Query psy12015
Match_columns 96
No_of_seqs 110 out of 1272
Neff 10.7
Searched_HMMs 46136
Date Fri Aug 16 16:29:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12015.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12015hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.8 2.2E-19 4.8E-24 106.9 3.3 72 18-94 167-238 (279)
2 KOG2462|consensus 99.8 1.5E-19 3.2E-24 107.6 2.2 76 15-93 190-265 (279)
3 KOG3623|consensus 99.5 1.1E-14 2.3E-19 96.5 0.9 72 18-92 900-971 (1007)
4 KOG3576|consensus 99.4 6E-14 1.3E-18 81.0 -0.6 75 18-95 123-197 (267)
5 KOG1074|consensus 99.2 3E-12 6.5E-17 86.0 0.8 78 16-95 609-692 (958)
6 KOG3623|consensus 99.2 5.4E-12 1.2E-16 84.1 1.0 74 16-92 244-330 (1007)
7 KOG3576|consensus 99.1 7.2E-11 1.6E-15 68.5 3.2 77 16-95 149-236 (267)
8 PHA02768 hypothetical protein; 99.0 9.8E-11 2.1E-15 54.6 1.6 43 42-87 5-47 (55)
9 KOG1074|consensus 99.0 5.9E-11 1.3E-15 80.0 0.5 53 42-95 353-405 (958)
10 PHA00733 hypothetical protein 99.0 5.8E-10 1.3E-14 61.2 4.1 55 38-95 69-123 (128)
11 PF13465 zf-H2C2_2: Zinc-finge 98.7 6.1E-09 1.3E-13 41.8 1.7 18 35-52 7-24 (26)
12 PF13465 zf-H2C2_2: Zinc-finge 98.7 5.8E-09 1.3E-13 41.9 1.1 26 57-83 1-26 (26)
13 KOG3608|consensus 98.5 1.1E-08 2.4E-13 63.8 -0.6 74 18-94 185-260 (467)
14 KOG3608|consensus 98.5 1E-07 2.3E-12 59.6 2.4 72 18-92 269-342 (467)
15 PHA00732 hypothetical protein 98.4 1.4E-07 3.1E-12 47.6 2.1 44 42-92 1-45 (79)
16 PHA00616 hypothetical protein 98.3 3.4E-07 7.4E-12 40.9 0.9 34 42-76 1-34 (44)
17 PF00096 zf-C2H2: Zinc finger, 98.2 4.9E-07 1.1E-11 35.0 1.2 22 72-93 1-22 (23)
18 PF13894 zf-C2H2_4: C2H2-type 98.2 1E-06 2.2E-11 34.2 1.6 24 72-95 1-24 (24)
19 PHA00616 hypothetical protein 98.1 5.4E-07 1.2E-11 40.2 0.2 25 71-95 1-25 (44)
20 PF13912 zf-C2H2_6: C2H2-type 98.0 2.4E-06 5.2E-11 34.3 1.2 24 72-95 2-25 (27)
21 KOG3993|consensus 98.0 2.1E-06 4.7E-11 54.9 1.4 54 41-95 294-380 (500)
22 PHA02768 hypothetical protein; 98.0 2.6E-06 5.6E-11 39.9 0.9 42 14-59 7-48 (55)
23 PF05605 zf-Di19: Drought indu 97.9 2.2E-05 4.7E-10 36.8 3.3 51 42-95 2-53 (54)
24 PLN03086 PRLI-interacting fact 97.9 2.2E-05 4.7E-10 52.5 4.0 49 26-81 466-514 (567)
25 PHA00733 hypothetical protein 97.9 7.4E-06 1.6E-10 45.1 1.6 56 37-93 35-95 (128)
26 PLN03086 PRLI-interacting fact 97.8 3.3E-05 7.1E-10 51.7 4.2 70 18-93 483-562 (567)
27 PF13912 zf-C2H2_6: C2H2-type 97.7 2E-05 4.3E-10 31.5 1.5 26 42-67 1-26 (27)
28 PF00096 zf-C2H2: Zinc finger, 97.7 2.4E-05 5.3E-10 30.0 1.6 23 43-65 1-23 (23)
29 smart00355 ZnF_C2H2 zinc finge 97.5 7.9E-05 1.7E-09 29.0 1.4 23 72-94 1-23 (26)
30 PF09237 GAGA: GAGA factor; I 97.4 0.00011 2.3E-09 33.7 1.8 31 39-69 21-51 (54)
31 PF12756 zf-C2H2_2: C2H2 type 97.4 0.00014 3E-09 37.8 2.0 69 18-94 5-73 (100)
32 PRK04860 hypothetical protein; 97.3 0.00031 6.8E-09 40.1 3.1 39 41-84 118-156 (160)
33 PF13894 zf-C2H2_4: C2H2-type 97.2 0.00036 7.9E-09 26.6 1.8 23 43-65 1-23 (24)
34 PF12874 zf-met: Zinc-finger o 97.2 0.00022 4.8E-09 27.8 1.1 22 72-93 1-22 (25)
35 PF09237 GAGA: GAGA factor; I 97.1 0.00052 1.1E-08 31.5 2.3 36 61-96 14-49 (54)
36 COG5189 SFP1 Putative transcri 97.1 0.00026 5.7E-09 44.3 1.6 55 39-94 346-421 (423)
37 KOG3993|consensus 96.9 0.00017 3.7E-09 46.6 -0.6 52 42-94 267-318 (500)
38 PF13909 zf-H2C2_5: C2H2-type 96.8 0.00065 1.4E-08 26.2 1.0 23 72-95 1-23 (24)
39 smart00355 ZnF_C2H2 zinc finge 96.7 0.0012 2.5E-08 25.4 1.5 24 43-66 1-24 (26)
40 PF12171 zf-C2H2_jaz: Zinc-fin 96.7 0.00057 1.2E-08 27.3 0.4 22 72-93 2-23 (27)
41 PF12874 zf-met: Zinc-finger o 96.4 0.0026 5.6E-08 24.6 1.5 23 43-65 1-23 (25)
42 PF13913 zf-C2HC_2: zinc-finge 96.1 0.0049 1.1E-07 24.2 1.5 20 72-92 3-22 (25)
43 PHA00732 hypothetical protein 95.9 0.01 2.2E-07 30.0 2.5 45 15-67 4-49 (79)
44 smart00451 ZnF_U1 U1-like zinc 95.2 0.021 4.6E-07 23.8 1.9 22 72-93 4-25 (35)
45 cd00350 rubredoxin_like Rubred 93.5 0.064 1.4E-06 22.4 1.5 24 43-79 2-25 (33)
46 COG5189 SFP1 Putative transcri 92.9 0.043 9.4E-07 34.8 0.7 23 40-62 396-418 (423)
47 PRK04860 hypothetical protein; 92.8 0.051 1.1E-06 31.2 0.9 31 24-56 127-157 (160)
48 COG5048 FOG: Zn-finger [Genera 92.8 0.043 9.2E-07 35.2 0.6 52 42-94 289-346 (467)
49 PF05605 zf-Di19: Drought indu 92.5 0.12 2.5E-06 24.0 1.7 23 72-95 3-25 (54)
50 KOG1146|consensus 92.4 0.087 1.9E-06 39.1 1.7 70 22-93 446-540 (1406)
51 TIGR02098 MJ0042_CXXC MJ0042 f 90.7 0.2 4.3E-06 21.3 1.4 34 43-82 3-36 (38)
52 COG2888 Predicted Zn-ribbon RN 90.5 0.36 7.7E-06 23.0 2.2 32 42-79 27-58 (61)
53 COG1592 Rubrerythrin [Energy p 90.4 0.21 4.4E-06 28.9 1.6 24 42-79 134-157 (166)
54 PF09986 DUF2225: Uncharacteri 90.3 0.15 3.3E-06 30.6 1.1 45 40-84 3-61 (214)
55 cd00729 rubredoxin_SM Rubredox 90.2 0.28 6E-06 20.6 1.6 25 42-79 2-26 (34)
56 PF13717 zinc_ribbon_4: zinc-r 90.2 0.29 6.2E-06 20.8 1.6 33 43-81 3-35 (36)
57 COG4049 Uncharacterized protei 90.0 0.12 2.5E-06 24.3 0.4 33 35-67 10-42 (65)
58 PF13719 zinc_ribbon_5: zinc-r 90.0 0.52 1.1E-05 20.1 2.4 34 43-82 3-36 (37)
59 PRK00398 rpoP DNA-directed RNA 88.5 0.41 8.8E-06 21.4 1.6 30 41-81 2-31 (46)
60 PF12756 zf-C2H2_2: C2H2 type 88.4 0.42 9.2E-06 24.4 1.9 25 42-66 50-74 (100)
61 KOG2186|consensus 88.0 0.53 1.1E-05 29.1 2.2 38 43-83 4-41 (276)
62 smart00531 TFIIE Transcription 87.4 0.95 2.1E-05 25.5 3.0 39 39-82 96-134 (147)
63 COG5048 FOG: Zn-finger [Genera 87.2 0.42 9.1E-06 30.7 1.6 59 14-75 291-355 (467)
64 COG1997 RPL43A Ribosomal prote 87.0 0.31 6.8E-06 25.0 0.8 32 40-82 33-64 (89)
65 TIGR02605 CxxC_CxxC_SSSS putat 86.3 0.36 7.8E-06 22.0 0.7 30 42-79 5-34 (52)
66 smart00834 CxxC_CXXC_SSSS Puta 86.3 0.42 9E-06 20.5 0.9 31 42-80 5-35 (41)
67 smart00659 RPOLCX RNA polymera 86.1 1.2 2.7E-05 19.8 2.4 27 42-80 2-28 (44)
68 PF09723 Zn-ribbon_8: Zinc rib 86.0 0.35 7.5E-06 21.3 0.6 30 42-79 5-34 (42)
69 TIGR00373 conserved hypothetic 85.8 0.69 1.5E-05 26.5 1.9 36 38-83 105-140 (158)
70 KOG2893|consensus 85.7 0.28 6E-06 30.1 0.3 42 40-87 9-50 (341)
71 PRK14890 putative Zn-ribbon RN 85.1 1.2 2.5E-05 21.3 2.1 32 42-79 25-56 (59)
72 PRK06266 transcription initiat 85.0 0.92 2E-05 26.5 2.2 36 39-84 114-149 (178)
73 PF04959 ARS2: Arsenite-resist 84.8 0.55 1.2E-05 28.3 1.2 26 69-95 76-101 (214)
74 PF02892 zf-BED: BED zinc fing 84.5 1.2 2.5E-05 19.6 2.0 22 72-93 17-42 (45)
75 smart00734 ZnF_Rad18 Rad18-lik 84.0 1.1 2.3E-05 17.6 1.5 19 73-92 3-21 (26)
76 PHA00626 hypothetical protein 83.0 0.77 1.7E-05 21.6 1.0 12 42-53 23-34 (59)
77 PF12013 DUF3505: Protein of u 82.7 1.1 2.3E-05 23.9 1.7 25 72-96 81-109 (109)
78 PRK00464 nrdR transcriptional 81.6 0.55 1.2E-05 26.9 0.3 13 43-55 29-41 (154)
79 smart00614 ZnF_BED BED zinc fi 81.1 1.5 3.3E-05 19.9 1.7 21 72-92 19-44 (50)
80 PF14353 CpXC: CpXC protein 80.4 0.94 2E-05 24.8 1.0 13 72-84 39-51 (128)
81 PF09538 FYDLN_acid: Protein o 79.6 1.7 3.8E-05 23.3 1.8 30 43-84 10-39 (108)
82 KOG2231|consensus 77.3 3.2 7E-05 29.3 2.9 48 44-96 184-237 (669)
83 cd00730 rubredoxin Rubredoxin; 76.7 1.2 2.7E-05 20.4 0.6 36 43-79 2-42 (50)
84 PF00301 Rubredoxin: Rubredoxi 76.6 2.7 5.9E-05 19.0 1.7 36 43-79 2-42 (47)
85 PRK03824 hypA hydrogenase nick 76.2 1.6 3.5E-05 24.3 1.1 15 41-55 69-83 (135)
86 KOG1146|consensus 74.3 1.1 2.4E-05 33.8 0.2 55 39-94 1281-1351(1406)
87 PF07754 DUF1610: Domain of un 73.9 2.3 5E-05 16.4 1.0 8 72-79 17-24 (24)
88 PF04959 ARS2: Arsenite-resist 73.7 2.7 5.8E-05 25.5 1.7 29 39-67 74-102 (214)
89 COG3091 SprT Zn-dependent meta 72.9 2.7 5.8E-05 24.1 1.4 36 40-81 115-150 (156)
90 PF10571 UPF0547: Uncharacteri 72.5 2.5 5.3E-05 16.6 0.9 10 73-82 16-25 (26)
91 COG5236 Uncharacterized conser 70.7 4.3 9.3E-05 26.6 2.1 48 44-96 222-276 (493)
92 PF05443 ROS_MUCR: ROS/MUCR tr 69.2 2.9 6.2E-05 23.4 1.1 21 72-95 73-93 (132)
93 COG1996 RPC10 DNA-directed RNA 68.6 5.2 0.00011 18.3 1.6 30 40-80 4-33 (49)
94 PF08790 zf-LYAR: LYAR-type C2 66.9 2.7 5.9E-05 16.9 0.5 19 43-62 1-19 (28)
95 PF07975 C1_4: TFIIH C1-like d 66.7 2.2 4.8E-05 19.7 0.3 26 40-65 19-44 (51)
96 KOG3408|consensus 64.0 4.1 8.9E-05 22.4 1.0 22 72-93 58-79 (129)
97 TIGR00100 hypA hydrogenase nic 63.2 4.9 0.00011 21.8 1.2 27 41-80 69-95 (115)
98 KOG4167|consensus 62.9 0.95 2.1E-05 32.2 -1.9 23 72-94 793-815 (907)
99 PRK12380 hydrogenase nickel in 61.4 5.7 0.00012 21.5 1.3 26 41-79 69-94 (113)
100 TIGR02300 FYDLN_acid conserved 60.6 8.1 0.00017 21.5 1.7 30 43-84 10-39 (129)
101 smart00154 ZnF_AN1 AN1-like Zi 60.3 6.6 0.00014 16.9 1.2 13 72-84 13-25 (39)
102 COG1655 Uncharacterized protei 60.0 2.5 5.3E-05 26.0 -0.3 28 40-67 17-44 (267)
103 PF09963 DUF2197: Uncharacteri 59.6 8.5 0.00018 18.2 1.5 38 43-80 3-40 (56)
104 PF03604 DNA_RNApol_7kD: DNA d 58.9 6.4 0.00014 16.2 0.9 9 72-80 18-26 (32)
105 cd00924 Cyt_c_Oxidase_Vb Cytoc 58.3 3.9 8.5E-05 21.6 0.3 10 72-81 80-89 (97)
106 PF09845 DUF2072: Zn-ribbon co 56.9 8.7 0.00019 21.5 1.5 15 42-56 1-15 (131)
107 PF07295 DUF1451: Protein of u 56.8 8.2 0.00018 22.0 1.4 35 35-80 101-139 (146)
108 KOG2636|consensus 56.7 9.5 0.00021 25.8 1.9 29 63-92 394-423 (497)
109 PF10537 WAC_Acf1_DNA_bd: ATP- 55.9 23 0.0005 18.9 2.9 38 41-80 2-39 (102)
110 COG3364 Zn-ribbon containing p 55.6 9.3 0.0002 20.4 1.4 15 41-55 1-15 (112)
111 PRK09678 DNA-binding transcrip 54.8 6.9 0.00015 19.5 0.8 17 41-57 26-44 (72)
112 KOG2593|consensus 54.2 9.2 0.0002 25.7 1.5 40 38-81 124-163 (436)
113 KOG1842|consensus 53.6 5.5 0.00012 26.9 0.5 24 72-95 16-39 (505)
114 PF01927 Mut7-C: Mut7-C RNAse 53.3 13 0.00029 20.9 1.9 48 42-90 91-143 (147)
115 PRK05452 anaerobic nitric oxid 52.7 8.7 0.00019 26.1 1.3 41 39-80 422-467 (479)
116 PF10013 DUF2256: Uncharacteri 52.5 10 0.00022 16.8 1.1 11 45-55 11-21 (42)
117 TIGR01206 lysW lysine biosynth 52.0 11 0.00024 17.6 1.2 30 43-81 3-32 (54)
118 PRK04351 hypothetical protein; 52.0 11 0.00023 21.6 1.4 33 42-83 112-144 (149)
119 PF01428 zf-AN1: AN1-like Zinc 50.2 7 0.00015 17.1 0.4 12 72-83 14-25 (43)
120 PF01363 FYVE: FYVE zinc finge 49.5 11 0.00023 18.1 1.0 28 43-83 10-37 (69)
121 COG1773 Rubredoxin [Energy pro 49.4 8.4 0.00018 18.1 0.6 11 72-82 4-14 (55)
122 PRK00564 hypA hydrogenase nick 49.1 10 0.00022 20.6 1.0 15 40-54 69-83 (117)
123 KOG2785|consensus 48.7 23 0.0005 23.5 2.6 52 42-93 166-242 (390)
124 KOG2893|consensus 47.7 10 0.00022 23.6 0.9 26 69-96 10-35 (341)
125 TIGR00622 ssl1 transcription f 47.5 16 0.00036 19.8 1.6 22 72-93 82-103 (112)
126 PF04780 DUF629: Protein of un 46.6 16 0.00035 24.9 1.8 28 67-95 54-81 (466)
127 PF13451 zf-trcl: Probable zin 46.5 12 0.00025 17.2 0.8 18 40-57 2-19 (49)
128 COG0068 HypF Hydrogenase matur 46.3 7.7 0.00017 27.8 0.3 56 15-80 126-182 (750)
129 PF04810 zf-Sec23_Sec24: Sec23 46.2 6.3 0.00014 17.0 -0.1 32 42-80 2-33 (40)
130 PRK00762 hypA hydrogenase nick 46.1 13 0.00028 20.4 1.1 33 40-79 68-100 (124)
131 PF04423 Rad50_zn_hook: Rad50 45.7 8 0.00017 17.7 0.2 13 72-84 21-33 (54)
132 PF03811 Zn_Tnp_IS1: InsA N-te 45.3 17 0.00037 15.4 1.2 19 58-77 17-35 (36)
133 PF10263 SprT-like: SprT-like 44.0 11 0.00024 21.1 0.7 32 42-82 123-154 (157)
134 PF02176 zf-TRAF: TRAF-type zi 43.8 27 0.00058 16.0 1.9 41 40-82 7-53 (60)
135 PF02891 zf-MIZ: MIZ/SP-RING z 43.8 11 0.00024 17.1 0.5 10 69-79 40-49 (50)
136 PF06397 Desulfoferrod_N: Desu 43.2 11 0.00024 16.1 0.4 10 72-81 7-16 (36)
137 PLN02294 cytochrome c oxidase 43.1 12 0.00027 21.9 0.8 27 26-55 128-154 (174)
138 PF01155 HypA: Hydrogenase exp 41.9 11 0.00025 20.2 0.5 27 41-80 69-95 (113)
139 cd00065 FYVE FYVE domain; Zinc 41.2 26 0.00056 15.9 1.6 9 44-52 20-28 (57)
140 PRK03681 hypA hydrogenase nick 40.6 15 0.00033 19.9 0.8 28 41-80 69-96 (114)
141 PF07282 OrfB_Zn_ribbon: Putat 39.7 26 0.00057 16.7 1.6 14 69-83 45-58 (69)
142 smart00064 FYVE Protein presen 39.7 23 0.0005 16.8 1.3 10 44-53 12-21 (68)
143 PF11789 zf-Nse: Zinc-finger o 39.5 38 0.00083 15.9 2.0 34 39-77 21-54 (57)
144 COG4888 Uncharacterized Zn rib 39.3 11 0.00024 20.0 0.2 38 40-82 20-57 (104)
145 PF13878 zf-C2H2_3: zinc-finge 39.0 32 0.00068 14.9 1.6 23 43-65 14-38 (41)
146 COG3677 Transposase and inacti 38.8 17 0.00036 20.2 0.8 16 68-84 51-66 (129)
147 KOG2231|consensus 38.2 29 0.00064 24.9 2.0 75 20-96 122-207 (669)
148 smart00731 SprT SprT homologue 38.1 25 0.00053 19.7 1.5 32 42-81 112-143 (146)
149 COG1198 PriA Primosomal protei 37.5 31 0.00067 25.1 2.1 9 72-80 476-484 (730)
150 PF11931 DUF3449: Domain of un 37.4 11 0.00024 22.6 0.0 27 65-92 96-123 (196)
151 COG1327 Predicted transcriptio 36.8 13 0.00027 21.4 0.2 12 44-55 30-41 (156)
152 COG5188 PRP9 Splicing factor 3 35.8 26 0.00057 23.2 1.5 28 63-91 367-395 (470)
153 PRK00432 30S ribosomal protein 35.6 32 0.0007 15.7 1.4 9 72-80 38-46 (50)
154 PF13824 zf-Mss51: Zinc-finger 35.5 32 0.00069 16.2 1.4 11 40-50 12-22 (55)
155 PF08274 PhnA_Zn_Ribbon: PhnA 35.4 32 0.00069 14.0 1.2 8 72-79 20-27 (30)
156 PF02591 DUF164: Putative zinc 35.1 52 0.0011 15.1 2.6 32 44-80 24-55 (56)
157 PF12907 zf-met2: Zinc-binding 34.9 15 0.00033 16.0 0.2 22 72-93 2-26 (40)
158 COG4957 Predicted transcriptio 33.7 23 0.00049 20.0 0.8 25 43-70 77-101 (148)
159 cd00974 DSRD Desulforedoxin (D 32.1 26 0.00057 14.3 0.7 10 72-81 5-14 (34)
160 COG1779 C4-type Zn-finger prot 32.0 11 0.00023 22.7 -0.6 40 42-83 14-55 (201)
161 TIGR00319 desulf_FeS4 desulfof 31.9 27 0.00058 14.3 0.7 10 72-81 8-17 (34)
162 KOG0717|consensus 31.5 31 0.00066 23.7 1.3 22 72-93 293-314 (508)
163 PLN02748 tRNA dimethylallyltra 31.4 39 0.00084 23.2 1.8 24 69-93 417-441 (468)
164 KOG0402|consensus 30.8 20 0.00044 18.4 0.3 31 41-82 35-65 (92)
165 KOG2071|consensus 30.6 35 0.00075 24.1 1.5 23 72-94 419-441 (579)
166 KOG2482|consensus 30.1 33 0.00072 22.6 1.2 22 72-93 196-217 (423)
167 PF01215 COX5B: Cytochrome c o 29.7 27 0.00059 19.7 0.7 24 29-55 102-125 (136)
168 KOG4727|consensus 29.3 31 0.00067 20.4 0.9 21 72-92 76-96 (193)
169 PF13453 zf-TFIIB: Transcripti 29.3 54 0.0012 14.0 1.5 18 72-89 20-37 (41)
170 COG5216 Uncharacterized conser 29.2 26 0.00056 16.7 0.5 10 72-82 23-32 (67)
171 KOG1994|consensus 29.1 30 0.00064 21.4 0.9 21 41-61 238-258 (268)
172 PF08209 Sgf11: Sgf11 (transcr 28.8 27 0.00059 14.5 0.5 11 72-82 5-15 (33)
173 COG4391 Uncharacterized protei 28.6 40 0.00087 16.3 1.1 44 35-83 17-60 (62)
174 PRK11032 hypothetical protein; 28.5 42 0.00092 19.5 1.4 35 35-80 113-151 (160)
175 COG3357 Predicted transcriptio 28.0 25 0.00053 18.4 0.3 29 40-79 56-84 (97)
176 smart00440 ZnF_C2C2 C2C2 Zinc 27.8 41 0.00089 14.4 1.0 10 72-81 29-38 (40)
177 PF01286 XPA_N: XPA protein N- 27.7 28 0.00061 14.6 0.4 12 73-84 5-16 (34)
178 COG1656 Uncharacterized conser 27.3 79 0.0017 18.5 2.3 19 72-90 131-149 (165)
179 COG1571 Predicted DNA-binding 27.2 50 0.0011 22.4 1.7 29 44-84 352-380 (421)
180 PF11672 DUF3268: Protein of u 26.6 54 0.0012 17.5 1.5 9 42-50 2-10 (102)
181 TIGR03829 YokU_near_AblA uncha 26.3 48 0.001 17.3 1.2 19 69-87 33-51 (89)
182 KOG4173|consensus 26.1 24 0.00052 21.5 0.1 19 73-91 108-126 (253)
183 COG4306 Uncharacterized protei 26.0 33 0.00071 19.2 0.6 12 72-83 69-80 (160)
184 TIGR00244 transcriptional regu 25.9 34 0.00075 19.6 0.7 13 72-84 29-41 (147)
185 KOG2907|consensus 25.6 43 0.00092 18.3 1.0 40 42-83 74-114 (116)
186 COG1379 PHP family phosphoeste 25.5 31 0.00067 22.7 0.5 10 72-81 266-275 (403)
187 PF10083 DUF2321: Uncharacteri 25.3 22 0.00048 20.5 -0.1 13 72-84 69-81 (158)
188 COG4338 Uncharacterized protei 25.2 23 0.00051 16.2 -0.0 11 74-84 15-25 (54)
189 TIGR00686 phnA alkylphosphonat 24.2 62 0.0013 17.6 1.4 12 42-53 19-30 (109)
190 PF13240 zinc_ribbon_2: zinc-r 23.6 50 0.0011 12.3 0.8 6 74-79 16-21 (23)
191 PTZ00043 cytochrome c oxidase 23.3 39 0.00085 20.9 0.7 16 40-55 179-194 (268)
192 PF14447 Prok-RING_4: Prokaryo 23.2 52 0.0011 15.5 0.9 12 73-84 41-52 (55)
193 PRK14892 putative transcriptio 23.1 69 0.0015 17.0 1.5 35 41-83 20-54 (99)
194 PHA02998 RNA polymerase subuni 23.0 36 0.00077 20.3 0.4 39 42-84 143-184 (195)
195 COG1326 Uncharacterized archae 22.1 1.2E+02 0.0026 18.4 2.4 16 67-82 26-41 (201)
196 PF14369 zf-RING_3: zinc-finge 21.9 49 0.0011 13.8 0.7 32 42-83 2-33 (35)
197 PF05876 Terminase_GpA: Phage 21.7 46 0.001 23.3 0.8 41 43-84 201-242 (557)
198 KOG0978|consensus 21.7 38 0.00083 24.5 0.4 17 72-88 679-695 (698)
199 PRK10220 hypothetical protein; 21.4 88 0.0019 17.0 1.7 12 42-53 20-31 (111)
200 COG1675 TFA1 Transcription ini 21.3 77 0.0017 18.8 1.6 36 38-83 109-144 (176)
201 smart00661 RPOL9 RNA polymeras 21.3 56 0.0012 14.4 0.9 12 72-83 21-32 (52)
202 KOG0227|consensus 21.2 54 0.0012 19.8 0.9 16 72-87 54-69 (222)
203 COG0675 Transposase and inacti 21.2 64 0.0014 20.3 1.4 14 69-83 321-334 (364)
204 COG5112 UFD2 U1-like Zn-finger 21.0 46 0.00099 18.0 0.6 25 39-63 52-76 (126)
205 PRK12722 transcriptional activ 20.9 76 0.0016 19.0 1.5 29 42-79 134-162 (187)
206 KOG3507|consensus 20.3 1E+02 0.0022 14.8 1.5 29 40-80 18-46 (62)
207 COG0846 SIR2 NAD-dependent pro 20.2 96 0.0021 19.4 1.9 36 39-79 119-154 (250)
208 PLN03238 probable histone acet 20.1 1E+02 0.0022 19.9 2.0 21 72-92 49-69 (290)
No 1
>KOG2462|consensus
Probab=99.77 E-value=2.2e-19 Score=106.88 Aligned_cols=72 Identities=21% Similarity=0.472 Sum_probs=36.2
Q ss_pred cccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhHHHHHhhc
Q psy12015 18 LDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 18 ~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
+++.+.+...|+.|+ ++|+ .+++|..||+.|+..|-|..|+|+|+|++| |.|+.|+++|.++++|.-|+++|
T Consensus 167 C~K~YvSmpALkMHi--rTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKP-F~C~hC~kAFADRSNLRAHmQTH 238 (279)
T KOG2462|consen 167 CGKVYVSMPALKMHI--RTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKP-FSCPHCGKAFADRSNLRAHMQTH 238 (279)
T ss_pred CCceeeehHHHhhHh--hccC--CCcccccccccccchHHhhcccccccCCCC-ccCCcccchhcchHHHHHHHHhh
Confidence 444444444455554 4444 344555555555555555555555555444 55555555555555555555544
No 2
>KOG2462|consensus
Probab=99.77 E-value=1.5e-19 Score=107.61 Aligned_cols=76 Identities=18% Similarity=0.260 Sum_probs=71.5
Q ss_pred ccccccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhHHHHHhh
Q psy12015 15 NTKLDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 15 ~~~~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
+..+|+.|++.=-|+.|+ ++|+|||||.|..|++.|...++|..|+++|.+.++ |+|+.|+|.|...+-|++|...
T Consensus 190 C~iCGKaFSRPWLLQGHi--RTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~-~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 190 CGICGKAFSRPWLLQGHI--RTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKK-HQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cccccccccchHHhhccc--ccccCCCCccCCcccchhcchHHHHHHHHhhcCCcc-ccCcchhhHHHHHHHHHHhhhh
Confidence 345899999998899999 999999999999999999999999999999999998 9999999999999999999764
No 3
>KOG3623|consensus
Probab=99.46 E-value=1.1e-14 Score=96.53 Aligned_cols=72 Identities=26% Similarity=0.540 Sum_probs=69.2
Q ss_pred cccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhHHHHHh
Q psy12015 18 LDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHLTTHMA 92 (96)
Q Consensus 18 ~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r 92 (96)
+++.|...++|..|. --|+|.+||.|..|.+.|..+..|+.|.|.|.|++| |+|+.|+|.|.......+|+.
T Consensus 900 CDK~FqKqSSLaRHK--YEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKP-fQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 900 CDKAFQKQSSLARHK--YEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKP-FQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred HHHHHHhhHHHHHhh--hhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCc-chhhhhhhhcccccchHhhhc
Confidence 889999999999999 999999999999999999999999999999999999 999999999999999999875
No 4
>KOG3576|consensus
Probab=99.36 E-value=6e-14 Score=81.03 Aligned_cols=75 Identities=21% Similarity=0.408 Sum_probs=68.5
Q ss_pred cccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 18 LDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 18 ~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
+++.|....-|..|+ ..|...+.+.|..||+.|...-+|.+|.++|+|.+| |+|..|+++|.++..|..|.+--|
T Consensus 123 CgK~F~lQRmlnrh~--kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrp-ykc~~c~kaftqrcsleshl~kvh 197 (267)
T KOG3576|consen 123 CGKKFGLQRMLNRHL--KCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRP-YKCSLCEKAFTQRCSLESHLKKVH 197 (267)
T ss_pred hhhhhhHHHHHHHHh--hhccHHHHHHHhhccCcccchhhhhhhhccccCccc-cchhhhhHHHHhhccHHHHHHHHc
Confidence 888899888899999 889988999999999999999999999999999888 999999999999999998887543
No 5
>KOG1074|consensus
Probab=99.21 E-value=3e-12 Score=86.02 Aligned_cols=78 Identities=19% Similarity=0.358 Sum_probs=68.5
Q ss_pred cccccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcCCCC---ceeCC---CCCCCCCCchhHHH
Q psy12015 16 TKLDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEP---KYQCP---HCPHRSKHKAHLTT 89 (96)
Q Consensus 16 ~~~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~---~~~C~---~c~~~f~~~~~l~~ 89 (96)
.-|.+-.+..+.|+.|+ ++|+||+||+|..|++.|..+.+|..|+.+|...-+ .+.|+ +|.+.|.....+..
T Consensus 609 iiC~rVlSC~saLqmHy--rtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQ 686 (958)
T KOG1074|consen 609 IICLRVLSCPSALQMHY--RTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQ 686 (958)
T ss_pred eeeeecccchhhhhhhh--hcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccccc
Confidence 33667788999999999 999999999999999999999999999998876322 27798 89999999999999
Q ss_pred HHhhcC
Q psy12015 90 HMAIKH 95 (96)
Q Consensus 90 h~r~~h 95 (96)
|+|+|.
T Consensus 687 hIriH~ 692 (958)
T KOG1074|consen 687 HIRIHL 692 (958)
T ss_pred eEEeec
Confidence 999874
No 6
>KOG3623|consensus
Probab=99.18 E-value=5.4e-12 Score=84.05 Aligned_cols=74 Identities=22% Similarity=0.628 Sum_probs=64.7
Q ss_pred cccccccccchhhhhhhcccccc-------------ccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCC
Q psy12015 16 TKLDFGVIRNSSVDKSLNTNVLT-------------VHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSK 82 (96)
Q Consensus 16 ~~~~~~~~~~~~~~~h~~~~~~~-------------~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~ 82 (96)
.-+.-+|.++..|..|+ .+|. ..+.|+|..|++.|..+..|..|+|+|.|++| |+|+.|+|.|.
T Consensus 244 ~lCsytFAyRtQLErhm--~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKP-feCpnCkKRFS 320 (1007)
T KOG3623|consen 244 MLCSYTFAYRTQLERHM--QLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKP-FECPNCKKRFS 320 (1007)
T ss_pred hhhhhhhhhHHHHHHHH--HhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCC-cCCcccccccc
Confidence 33667889999999998 5555 24579999999999999999999999999999 99999999999
Q ss_pred CchhHHHHHh
Q psy12015 83 HKAHLTTHMA 92 (96)
Q Consensus 83 ~~~~l~~h~r 92 (96)
....+..|+-
T Consensus 321 HSGSySSHmS 330 (1007)
T KOG3623|consen 321 HSGSYSSHMS 330 (1007)
T ss_pred cCCccccccc
Confidence 9999888874
No 7
>KOG3576|consensus
Probab=99.10 E-value=7.2e-11 Score=68.50 Aligned_cols=77 Identities=23% Similarity=0.350 Sum_probs=66.7
Q ss_pred cccccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcC-----------CCCceeCCCCCCCCCCc
Q psy12015 16 TKLDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECG-----------QEPKYQCPHCPHRSKHK 84 (96)
Q Consensus 16 ~~~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~-----------~~~~~~C~~c~~~f~~~ 84 (96)
+.++++|.-..+|+.|. ++|+|.+||+|..|++.|.....|..|.+--.| .+- |.|..||..-...
T Consensus 149 t~cgkgfndtfdlkrh~--rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl-~vcedcg~t~~~~ 225 (267)
T KOG3576|consen 149 TFCGKGFNDTFDLKRHT--RTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKL-YVCEDCGYTSERP 225 (267)
T ss_pred hhccCcccchhhhhhhh--ccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhhe-eeecccCCCCCCh
Confidence 45889999999999999 999999999999999999999999999874333 234 8999999998888
Q ss_pred hhHHHHHhhcC
Q psy12015 85 AHLTTHMAIKH 95 (96)
Q Consensus 85 ~~l~~h~r~~h 95 (96)
..+..|...+|
T Consensus 226 e~~~~h~~~~h 236 (267)
T KOG3576|consen 226 EVYYLHLKLHH 236 (267)
T ss_pred hHHHHHHHhcC
Confidence 88888888766
No 8
>PHA02768 hypothetical protein; Provisional
Probab=99.04 E-value=9.8e-11 Score=54.64 Aligned_cols=43 Identities=14% Similarity=0.336 Sum_probs=38.3
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhH
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHL 87 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l 87 (96)
-|+|+.|++.|+..+.|..|++.|. ++ ++|..|++.|.+.+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~-~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TN-LKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--Cc-ccCCcccceeccccee
Confidence 3789999999999999999999988 46 9999999999887665
No 9
>KOG1074|consensus
Probab=99.02 E-value=5.9e-11 Score=80.01 Aligned_cols=53 Identities=28% Similarity=0.582 Sum_probs=48.8
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
+++|..|++.|.+.+.|..|.|.|+|++| |+|.+||..|.++.+|..|...|+
T Consensus 353 khkCr~CakvfgS~SaLqiHlRSHTGERP-fqCnvCG~~FSTkGNLKvH~~rH~ 405 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQIHLRSHTGERP-FQCNVCGNRFSTKGNLKVHFQRHR 405 (958)
T ss_pred cchhhhhHhhcCchhhhhhhhhccCCCCC-eeecccccccccccceeeeeeecc
Confidence 57799999999999999999999999999 999999999999999998887764
No 10
>PHA00733 hypothetical protein
Probab=99.01 E-value=5.8e-10 Score=61.19 Aligned_cols=55 Identities=18% Similarity=0.423 Sum_probs=49.0
Q ss_pred cccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 38 TVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 38 ~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
.+++||.|..|++.|.....|..|++.+ ..+ |.|..|++.|.....|.+|++..|
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~-~~C~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHS-KVCPVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHHhcC--CcC-ccCCCCCCccCCHHHHHHHHHHhc
Confidence 3478999999999999999999999875 246 999999999999999999998766
No 11
>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=98.75 E-value=6.1e-09 Score=41.81 Aligned_cols=18 Identities=28% Similarity=0.510 Sum_probs=8.8
Q ss_pred ccccccCeeecccccccc
Q psy12015 35 NVLTVHIDLKCDVCEKGY 52 (96)
Q Consensus 35 ~~~~~~~~~~c~~c~~~f 52 (96)
++|++++||.|+.|++.|
T Consensus 7 ~~H~~~k~~~C~~C~k~F 24 (26)
T PF13465_consen 7 RTHTGEKPYKCPYCGKSF 24 (26)
T ss_dssp HHHSSSSSEEESSSSEEE
T ss_pred hhcCCCCCCCCCCCcCee
Confidence 445555555555554444
No 12
>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=98.71 E-value=5.8e-09 Score=41.88 Aligned_cols=26 Identities=35% Similarity=0.828 Sum_probs=23.2
Q ss_pred hHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 57 GLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 57 ~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
+|..|++.|+|+++ |.|+.|++.|.+
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 47899999999999 999999998863
No 13
>KOG3608|consensus
Probab=98.53 E-value=1.1e-08 Score=63.83 Aligned_cols=74 Identities=18% Similarity=0.324 Sum_probs=60.7
Q ss_pred cccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcC--CCCceeCCCCCCCCCCchhHHHHHhhc
Q psy12015 18 LDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECG--QEPKYQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 18 ~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~--~~~~~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
+.+.+..++.|..|+ ++|++|+-..|..|++-|.....|-+|.+..+. ..+ |.|..|.|.|.+...|..|.+.|
T Consensus 185 Ct~~~~~k~~LreH~--r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~-fqC~~C~KrFaTeklL~~Hv~rH 260 (467)
T KOG3608|consen 185 CTKHMGNKYRLREHI--RTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNS-FQCAQCFKRFATEKLLKSHVVRH 260 (467)
T ss_pred hhhhhccHHHHHHHH--HhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCc-hHHHHHHHHHhHHHHHHHHHHHh
Confidence 566788899999999 999999999999999999999999999875333 334 88888888888877777776654
No 14
>KOG3608|consensus
Probab=98.46 E-value=1e-07 Score=59.63 Aligned_cols=72 Identities=21% Similarity=0.399 Sum_probs=39.1
Q ss_pred cccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcCCCCceeCCC--CCCCCCCchhHHHHHh
Q psy12015 18 LDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPH--CPHRSKHKAHLTTHMA 92 (96)
Q Consensus 18 ~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~--c~~~f~~~~~l~~h~r 92 (96)
++.+.+..++|..|+. ..|...+||+|+.|...+..+++|.+|...|.. .. |+|.. |...+.....+.+|.+
T Consensus 269 Cdmtc~~~ssL~~H~r-~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~-~~-y~C~h~~C~~s~r~~~q~~~H~~ 342 (467)
T KOG3608|consen 269 CDMTCSSASSLTTHIR-YRHSKDKPFKCDECDTRCVRESDLAKHVQVHSK-TV-YQCEHPDCHYSVRTYTQMRRHFL 342 (467)
T ss_pred cccCCCChHHHHHHHH-hhhccCCCccccchhhhhccHHHHHHHHHhccc-cc-eecCCCCCcHHHHHHHHHHHHHH
Confidence 4455556666666663 345556666666666666666666666655542 22 44443 4444444444444443
No 15
>PHA00732 hypothetical protein
Probab=98.44 E-value=1.4e-07 Score=47.62 Aligned_cols=44 Identities=23% Similarity=0.429 Sum_probs=29.0
Q ss_pred eeeccccccccccchhHHHHhhh-hcCCCCceeCCCCCCCCCCchhHHHHHh
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKF-ECGQEPKYQCPHCPHRSKHKAHLTTHMA 92 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~-~~~~~~~~~C~~c~~~f~~~~~l~~h~r 92 (96)
||.|..|++.|.....+..|++. |. + +.|+.|++.|. .+..|.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~-~~C~~CgKsF~---~l~~H~~ 45 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---L-TKCPVCNKSYR---RLNQHFY 45 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---C-CccCCCCCEeC---Chhhhhc
Confidence 46677777777777777777763 43 2 56777777776 3455554
No 16
>PHA00616 hypothetical protein
Probab=98.26 E-value=3.4e-07 Score=40.88 Aligned_cols=34 Identities=18% Similarity=0.131 Sum_probs=28.9
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPH 76 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~ 76 (96)
||.|..||..|....++..|++.++|.++ +.|+.
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 57899999999999999999999998877 77653
No 17
>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=98.25 E-value=4.9e-07 Score=35.01 Aligned_cols=22 Identities=36% Similarity=0.762 Sum_probs=17.5
Q ss_pred eeCCCCCCCCCCchhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
|.|+.|++.|.++..|.+|++.
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 5778888888888888888776
No 18
>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=98.20 E-value=1e-06 Score=34.19 Aligned_cols=24 Identities=38% Similarity=0.818 Sum_probs=18.8
Q ss_pred eeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
|.|+.|++.|.+...|..|++++|
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 678888888999888888888876
No 19
>PHA00616 hypothetical protein
Probab=98.14 E-value=5.4e-07 Score=40.24 Aligned_cols=25 Identities=28% Similarity=0.533 Sum_probs=23.6
Q ss_pred ceeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 71 KYQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 71 ~~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
||+|..||+.|...+.+..|++.||
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h 25 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH 25 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc
Confidence 3899999999999999999999987
No 20
>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=98.04 E-value=2.4e-06 Score=34.30 Aligned_cols=24 Identities=17% Similarity=0.401 Sum_probs=17.9
Q ss_pred eeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
|+|..|++.|....+|..|++.|+
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhc
Confidence 777777777777777777777654
No 21
>KOG3993|consensus
Probab=98.03 E-value=2.1e-06 Score=54.93 Aligned_cols=54 Identities=19% Similarity=0.519 Sum_probs=44.8
Q ss_pred CeeeccccccccccchhHHHHhhhhcC---------------------------------CCCceeCCCCCCCCCCchhH
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECG---------------------------------QEPKYQCPHCPHRSKHKAHL 87 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~---------------------------------~~~~~~C~~c~~~f~~~~~l 87 (96)
..|+|.+|++.|+...+|..|.|.|-- +.. |.|..|++.|.+..-|
T Consensus 294 vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi-~~C~~C~KkFrRqAYL 372 (500)
T KOG3993|consen 294 VEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGI-FSCHTCGKKFRRQAYL 372 (500)
T ss_pred eeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCce-eecHHhhhhhHHHHHH
Confidence 368999999999999999988875532 113 8899999999999999
Q ss_pred HHHHhhcC
Q psy12015 88 TTHMAIKH 95 (96)
Q Consensus 88 ~~h~r~~h 95 (96)
..|+-+||
T Consensus 373 rKHqlthq 380 (500)
T KOG3993|consen 373 RKHQLTHQ 380 (500)
T ss_pred HHhHHhhh
Confidence 99988876
No 22
>PHA02768 hypothetical protein; Provisional
Probab=97.98 E-value=2.6e-06 Score=39.86 Aligned_cols=42 Identities=14% Similarity=0.006 Sum_probs=35.7
Q ss_pred cccccccccccchhhhhhhccccccccCeeeccccccccccchhHH
Q psy12015 14 TNTKLDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLW 59 (96)
Q Consensus 14 ~~~~~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~ 59 (96)
.+..+++.|+..+.|..|+ ++|+ +++.|..|++.|...+.+.
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~--r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHL--RKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred CcchhCCeeccHHHHHHHH--HhcC--CcccCCcccceecccceeE
Confidence 4566899999999999999 8888 6889999999998766553
No 23
>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=97.90 E-value=2.2e-05 Score=36.84 Aligned_cols=51 Identities=25% Similarity=0.597 Sum_probs=38.2
Q ss_pred eeeccccccccccchhHHHHhhh-hcCCCCceeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKF-ECGQEPKYQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~-~~~~~~~~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
.|.|+.|++.|. ...|..|... |..+...+.|++|...+. .+|..|+..+|
T Consensus 2 ~f~CP~C~~~~~-~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKGFS-ESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCccC-HHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 478999999544 6778899775 444333489999987644 48889998877
No 24
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.87 E-value=2.2e-05 Score=52.53 Aligned_cols=49 Identities=20% Similarity=0.438 Sum_probs=24.5
Q ss_pred hhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCC
Q psy12015 26 SSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRS 81 (96)
Q Consensus 26 ~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f 81 (96)
..+..|+ ..+. +++.|. |+..+ ....|..|+..+.+.++ +.|..|+..+
T Consensus 466 s~LekH~--~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kp-i~C~fC~~~v 514 (567)
T PLN03086 466 GEMEKHM--KVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRL-ITCRFCGDMV 514 (567)
T ss_pred HHHHHHH--HhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCc-eeCCCCCCcc
Confidence 3455555 3332 455555 55433 33455555555555555 5555555555
No 25
>PHA00733 hypothetical protein
Probab=97.87 E-value=7.4e-06 Score=45.08 Aligned_cols=56 Identities=18% Similarity=0.134 Sum_probs=42.0
Q ss_pred ccccCeeeccccccccccchhHHHH--h---hhhcCCCCceeCCCCCCCCCCchhHHHHHhh
Q psy12015 37 LTVHIDLKCDVCEKGYRYKTGLWRH--K---KFECGQEPKYQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 37 ~~~~~~~~c~~c~~~f~~~~~l~~h--~---~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
....+++.|..|...|.....+..+ + ....+.++ |.|+.||+.|.....|..|++.
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kP-y~C~~Cgk~Fss~s~L~~H~r~ 95 (128)
T PHA00733 35 TPEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSP-YVCPLCLMPFSSSVSLKQHIRY 95 (128)
T ss_pred ChhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCC-ccCCCCCCcCCCHHHHHHHHhc
Confidence 3446788999998877776655544 1 12334566 9999999999999999999985
No 26
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.82 E-value=3.3e-05 Score=51.72 Aligned_cols=70 Identities=13% Similarity=0.213 Sum_probs=54.1
Q ss_pred cccccccchhhhhhhccccccccCeeecccccccccc----------chhHHHHhhhhcCCCCceeCCCCCCCCCCchhH
Q psy12015 18 LDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRY----------KTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHL 87 (96)
Q Consensus 18 ~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~----------~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l 87 (96)
++..+ .+..+..|+ .++.+++++.|..|+..+.. ...|..|+... |.++ +.|..||+.+..+ .+
T Consensus 483 Cg~~~-~R~~L~~H~--~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt-~~C~~Cgk~Vrlr-dm 556 (567)
T PLN03086 483 CGVVL-EKEQMVQHQ--ASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRT-APCDSCGRSVMLK-EM 556 (567)
T ss_pred CCCCc-chhHHHhhh--hccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcc-eEccccCCeeeeh-hH
Confidence 44433 557889998 88999999999999998852 34788998875 7788 9999999988776 44
Q ss_pred HHHHhh
Q psy12015 88 TTHMAI 93 (96)
Q Consensus 88 ~~h~r~ 93 (96)
..|.-.
T Consensus 557 ~~H~~~ 562 (567)
T PLN03086 557 DIHQIA 562 (567)
T ss_pred HHHHHH
Confidence 555544
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=97.74 E-value=2e-05 Score=31.55 Aligned_cols=26 Identities=31% Similarity=0.727 Sum_probs=23.1
Q ss_pred eeeccccccccccchhHHHHhhhhcC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECG 67 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~ 67 (96)
||.|..|++.|....++..|++.|..
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 68999999999999999999987643
No 28
>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=97.73 E-value=2.4e-05 Score=30.04 Aligned_cols=23 Identities=35% Similarity=0.713 Sum_probs=20.4
Q ss_pred eeccccccccccchhHHHHhhhh
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFE 65 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~ 65 (96)
|.|..|++.|.....|..|++.|
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 67999999999999999998763
No 29
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.46 E-value=7.9e-05 Score=28.98 Aligned_cols=23 Identities=39% Similarity=0.793 Sum_probs=18.2
Q ss_pred eeCCCCCCCCCCchhHHHHHhhc
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
|+|..|++.|.....+..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 46888888888888888888754
No 30
>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=97.44 E-value=0.00011 Score=33.74 Aligned_cols=31 Identities=19% Similarity=0.313 Sum_probs=15.0
Q ss_pred ccCeeeccccccccccchhHHHHhhhhcCCC
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRHKKFECGQE 69 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~ 69 (96)
.+.|..|+.|+..+....+|.+|+....+.+
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 3455666666666666666666665554443
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.37 E-value=0.00014 Score=37.82 Aligned_cols=69 Identities=17% Similarity=0.219 Sum_probs=21.1
Q ss_pred cccccccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhHHHHHhhc
Q psy12015 18 LDFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 18 ~~~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
++..|.....+..|+. ..|....+ ....+.....+..+.+.... .. +.|..|++.|.....|..|++.+
T Consensus 5 C~~~f~~~~~l~~H~~-~~H~~~~~-----~~~~l~~~~~~~~~~~~~~~-~~-~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 5 CDESFSSVDDLLQHMK-KKHGFDIP-----DQKYLVDPNRLLNYLRKKVK-ES-FRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ---------------------------------------------------SS-EEBSSSS-EESSHHHHHHHHHHT
T ss_pred cccccccccccccccc-cccccccc-----cccccccccccccccccccC-CC-CCCCccCCCCcCHHHHHHHHcCc
Confidence 4456777788888884 34443332 01111122233333332222 35 89999999999999999999864
No 32
>PRK04860 hypothetical protein; Provisional
Probab=97.31 E-value=0.00031 Score=40.10 Aligned_cols=39 Identities=23% Similarity=0.625 Sum_probs=32.9
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCc
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHK 84 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~ 84 (96)
-+|.|. |+. ....+.+|.+++.+.++ |.|..|++.|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~-YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAV-YRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCcc-EECCCCCceeEEe
Confidence 379998 987 56678999999999888 9999999987654
No 33
>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=97.17 E-value=0.00036 Score=26.58 Aligned_cols=23 Identities=30% Similarity=0.767 Sum_probs=18.7
Q ss_pred eeccccccccccchhHHHHhhhh
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFE 65 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~ 65 (96)
|.|+.|+..|.....+..|++.+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 57999999999999999998865
No 34
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.15 E-value=0.00022 Score=27.83 Aligned_cols=22 Identities=18% Similarity=0.471 Sum_probs=15.2
Q ss_pred eeCCCCCCCCCCchhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
|.|.+|+..|.....+..|.+.
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 4577777777777777777664
No 35
>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=97.14 E-value=0.00052 Score=31.51 Aligned_cols=36 Identities=25% Similarity=0.542 Sum_probs=23.4
Q ss_pred HhhhhcCCCCceeCCCCCCCCCCchhHHHHHhhcCC
Q psy12015 61 HKKFECGQEPKYQCPHCPHRSKHKAHLTTHMAIKHY 96 (96)
Q Consensus 61 h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~~h~ 96 (96)
+.+.+.....|-.|++|+..+.+..+|.+|+.+.|+
T Consensus 14 ~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 14 KPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp --CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred HHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 333344434448999999999999999999998875
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.11 E-value=0.00026 Score=44.30 Aligned_cols=55 Identities=31% Similarity=0.547 Sum_probs=42.4
Q ss_pred ccCeeeccc--cccccccchhHHHHhhh-h------------------cCCCCceeCCCCCCCCCCchhHHHHHhhc
Q psy12015 39 VHIDLKCDV--CEKGYRYKTGLWRHKKF-E------------------CGQEPKYQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 39 ~~~~~~c~~--c~~~f~~~~~l~~h~~~-~------------------~~~~~~~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
+++||+|.+ |.+.+...-.|.-|+.- | ..++| |.|.+|+|.+....-|.-|+...
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KP-YrCevC~KRYKNlNGLKYHr~Hs 421 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKP-YRCEVCDKRYKNLNGLKYHRKHS 421 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCc-eeccccchhhccCccceeccccc
Confidence 469999975 99999998888877652 2 11356 99999999999988887776543
No 37
>KOG3993|consensus
Probab=96.90 E-value=0.00017 Score=46.58 Aligned_cols=52 Identities=25% Similarity=0.498 Sum_probs=44.5
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhHHHHHhhc
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
.|.|..|-..|...-.|..|.-....... |.|+.|+|.|+=..+|..|+|=|
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 47899999999988889888765555556 99999999999999999999865
No 38
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.81 E-value=0.00065 Score=26.25 Aligned_cols=23 Identities=39% Similarity=0.977 Sum_probs=14.8
Q ss_pred eeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
|.|+.|+.... ...|.+|++.+|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 56777776666 667777777765
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.73 E-value=0.0012 Score=25.44 Aligned_cols=24 Identities=25% Similarity=0.549 Sum_probs=20.3
Q ss_pred eeccccccccccchhHHHHhhhhc
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFEC 66 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~ 66 (96)
+.|..|++.|.....+..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 468999999999999999988553
No 40
>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=96.68 E-value=0.00057 Score=27.27 Aligned_cols=22 Identities=23% Similarity=0.522 Sum_probs=15.2
Q ss_pred eeCCCCCCCCCCchhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
|.|..|++.|.+...+..|+++
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 5677777777777777766654
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.40 E-value=0.0026 Score=24.65 Aligned_cols=23 Identities=26% Similarity=0.713 Sum_probs=20.1
Q ss_pred eeccccccccccchhHHHHhhhh
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFE 65 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~ 65 (96)
|.|..|...|.....+..|++.+
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 57999999999999999998753
No 42
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=96.08 E-value=0.0049 Score=24.17 Aligned_cols=20 Identities=25% Similarity=0.576 Sum_probs=12.3
Q ss_pred eeCCCCCCCCCCchhHHHHHh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMA 92 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r 92 (96)
..|+.||+.| ....+.+|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3566777776 4555666654
No 43
>PHA00732 hypothetical protein
Probab=95.90 E-value=0.01 Score=30.02 Aligned_cols=45 Identities=24% Similarity=0.345 Sum_probs=33.9
Q ss_pred ccccccccccchhhhhhhccc-cccccCeeeccccccccccchhHHHHhhhhcC
Q psy12015 15 NTKLDFGVIRNSSVDKSLNTN-VLTVHIDLKCDVCEKGYRYKTGLWRHKKFECG 67 (96)
Q Consensus 15 ~~~~~~~~~~~~~~~~h~~~~-~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~ 67 (96)
...+++.|.....+..|+ + .|.+ +.|..|++.|. .+..|..+...
T Consensus 4 C~~Cgk~F~s~s~Lk~H~--r~~H~~---~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 4 CPICGFTTVTLFALKQHA--RRNHTL---TKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CCCCCCccCCHHHHHHHh--hcccCC---CccCCCCCEeC---ChhhhhcccCC
Confidence 345788899999999999 5 3553 57999999997 46777765443
No 44
>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=95.16 E-value=0.021 Score=23.81 Aligned_cols=22 Identities=14% Similarity=0.378 Sum_probs=16.2
Q ss_pred eeCCCCCCCCCCchhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
|.|..|+..|.....+..|...
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred eEccccCCccCCHHHHHHHHCh
Confidence 7788888888777777777654
No 45
>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=93.55 E-value=0.064 Score=22.36 Aligned_cols=24 Identities=33% Similarity=0.800 Sum_probs=16.6
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
|.|..||..+.... .+ +.|+.||.
T Consensus 2 ~~C~~CGy~y~~~~------------~~-~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE------------AP-WVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc------------CC-CcCcCCCC
Confidence 67888887654322 44 88999975
No 46
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=92.86 E-value=0.043 Score=34.79 Aligned_cols=23 Identities=35% Similarity=0.809 Sum_probs=19.3
Q ss_pred cCeeeccccccccccchhHHHHh
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHK 62 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~ 62 (96)
++||+|.+|++.+...-.|.-|.
T Consensus 396 ~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 396 DKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred CCceeccccchhhccCccceecc
Confidence 58999999999999887776653
No 47
>PRK04860 hypothetical protein; Provisional
Probab=92.84 E-value=0.051 Score=31.18 Aligned_cols=31 Identities=16% Similarity=0.323 Sum_probs=26.0
Q ss_pred cchhhhhhhccccccccCeeeccccccccccch
Q psy12015 24 RNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKT 56 (96)
Q Consensus 24 ~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~ 56 (96)
....+..|. ++++++++|.|..|+..|....
T Consensus 127 ~~~~~rrH~--ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 127 HQLTVRRHN--RVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred eeCHHHHHH--HHhcCCccEECCCCCceeEEec
Confidence 566678888 8999999999999999887543
No 48
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.77 E-value=0.043 Score=35.20 Aligned_cols=52 Identities=23% Similarity=0.562 Sum_probs=32.1
Q ss_pred eeeccccccccccchhHHHHhh--hhcCC--CCceeCC--CCCCCCCCchhHHHHHhhc
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKK--FECGQ--EPKYQCP--HCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~--~~~~~--~~~~~C~--~c~~~f~~~~~l~~h~r~~ 94 (96)
++.|..|...|.....+..|.+ .|.+. ++ +.|. .|++.|.....+..|...|
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~-~~~p~~~~~~~~~~~~~~~~~~~~~ 346 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP-FSCPYSLCGKLFSRNDALKRHILLH 346 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCc-eeeeccCCCccccccccccCCcccc
Confidence 4556666666666666666666 56665 55 6666 5666666666665555443
No 49
>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=92.50 E-value=0.12 Score=24.03 Aligned_cols=23 Identities=26% Similarity=0.616 Sum_probs=18.6
Q ss_pred eeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
|.|+.|++. .+...|..|....|
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 55678999987765
No 50
>KOG1146|consensus
Probab=92.39 E-value=0.087 Score=39.12 Aligned_cols=70 Identities=20% Similarity=0.389 Sum_probs=51.0
Q ss_pred cccchhhhhhhccccccccCeeeccccccccccchhHHHHhhhhc-------------------------CCCCceeCCC
Q psy12015 22 VIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFEC-------------------------GQEPKYQCPH 76 (96)
Q Consensus 22 ~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~-------------------------~~~~~~~C~~ 76 (96)
+.+...+..++. ..+...+.+.|..|+..|.....|..|+|..+ +.++ |.|..
T Consensus 446 ~~s~r~~~~~t~-~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p-~~C~~ 523 (1406)
T KOG1146|consen 446 LESKRSLEGQTV-VLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP-YPCRA 523 (1406)
T ss_pred hhhhccccccee-eeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc-cccee
Confidence 334444444442 45566688999999999999999999988611 1234 88999
Q ss_pred CCCCCCCchhHHHHHhh
Q psy12015 77 CPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 77 c~~~f~~~~~l~~h~r~ 93 (96)
|...+....+|.+|+..
T Consensus 524 C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 524 CNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred eeeeeecchHHHHHHHH
Confidence 99999999999888764
No 51
>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=90.73 E-value=0.2 Score=21.34 Aligned_cols=34 Identities=21% Similarity=0.520 Sum_probs=22.5
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSK 82 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~ 82 (96)
..|+.|+..|....+... ..+ .. ..|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~----~~~-~~-v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLG----ANG-GK-VRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcC----CCC-CE-EECCCCCCEEE
Confidence 679999988876654321 112 34 78999998764
No 52
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=90.52 E-value=0.36 Score=23.00 Aligned_cols=32 Identities=28% Similarity=0.682 Sum_probs=19.4
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
.|.|..||+...... .+-.....+ |.|+.||.
T Consensus 27 ~F~CPnCGe~~I~Rc-----~~CRk~g~~-Y~Cp~CGF 58 (61)
T COG2888 27 KFPCPNCGEVEIYRC-----AKCRKLGNP-YRCPKCGF 58 (61)
T ss_pred EeeCCCCCceeeehh-----hhHHHcCCc-eECCCcCc
Confidence 578999986543322 222222356 99999984
No 53
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=90.42 E-value=0.21 Score=28.91 Aligned_cols=24 Identities=33% Similarity=0.632 Sum_probs=17.8
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
-|.|.+||.. +.| .+|.+|++||-
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 6999999864 345 34489999984
No 54
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=90.29 E-value=0.15 Score=30.61 Aligned_cols=45 Identities=24% Similarity=0.518 Sum_probs=28.0
Q ss_pred cCeeeccccccccccchhHHHHhhh----------hcCCCCc----eeCCCCCCCCCCc
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKF----------ECGQEPK----YQCPHCPHRSKHK 84 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~----------~~~~~~~----~~C~~c~~~f~~~ 84 (96)
++...|++|+..|....-.....+. ..+..|. ..|+.||.++...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 3567899999999886554444432 1111221 4799999876544
No 55
>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=90.22 E-value=0.28 Score=20.61 Aligned_cols=25 Identities=28% Similarity=0.494 Sum_probs=16.2
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
.|.|..||..+.. ..+|..|++||.
T Consensus 2 ~~~C~~CG~i~~g-------------~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEG-------------EEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeEC-------------CcCCCcCcCCCC
Confidence 4778888865432 123368888875
No 56
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=90.20 E-value=0.29 Score=20.84 Aligned_cols=33 Identities=18% Similarity=0.451 Sum_probs=22.6
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRS 81 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f 81 (96)
..|+.|...|....... ...... .+|+.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~i-----p~~g~~-v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKI-----PPKGRK-VRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHC-----CCCCcE-EECCCCCCEe
Confidence 57889998887765432 122245 8899998876
No 57
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=90.04 E-value=0.12 Score=24.32 Aligned_cols=33 Identities=21% Similarity=0.279 Sum_probs=23.4
Q ss_pred ccccccCeeeccccccccccchhHHHHhhhhcC
Q psy12015 35 NVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECG 67 (96)
Q Consensus 35 ~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~ 67 (96)
.+-.||.-+.|+-|+..|....+..+|..-..+
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 444567777888888888888777777764444
No 58
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=89.98 E-value=0.52 Score=20.11 Aligned_cols=34 Identities=24% Similarity=0.698 Sum_probs=23.0
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSK 82 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~ 82 (96)
..|+.|+..|....+- +..+... ..|+.|+..|.
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 4688999888766542 2233345 89999988764
No 59
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=88.48 E-value=0.41 Score=21.39 Aligned_cols=30 Identities=23% Similarity=0.494 Sum_probs=20.5
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCC
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRS 81 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f 81 (96)
..|.|..|+..+...... .. +.|+.||..+
T Consensus 2 ~~y~C~~CG~~~~~~~~~----------~~-~~Cp~CG~~~ 31 (46)
T PRK00398 2 AEYKCARCGREVELDEYG----------TG-VRCPYCGYRI 31 (46)
T ss_pred CEEECCCCCCEEEECCCC----------Cc-eECCCCCCeE
Confidence 368899999877653221 14 7899998754
No 60
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=88.40 E-value=0.42 Score=24.43 Aligned_cols=25 Identities=24% Similarity=0.620 Sum_probs=21.6
Q ss_pred eeeccccccccccchhHHHHhhhhc
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFEC 66 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~ 66 (96)
.+.|..|+..|.....+..|++.+.
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCcc
Confidence 6899999999999999999999643
No 61
>KOG2186|consensus
Probab=87.95 E-value=0.53 Score=29.06 Aligned_cols=38 Identities=18% Similarity=0.467 Sum_probs=17.5
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
|.|..||.... ...+..|+....+ .. |.|--|++.|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~-fSCIDC~k~F~~ 41 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AY-FSCIDCGKTFER 41 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-Ce-eEEeeccccccc
Confidence 44555554433 2233444444333 33 555555555544
No 62
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=87.41 E-value=0.95 Score=25.55 Aligned_cols=39 Identities=18% Similarity=0.468 Sum_probs=26.5
Q ss_pred ccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCC
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSK 82 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~ 82 (96)
...-|.|+.|+..|.....+... . .... |.|+.||....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~---d-~~~~-f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLL---D-MDGT-FTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhc---C-CCCc-EECCCCCCEEE
Confidence 45579999999998865443221 1 1345 99999998653
No 63
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=87.18 E-value=0.42 Score=30.68 Aligned_cols=59 Identities=17% Similarity=0.290 Sum_probs=48.9
Q ss_pred cccccccccccchhhhhhhccc--ccccc--Ceeecc--ccccccccchhHHHHhhhhcCCCCceeCC
Q psy12015 14 TNTKLDFGVIRNSSVDKSLNTN--VLTVH--IDLKCD--VCEKGYRYKTGLWRHKKFECGQEPKYQCP 75 (96)
Q Consensus 14 ~~~~~~~~~~~~~~~~~h~~~~--~~~~~--~~~~c~--~c~~~f~~~~~l~~h~~~~~~~~~~~~C~ 75 (96)
....+...|.....+..|. + .|.++ +|+.|. .|++.|.....+..|...+.+..+ +.+.
T Consensus 291 ~~~~~~~~~s~~~~l~~~~--~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 355 (467)
T COG5048 291 KSKQCNISFSRSSPLTRHL--RSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISP-AKEK 355 (467)
T ss_pred CCccccCCccccccccccc--cccccccccCCceeeeccCCCccccccccccCCcccccCCCc-cccc
Confidence 3445667788888899998 7 79999 999999 799999999999999998888765 5553
No 64
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=86.96 E-value=0.31 Score=25.04 Aligned_cols=32 Identities=19% Similarity=0.558 Sum_probs=22.6
Q ss_pred cCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCC
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSK 82 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~ 82 (96)
...|.|+.|++. ...+.-.| . |.|..||..|.
T Consensus 33 ~~~~~Cp~C~~~--------~VkR~a~G--I-W~C~kCg~~fA 64 (89)
T COG1997 33 RAKHVCPFCGRT--------TVKRIATG--I-WKCRKCGAKFA 64 (89)
T ss_pred hcCCcCCCCCCc--------ceeeeccC--e-EEcCCCCCeec
Confidence 347899999874 23344444 5 99999998774
No 65
>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=86.28 E-value=0.36 Score=22.05 Aligned_cols=30 Identities=17% Similarity=0.542 Sum_probs=19.3
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
.|.|..|+..|....... . ... -.|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~------~-~~~-~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMS------D-DPL-ATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecC------C-CCC-CCCCCCCC
Confidence 378999998887543221 1 233 57999986
No 66
>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=86.28 E-value=0.42 Score=20.53 Aligned_cols=31 Identities=16% Similarity=0.508 Sum_probs=20.5
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
.|.|..|+..|....... .+ .. -.|+.||..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~------~~-~~-~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKIS------DD-PL-ATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEecC------CC-CC-CCCCCCCCc
Confidence 478999999886544321 12 34 579999873
No 67
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=86.13 E-value=1.2 Score=19.82 Aligned_cols=27 Identities=22% Similarity=0.550 Sum_probs=18.8
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
.|.|..|+..+... ...+ ..|+.||..
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 47899999876543 1234 789999864
No 68
>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=85.99 E-value=0.35 Score=21.27 Aligned_cols=30 Identities=20% Similarity=0.739 Sum_probs=20.5
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
.|.|..|+..|.....+. . ..+ -.|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~------~-~~~-~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSIS------E-DDP-VPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcC------C-CCC-CcCCCCCC
Confidence 378999998887654322 1 234 68999987
No 69
>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=85.80 E-value=0.69 Score=26.49 Aligned_cols=36 Identities=14% Similarity=0.333 Sum_probs=27.1
Q ss_pred cccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 38 TVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 38 ~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
....-|.|+.|+..|+....+. .. |.|+.||.....
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~---------~~-F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME---------LN-FTCPRCGAMLDY 140 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH---------cC-CcCCCCCCEeee
Confidence 3456789999999988776653 24 999999986543
No 70
>KOG2893|consensus
Probab=85.73 E-value=0.28 Score=30.09 Aligned_cols=42 Identities=19% Similarity=0.393 Sum_probs=30.6
Q ss_pred cCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCchhH
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAHL 87 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~~~l 87 (96)
.+| .|=.|.+.|..+..|..|++. +. |+|-+|-+.+.+-.-|
T Consensus 9 ~kp-wcwycnrefddekiliqhqka----kh-fkchichkkl~sgpgl 50 (341)
T KOG2893|consen 9 DKP-WCWYCNREFDDEKILIQHQKA----KH-FKCHICHKKLFSGPGL 50 (341)
T ss_pred CCc-eeeecccccchhhhhhhhhhh----cc-ceeeeehhhhccCCCc
Confidence 344 477888999999999888774 66 9999997765444333
No 71
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=85.15 E-value=1.2 Score=21.26 Aligned_cols=32 Identities=28% Similarity=0.716 Sum_probs=18.2
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
.|.|..||........ +-.....+ |.|+.||.
T Consensus 25 ~F~CPnCG~~~I~RC~-----~CRk~~~~-Y~CP~CGF 56 (59)
T PRK14890 25 KFLCPNCGEVIIYRCE-----KCRKQSNP-YTCPKCGF 56 (59)
T ss_pred EeeCCCCCCeeEeech-----hHHhcCCc-eECCCCCC
Confidence 5788888875322221 11112256 89988874
No 72
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=85.05 E-value=0.92 Score=26.55 Aligned_cols=36 Identities=14% Similarity=0.474 Sum_probs=26.7
Q ss_pred ccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCc
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHK 84 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~ 84 (96)
...-|.|+.|+..|+....+. .. |.|+.||.....-
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~---------~~-F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME---------YG-FRCPQCGEMLEEY 149 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh---------cC-CcCCCCCCCCeec
Confidence 345789999999988776542 24 9999999875443
No 73
>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=84.82 E-value=0.55 Score=28.32 Aligned_cols=26 Identities=27% Similarity=0.588 Sum_probs=19.1
Q ss_pred CCceeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 69 EPKYQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 69 ~~~~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
.. |.|..|+|.|.-..-+..|+...|
T Consensus 76 ~K-~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 76 DK-WRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp EE-EEE-SSS-EESSHHHHHHHHHHH-
T ss_pred CE-ECCCCCCcccCChHHHHHHHhhcC
Confidence 44 899999999999888888887655
No 74
>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=84.48 E-value=1.2 Score=19.57 Aligned_cols=22 Identities=23% Similarity=0.430 Sum_probs=11.2
Q ss_pred eeCCCCCCCCCCc----hhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHK----AHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~----~~l~~h~r~ 93 (96)
..|..|++.+... +.|.+|++.
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHHHH
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 5677776655442 556666643
No 75
>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=84.04 E-value=1.1 Score=17.60 Aligned_cols=19 Identities=26% Similarity=0.679 Sum_probs=12.8
Q ss_pred eCCCCCCCCCCchhHHHHHh
Q psy12015 73 QCPHCPHRSKHKAHLTTHMA 92 (96)
Q Consensus 73 ~C~~c~~~f~~~~~l~~h~r 92 (96)
.|++|++.+ ....+++|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 578888777 4456667654
No 76
>PHA00626 hypothetical protein
Probab=83.04 E-value=0.77 Score=21.62 Aligned_cols=12 Identities=25% Similarity=0.401 Sum_probs=5.9
Q ss_pred eeeccccccccc
Q psy12015 42 DLKCDVCEKGYR 53 (96)
Q Consensus 42 ~~~c~~c~~~f~ 53 (96)
.|.|..|+..|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 455555554443
No 77
>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=82.68 E-value=1.1 Score=23.92 Aligned_cols=25 Identities=32% Similarity=0.725 Sum_probs=22.8
Q ss_pred eeC----CCCCCCCCCchhHHHHHhhcCC
Q psy12015 72 YQC----PHCPHRSKHKAHLTTHMAIKHY 96 (96)
Q Consensus 72 ~~C----~~c~~~f~~~~~l~~h~r~~h~ 96 (96)
|.| ..|+....+...+.+|.+.+|.
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 8999999999999999998873
No 78
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=81.61 E-value=0.55 Score=26.86 Aligned_cols=13 Identities=23% Similarity=0.493 Sum_probs=6.5
Q ss_pred eeccccccccccc
Q psy12015 43 LKCDVCEKGYRYK 55 (96)
Q Consensus 43 ~~c~~c~~~f~~~ 55 (96)
+.|+.|+..|...
T Consensus 29 ~~c~~c~~~f~~~ 41 (154)
T PRK00464 29 RECLACGKRFTTF 41 (154)
T ss_pred eeccccCCcceEe
Confidence 4455555555443
No 79
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=81.07 E-value=1.5 Score=19.87 Aligned_cols=21 Identities=19% Similarity=0.540 Sum_probs=13.4
Q ss_pred eeCCCCCCCCCCc-----hhHHHHHh
Q psy12015 72 YQCPHCPHRSKHK-----AHLTTHMA 92 (96)
Q Consensus 72 ~~C~~c~~~f~~~-----~~l~~h~r 92 (96)
-.|..|++.+... ++|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 4577777666444 46777776
No 80
>PF14353 CpXC: CpXC protein
Probab=80.37 E-value=0.94 Score=24.81 Aligned_cols=13 Identities=31% Similarity=1.071 Sum_probs=8.8
Q ss_pred eeCCCCCCCCCCc
Q psy12015 72 YQCPHCPHRSKHK 84 (96)
Q Consensus 72 ~~C~~c~~~f~~~ 84 (96)
|.|+.||..|.-.
T Consensus 39 ~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 39 FTCPSCGHKFRLE 51 (128)
T ss_pred EECCCCCCceecC
Confidence 7777777766543
No 81
>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=79.60 E-value=1.7 Score=23.34 Aligned_cols=30 Identities=20% Similarity=0.575 Sum_probs=20.2
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCc
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHK 84 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~ 84 (96)
..|..||..|--. +..| ..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL-----------nk~P-ivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDP-IVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCC-ccCCCCCCccCcc
Confidence 3688888877431 2245 7899998887655
No 82
>KOG2231|consensus
Probab=77.33 E-value=3.2 Score=29.34 Aligned_cols=48 Identities=23% Similarity=0.555 Sum_probs=35.8
Q ss_pred eccccccccccchhHHHHhhhhcCCCCceeCCCC------CCCCCCchhHHHHHhhcCC
Q psy12015 44 KCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHC------PHRSKHKAHLTTHMAIKHY 96 (96)
Q Consensus 44 ~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c------~~~f~~~~~l~~h~r~~h~ 96 (96)
.|..|...|.....+..|++.+. |.|..| +.-|.....|+.|.|.+||
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf 237 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF 237 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcCc
Confidence 58889999998888888887543 444444 2346777889999998886
No 83
>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=76.72 E-value=1.2 Score=20.43 Aligned_cols=36 Identities=25% Similarity=0.487 Sum_probs=19.1
Q ss_pred eeccccccccccchhHHH-----HhhhhcCCCCceeCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWR-----HKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~-----h~~~~~~~~~~~~C~~c~~ 79 (96)
|.|..|+..+.....-.. -.....-... |.|+.|+.
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~-w~CP~C~a 42 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIPPGTPFEDLPDD-WVCPVCGA 42 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcCCCCCHhHCCCC-CCCCCCCC
Confidence 678899887765322111 0011111234 88999974
No 84
>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=76.61 E-value=2.7 Score=19.04 Aligned_cols=36 Identities=28% Similarity=0.547 Sum_probs=17.5
Q ss_pred eeccccccccccchhHHHH-----hhhhcCCCCceeCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRH-----KKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h-----~~~~~~~~~~~~C~~c~~ 79 (96)
|.|..|+..+.....-... .....-... |.|+.|+.
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~-w~CP~C~a 42 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDD-WVCPVCGA 42 (47)
T ss_dssp EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT--B-TTTSS
T ss_pred cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCC-CcCcCCCC
Confidence 6788888776654332111 111111234 88999975
No 85
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=76.22 E-value=1.6 Score=24.35 Aligned_cols=15 Identities=33% Similarity=0.673 Sum_probs=11.9
Q ss_pred Ceeeccccccccccc
Q psy12015 41 IDLKCDVCEKGYRYK 55 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~ 55 (96)
..+.|..|+..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 468999999887654
No 86
>KOG1146|consensus
Probab=74.29 E-value=1.1 Score=33.83 Aligned_cols=55 Identities=20% Similarity=0.320 Sum_probs=42.1
Q ss_pred ccCeeeccccccccccchhHHHHhhhhc----------------CCCCceeCCCCCCCCCCchhHHHHHhhc
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRHKKFEC----------------GQEPKYQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h~~~~~----------------~~~~~~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
.+.+|.|..|--.|.....+..|.+.-. -+...| |..|...|+....|+.|+++-
T Consensus 1281 ~~~~~~~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~~~~~alqihm~~~ 1351 (1406)
T KOG1146|consen 1281 VTHRYLCRQCKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTYH-CLACEVLLSGREALQIHMRSS 1351 (1406)
T ss_pred cchhHHHHHHHhhhcchhHHHHHHHHHHhccCccccCCCCcccCcccccc-chHHHhhcchhHHHHHHHHHh
Confidence 4567899999999999988888875211 112215 999999999999999999863
No 87
>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=73.93 E-value=2.3 Score=16.41 Aligned_cols=8 Identities=38% Similarity=1.456 Sum_probs=5.8
Q ss_pred eeCCCCCC
Q psy12015 72 YQCPHCPH 79 (96)
Q Consensus 72 ~~C~~c~~ 79 (96)
|.|+.||.
T Consensus 17 f~CPnCG~ 24 (24)
T PF07754_consen 17 FPCPNCGF 24 (24)
T ss_pred EeCCCCCC
Confidence 77777763
No 88
>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=73.73 E-value=2.7 Score=25.46 Aligned_cols=29 Identities=14% Similarity=0.173 Sum_probs=21.5
Q ss_pred ccCeeeccccccccccchhHHHHhhhhcC
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRHKKFECG 67 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h~~~~~~ 67 (96)
.+..|.|..|++.|.....+..|+...+.
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 34569999999999999999999976443
No 89
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=72.86 E-value=2.7 Score=24.07 Aligned_cols=36 Identities=25% Similarity=0.668 Sum_probs=25.1
Q ss_pred cCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCC
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRS 81 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f 81 (96)
.-+|.|. |+..+... .+|-..-.|+ . |.|..|+...
T Consensus 115 ~~~Y~C~-C~q~~l~~---RRhn~~~~g~-~-YrC~~C~gkL 150 (156)
T COG3091 115 TYPYRCQ-CQQHYLRI---RRHNTVRRGE-V-YRCGKCGGKL 150 (156)
T ss_pred ceeEEee-cCCccchh---hhcccccccc-e-EEeccCCceE
Confidence 3479999 99876543 4555555665 6 9999997643
No 90
>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=72.47 E-value=2.5 Score=16.59 Aligned_cols=10 Identities=40% Similarity=0.943 Sum_probs=7.2
Q ss_pred eCCCCCCCCC
Q psy12015 73 QCPHCPHRSK 82 (96)
Q Consensus 73 ~C~~c~~~f~ 82 (96)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5777887764
No 91
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=70.73 E-value=4.3 Score=26.56 Aligned_cols=48 Identities=25% Similarity=0.432 Sum_probs=28.3
Q ss_pred eccccccccccchhHHHHhhhhcCCCCceeCCCCCC-------CCCCchhHHHHHhhcCC
Q psy12015 44 KCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH-------RSKHKAHLTTHMAIKHY 96 (96)
Q Consensus 44 ~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~-------~f~~~~~l~~h~r~~h~ 96 (96)
.|..|...|-....|.+|.|.... .|-+|++ -|..-..|.+|.+..||
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy 276 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFRNAHY 276 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhhcCce
Confidence 477777777777777777775333 2333332 25555666677666554
No 92
>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=69.23 E-value=2.9 Score=23.37 Aligned_cols=21 Identities=24% Similarity=0.513 Sum_probs=13.9
Q ss_pred eeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
..|-.||+.|... .+|.+.||
T Consensus 73 i~clecGk~~k~L---krHL~~~~ 93 (132)
T PF05443_consen 73 IICLECGKKFKTL---KRHLRTHH 93 (132)
T ss_dssp EE-TBT--EESBH---HHHHHHTT
T ss_pred eEEccCCcccchH---HHHHHHcc
Confidence 6788899977654 78888876
No 93
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=68.56 E-value=5.2 Score=18.34 Aligned_cols=30 Identities=23% Similarity=0.627 Sum_probs=19.2
Q ss_pred cCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
...|.|..|++.+... ..... ..|+.||..
T Consensus 4 ~~~Y~C~~Cg~~~~~~----------~~~~~-irCp~Cg~r 33 (49)
T COG1996 4 MMEYKCARCGREVELD----------QETRG-IRCPYCGSR 33 (49)
T ss_pred eEEEEhhhcCCeeehh----------hccCc-eeCCCCCcE
Confidence 3468999999887211 11133 789988853
No 94
>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=66.94 E-value=2.7 Score=16.87 Aligned_cols=19 Identities=21% Similarity=0.448 Sum_probs=9.9
Q ss_pred eeccccccccccchhHHHHh
Q psy12015 43 LKCDVCEKGYRYKTGLWRHK 62 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~ 62 (96)
+.|..|++.|.. .....|.
T Consensus 1 ~sCiDC~~~F~~-~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDFDG-DSYKSHT 19 (28)
T ss_dssp EEETTTTEEEEG-GGTTT--
T ss_pred CeeecCCCCcCc-CCcCCCC
Confidence 457777777743 3344443
No 95
>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=66.72 E-value=2.2 Score=19.71 Aligned_cols=26 Identities=12% Similarity=0.470 Sum_probs=15.7
Q ss_pred cCeeeccccccccccchhHHHHhhhh
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFE 65 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~ 65 (96)
...|.|..|...|-..-++-.|+..|
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CCeEECCCCCCccccCcChhhhcccc
Confidence 34799999999999999988876643
No 96
>KOG3408|consensus
Probab=64.01 E-value=4.1 Score=22.42 Aligned_cols=22 Identities=23% Similarity=0.461 Sum_probs=16.1
Q ss_pred eeCCCCCCCCCCchhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
|.|-.|.+-|.+..+|..|.++
T Consensus 58 fyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 58 FYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eehhhhhhhhcchHHHHHHHhc
Confidence 6777777777777777777664
No 97
>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=63.23 E-value=4.9 Score=21.78 Aligned_cols=27 Identities=22% Similarity=0.722 Sum_probs=18.4
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
-...|..|+..|..... . +.|+.||..
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~-~~CP~Cgs~ 95 (115)
T TIGR00100 69 VECECEDCSEEVSPEID------------L-YRCPKCHGI 95 (115)
T ss_pred cEEEcccCCCEEecCCc------------C-ccCcCCcCC
Confidence 35789999977654321 3 678888853
No 98
>KOG4167|consensus
Probab=62.93 E-value=0.95 Score=32.17 Aligned_cols=23 Identities=17% Similarity=0.364 Sum_probs=20.5
Q ss_pred eeCCCCCCCCCCchhHHHHHhhc
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
|.|..|++.|..-..++.|+++|
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHH
Confidence 88999999998888888888876
No 99
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=61.44 E-value=5.7 Score=21.45 Aligned_cols=26 Identities=27% Similarity=0.542 Sum_probs=17.5
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
....|..|+..|.... .. +.|+.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~------------~~-~~CP~Cgs 94 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQ------------HD-AQCPHCHG 94 (113)
T ss_pred cEEEcccCCCEEecCC------------cC-ccCcCCCC
Confidence 3578999997665422 23 67988884
No 100
>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=60.60 E-value=8.1 Score=21.49 Aligned_cols=30 Identities=13% Similarity=0.165 Sum_probs=19.0
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCc
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHK 84 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~ 84 (96)
..|..|+..|-- | +..| ..|+.||..|...
T Consensus 10 r~Cp~cg~kFYD---L--------nk~p-~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYD---L--------NRRP-AVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccc---c--------CCCC-ccCCCcCCccCcc
Confidence 358888877642 1 2234 7888888876554
No 101
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=60.31 E-value=6.6 Score=16.90 Aligned_cols=13 Identities=23% Similarity=0.674 Sum_probs=9.9
Q ss_pred eeCCCCCCCCCCc
Q psy12015 72 YQCPHCPHRSKHK 84 (96)
Q Consensus 72 ~~C~~c~~~f~~~ 84 (96)
|.|..|++.|-..
T Consensus 13 f~C~~C~~~FC~~ 25 (39)
T smart00154 13 FKCRHCGNLFCGE 25 (39)
T ss_pred eECCccCCccccc
Confidence 8899888877543
No 102
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.99 E-value=2.5 Score=25.97 Aligned_cols=28 Identities=14% Similarity=0.368 Sum_probs=20.9
Q ss_pred cCeeeccccccccccchhHHHHhhhhcC
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECG 67 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~ 67 (96)
++...|++|+-.|....-.....|+-.|
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiiag 44 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIAG 44 (267)
T ss_pred hceeccCcccchhhhhheeccceeEecc
Confidence 5678999999999887766666665444
No 103
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=59.57 E-value=8.5 Score=18.18 Aligned_cols=38 Identities=24% Similarity=0.503 Sum_probs=19.5
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
..|..|++.+....+-....+.......+|-|+.|...
T Consensus 3 vkC~lCdk~~~Id~~~~~aKrLrnrPi~tYmC~eC~~R 40 (56)
T PF09963_consen 3 VKCILCDKKEEIDEDTPEAKRLRNRPIHTYMCDECKER 40 (56)
T ss_pred eEEEecCCEEEeccCCHHHHHhhcCCCcceeChhHHHH
Confidence 35677776655544433333332222334777777543
No 104
>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=58.94 E-value=6.4 Score=16.25 Aligned_cols=9 Identities=56% Similarity=1.512 Sum_probs=5.5
Q ss_pred eeCCCCCCC
Q psy12015 72 YQCPHCPHR 80 (96)
Q Consensus 72 ~~C~~c~~~ 80 (96)
..|+.||..
T Consensus 18 irC~~CG~R 26 (32)
T PF03604_consen 18 IRCPECGHR 26 (32)
T ss_dssp SSBSSSS-S
T ss_pred EECCcCCCe
Confidence 567777753
No 105
>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=58.26 E-value=3.9 Score=21.57 Aligned_cols=10 Identities=40% Similarity=0.999 Sum_probs=5.2
Q ss_pred eeCCCCCCCC
Q psy12015 72 YQCPHCPHRS 81 (96)
Q Consensus 72 ~~C~~c~~~f 81 (96)
..|..||..|
T Consensus 80 ~rC~eCG~~f 89 (97)
T cd00924 80 KRCPECGHVF 89 (97)
T ss_pred eeCCCCCcEE
Confidence 5555555544
No 106
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=56.88 E-value=8.7 Score=21.47 Aligned_cols=15 Identities=13% Similarity=0.488 Sum_probs=10.2
Q ss_pred eeeccccccccccch
Q psy12015 42 DLKCDVCEKGYRYKT 56 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~ 56 (96)
|+.|..|++.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 567777887776543
No 107
>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=56.77 E-value=8.2 Score=21.97 Aligned_cols=35 Identities=23% Similarity=0.560 Sum_probs=21.1
Q ss_pred ccccccC----eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 35 NVLTVHI----DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 35 ~~~~~~~----~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
..++|++ .+.|..|+...... +.+.-| .|+.||..
T Consensus 101 ~Y~sGE~~g~G~l~C~~Cg~~~~~~---------~~~~l~--~Cp~C~~~ 139 (146)
T PF07295_consen 101 VYHSGEVVGPGTLVCENCGHEVELT---------HPERLP--PCPKCGHT 139 (146)
T ss_pred CeecCcEecCceEecccCCCEEEec---------CCCcCC--CCCCCCCC
Confidence 3455655 58899999754321 222233 69999865
No 108
>KOG2636|consensus
Probab=56.65 E-value=9.5 Score=25.83 Aligned_cols=29 Identities=21% Similarity=0.351 Sum_probs=20.8
Q ss_pred hhhcCCCCceeCCCCC-CCCCCchhHHHHHh
Q psy12015 63 KFECGQEPKYQCPHCP-HRSKHKAHLTTHMA 92 (96)
Q Consensus 63 ~~~~~~~~~~~C~~c~-~~f~~~~~l~~h~r 92 (96)
+.|.-+.. |.|.+|| +.+.-+.++.+|..
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 34555566 9999998 67777777777753
No 109
>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=55.93 E-value=23 Score=18.87 Aligned_cols=38 Identities=5% Similarity=-0.020 Sum_probs=25.9
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
..|.|..-+..|..-.+....+..... +. |.|...|+.
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 346677778888887776665554444 55 888887763
No 110
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=55.64 E-value=9.3 Score=20.42 Aligned_cols=15 Identities=13% Similarity=0.454 Sum_probs=10.9
Q ss_pred Ceeeccccccccccc
Q psy12015 41 IDLKCDVCEKGYRYK 55 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~ 55 (96)
+|+.|..||..|..-
T Consensus 1 MpH~CtrCG~vf~~g 15 (112)
T COG3364 1 MPHQCTRCGEVFDDG 15 (112)
T ss_pred CCceecccccccccc
Confidence 367788888887763
No 111
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=54.83 E-value=6.9 Score=19.47 Aligned_cols=17 Identities=12% Similarity=0.272 Sum_probs=8.7
Q ss_pred Ceeecc--ccccccccchh
Q psy12015 41 IDLKCD--VCEKGYRYKTG 57 (96)
Q Consensus 41 ~~~~c~--~c~~~f~~~~~ 57 (96)
.-+.|. .|+..|.....
T Consensus 26 ~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 26 RYHQCQNVNCSATFITYES 44 (72)
T ss_pred eeeecCCCCCCCEEEEEEE
Confidence 344555 56655555443
No 112
>KOG2593|consensus
Probab=54.20 E-value=9.2 Score=25.69 Aligned_cols=40 Identities=20% Similarity=0.409 Sum_probs=26.9
Q ss_pred cccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCC
Q psy12015 38 TVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRS 81 (96)
Q Consensus 38 ~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f 81 (96)
+...-|.|+.|.+.|.....+.. .....-. |.|..|+...
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~-F~C~~C~gel 163 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQL---LDNETGE-FHCENCGGEL 163 (436)
T ss_pred cccccccCCccccchhhhHHHHh---hcccCce-EEEecCCCch
Confidence 34557999999999988765432 2221234 9999998654
No 113
>KOG1842|consensus
Probab=53.63 E-value=5.5 Score=26.88 Aligned_cols=24 Identities=25% Similarity=0.659 Sum_probs=16.6
Q ss_pred eeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
|.|++|...|.+...|..|...-|
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH 39 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEH 39 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhc
Confidence 667777777777777777766544
No 114
>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=53.31 E-value=13 Score=20.92 Aligned_cols=48 Identities=19% Similarity=0.279 Sum_probs=26.9
Q ss_pred eeeccccccccccchh--HHHHh--hh-hcCCCCceeCCCCCCCCCCchhHHHH
Q psy12015 42 DLKCDVCEKGYRYKTG--LWRHK--KF-ECGQEPKYQCPHCPHRSKHKAHLTTH 90 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~--l~~h~--~~-~~~~~~~~~C~~c~~~f~~~~~l~~h 90 (96)
...|..|+..+..-+. +..-. .+ ....+- +.|+.||+.|..-+.+.+-
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f-~~C~~C~kiyW~GsH~~~~ 143 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEF-WRCPGCGKIYWEGSHWRRM 143 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeE-EECCCCCCEecccccHHHH
Confidence 3579999976543221 11000 01 111223 7899999999877666543
No 115
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=52.73 E-value=8.7 Score=26.13 Aligned_cols=41 Identities=20% Similarity=0.451 Sum_probs=23.1
Q ss_pred ccCeeeccccccccccchhHHHH-----hhhhcCCCCceeCCCCCCC
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRH-----KKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h-----~~~~~~~~~~~~C~~c~~~ 80 (96)
....|.|..|+..+.....-... .....-... |.|+.|+..
T Consensus 422 ~~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~-~~cp~c~~~ 467 (479)
T PRK05452 422 LGPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDN-FLCPECSLG 467 (479)
T ss_pred CCCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCC-CcCcCCCCc
Confidence 34579999999887654321111 011111133 899999853
No 116
>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=52.54 E-value=10 Score=16.79 Aligned_cols=11 Identities=27% Similarity=1.141 Sum_probs=6.1
Q ss_pred ccccccccccc
Q psy12015 45 CDVCEKGYRYK 55 (96)
Q Consensus 45 c~~c~~~f~~~ 55 (96)
|..|++.|+..
T Consensus 11 C~~C~rpf~WR 21 (42)
T PF10013_consen 11 CPVCGRPFTWR 21 (42)
T ss_pred CcccCCcchHH
Confidence 55666555543
No 117
>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=52.03 E-value=11 Score=17.62 Aligned_cols=30 Identities=20% Similarity=0.441 Sum_probs=19.1
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRS 81 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f 81 (96)
+.|..|+..+....+. .| .. ..|+.||..+
T Consensus 3 ~~CP~CG~~iev~~~~-------~G-ei-V~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENPE-------LG-EL-VICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCCc-------cC-CE-EeCCCCCCEE
Confidence 5788888876543321 23 34 7888888754
No 118
>PRK04351 hypothetical protein; Provisional
Probab=52.02 E-value=11 Score=21.55 Aligned_cols=33 Identities=24% Similarity=0.558 Sum_probs=21.1
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
.|.|..|+..+... +.+ .... |.|..|+..+..
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~-n~~~-yrCg~C~g~L~~ 144 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRI-NTKR-YRCGKCRGKLKL 144 (149)
T ss_pred EEECCCCCCEeeee-------eec-CCCc-EEeCCCCcEeee
Confidence 58898898765432 112 2255 999999876544
No 119
>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=50.20 E-value=7 Score=17.09 Aligned_cols=12 Identities=25% Similarity=0.730 Sum_probs=6.8
Q ss_pred eeCCCCCCCCCC
Q psy12015 72 YQCPHCPHRSKH 83 (96)
Q Consensus 72 ~~C~~c~~~f~~ 83 (96)
+.|..|++.|-.
T Consensus 14 ~~C~~C~~~FC~ 25 (43)
T PF01428_consen 14 FKCKHCGKSFCL 25 (43)
T ss_dssp EE-TTTS-EE-T
T ss_pred eECCCCCcccCc
Confidence 888888877643
No 120
>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=49.46 E-value=11 Score=18.09 Aligned_cols=28 Identities=18% Similarity=0.489 Sum_probs=10.9
Q ss_pred eeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
-.|..|++.|... .+. +-|..||..|-.
T Consensus 10 ~~C~~C~~~F~~~------------~rr-hhCr~CG~~vC~ 37 (69)
T PF01363_consen 10 SNCMICGKKFSLF------------RRR-HHCRNCGRVVCS 37 (69)
T ss_dssp SB-TTT--B-BSS------------S-E-EE-TTT--EEEC
T ss_pred CcCcCcCCcCCCc------------eee-EccCCCCCEECC
Confidence 3577777777431 134 667777666543
No 121
>COG1773 Rubredoxin [Energy production and conversion]
Probab=49.38 E-value=8.4 Score=18.13 Aligned_cols=11 Identities=18% Similarity=0.600 Sum_probs=7.3
Q ss_pred eeCCCCCCCCC
Q psy12015 72 YQCPHCPHRSK 82 (96)
Q Consensus 72 ~~C~~c~~~f~ 82 (96)
|+|..||..|.
T Consensus 4 ~~C~~CG~vYd 14 (55)
T COG1773 4 WRCSVCGYVYD 14 (55)
T ss_pred eEecCCceEec
Confidence 67777776653
No 122
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=49.07 E-value=10 Score=20.62 Aligned_cols=15 Identities=20% Similarity=0.764 Sum_probs=10.6
Q ss_pred cCeeecccccccccc
Q psy12015 40 HIDLKCDVCEKGYRY 54 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~ 54 (96)
.-...|..|+..|..
T Consensus 69 p~~~~C~~Cg~~~~~ 83 (117)
T PRK00564 69 KVELECKDCSHVFKP 83 (117)
T ss_pred CCEEEhhhCCCcccc
Confidence 335789999976654
No 123
>KOG2785|consensus
Probab=48.68 E-value=23 Score=23.52 Aligned_cols=52 Identities=19% Similarity=0.254 Sum_probs=35.9
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCc----------------------eeCCCCC---CCCCCchhHHHHHhh
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPK----------------------YQCPHCP---HRSKHKAHLTTHMAI 93 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~----------------------~~C~~c~---~~f~~~~~l~~h~r~ 93 (96)
|--|-.|+..+........|+..++|-..| |.|-.|. +.|....+...|+..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 456777887777776667777655542111 5676676 889999998888874
No 124
>KOG2893|consensus
Probab=47.66 E-value=10 Score=23.56 Aligned_cols=26 Identities=27% Similarity=0.603 Sum_probs=21.6
Q ss_pred CCceeCCCCCCCCCCchhHHHHHhhcCC
Q psy12015 69 EPKYQCPHCPHRSKHKAHLTTHMAIKHY 96 (96)
Q Consensus 69 ~~~~~C~~c~~~f~~~~~l~~h~r~~h~ 96 (96)
++ | |=.|++.|.....|.+|++..||
T Consensus 10 kp-w-cwycnrefddekiliqhqkakhf 35 (341)
T KOG2893|consen 10 KP-W-CWYCNREFDDEKILIQHQKAKHF 35 (341)
T ss_pred Cc-e-eeecccccchhhhhhhhhhhccc
Confidence 45 6 44699999999999999998876
No 125
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=47.52 E-value=16 Score=19.83 Aligned_cols=22 Identities=18% Similarity=0.418 Sum_probs=13.5
Q ss_pred eeCCCCCCCCCCchhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
|+|+.|...|-....+-.|...
T Consensus 82 y~C~~C~~~FC~dCD~fiHe~L 103 (112)
T TIGR00622 82 YVCAVCKNVFCVDCDVFVHESL 103 (112)
T ss_pred eeCCCCCCccccccchhhhhhc
Confidence 7777777777665555455443
No 126
>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=46.59 E-value=16 Score=24.94 Aligned_cols=28 Identities=21% Similarity=0.510 Sum_probs=21.4
Q ss_pred CCCCceeCCCCCCCCCCchhHHHHHhhcC
Q psy12015 67 GQEPKYQCPHCPHRSKHKAHLTTHMAIKH 95 (96)
Q Consensus 67 ~~~~~~~C~~c~~~f~~~~~l~~h~r~~h 95 (96)
.++= |.|+.|.+.|.....+..|+..-|
T Consensus 54 sWrF-WiCp~CskkF~d~~~~~~H~~~eH 81 (466)
T PF04780_consen 54 SWRF-WICPRCSKKFSDAESCLSHMEQEH 81 (466)
T ss_pred ceeE-eeCCcccceeCCHHHHHHHHHHhh
Confidence 3344 678889888999888888887655
No 127
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=46.53 E-value=12 Score=17.21 Aligned_cols=18 Identities=22% Similarity=0.676 Sum_probs=13.6
Q ss_pred cCeeeccccccccccchh
Q psy12015 40 HIDLKCDVCEKGYRYKTG 57 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~ 57 (96)
++++.|..||..|.....
T Consensus 2 Dk~l~C~dCg~~FvfTa~ 19 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAG 19 (49)
T ss_pred CeeEEcccCCCeEEEehh
Confidence 467889999988776543
No 128
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=46.35 E-value=7.7 Score=27.84 Aligned_cols=56 Identities=21% Similarity=0.423 Sum_probs=32.3
Q ss_pred ccccccccccchhhhhhhccccccccCeee-ccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 15 NTKLDFGVIRNSSVDKSLNTNVLTVHIDLK-CDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 15 ~~~~~~~~~~~~~~~~h~~~~~~~~~~~~~-c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
++.||-.|+--..+.=- |.++....|. |+.|.+.+....+- |.|. .+ ..|+.||..
T Consensus 126 CT~CGPRfTIi~alPYD---R~nTsM~~F~lC~~C~~EY~dP~nR----RfHA--Qp-~aCp~CGP~ 182 (750)
T COG0068 126 CTNCGPRFTIIEALPYD---RENTSMADFPLCPFCDKEYKDPLNR----RFHA--QP-IACPKCGPH 182 (750)
T ss_pred cCCCCcceeeeccCCCC---cccCccccCcCCHHHHHHhcCcccc----cccc--cc-ccCcccCCC
Confidence 35566666655444332 3444444444 88888777766553 2232 35 789999874
No 129
>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=46.22 E-value=6.3 Score=16.99 Aligned_cols=32 Identities=19% Similarity=0.570 Sum_probs=13.1
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
|.+|..|+..+.. ......+.+. |.|..|+..
T Consensus 2 p~rC~~C~aylNp------~~~~~~~~~~-w~C~~C~~~ 33 (40)
T PF04810_consen 2 PVRCRRCRAYLNP------FCQFDDGGKT-WICNFCGTK 33 (40)
T ss_dssp S-B-TTT--BS-T------TSEEETTTTE-EEETTT--E
T ss_pred ccccCCCCCEECC------cceEcCCCCE-EECcCCCCc
Confidence 3456666543322 2223334456 888888764
No 130
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=46.08 E-value=13 Score=20.45 Aligned_cols=33 Identities=18% Similarity=0.485 Sum_probs=18.7
Q ss_pred cCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
.....| .|+..|.....-..+ . .+.+.|+.||.
T Consensus 68 p~~~~C-~Cg~~~~~~~~~~~~----~--~~~~~CP~Cgs 100 (124)
T PRK00762 68 PVEIEC-ECGYEGVVDEDEIDH----Y--AAVIECPVCGN 100 (124)
T ss_pred CeeEEe-eCcCcccccccchhc----c--ccCCcCcCCCC
Confidence 335789 999877654211111 1 11157999984
No 131
>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=45.71 E-value=8 Score=17.74 Aligned_cols=13 Identities=23% Similarity=0.524 Sum_probs=6.4
Q ss_pred eeCCCCCCCCCCc
Q psy12015 72 YQCPHCPHRSKHK 84 (96)
Q Consensus 72 ~~C~~c~~~f~~~ 84 (96)
-.|++|++.|...
T Consensus 21 ~~CPlC~r~l~~e 33 (54)
T PF04423_consen 21 GCCPLCGRPLDEE 33 (54)
T ss_dssp EE-TTT--EE-HH
T ss_pred CcCCCCCCCCCHH
Confidence 3799999887654
No 132
>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=45.33 E-value=17 Score=15.39 Aligned_cols=19 Identities=26% Similarity=0.733 Sum_probs=9.9
Q ss_pred HHHHhhhhcCCCCceeCCCC
Q psy12015 58 LWRHKKFECGQEPKYQCPHC 77 (96)
Q Consensus 58 l~~h~~~~~~~~~~~~C~~c 77 (96)
+..|=....|... |.|..|
T Consensus 17 v~k~G~~~~G~qr-yrC~~C 35 (36)
T PF03811_consen 17 VKKNGKSPSGHQR-YRCKDC 35 (36)
T ss_pred ceeCCCCCCCCEe-EecCcC
Confidence 3344444455455 666655
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=43.98 E-value=11 Score=21.15 Aligned_cols=32 Identities=25% Similarity=0.732 Sum_probs=19.6
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSK 82 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~ 82 (96)
.|.|..|+..+. .+.+. .... |.|..|+..+.
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 577888887653 22232 2234 88998886543
No 134
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=43.83 E-value=27 Score=16.02 Aligned_cols=41 Identities=27% Similarity=0.575 Sum_probs=21.5
Q ss_pred cCeeeccc--cccccccchhHHHHhhhhcCCCCceeCCC----CCCCCC
Q psy12015 40 HIDLKCDV--CEKGYRYKTGLWRHKKFECGQEPKYQCPH----CPHRSK 82 (96)
Q Consensus 40 ~~~~~c~~--c~~~f~~~~~l~~h~~~~~~~~~~~~C~~----c~~~f~ 82 (96)
..+..|+. |...+. ...+..|....-..++ ..|+. |+..+.
T Consensus 7 ~~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~-v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 7 FRPVPCPNGCCNEMIP-RKELDDHLENECPKRP-VPCPYSPYGCKERVP 53 (60)
T ss_dssp TSEEE-TT--S-BEEE-CCCHHHHHHTTSTTSE-EE-SS----S--EEE
T ss_pred CCEeeCCCCCccccee-HHHHHHHHHccCCCCc-EECCCCCCCCCCccc
Confidence 34566766 333343 5567788876556555 77877 665443
No 135
>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=43.82 E-value=11 Score=17.13 Aligned_cols=10 Identities=30% Similarity=1.085 Sum_probs=3.7
Q ss_pred CCceeCCCCCC
Q psy12015 69 EPKYQCPHCPH 79 (96)
Q Consensus 69 ~~~~~C~~c~~ 79 (96)
.. |.|++|++
T Consensus 40 ~~-W~CPiC~~ 49 (50)
T PF02891_consen 40 PK-WKCPICNK 49 (50)
T ss_dssp ----B-TTT--
T ss_pred CC-eECcCCcC
Confidence 44 89999975
No 136
>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=43.17 E-value=11 Score=16.06 Aligned_cols=10 Identities=40% Similarity=1.132 Sum_probs=4.7
Q ss_pred eeCCCCCCCC
Q psy12015 72 YQCPHCPHRS 81 (96)
Q Consensus 72 ~~C~~c~~~f 81 (96)
|.|..||...
T Consensus 7 YkC~~CGniV 16 (36)
T PF06397_consen 7 YKCEHCGNIV 16 (36)
T ss_dssp EE-TTT--EE
T ss_pred EEccCCCCEE
Confidence 7777777643
No 137
>PLN02294 cytochrome c oxidase subunit Vb
Probab=43.10 E-value=12 Score=21.88 Aligned_cols=27 Identities=11% Similarity=0.185 Sum_probs=18.6
Q ss_pred hhhhhhhccccccccCeeeccccccccccc
Q psy12015 26 SSVDKSLNTNVLTVHIDLKCDVCEKGYRYK 55 (96)
Q Consensus 26 ~~~~~h~~~~~~~~~~~~~c~~c~~~f~~~ 55 (96)
+....++ ..+.| +|.+|..|+..|...
T Consensus 128 sh~v~Wf--~L~kG-kp~RCpeCG~~fkL~ 154 (174)
T PLN02294 128 EHDVVWF--WLEKG-KSFECPVCTQYFELE 154 (174)
T ss_pred CceeEEE--EecCC-CceeCCCCCCEEEEE
Confidence 3444455 45554 689999999988754
No 138
>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=41.91 E-value=11 Score=20.23 Aligned_cols=27 Identities=19% Similarity=0.616 Sum_probs=15.9
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
-...|..|+..|..... . +.|+.||..
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~-~~CP~Cgs~ 95 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDEF------------D-FSCPRCGSP 95 (113)
T ss_dssp -EEEETTTS-EEECHHC------------C-HH-SSSSSS
T ss_pred CcEECCCCCCEEecCCC------------C-CCCcCCcCC
Confidence 35789999988764321 2 458888764
No 139
>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=41.17 E-value=26 Score=15.90 Aligned_cols=9 Identities=22% Similarity=0.873 Sum_probs=3.6
Q ss_pred ecccccccc
Q psy12015 44 KCDVCEKGY 52 (96)
Q Consensus 44 ~c~~c~~~f 52 (96)
.|..||+.|
T Consensus 20 ~Cr~Cg~~~ 28 (57)
T cd00065 20 HCRNCGRIF 28 (57)
T ss_pred ccCcCcCCc
Confidence 344444433
No 140
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=40.61 E-value=15 Score=19.85 Aligned_cols=28 Identities=21% Similarity=0.562 Sum_probs=17.1
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
-...|..|+..|..... .. +.|+.||..
T Consensus 69 ~~~~C~~Cg~~~~~~~~-----------~~-~~CP~Cgs~ 96 (114)
T PRK03681 69 AECWCETCQQYVTLLTQ-----------RV-RRCPQCHGD 96 (114)
T ss_pred cEEEcccCCCeeecCCc-----------cC-CcCcCcCCC
Confidence 35789999975543211 12 568888853
No 141
>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=39.73 E-value=26 Score=16.71 Aligned_cols=14 Identities=21% Similarity=0.807 Sum_probs=10.0
Q ss_pred CCceeCCCCCCCCCC
Q psy12015 69 EPKYQCPHCPHRSKH 83 (96)
Q Consensus 69 ~~~~~C~~c~~~f~~ 83 (96)
+. |.|+.||.....
T Consensus 45 r~-~~C~~Cg~~~~r 58 (69)
T PF07282_consen 45 RV-FTCPNCGFEMDR 58 (69)
T ss_pred ce-EEcCCCCCEECc
Confidence 45 899999876443
No 142
>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 PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=39.51 E-value=38 Score=15.85 Aligned_cols=34 Identities=15% Similarity=0.256 Sum_probs=17.3
Q ss_pred ccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCC
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHC 77 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c 77 (96)
-+.|.....|+..|.....+ ... ..... ..|+.-
T Consensus 21 ~~~PV~s~~C~H~fek~aI~-~~i---~~~~~-~~CPv~ 54 (57)
T PF11789_consen 21 FEDPVKSKKCGHTFEKEAIL-QYI---QRNGS-KRCPVA 54 (57)
T ss_dssp -SSEEEESSS--EEEHHHHH-HHC---TTTS--EE-SCC
T ss_pred hhCCcCcCCCCCeecHHHHH-HHH---HhcCC-CCCCCC
Confidence 35678888888888765433 333 12234 788873
No 144
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=39.27 E-value=11 Score=20.05 Aligned_cols=38 Identities=11% Similarity=0.162 Sum_probs=21.9
Q ss_pred cCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCC
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSK 82 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~ 82 (96)
++.|.|..|+..-.....+..- ...-...|..||..|.
T Consensus 20 ~k~FtCp~Cghe~vs~ctvkk~-----~~~g~~~Cg~CGls~e 57 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVKKT-----VNIGTAVCGNCGLSFE 57 (104)
T ss_pred CceEecCccCCeeeeEEEEEec-----CceeEEEcccCcceEE
Confidence 4678999998755443332211 1111257888887664
No 145
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=39.01 E-value=32 Score=14.92 Aligned_cols=23 Identities=26% Similarity=0.404 Sum_probs=14.8
Q ss_pred eecccccccccc--chhHHHHhhhh
Q psy12015 43 LKCDVCEKGYRY--KTGLWRHKKFE 65 (96)
Q Consensus 43 ~~c~~c~~~f~~--~~~l~~h~~~~ 65 (96)
-.|..|+-.|.. .++...|.+-|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 468888865443 56666776654
No 146
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=38.79 E-value=17 Score=20.22 Aligned_cols=16 Identities=19% Similarity=0.584 Sum_probs=12.2
Q ss_pred CCCceeCCCCCCCCCCc
Q psy12015 68 QEPKYQCPHCPHRSKHK 84 (96)
Q Consensus 68 ~~~~~~C~~c~~~f~~~ 84 (96)
... |.|+.|++.|...
T Consensus 51 ~qR-yrC~~C~~tf~~~ 66 (129)
T COG3677 51 HQR-YKCKSCGSTFTVE 66 (129)
T ss_pred ccc-cccCCcCcceeee
Confidence 345 9999999988654
No 147
>KOG2231|consensus
Probab=38.18 E-value=29 Score=24.91 Aligned_cols=75 Identities=17% Similarity=0.196 Sum_probs=43.0
Q ss_pred cccccchhhhhhhccccccccCeeecccccccccc------chhHHHHhhhhcC-CC----CceeCCCCCCCCCCchhHH
Q psy12015 20 FGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRY------KTGLWRHKKFECG-QE----PKYQCPHCPHRSKHKAHLT 88 (96)
Q Consensus 20 ~~~~~~~~~~~h~~~~~~~~~~~~~c~~c~~~f~~------~~~l~~h~~~~~~-~~----~~~~C~~c~~~f~~~~~l~ 88 (96)
..|.....|+.|+. ..|..-....|..-.+.|.. ...|..|+..... ++ . -.|..|...|-....+.
T Consensus 122 ~~~~s~~~Lk~H~~-~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGh-p~C~~C~~~fld~~el~ 199 (669)
T KOG2231|consen 122 TEFKSVENLKNHMR-DQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGH-PLCKFCHERFLDDDELY 199 (669)
T ss_pred cchhHHHHHHHHHH-HhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCC-ccchhhhhhhccHHHHH
Confidence 45567788899982 33433222233221122222 3445566543211 11 1 25888999999999999
Q ss_pred HHHhhcCC
Q psy12015 89 THMAIKHY 96 (96)
Q Consensus 89 ~h~r~~h~ 96 (96)
+|.+.+|+
T Consensus 200 rH~~~~h~ 207 (669)
T KOG2231|consen 200 RHLRFDHE 207 (669)
T ss_pred Hhhcccee
Confidence 99998775
No 148
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=38.08 E-value=25 Score=19.75 Aligned_cols=32 Identities=22% Similarity=0.606 Sum_probs=18.7
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRS 81 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f 81 (96)
.|.|..|+..+. .+.+... ... |.|..|+..+
T Consensus 112 ~y~C~~C~~~~~------~~rr~~~-~~~-y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYL------RVRRSNN-VSR-YRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCc------eEccccC-cce-EEcCCCCCEE
Confidence 678888886543 2222111 144 8888887654
No 149
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=37.54 E-value=31 Score=25.11 Aligned_cols=9 Identities=33% Similarity=1.039 Sum_probs=6.3
Q ss_pred eeCCCCCCC
Q psy12015 72 YQCPHCPHR 80 (96)
Q Consensus 72 ~~C~~c~~~ 80 (96)
..|+.||..
T Consensus 476 ~~Cp~Cgs~ 484 (730)
T COG1198 476 QSCPECGSE 484 (730)
T ss_pred CCCCCCCCC
Confidence 777777754
No 150
>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=37.36 E-value=11 Score=22.59 Aligned_cols=27 Identities=19% Similarity=0.377 Sum_probs=0.0
Q ss_pred hcCCCCceeCCCCCC-CCCCchhHHHHHh
Q psy12015 65 ECGQEPKYQCPHCPH-RSKHKAHLTTHMA 92 (96)
Q Consensus 65 ~~~~~~~~~C~~c~~-~f~~~~~l~~h~r 92 (96)
|.-... |.|.+||. .+.=+.++.+|..
T Consensus 96 hGL~~e-y~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 96 HGLGVE-YKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp -----------------------------
T ss_pred hCCCCe-eeeEeCCCcceecHHHHHHhcC
Confidence 333456 89999985 3445556666543
No 151
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=36.77 E-value=13 Score=21.41 Aligned_cols=12 Identities=17% Similarity=0.484 Sum_probs=6.6
Q ss_pred eccccccccccc
Q psy12015 44 KCDVCEKGYRYK 55 (96)
Q Consensus 44 ~c~~c~~~f~~~ 55 (96)
+|..|+..|...
T Consensus 30 eC~~C~~RFTTf 41 (156)
T COG1327 30 ECLECGERFTTF 41 (156)
T ss_pred cccccccccchh
Confidence 456666555543
No 152
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=35.81 E-value=26 Score=23.17 Aligned_cols=28 Identities=14% Similarity=0.301 Sum_probs=19.3
Q ss_pred hhhcCCCCceeCCCCC-CCCCCchhHHHHH
Q psy12015 63 KFECGQEPKYQCPHCP-HRSKHKAHLTTHM 91 (96)
Q Consensus 63 ~~~~~~~~~~~C~~c~-~~f~~~~~l~~h~ 91 (96)
+.|.-++. |.|.+|| +.+.-+..+.+|.
T Consensus 367 klhgLd~e-f~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 367 KLHGLDIE-FECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred HhcCCCcc-eeeeecccccccchHHHHhhh
Confidence 45555677 9999998 5666666666654
No 153
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=35.62 E-value=32 Score=15.68 Aligned_cols=9 Identities=22% Similarity=0.862 Sum_probs=7.0
Q ss_pred eeCCCCCCC
Q psy12015 72 YQCPHCPHR 80 (96)
Q Consensus 72 ~~C~~c~~~ 80 (96)
+.|..||..
T Consensus 38 ~~C~~Cgyt 46 (50)
T PRK00432 38 WHCGKCGYT 46 (50)
T ss_pred EECCCcCCE
Confidence 888888864
No 154
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=35.53 E-value=32 Score=16.20 Aligned_cols=11 Identities=27% Similarity=0.939 Sum_probs=5.6
Q ss_pred cCeeecccccc
Q psy12015 40 HIDLKCDVCEK 50 (96)
Q Consensus 40 ~~~~~c~~c~~ 50 (96)
...|.|..||.
T Consensus 12 ~v~~~Cp~cGi 22 (55)
T PF13824_consen 12 HVNFECPDCGI 22 (55)
T ss_pred ccCCcCCCCCC
Confidence 33455555554
No 155
>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=35.40 E-value=32 Score=13.95 Aligned_cols=8 Identities=50% Similarity=1.410 Sum_probs=5.4
Q ss_pred eeCCCCCC
Q psy12015 72 YQCPHCPH 79 (96)
Q Consensus 72 ~~C~~c~~ 79 (96)
+.|+.|+.
T Consensus 20 ~vCp~C~~ 27 (30)
T PF08274_consen 20 LVCPECGH 27 (30)
T ss_dssp EEETTTTE
T ss_pred EeCCcccc
Confidence 77777764
No 156
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=35.10 E-value=52 Score=15.08 Aligned_cols=32 Identities=22% Similarity=0.499 Sum_probs=18.0
Q ss_pred eccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 44 KCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 44 ~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
.|..|.-...... ..+...+++. ..|+.||+.
T Consensus 24 ~C~gC~~~l~~~~----~~~i~~~~~i-~~Cp~CgRi 55 (56)
T PF02591_consen 24 TCSGCHMELPPQE----LNEIRKGDEI-VFCPNCGRI 55 (56)
T ss_pred ccCCCCEEcCHHH----HHHHHcCCCe-EECcCCCcc
Confidence 5777765544322 1223334455 789999874
No 157
>PF12907 zf-met2: Zinc-binding
Probab=34.86 E-value=15 Score=16.01 Aligned_cols=22 Identities=18% Similarity=0.386 Sum_probs=9.4
Q ss_pred eeCCCCCCCC---CCchhHHHHHhh
Q psy12015 72 YQCPHCPHRS---KHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f---~~~~~l~~h~r~ 93 (96)
+.|.+|...| .....|..|...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~en 26 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAEN 26 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHc
Confidence 3455554322 223345555443
No 158
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=33.66 E-value=23 Score=20.04 Aligned_cols=25 Identities=28% Similarity=0.397 Sum_probs=19.7
Q ss_pred eeccccccccccchhHHHHhhhhcCCCC
Q psy12015 43 LKCDVCEKGYRYKTGLWRHKKFECGQEP 70 (96)
Q Consensus 43 ~~c~~c~~~f~~~~~l~~h~~~~~~~~~ 70 (96)
..|-++|+.|.+ |.+|+.+|.|..|
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCCH
Confidence 458889998875 7899999888654
No 159
>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=32.07 E-value=26 Score=14.30 Aligned_cols=10 Identities=30% Similarity=0.859 Sum_probs=7.1
Q ss_pred eeCCCCCCCC
Q psy12015 72 YQCPHCPHRS 81 (96)
Q Consensus 72 ~~C~~c~~~f 81 (96)
|+|..||...
T Consensus 5 ykC~~CGniv 14 (34)
T cd00974 5 YKCEICGNIV 14 (34)
T ss_pred EEcCCCCcEE
Confidence 7788877654
No 160
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=31.97 E-value=11 Score=22.67 Aligned_cols=40 Identities=23% Similarity=0.391 Sum_probs=21.2
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCC--ceeCCCCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEP--KYQCPHCPHRSKH 83 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~--~~~C~~c~~~f~~ 83 (96)
...|+.|+..+.....+. .-.+.|+.- .+.|..||..+..
T Consensus 14 ~~~CPvCg~~l~~~~~~~--~IPyFG~V~i~t~~C~~CgYR~~D 55 (201)
T COG1779 14 RIDCPVCGGTLKAHMYLY--DIPYFGEVLISTGVCERCGYRSTD 55 (201)
T ss_pred eecCCcccceeeEEEeee--cCCccceEEEEEEEccccCCcccc
Confidence 456888887544332211 113444221 2568888877654
No 161
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=31.91 E-value=27 Score=14.25 Aligned_cols=10 Identities=30% Similarity=0.866 Sum_probs=7.1
Q ss_pred eeCCCCCCCC
Q psy12015 72 YQCPHCPHRS 81 (96)
Q Consensus 72 ~~C~~c~~~f 81 (96)
|+|..||..+
T Consensus 8 ykC~~Cgniv 17 (34)
T TIGR00319 8 YKCEVCGNIV 17 (34)
T ss_pred EEcCCCCcEE
Confidence 7788777654
No 162
>KOG0717|consensus
Probab=31.55 E-value=31 Score=23.73 Aligned_cols=22 Identities=23% Similarity=0.391 Sum_probs=18.4
Q ss_pred eeCCCCCCCCCCchhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
+.|.+|.+.|.+...+..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 6789999999999888888754
No 163
>PLN02748 tRNA dimethylallyltransferase
Probab=31.43 E-value=39 Score=23.21 Aligned_cols=24 Identities=17% Similarity=0.318 Sum_probs=18.4
Q ss_pred CCceeCCCCCC-CCCCchhHHHHHhh
Q psy12015 69 EPKYQCPHCPH-RSKHKAHLTTHMAI 93 (96)
Q Consensus 69 ~~~~~C~~c~~-~f~~~~~l~~h~r~ 93 (96)
+. |.|..|++ .+.-...+..|.+.
T Consensus 417 ~~-~~Ce~C~~~~~~G~~eW~~Hlks 441 (468)
T PLN02748 417 TQ-YVCEACGNKVLRGAHEWEQHKQG 441 (468)
T ss_pred cc-ccccCCCCcccCCHHHHHHHhcc
Confidence 44 78999997 68877778777764
No 164
>KOG0402|consensus
Probab=30.77 E-value=20 Score=18.39 Aligned_cols=31 Identities=23% Similarity=0.547 Sum_probs=18.8
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCC
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSK 82 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~ 82 (96)
..|.|..|++.- -.+.-.| . |.|..|.+.+.
T Consensus 35 aky~CsfCGK~~--------vKR~AvG--i-W~C~~C~kv~a 65 (92)
T KOG0402|consen 35 AKYTCSFCGKKT--------VKRKAVG--I-WKCGSCKKVVA 65 (92)
T ss_pred hhhhhhhcchhh--------hhhhcee--E-EecCCccceec
Confidence 358899998632 1122223 4 88988877653
No 165
>KOG2071|consensus
Probab=30.64 E-value=35 Score=24.08 Aligned_cols=23 Identities=30% Similarity=0.541 Sum_probs=18.0
Q ss_pred eeCCCCCCCCCCchhHHHHHhhc
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAIK 94 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~~ 94 (96)
-+|..||.+|........|+..|
T Consensus 419 nqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 419 NQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred chhcccccccccchhhhhHhhhh
Confidence 68999999998887766665544
No 166
>KOG2482|consensus
Probab=30.06 E-value=33 Score=22.64 Aligned_cols=22 Identities=27% Similarity=0.489 Sum_probs=20.1
Q ss_pred eeCCCCCCCCCCchhHHHHHhh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMAI 93 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r~ 93 (96)
+.|-.|.+.|+.+..|..|+|-
T Consensus 196 ~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred heeeeeccccCCcHHHHHHHHh
Confidence 6888999999999999999985
No 167
>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=29.70 E-value=27 Score=19.71 Aligned_cols=24 Identities=13% Similarity=0.195 Sum_probs=16.7
Q ss_pred hhhhccccccccCeeeccccccccccc
Q psy12015 29 DKSLNTNVLTVHIDLKCDVCEKGYRYK 55 (96)
Q Consensus 29 ~~h~~~~~~~~~~~~~c~~c~~~f~~~ 55 (96)
..++ ..+.+ ++.+|..|+..|...
T Consensus 102 v~W~--~l~~g-~~~RCpeCG~~fkL~ 125 (136)
T PF01215_consen 102 VIWF--WLHKG-KPQRCPECGQVFKLK 125 (136)
T ss_dssp -EEE--EEETT-SEEEETTTEEEEEEE
T ss_pred eEEE--EEeCC-CccCCCCCCeEEEEE
Confidence 3445 45555 589999999988754
No 168
>KOG4727|consensus
Probab=29.29 E-value=31 Score=20.36 Aligned_cols=21 Identities=24% Similarity=0.547 Sum_probs=17.5
Q ss_pred eeCCCCCCCCCCchhHHHHHh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMA 92 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r 92 (96)
|-|.+|+-.|....++-.|+.
T Consensus 76 yyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred eeeeecceeehhhHHHHHHhc
Confidence 889999999988888877764
No 169
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=29.28 E-value=54 Score=13.96 Aligned_cols=18 Identities=22% Similarity=0.353 Sum_probs=12.2
Q ss_pred eeCCCCCCCCCCchhHHH
Q psy12015 72 YQCPHCPHRSKHKAHLTT 89 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~ 89 (96)
..|+.|+..+-....+.+
T Consensus 20 d~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 20 DVCPSCGGIWFDAGELEK 37 (41)
T ss_pred EECCCCCeEEccHHHHHH
Confidence 667777777766666544
No 170
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=29.15 E-value=26 Score=16.74 Aligned_cols=10 Identities=50% Similarity=1.335 Sum_probs=6.8
Q ss_pred eeCCCCCCCCC
Q psy12015 72 YQCPHCPHRSK 82 (96)
Q Consensus 72 ~~C~~c~~~f~ 82 (96)
|.|+ ||..|.
T Consensus 23 yPCP-CGDRFe 32 (67)
T COG5216 23 YPCP-CGDRFE 32 (67)
T ss_pred ecCC-CCCEeE
Confidence 6676 777764
No 171
>KOG1994|consensus
Probab=29.12 E-value=30 Score=21.45 Aligned_cols=21 Identities=24% Similarity=0.534 Sum_probs=18.3
Q ss_pred CeeeccccccccccchhHHHH
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRH 61 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h 61 (96)
..|.|-.||..|....+|..|
T Consensus 238 eh~YC~fCG~~y~~~edl~eh 258 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEH 258 (268)
T ss_pred cceEEEEeccccCCHHHHHHh
Confidence 468999999999999998765
No 172
>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=28.82 E-value=27 Score=14.51 Aligned_cols=11 Identities=27% Similarity=0.881 Sum_probs=7.4
Q ss_pred eeCCCCCCCCC
Q psy12015 72 YQCPHCPHRSK 82 (96)
Q Consensus 72 ~~C~~c~~~f~ 82 (96)
+.|+.|++.+.
T Consensus 5 ~~C~nC~R~v~ 15 (33)
T PF08209_consen 5 VECPNCGRPVA 15 (33)
T ss_dssp EE-TTTSSEEE
T ss_pred EECCCCcCCcc
Confidence 78999987543
No 173
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.63 E-value=40 Score=16.25 Aligned_cols=44 Identities=20% Similarity=0.328 Sum_probs=25.8
Q ss_pred ccccccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 35 NVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 35 ~~~~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
.++.+..++.|+.-+-.+....-+. ..|++-.-.|+.|+..|..
T Consensus 17 ~I~~~~~~l~C~g~~~p~~HPrV~L-----~mg~~gev~CPYC~t~y~l 60 (62)
T COG4391 17 TIEIGDLPLMCPGPEPPNDHPRVFL-----DMGDEGEVVCPYCSTRYRL 60 (62)
T ss_pred EEEeCCeeEEcCCCCCCCCCCEEEE-----EcCCCCcEecCccccEEEe
Confidence 6677888899987665443322111 1132222579999987753
No 174
>PRK11032 hypothetical protein; Provisional
Probab=28.51 E-value=42 Score=19.50 Aligned_cols=35 Identities=23% Similarity=0.640 Sum_probs=20.7
Q ss_pred ccccccC----eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 35 NVLTVHI----DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 35 ~~~~~~~----~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
..++||. .+.|..|+..... .+.+..| .|+.||..
T Consensus 113 ~Y~sGEvvg~G~LvC~~Cg~~~~~---------~~p~~i~--pCp~C~~~ 151 (160)
T PRK11032 113 VYHSGEVVGLGNLVCEKCHHHLAF---------YTPEVLP--LCPKCGHD 151 (160)
T ss_pred eeecceeeecceEEecCCCCEEEe---------cCCCcCC--CCCCCCCC
Confidence 4455554 4789999875322 1233233 69999865
No 175
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=27.95 E-value=25 Score=18.44 Aligned_cols=29 Identities=24% Similarity=0.736 Sum_probs=19.5
Q ss_pred cCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
.+|..|..||..|.... + ++| -.|+.|..
T Consensus 56 v~Pa~CkkCGfef~~~~-i---------k~p-SRCP~CKS 84 (97)
T COG3357 56 VRPARCKKCGFEFRDDK-I---------KKP-SRCPKCKS 84 (97)
T ss_pred ecChhhcccCccccccc-c---------CCc-ccCCcchh
Confidence 35889999999886521 1 134 77887754
No 176
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=27.79 E-value=41 Score=14.44 Aligned_cols=10 Identities=50% Similarity=1.192 Sum_probs=6.8
Q ss_pred eeCCCCCCCC
Q psy12015 72 YQCPHCPHRS 81 (96)
Q Consensus 72 ~~C~~c~~~f 81 (96)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 6777777654
No 177
>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=27.73 E-value=28 Score=14.62 Aligned_cols=12 Identities=17% Similarity=0.517 Sum_probs=5.1
Q ss_pred eCCCCCCCCCCc
Q psy12015 73 QCPHCPHRSKHK 84 (96)
Q Consensus 73 ~C~~c~~~f~~~ 84 (96)
.|..|++.|..+
T Consensus 5 ~C~eC~~~f~dS 16 (34)
T PF01286_consen 5 KCDECGKPFMDS 16 (34)
T ss_dssp E-TTT--EES-S
T ss_pred hHhHhCCHHHHH
Confidence 567777766554
No 178
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=27.30 E-value=79 Score=18.54 Aligned_cols=19 Identities=26% Similarity=0.630 Sum_probs=14.5
Q ss_pred eeCCCCCCCCCCchhHHHH
Q psy12015 72 YQCPHCPHRSKHKAHLTTH 90 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h 90 (96)
+.|+.||+.|..-+.+.+-
T Consensus 131 ~~C~~CgkiYW~GsHw~~m 149 (165)
T COG1656 131 YRCPKCGKIYWKGSHWRRM 149 (165)
T ss_pred eECCCCcccccCchHHHHH
Confidence 6799999998777665443
No 179
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=27.25 E-value=50 Score=22.40 Aligned_cols=29 Identities=21% Similarity=0.690 Sum_probs=18.3
Q ss_pred eccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCCc
Q psy12015 44 KCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHK 84 (96)
Q Consensus 44 ~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~~ 84 (96)
.|+.|+....+. |..- |.|+.||..+...
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g-~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNG-FRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhc-----------CCCC-cccccccccCCcc
Confidence 577887654432 2223 8888888876654
No 180
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=26.62 E-value=54 Score=17.53 Aligned_cols=9 Identities=22% Similarity=0.715 Sum_probs=5.4
Q ss_pred eeecccccc
Q psy12015 42 DLKCDVCEK 50 (96)
Q Consensus 42 ~~~c~~c~~ 50 (96)
|-.|+-|+.
T Consensus 2 p~~CpYCg~ 10 (102)
T PF11672_consen 2 PIICPYCGG 10 (102)
T ss_pred CcccCCCCC
Confidence 455666665
No 181
>TIGR03829 YokU_near_AblA uncharacterized protein, YokU family. Members of this protein family occur in various species of the genus Bacillus, always next to the gene (kamA or ablA) for lysine 2,3-aminomutase. Members have a pair of CXXC motifs, and share homology to the amino-terminal region of a family of putative transcription factors for which the C-terminal is modeled by pfam01381, a helix-turn-helix domain model. This family, however, is shorter and lacks the helix-turn-helix region. The function of this protein family is unknown, but a regulatory role in compatible solute biosynthesis is suggested by local genome context.
Probab=26.28 E-value=48 Score=17.27 Aligned_cols=19 Identities=21% Similarity=0.642 Sum_probs=12.0
Q ss_pred CCceeCCCCCCCCCCchhH
Q psy12015 69 EPKYQCPHCPHRSKHKAHL 87 (96)
Q Consensus 69 ~~~~~C~~c~~~f~~~~~l 87 (96)
.|...|..||-.+-+...+
T Consensus 33 VPa~~C~~CGe~y~~dev~ 51 (89)
T TIGR03829 33 TPSISCSHCGMEYQDDTTV 51 (89)
T ss_pred CCcccccCCCcEeecHHHH
Confidence 4546777777776655444
No 182
>KOG4173|consensus
Probab=26.06 E-value=24 Score=21.52 Aligned_cols=19 Identities=21% Similarity=0.501 Sum_probs=9.0
Q ss_pred eCCCCCCCCCCchhHHHHH
Q psy12015 73 QCPHCPHRSKHKAHLTTHM 91 (96)
Q Consensus 73 ~C~~c~~~f~~~~~l~~h~ 91 (96)
.|..|.+.|++.-.|..|+
T Consensus 108 sCs~C~r~~Pt~hLLd~HI 126 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLDAHI 126 (253)
T ss_pred hhHHHHHhCCchhhhhHHH
Confidence 3445555555544444443
No 183
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.00 E-value=33 Score=19.17 Aligned_cols=12 Identities=25% Similarity=0.481 Sum_probs=8.1
Q ss_pred eeCCCCCCCCCC
Q psy12015 72 YQCPHCPHRSKH 83 (96)
Q Consensus 72 ~~C~~c~~~f~~ 83 (96)
--|..||+.|+.
T Consensus 69 sfchncgs~fpw 80 (160)
T COG4306 69 SFCHNCGSRFPW 80 (160)
T ss_pred chhhcCCCCCCc
Confidence 456777777765
No 184
>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=25.88 E-value=34 Score=19.58 Aligned_cols=13 Identities=23% Similarity=0.480 Sum_probs=10.7
Q ss_pred eeCCCCCCCCCCc
Q psy12015 72 YQCPHCPHRSKHK 84 (96)
Q Consensus 72 ~~C~~c~~~f~~~ 84 (96)
-+|..||+.|.+.
T Consensus 29 ReC~~C~~RFTTy 41 (147)
T TIGR00244 29 RECLECHERFTTF 41 (147)
T ss_pred ccCCccCCcccee
Confidence 5799999999775
No 185
>KOG2907|consensus
Probab=25.63 E-value=43 Score=18.31 Aligned_cols=40 Identities=23% Similarity=0.359 Sum_probs=21.9
Q ss_pred eeeccccccccccchhHHHHhhh-hcCCCCceeCCCCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKF-ECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~-~~~~~~~~~C~~c~~~f~~ 83 (96)
...|+.|+..=-. .-+..+|. ..|...=|.|..|+..|..
T Consensus 74 ~~kCpkCghe~m~--Y~T~QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 74 KHKCPKCGHEEMS--YHTLQLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred hccCcccCCchhh--hhhhhcccccCCceEEEEcCccceeeec
Confidence 4578888853111 11233343 3343333789999987765
No 186
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=25.47 E-value=31 Score=22.69 Aligned_cols=10 Identities=30% Similarity=1.155 Sum_probs=7.1
Q ss_pred eeCCCCCCCC
Q psy12015 72 YQCPHCPHRS 81 (96)
Q Consensus 72 ~~C~~c~~~f 81 (96)
+.|+.||..+
T Consensus 266 wrCpkCGg~i 275 (403)
T COG1379 266 WRCPKCGGKI 275 (403)
T ss_pred ccCcccccch
Confidence 6788887654
No 187
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=25.26 E-value=22 Score=20.54 Aligned_cols=13 Identities=15% Similarity=0.370 Sum_probs=8.9
Q ss_pred eeCCCCCCCCCCc
Q psy12015 72 YQCPHCPHRSKHK 84 (96)
Q Consensus 72 ~~C~~c~~~f~~~ 84 (96)
.-|..||+.|+.-
T Consensus 69 sYC~~CGkpyPWt 81 (158)
T PF10083_consen 69 SYCHNCGKPYPWT 81 (158)
T ss_pred hhHHhCCCCCchH
Confidence 6677777777653
No 188
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.20 E-value=23 Score=16.16 Aligned_cols=11 Identities=27% Similarity=0.827 Sum_probs=6.0
Q ss_pred CCCCCCCCCCc
Q psy12015 74 CPHCPHRSKHK 84 (96)
Q Consensus 74 C~~c~~~f~~~ 84 (96)
|+.|++-|...
T Consensus 15 CpvCqRPFsWR 25 (54)
T COG4338 15 CPVCQRPFSWR 25 (54)
T ss_pred hhhhcCchHHH
Confidence 55566555544
No 189
>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=24.17 E-value=62 Score=17.56 Aligned_cols=12 Identities=25% Similarity=0.634 Sum_probs=6.1
Q ss_pred eeeccccccccc
Q psy12015 42 DLKCDVCEKGYR 53 (96)
Q Consensus 42 ~~~c~~c~~~f~ 53 (96)
.+.|+.|+..+.
T Consensus 19 ~~iCpeC~~EW~ 30 (109)
T TIGR00686 19 QLICPSCLYEWN 30 (109)
T ss_pred eeECcccccccc
Confidence 355555554443
No 190
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=23.61 E-value=50 Score=12.28 Aligned_cols=6 Identities=50% Similarity=1.658 Sum_probs=3.2
Q ss_pred CCCCCC
Q psy12015 74 CPHCPH 79 (96)
Q Consensus 74 C~~c~~ 79 (96)
|+.||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 555554
No 191
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=23.34 E-value=39 Score=20.93 Aligned_cols=16 Identities=13% Similarity=0.436 Sum_probs=13.0
Q ss_pred cCeeeccccccccccc
Q psy12015 40 HIDLKCDVCEKGYRYK 55 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~ 55 (96)
.++.+|..||..|...
T Consensus 179 GkpqRCpECGqVFKLV 194 (268)
T PTZ00043 179 GFLYRCGECDQIFMLV 194 (268)
T ss_pred CCCccCCCCCcEEEEE
Confidence 4589999999988753
No 192
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=23.25 E-value=52 Score=15.51 Aligned_cols=12 Identities=25% Similarity=0.708 Sum_probs=7.9
Q ss_pred eCCCCCCCCCCc
Q psy12015 73 QCPHCPHRSKHK 84 (96)
Q Consensus 73 ~C~~c~~~f~~~ 84 (96)
.|+.|++.|...
T Consensus 41 gCPfC~~~~~~~ 52 (55)
T PF14447_consen 41 GCPFCGTPFEFD 52 (55)
T ss_pred CCCCCCCcccCC
Confidence 477787776544
No 193
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=23.15 E-value=69 Score=17.03 Aligned_cols=35 Identities=14% Similarity=0.326 Sum_probs=19.6
Q ss_pred CeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 41 IDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 41 ~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
.-+.|..|+. ....-.+.. +.-. ..|..||..+..
T Consensus 20 t~f~CP~Cge-~~v~v~~~k------~~~h-~~C~~CG~y~~~ 54 (99)
T PRK14892 20 KIFECPRCGK-VSISVKIKK------NIAI-ITCGNCGLYTEF 54 (99)
T ss_pred cEeECCCCCC-eEeeeecCC------Ccce-EECCCCCCccCE
Confidence 4688999984 222211211 3223 679999876544
No 194
>PHA02998 RNA polymerase subunit; Provisional
Probab=22.98 E-value=36 Score=20.26 Aligned_cols=39 Identities=18% Similarity=0.415 Sum_probs=20.8
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCc---eeCCCCCCCCCCc
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPK---YQCPHCPHRSKHK 84 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~---~~C~~c~~~f~~~ 84 (96)
...|+.|+..=.... ..+.| ..++|+ |.|..||..|.-+
T Consensus 143 ~v~CPkCg~~~A~f~--qlQTR--SADEPmT~FYkC~~CG~~wkpp 184 (195)
T PHA02998 143 NTPCPNCKSKNTTPM--MIQTR--AADEPPLVRHACRDCKKHFKPP 184 (195)
T ss_pred CCCCCCCCCCceEEE--EEeec--cCCCCceEEEEcCCCCCccCCc
Confidence 356888875322211 12222 333332 7899999877544
No 195
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=22.11 E-value=1.2e+02 Score=18.39 Aligned_cols=16 Identities=31% Similarity=0.746 Sum_probs=10.6
Q ss_pred CCCCceeCCCCCCCCC
Q psy12015 67 GQEPKYQCPHCPHRSK 82 (96)
Q Consensus 67 ~~~~~~~C~~c~~~f~ 82 (96)
|..+...|..||..++
T Consensus 26 g~~~lvrC~eCG~V~~ 41 (201)
T COG1326 26 GREPLVRCEECGTVHP 41 (201)
T ss_pred CCceEEEccCCCcEee
Confidence 3344578888887663
No 196
>PF14369 zf-RING_3: zinc-finger
Probab=21.94 E-value=49 Score=13.80 Aligned_cols=32 Identities=19% Similarity=0.424 Sum_probs=17.5
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
.|.|..|.+....... +... ..|+.|+..|..
T Consensus 2 ~ywCh~C~~~V~~~~~---------~~~~-~~CP~C~~gFvE 33 (35)
T PF14369_consen 2 RYWCHQCNRFVRIAPS---------PDSD-VACPRCHGGFVE 33 (35)
T ss_pred CEeCccCCCEeEeCcC---------CCCC-cCCcCCCCcEeE
Confidence 4667777765432111 1122 248889887753
No 197
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=21.72 E-value=46 Score=23.30 Aligned_cols=41 Identities=22% Similarity=0.400 Sum_probs=22.9
Q ss_pred eeccccccccccch-hHHHHhhhhcCCCCceeCCCCCCCCCCc
Q psy12015 43 LKCDVCEKGYRYKT-GLWRHKKFECGQEPKYQCPHCPHRSKHK 84 (96)
Q Consensus 43 ~~c~~c~~~f~~~~-~l~~h~~~~~~~~~~~~C~~c~~~f~~~ 84 (96)
..|+.|+..+.... ++............ |.|+.||......
T Consensus 201 vpCPhCg~~~~l~~~~l~w~~~~~~~~a~-y~C~~Cg~~i~e~ 242 (557)
T PF05876_consen 201 VPCPHCGEEQVLEWENLKWDKGEAPETAR-YVCPHCGCEIEEH 242 (557)
T ss_pred ccCCCCCCCccccccceeecCCCCccceE-EECCCCcCCCCHH
Confidence 45999998766542 22221000112233 8999999876543
No 198
>KOG0978|consensus
Probab=21.66 E-value=38 Score=24.51 Aligned_cols=17 Identities=18% Similarity=0.399 Sum_probs=13.2
Q ss_pred eeCCCCCCCCCCchhHH
Q psy12015 72 YQCPHCPHRSKHKAHLT 88 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~ 88 (96)
-.||.|+..|...+...
T Consensus 679 RKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 679 RKCPKCNAAFGANDVHR 695 (698)
T ss_pred CCCCCCCCCCCcccccc
Confidence 46999999998776543
No 199
>PRK10220 hypothetical protein; Provisional
Probab=21.43 E-value=88 Score=17.03 Aligned_cols=12 Identities=17% Similarity=0.542 Sum_probs=6.3
Q ss_pred eeeccccccccc
Q psy12015 42 DLKCDVCEKGYR 53 (96)
Q Consensus 42 ~~~c~~c~~~f~ 53 (96)
.+.|+.|+..+.
T Consensus 20 ~~vCpeC~hEW~ 31 (111)
T PRK10220 20 MYICPECAHEWN 31 (111)
T ss_pred eEECCcccCcCC
Confidence 455666655443
No 200
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=21.33 E-value=77 Score=18.78 Aligned_cols=36 Identities=25% Similarity=0.663 Sum_probs=23.1
Q ss_pred cccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCCCCC
Q psy12015 38 TVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKH 83 (96)
Q Consensus 38 ~~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~f~~ 83 (96)
+++.-|.|+.|.-.++..... ..+ |.|+.||.....
T Consensus 109 ~~~~~y~C~~~~~r~sfdeA~------~~~----F~Cp~Cg~~L~~ 144 (176)
T COG1675 109 TENNYYVCPNCHVKYSFDEAM------ELG----FTCPKCGEDLEE 144 (176)
T ss_pred ccCCceeCCCCCCcccHHHHH------HhC----CCCCCCCchhhh
Confidence 345568898887776654332 223 889999976433
No 201
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=21.25 E-value=56 Score=14.42 Aligned_cols=12 Identities=17% Similarity=0.564 Sum_probs=9.4
Q ss_pred eeCCCCCCCCCC
Q psy12015 72 YQCPHCPHRSKH 83 (96)
Q Consensus 72 ~~C~~c~~~f~~ 83 (96)
+.|+.||..+.-
T Consensus 21 ~vC~~Cg~~~~~ 32 (52)
T smart00661 21 FVCRKCGYEEPI 32 (52)
T ss_pred EECCcCCCeEEC
Confidence 899999976544
No 202
>KOG0227|consensus
Probab=21.22 E-value=54 Score=19.80 Aligned_cols=16 Identities=19% Similarity=0.594 Sum_probs=7.1
Q ss_pred eeCCCCCCCCCCchhH
Q psy12015 72 YQCPHCPHRSKHKAHL 87 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l 87 (96)
|+|..|...-.+..+.
T Consensus 54 yeCkLClT~H~ne~Sy 69 (222)
T KOG0227|consen 54 YECKLCLTLHNNEGSY 69 (222)
T ss_pred eeehhhhhhhcchhhh
Confidence 4555554443333333
No 203
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.16 E-value=64 Score=20.27 Aligned_cols=14 Identities=21% Similarity=0.788 Sum_probs=9.4
Q ss_pred CCceeCCCCCCCCCC
Q psy12015 69 EPKYQCPHCPHRSKH 83 (96)
Q Consensus 69 ~~~~~C~~c~~~f~~ 83 (96)
+. |.|+.||..+..
T Consensus 321 r~-~~C~~cg~~~~r 334 (364)
T COG0675 321 RL-FKCPRCGFVHDR 334 (364)
T ss_pred ee-EECCCCCCeehh
Confidence 44 888888875433
No 204
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=21.02 E-value=46 Score=18.01 Aligned_cols=25 Identities=24% Similarity=0.290 Sum_probs=20.0
Q ss_pred ccCeeeccccccccccchhHHHHhh
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRHKK 63 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h~~ 63 (96)
|--.+.|-.|.+.|.....|..|.+
T Consensus 52 GlGqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 52 GLGQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred CCceeeeehhHHHHHHHHHHHHHhc
Confidence 3335779999999999888888876
No 205
>PRK12722 transcriptional activator FlhC; Provisional
Probab=20.93 E-value=76 Score=19.01 Aligned_cols=29 Identities=14% Similarity=0.369 Sum_probs=17.9
Q ss_pred eeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 42 DLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 42 ~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
...|..|+..|..... ..... |.|+.|..
T Consensus 134 l~~C~~Cgg~fv~~~~--------e~~~~-f~CplC~~ 162 (187)
T PRK12722 134 LSSCNCCGGHFVTHAH--------DPVGS-FVCGLCQP 162 (187)
T ss_pred eccCCCCCCCeecccc--------ccCCC-CcCCCCCC
Confidence 3558888887764321 22234 88988864
No 206
>KOG3507|consensus
Probab=20.28 E-value=1e+02 Score=14.81 Aligned_cols=29 Identities=21% Similarity=0.547 Sum_probs=18.0
Q ss_pred cCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCCC
Q psy12015 40 HIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHR 80 (96)
Q Consensus 40 ~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~~ 80 (96)
...|.|..|+..-. ...+ .. +.|..||..
T Consensus 18 ~miYiCgdC~~en~----------lk~~-D~-irCReCG~R 46 (62)
T KOG3507|consen 18 TMIYICGDCGQENT----------LKRG-DV-IRCRECGYR 46 (62)
T ss_pred cEEEEecccccccc----------ccCC-Cc-EehhhcchH
Confidence 34688888875321 1122 45 899999864
No 207
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=20.24 E-value=96 Score=19.43 Aligned_cols=36 Identities=22% Similarity=0.521 Sum_probs=20.4
Q ss_pred ccCeeeccccccccccchhHHHHhhhhcCCCCceeCCCCCC
Q psy12015 39 VHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPH 79 (96)
Q Consensus 39 ~~~~~~c~~c~~~f~~~~~l~~h~~~~~~~~~~~~C~~c~~ 79 (96)
.-....|..|+..+.... +... ...+ .+ -.|+.||.
T Consensus 119 sl~~~~C~~C~~~~~~~~-~~~~--~~~~-~~-p~C~~Cg~ 154 (250)
T COG0846 119 SLKRVRCSKCGNQYYDED-VIKF--IEDG-LI-PRCPKCGG 154 (250)
T ss_pred ceeeeEeCCCcCccchhh-hhhh--cccC-CC-CcCccCCC
Confidence 345678999988776433 1111 1122 23 37888987
No 208
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=20.07 E-value=1e+02 Score=19.90 Aligned_cols=21 Identities=33% Similarity=0.649 Sum_probs=17.5
Q ss_pred eeCCCCCCCCCCchhHHHHHh
Q psy12015 72 YQCPHCPHRSKHKAHLTTHMA 92 (96)
Q Consensus 72 ~~C~~c~~~f~~~~~l~~h~r 92 (96)
|.|..|-+-|.....+.+|+.
T Consensus 49 yiCe~Clky~~~~~~l~~H~~ 69 (290)
T PLN03238 49 YICEYCLKYMRKKKSLLRHLA 69 (290)
T ss_pred EEcCCCcchhCCHHHHHHHHH
Confidence 888888888888888888875
Done!