Query psy12021
Match_columns 106
No_of_seqs 169 out of 1942
Neff 10.3
Searched_HMMs 46136
Date Fri Aug 16 16:38:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12021.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12021hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.8 6.6E-20 1.4E-24 114.8 2.0 95 7-102 165-264 (279)
2 KOG2462|consensus 99.7 1E-17 2.2E-22 105.0 3.2 58 48-106 183-240 (279)
3 KOG3623|consensus 99.3 1.9E-13 4.2E-18 95.4 0.7 62 40-102 910-971 (1007)
4 PHA02768 hypothetical protein; 99.3 7.9E-13 1.7E-17 64.6 1.9 43 53-98 6-48 (55)
5 KOG3576|consensus 99.3 3.4E-13 7.5E-18 81.9 -0.7 67 39-106 132-198 (267)
6 PHA00733 hypothetical protein 99.2 4.8E-11 1E-15 68.8 5.0 56 48-106 69-124 (128)
7 KOG3623|consensus 99.1 4.2E-11 9E-16 84.1 3.0 58 48-106 890-947 (1007)
8 KOG3576|consensus 99.0 5.7E-11 1.2E-15 72.3 0.6 57 49-106 114-170 (267)
9 KOG1074|consensus 99.0 9.9E-11 2.1E-15 83.0 -0.2 52 53-105 354-405 (958)
10 PF13465 zf-H2C2_2: Zinc-finge 98.9 7.1E-10 1.5E-14 46.7 2.3 26 67-93 1-26 (26)
11 KOG1074|consensus 98.9 4E-10 8.7E-15 80.0 1.3 62 43-105 624-692 (958)
12 PHA00732 hypothetical protein 98.8 5E-09 1.1E-13 55.5 2.5 45 52-103 1-46 (79)
13 PHA00616 hypothetical protein 98.7 8.7E-09 1.9E-13 48.2 1.9 34 52-86 1-34 (44)
14 PF05605 zf-Di19: Drought indu 98.7 7.3E-08 1.6E-12 47.5 4.4 52 52-106 2-54 (54)
15 KOG3608|consensus 98.6 1E-09 2.2E-14 71.8 -3.1 102 3-104 136-260 (467)
16 KOG3993|consensus 98.6 1.2E-08 2.6E-13 68.1 1.6 55 51-105 294-380 (500)
17 PHA00616 hypothetical protein 98.6 2.7E-08 5.9E-13 46.5 1.4 26 81-106 1-26 (44)
18 KOG3608|consensus 98.5 6.9E-09 1.5E-13 68.0 -1.6 52 53-104 264-315 (467)
19 PF00096 zf-C2H2: Zinc finger, 98.5 1.3E-07 2.7E-12 38.5 1.9 22 82-103 1-22 (23)
20 PHA02768 hypothetical protein; 98.4 1.2E-07 2.7E-12 46.4 1.8 24 82-105 6-29 (55)
21 PF00096 zf-C2H2: Zinc finger, 98.4 2.8E-07 6E-12 37.4 2.4 23 53-75 1-23 (23)
22 PF13912 zf-C2H2_6: C2H2-type 98.3 4E-07 8.7E-12 38.4 1.7 25 81-105 1-25 (27)
23 PF13894 zf-C2H2_4: C2H2-type 98.3 6.5E-07 1.4E-11 36.4 2.1 24 82-105 1-24 (24)
24 PHA00733 hypothetical protein 98.2 6.2E-07 1.3E-11 51.8 2.0 55 49-104 37-96 (128)
25 PF13465 zf-H2C2_2: Zinc-finge 98.2 2.5E-07 5.4E-12 38.8 -0.6 23 42-64 4-26 (26)
26 PF13894 zf-C2H2_4: C2H2-type 98.1 4.3E-06 9.4E-11 33.8 2.4 24 53-76 1-24 (24)
27 PF13912 zf-C2H2_6: C2H2-type 98.1 2.8E-06 6E-11 35.7 1.7 26 52-77 1-26 (27)
28 PF12756 zf-C2H2_2: C2H2 type 97.9 9.2E-06 2E-10 44.4 2.4 23 82-104 51-73 (100)
29 COG5189 SFP1 Putative transcri 97.9 3.3E-06 7.1E-11 55.0 0.3 55 49-103 346-420 (423)
30 PLN03086 PRLI-interacting fact 97.8 1.8E-05 4E-10 55.6 3.4 38 51-91 477-514 (567)
31 smart00355 ZnF_C2H2 zinc finge 97.8 1.9E-05 4.1E-10 32.4 2.2 23 82-104 1-23 (26)
32 PF09237 GAGA: GAGA factor; I 97.8 1.2E-05 2.5E-10 38.6 1.3 25 81-105 24-48 (54)
33 PLN03086 PRLI-interacting fact 97.6 9.2E-05 2E-09 52.2 4.4 51 48-104 449-499 (567)
34 smart00355 ZnF_C2H2 zinc finge 97.6 6E-05 1.3E-09 30.8 2.2 24 53-76 1-24 (26)
35 PF12874 zf-met: Zinc-finger o 97.4 0.00014 3E-09 29.8 1.9 22 53-74 1-22 (25)
36 PRK04860 hypothetical protein; 97.4 0.00012 2.6E-09 43.9 2.3 38 52-94 119-156 (160)
37 PF13909 zf-H2C2_5: C2H2-type 97.4 0.00017 3.7E-09 29.3 1.9 24 82-106 1-24 (24)
38 PF09237 GAGA: GAGA factor; I 97.2 0.00051 1.1E-08 33.0 3.0 33 48-80 20-52 (54)
39 PF12874 zf-met: Zinc-finger o 97.2 0.0003 6.6E-09 28.7 1.6 23 82-104 1-23 (25)
40 KOG3993|consensus 97.1 7.2E-05 1.6E-09 50.6 -0.7 52 52-104 267-318 (500)
41 COG5189 SFP1 Putative transcri 97.0 0.00016 3.4E-09 47.4 0.1 69 3-73 351-419 (423)
42 PF12171 zf-C2H2_jaz: Zinc-fin 96.8 0.00052 1.1E-08 28.7 0.5 22 53-74 2-23 (27)
43 PF12756 zf-C2H2_2: C2H2 type 96.7 0.0016 3.5E-08 35.4 2.5 72 3-76 1-74 (100)
44 PF12171 zf-C2H2_jaz: Zinc-fin 96.7 0.00076 1.7E-08 28.2 0.7 22 82-103 2-23 (27)
45 PF13909 zf-H2C2_5: C2H2-type 96.5 0.0033 7.2E-08 25.3 2.3 24 53-77 1-24 (24)
46 PF13913 zf-C2HC_2: zinc-finge 96.4 0.0039 8.4E-08 25.6 2.0 20 82-102 3-22 (25)
47 smart00451 ZnF_U1 U1-like zinc 95.6 0.01 2.3E-07 26.0 1.8 21 82-102 4-24 (35)
48 smart00451 ZnF_U1 U1-like zinc 95.6 0.013 2.8E-07 25.7 2.0 23 52-74 3-25 (35)
49 COG5048 FOG: Zn-finger [Genera 94.6 0.0048 1E-07 41.5 -1.3 55 51-106 288-348 (467)
50 PF05605 zf-Di19: Drought indu 94.6 0.044 9.5E-07 26.7 2.4 23 82-105 3-25 (54)
51 cd00350 rubredoxin_like Rubred 94.2 0.027 5.8E-07 24.7 1.0 24 53-89 2-25 (33)
52 COG4049 Uncharacterized protei 94.1 0.024 5.2E-07 27.8 0.8 32 46-77 11-42 (65)
53 cd00729 rubredoxin_SM Rubredox 93.6 0.065 1.4E-06 23.6 1.7 25 52-89 2-26 (34)
54 KOG2893|consensus 93.3 0.022 4.8E-07 36.3 -0.1 45 50-100 9-53 (341)
55 COG4049 Uncharacterized protei 93.2 0.063 1.4E-06 26.3 1.3 30 76-106 13-42 (65)
56 KOG2186|consensus 93.1 0.063 1.4E-06 34.5 1.7 46 53-102 4-49 (276)
57 PF09538 FYDLN_acid: Protein o 92.7 0.043 9.2E-07 30.9 0.5 30 53-94 10-39 (108)
58 KOG1146|consensus 91.4 0.2 4.3E-06 39.1 2.7 57 47-103 460-540 (1406)
59 PF13719 zinc_ribbon_5: zinc-r 90.5 0.17 3.6E-06 22.7 1.1 34 53-92 3-36 (37)
60 PF04959 ARS2: Arsenite-resist 90.2 0.17 3.8E-06 31.9 1.3 26 51-76 76-101 (214)
61 COG1592 Rubrerythrin [Energy p 89.7 0.2 4.3E-06 30.4 1.3 24 52-89 134-157 (166)
62 PF13717 zinc_ribbon_4: zinc-r 89.5 0.25 5.4E-06 22.0 1.2 34 53-92 3-36 (36)
63 PF02892 zf-BED: BED zinc fing 89.4 0.41 8.9E-06 22.1 2.0 21 82-102 17-41 (45)
64 PF05443 ROS_MUCR: ROS/MUCR tr 89.1 0.24 5.2E-06 28.9 1.3 22 82-106 73-94 (132)
65 smart00659 RPOLCX RNA polymera 89.0 0.28 6.1E-06 22.9 1.3 27 52-90 2-28 (44)
66 TIGR02098 MJ0042_CXXC MJ0042 f 88.9 0.25 5.3E-06 22.1 1.0 34 53-92 3-36 (38)
67 PF09723 Zn-ribbon_8: Zinc rib 87.9 0.079 1.7E-06 24.5 -1.0 29 53-89 6-34 (42)
68 PF12013 DUF3505: Protein of u 87.5 0.55 1.2E-05 26.2 2.1 25 82-106 81-109 (109)
69 smart00834 CxxC_CXXC_SSSS Puta 87.5 0.13 2.9E-06 23.2 -0.4 30 53-90 6-35 (41)
70 TIGR02300 FYDLN_acid conserved 87.5 0.27 6E-06 28.3 0.8 31 53-95 10-40 (129)
71 TIGR02605 CxxC_CxxC_SSSS putat 87.1 0.15 3.1E-06 24.5 -0.4 29 53-89 6-34 (52)
72 COG2888 Predicted Zn-ribbon RN 86.5 0.59 1.3E-05 23.3 1.6 32 51-88 26-57 (61)
73 smart00531 TFIIE Transcription 84.8 1.2 2.7E-05 26.3 2.7 39 48-91 95-133 (147)
74 TIGR00373 conserved hypothetic 84.5 0.82 1.8E-05 27.4 1.9 34 48-91 105-138 (158)
75 smart00614 ZnF_BED BED zinc fi 84.4 0.86 1.9E-05 21.7 1.6 12 53-64 19-30 (50)
76 KOG4167|consensus 83.5 0.33 7.2E-06 35.8 -0.1 28 50-77 790-817 (907)
77 PF08790 zf-LYAR: LYAR-type C2 83.2 0.25 5.4E-06 20.8 -0.5 20 53-73 1-20 (28)
78 PF04959 ARS2: Arsenite-resist 82.3 1.4 3.1E-05 27.8 2.4 28 77-105 74-101 (214)
79 PRK06266 transcription initiat 82.2 1 2.2E-05 27.6 1.7 34 49-92 114-147 (178)
80 COG5048 FOG: Zn-finger [Genera 82.0 0.86 1.9E-05 30.7 1.4 56 49-105 30-87 (467)
81 COG1997 RPL43A Ribosomal prote 81.9 0.44 9.6E-06 25.6 0.0 33 50-93 33-65 (89)
82 smart00734 ZnF_Rad18 Rad18-lik 81.5 1.7 3.7E-05 17.8 1.8 20 82-102 2-21 (26)
83 PRK00398 rpoP DNA-directed RNA 80.6 0.93 2E-05 21.2 0.9 29 52-91 3-31 (46)
84 PF08274 PhnA_Zn_Ribbon: PhnA 80.0 0.76 1.6E-05 19.6 0.4 25 54-90 4-28 (30)
85 PRK00464 nrdR transcriptional 79.0 0.26 5.7E-06 29.5 -1.6 11 82-92 29-39 (154)
86 PF12013 DUF3505: Protein of u 77.4 2.7 5.8E-05 23.4 2.3 25 53-77 81-109 (109)
87 PF13878 zf-C2H2_3: zinc-finge 77.0 3.4 7.3E-05 18.9 2.2 24 53-76 14-39 (41)
88 COG4957 Predicted transcriptio 76.9 1.5 3.2E-05 25.7 1.1 20 83-105 78-97 (148)
89 PF03604 DNA_RNApol_7kD: DNA d 76.4 2.7 5.9E-05 18.2 1.6 26 53-90 1-26 (32)
90 COG1996 RPC10 DNA-directed RNA 76.3 1.6 3.6E-05 20.9 1.0 29 51-90 5-33 (49)
91 KOG2482|consensus 74.8 1.9 4.1E-05 29.3 1.3 23 52-74 195-217 (423)
92 PF09963 DUF2197: Uncharacteri 74.7 1.2 2.6E-05 22.0 0.3 37 54-90 4-40 (56)
93 PF07754 DUF1610: Domain of un 74.3 1.4 3.1E-05 17.8 0.4 7 82-88 17-23 (24)
94 PRK14890 putative Zn-ribbon RN 73.7 2.1 4.5E-05 21.4 1.0 31 52-88 25-55 (59)
95 KOG4173|consensus 72.5 1.8 3.8E-05 27.3 0.8 51 54-105 108-170 (253)
96 KOG2785|consensus 72.4 5.7 0.00012 27.4 3.1 53 51-103 165-242 (390)
97 COG4530 Uncharacterized protei 71.2 1.8 3.8E-05 24.5 0.5 28 54-93 11-38 (129)
98 PF09986 DUF2225: Uncharacteri 71.1 4.7 0.0001 25.5 2.4 55 3-65 7-61 (214)
99 PF13451 zf-trcl: Probable zin 70.6 2.7 6E-05 20.1 1.0 37 51-88 3-40 (49)
100 KOG4167|consensus 70.3 0.95 2.1E-05 33.6 -0.9 23 82-104 793-815 (907)
101 PF05191 ADK_lid: Adenylate ki 70.1 1.2 2.5E-05 19.9 -0.3 32 53-93 2-33 (36)
102 KOG3408|consensus 69.1 4 8.6E-05 23.5 1.6 27 48-74 53-79 (129)
103 KOG2593|consensus 67.6 4.5 9.7E-05 28.3 1.9 39 48-90 124-162 (436)
104 COG5236 Uncharacterized conser 66.8 8.4 0.00018 26.4 3.0 48 54-103 222-273 (493)
105 KOG2785|consensus 66.7 7.1 0.00015 26.9 2.7 51 53-103 4-90 (390)
106 TIGR01206 lysW lysine biosynth 66.0 1.7 3.7E-05 21.3 -0.2 30 53-91 3-32 (54)
107 PF15269 zf-C2H2_7: Zinc-finge 65.8 5.1 0.00011 18.8 1.4 21 82-102 21-41 (54)
108 TIGR00280 L37a ribosomal prote 65.4 1.2 2.6E-05 24.2 -0.9 31 51-92 34-64 (91)
109 PRK09678 DNA-binding transcrip 65.4 1.5 3.3E-05 22.8 -0.5 11 82-92 28-40 (72)
110 PHA00626 hypothetical protein 65.4 3.6 7.8E-05 20.3 0.8 15 81-95 23-37 (59)
111 PTZ00255 60S ribosomal protein 64.7 1.5 3.2E-05 23.9 -0.6 32 50-92 34-65 (90)
112 PF10571 UPF0547: Uncharacteri 64.3 3.8 8.3E-05 16.8 0.7 11 82-92 15-25 (26)
113 PRK03824 hypA hydrogenase nick 63.7 2.5 5.4E-05 24.7 0.2 15 51-65 69-83 (135)
114 COG2331 Uncharacterized protei 62.7 3.2 7E-05 21.8 0.4 32 53-92 13-44 (82)
115 smart00154 ZnF_AN1 AN1-like Zi 61.7 4.1 8.9E-05 18.4 0.7 14 81-94 12-25 (39)
116 KOG1146|consensus 61.5 1.8 4E-05 34.2 -0.8 51 55-105 439-489 (1406)
117 PF07503 zf-HYPF: HypF finger; 60.3 0.95 2.1E-05 20.1 -1.6 11 82-92 22-32 (35)
118 PF01363 FYVE: FYVE zinc finge 58.9 4.7 0.0001 20.3 0.7 27 53-92 10-36 (69)
119 KOG2636|consensus 58.3 7.2 0.00016 27.5 1.6 29 45-73 394-423 (497)
120 PF01428 zf-AN1: AN1-like Zinc 57.7 3.2 6.9E-05 19.1 -0.1 14 81-94 13-26 (43)
121 TIGR00100 hypA hydrogenase nic 57.7 4.5 9.8E-05 22.9 0.5 27 51-90 69-95 (115)
122 COG4306 Uncharacterized protei 57.1 3 6.6E-05 24.1 -0.3 16 79-94 66-81 (160)
123 COG5236 Uncharacterized conser 56.6 20 0.00042 24.8 3.3 24 82-105 221-244 (493)
124 PRK12380 hydrogenase nickel in 56.4 5.6 0.00012 22.5 0.7 26 51-89 69-94 (113)
125 PF01155 HypA: Hydrogenase exp 56.0 7.6 0.00017 21.9 1.2 26 52-90 70-95 (113)
126 TIGR00686 phnA alkylphosphonat 55.8 5.9 0.00013 22.3 0.7 29 54-94 4-32 (109)
127 cd00065 FYVE FYVE domain; Zinc 55.4 9.9 0.00021 18.2 1.5 9 55-63 5-13 (57)
128 PF01927 Mut7-C: Mut7-C RNAse 55.1 8.5 0.00018 22.7 1.4 48 53-101 92-144 (147)
129 PF07975 C1_4: TFIIH C1-like d 54.0 2.7 5.8E-05 20.3 -0.7 17 52-68 21-37 (51)
130 KOG4173|consensus 52.7 9.4 0.0002 24.2 1.3 50 51-104 78-129 (253)
131 PF10013 DUF2256: Uncharacteri 52.4 10 0.00022 17.5 1.1 13 83-95 10-22 (42)
132 PRK00564 hypA hydrogenase nick 51.8 6.2 0.00013 22.5 0.4 28 51-90 70-97 (117)
133 PF10263 SprT-like: SprT-like 49.6 4.8 0.0001 23.7 -0.3 32 52-92 123-154 (157)
134 COG3677 Transposase and inacti 49.2 9.1 0.0002 22.2 0.9 16 78-94 51-66 (129)
135 KOG2231|consensus 49.2 21 0.00046 26.7 2.8 11 64-74 126-136 (669)
136 KOG2636|consensus 49.1 14 0.00029 26.3 1.8 29 73-102 394-423 (497)
137 KOG1280|consensus 49.0 21 0.00046 24.5 2.6 42 48-89 75-117 (381)
138 smart00064 FYVE Protein presen 48.8 17 0.00037 18.1 1.8 10 54-63 12-21 (68)
139 PF14311 DUF4379: Domain of un 47.9 16 0.00036 17.5 1.6 14 53-66 29-42 (55)
140 KOG1842|consensus 47.6 13 0.00029 26.3 1.5 28 51-78 14-41 (505)
141 KOG2071|consensus 47.4 13 0.00029 27.1 1.6 24 81-104 418-441 (579)
142 PRK10220 hypothetical protein; 46.4 11 0.00024 21.3 0.9 13 82-94 21-33 (111)
143 KOG2482|consensus 45.5 14 0.0003 25.4 1.3 52 52-104 144-218 (423)
144 PLN02294 cytochrome c oxidase 45.1 11 0.00025 23.0 0.9 15 50-64 139-153 (174)
145 PF04780 DUF629: Protein of un 45.0 19 0.00041 25.7 2.0 21 82-102 58-78 (466)
146 cd00924 Cyt_c_Oxidase_Vb Cytoc 44.7 9.8 0.00021 21.0 0.5 20 72-93 72-91 (97)
147 KOG4124|consensus 44.1 11 0.00023 26.0 0.7 26 46-71 392-417 (442)
148 KOG2071|consensus 44.0 17 0.00037 26.6 1.7 28 49-76 415-442 (579)
149 PRK04351 hypothetical protein; 42.6 7.8 0.00017 23.1 -0.1 33 52-93 112-144 (149)
150 KOG2231|consensus 42.4 27 0.00058 26.2 2.5 22 54-75 184-205 (669)
151 PF07295 DUF1451: Protein of u 42.4 9.9 0.00021 22.6 0.3 35 48-93 108-143 (146)
152 PF07282 OrfB_Zn_ribbon: Putat 42.0 23 0.00049 17.7 1.6 31 53-94 29-59 (69)
153 KOG0717|consensus 41.2 17 0.00036 26.0 1.3 22 82-103 293-314 (508)
154 COG1773 Rubredoxin [Energy pro 40.8 13 0.00029 18.2 0.6 13 52-64 3-15 (55)
155 PF02176 zf-TRAF: TRAF-type zi 40.7 8.3 0.00018 18.7 -0.2 42 51-94 8-55 (60)
156 COG4338 Uncharacterized protei 40.4 11 0.00024 17.9 0.3 14 83-96 14-27 (54)
157 COG3091 SprT Zn-dependent meta 40.3 13 0.00029 22.3 0.6 35 50-90 115-149 (156)
158 PRK03681 hypA hydrogenase nick 39.7 18 0.00038 20.5 1.1 27 51-89 69-95 (114)
159 PF04810 zf-Sec23_Sec24: Sec23 38.4 28 0.00061 15.6 1.5 12 49-60 21-32 (40)
160 PF10537 WAC_Acf1_DNA_bd: ATP- 38.4 60 0.0013 18.1 3.0 38 51-90 2-39 (102)
161 PF11931 DUF3449: Domain of un 37.9 11 0.00023 23.7 0.0 27 47-73 96-123 (196)
162 PTZ00448 hypothetical protein; 36.8 29 0.00062 24.1 1.8 23 52-74 314-336 (373)
163 PF01286 XPA_N: XPA protein N- 36.5 14 0.0003 16.3 0.2 12 82-93 4-15 (34)
164 PRK00762 hypA hydrogenase nick 36.5 13 0.00027 21.4 0.1 32 51-89 69-100 (124)
165 PF10276 zf-CHCC: Zinc-finger 36.3 12 0.00026 17.1 -0.0 9 53-61 30-38 (40)
166 PF09845 DUF2072: Zn-ribbon co 36.2 17 0.00038 21.2 0.7 15 52-66 1-15 (131)
167 PF14353 CpXC: CpXC protein 36.1 16 0.00034 20.9 0.5 19 76-94 33-51 (128)
168 PF13824 zf-Mss51: Zinc-finger 35.8 30 0.00064 17.0 1.4 9 52-60 14-22 (55)
169 smart00731 SprT SprT homologue 35.6 14 0.00031 21.7 0.3 33 52-92 112-144 (146)
170 COG5188 PRP9 Splicing factor 3 35.5 28 0.0006 24.1 1.6 28 46-73 368-396 (470)
171 COG4640 Predicted membrane pro 35.5 27 0.00059 24.5 1.6 17 53-69 16-32 (465)
172 PLN03238 probable histone acet 35.4 34 0.00073 22.9 1.9 21 82-102 49-69 (290)
173 PF12760 Zn_Tnp_IS1595: Transp 35.0 7.3 0.00016 18.1 -0.8 8 82-89 38-45 (46)
174 PF11789 zf-Nse: Zinc-finger o 34.8 32 0.00069 16.9 1.4 33 49-86 21-53 (57)
175 COG1656 Uncharacterized conser 34.6 28 0.0006 21.3 1.4 19 82-100 131-149 (165)
176 PF04780 DUF629: Protein of un 34.3 40 0.00087 24.2 2.3 30 48-77 53-83 (466)
177 PF03811 Zn_Tnp_IS1: InsA N-te 34.1 5.7 0.00012 17.7 -1.2 13 74-87 23-35 (36)
178 PHA02998 RNA polymerase subuni 34.1 9.3 0.0002 23.6 -0.7 38 53-94 144-184 (195)
179 PF06397 Desulfoferrod_N: Desu 34.0 18 0.00039 16.1 0.4 12 51-62 5-16 (36)
180 PLN02748 tRNA dimethylallyltra 33.1 34 0.00074 24.5 1.8 26 49-74 415-441 (468)
181 PF04423 Rad50_zn_hook: Rad50 32.9 16 0.00035 17.5 0.2 13 83-95 22-34 (54)
182 KOG0717|consensus 32.8 32 0.00069 24.7 1.6 22 53-74 293-314 (508)
183 COG4888 Uncharacterized Zn rib 32.7 8 0.00017 21.5 -1.0 39 49-92 19-57 (104)
184 COG4896 Uncharacterized protei 32.4 27 0.00059 17.6 0.9 9 52-60 31-39 (68)
185 PRK00432 30S ribosomal protein 32.3 20 0.00043 17.2 0.4 12 79-91 36-47 (50)
186 KOG3014|consensus 31.8 28 0.0006 22.8 1.1 10 54-63 39-48 (257)
187 PF00301 Rubredoxin: Rubredoxi 31.8 21 0.00045 16.9 0.4 36 53-90 2-43 (47)
188 TIGR00622 ssl1 transcription f 31.4 30 0.00066 19.7 1.1 48 54-104 57-104 (112)
189 PF08209 Sgf11: Sgf11 (transcr 31.1 39 0.00084 14.7 1.2 22 52-74 4-25 (33)
190 cd00730 rubredoxin Rubredoxin; 29.3 24 0.00052 16.9 0.4 35 53-89 2-42 (50)
191 COG3357 Predicted transcriptio 28.6 27 0.00059 19.1 0.6 13 81-93 58-70 (97)
192 PF02891 zf-MIZ: MIZ/SP-RING z 28.6 28 0.00061 16.5 0.6 23 62-89 27-49 (50)
193 PRK01343 zinc-binding protein; 28.4 38 0.00082 16.8 1.0 12 81-92 9-20 (57)
194 PLN03238 probable histone acet 28.2 78 0.0017 21.3 2.7 25 50-74 46-70 (290)
195 PLN03239 histone acetyltransfe 28.2 40 0.00087 23.2 1.5 22 81-102 106-127 (351)
196 PF01215 COX5B: Cytochrome c o 28.0 24 0.00053 20.8 0.4 16 50-65 110-125 (136)
197 PF02748 PyrI_C: Aspartate car 27.8 37 0.00081 16.4 1.0 18 48-65 31-48 (52)
198 KOG0978|consensus 27.8 20 0.00044 26.9 0.0 19 82-100 679-697 (698)
199 COG1326 Uncharacterized archae 27.6 53 0.0011 20.7 1.8 33 53-91 7-40 (201)
200 PLN00104 MYST -like histone ac 27.5 40 0.00086 24.1 1.4 22 81-102 198-219 (450)
201 TIGR00627 tfb4 transcription f 27.2 52 0.0011 21.9 1.8 24 53-91 256-279 (279)
202 PF14787 zf-CCHC_5: GAG-polypr 27.1 30 0.00064 15.4 0.5 13 83-95 4-16 (36)
203 KOG2807|consensus 27.0 94 0.002 21.4 2.9 54 51-104 289-368 (378)
204 PF06220 zf-U1: U1 zinc finger 27.0 67 0.0015 14.3 1.7 10 82-91 4-13 (38)
205 KOG2907|consensus 26.9 36 0.00077 19.4 0.9 39 53-93 75-114 (116)
206 COG1675 TFA1 Transcription ini 26.4 66 0.0014 19.9 2.0 33 48-90 109-141 (176)
207 PF08792 A2L_zn_ribbon: A2L zi 26.2 31 0.00067 14.9 0.5 10 82-91 22-31 (33)
208 COG0846 SIR2 NAD-dependent pro 26.1 43 0.00093 21.9 1.3 38 47-89 117-154 (250)
209 TIGR03831 YgiT_finger YgiT-typ 26.1 29 0.00063 15.5 0.4 8 83-90 34-41 (46)
210 PTZ00064 histone acetyltransfe 26.0 48 0.0011 24.1 1.6 23 81-103 280-302 (552)
211 PF12907 zf-met2: Zinc-binding 25.8 51 0.0011 15.0 1.2 6 54-59 3-8 (40)
212 KOG2747|consensus 25.4 56 0.0012 22.9 1.8 24 51-74 157-180 (396)
213 COG1571 Predicted DNA-binding 25.4 49 0.0011 23.4 1.5 31 53-95 351-381 (421)
214 COG3364 Zn-ribbon containing p 25.4 36 0.00077 19.1 0.7 14 52-65 2-15 (112)
215 TIGR00319 desulf_FeS4 desulfof 25.3 35 0.00075 14.6 0.5 12 51-62 6-17 (34)
216 PTZ00043 cytochrome c oxidase 25.3 35 0.00076 22.1 0.7 16 49-64 178-193 (268)
217 PF01096 TFIIS_C: Transcriptio 25.1 30 0.00065 15.4 0.3 10 53-62 29-38 (39)
218 smart00440 ZnF_C2C2 C2C2 Zinc 25.0 33 0.00071 15.4 0.5 10 82-91 29-38 (40)
219 PRK14138 NAD-dependent deacety 24.8 1E+02 0.0022 20.0 2.8 38 47-89 114-151 (244)
220 cd01410 SIRT7 SIRT7: Eukaryoti 24.2 1.2E+02 0.0026 19.0 3.0 40 47-90 90-129 (206)
221 cd00974 DSRD Desulforedoxin (D 24.1 37 0.00081 14.5 0.5 12 51-62 3-14 (34)
222 KOG3507|consensus 23.9 43 0.00094 16.7 0.8 31 49-91 17-47 (62)
223 PF02591 DUF164: Putative zinc 23.5 96 0.0021 14.8 2.0 32 54-90 24-55 (56)
224 PF08271 TF_Zn_Ribbon: TFIIB z 23.0 42 0.00091 15.2 0.6 9 82-90 1-9 (43)
225 PRK08222 hydrogenase 4 subunit 23.0 65 0.0014 19.8 1.6 18 81-98 114-131 (181)
226 KOG1842|consensus 22.9 52 0.0011 23.6 1.2 26 79-105 14-39 (505)
227 cd01413 SIR2_Af2 SIR2_Af2: Arc 22.8 1E+02 0.0022 19.5 2.5 39 46-90 107-145 (222)
228 TIGR00244 transcriptional regu 21.6 41 0.00089 20.1 0.5 12 82-93 29-40 (147)
229 PF04438 zf-HIT: HIT zinc fing 21.5 39 0.00085 14.2 0.3 11 82-92 14-24 (30)
230 PF02146 SIR2: Sir2 family; I 21.3 69 0.0015 19.3 1.5 39 47-90 100-138 (178)
231 TIGR00515 accD acetyl-CoA carb 21.2 79 0.0017 21.1 1.8 32 53-94 27-58 (285)
232 PF14369 zf-RING_3: zinc-finge 21.2 45 0.00098 14.6 0.5 10 83-92 23-32 (35)
233 KOG4727|consensus 21.0 63 0.0014 20.0 1.2 23 51-73 74-96 (193)
234 TIGR01384 TFS_arch transcripti 20.6 39 0.00085 18.5 0.3 12 52-63 16-27 (104)
235 PRK11823 DNA repair protein Ra 20.5 70 0.0015 22.7 1.5 24 52-90 7-30 (446)
236 PF12773 DZR: Double zinc ribb 20.1 63 0.0014 14.9 0.9 10 82-91 30-39 (50)
No 1
>KOG2462|consensus
Probab=99.78 E-value=6.6e-20 Score=114.75 Aligned_cols=95 Identities=19% Similarity=0.279 Sum_probs=76.8
Q ss_pred ceecccCCceeeeeEeeeeccccCCcC-----cccccCccCcceeccCCCceecccccccccCHHHHHHHHHHHcCCCCC
Q psy12021 7 AICVAKSTSITETCIVIRSLGVDKSLD-----TNVLNFINWPTVRQYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPK 81 (106)
Q Consensus 7 ~~c~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~ 81 (106)
.+|++.+.+...+..||+.......-. ...-=++.-+.++|+|+|||.|..|+|.|.++++|+.||++|.+.++
T Consensus 165 ~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~- 243 (279)
T KOG2462|consen 165 KYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKK- 243 (279)
T ss_pred CCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCcc-
Confidence 488888888888888888776432211 22222566788999999999999999999999999999999999887
Q ss_pred cccCccccccCChHHHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~ 102 (106)
|+|..|+|.|.+.+.|..|..
T Consensus 244 ~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 244 HQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred ccCcchhhHHHHHHHHHHhhh
Confidence 999999999999999998865
No 2
>KOG2462|consensus
Probab=99.70 E-value=1e-17 Score=105.01 Aligned_cols=58 Identities=28% Similarity=0.709 Sum_probs=53.3
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhhcC
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
+..-+.+|.+|||.|..+..|+.|+|+|+|++| |.|+.|+|+|..+++|+.|+++|.+
T Consensus 183 TH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKP-F~C~hC~kAFADRSNLRAHmQTHS~ 240 (279)
T KOG2462|consen 183 THTLPCECGICGKAFSRPWLLQGHIRTHTGEKP-FSCPHCGKAFADRSNLRAHMQTHSD 240 (279)
T ss_pred ccCCCcccccccccccchHHhhcccccccCCCC-ccCCcccchhcchHHHHHHHHhhcC
Confidence 334679999999999999999999999999776 9999999999999999999999853
No 3
>KOG3623|consensus
Probab=99.34 E-value=1.9e-13 Score=95.37 Aligned_cols=62 Identities=29% Similarity=0.599 Sum_probs=49.1
Q ss_pred ccCcceeccCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHH
Q psy12021 40 INWPTVRQYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 40 ~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~ 102 (106)
+-.|.-.|+|.+||.|.+|.|+|+.+..|..|+|.|.|+++ |+|+.|+|.|+...++..||.
T Consensus 910 LaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKP-fQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 910 LARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKP-FQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred HHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCc-chhhhhhhhcccccchHhhhc
Confidence 34455667888888888888888888888888888888665 888888888888888887764
No 4
>PHA02768 hypothetical protein; Provisional
Probab=99.32 E-value=7.9e-13 Score=64.60 Aligned_cols=43 Identities=16% Similarity=0.414 Sum_probs=39.3
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLK 98 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~ 98 (106)
|+|+.||+.|...+.|..|+++|+ ++ ++|..|++.|.+.+.|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~-~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TN-LKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--Cc-ccCCcccceecccceeE
Confidence 899999999999999999999997 44 99999999999887764
No 5
>KOG3576|consensus
Probab=99.28 E-value=3.4e-13 Score=81.86 Aligned_cols=67 Identities=27% Similarity=0.593 Sum_probs=54.3
Q ss_pred CccCcceeccCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhhcC
Q psy12021 39 FINWPTVRQYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 39 ~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
.+..++.-|...+.+.|..||+.|....+|++|+++|+|.+| |+|..|+|+|.++.+|..|.+.-||
T Consensus 132 mlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrp-ykc~~c~kaftqrcsleshl~kvhg 198 (267)
T KOG3576|consen 132 MLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRP-YKCSLCEKAFTQRCSLESHLKKVHG 198 (267)
T ss_pred HHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccc-cchhhhhHHHHhhccHHHHHHHHcC
Confidence 334455556667778888899999999999999999999665 9999999999999999998886664
No 6
>PHA00733 hypothetical protein
Probab=99.19 E-value=4.8e-11 Score=68.77 Aligned_cols=56 Identities=20% Similarity=0.361 Sum_probs=50.4
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhhcC
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
.+.++|.|+.|++.|.....|..|++.+. .+ |.|+.|++.|.....|..|+...|+
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~--~~-~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYTE--HS-KVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHHhcCC--cC-ccCCCCCCccCCHHHHHHHHHHhcC
Confidence 45789999999999999999999999762 44 9999999999999999999998875
No 7
>KOG3623|consensus
Probab=99.11 E-value=4.2e-11 Score=84.05 Aligned_cols=58 Identities=33% Similarity=0.702 Sum_probs=53.8
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhhcC
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
+....|.|+.|+|+|.-.+.|.+|.--|+|.++ |+|.+|.|+|..+..|..|+|.|.|
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRP-yqC~iCkKAFKHKHHLtEHkRLHSG 947 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEHSGQRP-YQCIICKKAFKHKHHLTEHKRLHSG 947 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhhcCCCC-cccchhhHhhhhhhhhhhhhhhccC
Confidence 556789999999999999999999999999555 9999999999999999999999976
No 8
>KOG3576|consensus
Probab=99.03 E-value=5.7e-11 Score=72.34 Aligned_cols=57 Identities=26% Similarity=0.480 Sum_probs=53.5
Q ss_pred CCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhhcC
Q psy12021 49 NSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
+...|.|..|+|.|..+..|.+|++-|...++ +.|..|||.|...-.|.+|.|+|+|
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr-~lct~cgkgfndtfdlkrh~rthtg 170 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKR-HLCTFCGKGFNDTFDLKRHTRTHTG 170 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHH-HHHhhccCcccchhhhhhhhccccC
Confidence 45679999999999999999999999998787 9999999999999999999999986
No 9
>KOG1074|consensus
Probab=98.96 E-value=9.9e-11 Score=83.04 Aligned_cols=52 Identities=33% Similarity=0.637 Sum_probs=48.3
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhhc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
.+|.+|.|+|.+.+.|+.|.|+|+|+.+ |+|.+||..|+.+.+|+.|...|+
T Consensus 354 hkCr~CakvfgS~SaLqiHlRSHTGERP-fqCnvCG~~FSTkGNLKvH~~rH~ 405 (958)
T KOG1074|consen 354 HKCRFCAKVFGSDSALQIHLRSHTGERP-FQCNVCGNRFSTKGNLKVHFQRHR 405 (958)
T ss_pred chhhhhHhhcCchhhhhhhhhccCCCCC-eeecccccccccccceeeeeeecc
Confidence 5799999999999999999999999665 999999999999999999987775
No 10
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.94 E-value=7.1e-10 Score=46.67 Aligned_cols=26 Identities=42% Similarity=0.898 Sum_probs=22.8
Q ss_pred HHHHHHHHHcCCCCCcccCccccccCC
Q psy12021 67 GLSRHKRDECGQEPKYQCPQCPYRASQ 93 (106)
Q Consensus 67 ~l~~h~~~h~~~~~~~~C~~C~k~f~~ 93 (106)
+|..|+++|+|+++ |.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~-~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKP-YKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSS-EEESSSSEEESS
T ss_pred CHHHHhhhcCCCCC-CCCCCCcCeeCc
Confidence 47899999999776 999999999964
No 11
>KOG1074|consensus
Probab=98.91 E-value=4e-10 Score=80.05 Aligned_cols=62 Identities=24% Similarity=0.542 Sum_probs=30.2
Q ss_pred cceeccCCCceecccccccccCHHHHHHHHHHHcCCCC----CcccC---ccccccCChHHHHHHHHhhc
Q psy12021 43 PTVRQYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEP----KYQCP---QCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 43 ~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~----~~~C~---~C~k~f~~~~~l~~H~~~hh 105 (106)
|.++|+|++||.|.+||++|..+.+|+.|+.+|.. ++ ++.|+ +|-+.|...-.|+.|+++|.
T Consensus 624 HyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka-~p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~ 692 (958)
T KOG1074|consen 624 HYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKA-KPPARVQFSCPSTFICQKKFTNAVTLPQHIRIHL 692 (958)
T ss_pred hhhcccCcCccccccccchhccccchhhccccccc-CccccccccCCchhhhcccccccccccceEEeec
Confidence 44445555555555555555555555555555432 11 14444 45555555555555555543
No 12
>PHA00732 hypothetical protein
Probab=98.77 E-value=5e-09 Score=55.47 Aligned_cols=45 Identities=29% Similarity=0.611 Sum_probs=37.6
Q ss_pred ceecccccccccCHHHHHHHHHH-HcCCCCCcccCccccccCChHHHHHHHHh
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRD-ECGQEPKYQCPQCPYRASQKATLKTHMAI 103 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~-h~~~~~~~~C~~C~k~f~~~~~l~~H~~~ 103 (106)
||.|..|++.|.....|..|++. |. + +.|+.|++.|.+ +..|.+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~-~~C~~CgKsF~~---l~~H~~~ 46 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---L-TKCPVCNKSYRR---LNQHFYS 46 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---C-CccCCCCCEeCC---hhhhhcc
Confidence 58999999999999999999985 53 3 689999999984 6667654
No 13
>PHA00616 hypothetical protein
Probab=98.71 E-value=8.7e-09 Score=48.16 Aligned_cols=34 Identities=21% Similarity=0.325 Sum_probs=30.6
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCc
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQ 86 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~ 86 (106)
||.|..||+.|..++.|..|++.|+|+++ +.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~-~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNK-LTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCc-cceeE
Confidence 68999999999999999999999999776 88765
No 14
>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=98.65 E-value=7.3e-08 Score=47.52 Aligned_cols=52 Identities=31% Similarity=0.586 Sum_probs=40.9
Q ss_pred ceecccccccccCHHHHHHHHHHH-cCCCCCcccCccccccCChHHHHHHHHhhcC
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDE-CGQEPKYQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h-~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
.|.|+.|++. .+...|..|.... ..+...+.|+.|...+. ..|..|+..+|+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 4899999994 5677899997754 44444599999998655 489999999886
No 15
>KOG3608|consensus
Probab=98.65 E-value=1e-09 Score=71.80 Aligned_cols=102 Identities=22% Similarity=0.274 Sum_probs=55.7
Q ss_pred ccccceecccCCceeeeeEeeeeccccCCcC----------------------cccccCccCcceeccCCCceecccccc
Q psy12021 3 VCSHAICVAKSTSITETCIVIRSLGVDKSLD----------------------TNVLNFINWPTVRQYNSGMFPCEVCGK 60 (106)
Q Consensus 3 ~C~~~~c~~~~~~~~~~~~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~C~~C~~ 60 (106)
.|.|+-|...|.++.+...++...+...+.+ ...+..+..+.+.|++++...|..||.
T Consensus 136 ~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~ 215 (467)
T KOG3608|consen 136 RCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGE 215 (467)
T ss_pred ccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHH
Confidence 4777788877777777766555444432221 112233444555566666666666666
Q ss_pred cccCHHHHHHHHHHHc-CCCCCcccCccccccCChHHHHHHHHhh
Q psy12021 61 KYKYKWGLSRHKRDEC-GQEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 61 ~f~~~~~l~~h~~~h~-~~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
.|..+..|-+|.+..+ ..+.+|+|..|.|.|.....|..|+..|
T Consensus 216 ~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rH 260 (467)
T KOG3608|consen 216 LFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRH 260 (467)
T ss_pred HhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHh
Confidence 6666666666655432 1223355555555555555555554443
No 16
>KOG3993|consensus
Probab=98.64 E-value=1.2e-08 Score=68.10 Aligned_cols=55 Identities=22% Similarity=0.457 Sum_probs=47.3
Q ss_pred CceecccccccccCHHHHHHHHHHHcC--------CCC------------------------CcccCccccccCChHHHH
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECG--------QEP------------------------KYQCPQCPYRASQKATLK 98 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~--------~~~------------------------~~~C~~C~k~f~~~~~l~ 98 (106)
..|.|.+|+|+|....+|..|+|+|.- ..+ .|.|..|+|.|.+..+|.
T Consensus 294 vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLr 373 (500)
T KOG3993|consen 294 VEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLR 373 (500)
T ss_pred eeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHH
Confidence 459999999999999999999999831 111 278999999999999999
Q ss_pred HHHHhhc
Q psy12021 99 THMAIKH 105 (106)
Q Consensus 99 ~H~~~hh 105 (106)
.|+..|+
T Consensus 374 KHqlthq 380 (500)
T KOG3993|consen 374 KHQLTHQ 380 (500)
T ss_pred HhHHhhh
Confidence 9998886
No 17
>PHA00616 hypothetical protein
Probab=98.57 E-value=2.7e-08 Score=46.49 Aligned_cols=26 Identities=27% Similarity=0.447 Sum_probs=24.8
Q ss_pred CcccCccccccCChHHHHHHHHhhcC
Q psy12021 81 KYQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
||+|+.||+.|...+.|..|++.|||
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg 26 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHK 26 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcC
Confidence 59999999999999999999999986
No 18
>KOG3608|consensus
Probab=98.53 E-value=6.9e-09 Score=67.99 Aligned_cols=52 Identities=19% Similarity=0.554 Sum_probs=28.5
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhh
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
|.|+.|.......+.|.+|++.-+...+||+|+.|.+.|.+.+.|++|...|
T Consensus 264 ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~H 315 (467)
T KOG3608|consen 264 YKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVH 315 (467)
T ss_pred ccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhc
Confidence 4455555555555555555553333333466666666666666666666554
No 19
>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=98.46 E-value=1.3e-07 Score=38.46 Aligned_cols=22 Identities=45% Similarity=0.807 Sum_probs=11.9
Q ss_pred cccCccccccCChHHHHHHHHh
Q psy12021 82 YQCPQCPYRASQKATLKTHMAI 103 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~ 103 (106)
|.|+.|++.|.....|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 3455555555555555555554
No 20
>PHA02768 hypothetical protein; Provisional
Probab=98.44 E-value=1.2e-07 Score=46.40 Aligned_cols=24 Identities=25% Similarity=0.610 Sum_probs=23.2
Q ss_pred cccCccccccCChHHHHHHHHhhc
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
|.|++||+.|.+.++|..|+++|+
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC
Confidence 899999999999999999999986
No 21
>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=98.41 E-value=2.8e-07 Score=37.41 Aligned_cols=23 Identities=39% Similarity=0.895 Sum_probs=21.5
Q ss_pred eecccccccccCHHHHHHHHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDE 75 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h 75 (106)
|.|+.|++.|..+..|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 22
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=98.31 E-value=4e-07 Score=38.39 Aligned_cols=25 Identities=20% Similarity=0.456 Sum_probs=15.8
Q ss_pred CcccCccccccCChHHHHHHHHhhc
Q psy12021 81 KYQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
||.|..|++.|.....|..|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 3566666666666666666666554
No 23
>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=98.29 E-value=6.5e-07 Score=36.40 Aligned_cols=24 Identities=38% Similarity=0.790 Sum_probs=13.3
Q ss_pred cccCccccccCChHHHHHHHHhhc
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
|.|+.|++.|.....|..|++.+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 456666666666666666666554
No 24
>PHA00733 hypothetical protein
Probab=98.24 E-value=6.2e-07 Score=51.78 Aligned_cols=55 Identities=18% Similarity=0.179 Sum_probs=43.3
Q ss_pred CCCceecccccccccCHHHHHHH--HHH---HcCCCCCcccCccccccCChHHHHHHHHhh
Q psy12021 49 NSGMFPCEVCGKKYKYKWGLSRH--KRD---ECGQEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~~~~l~~h--~~~---h~~~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
..+++.|.+|.+.|..+..|..+ +.. +.+ .+||.|+.||+.|.....|..|++.+
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~-~kPy~C~~Cgk~Fss~s~L~~H~r~h 96 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKA-VSPYVCPLCLMPFSSSVSLKQHIRYT 96 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCC-CCCccCCCCCCcCCCHHHHHHHHhcC
Confidence 35678999999999888887766 221 233 34599999999999999999999854
No 25
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.16 E-value=2.5e-07 Score=38.78 Aligned_cols=23 Identities=17% Similarity=0.443 Sum_probs=20.0
Q ss_pred CcceeccCCCceecccccccccC
Q psy12021 42 WPTVRQYNSGMFPCEVCGKKYKY 64 (106)
Q Consensus 42 ~~~~~~~~~~~~~C~~C~~~f~~ 64 (106)
.+++.|++++||.|+.|++.|..
T Consensus 4 ~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 4 RHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHSSSSSEEESSSSEEESS
T ss_pred HHhhhcCCCCCCCCCCCcCeeCc
Confidence 46678999999999999999963
No 26
>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=98.08 E-value=4.3e-06 Score=33.84 Aligned_cols=24 Identities=38% Similarity=0.847 Sum_probs=20.2
Q ss_pred eecccccccccCHHHHHHHHHHHc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDEC 76 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~ 76 (106)
|.|+.|++.|.+...|..|++.++
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 689999999999999999998874
No 27
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=98.07 E-value=2.8e-06 Score=35.75 Aligned_cols=26 Identities=38% Similarity=0.860 Sum_probs=23.5
Q ss_pred ceecccccccccCHHHHHHHHHHHcC
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECG 77 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~ 77 (106)
+|.|..|++.|.+...|..|++.|.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 58999999999999999999988753
No 28
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.91 E-value=9.2e-06 Score=44.42 Aligned_cols=23 Identities=30% Similarity=0.722 Sum_probs=18.5
Q ss_pred cccCccccccCChHHHHHHHHhh
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
+.|..|++.|.....|..|++.+
T Consensus 51 ~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 51 FRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp EEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCccCCCCcCHHHHHHHHcCc
Confidence 78888888888888888888864
No 29
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.87 E-value=3.3e-06 Score=55.03 Aligned_cols=55 Identities=31% Similarity=0.523 Sum_probs=44.6
Q ss_pred CCCceeccc--ccccccCHHHHHHHHHHHc---------------C---CCCCcccCccccccCChHHHHHHHHh
Q psy12021 49 NSGMFPCEV--CGKKYKYKWGLSRHKRDEC---------------G---QEPKYQCPQCPYRASQKATLKTHMAI 103 (106)
Q Consensus 49 ~~~~~~C~~--C~~~f~~~~~l~~h~~~h~---------------~---~~~~~~C~~C~k~f~~~~~l~~H~~~ 103 (106)
+++||.|++ |+|.|+....|+.|+.--+ + +.+||.|+.|+|.|.....|..|+.-
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~H 420 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKH 420 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecccc
Confidence 459999987 9999999999999987432 0 12459999999999999988887653
No 30
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.84 E-value=1.8e-05 Score=55.55 Aligned_cols=38 Identities=21% Similarity=0.434 Sum_probs=19.3
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCcccccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRA 91 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f 91 (106)
+++.|. ||+.+ .+..|..|+..|.+.++ +.|+.|++.|
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kp-i~C~fC~~~v 514 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRL-ITCRFCGDMV 514 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCc-eeCCCCCCcc
Confidence 445555 55433 34555555555554333 5555555555
No 31
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.83 E-value=1.9e-05 Score=32.35 Aligned_cols=23 Identities=39% Similarity=0.806 Sum_probs=17.2
Q ss_pred cccCccccccCChHHHHHHHHhh
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
|.|+.|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 46777888888887787777755
No 32
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.78 E-value=1.2e-05 Score=38.59 Aligned_cols=25 Identities=32% Similarity=0.664 Sum_probs=10.6
Q ss_pred CcccCccccccCChHHHHHHHHhhc
Q psy12021 81 KYQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
|..|++|+..+.+..+|.+|+.++|
T Consensus 24 PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHHHHT
T ss_pred CCCCCcchhhccchhhHHHHHHHHh
Confidence 3455555555555555555554444
No 33
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.63 E-value=9.2e-05 Score=52.16 Aligned_cols=51 Identities=27% Similarity=0.565 Sum_probs=41.4
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhh
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
...+.+.|+.|++.|. ...|..|+..++ ++ +.|+ ||+.+ .+..|..|++.|
T Consensus 449 el~~H~~C~~Cgk~f~-~s~LekH~~~~H--kp-v~Cp-Cg~~~-~R~~L~~H~~th 499 (567)
T PLN03086 449 EAKNHVHCEKCGQAFQ-QGEMEKHMKVFH--EP-LQCP-CGVVL-EKEQMVQHQAST 499 (567)
T ss_pred ccccCccCCCCCCccc-hHHHHHHHHhcC--CC-ccCC-CCCCc-chhHHHhhhhcc
Confidence 3456689999999996 678999999985 55 9999 99765 568899998765
No 34
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.63 E-value=6e-05 Score=30.76 Aligned_cols=24 Identities=38% Similarity=0.746 Sum_probs=21.7
Q ss_pred eecccccccccCHHHHHHHHHHHc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDEC 76 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~ 76 (106)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999999764
No 35
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.41 E-value=0.00014 Score=29.79 Aligned_cols=22 Identities=32% Similarity=0.789 Sum_probs=13.5
Q ss_pred eecccccccccCHHHHHHHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
|.|+.|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666554
No 36
>PRK04860 hypothetical protein; Provisional
Probab=97.41 E-value=0.00012 Score=43.86 Aligned_cols=38 Identities=26% Similarity=0.595 Sum_probs=32.5
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCCh
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQK 94 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~ 94 (106)
+|.|. |++ ....+..|.++|.+.++ |.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~-YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAV-YRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCcc-EECCCCCceeEEe
Confidence 69998 987 56778999999999776 9999999988654
No 37
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.37 E-value=0.00017 Score=29.29 Aligned_cols=24 Identities=46% Similarity=1.064 Sum_probs=14.3
Q ss_pred cccCccccccCChHHHHHHHHhhcC
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
|+|+.|+-... ...|.+|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 46677766555 6667777776664
No 38
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.25 E-value=0.00051 Score=33.03 Aligned_cols=33 Identities=21% Similarity=0.368 Sum_probs=23.7
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCC
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEP 80 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~ 80 (106)
..+.|-.|++|+..+.+..+|.+|+..+++.++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 456678999999999999999999998888554
No 39
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.16 E-value=0.0003 Score=28.73 Aligned_cols=23 Identities=26% Similarity=0.571 Sum_probs=20.8
Q ss_pred cccCccccccCChHHHHHHHHhh
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
|.|+.|++.|.....|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 57999999999999999998864
No 40
>KOG3993|consensus
Probab=97.15 E-value=7.2e-05 Score=50.58 Aligned_cols=52 Identities=27% Similarity=0.581 Sum_probs=44.6
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhh
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
.|.|..|-..|.+...|.+|.=.-.-... |+|++|+|.|+-..+|..|.|-|
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vE-YrCPEC~KVFsCPANLASHRRWH 318 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVE-YRCPECDKVFSCPANLASHRRWH 318 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEee-ecCCcccccccCchhhhhhhccc
Confidence 48899999999999999999654444355 99999999999999999998866
No 41
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.03 E-value=0.00016 Score=47.42 Aligned_cols=69 Identities=19% Similarity=0.232 Sum_probs=44.1
Q ss_pred ccccceecccCCceeeeeEeeeeccccCCcCcccccCccCcceeccCCCceecccccccccCHHHHHHHHH
Q psy12021 3 VCSHAICVAKSTSITETCIVIRSLGVDKSLDTNVLNFINWPTVRQYNSGMFPCEVCGKKYKYKWGLSRHKR 73 (106)
Q Consensus 3 ~C~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~ 73 (106)
.|+..+|.+++.....+.-|+.+= ..+...............-...+||.|+.|+|.|+....|+.|+.
T Consensus 351 kCpV~gC~K~YknqnGLKYH~lhG--H~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 351 KCPVEGCNKKYKNQNGLKYHMLHG--HQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCCCCCchhhhccccchhhhhhcc--ccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 588889999988777666554322 222222222222222222345799999999999999999988854
No 42
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.76 E-value=0.00052 Score=28.69 Aligned_cols=22 Identities=27% Similarity=0.670 Sum_probs=14.5
Q ss_pred eecccccccccCHHHHHHHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
|-|..|++.|.+...+..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 5567777777777766666553
No 43
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.72 E-value=0.0016 Score=35.37 Aligned_cols=72 Identities=19% Similarity=0.266 Sum_probs=22.3
Q ss_pred ccccceecccCCceeeeeEeeeeccccCCcCcccccCccCc--ceeccCCCceecccccccccCHHHHHHHHHHHc
Q psy12021 3 VCSHAICVAKSTSITETCIVIRSLGVDKSLDTNVLNFINWP--TVRQYNSGMFPCEVCGKKYKYKWGLSRHKRDEC 76 (106)
Q Consensus 3 ~C~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~ 76 (106)
.|. .|...+.....+..|+...+.-.-............ .........+.|..|++.|.+...|..|++.+.
T Consensus 1 ~C~--~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 1 QCL--FCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp --------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred Ccc--ccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 364 888888888888888765443221111111100000 011112236999999999999999999999753
No 44
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.66 E-value=0.00076 Score=28.16 Aligned_cols=22 Identities=32% Similarity=0.564 Sum_probs=20.3
Q ss_pred cccCccccccCChHHHHHHHHh
Q psy12021 82 YQCPQCPYRASQKATLKTHMAI 103 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~ 103 (106)
|.|..|++.|.....|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7899999999999999999875
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.53 E-value=0.0033 Score=25.32 Aligned_cols=24 Identities=25% Similarity=0.480 Sum_probs=18.5
Q ss_pred eecccccccccCHHHHHHHHHHHcC
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECG 77 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~ 77 (106)
|.|..|+-... +..|..|++.+++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 68999997777 8899999998753
No 46
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=96.37 E-value=0.0039 Score=25.60 Aligned_cols=20 Identities=25% Similarity=0.549 Sum_probs=10.7
Q ss_pred cccCccccccCChHHHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~ 102 (106)
..|+.||+.| ..+.|..|++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3566666666 3334555554
No 47
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=95.62 E-value=0.01 Score=25.99 Aligned_cols=21 Identities=14% Similarity=0.572 Sum_probs=14.1
Q ss_pred cccCccccccCChHHHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~ 102 (106)
|.|+.|++.|.....+..|++
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred eEccccCCccCCHHHHHHHHC
Confidence 667777777776666666654
No 48
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=95.58 E-value=0.013 Score=25.70 Aligned_cols=23 Identities=17% Similarity=0.515 Sum_probs=20.2
Q ss_pred ceecccccccccCHHHHHHHHHH
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
+|.|+.|++.|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999999999888764
No 49
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.64 E-value=0.0048 Score=41.52 Aligned_cols=55 Identities=27% Similarity=0.552 Sum_probs=48.2
Q ss_pred CceecccccccccCHHHHHHHHH--HHcCC--CCCcccC--ccccccCChHHHHHHHHhhcC
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKR--DECGQ--EPKYQCP--QCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~--~h~~~--~~~~~C~--~C~k~f~~~~~l~~H~~~hh~ 106 (106)
.++.|..|...|.....|.+|.+ .|.++ ++ +.|+ .|++.|.+...+..|..+|.+
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~-~~~p~~~~~~~~~~~~~~~~~~~~~~~ 348 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP-FSCPYSLCGKLFSRNDALKRHILLHTS 348 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCc-eeeeccCCCccccccccccCCcccccC
Confidence 46889999999999999999999 78886 55 9999 799999999999988887753
No 50
>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=94.61 E-value=0.044 Score=26.70 Aligned_cols=23 Identities=26% Similarity=0.598 Sum_probs=18.8
Q ss_pred cccCccccccCChHHHHHHHHhhc
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
|.|+.|++. .....|..|....|
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H 25 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEH 25 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHC
Confidence 899999995 55678999988765
No 51
>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=94.25 E-value=0.027 Score=24.65 Aligned_cols=24 Identities=38% Similarity=0.948 Sum_probs=17.3
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
|.|..||..+... +.++.|+.||.
T Consensus 2 ~~C~~CGy~y~~~-------------~~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGE-------------EAPWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCC-------------cCCCcCcCCCC
Confidence 7899999776432 24589999985
No 52
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=94.10 E-value=0.024 Score=27.78 Aligned_cols=32 Identities=19% Similarity=0.454 Sum_probs=25.6
Q ss_pred eccCCCceecccccccccCHHHHHHHHHHHcC
Q psy12021 46 RQYNSGMFPCEVCGKKYKYKWGLSRHKRDECG 77 (106)
Q Consensus 46 ~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~ 77 (106)
...|+.-+.|+.||..|....+..+|....++
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 44577778899999999998888888776555
No 53
>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=93.61 E-value=0.065 Score=23.63 Aligned_cols=25 Identities=36% Similarity=0.879 Sum_probs=18.1
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
.|.|..||..+. +.++|..|+.||.
T Consensus 2 ~~~C~~CG~i~~-------------g~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHE-------------GEEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeE-------------CCcCCCcCcCCCC
Confidence 488999996653 3335589999985
No 54
>KOG2893|consensus
Probab=93.33 E-value=0.022 Score=36.30 Aligned_cols=45 Identities=18% Similarity=0.461 Sum_probs=34.8
Q ss_pred CCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHH
Q psy12021 50 SGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTH 100 (106)
Q Consensus 50 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H 100 (106)
.++| |..|++.|.....|..|++. +. |+|-+|-|...+-..|..|
T Consensus 9 ~kpw-cwycnrefddekiliqhqka----kh-fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQKA----KH-FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred CCce-eeecccccchhhhhhhhhhh----cc-ceeeeehhhhccCCCceee
Confidence 3455 88999999999999998873 55 9999998876665555544
No 55
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=93.16 E-value=0.063 Score=26.35 Aligned_cols=30 Identities=23% Similarity=0.500 Sum_probs=24.4
Q ss_pred cCCCCCcccCccccccCChHHHHHHHHhhcC
Q psy12021 76 CGQEPKYQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 76 ~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
.|+.- +.|+-||+.|.....+.+|....|+
T Consensus 13 DGE~~-lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEF-LRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCcee-eeCCchhHHHHHhHHHHHHhhHHhh
Confidence 45555 8999999999999999999876553
No 56
>KOG2186|consensus
Probab=93.12 E-value=0.063 Score=34.46 Aligned_cols=46 Identities=24% Similarity=0.524 Sum_probs=34.0
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~ 102 (106)
|.|+.||....-+ .+-.|+..-++ .. |.|-.|++.|.+. .+..|.+
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~-fSCIDC~k~F~~~-sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AY-FSCIDCGKTFERV-SYKNHTK 49 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-Ce-eEEeecccccccc-hhhhhhh
Confidence 7899999877644 45568887777 55 8999999999884 4566654
No 57
>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=92.70 E-value=0.043 Score=30.86 Aligned_cols=30 Identities=27% Similarity=0.650 Sum_probs=22.7
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCCh
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQK 94 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~ 94 (106)
..|..||+.|.. | .+.|..|+.||..|...
T Consensus 10 R~Cp~CG~kFYD---L---------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYD---L---------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhcc---C---------CCCCccCCCCCCccCcc
Confidence 579999998842 2 24458999999988765
No 58
>KOG1146|consensus
Probab=91.37 E-value=0.2 Score=39.11 Aligned_cols=57 Identities=23% Similarity=0.448 Sum_probs=46.3
Q ss_pred ccCCCceecccccccccCHHHHHHHHHHHc------------------------CCCCCcccCccccccCChHHHHHHHH
Q psy12021 47 QYNSGMFPCEVCGKKYKYKWGLSRHKRDEC------------------------GQEPKYQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 47 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~------------------------~~~~~~~C~~C~k~f~~~~~l~~H~~ 102 (106)
+...+.+.|..|+..|+....|..|+|.-+ ....||.|..|...+.....|..|++
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 444588999999999999999999999811 01234999999999999999999986
Q ss_pred h
Q psy12021 103 I 103 (106)
Q Consensus 103 ~ 103 (106)
.
T Consensus 540 S 540 (1406)
T KOG1146|consen 540 S 540 (1406)
T ss_pred H
Confidence 3
No 59
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=90.53 E-value=0.17 Score=22.69 Aligned_cols=34 Identities=18% Similarity=0.468 Sum_probs=23.8
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
..|+.|+..|.-...- +..+... .+|+.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~-----l~~~~~~-vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK-----LPAGGRK-VRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHH-----cccCCcE-EECCCCCcEee
Confidence 4799999998765532 2233355 89999998874
No 60
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=90.18 E-value=0.17 Score=31.87 Aligned_cols=26 Identities=23% Similarity=0.446 Sum_probs=13.0
Q ss_pred CceecccccccccCHHHHHHHHHHHc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDEC 76 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~ 76 (106)
..|.|..|+|.|+-......|+..-+
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred CEECCCCCCcccCChHHHHHHHhhcC
Confidence 34566666666666665555555433
No 61
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=89.72 E-value=0.2 Score=30.36 Aligned_cols=24 Identities=38% Similarity=0.859 Sum_probs=19.2
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
.|.|.+||.+ +.| ++|-.||.||.
T Consensus 134 ~~vC~vCGy~-------------~~g-e~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYT-------------HEG-EAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCc-------------ccC-CCCCcCCCCCC
Confidence 6999999854 456 67799999983
No 62
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=89.45 E-value=0.25 Score=22.01 Aligned_cols=34 Identities=18% Similarity=0.282 Sum_probs=23.4
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
..|+.|+..|.-.... +-..... .+|+.|+..|.
T Consensus 3 i~Cp~C~~~y~i~d~~-----ip~~g~~-v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEK-----IPPKGRK-VRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHH-----CCCCCcE-EECCCCCCEeC
Confidence 5789999888766543 2223345 89999998773
No 63
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 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 predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=89.41 E-value=0.41 Score=22.08 Aligned_cols=21 Identities=24% Similarity=0.461 Sum_probs=9.4
Q ss_pred cccCccccccCCh----HHHHHHHH
Q psy12021 82 YQCPQCPYRASQK----ATLKTHMA 102 (106)
Q Consensus 82 ~~C~~C~k~f~~~----~~l~~H~~ 102 (106)
..|..|++.+... +.|.+|++
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHHH
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 5555555554442 45555553
No 64
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=89.12 E-value=0.24 Score=28.88 Aligned_cols=22 Identities=23% Similarity=0.487 Sum_probs=10.9
Q ss_pred cccCccccccCChHHHHHHHHhhcC
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
..|-+||+.|..- .+|++.|||
T Consensus 73 i~clecGk~~k~L---krHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFKTL---KRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EESBH---HHHHHHTT-
T ss_pred eEEccCCcccchH---HHHHHHccC
Confidence 5666677666543 566666654
No 65
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=88.99 E-value=0.28 Score=22.94 Aligned_cols=27 Identities=30% Similarity=0.938 Sum_probs=19.3
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
.|.|..||..|... .... ..|+.||..
T Consensus 2 ~Y~C~~Cg~~~~~~-----------~~~~-irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIK-----------SKDV-VRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecC-----------CCCc-eECCCCCce
Confidence 38899999887532 2244 899999854
No 66
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=88.92 E-value=0.25 Score=22.06 Aligned_cols=34 Identities=12% Similarity=0.260 Sum_probs=22.8
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
+.|+.|+..|.-..... ...... ..|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~-v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGK-VRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCE-EECCCCCCEEE
Confidence 67999999887655332 112234 88999998774
No 67
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=87.93 E-value=0.079 Score=24.48 Aligned_cols=29 Identities=28% Similarity=0.807 Sum_probs=19.6
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
|.|..||..|..... ... ... ..|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~------~~~-~~~-~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQS------ISE-DDP-VPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEE------cCC-CCC-CcCCCCCC
Confidence 889999988854321 222 234 88999986
No 68
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=87.55 E-value=0.55 Score=26.21 Aligned_cols=25 Identities=36% Similarity=0.883 Sum_probs=20.9
Q ss_pred ccc----CccccccCChHHHHHHHHhhcC
Q psy12021 82 YQC----PQCPYRASQKATLKTHMAIKHS 106 (106)
Q Consensus 82 ~~C----~~C~k~f~~~~~l~~H~~~hh~ 106 (106)
|.| ..|+....+...+.+|.+.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 678 8888888888888888888876
No 69
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=87.52 E-value=0.13 Score=23.22 Aligned_cols=30 Identities=23% Similarity=0.629 Sum_probs=19.9
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
|.|..||..|...... .. ... ..|+.||..
T Consensus 6 y~C~~Cg~~fe~~~~~------~~-~~~-~~CP~Cg~~ 35 (41)
T smart00834 6 YRCEDCGHTFEVLQKI------SD-DPL-ATCPECGGD 35 (41)
T ss_pred EEcCCCCCEEEEEEec------CC-CCC-CCCCCCCCc
Confidence 7899999988543221 11 244 789999973
No 70
>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=87.51 E-value=0.27 Score=28.34 Aligned_cols=31 Identities=16% Similarity=0.156 Sum_probs=22.5
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKA 95 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~ 95 (106)
..|..||+.|.. | .+.|..|+.||..|....
T Consensus 10 r~Cp~cg~kFYD---L---------nk~p~vcP~cg~~~~~~~ 40 (129)
T TIGR02300 10 RICPNTGSKFYD---L---------NRRPAVSPYTGEQFPPEE 40 (129)
T ss_pred ccCCCcCccccc---c---------CCCCccCCCcCCccCcch
Confidence 579999988832 2 245689999998886553
No 71
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=87.08 E-value=0.15 Score=24.52 Aligned_cols=29 Identities=21% Similarity=0.610 Sum_probs=19.0
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
|.|..||..|..... ... ... ..|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~------~~~-~~~-~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTACGHRFEVLQK------MSD-DPL-ATCPECGG 34 (52)
T ss_pred EEeCCCCCEeEEEEe------cCC-CCC-CCCCCCCC
Confidence 789999998864321 111 233 67999985
No 72
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=86.49 E-value=0.59 Score=23.29 Aligned_cols=32 Identities=34% Similarity=0.848 Sum_probs=19.3
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCP 88 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~ 88 (106)
-.|.|+.||+.--.... +--....+ |.|+.||
T Consensus 26 v~F~CPnCGe~~I~Rc~-----~CRk~g~~-Y~Cp~CG 57 (61)
T COG2888 26 VKFPCPNCGEVEIYRCA-----KCRKLGNP-YRCPKCG 57 (61)
T ss_pred eEeeCCCCCceeeehhh-----hHHHcCCc-eECCCcC
Confidence 34899999965433221 11112255 9999998
No 73
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=84.78 E-value=1.2 Score=26.27 Aligned_cols=39 Identities=21% Similarity=0.534 Sum_probs=26.3
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCcccccc
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRA 91 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f 91 (106)
....-|.|+.|+..|.....+.. ... ... |.|+.||...
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~---~d~-~~~-f~Cp~Cg~~l 133 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQL---LDM-DGT-FTCPRCGEEL 133 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHh---cCC-CCc-EECCCCCCEE
Confidence 34556999999999986544322 111 244 9999999864
No 74
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=84.50 E-value=0.82 Score=27.44 Aligned_cols=34 Identities=18% Similarity=0.484 Sum_probs=25.9
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCcccccc
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRA 91 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f 91 (106)
....-|.|+.|+..|+....+. .- |.|+.||...
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~---------~~-F~Cp~Cg~~L 138 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME---------LN-FTCPRCGAML 138 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH---------cC-CcCCCCCCEe
Confidence 3455699999999988777664 24 9999999764
No 75
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=84.41 E-value=0.86 Score=21.68 Aligned_cols=12 Identities=42% Similarity=0.874 Sum_probs=6.1
Q ss_pred eecccccccccC
Q psy12021 53 FPCEVCGKKYKY 64 (106)
Q Consensus 53 ~~C~~C~~~f~~ 64 (106)
-.|..|++.+..
T Consensus 19 a~C~~C~~~l~~ 30 (50)
T smart00614 19 AKCKYCGKKLSR 30 (50)
T ss_pred EEecCCCCEeee
Confidence 345555555533
No 76
>KOG4167|consensus
Probab=83.49 E-value=0.33 Score=35.83 Aligned_cols=28 Identities=29% Similarity=0.618 Sum_probs=24.7
Q ss_pred CCceecccccccccCHHHHHHHHHHHcC
Q psy12021 50 SGMFPCEVCGKKYKYKWGLSRHKRDECG 77 (106)
Q Consensus 50 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~ 77 (106)
...|.|.+|+|.|-.-..+..||++|..
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 4569999999999988999999999964
No 77
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 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 C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=83.23 E-value=0.25 Score=20.80 Aligned_cols=20 Identities=25% Similarity=0.574 Sum_probs=9.8
Q ss_pred eecccccccccCHHHHHHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKR 73 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~ 73 (106)
|.|..|++.|. ....+.|..
T Consensus 1 ~sCiDC~~~F~-~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDFD-GDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEEE-GGGTTT---
T ss_pred CeeecCCCCcC-cCCcCCCCc
Confidence 45777777773 333444443
No 78
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=82.33 E-value=1.4 Score=27.83 Aligned_cols=28 Identities=21% Similarity=0.522 Sum_probs=21.9
Q ss_pred CCCCCcccCccccccCChHHHHHHHHhhc
Q psy12021 77 GQEPKYQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 77 ~~~~~~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
.+.+ |.|+.|+|.|.-...+..|+...|
T Consensus 74 ~~~K-~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 74 DEDK-WRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSEE-EEE-SSS-EESSHHHHHHHHHHH-
T ss_pred cCCE-ECCCCCCcccCChHHHHHHHhhcC
Confidence 3355 999999999999999999998776
No 79
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=82.22 E-value=1 Score=27.59 Aligned_cols=34 Identities=24% Similarity=0.629 Sum_probs=25.4
Q ss_pred CCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 49 NSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
...-|.|+.|+..|+....+. .- |.|+.||....
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~---------~~-F~Cp~Cg~~L~ 147 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME---------YG-FRCPQCGEMLE 147 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh---------cC-CcCCCCCCCCe
Confidence 345699999999987766542 34 99999997643
No 80
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=81.99 E-value=0.86 Score=30.69 Aligned_cols=56 Identities=27% Similarity=0.485 Sum_probs=46.1
Q ss_pred CCCceecccccccccCHHHHHHHHHHHcCCCCCcccCc--cccccCChHHHHHHHHhhc
Q psy12021 49 NSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQ--CPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~--C~k~f~~~~~l~~H~~~hh 105 (106)
....+.|+.|...|........|.+.+.+.++ +.|.. |...|.....+..|.+.++
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (467)
T COG5048 30 APRPDSCPNCTDSFSRLEHLTRHIRSHTGEKP-SQCSYSGCDKSFSRPLELSRHLRTHH 87 (467)
T ss_pred CCchhhcccccccccccchhhhhcccccccCC-ccccccccccccCCcchhhhhccccc
Confidence 34568899999999999999999999999776 88876 6677888888888877664
No 81
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=81.91 E-value=0.44 Score=25.64 Aligned_cols=33 Identities=24% Similarity=0.609 Sum_probs=21.6
Q ss_pred CCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCC
Q psy12021 50 SGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQ 93 (106)
Q Consensus 50 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~ 93 (106)
...|.|+.|++. .+.+.-.| - +.|..||..|.=
T Consensus 33 ~~~~~Cp~C~~~--------~VkR~a~G--I-W~C~kCg~~fAG 65 (89)
T COG1997 33 RAKHVCPFCGRT--------TVKRIATG--I-WKCRKCGAKFAG 65 (89)
T ss_pred hcCCcCCCCCCc--------ceeeeccC--e-EEcCCCCCeecc
Confidence 345889999865 22333333 4 889999887753
No 82
>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=81.52 E-value=1.7 Score=17.77 Aligned_cols=20 Identities=25% Similarity=0.644 Sum_probs=11.7
Q ss_pred cccCccccccCChHHHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~ 102 (106)
..|+.|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3577777776 4445555654
No 83
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=80.61 E-value=0.93 Score=21.17 Aligned_cols=29 Identities=28% Similarity=0.724 Sum_probs=19.4
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCcccccc
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRA 91 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f 91 (106)
.|.|..||..|.... .... ..|+.||..+
T Consensus 3 ~y~C~~CG~~~~~~~----------~~~~-~~Cp~CG~~~ 31 (46)
T PRK00398 3 EYKCARCGREVELDE----------YGTG-VRCPYCGYRI 31 (46)
T ss_pred EEECCCCCCEEEECC----------CCCc-eECCCCCCeE
Confidence 588999998775421 1124 8899998654
No 84
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=79.96 E-value=0.76 Score=19.65 Aligned_cols=25 Identities=36% Similarity=0.960 Sum_probs=11.5
Q ss_pred ecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
.|+.|+..+.. ..... +.|+.|+..
T Consensus 4 ~Cp~C~se~~y-----------~D~~~-~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTY-----------EDGEL-LVCPECGHE 28 (30)
T ss_dssp --TTT-----E-----------E-SSS-EEETTTTEE
T ss_pred CCCCCCCccee-----------ccCCE-EeCCccccc
Confidence 57777766544 33355 888888754
No 85
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=79.00 E-value=0.26 Score=29.49 Aligned_cols=11 Identities=27% Similarity=0.624 Sum_probs=5.3
Q ss_pred cccCccccccC
Q psy12021 82 YQCPQCPYRAS 92 (106)
Q Consensus 82 ~~C~~C~k~f~ 92 (106)
++|+.||+.|.
T Consensus 29 ~~c~~c~~~f~ 39 (154)
T PRK00464 29 RECLACGKRFT 39 (154)
T ss_pred eeccccCCcce
Confidence 44555555443
No 86
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=77.38 E-value=2.7 Score=23.41 Aligned_cols=25 Identities=32% Similarity=0.621 Sum_probs=22.5
Q ss_pred eec----ccccccccCHHHHHHHHHHHcC
Q psy12021 53 FPC----EVCGKKYKYKWGLSRHKRDECG 77 (106)
Q Consensus 53 ~~C----~~C~~~f~~~~~l~~h~~~h~~ 77 (106)
|.| ..|+....+...+..|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 9999999999999999988765
No 87
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=77.00 E-value=3.4 Score=18.88 Aligned_cols=24 Identities=25% Similarity=0.347 Sum_probs=18.1
Q ss_pred eecccccccccC--HHHHHHHHHHHc
Q psy12021 53 FPCEVCGKKYKY--KWGLSRHKRDEC 76 (106)
Q Consensus 53 ~~C~~C~~~f~~--~~~l~~h~~~h~ 76 (106)
-.|..||..|.. ..+-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 589999988754 667778877664
No 88
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=76.93 E-value=1.5 Score=25.67 Aligned_cols=20 Identities=20% Similarity=0.306 Sum_probs=10.3
Q ss_pred ccCccccccCChHHHHHHHHhhc
Q psy12021 83 QCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 83 ~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
.|-++||.|. +|.+|+.+|+
T Consensus 78 icLEDGkkfK---SLKRHL~t~~ 97 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHY 97 (148)
T ss_pred EEeccCcchH---HHHHHHhccc
Confidence 4555555554 3455555554
No 89
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=76.37 E-value=2.7 Score=18.19 Aligned_cols=26 Identities=35% Similarity=0.963 Sum_probs=15.4
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
|.|..||..+..+ ...+ ..|+.||..
T Consensus 1 Y~C~~Cg~~~~~~-----------~~~~-irC~~CG~R 26 (32)
T PF03604_consen 1 YICGECGAEVELK-----------PGDP-IRCPECGHR 26 (32)
T ss_dssp EBESSSSSSE-BS-----------TSST-SSBSSSS-S
T ss_pred CCCCcCCCeeEcC-----------CCCc-EECCcCCCe
Confidence 5678888776411 1233 789998854
No 90
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=76.33 E-value=1.6 Score=20.89 Aligned_cols=29 Identities=24% Similarity=0.611 Sum_probs=19.1
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
..|.|..||+.|.. + ..... ..|+.||..
T Consensus 5 ~~Y~C~~Cg~~~~~---~-------~~~~~-irCp~Cg~r 33 (49)
T COG1996 5 MEYKCARCGREVEL---D-------QETRG-IRCPYCGSR 33 (49)
T ss_pred EEEEhhhcCCeeeh---h-------hccCc-eeCCCCCcE
Confidence 45899999999821 1 11133 889999853
No 91
>KOG2482|consensus
Probab=74.76 E-value=1.9 Score=29.28 Aligned_cols=23 Identities=30% Similarity=0.531 Sum_probs=21.2
Q ss_pred ceecccccccccCHHHHHHHHHH
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
.+.|-.|++.|..+..|..||+.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 47899999999999999999985
No 92
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=74.67 E-value=1.2 Score=21.96 Aligned_cols=37 Identities=27% Similarity=0.457 Sum_probs=18.8
Q ss_pred ecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
.|..|++.+.-......-.+.-......|.|++|...
T Consensus 4 kC~lCdk~~~Id~~~~~aKrLrnrPi~tYmC~eC~~R 40 (56)
T PF09963_consen 4 KCILCDKKEEIDEDTPEAKRLRNRPIHTYMCDECKER 40 (56)
T ss_pred EEEecCCEEEeccCCHHHHHhhcCCCcceeChhHHHH
Confidence 5777777654433222222222222334888888543
No 93
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=74.34 E-value=1.4 Score=17.80 Aligned_cols=7 Identities=43% Similarity=1.644 Sum_probs=4.3
Q ss_pred cccCccc
Q psy12021 82 YQCPQCP 88 (106)
Q Consensus 82 ~~C~~C~ 88 (106)
|.|+.||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 6666665
No 94
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=73.67 E-value=2.1 Score=21.36 Aligned_cols=31 Identities=32% Similarity=0.846 Sum_probs=17.7
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccc
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCP 88 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~ 88 (106)
.|.|+.||+.--..-. +--....+ |.|+.||
T Consensus 25 ~F~CPnCG~~~I~RC~-----~CRk~~~~-Y~CP~CG 55 (59)
T PRK14890 25 KFLCPNCGEVIIYRCE-----KCRKQSNP-YTCPKCG 55 (59)
T ss_pred EeeCCCCCCeeEeech-----hHHhcCCc-eECCCCC
Confidence 4889999876222111 11111244 9999997
No 95
>KOG4173|consensus
Probab=72.52 E-value=1.8 Score=27.31 Aligned_cols=51 Identities=25% Similarity=0.461 Sum_probs=37.4
Q ss_pred ecccccccccCHHHHHHHHHHHc----------CCCCCcccC--ccccccCChHHHHHHHHhhc
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDEC----------GQEPKYQCP--QCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h~----------~~~~~~~C~--~C~k~f~~~~~l~~H~~~hh 105 (106)
.|..|.+.|.+...|..|+.-.+ | +.-|+|- .|+..|........|+-..|
T Consensus 108 sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG-~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERG-QDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcC-ccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 78899999998888888876332 3 3337884 48888888888777876544
No 96
>KOG2785|consensus
Probab=72.42 E-value=5.7 Score=27.37 Aligned_cols=53 Identities=25% Similarity=0.220 Sum_probs=42.2
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCC----------------------CCcccCccc---cccCChHHHHHHHHh
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQE----------------------PKYQCPQCP---YRASQKATLKTHMAI 103 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~----------------------~~~~C~~C~---k~f~~~~~l~~H~~~ 103 (106)
.|-.|-.|++.+.+-..-..||..++|.- .-+.|-.|+ +.|.+....+.||..
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 34679999999999888889999888721 125777787 899999999999874
No 97
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.15 E-value=1.8 Score=24.46 Aligned_cols=28 Identities=18% Similarity=0.090 Sum_probs=17.7
Q ss_pred ecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCC
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQ 93 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~ 93 (106)
.|+.||+.|.. | .+.|..|+.||++|..
T Consensus 11 idPetg~KFYD---L---------NrdPiVsPytG~s~P~ 38 (129)
T COG4530 11 IDPETGKKFYD---L---------NRDPIVSPYTGKSYPR 38 (129)
T ss_pred cCccccchhhc---c---------CCCccccCcccccchH
Confidence 56777777632 2 1334888888888843
No 98
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=71.08 E-value=4.7 Score=25.45 Aligned_cols=55 Identities=16% Similarity=0.251 Sum_probs=28.8
Q ss_pred ccccceecccCCceeeeeEeeeeccccCCcCcccccCccCcceeccCCCceecccccccccCH
Q psy12021 3 VCSHAICVAKSTSITETCIVIRSLGVDKSLDTNVLNFINWPTVRQYNSGMFPCEVCGKKYKYK 65 (106)
Q Consensus 3 ~C~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~ 65 (106)
+|| .|...|.+.......++-...+.++....... .+ .--..+.|+.||-++...
T Consensus 7 ~CP--vC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~v--nP----~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 7 TCP--VCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGV--NP----LFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred ECC--CCCCeeeeeEEEcCCceEeeecCCCccccCCC--CC----eeeeEEECCCCCCccccc
Confidence 576 88888887665554444433333332211110 00 112236899999776543
No 99
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=70.62 E-value=2.7 Score=20.13 Aligned_cols=37 Identities=22% Similarity=0.640 Sum_probs=21.3
Q ss_pred CceecccccccccCHHHHHHHHHHHcCC-CCCcccCccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQ-EPKYQCPQCP 88 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~-~~~~~C~~C~ 88 (106)
+.+.|..||..|.....-+..-.. .|. ..|-.|+.|.
T Consensus 3 k~l~C~dCg~~FvfTa~EQ~fy~e-Kgf~n~p~RC~~CR 40 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFTAGEQKFYAE-KGFDNEPKRCPSCR 40 (49)
T ss_pred eeEEcccCCCeEEEehhHHHHHHh-cCCcCCCccCHHHH
Confidence 457899999988665443333222 222 1236777774
No 100
>KOG4167|consensus
Probab=70.26 E-value=0.95 Score=33.63 Aligned_cols=23 Identities=17% Similarity=0.400 Sum_probs=21.1
Q ss_pred cccCccccccCChHHHHHHHHhh
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
|.|.+|+|.|-.-.++..|++.|
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHH
Confidence 89999999998888899999887
No 101
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=70.11 E-value=1.2 Score=19.88 Aligned_cols=32 Identities=22% Similarity=0.462 Sum_probs=18.2
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCC
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQ 93 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~ 93 (106)
+.|..||+.|.... ... +..-.|+.||..+.+
T Consensus 2 r~C~~Cg~~Yh~~~--------~pP-~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 2 RICPKCGRIYHIEF--------NPP-KVEGVCDNCGGELVQ 33 (36)
T ss_dssp EEETTTTEEEETTT--------B---SSTTBCTTTTEBEBE
T ss_pred cCcCCCCCcccccc--------CCC-CCCCccCCCCCeeEe
Confidence 46888888874321 112 222678888865543
No 102
>KOG3408|consensus
Probab=69.08 E-value=4 Score=23.49 Aligned_cols=27 Identities=22% Similarity=0.406 Sum_probs=23.8
Q ss_pred cCCCceecccccccccCHHHHHHHHHH
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
.|...|-|-.|.+-|.+...|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 566779999999999999999999874
No 103
>KOG2593|consensus
Probab=67.62 E-value=4.5 Score=28.31 Aligned_cols=39 Identities=23% Similarity=0.412 Sum_probs=25.6
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
+...-|.|+.|.+.|..-..++. .-..... |.|..|+--
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~-F~C~~C~ge 162 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQL---LDNETGE-FHCENCGGE 162 (436)
T ss_pred cccccccCCccccchhhhHHHHh---hcccCce-EEEecCCCc
Confidence 45566999999999877665542 2222234 889888753
No 104
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=66.84 E-value=8.4 Score=26.43 Aligned_cols=48 Identities=19% Similarity=0.142 Sum_probs=33.2
Q ss_pred ecccccccccCHHHHHHHHHHHcCCCCCcccCcccc----ccCChHHHHHHHHh
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY----RASQKATLKTHMAI 103 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k----~f~~~~~l~~H~~~ 103 (106)
.|..|.+.|....-|..|++..+. +- |.|+.-+. -|..-..|..|.+.
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE-~C-hICD~v~p~~~QYFK~Y~~Le~HF~~ 273 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHE-AC-HICDMVGPIRYQYFKSYEDLEAHFRN 273 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhh-hh-hhhhccCccchhhhhCHHHHHHHhhc
Confidence 588999999999999999886554 33 66655443 36666666666543
No 105
>KOG2785|consensus
Probab=66.70 E-value=7.1 Score=26.91 Aligned_cols=51 Identities=16% Similarity=0.346 Sum_probs=36.0
Q ss_pred eecccccccccCHHHHHHHHHH--Hc----------------------------------CCCCCcccCccccccCChHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRD--EC----------------------------------GQEPKYQCPQCPYRASQKAT 96 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~--h~----------------------------------~~~~~~~C~~C~k~f~~~~~ 96 (106)
|.|.-|...|.....-+.|.++ |. ....++.|..|.+.|.....
T Consensus 4 ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~a 83 (390)
T KOG2785|consen 4 FTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPKA 83 (390)
T ss_pred ceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChhh
Confidence 6788888888777666666553 21 01234889999999999888
Q ss_pred HHHHHHh
Q psy12021 97 LKTHMAI 103 (106)
Q Consensus 97 l~~H~~~ 103 (106)
...|+..
T Consensus 84 ~~~hl~S 90 (390)
T KOG2785|consen 84 HENHLKS 90 (390)
T ss_pred HHHHHHH
Confidence 8888764
No 106
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=66.02 E-value=1.7 Score=21.29 Aligned_cols=30 Identities=30% Similarity=0.627 Sum_probs=19.7
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCcccccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRA 91 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f 91 (106)
|.|+.||..+.-... ..| .. ..|+.||..|
T Consensus 3 ~~CP~CG~~iev~~~-------~~G-ei-V~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENP-------ELG-EL-VICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCC-------ccC-CE-EeCCCCCCEE
Confidence 689999987644322 123 45 7899998765
No 107
>PF15269 zf-C2H2_7: Zinc-finger
Probab=65.80 E-value=5.1 Score=18.80 Aligned_cols=21 Identities=43% Similarity=0.982 Sum_probs=11.5
Q ss_pred cccCccccccCChHHHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~ 102 (106)
|+|-+|.-+..-++.|..|++
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 455555555555555555554
No 108
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=65.43 E-value=1.2 Score=24.23 Aligned_cols=31 Identities=32% Similarity=0.769 Sum_probs=18.7
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
..|.|+.|++.-. .+.-.| . +.|..|++.|.
T Consensus 34 a~y~CpfCgk~~v--------kR~a~G--I-W~C~~C~~~~A 64 (91)
T TIGR00280 34 AKYVCPFCGKKTV--------KRGSTG--I-WTCRKCGAKFA 64 (91)
T ss_pred cCccCCCCCCCce--------EEEeeE--E-EEcCCCCCEEe
Confidence 4578888875421 122233 3 78888888764
No 109
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=65.40 E-value=1.5 Score=22.81 Aligned_cols=11 Identities=27% Similarity=0.543 Sum_probs=5.3
Q ss_pred cccC--ccccccC
Q psy12021 82 YQCP--QCPYRAS 92 (106)
Q Consensus 82 ~~C~--~C~k~f~ 92 (106)
++|. +||..|.
T Consensus 28 ~qC~N~eCg~tF~ 40 (72)
T PRK09678 28 HQCQNVNCSATFI 40 (72)
T ss_pred eecCCCCCCCEEE
Confidence 4454 4555543
No 110
>PHA00626 hypothetical protein
Probab=65.36 E-value=3.6 Score=20.30 Aligned_cols=15 Identities=40% Similarity=0.897 Sum_probs=11.1
Q ss_pred CcccCccccccCChH
Q psy12021 81 KYQCPQCPYRASQKA 95 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~ 95 (106)
.|.|+.||..|+...
T Consensus 23 rYkCkdCGY~ft~~~ 37 (59)
T PHA00626 23 DYVCCDCGYNDSKDA 37 (59)
T ss_pred ceEcCCCCCeechhh
Confidence 388888888776543
No 111
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=64.71 E-value=1.5 Score=23.88 Aligned_cols=32 Identities=28% Similarity=0.702 Sum_probs=19.2
Q ss_pred CCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 50 SGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 50 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
...|.|+.|++.-. .+.-.| . +.|..|++.|.
T Consensus 34 ~a~y~CpfCgk~~v--------kR~a~G--I-W~C~~C~~~~A 65 (90)
T PTZ00255 34 HAKYFCPFCGKHAV--------KRQAVG--I-WRCKGCKKTVA 65 (90)
T ss_pred hCCccCCCCCCCce--------eeeeeE--E-EEcCCCCCEEe
Confidence 34588888875421 122223 3 88888888764
No 112
>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=64.30 E-value=3.8 Score=16.79 Aligned_cols=11 Identities=36% Similarity=0.936 Sum_probs=7.3
Q ss_pred cccCccccccC
Q psy12021 82 YQCPQCPYRAS 92 (106)
Q Consensus 82 ~~C~~C~k~f~ 92 (106)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 35777777664
No 113
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=63.72 E-value=2.5 Score=24.71 Aligned_cols=15 Identities=27% Similarity=0.904 Sum_probs=11.9
Q ss_pred CceecccccccccCH
Q psy12021 51 GMFPCEVCGKKYKYK 65 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~ 65 (106)
..|.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 458999999888654
No 114
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.70 E-value=3.2 Score=21.81 Aligned_cols=32 Identities=22% Similarity=0.754 Sum_probs=20.3
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
|+|..||..|. +..++. +.+.-.|++|+..+.
T Consensus 13 Y~c~~cg~~~d----vvq~~~----ddplt~ce~c~a~~k 44 (82)
T COG2331 13 YECTECGNRFD----VVQAMT----DDPLTTCEECGARLK 44 (82)
T ss_pred EeecccchHHH----HHHhcc----cCccccChhhChHHH
Confidence 89999997763 222222 344467999986543
No 115
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=61.70 E-value=4.1 Score=18.38 Aligned_cols=14 Identities=14% Similarity=0.515 Sum_probs=10.6
Q ss_pred CcccCccccccCCh
Q psy12021 81 KYQCPQCPYRASQK 94 (106)
Q Consensus 81 ~~~C~~C~k~f~~~ 94 (106)
|+.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 38888888887654
No 116
>KOG1146|consensus
Probab=61.49 E-value=1.8 Score=34.24 Aligned_cols=51 Identities=22% Similarity=0.260 Sum_probs=35.5
Q ss_pred cccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhhc
Q psy12021 55 CEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 55 C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
|..++..+.+...+..|+..-....+.+.|+.|+..|.....|..|+|..|
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskh 489 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKH 489 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccc
Confidence 444555565555555555533333344999999999999999999999743
No 117
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=60.35 E-value=0.95 Score=20.06 Aligned_cols=11 Identities=36% Similarity=0.706 Sum_probs=5.9
Q ss_pred cccCccccccC
Q psy12021 82 YQCPQCPYRAS 92 (106)
Q Consensus 82 ~~C~~C~k~f~ 92 (106)
..|..||..|+
T Consensus 22 isC~~CGPr~~ 32 (35)
T PF07503_consen 22 ISCTNCGPRYS 32 (35)
T ss_dssp --BTTCC-SCC
T ss_pred ccCCCCCCCEE
Confidence 67888887664
No 118
>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=58.93 E-value=4.7 Score=20.30 Aligned_cols=27 Identities=26% Similarity=0.630 Sum_probs=11.2
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
-.|..|++.|.. ...+ +.|..||..|-
T Consensus 10 ~~C~~C~~~F~~------------~~rr-hhCr~CG~~vC 36 (69)
T PF01363_consen 10 SNCMICGKKFSL------------FRRR-HHCRNCGRVVC 36 (69)
T ss_dssp SB-TTT--B-BS------------SS-E-EE-TTT--EEE
T ss_pred CcCcCcCCcCCC------------ceee-EccCCCCCEEC
Confidence 467888888843 1234 77777777653
No 119
>KOG2636|consensus
Probab=58.32 E-value=7.2 Score=27.54 Aligned_cols=29 Identities=28% Similarity=0.437 Sum_probs=22.2
Q ss_pred eeccCCCceeccccc-ccccCHHHHHHHHH
Q psy12021 45 VRQYNSGMFPCEVCG-KKYKYKWGLSRHKR 73 (106)
Q Consensus 45 ~~~~~~~~~~C~~C~-~~f~~~~~l~~h~~ 73 (106)
.-|.-...|.|++|| .++.-+..+.+|-.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 334556679999999 77888888888865
No 120
>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=57.74 E-value=3.2 Score=19.06 Aligned_cols=14 Identities=21% Similarity=0.598 Sum_probs=7.8
Q ss_pred CcccCccccccCCh
Q psy12021 81 KYQCPQCPYRASQK 94 (106)
Q Consensus 81 ~~~C~~C~k~f~~~ 94 (106)
|+.|+.|++.|-..
T Consensus 13 ~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 13 PFKCKHCGKSFCLK 26 (43)
T ss_dssp HEE-TTTS-EE-TT
T ss_pred CeECCCCCcccCcc
Confidence 47888888877554
No 121
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=57.73 E-value=4.5 Score=22.93 Aligned_cols=27 Identities=26% Similarity=0.612 Sum_probs=18.6
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
-...|..|+..|.... .. +.||.||..
T Consensus 69 ~~~~C~~Cg~~~~~~~------------~~-~~CP~Cgs~ 95 (115)
T TIGR00100 69 VECECEDCSEEVSPEI------------DL-YRCPKCHGI 95 (115)
T ss_pred cEEEcccCCCEEecCC------------cC-ccCcCCcCC
Confidence 3478999998875432 13 779999853
No 122
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.07 E-value=3 Score=24.13 Aligned_cols=16 Identities=31% Similarity=0.530 Sum_probs=10.3
Q ss_pred CCCcccCccccccCCh
Q psy12021 79 EPKYQCPQCPYRASQK 94 (106)
Q Consensus 79 ~~~~~C~~C~k~f~~~ 94 (106)
++|--|..||+.|.+.
T Consensus 66 e~psfchncgs~fpwt 81 (160)
T COG4306 66 EPPSFCHNCGSRFPWT 81 (160)
T ss_pred CCcchhhcCCCCCCcH
Confidence 4555677777777664
No 123
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=56.58 E-value=20 Score=24.75 Aligned_cols=24 Identities=21% Similarity=0.408 Sum_probs=20.1
Q ss_pred cccCccccccCChHHHHHHHHhhc
Q psy12021 82 YQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
-.|..|...|.....|..|+|..|
T Consensus 221 P~C~FC~~~FYdDDEL~~HcR~~H 244 (493)
T COG5236 221 PLCIFCKIYFYDDDELRRHCRLRH 244 (493)
T ss_pred chhhhccceecChHHHHHHHHhhh
Confidence 368889999999999999988655
No 124
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=56.36 E-value=5.6 Score=22.49 Aligned_cols=26 Identities=23% Similarity=0.417 Sum_probs=17.9
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
-.+.|..||..|.... .. +.||.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~------------~~-~~CP~Cgs 94 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQ------------HD-AQCPHCHG 94 (113)
T ss_pred cEEEcccCCCEEecCC------------cC-ccCcCCCC
Confidence 3478999997774321 23 67999984
No 125
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=55.95 E-value=7.6 Score=21.90 Aligned_cols=26 Identities=23% Similarity=0.664 Sum_probs=17.1
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
.+.|..||..|.... .. +.||.||..
T Consensus 70 ~~~C~~Cg~~~~~~~------------~~-~~CP~Cgs~ 95 (113)
T PF01155_consen 70 RARCRDCGHEFEPDE------------FD-FSCPRCGSP 95 (113)
T ss_dssp EEEETTTS-EEECHH------------CC-HH-SSSSSS
T ss_pred cEECCCCCCEEecCC------------CC-CCCcCCcCC
Confidence 478999999986432 23 679999864
No 126
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=55.79 E-value=5.9 Score=22.32 Aligned_cols=29 Identities=31% Similarity=0.917 Sum_probs=16.5
Q ss_pred ecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCCh
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQK 94 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~ 94 (106)
.|+.|+..|... ...- |.|++|+..+...
T Consensus 4 ~CP~C~seytY~-----------dg~~-~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYH-----------DGTQ-LICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEe-----------cCCe-eECcccccccccc
Confidence 466666655432 2244 7777777666443
No 127
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=55.39 E-value=9.9 Score=18.18 Aligned_cols=9 Identities=44% Similarity=1.187 Sum_probs=4.1
Q ss_pred ccccccccc
Q psy12021 55 CEVCGKKYK 63 (106)
Q Consensus 55 C~~C~~~f~ 63 (106)
|..|++.|.
T Consensus 5 C~~C~~~F~ 13 (57)
T cd00065 5 CMGCGKPFT 13 (57)
T ss_pred CcccCcccc
Confidence 444444443
No 128
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=55.06 E-value=8.5 Score=22.71 Aligned_cols=48 Identities=15% Similarity=0.170 Sum_probs=27.3
Q ss_pred eecccccccccCHHHHHHHHHHHc-----CCCCCcccCccccccCChHHHHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDEC-----GQEPKYQCPQCPYRASQKATLKTHM 101 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~-----~~~~~~~C~~C~k~f~~~~~l~~H~ 101 (106)
-.|..|+..+..-+.-..--.+.. ..+- +.|+.||+.|..-+.+.+-.
T Consensus 92 sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f-~~C~~C~kiyW~GsH~~~~~ 144 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEF-WRCPGCGKIYWEGSHWRRME 144 (147)
T ss_pred CccCCCCcEeeechhhccccccCccccccCCeE-EECCCCCCEecccccHHHHH
Confidence 479999876533221111001111 1133 78999999998888776543
No 129
>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=53.99 E-value=2.7 Score=20.35 Aligned_cols=17 Identities=12% Similarity=0.522 Sum_probs=6.5
Q ss_pred ceecccccccccCHHHH
Q psy12021 52 MFPCEVCGKKYKYKWGL 68 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l 68 (106)
.|.|+.|...|-..-+.
T Consensus 21 ~y~C~~C~~~FC~dCD~ 37 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDV 37 (51)
T ss_dssp EE--TTTT--B-HHHHH
T ss_pred eEECCCCCCccccCcCh
Confidence 46666666666544443
No 130
>KOG4173|consensus
Probab=52.67 E-value=9.4 Score=24.22 Aligned_cols=50 Identities=20% Similarity=0.352 Sum_probs=35.7
Q ss_pred Cceeccc--ccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhh
Q psy12021 51 GMFPCEV--CGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 51 ~~~~C~~--C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
..|.|.. |-..|.....+..|-.+-++ -.|.+|.+.|.+..-|..|+.--
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~HI~E~ 129 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDAHILEW 129 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhHHHHHH
Confidence 3477876 66777776666655433333 47999999999999999887643
No 131
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=52.42 E-value=10 Score=17.53 Aligned_cols=13 Identities=23% Similarity=0.557 Sum_probs=7.7
Q ss_pred ccCccccccCChH
Q psy12021 83 QCPQCPYRASQKA 95 (106)
Q Consensus 83 ~C~~C~k~f~~~~ 95 (106)
.|..||+.|+.+.
T Consensus 10 ~C~~C~rpf~WRK 22 (42)
T PF10013_consen 10 ICPVCGRPFTWRK 22 (42)
T ss_pred cCcccCCcchHHH
Confidence 4666666665544
No 132
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=51.83 E-value=6.2 Score=22.46 Aligned_cols=28 Identities=18% Similarity=0.380 Sum_probs=17.7
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
-.+.|..||..|.... ..-+.|+.||..
T Consensus 70 ~~~~C~~Cg~~~~~~~------------~~~~~CP~Cgs~ 97 (117)
T PRK00564 70 VELECKDCSHVFKPNA------------LDYGVCEKCHSK 97 (117)
T ss_pred CEEEhhhCCCccccCC------------ccCCcCcCCCCC
Confidence 3478999997774321 121349999853
No 133
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=49.64 E-value=4.8 Score=23.71 Aligned_cols=32 Identities=34% Similarity=0.953 Sum_probs=21.2
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
.|.|..|+..+. .+.++ .... |.|..|+..|.
T Consensus 123 ~~~C~~C~~~~~------r~~~~--~~~~-~~C~~C~~~l~ 154 (157)
T PF10263_consen 123 VYRCPSCGREYK------RHRRS--KRKR-YRCGRCGGPLV 154 (157)
T ss_pred EEEcCCCCCEee------eeccc--chhh-EECCCCCCEEE
Confidence 488999997763 33333 2244 89999987654
No 134
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=49.20 E-value=9.1 Score=22.24 Aligned_cols=16 Identities=19% Similarity=0.607 Sum_probs=12.3
Q ss_pred CCCCcccCccccccCCh
Q psy12021 78 QEPKYQCPQCPYRASQK 94 (106)
Q Consensus 78 ~~~~~~C~~C~k~f~~~ 94 (106)
..+ |.|+.|++.|...
T Consensus 51 ~qR-yrC~~C~~tf~~~ 66 (129)
T COG3677 51 HQR-YKCKSCGSTFTVE 66 (129)
T ss_pred ccc-cccCCcCcceeee
Confidence 355 9999999988643
No 135
>KOG2231|consensus
Probab=49.19 E-value=21 Score=26.69 Aligned_cols=11 Identities=36% Similarity=0.332 Sum_probs=7.7
Q ss_pred CHHHHHHHHHH
Q psy12021 64 YKWGLSRHKRD 74 (106)
Q Consensus 64 ~~~~l~~h~~~ 74 (106)
....|+.|++.
T Consensus 126 s~~~Lk~H~~~ 136 (669)
T KOG2231|consen 126 SVENLKNHMRD 136 (669)
T ss_pred HHHHHHHHHHH
Confidence 66777888753
No 136
>KOG2636|consensus
Probab=49.12 E-value=14 Score=26.26 Aligned_cols=29 Identities=17% Similarity=0.382 Sum_probs=21.5
Q ss_pred HHHcCCCCCcccCccc-cccCChHHHHHHHH
Q psy12021 73 RDECGQEPKYQCPQCP-YRASQKATLKTHMA 102 (106)
Q Consensus 73 ~~h~~~~~~~~C~~C~-k~f~~~~~l~~H~~ 102 (106)
+.|-.+.. |.|.+|| .++.=+..+++|-.
T Consensus 394 KLHGL~~e-y~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIE-YNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcc-cceeeccCccccCcHHHHHHhH
Confidence 34555565 9999999 77887888888743
No 137
>KOG1280|consensus
Probab=48.97 E-value=21 Score=24.48 Aligned_cols=42 Identities=21% Similarity=0.468 Sum_probs=29.6
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCC-CCCcccCcccc
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQ-EPKYQCPQCPY 89 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~-~~~~~C~~C~k 89 (106)
.....|.|..|++.-.+...|..|....+-+ ..-..|+.|+.
T Consensus 75 y~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~ 117 (381)
T KOG1280|consen 75 YDPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAA 117 (381)
T ss_pred cccccccCCcccccccchhHHHHHhhhcCcccCcceeeecccc
Confidence 3445799999999877888899997754432 22256777763
No 138
>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 PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=47.87 E-value=16 Score=17.52 Aligned_cols=14 Identities=29% Similarity=0.828 Sum_probs=10.7
Q ss_pred eecccccccccCHH
Q psy12021 53 FPCEVCGKKYKYKW 66 (106)
Q Consensus 53 ~~C~~C~~~f~~~~ 66 (106)
|.|..||..|...-
T Consensus 29 W~C~~Cgh~w~~~v 42 (55)
T PF14311_consen 29 WKCPKCGHEWKASV 42 (55)
T ss_pred EECCCCCCeeEccH
Confidence 88999988776543
No 140
>KOG1842|consensus
Probab=47.64 E-value=13 Score=26.32 Aligned_cols=28 Identities=21% Similarity=0.206 Sum_probs=24.0
Q ss_pred CceecccccccccCHHHHHHHHHHHcCC
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQ 78 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~ 78 (106)
+-|.|++|.+.|.+-+.|..|...-+++
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccc
Confidence 4489999999999999999998876553
No 141
>KOG2071|consensus
Probab=47.37 E-value=13 Score=27.13 Aligned_cols=24 Identities=29% Similarity=0.530 Sum_probs=20.5
Q ss_pred CcccCccccccCChHHHHHHHHhh
Q psy12021 81 KYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
|-+|..||..|........|+.+|
T Consensus 418 pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 418 PNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred cchhcccccccccchhhhhHhhhh
Confidence 478999999999988888887776
No 142
>PRK10220 hypothetical protein; Provisional
Probab=46.37 E-value=11 Score=21.28 Aligned_cols=13 Identities=31% Similarity=0.884 Sum_probs=8.4
Q ss_pred cccCccccccCCh
Q psy12021 82 YQCPQCPYRASQK 94 (106)
Q Consensus 82 ~~C~~C~k~f~~~ 94 (106)
|.|++|+.-|...
T Consensus 21 ~vCpeC~hEW~~~ 33 (111)
T PRK10220 21 YICPECAHEWNDA 33 (111)
T ss_pred EECCcccCcCCcc
Confidence 7777777665443
No 143
>KOG2482|consensus
Probab=45.53 E-value=14 Score=25.38 Aligned_cols=52 Identities=27% Similarity=0.390 Sum_probs=36.4
Q ss_pred ceecccccccc-cCHHHHHHHHHH-Hc---C------------------CCCCcccCccccccCChHHHHHHHHhh
Q psy12021 52 MFPCEVCGKKY-KYKWGLSRHKRD-EC---G------------------QEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 52 ~~~C~~C~~~f-~~~~~l~~h~~~-h~---~------------------~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
.-.|-.|...+ ..++....|+-. |. | -.+ +.|-.|.+.|..+..|..||+..
T Consensus 144 slqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r-~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 144 SLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLER-LRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred eeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhh-heeeeeccccCCcHHHHHHHHhc
Confidence 35788888654 445555566543 32 1 124 78999999999999999999853
No 144
>PLN02294 cytochrome c oxidase subunit Vb
Probab=45.12 E-value=11 Score=23.01 Aligned_cols=15 Identities=27% Similarity=0.775 Sum_probs=11.1
Q ss_pred CCceecccccccccC
Q psy12021 50 SGMFPCEVCGKKYKY 64 (106)
Q Consensus 50 ~~~~~C~~C~~~f~~ 64 (106)
.+++.|.+||..|..
T Consensus 139 Gkp~RCpeCG~~fkL 153 (174)
T PLN02294 139 GKSFECPVCTQYFEL 153 (174)
T ss_pred CCceeCCCCCCEEEE
Confidence 467788888887754
No 145
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=44.99 E-value=19 Score=25.71 Aligned_cols=21 Identities=29% Similarity=0.721 Sum_probs=12.8
Q ss_pred cccCccccccCChHHHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~ 102 (106)
+.|+.|.+.|.....+..|+.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~ 78 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHME 78 (466)
T ss_pred eeCCcccceeCCHHHHHHHHH
Confidence 456666666666666666654
No 146
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=44.70 E-value=9.8 Score=21.02 Aligned_cols=20 Identities=30% Similarity=0.522 Sum_probs=14.2
Q ss_pred HHHHcCCCCCcccCccccccCC
Q psy12021 72 KRDECGQEPKYQCPQCPYRASQ 93 (106)
Q Consensus 72 ~~~h~~~~~~~~C~~C~k~f~~ 93 (106)
+..+.| ++ +.|++||..|.-
T Consensus 72 ~~l~~g-~~-~rC~eCG~~fkL 91 (97)
T cd00924 72 MWLEKG-KP-KRCPECGHVFKL 91 (97)
T ss_pred EEEeCC-Cc-eeCCCCCcEEEE
Confidence 344555 54 999999988854
No 147
>KOG4124|consensus
Probab=44.05 E-value=11 Score=25.97 Aligned_cols=26 Identities=38% Similarity=0.664 Sum_probs=18.3
Q ss_pred eccCCCceecccccccccCHHHHHHH
Q psy12021 46 RQYNSGMFPCEVCGKKYKYKWGLSRH 71 (106)
Q Consensus 46 ~~~~~~~~~C~~C~~~f~~~~~l~~h 71 (106)
.-...++|.|++|.+.++....|..|
T Consensus 392 ~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 392 FVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred eeeccCcccChhhhhhhccCCCCCce
Confidence 33457888999988887776655544
No 148
>KOG2071|consensus
Probab=43.98 E-value=17 Score=26.63 Aligned_cols=28 Identities=18% Similarity=0.294 Sum_probs=23.2
Q ss_pred CCCceecccccccccCHHHHHHHHHHHc
Q psy12021 49 NSGMFPCEVCGKKYKYKWGLSRHKRDEC 76 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~ 76 (106)
...+-.|..||..|........||..|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 3556789999999999988888888774
No 149
>PRK04351 hypothetical protein; Provisional
Probab=42.57 E-value=7.8 Score=23.11 Aligned_cols=33 Identities=24% Similarity=0.734 Sum_probs=21.8
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCC
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQ 93 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~ 93 (106)
.|.|..||..+.. + +.+. ..+ |.|..|+..+..
T Consensus 112 ~Y~C~~Cg~~~~r------~-Rr~n-~~~-yrCg~C~g~L~~ 144 (149)
T PRK04351 112 LYECQSCGQQYLR------K-RRIN-TKR-YRCGKCRGKLKL 144 (149)
T ss_pred EEECCCCCCEeee------e-eecC-CCc-EEeCCCCcEeee
Confidence 3889889977643 2 2222 256 999999876543
No 150
>KOG2231|consensus
Probab=42.44 E-value=27 Score=26.20 Aligned_cols=22 Identities=27% Similarity=0.498 Sum_probs=12.5
Q ss_pred ecccccccccCHHHHHHHHHHH
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDE 75 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h 75 (106)
.|..|...|.....|..|++.+
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~ 205 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFD 205 (669)
T ss_pred cchhhhhhhccHHHHHHhhccc
Confidence 4555666666666666555543
No 151
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=42.41 E-value=9.9 Score=22.63 Aligned_cols=35 Identities=23% Similarity=0.561 Sum_probs=21.9
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc-cCC
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR-ASQ 93 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~-f~~ 93 (106)
.|...|.|..||..... .+.+ .- -.|+.||.. |.+
T Consensus 108 ~g~G~l~C~~Cg~~~~~---------~~~~-~l-~~Cp~C~~~~F~R 143 (146)
T PF07295_consen 108 VGPGTLVCENCGHEVEL---------THPE-RL-PPCPKCGHTEFTR 143 (146)
T ss_pred ecCceEecccCCCEEEe---------cCCC-cC-CCCCCCCCCeeee
Confidence 34566999999965321 2333 33 589999864 443
No 152
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=42.03 E-value=23 Score=17.74 Aligned_cols=31 Identities=23% Similarity=0.709 Sum_probs=17.5
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCCh
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQK 94 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~ 94 (106)
-.|..||..-.. ...... |.|+.||..+.+.
T Consensus 29 q~C~~CG~~~~~----------~~~~r~-~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 29 QTCPRCGHRNKK----------RRSGRV-FTCPNCGFEMDRD 59 (69)
T ss_pred cCccCccccccc----------ccccce-EEcCCCCCEECcH
Confidence 357777755432 112233 8888888765543
No 153
>KOG0717|consensus
Probab=41.18 E-value=17 Score=26.01 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=16.6
Q ss_pred cccCccccccCChHHHHHHHHh
Q psy12021 82 YQCPQCPYRASQKATLKTHMAI 103 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~~ 103 (106)
+-|..|.|.|.+...|..|...
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 6688888888888888777653
No 154
>COG1773 Rubredoxin [Energy production and conversion]
Probab=40.78 E-value=13 Score=18.25 Aligned_cols=13 Identities=38% Similarity=0.912 Sum_probs=10.6
Q ss_pred ceecccccccccC
Q psy12021 52 MFPCEVCGKKYKY 64 (106)
Q Consensus 52 ~~~C~~C~~~f~~ 64 (106)
.|.|..||-.|.-
T Consensus 3 ~~~C~~CG~vYd~ 15 (55)
T COG1773 3 RWRCSVCGYVYDP 15 (55)
T ss_pred ceEecCCceEecc
Confidence 5899999988854
No 155
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=40.68 E-value=8.3 Score=18.66 Aligned_cols=42 Identities=29% Similarity=0.697 Sum_probs=22.3
Q ss_pred Cceeccc--ccccccCHHHHHHHHHHHcCCCCCcccCc----cccccCCh
Q psy12021 51 GMFPCEV--CGKKYKYKWGLSRHKRDECGQEPKYQCPQ----CPYRASQK 94 (106)
Q Consensus 51 ~~~~C~~--C~~~f~~~~~l~~h~~~h~~~~~~~~C~~----C~k~f~~~ 94 (106)
.+..|+. |...+. +..|..|....=...+ ..|+. |+..+...
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~-v~C~~~~~GC~~~~~~~ 55 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRP-VPCPYSPYGCKERVPRE 55 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSE-EE-SS----S--EEEHH
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCc-EECCCCCCCCCCccchh
Confidence 3457876 545444 4567888774433343 78888 88776554
No 156
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.45 E-value=11 Score=17.95 Aligned_cols=14 Identities=29% Similarity=0.570 Sum_probs=8.7
Q ss_pred ccCccccccCChHH
Q psy12021 83 QCPQCPYRASQKAT 96 (106)
Q Consensus 83 ~C~~C~k~f~~~~~ 96 (106)
.|+.|++-|+.+..
T Consensus 14 ICpvCqRPFsWRkK 27 (54)
T COG4338 14 ICPVCQRPFSWRKK 27 (54)
T ss_pred hhhhhcCchHHHHH
Confidence 56777776665543
No 157
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=40.30 E-value=13 Score=22.29 Aligned_cols=35 Identities=29% Similarity=0.676 Sum_probs=23.5
Q ss_pred CCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 50 SGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 50 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
.-+|.|. |+..|.+. ++|-.+-.| +. |.|..|+..
T Consensus 115 ~~~Y~C~-C~q~~l~~---RRhn~~~~g-~~-YrC~~C~gk 149 (156)
T COG3091 115 TYPYRCQ-CQQHYLRI---RRHNTVRRG-EV-YRCGKCGGK 149 (156)
T ss_pred ceeEEee-cCCccchh---hhccccccc-ce-EEeccCCce
Confidence 4469998 99887543 344444445 45 999999854
No 158
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=39.70 E-value=18 Score=20.50 Aligned_cols=27 Identities=30% Similarity=0.528 Sum_probs=17.2
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
..+.|..||..|... .... +.||.||.
T Consensus 69 ~~~~C~~Cg~~~~~~-----------~~~~-~~CP~Cgs 95 (114)
T PRK03681 69 AECWCETCQQYVTLL-----------TQRV-RRCPQCHG 95 (114)
T ss_pred cEEEcccCCCeeecC-----------CccC-CcCcCcCC
Confidence 347899999766321 1112 67999984
No 159
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=38.41 E-value=28 Score=15.60 Aligned_cols=12 Identities=25% Similarity=0.855 Sum_probs=5.2
Q ss_pred CCCceecccccc
Q psy12021 49 NSGMFPCEVCGK 60 (106)
Q Consensus 49 ~~~~~~C~~C~~ 60 (106)
+.+.|.|..|+.
T Consensus 21 ~~~~w~C~~C~~ 32 (40)
T PF04810_consen 21 GGKTWICNFCGT 32 (40)
T ss_dssp TTTEEEETTT--
T ss_pred CCCEEECcCCCC
Confidence 334455555554
No 160
>PF10537 WAC_Acf1_DNA_bd: ATP-utilising chromatin assembly and remodelling N-terminal; InterPro: IPR013136 ACF (for ATP-utilising chromatin assembly and remodeling factor) is a chromatin-remodeling complex that catalyzes the ATP-dependent assembly of periodic nucleosome arrays. This reaction utilises the energy of ATP hydrolysis by ISWI, the smaller of the two subunits of ACF. Acf1, the large subunit of ACF, is essential for the full activity of the complex. The WAC (WSTF/Acf1/cbp146) domain is an ~110-residue module present at the N-termini of Acf1-related proteins in a variety of organisms. It is found in association with other domains such as the bromodomain, the PHD-type zinc finger, DDT or WAKS. The DNA-binding region of Acf1 includes the WAC domain, which is necessary for the efficient binding of ACF complex to DNA. It seems probable that the WAC domain will be involved in DNA binding in other related factors [, ]. Some proteins known to contain a WAC domain are the Drosophila melanogaster (Fruit fly) ATP-dependent chromatin assembly factor large subunit Acf1, human WSTF (Williams syndrome transcription factor), mouse cbp146, yeast imitation switch two complex protein 1 (ITC1 or YGL133w), and yeast protein YPL216w.
Probab=38.38 E-value=60 Score=18.09 Aligned_cols=38 Identities=8% Similarity=0.016 Sum_probs=22.9
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
+.|.|..-|..|.+-......+..... .. +.|...|+.
T Consensus 2 eVf~i~~T~EiF~dYe~Y~~R~~~y~~-~v-wtC~~TGk~ 39 (102)
T PF10537_consen 2 EVFYIPFTGEIFRDYEEYLKRMILYNQ-RV-WTCEITGKS 39 (102)
T ss_pred ceEEeCCCCcccCCHHHHHHHHHHHhC-Ce-eEEecCCCC
Confidence 346677777777776655555444432 33 777777763
No 161
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=37.93 E-value=11 Score=23.68 Aligned_cols=27 Identities=26% Similarity=0.596 Sum_probs=0.0
Q ss_pred ccCCCceeccccccc-ccCHHHHHHHHH
Q psy12021 47 QYNSGMFPCEVCGKK-YKYKWGLSRHKR 73 (106)
Q Consensus 47 ~~~~~~~~C~~C~~~-f~~~~~l~~h~~ 73 (106)
|.-...|.|++||.. |.-+..+..|-.
T Consensus 96 hGL~~ey~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 96 HGLGVEYKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp ----------------------------
T ss_pred hCCCCeeeeEeCCCcceecHHHHHHhcC
Confidence 334566899999853 555666666644
No 162
>PTZ00448 hypothetical protein; Provisional
Probab=36.79 E-value=29 Score=24.07 Aligned_cols=23 Identities=22% Similarity=0.457 Sum_probs=19.9
Q ss_pred ceecccccccccCHHHHHHHHHH
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
.|.|..|+-.|.+....+.|.++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 58899999999888888888875
No 163
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=36.52 E-value=14 Score=16.27 Aligned_cols=12 Identities=17% Similarity=0.418 Sum_probs=4.9
Q ss_pred cccCccccccCC
Q psy12021 82 YQCPQCPYRASQ 93 (106)
Q Consensus 82 ~~C~~C~k~f~~ 93 (106)
-.|.+|++.|..
T Consensus 4 ~~C~eC~~~f~d 15 (34)
T PF01286_consen 4 PKCDECGKPFMD 15 (34)
T ss_dssp EE-TTT--EES-
T ss_pred chHhHhCCHHHH
Confidence 356777776643
No 164
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=36.48 E-value=13 Score=21.43 Aligned_cols=32 Identities=19% Similarity=0.337 Sum_probs=18.4
Q ss_pred CceecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
-.+.| .||..|.....-.. +. .+.+.||.||.
T Consensus 69 ~~~~C-~Cg~~~~~~~~~~~----~~--~~~~~CP~Cgs 100 (124)
T PRK00762 69 VEIEC-ECGYEGVVDEDEID----HY--AAVIECPVCGN 100 (124)
T ss_pred eeEEe-eCcCcccccccchh----cc--ccCCcCcCCCC
Confidence 34789 99988754321000 10 12268999984
No 165
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=36.32 E-value=12 Score=17.10 Aligned_cols=9 Identities=33% Similarity=1.077 Sum_probs=4.3
Q ss_pred eeccccccc
Q psy12021 53 FPCEVCGKK 61 (106)
Q Consensus 53 ~~C~~C~~~ 61 (106)
-.|..|+..
T Consensus 30 ~~CpYCg~~ 38 (40)
T PF10276_consen 30 VVCPYCGTR 38 (40)
T ss_dssp EEETTTTEE
T ss_pred EECCCCCCE
Confidence 445555543
No 166
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=36.16 E-value=17 Score=21.23 Aligned_cols=15 Identities=20% Similarity=0.560 Sum_probs=12.0
Q ss_pred ceecccccccccCHH
Q psy12021 52 MFPCEVCGKKYKYKW 66 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~ 66 (106)
|..|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 468999999997654
No 167
>PF14353 CpXC: CpXC protein
Probab=36.13 E-value=16 Score=20.90 Aligned_cols=19 Identities=21% Similarity=0.509 Sum_probs=11.6
Q ss_pred cCCCCCcccCccccccCCh
Q psy12021 76 CGQEPKYQCPQCPYRASQK 94 (106)
Q Consensus 76 ~~~~~~~~C~~C~k~f~~~ 94 (106)
.|.--.+.|+.||..|.-.
T Consensus 33 ~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 33 DGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred cCCcCEEECCCCCCceecC
Confidence 3433337888888876543
No 168
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=35.82 E-value=30 Score=17.04 Aligned_cols=9 Identities=44% Similarity=1.051 Sum_probs=4.8
Q ss_pred ceecccccc
Q psy12021 52 MFPCEVCGK 60 (106)
Q Consensus 52 ~~~C~~C~~ 60 (106)
.|+|+.||-
T Consensus 14 ~~~Cp~cGi 22 (55)
T PF13824_consen 14 NFECPDCGI 22 (55)
T ss_pred CCcCCCCCC
Confidence 355555554
No 169
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=35.57 E-value=14 Score=21.66 Aligned_cols=33 Identities=27% Similarity=0.746 Sum_probs=20.3
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
.|.|..|+..+. ++.+.. .... |.|..|+..|.
T Consensus 112 ~y~C~~C~~~~~------~~rr~~-~~~~-y~C~~C~g~l~ 144 (146)
T smart00731 112 PYRCTGCGQRYL------RVRRSN-NVSR-YRCGKCGGKLI 144 (146)
T ss_pred EEECCCCCCCCc------eEcccc-Ccce-EEcCCCCCEEE
Confidence 588988887763 222222 1145 88988886553
No 170
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=35.51 E-value=28 Score=24.11 Aligned_cols=28 Identities=29% Similarity=0.400 Sum_probs=19.8
Q ss_pred eccCCCceeccccc-ccccCHHHHHHHHH
Q psy12021 46 RQYNSGMFPCEVCG-KKYKYKWGLSRHKR 73 (106)
Q Consensus 46 ~~~~~~~~~C~~C~-~~f~~~~~l~~h~~ 73 (106)
.|.-.+.|+|++|| .++.-...+.+|-.
T Consensus 368 lhgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 368 LHGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred hcCCCcceeeeecccccccchHHHHhhhh
Confidence 34456679999999 66766777777644
No 171
>COG4640 Predicted membrane protein [Function unknown]
Probab=35.48 E-value=27 Score=24.50 Aligned_cols=17 Identities=24% Similarity=0.685 Sum_probs=9.7
Q ss_pred eecccccccccCHHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLS 69 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~ 69 (106)
+.|..||..|.......
T Consensus 16 ~qC~qCG~~~t~~~sqa 32 (465)
T COG4640 16 VQCTQCGHKFTSRQSQA 32 (465)
T ss_pred ccccccCCcCCchhhhh
Confidence 34666666666555443
No 172
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=35.39 E-value=34 Score=22.91 Aligned_cols=21 Identities=33% Similarity=0.608 Sum_probs=15.0
Q ss_pred cccCccccccCChHHHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H~~ 102 (106)
|.|+.|-+-|.....|.+|+.
T Consensus 49 yiCe~Clky~~~~~~l~~H~~ 69 (290)
T PLN03238 49 YICEYCLKYMRKKKSLLRHLA 69 (290)
T ss_pred EEcCCCcchhCCHHHHHHHHH
Confidence 777777777777777777755
No 173
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=35.00 E-value=7.3 Score=18.08 Aligned_cols=8 Identities=38% Similarity=1.186 Sum_probs=6.0
Q ss_pred cccCcccc
Q psy12021 82 YQCPQCPY 89 (106)
Q Consensus 82 ~~C~~C~k 89 (106)
|.|..|++
T Consensus 38 ~~C~~C~~ 45 (46)
T PF12760_consen 38 YRCKACRK 45 (46)
T ss_pred EECCCCCC
Confidence 88888764
No 174
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=34.81 E-value=32 Score=16.87 Aligned_cols=33 Identities=15% Similarity=0.242 Sum_probs=16.5
Q ss_pred CCCceecccccccccCHHHHHHHHHHHcCCCCCcccCc
Q psy12021 49 NSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQ 86 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~ 86 (106)
-..|.....|+-.|.....+. ++ ..... .+|+.
T Consensus 21 ~~~PV~s~~C~H~fek~aI~~-~i---~~~~~-~~CPv 53 (57)
T PF11789_consen 21 FEDPVKSKKCGHTFEKEAILQ-YI---QRNGS-KRCPV 53 (57)
T ss_dssp -SSEEEESSS--EEEHHHHHH-HC---TTTS--EE-SC
T ss_pred hhCCcCcCCCCCeecHHHHHH-HH---HhcCC-CCCCC
Confidence 345677778888887555443 32 12233 78887
No 175
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=34.63 E-value=28 Score=21.25 Aligned_cols=19 Identities=21% Similarity=0.553 Sum_probs=15.7
Q ss_pred cccCccccccCChHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTH 100 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H 100 (106)
+.|+.||+.|..-+++.+-
T Consensus 131 ~~C~~CgkiYW~GsHw~~m 149 (165)
T COG1656 131 YRCPKCGKIYWKGSHWRRM 149 (165)
T ss_pred eECCCCcccccCchHHHHH
Confidence 7799999999888877643
No 176
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=34.30 E-value=40 Score=24.19 Aligned_cols=30 Identities=17% Similarity=0.270 Sum_probs=24.4
Q ss_pred cCCCceecccccccccCHHHHHHHHH-HHcC
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKR-DECG 77 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~-~h~~ 77 (106)
...+-|.|..|.+.|.....+..|+. .|.+
T Consensus 53 ~sWrFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 53 KSWRFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred CceeEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 34556889999999999999999988 4544
No 177
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=34.07 E-value=5.7 Score=17.65 Aligned_cols=13 Identities=31% Similarity=1.058 Sum_probs=7.3
Q ss_pred HHcCCCCCcccCcc
Q psy12021 74 DECGQEPKYQCPQC 87 (106)
Q Consensus 74 ~h~~~~~~~~C~~C 87 (106)
...|..+ |.|..|
T Consensus 23 ~~~G~qr-yrC~~C 35 (36)
T PF03811_consen 23 SPSGHQR-YRCKDC 35 (36)
T ss_pred CCCCCEe-EecCcC
Confidence 3344455 777766
No 178
>PHA02998 RNA polymerase subunit; Provisional
Probab=34.06 E-value=9.3 Score=23.60 Aligned_cols=38 Identities=24% Similarity=0.468 Sum_probs=21.7
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCC---cccCccccccCCh
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPK---YQCPQCPYRASQK 94 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~---~~C~~C~k~f~~~ 94 (106)
-.|+.|+..=.... +.+.| ..++|+ |.|..||+.|...
T Consensus 144 v~CPkCg~~~A~f~--qlQTR--SADEPmT~FYkC~~CG~~wkpp 184 (195)
T PHA02998 144 TPCPNCKSKNTTPM--MIQTR--AADEPPLVRHACRDCKKHFKPP 184 (195)
T ss_pred CCCCCCCCCceEEE--EEeec--cCCCCceEEEEcCCCCCccCCc
Confidence 57888884322111 22222 334443 7999999988654
No 179
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=33.96 E-value=18 Score=16.10 Aligned_cols=12 Identities=33% Similarity=0.946 Sum_probs=6.6
Q ss_pred Cceecccccccc
Q psy12021 51 GMFPCEVCGKKY 62 (106)
Q Consensus 51 ~~~~C~~C~~~f 62 (106)
+-|.|+.||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 358999998764
No 180
>PLN02748 tRNA dimethylallyltransferase
Probab=33.05 E-value=34 Score=24.52 Aligned_cols=26 Identities=23% Similarity=0.460 Sum_probs=20.3
Q ss_pred CCCceecccccc-cccCHHHHHHHHHH
Q psy12021 49 NSGMFPCEVCGK-KYKYKWGLSRHKRD 74 (106)
Q Consensus 49 ~~~~~~C~~C~~-~f~~~~~l~~h~~~ 74 (106)
..+.|.|+.|++ ++........|++.
T Consensus 415 ~~~~~~Ce~C~~~~~~G~~eW~~Hlks 441 (468)
T PLN02748 415 LWTQYVCEACGNKVLRGAHEWEQHKQG 441 (468)
T ss_pred ccccccccCCCCcccCCHHHHHHHhcc
Confidence 356789999997 78888878877764
No 181
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=32.93 E-value=16 Score=17.47 Aligned_cols=13 Identities=23% Similarity=0.608 Sum_probs=6.8
Q ss_pred ccCccccccCChH
Q psy12021 83 QCPQCPYRASQKA 95 (106)
Q Consensus 83 ~C~~C~k~f~~~~ 95 (106)
.||.|+..|....
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999998886543
No 182
>KOG0717|consensus
Probab=32.80 E-value=32 Score=24.68 Aligned_cols=22 Identities=32% Similarity=0.646 Sum_probs=19.5
Q ss_pred eecccccccccCHHHHHHHHHH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
+-|..|.+.|.+...+..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7799999999999999888764
No 183
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=32.67 E-value=8 Score=21.49 Aligned_cols=39 Identities=15% Similarity=0.331 Sum_probs=22.5
Q ss_pred CCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccccC
Q psy12021 49 NSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRAS 92 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~ 92 (106)
-.+.|.|..||..-...-.+. ....... ..|..||..|-
T Consensus 19 L~k~FtCp~Cghe~vs~ctvk----k~~~~g~-~~Cg~CGls~e 57 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSCTVK----KTVNIGT-AVCGNCGLSFE 57 (104)
T ss_pred CCceEecCccCCeeeeEEEEE----ecCceeE-EEcccCcceEE
Confidence 456799999986644332221 1111123 67888887763
No 184
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.44 E-value=27 Score=17.59 Aligned_cols=9 Identities=22% Similarity=0.833 Sum_probs=4.8
Q ss_pred ceecccccc
Q psy12021 52 MFPCEVCGK 60 (106)
Q Consensus 52 ~~~C~~C~~ 60 (106)
.|.|++|.-
T Consensus 31 tymC~eC~~ 39 (68)
T COG4896 31 TYMCPECEH 39 (68)
T ss_pred eEechhhHh
Confidence 355655543
No 185
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=32.30 E-value=20 Score=17.16 Aligned_cols=12 Identities=25% Similarity=0.999 Sum_probs=8.7
Q ss_pred CCCcccCcccccc
Q psy12021 79 EPKYQCPQCPYRA 91 (106)
Q Consensus 79 ~~~~~C~~C~k~f 91 (106)
.. +.|..||..+
T Consensus 36 ~r-~~C~~Cgyt~ 47 (50)
T PRK00432 36 DR-WHCGKCGYTE 47 (50)
T ss_pred Cc-EECCCcCCEE
Confidence 45 8888888654
No 186
>KOG3014|consensus
Probab=31.84 E-value=28 Score=22.78 Aligned_cols=10 Identities=50% Similarity=1.265 Sum_probs=5.4
Q ss_pred eccccccccc
Q psy12021 54 PCEVCGKKYK 63 (106)
Q Consensus 54 ~C~~C~~~f~ 63 (106)
.|.+||..|+
T Consensus 39 ~C~~Cgm~Yt 48 (257)
T KOG3014|consen 39 KCKECGMKYT 48 (257)
T ss_pred ehhhcCceec
Confidence 4566665543
No 187
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=31.80 E-value=21 Score=16.88 Aligned_cols=36 Identities=25% Similarity=0.529 Sum_probs=18.0
Q ss_pred eecccccccccCHHHHHHHHHHH------cCCCCCcccCccccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDE------CGQEPKYQCPQCPYR 90 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h------~~~~~~~~C~~C~k~ 90 (106)
|.|..||..|.-...-..+ .+. ....- |.|+.|+..
T Consensus 2 y~C~~CgyvYd~~~Gd~~~-~i~pGt~F~~Lp~~-w~CP~C~a~ 43 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPEN-GIPPGTPFEDLPDD-WVCPVCGAP 43 (47)
T ss_dssp EEETTTSBEEETTTBBGGG-TB-TT--GGGS-TT--B-TTTSSB
T ss_pred cCCCCCCEEEcCCcCCccc-CcCCCCCHHHCCCC-CcCcCCCCc
Confidence 7899999877543321110 111 11244 899999853
No 188
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.43 E-value=30 Score=19.68 Aligned_cols=48 Identities=13% Similarity=0.161 Sum_probs=31.6
Q ss_pred ecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChHHHHHHHHhh
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
.|.-|.+.|........ ..-....+ |.|+.|...|-..-....|..+|
T Consensus 57 ~C~~C~~~f~~~~~~~~--~~~~~~~~-y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPF--DELKDSHR-YVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cccCcCCCCCCcccccc--cccccccc-eeCCCCCCccccccchhhhhhcc
Confidence 48888888865432111 11123245 99999999998888777777665
No 189
>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=31.09 E-value=39 Score=14.68 Aligned_cols=22 Identities=18% Similarity=0.443 Sum_probs=13.4
Q ss_pred ceecccccccccCHHHHHHHHHH
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
.+.|+.|++... ...+..|+..
T Consensus 4 ~~~C~nC~R~v~-a~RfA~HLek 25 (33)
T PF08209_consen 4 YVECPNCGRPVA-ASRFAPHLEK 25 (33)
T ss_dssp EEE-TTTSSEEE-GGGHHHHHHH
T ss_pred eEECCCCcCCcc-hhhhHHHHHH
Confidence 478888887664 3456666553
No 190
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=29.27 E-value=24 Score=16.91 Aligned_cols=35 Identities=23% Similarity=0.523 Sum_probs=19.5
Q ss_pred eecccccccccCHHHHHHHHHHHc------CCCCCcccCcccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDEC------GQEPKYQCPQCPY 89 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~------~~~~~~~C~~C~k 89 (106)
|.|..||..|.-...-.. ..+-. .... |.|+.|+.
T Consensus 2 y~C~~CgyiYd~~~Gd~~-~~i~pGt~f~~Lp~~-w~CP~C~a 42 (50)
T cd00730 2 YECRICGYIYDPAEGDPD-EGIPPGTPFEDLPDD-WVCPVCGA 42 (50)
T ss_pred cCCCCCCeEECCCCCCcc-cCcCCCCCHhHCCCC-CCCCCCCC
Confidence 789999988864321110 01111 1233 89999984
No 191
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=28.62 E-value=27 Score=19.10 Aligned_cols=13 Identities=15% Similarity=0.639 Sum_probs=10.9
Q ss_pred CcccCccccccCC
Q psy12021 81 KYQCPQCPYRASQ 93 (106)
Q Consensus 81 ~~~C~~C~k~f~~ 93 (106)
|..|..||..|..
T Consensus 58 Pa~CkkCGfef~~ 70 (97)
T COG3357 58 PARCKKCGFEFRD 70 (97)
T ss_pred ChhhcccCccccc
Confidence 4899999988876
No 192
>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=28.58 E-value=28 Score=16.50 Aligned_cols=23 Identities=22% Similarity=0.579 Sum_probs=9.4
Q ss_pred ccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 62 YKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 62 f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
|.....|....+ ... +.|+.|++
T Consensus 27 FDl~~fl~~~~~----~~~-W~CPiC~~ 49 (50)
T PF02891_consen 27 FDLESFLESNQR----TPK-WKCPICNK 49 (50)
T ss_dssp EEHHHHHHHHHH----S----B-TTT--
T ss_pred ECHHHHHHHhhc----cCC-eECcCCcC
Confidence 555555544333 133 88998875
No 193
>PRK01343 zinc-binding protein; Provisional
Probab=28.42 E-value=38 Score=16.80 Aligned_cols=12 Identities=25% Similarity=0.789 Sum_probs=8.3
Q ss_pred CcccCccccccC
Q psy12021 81 KYQCPQCPYRAS 92 (106)
Q Consensus 81 ~~~C~~C~k~f~ 92 (106)
...|+.|++.|.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 367888887654
No 194
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=28.24 E-value=78 Score=21.27 Aligned_cols=25 Identities=32% Similarity=0.518 Sum_probs=22.3
Q ss_pred CCceecccccccccCHHHHHHHHHH
Q psy12021 50 SGMFPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 50 ~~~~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
...|.|+.|-+-|.+...+.+|+..
T Consensus 46 ~~lyiCe~Clky~~~~~~l~~H~~~ 70 (290)
T PLN03238 46 TKLYICEYCLKYMRKKKSLLRHLAK 70 (290)
T ss_pred CeEEEcCCCcchhCCHHHHHHHHHh
Confidence 4569999999999999999999874
No 195
>PLN03239 histone acetyltransferase; Provisional
Probab=28.20 E-value=40 Score=23.20 Aligned_cols=22 Identities=23% Similarity=0.141 Sum_probs=19.5
Q ss_pred CcccCccccccCChHHHHHHHH
Q psy12021 81 KYQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~~l~~H~~ 102 (106)
.|.|+.|-+-|.+...|.+|+.
T Consensus 106 lYiCE~Clky~~~~~~l~~H~~ 127 (351)
T PLN03239 106 LYVCEFSFGFFARKSELLRFQA 127 (351)
T ss_pred EEEeccchhhhcCHHHHHHHHH
Confidence 4999999999999999998875
No 196
>PF01215 COX5B: Cytochrome c oxidase subunit Vb This family consists of chains F and S ; InterPro: IPR002124 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion [, ]. Two of these cysteines are clustered in the C-terminal section of the subunit.; GO: 0004129 cytochrome-c oxidase activity, 0005740 mitochondrial envelope; PDB: 2EIL_S 2ZXW_S 3ASN_S 1OCO_S 3AG4_S 3ABK_S 1OCZ_S 1OCC_F 3ASO_S 3ABL_S ....
Probab=28.02 E-value=24 Score=20.78 Aligned_cols=16 Identities=31% Similarity=0.665 Sum_probs=12.8
Q ss_pred CCceecccccccccCH
Q psy12021 50 SGMFPCEVCGKKYKYK 65 (106)
Q Consensus 50 ~~~~~C~~C~~~f~~~ 65 (106)
.++..|..||..|+..
T Consensus 110 g~~~RCpeCG~~fkL~ 125 (136)
T PF01215_consen 110 GKPQRCPECGQVFKLK 125 (136)
T ss_dssp TSEEEETTTEEEEEEE
T ss_pred CCccCCCCCCeEEEEE
Confidence 4589999999988643
No 197
>PF02748 PyrI_C: Aspartate carbamoyltransferase regulatory chain, metal binding domain; InterPro: IPR020542 Aspartate carbamoyltransferase (aspartate transcarbamylase, ATCase) 2.1.3.2 from EC is an allosteric enzyme that plays a central role in the regulation of the pyrimidine pathway in bacteria. The holoenzyme is a dodecamer composed of six catalytic chains, each with an active site, and six regulatory chains lacking catalytic activity []. The catalytic subunits exist as a dimer of catalytic trimers, (c3)2, while the regulatory subunits exist as a trimer of regulatory dimers, (r2)3, therefore the complete holoenzyme can be represented as (c3)2(r2)3. The association of the catalytic subunits c3 with the regulatory subunits r2 is responsible for the establishment of positive co-operativity between catalytic sites for the binding of aspartate and it dictates the pattern of allosteric response toward nucleotide effectors. ATCase from Escherichia coli is the most extensively studied allosteric enzyme []. The crystal structure of the T-state, the T-state with CTP bound, the R-state with N-phosphonacetyl-L-aspartate (PALA) bound, and the R-state with phosphonoacetamide plus malonate bound have been used in interpreting kinetic and mutational studies. A high-resolution structure of E. coli ATCase in the presence of PALA (a bisubstrate analog) allows a detailed description of the binding at the active site of the enzyme and allows a detailed model of the tetrahedral intermediate to be constructed. The entire regulatory chain has been traced showing that the N-terminal regions of the regulatory chains R1 and R6 are located in close proximity to each other and to the regulatory site. This portion of the molecule may be involved in the observed asymmetry between the regulatory binding sites as well as in the heterotropic response of the enzyme []. The C-terminal domain of the regulatory chains have a rubredoxin-like zinc-bound fold. ATCase from Enterobacter agglomerans (Erwinia herbicola) (Pantoea agglomerans) differs from the other investigated enterobacterial ATCases by its absence of homotropic co-operativity toward the substrate aspartate and its lack of response to ATP which is an allosteric effector (activator) of this family of enzymes. Nevertheless, the E. herbicola ATCase has the same quaternary structure, two trimers of catalytic chains with three dimers of regulatory chains, (c3)2(r2)3, as other enterobacterial ATCases and shows extensive primary structure conservation []. This entry represents the C-terminal domain.; PDB: 2YWW_B 1SKU_D 1Q95_L 8ATC_B 3AT1_D 1RAI_D 4E2F_D 1NBE_B 6AT1_B 2FZC_D ....
Probab=27.83 E-value=37 Score=16.37 Aligned_cols=18 Identities=11% Similarity=0.255 Sum_probs=11.5
Q ss_pred cCCCceecccccccccCH
Q psy12021 48 YNSGMFPCEVCGKKYKYK 65 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~ 65 (106)
.....|.|..|++.+...
T Consensus 31 ~~~~~~rC~YCe~~~~~~ 48 (52)
T PF02748_consen 31 KEPIKLRCHYCERIITED 48 (52)
T ss_dssp TTTCEEEETTT--EEEHH
T ss_pred CCCCEEEeeCCCCEeccc
Confidence 345569999999887644
No 198
>KOG0978|consensus
Probab=27.79 E-value=20 Score=26.94 Aligned_cols=19 Identities=21% Similarity=0.574 Sum_probs=15.4
Q ss_pred cccCccccccCChHHHHHH
Q psy12021 82 YQCPQCPYRASQKATLKTH 100 (106)
Q Consensus 82 ~~C~~C~k~f~~~~~l~~H 100 (106)
-+||.|+.+|...+.+..|
T Consensus 679 RKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 679 RKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred CCCCCCCCCCCcccccccC
Confidence 5899999999988766544
No 199
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=27.56 E-value=53 Score=20.69 Aligned_cols=33 Identities=27% Similarity=0.578 Sum_probs=18.4
Q ss_pred eecccccccccCHHHHHHHHHHHc-CCCCCcccCcccccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDEC-GQEPKYQCPQCPYRA 91 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~-~~~~~~~C~~C~k~f 91 (106)
+.|+.|+.. .. .|.-+-. |..+.+.|..||..+
T Consensus 7 ~~Cp~Cg~e----ev--~hEVik~~g~~~lvrC~eCG~V~ 40 (201)
T COG1326 7 IECPSCGSE----EV--SHEVIKERGREPLVRCEECGTVH 40 (201)
T ss_pred EECCCCCcc----hh--hHHHHHhcCCceEEEccCCCcEe
Confidence 678888811 11 1222222 334458899998765
No 200
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=27.54 E-value=40 Score=24.08 Aligned_cols=22 Identities=32% Similarity=0.526 Sum_probs=19.7
Q ss_pred CcccCccccccCChHHHHHHHH
Q psy12021 81 KYQCPQCPYRASQKATLKTHMA 102 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~~l~~H~~ 102 (106)
.|.|+.|-+-|.....|.+|+.
T Consensus 198 lyiCe~Cl~y~~~~~~~~~H~~ 219 (450)
T PLN00104 198 LYFCEFCLKFMKRKEQLQRHMK 219 (450)
T ss_pred EEEchhhhhhhcCHHHHHHHHh
Confidence 4899999999999999999976
No 201
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.19 E-value=52 Score=21.89 Aligned_cols=24 Identities=25% Similarity=0.427 Sum_probs=15.4
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCcccccc
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRA 91 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f 91 (106)
|.|+.|.-.|-. . |-.|+.||-.|
T Consensus 256 yvCs~Clsi~C~--------------~-p~~C~~Cgt~f 279 (279)
T TIGR00627 256 FVCSVCLSVLCQ--------------Y-TPICKTCKTAF 279 (279)
T ss_pred EECCCccCCcCC--------------C-CCCCCCCCCCC
Confidence 777777655531 2 35788887655
No 202
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=27.14 E-value=30 Score=15.43 Aligned_cols=13 Identities=23% Similarity=0.547 Sum_probs=6.9
Q ss_pred ccCccccccCChH
Q psy12021 83 QCPQCPYRASQKA 95 (106)
Q Consensus 83 ~C~~C~k~f~~~~ 95 (106)
.|+-|++.|-+.+
T Consensus 4 ~CprC~kg~Hwa~ 16 (36)
T PF14787_consen 4 LCPRCGKGFHWAS 16 (36)
T ss_dssp C-TTTSSSCS-TT
T ss_pred cCcccCCCcchhh
Confidence 4666777765544
No 203
>KOG2807|consensus
Probab=27.03 E-value=94 Score=21.40 Aligned_cols=54 Identities=15% Similarity=0.264 Sum_probs=33.5
Q ss_pred CceecccccccccCHHHHHHHHHHH----------cC----------------CCCCcccCccccccCChHHHHHHHHhh
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRDE----------CG----------------QEPKYQCPQCPYRASQKATLKTHMAIK 104 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~h----------~~----------------~~~~~~C~~C~k~f~~~~~l~~H~~~h 104 (106)
-|-+|+.|+.+......|.+--+.- .+ ....|.|..|...|-.....-.|...|
T Consensus 289 LP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhh
Confidence 4567788887777776665432210 00 012277888888888877777776655
No 204
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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 motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=26.99 E-value=67 Score=14.28 Aligned_cols=10 Identities=30% Similarity=0.700 Sum_probs=3.2
Q ss_pred cccCcccccc
Q psy12021 82 YQCPQCPYRA 91 (106)
Q Consensus 82 ~~C~~C~k~f 91 (106)
|=|+.|...|
T Consensus 4 yyCdyC~~~~ 13 (38)
T PF06220_consen 4 YYCDYCKKYL 13 (38)
T ss_dssp -B-TTT--B-
T ss_pred eeccccccee
Confidence 5566666666
No 205
>KOG2907|consensus
Probab=26.95 E-value=36 Score=19.43 Aligned_cols=39 Identities=31% Similarity=0.672 Sum_probs=21.7
Q ss_pred eecccccccccCHHHHHHHHHHH-cCCCCCcccCccccccCC
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDE-CGQEPKYQCPQCPYRASQ 93 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h-~~~~~~~~C~~C~k~f~~ 93 (106)
-.|+.||..=-.-..+ .+|+. .|.--=|.|+.|+..|..
T Consensus 75 ~kCpkCghe~m~Y~T~--QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTL--QLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhhhhhh--hcccccCCceEEEEcCccceeeec
Confidence 5789998543222222 23333 232222899999988764
No 206
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=26.43 E-value=66 Score=19.90 Aligned_cols=33 Identities=24% Similarity=0.688 Sum_probs=20.4
Q ss_pred cCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 48 YNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 48 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
....-|.|+.|...|+..... . .. |.|+.||..
T Consensus 109 ~~~~~y~C~~~~~r~sfdeA~------~---~~-F~Cp~Cg~~ 141 (176)
T COG1675 109 TENNYYVCPNCHVKYSFDEAM------E---LG-FTCPKCGED 141 (176)
T ss_pred ccCCceeCCCCCCcccHHHHH------H---hC-CCCCCCCch
Confidence 445568897777665433322 2 22 889999864
No 207
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=26.18 E-value=31 Score=14.92 Aligned_cols=10 Identities=20% Similarity=0.255 Sum_probs=6.3
Q ss_pred cccCcccccc
Q psy12021 82 YQCPQCPYRA 91 (106)
Q Consensus 82 ~~C~~C~k~f 91 (106)
+.|..||..|
T Consensus 22 ~~C~~Cg~~~ 31 (33)
T PF08792_consen 22 EVCIFCGSSF 31 (33)
T ss_pred EEcccCCcEe
Confidence 5666666655
No 208
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=26.14 E-value=43 Score=21.89 Aligned_cols=38 Identities=24% Similarity=0.359 Sum_probs=22.9
Q ss_pred ccCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 47 QYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 47 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
|..-..+.|..|+..+........ ...+ .. -.|+.||.
T Consensus 117 HGsl~~~~C~~C~~~~~~~~~~~~---~~~~-~~-p~C~~Cg~ 154 (250)
T COG0846 117 HGSLKRVRCSKCGNQYYDEDVIKF---IEDG-LI-PRCPKCGG 154 (250)
T ss_pred ccceeeeEeCCCcCccchhhhhhh---cccC-CC-CcCccCCC
Confidence 444556889999988764442111 1112 33 68999987
No 209
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=26.05 E-value=29 Score=15.52 Aligned_cols=8 Identities=50% Similarity=1.161 Sum_probs=3.5
Q ss_pred ccCccccc
Q psy12021 83 QCPQCPYR 90 (106)
Q Consensus 83 ~C~~C~k~ 90 (106)
.|+.||..
T Consensus 34 ~C~~CGE~ 41 (46)
T TIGR03831 34 VCPQCGEE 41 (46)
T ss_pred ccccCCCE
Confidence 44444443
No 210
>PTZ00064 histone acetyltransferase; Provisional
Probab=26.01 E-value=48 Score=24.12 Aligned_cols=23 Identities=17% Similarity=0.158 Sum_probs=20.4
Q ss_pred CcccCccccccCChHHHHHHHHh
Q psy12021 81 KYQCPQCPYRASQKATLKTHMAI 103 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~~l~~H~~~ 103 (106)
.|.|+.|-+-|.....|.+|+..
T Consensus 280 LYICEfCLkY~~s~~~l~rH~~~ 302 (552)
T PTZ00064 280 LHFCEYCLDFFCFEDELIRHLSR 302 (552)
T ss_pred EEEccchhhhhCCHHHHHHHHhc
Confidence 38999999999999999999763
No 211
>PF12907 zf-met2: Zinc-binding
Probab=25.84 E-value=51 Score=15.02 Aligned_cols=6 Identities=33% Similarity=1.315 Sum_probs=2.7
Q ss_pred eccccc
Q psy12021 54 PCEVCG 59 (106)
Q Consensus 54 ~C~~C~ 59 (106)
.|.+|-
T Consensus 3 ~C~iC~ 8 (40)
T PF12907_consen 3 ICKICR 8 (40)
T ss_pred CcHHhh
Confidence 344444
No 212
>KOG2747|consensus
Probab=25.45 E-value=56 Score=22.94 Aligned_cols=24 Identities=33% Similarity=0.616 Sum_probs=17.7
Q ss_pred CceecccccccccCHHHHHHHHHH
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKRD 74 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~~ 74 (106)
..|.|+.|-+.+.+...|++|+..
T Consensus 157 ~lYiCEfCLkY~~s~~~l~rH~~k 180 (396)
T KOG2747|consen 157 KLYICEFCLKYMKSRTSLQRHLKK 180 (396)
T ss_pred eEEEehHHHhHhchHHHHHHHHHh
Confidence 447777777777777777777764
No 213
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=25.43 E-value=49 Score=23.45 Aligned_cols=31 Identities=29% Similarity=0.716 Sum_probs=20.5
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCChH
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQKA 95 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~~ 95 (106)
-.|+.||....+ .|..- |+|+.||..+....
T Consensus 351 p~Cp~Cg~~m~S-----------~G~~g-~rC~kCg~~~~~~~ 381 (421)
T COG1571 351 PVCPRCGGRMKS-----------AGRNG-FRCKKCGTRARETL 381 (421)
T ss_pred CCCCccCCchhh-----------cCCCC-cccccccccCCccc
Confidence 368888866432 23334 89999998776543
No 214
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=25.42 E-value=36 Score=19.10 Aligned_cols=14 Identities=21% Similarity=0.619 Sum_probs=11.6
Q ss_pred ceecccccccccCH
Q psy12021 52 MFPCEVCGKKYKYK 65 (106)
Q Consensus 52 ~~~C~~C~~~f~~~ 65 (106)
|..|..||..|..-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 56899999999764
No 215
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=25.27 E-value=35 Score=14.56 Aligned_cols=12 Identities=42% Similarity=1.090 Sum_probs=9.3
Q ss_pred Cceecccccccc
Q psy12021 51 GMFPCEVCGKKY 62 (106)
Q Consensus 51 ~~~~C~~C~~~f 62 (106)
+-|.|+.||...
T Consensus 6 ~~ykC~~Cgniv 17 (34)
T TIGR00319 6 QVYKCEVCGNIV 17 (34)
T ss_pred cEEEcCCCCcEE
Confidence 458999998765
No 216
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=25.26 E-value=35 Score=22.07 Aligned_cols=16 Identities=13% Similarity=0.555 Sum_probs=13.0
Q ss_pred CCCceecccccccccC
Q psy12021 49 NSGMFPCEVCGKKYKY 64 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~ 64 (106)
..++..|.+||..|..
T Consensus 178 EGkpqRCpECGqVFKL 193 (268)
T PTZ00043 178 EGFLYRCGECDQIFML 193 (268)
T ss_pred CCCCccCCCCCcEEEE
Confidence 4567899999999865
No 217
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=25.12 E-value=30 Score=15.44 Aligned_cols=10 Identities=30% Similarity=1.168 Sum_probs=8.2
Q ss_pred eecccccccc
Q psy12021 53 FPCEVCGKKY 62 (106)
Q Consensus 53 ~~C~~C~~~f 62 (106)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 7898898765
No 218
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=24.99 E-value=33 Score=15.43 Aligned_cols=10 Identities=40% Similarity=0.939 Sum_probs=4.6
Q ss_pred cccCcccccc
Q psy12021 82 YQCPQCPYRA 91 (106)
Q Consensus 82 ~~C~~C~k~f 91 (106)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 4454454433
No 219
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=24.81 E-value=1e+02 Score=19.95 Aligned_cols=38 Identities=24% Similarity=0.458 Sum_probs=23.1
Q ss_pred ccCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCcccc
Q psy12021 47 QYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPY 89 (106)
Q Consensus 47 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k 89 (106)
|..-....|..|++.|.....+. ..... .. -.|+.|+.
T Consensus 114 HG~~~~~~C~~C~~~~~~~~~~~---~~~~~-~~-p~Cp~Cgg 151 (244)
T PRK14138 114 HGNVEEYYCVRCGKRYTVEDVIE---KLEKS-DV-PRCDDCSG 151 (244)
T ss_pred cCCcCeeEECCCCCcccHHHHHH---HHhcC-CC-CCCCCCCC
Confidence 44455578999999887654433 11112 23 57999975
No 220
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=24.18 E-value=1.2e+02 Score=19.01 Aligned_cols=40 Identities=18% Similarity=0.233 Sum_probs=23.1
Q ss_pred ccCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 47 QYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 47 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
|..-....|..|+..+.....+. ........ ..|+.||..
T Consensus 90 HG~~~~~~C~~C~~~~~~~~~~~---~~~~~~~~-p~C~~Cgg~ 129 (206)
T cd01410 90 HGNMFIEVCKSCGPEYVRDDVVE---TRGDKETG-RRCHACGGI 129 (206)
T ss_pred cCCcCcccCCCCCCccchHHHHH---HhhcCCCC-CcCCCCcCc
Confidence 44455578999998776544332 11122222 579999854
No 221
>cd00974 DSRD Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small, single-domain homodimeric protein; each subunit contains an iron atom bound to four cysteinyl sulfur atoms, Fe(S-Cys)4, in a distorted tetrahedral coordination. Its metal center is similar to that found in rubredoxin type proteins. Desulforedoxin is regarded as a potential redox partner for rubredoxin. Desulfoferrodoxin forms a homodimeric protein, with each protomer comprised of two domains, the N-terminal DSRD domain and C-terminal superoxide reductase-like (SORL) domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=24.07 E-value=37 Score=14.47 Aligned_cols=12 Identities=33% Similarity=1.088 Sum_probs=8.9
Q ss_pred Cceecccccccc
Q psy12021 51 GMFPCEVCGKKY 62 (106)
Q Consensus 51 ~~~~C~~C~~~f 62 (106)
+-|.|+.||...
T Consensus 3 ~~ykC~~CGniv 14 (34)
T cd00974 3 EVYKCEICGNIV 14 (34)
T ss_pred cEEEcCCCCcEE
Confidence 348898888765
No 222
>KOG3507|consensus
Probab=23.94 E-value=43 Score=16.71 Aligned_cols=31 Identities=26% Similarity=0.697 Sum_probs=18.8
Q ss_pred CCCceecccccccccCHHHHHHHHHHHcCCCCCcccCcccccc
Q psy12021 49 NSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRA 91 (106)
Q Consensus 49 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f 91 (106)
....|.|..|+..-. | ..... +.|.+||...
T Consensus 17 ~~miYiCgdC~~en~----l-------k~~D~-irCReCG~RI 47 (62)
T KOG3507|consen 17 ATMIYICGDCGQENT----L-------KRGDV-IRCRECGYRI 47 (62)
T ss_pred ccEEEEecccccccc----c-------cCCCc-EehhhcchHH
Confidence 344588999974421 1 11244 8999998653
No 223
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=23.46 E-value=96 Score=14.84 Aligned_cols=32 Identities=25% Similarity=0.431 Sum_probs=19.2
Q ss_pred ecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 54 PCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 54 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
.|.-|+....... +. .+..+.+. ..|+.||+.
T Consensus 24 ~C~gC~~~l~~~~-~~---~i~~~~~i-~~Cp~CgRi 55 (56)
T PF02591_consen 24 TCSGCHMELPPQE-LN---EIRKGDEI-VFCPNCGRI 55 (56)
T ss_pred ccCCCCEEcCHHH-HH---HHHcCCCe-EECcCCCcc
Confidence 6888876654332 22 23334455 889999863
No 224
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=22.98 E-value=42 Score=15.16 Aligned_cols=9 Identities=33% Similarity=1.176 Sum_probs=4.8
Q ss_pred cccCccccc
Q psy12021 82 YQCPQCPYR 90 (106)
Q Consensus 82 ~~C~~C~k~ 90 (106)
|.|+.||..
T Consensus 1 m~Cp~Cg~~ 9 (43)
T PF08271_consen 1 MKCPNCGSK 9 (43)
T ss_dssp ESBTTTSSS
T ss_pred CCCcCCcCC
Confidence 356666543
No 225
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=22.98 E-value=65 Score=19.79 Aligned_cols=18 Identities=17% Similarity=0.427 Sum_probs=14.0
Q ss_pred CcccCccccccCChHHHH
Q psy12021 81 KYQCPQCPYRASQKATLK 98 (106)
Q Consensus 81 ~~~C~~C~k~f~~~~~l~ 98 (106)
...|..||+.|.....+.
T Consensus 114 ~~~C~~Cg~~f~~~k~i~ 131 (181)
T PRK08222 114 LQRCSRCERPFAPQKTVA 131 (181)
T ss_pred cCcCcccCCccCcHhHHH
Confidence 388999999998665543
No 226
>KOG1842|consensus
Probab=22.87 E-value=52 Score=23.57 Aligned_cols=26 Identities=27% Similarity=0.701 Sum_probs=22.4
Q ss_pred CCCcccCccccccCChHHHHHHHHhhc
Q psy12021 79 EPKYQCPQCPYRASQKATLKTHMAIKH 105 (106)
Q Consensus 79 ~~~~~C~~C~k~f~~~~~l~~H~~~hh 105 (106)
+- |.|+.|.+-|..-..|..|.-.-|
T Consensus 14 eg-flCPiC~~dl~~~~~L~~H~d~eH 39 (505)
T KOG1842|consen 14 EG-FLCPICLLDLPNLSALNDHLDVEH 39 (505)
T ss_pred hc-ccCchHhhhhhhHHHHHHHHhhhc
Confidence 44 899999999999999999987655
No 227
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=22.76 E-value=1e+02 Score=19.52 Aligned_cols=39 Identities=23% Similarity=0.315 Sum_probs=22.8
Q ss_pred eccCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 46 RQYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 46 ~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
-|..-....|..|++.|..... . .. ..... ..|+.|+..
T Consensus 107 lHG~l~~~~C~~C~~~~~~~~~-~---~~-~~~~~-p~C~~Cgg~ 145 (222)
T cd01413 107 LHGTLQTAYCVNCGSKYDLEEV-K---YA-KKHEV-PRCPKCGGI 145 (222)
T ss_pred ccCCcCcceECCCCCCcchhHH-H---Hh-ccCCC-CcCCCCCCc
Confidence 3444455789999988765543 1 11 11233 579999753
No 228
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=21.56 E-value=41 Score=20.13 Aligned_cols=12 Identities=25% Similarity=0.623 Sum_probs=8.6
Q ss_pred cccCccccccCC
Q psy12021 82 YQCPQCPYRASQ 93 (106)
Q Consensus 82 ~~C~~C~k~f~~ 93 (106)
-.|..||+.|++
T Consensus 29 ReC~~C~~RFTT 40 (147)
T TIGR00244 29 RECLECHERFTT 40 (147)
T ss_pred ccCCccCCccce
Confidence 577777777765
No 229
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=21.52 E-value=39 Score=14.20 Aligned_cols=11 Identities=45% Similarity=1.216 Sum_probs=5.2
Q ss_pred cccCccccccC
Q psy12021 82 YQCPQCPYRAS 92 (106)
Q Consensus 82 ~~C~~C~k~f~ 92 (106)
|.|+.|+..+-
T Consensus 14 Y~Cp~C~~~~C 24 (30)
T PF04438_consen 14 YRCPRCGARYC 24 (30)
T ss_dssp EE-TTT--EES
T ss_pred EECCCcCCcee
Confidence 77777776553
No 230
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=21.27 E-value=69 Score=19.33 Aligned_cols=39 Identities=26% Similarity=0.444 Sum_probs=23.8
Q ss_pred ccCCCceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 47 QYNSGMFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 47 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
|..-....|..|++.+....... ..... .. ..|+.|+..
T Consensus 100 HG~l~~~~C~~C~~~~~~~~~~~---~~~~~-~~-~~C~~C~~~ 138 (178)
T PF02146_consen 100 HGSLFRLRCSKCGKEYDREDIVD---SIDEE-EP-PRCPKCGGL 138 (178)
T ss_dssp TEEEEEEEETTTSBEEEGHHHHH---HHHTT-SS-CBCTTTSCB
T ss_pred HhhhceeeecCCCccccchhhcc---ccccc-cc-ccccccCcc
Confidence 33344578999999887654322 12222 33 589999874
No 231
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=21.25 E-value=79 Score=21.11 Aligned_cols=32 Identities=25% Similarity=0.499 Sum_probs=19.3
Q ss_pred eecccccccccCHHHHHHHHHHHcCCCCCcccCccccccCCh
Q psy12021 53 FPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYRASQK 94 (106)
Q Consensus 53 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~f~~~ 94 (106)
..|+.|+.....+. |. ..- +.|+.|+.-|...
T Consensus 27 ~~c~~c~~~~~~~~-l~--------~~~-~vc~~c~~h~rl~ 58 (285)
T TIGR00515 27 TKCPKCGQVLYTKE-LE--------RNL-EVCPKCDHHMRMD 58 (285)
T ss_pred eECCCCcchhhHHH-HH--------hhC-CCCCCCCCcCcCC
Confidence 47888887653322 11 123 6888888766543
No 232
>PF14369 zf-RING_3: zinc-finger
Probab=21.19 E-value=45 Score=14.56 Aligned_cols=10 Identities=30% Similarity=0.750 Sum_probs=7.4
Q ss_pred ccCccccccC
Q psy12021 83 QCPQCPYRAS 92 (106)
Q Consensus 83 ~C~~C~k~f~ 92 (106)
.|+.|+..|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 5888887774
No 233
>KOG4727|consensus
Probab=20.95 E-value=63 Score=19.97 Aligned_cols=23 Identities=26% Similarity=0.459 Sum_probs=19.5
Q ss_pred CceecccccccccCHHHHHHHHH
Q psy12021 51 GMFPCEVCGKKYKYKWGLSRHKR 73 (106)
Q Consensus 51 ~~~~C~~C~~~f~~~~~l~~h~~ 73 (106)
.-|-|++|.-++...-++..|+.
T Consensus 74 ~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 74 GGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred CceeeeecceeehhhHHHHHHhc
Confidence 34889999999999888888865
No 234
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=20.59 E-value=39 Score=18.47 Aligned_cols=12 Identities=25% Similarity=0.866 Sum_probs=7.3
Q ss_pred ceeccccccccc
Q psy12021 52 MFPCEVCGKKYK 63 (106)
Q Consensus 52 ~~~C~~C~~~f~ 63 (106)
.+.|..|+..+.
T Consensus 16 ~~~C~~C~~~~~ 27 (104)
T TIGR01384 16 VYVCPSCGYEKE 27 (104)
T ss_pred eEECcCCCCccc
Confidence 466777775543
No 235
>PRK11823 DNA repair protein RadA; Provisional
Probab=20.47 E-value=70 Score=22.69 Aligned_cols=24 Identities=25% Similarity=0.678 Sum_probs=15.5
Q ss_pred ceecccccccccCHHHHHHHHHHHcCCCCCcccCccccc
Q psy12021 52 MFPCEVCGKKYKYKWGLSRHKRDECGQEPKYQCPQCPYR 90 (106)
Q Consensus 52 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~C~~C~k~ 90 (106)
.|.|..||..+. +.-.+|+.|+.+
T Consensus 7 ~y~C~~Cg~~~~---------------~~~g~Cp~C~~w 30 (446)
T PRK11823 7 AYVCQECGAESP---------------KWLGRCPECGAW 30 (446)
T ss_pred eEECCcCCCCCc---------------ccCeeCcCCCCc
Confidence 488999985432 222578888754
No 236
>PF12773 DZR: Double zinc ribbon
Probab=20.05 E-value=63 Score=14.87 Aligned_cols=10 Identities=30% Similarity=0.786 Sum_probs=6.8
Q ss_pred cccCcccccc
Q psy12021 82 YQCPQCPYRA 91 (106)
Q Consensus 82 ~~C~~C~k~f 91 (106)
..|+.|+...
T Consensus 30 ~~C~~Cg~~~ 39 (50)
T PF12773_consen 30 KICPNCGAEN 39 (50)
T ss_pred CCCcCCcCCC
Confidence 6777777653
Done!