS-CGHKFCAACIDSWIDVKGKNYCPIDEKVLTKDDIFIDNYTRREILEN 80 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~~~~-CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l 80 (460)
..++.+.=|+-..++.+||.++ -|++.+++=|.+.+-.... =|.||.+++.+.+.++..+...|...
T Consensus 866 dvpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~t--dPFNR~pLt~d~v~pn~eLK~kI~~~ 933 (943)
T KOG2042|consen 866 DVPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCT--DPFNREPLTEDMVSPNEELKAKIRCW 933 (943)
T ss_pred cCchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCC--CccccccCchhhcCCCHHHHHHHHHH
Confidence 4778888899999999999975 8999999999999877653 69999999999898988887777643
No 243
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=21.47 E-value=28 Score=24.80 Aligned_cols=30 Identities=27% Similarity=0.692 Sum_probs=21.1
Q ss_pred cccc--ccccccccc-------eec-CCCCcccHhhHHHH
Q psy7814 17 FECS--ICLEYLKDA-------ILT-SCGHKFCAACIDSW 46 (460)
Q Consensus 17 l~C~--iC~~~l~~p-------~~~-~CgH~fC~~Ci~~~ 46 (460)
..|| -|..++..+ +.. .||+.||..|...|
T Consensus 19 ~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 19 KWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred cCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 3588 787755432 235 68999999997766
No 244
>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=21.17 E-value=23 Score=37.15 Aligned_cols=52 Identities=17% Similarity=0.284 Sum_probs=33.3
Q ss_pred CCCCccccccccccccccee--cCCCCcccHhhHHHHHhcC----------CCCCCCCCcccccc
Q psy7814 12 NLDPRFECSICLEYLKDAIL--TSCGHKFCAACIDSWIDVK----------GKNYCPIDEKVLTK 64 (460)
Q Consensus 12 ~~~~~l~C~iC~~~l~~p~~--~~CgH~fC~~Ci~~~~~~~----------~~~~CP~Cr~~~~~ 64 (460)
++.+-|.|..|..+-- |.. -.=.-.||..|+...-... .-+.||.|..++..
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 PLEELYFCEHCHKIRC-PRCVSEEIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSV 64 (483)
T ss_pred CcccceecccccccCC-hhhcccccceeECccccccCChhhheeccceeccccccCCCCCCccee
Confidence 3566788999987653 322 1234578999986553321 11459999988775
No 245
>KOG3325|consensus
Probab=20.79 E-value=81 Score=27.33 Aligned_cols=26 Identities=35% Similarity=0.464 Sum_probs=21.7
Q ss_pred eEEEEEEEecCCCCCCCCCCCCceeE
Q psy7814 361 YLSLFIHLVQGENDDILDWPFVGRIR 386 (460)
Q Consensus 361 ~lS~~l~l~~g~~D~~l~Wp~~~~~~ 386 (460)
++|=-+++++|++|+.+..|-...+|
T Consensus 51 ~l~~dvhiVrGeFD~~~~yP~~kvvt 76 (183)
T KOG3325|consen 51 TLSSDVHIVRGEFDENLKYPENKVVT 76 (183)
T ss_pred hhCCCcEEEecccCccccCCccceEE
Confidence 46777899999999999999886544
No 246
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.58 E-value=46 Score=27.74 Aligned_cols=21 Identities=38% Similarity=0.659 Sum_probs=13.6
Q ss_pred ccccccccceecCCCCcccHh
Q psy7814 21 ICLEYLKDAILTSCGHKFCAA 41 (460)
Q Consensus 21 iC~~~l~~p~~~~CgH~fC~~ 41 (460)
||...-..-..+.|||.||..
T Consensus 62 i~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEecccccEEEEeccccccCh
Confidence 455554442347999999963
No 247
>PF12773 DZR: Double zinc ribbon
Probab=20.48 E-value=77 Score=21.44 Aligned_cols=10 Identities=20% Similarity=0.215 Sum_probs=6.2
Q ss_pred CCCCCccccc
Q psy7814 54 YCPIDEKVLT 63 (460)
Q Consensus 54 ~CP~Cr~~~~ 63 (460)
.||.|+..+.
T Consensus 31 ~C~~Cg~~~~ 40 (50)
T PF12773_consen 31 ICPNCGAENP 40 (50)
T ss_pred CCcCCcCCCc
Confidence 4777766544
No 248
>PTZ00173 60S ribosomal protein L10; Provisional
Probab=20.31 E-value=22 Score=32.58 Aligned_cols=14 Identities=21% Similarity=0.204 Sum_probs=11.1
Q ss_pred CCCccEEEEEEEeC
Q psy7814 342 SCFGYRFCTRVNIS 355 (460)
Q Consensus 342 ~~~Gyk~~l~~yp~ 355 (460)
|..||.+.|++||.
T Consensus 81 Gk~~fhl~IRv~P~ 94 (213)
T PTZ00173 81 GKDGFHLRIRVHPF 94 (213)
T ss_pred CCccceEEEEEcCC
Confidence 55688889999994
No 249
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=20.18 E-value=3.1e+02 Score=25.81 Aligned_cols=28 Identities=18% Similarity=0.064 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 269 VYERMVLLEQSMLEQKIKVNNFELNLKQ 296 (460)
Q Consensus 269 l~~~i~~l~~~~~~l~~~~~~l~~~l~~ 296 (460)
+...+..|+..+++++..+..++..+.+
T Consensus 61 l~~e~e~L~~~~~~l~~~v~~q~~el~~ 88 (251)
T PF11932_consen 61 LEREIENLEVYNEQLERQVASQEQELAS 88 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444333333333333
No 250
>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=20.18 E-value=28 Score=30.19 Aligned_cols=27 Identities=30% Similarity=0.522 Sum_probs=21.2
Q ss_pred CCcccHhhHHHHHhcCCCCCCCCCcccccccc
Q psy7814 35 GHKFCAACIDSWIDVKGKNYCPIDEKVLTKDD 66 (460)
Q Consensus 35 gH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 66 (460)
-+-||..|=.+.+. .||.|..++.-..
T Consensus 27 ~~~fC~kCG~~tI~-----~Cp~C~~~IrG~y 53 (158)
T PF10083_consen 27 REKFCSKCGAKTIT-----SCPNCSTPIRGDY 53 (158)
T ss_pred HHHHHHHhhHHHHH-----HCcCCCCCCCCce
Confidence 45699999988775 3999999887543
No 251
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=20.13 E-value=46 Score=23.39 Aligned_cols=14 Identities=21% Similarity=0.366 Sum_probs=9.8
Q ss_pred Cccccccccccccc
Q psy7814 15 PRFECSICLEYLKD 28 (460)
Q Consensus 15 ~~l~C~iC~~~l~~ 28 (460)
..+.||+|+.--+.
T Consensus 3 ~Wi~CP~CgnKTR~ 16 (55)
T PF14205_consen 3 EWILCPICGNKTRL 16 (55)
T ss_pred eEEECCCCCCccce
Confidence 35789999875544
No 252
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=20.12 E-value=3e+02 Score=18.82 Aligned_cols=24 Identities=17% Similarity=0.153 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy7814 268 LVYERMVLLEQSMLEQKIKVNNFE 291 (460)
Q Consensus 268 ~l~~~i~~l~~~~~~l~~~~~~l~ 291 (460)
...+.+..|.+++..+..+++.++
T Consensus 20 ~v~~~lq~Lt~kL~~vs~RLe~LE 43 (47)
T PF10393_consen 20 KVTSALQSLTQKLDAVSKRLEALE 43 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455555444444444443
No 253
>CHL00037 petA cytochrome f
Probab=20.01 E-value=2.8e+02 Score=26.90 Aligned_cols=88 Identities=17% Similarity=0.182 Sum_probs=43.1
Q ss_pred ccCceeCCCccEEEEEEEeCCCCCCeEEEEEEEecCCCCCCCCCC-CCceeEEEEEcCCCCCeeeEEEecCCCC------
Q psy7814 336 SACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDILDWP-FVGRIRFTALNTSSEFSITDEIQSDKNF------ 408 (460)
Q Consensus 336 S~~F~~~~~Gyk~~l~~yp~G~~~~~lS~~l~l~~g~~D~~l~Wp-~~~~~~l~lldq~~~~~~~~~~~~~~~~------ 408 (460)
--++|+| |-+=+=.+||+|.+++ -.+|---..|.-... |+ -.+.+.+++.+..++.....++.+.|+.
T Consensus 180 KY~iyvG--gNRGRGQvyP~G~KSN-Nnv~~as~~G~I~~I--~~~ekGg~~vti~~t~~G~~v~~~iP~Gp~LiVs~G~ 254 (320)
T CHL00037 180 KYPIYVG--GNRGRGQIYPDGSKSN-NTVYNATAAGIVSKI--LRKEKGGYEITIVDTSDGRQVVDIIPPGPELLVSEGE 254 (320)
T ss_pred cccEEec--cccCccccCCCCcccC-CcccccccCcEEEEE--EEcCCCcEEEEEEecCCCCEEEEeeCCCCeEEEecCc
Confidence 3357777 7777778999996521 112211111110000 00 0345777887766665556555544432
Q ss_pred -CCCCCCcccCCCccCCCccc
Q psy7814 409 -DSFKRPVNFFLNKKAFGFNN 428 (460)
Q Consensus 409 -~~f~~p~~~~~~~~~~G~~~ 428 (460)
-.-..|-+.+.|..|||-.+
T Consensus 255 ~v~~~qpLTnnPNVGGFGQ~e 275 (320)
T CHL00037 255 SIKLDQPLTNNPNVGGFGQGE 275 (320)
T ss_pred eEecCCcccCCCCcCccCccc
Confidence 11223332255666777544
Done!