Query psy10080
Match_columns 101
No_of_seqs 110 out of 2280
Neff 10.7
Searched_HMMs 46136
Date Fri Aug 16 17:26:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10080.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10080hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.6 3.3E-16 7.2E-21 94.8 4.0 60 41-101 186-245 (279)
2 KOG2462|consensus 99.6 3.4E-16 7.3E-21 94.8 2.6 64 28-92 201-264 (279)
3 KOG3623|consensus 99.4 1.4E-14 3.1E-19 97.3 -0.3 60 41-101 893-952 (1007)
4 KOG3623|consensus 99.4 1.6E-13 3.4E-18 92.4 4.2 65 28-93 908-972 (1007)
5 KOG3576|consensus 99.2 6E-13 1.3E-17 78.0 -1.0 65 31-96 134-198 (267)
6 KOG3576|consensus 99.1 5.3E-11 1.2E-15 69.9 1.3 69 32-101 107-175 (267)
7 KOG1074|consensus 99.0 3.2E-11 7E-16 82.4 0.3 58 41-99 352-409 (958)
8 PHA02768 hypothetical protein; 99.0 1E-10 2.3E-15 55.2 1.3 44 42-88 5-48 (55)
9 PHA00733 hypothetical protein 99.0 1.2E-09 2.6E-14 60.8 4.7 56 38-96 69-124 (128)
10 KOG1074|consensus 98.9 5.1E-10 1.1E-14 76.8 1.2 53 42-95 605-657 (958)
11 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.5E-08 3.3E-13 41.1 2.4 26 57-83 1-26 (26)
12 PHA00616 hypothetical protein 98.7 1.6E-08 3.4E-13 45.7 1.9 34 42-76 1-34 (44)
13 PHA00616 hypothetical protein 98.6 2.8E-08 6E-13 44.9 2.0 30 71-100 1-30 (44)
14 PHA00732 hypothetical protein 98.5 4.9E-08 1.1E-12 49.9 2.0 45 42-93 1-46 (79)
15 KOG3993|consensus 98.4 1.8E-07 3.9E-12 60.5 2.2 56 42-97 295-382 (500)
16 PF05605 zf-Di19: Drought indu 98.4 7.8E-07 1.7E-11 42.3 3.9 52 42-96 2-54 (54)
17 KOG3608|consensus 98.4 3.6E-07 7.8E-12 58.1 3.2 57 41-100 236-293 (467)
18 PHA02768 hypothetical protein; 98.3 4.6E-07 9.9E-12 42.9 2.3 25 71-95 5-29 (55)
19 KOG3608|consensus 98.3 1.4E-06 2.9E-11 55.6 4.1 53 42-95 263-316 (467)
20 PF00096 zf-C2H2: Zinc finger, 98.2 1.8E-06 4E-11 33.7 2.4 22 72-93 1-22 (23)
21 PHA00733 hypothetical protein 98.1 2.5E-06 5.4E-11 47.6 2.7 56 40-96 38-98 (128)
22 PF00096 zf-C2H2: Zinc finger, 98.1 2.4E-06 5.1E-11 33.4 1.6 23 43-65 1-23 (23)
23 PF13465 zf-H2C2_2: Zinc-finge 98.0 4.5E-07 9.7E-12 36.7 -0.9 23 32-54 4-26 (26)
24 PF09237 GAGA: GAGA factor; I 98.0 6E-06 1.3E-10 38.2 2.6 35 65-99 18-52 (54)
25 PF13912 zf-C2H2_6: C2H2-type 97.9 6.2E-06 1.3E-10 33.5 1.6 24 72-95 2-25 (27)
26 PF13894 zf-C2H2_4: C2H2-type 97.9 1.5E-05 3.3E-10 31.0 2.6 23 72-94 1-23 (24)
27 PF13912 zf-C2H2_6: C2H2-type 97.9 7.2E-06 1.6E-10 33.3 1.4 26 42-67 1-26 (27)
28 PLN03086 PRLI-interacting fact 97.8 2.5E-05 5.4E-10 53.0 3.8 51 42-98 453-503 (567)
29 COG5189 SFP1 Putative transcri 97.6 2.5E-05 5.5E-10 49.3 1.5 53 40-92 347-419 (423)
30 PF13894 zf-C2H2_4: C2H2-type 97.6 6.7E-05 1.5E-09 29.1 1.8 23 43-65 1-23 (24)
31 PLN03086 PRLI-interacting fact 97.6 0.00011 2.3E-09 50.1 3.7 55 41-99 477-541 (567)
32 smart00355 ZnF_C2H2 zinc finge 97.5 0.00013 2.9E-09 28.6 2.4 22 73-94 2-23 (26)
33 PF12756 zf-C2H2_2: C2H2 type 97.3 0.00032 6.9E-09 36.9 2.8 24 71-94 50-73 (100)
34 smart00355 ZnF_C2H2 zinc finge 97.3 0.00031 6.7E-09 27.5 2.0 24 43-66 1-24 (26)
35 PF09237 GAGA: GAGA factor; I 97.2 0.00068 1.5E-08 31.5 3.1 35 36-71 18-52 (54)
36 PRK04860 hypothetical protein; 97.0 0.00049 1.1E-08 39.8 1.9 39 41-84 118-156 (160)
37 PF13909 zf-H2C2_5: C2H2-type 97.0 0.00095 2.1E-08 26.1 2.2 23 72-95 1-23 (24)
38 PHA00732 hypothetical protein 97.0 0.00084 1.8E-08 34.4 2.4 26 71-96 1-27 (79)
39 PF12874 zf-met: Zinc-finger o 96.9 0.00077 1.7E-08 26.5 1.7 22 72-93 1-22 (25)
40 PF12874 zf-met: Zinc-finger o 96.8 0.0011 2.4E-08 26.1 1.5 23 43-65 1-23 (25)
41 KOG3993|consensus 96.4 0.00085 1.8E-08 44.1 -0.1 53 42-95 267-319 (500)
42 PF12171 zf-C2H2_jaz: Zinc-fin 95.9 0.0042 9.2E-08 24.9 1.0 21 43-63 2-22 (27)
43 PF13913 zf-C2HC_2: zinc-finge 95.7 0.012 2.7E-07 23.3 1.9 20 73-93 4-23 (25)
44 smart00451 ZnF_U1 U1-like zinc 94.6 0.034 7.3E-07 23.5 1.8 22 71-92 3-24 (35)
45 COG5048 FOG: Zn-finger [Genera 94.2 0.0082 1.8E-07 39.1 -1.0 58 41-99 288-351 (467)
46 KOG2186|consensus 94.0 0.026 5.7E-07 35.0 1.0 49 43-95 4-52 (276)
47 PRK04860 hypothetical protein; 92.9 0.079 1.7E-06 30.8 1.8 26 71-100 119-144 (160)
48 KOG1146|consensus 92.1 0.2 4.4E-06 37.9 3.3 57 36-92 459-539 (1406)
49 KOG2893|consensus 92.1 0.042 9.2E-07 33.9 -0.0 42 44-90 12-53 (341)
50 PF09845 DUF2072: Zn-ribbon co 91.8 0.1 2.2E-06 29.2 1.2 15 42-56 1-15 (131)
51 PF12756 zf-C2H2_2: C2H2 type 91.8 0.15 3.2E-06 26.5 1.9 24 42-65 50-73 (100)
52 COG1592 Rubrerythrin [Energy p 90.8 0.12 2.5E-06 30.3 0.9 23 42-78 134-156 (166)
53 COG4049 Uncharacterized protei 90.7 0.22 4.7E-06 23.7 1.6 30 34-63 9-38 (65)
54 cd00350 rubredoxin_like Rubred 90.1 0.14 3.1E-06 21.5 0.7 24 43-79 2-25 (33)
55 PF09986 DUF2225: Uncharacteri 89.5 0.073 1.6E-06 32.4 -0.7 43 41-84 4-61 (214)
56 cd00729 rubredoxin_SM Rubredox 89.5 0.15 3.2E-06 21.7 0.5 25 42-79 2-26 (34)
57 TIGR02098 MJ0042_CXXC MJ0042 f 88.7 0.27 5.8E-06 21.2 1.0 34 43-82 3-36 (38)
58 PF09538 FYDLN_acid: Protein o 88.6 0.24 5.2E-06 27.0 1.0 30 43-84 10-39 (108)
59 COG5189 SFP1 Putative transcri 87.7 0.13 2.9E-06 33.1 -0.4 24 40-63 396-419 (423)
60 PF13719 zinc_ribbon_5: zinc-r 87.6 0.41 9E-06 20.7 1.3 34 43-82 3-36 (37)
61 COG3357 Predicted transcriptio 86.5 0.3 6.5E-06 25.6 0.6 27 41-78 57-83 (97)
62 COG1997 RPL43A Ribosomal prote 85.6 0.31 6.8E-06 25.3 0.4 31 41-82 34-64 (89)
63 PRK00398 rpoP DNA-directed RNA 85.1 0.33 7.2E-06 22.0 0.3 29 42-81 3-31 (46)
64 PF04959 ARS2: Arsenite-resist 85.1 0.46 1E-05 29.0 1.0 27 71-97 77-103 (214)
65 KOG2785|consensus 84.7 3 6.4E-05 27.8 4.5 53 41-93 165-242 (390)
66 PF10571 UPF0547: Uncharacteri 84.6 0.61 1.3E-05 18.6 0.9 10 73-82 16-25 (26)
67 PF09963 DUF2197: Uncharacteri 83.4 0.91 2E-05 21.7 1.4 52 44-99 4-55 (56)
68 PRK14890 putative Zn-ribbon RN 83.3 1 2.2E-05 21.7 1.5 32 42-79 25-56 (59)
69 COG3364 Zn-ribbon containing p 82.9 0.69 1.5E-05 24.8 1.0 15 42-56 2-16 (112)
70 PF05443 ROS_MUCR: ROS/MUCR tr 82.8 0.86 1.9E-05 25.8 1.4 24 71-97 72-95 (132)
71 smart00614 ZnF_BED BED zinc fi 82.5 1.4 3.1E-05 20.2 1.9 8 85-92 37-44 (50)
72 TIGR02300 FYDLN_acid conserved 81.6 0.82 1.8E-05 25.6 1.0 30 43-84 10-39 (129)
73 PF13717 zinc_ribbon_4: zinc-r 81.5 1.2 2.5E-05 19.2 1.3 33 43-81 3-35 (36)
74 PF12013 DUF3505: Protein of u 80.9 2 4.3E-05 23.2 2.3 25 72-96 81-109 (109)
75 COG2888 Predicted Zn-ribbon RN 80.9 0.83 1.8E-05 22.0 0.7 31 42-78 27-57 (61)
76 smart00531 TFIIE Transcription 80.6 1 2.2E-05 25.8 1.2 38 40-82 97-134 (147)
77 PRK00464 nrdR transcriptional 80.0 0.31 6.8E-06 28.2 -1.0 12 43-54 29-40 (154)
78 PHA00626 hypothetical protein 79.5 0.67 1.4E-05 22.1 0.2 12 71-82 23-34 (59)
79 PRK06266 transcription initiat 77.8 1.2 2.7E-05 26.4 1.0 32 41-82 116-147 (178)
80 TIGR00373 conserved hypothetic 77.4 1.2 2.6E-05 25.9 0.8 32 40-81 107-138 (158)
81 smart00659 RPOLCX RNA polymera 77.4 1.3 2.8E-05 20.0 0.8 26 43-80 3-28 (44)
82 smart00734 ZnF_Rad18 Rad18-lik 77.0 3.2 6.8E-05 16.4 1.8 19 73-92 3-21 (26)
83 COG1996 RPC10 DNA-directed RNA 75.2 1.5 3.2E-05 20.4 0.6 29 41-80 5-33 (49)
84 KOG4167|consensus 73.9 0.88 1.9E-05 32.7 -0.3 25 71-95 792-816 (907)
85 PF02892 zf-BED: BED zinc fing 73.1 5.3 0.00011 17.6 2.3 20 72-91 17-40 (45)
86 PF03604 DNA_RNApol_7kD: DNA d 72.7 1.9 4.1E-05 18.1 0.6 10 71-80 17-26 (32)
87 PF14353 CpXC: CpXC protein 72.5 2.4 5.3E-05 23.5 1.3 11 71-81 38-48 (128)
88 PF08790 zf-LYAR: LYAR-type C2 71.9 0.91 2E-05 18.5 -0.4 8 74-81 3-10 (28)
89 KOG1146|consensus 70.9 3.2 7E-05 32.0 1.8 57 40-97 1282-1354(1406)
90 PRK09678 DNA-binding transcrip 67.6 1.6 3.6E-05 21.9 -0.1 11 71-81 27-39 (72)
91 KOG3408|consensus 66.8 3.9 8.5E-05 22.8 1.2 21 72-92 58-78 (129)
92 COG4896 Uncharacterized protei 64.8 6.8 0.00015 19.1 1.7 9 70-78 30-38 (68)
93 PF13451 zf-trcl: Probable zin 63.9 4.2 9E-05 18.9 0.9 16 41-56 3-18 (49)
94 PF13878 zf-C2H2_3: zinc-finge 62.0 13 0.00028 16.4 2.3 9 44-52 15-23 (41)
95 PF07754 DUF1610: Domain of un 61.9 3.3 7.1E-05 16.2 0.3 10 41-50 15-24 (24)
96 KOG4167|consensus 61.6 2.6 5.7E-05 30.5 -0.0 26 42-67 792-817 (907)
97 PF01780 Ribosomal_L37ae: Ribo 61.0 2.2 4.8E-05 22.4 -0.3 30 41-81 34-63 (90)
98 PRK03824 hypA hydrogenase nick 60.9 2.6 5.7E-05 23.8 -0.1 16 40-55 68-83 (135)
99 COG4957 Predicted transcriptio 60.8 8 0.00017 22.0 1.8 23 72-97 77-99 (148)
100 smart00834 CxxC_CXXC_SSSS Puta 60.5 3.2 7E-05 17.8 0.2 31 42-80 5-35 (41)
101 PTZ00255 60S ribosomal protein 57.9 3.7 8.1E-05 21.6 0.2 31 41-82 35-65 (90)
102 COG4530 Uncharacterized protei 56.5 5.3 0.00011 21.9 0.6 11 71-81 26-36 (129)
103 PF02146 SIR2: Sir2 family; I 56.3 5.1 0.00011 23.5 0.6 49 27-80 90-138 (178)
104 TIGR00280 L37a ribosomal prote 56.1 3.6 7.8E-05 21.7 -0.1 31 41-82 34-64 (91)
105 PF07975 C1_4: TFIIH C1-like d 55.7 3.4 7.3E-05 19.3 -0.2 27 40-66 19-45 (51)
106 COG5048 FOG: Zn-finger [Genera 55.1 8.2 0.00018 25.2 1.5 57 39-96 30-88 (467)
107 PLN02294 cytochrome c oxidase 54.9 9.6 0.00021 22.6 1.5 11 71-81 141-151 (174)
108 PF09723 Zn-ribbon_8: Zinc rib 54.7 4.4 9.5E-05 17.9 0.1 30 42-79 5-34 (42)
109 KOG2593|consensus 54.2 8.9 0.00019 26.1 1.5 36 40-79 126-161 (436)
110 KOG4173|consensus 53.7 7.9 0.00017 23.8 1.1 47 44-91 108-166 (253)
111 PF10013 DUF2256: Uncharacteri 52.1 10 0.00022 17.0 1.1 17 72-88 9-25 (42)
112 PF05191 ADK_lid: Adenylate ki 52.1 3.8 8.3E-05 17.6 -0.3 31 43-82 2-32 (36)
113 COG4306 Uncharacterized protei 52.1 2.5 5.4E-05 23.7 -1.1 15 70-84 67-81 (160)
114 COG1571 Predicted DNA-binding 51.7 7.9 0.00017 26.3 0.9 29 44-84 352-380 (421)
115 cd00924 Cyt_c_Oxidase_Vb Cytoc 51.4 5.9 0.00013 21.2 0.3 17 37-54 75-91 (97)
116 PRK03976 rpl37ae 50S ribosomal 50.8 4.7 0.0001 21.2 -0.1 31 41-82 35-65 (90)
117 smart00154 ZnF_AN1 AN1-like Zi 50.3 7 0.00015 17.0 0.4 14 42-55 12-25 (39)
118 PRK12380 hydrogenase nickel in 50.3 7.5 0.00016 21.3 0.6 27 40-79 68-94 (113)
119 KOG0717|consensus 50.0 11 0.00024 26.0 1.5 21 72-92 293-313 (508)
120 PF04423 Rad50_zn_hook: Rad50 49.8 6.6 0.00014 18.3 0.3 12 73-84 22-33 (54)
121 TIGR00100 hypA hydrogenase nic 49.6 8.1 0.00018 21.2 0.7 27 41-80 69-95 (115)
122 PRK03681 hypA hydrogenase nick 49.2 7.2 0.00016 21.4 0.4 29 40-80 68-96 (114)
123 PF13453 zf-TFIIB: Transcripti 48.6 12 0.00025 16.3 1.0 19 71-89 19-37 (41)
124 PF06397 Desulfoferrod_N: Desu 48.4 6.4 0.00014 17.0 0.1 13 41-53 5-17 (36)
125 KOG2071|consensus 48.4 12 0.00027 26.5 1.5 28 40-67 416-443 (579)
126 TIGR02605 CxxC_CxxC_SSSS putat 48.2 6.5 0.00014 18.0 0.1 30 42-79 5-34 (52)
127 PF15269 zf-C2H2_7: Zinc-finge 45.6 22 0.00048 16.2 1.6 21 72-92 21-41 (54)
128 PF01155 HypA: Hydrogenase exp 45.1 6.6 0.00014 21.5 -0.1 26 42-80 70-95 (113)
129 PF04780 DUF629: Protein of un 44.6 20 0.00043 24.9 2.0 29 69-97 55-84 (466)
130 PF08274 PhnA_Zn_Ribbon: PhnA 44.3 13 0.00029 15.3 0.8 10 70-79 18-27 (30)
131 COG2331 Uncharacterized protei 44.2 6.4 0.00014 20.0 -0.2 32 42-81 12-43 (82)
132 PRK14138 NAD-dependent deacety 44.0 30 0.00066 21.6 2.6 43 32-79 109-151 (244)
133 PRK00564 hypA hydrogenase nick 43.8 9.3 0.0002 21.1 0.3 15 40-54 69-83 (117)
134 COG0846 SIR2 NAD-dependent pro 41.8 17 0.00038 22.9 1.3 43 32-79 112-154 (250)
135 PF01428 zf-AN1: AN1-like Zinc 41.6 7.8 0.00017 17.1 -0.2 15 41-55 12-26 (43)
136 TIGR00622 ssl1 transcription f 40.6 12 0.00027 20.5 0.5 25 71-95 81-105 (112)
137 COG5112 UFD2 U1-like Zn-finger 39.4 11 0.00025 20.5 0.2 21 72-92 56-76 (126)
138 PRK12496 hypothetical protein; 39.4 18 0.00039 21.2 1.1 28 41-81 126-153 (164)
139 KOG2482|consensus 39.4 23 0.0005 23.6 1.6 53 41-93 143-217 (423)
140 PF14369 zf-RING_3: zinc-finge 39.0 14 0.0003 15.7 0.4 10 73-82 23-32 (35)
141 PRK14873 primosome assembly pr 39.0 20 0.00044 26.0 1.4 10 71-80 422-431 (665)
142 TIGR00416 sms DNA repair prote 38.7 18 0.00039 24.8 1.1 9 41-49 20-28 (454)
143 PRK11823 DNA repair protein Ra 38.5 21 0.00045 24.5 1.4 8 42-49 21-28 (446)
144 PRK05978 hypothetical protein; 38.3 17 0.00037 21.1 0.8 33 42-84 33-65 (148)
145 PF07503 zf-HYPF: HypF finger; 38.1 9 0.0002 16.3 -0.2 10 72-81 22-31 (35)
146 COG5216 Uncharacterized conser 37.1 19 0.0004 17.4 0.7 30 42-78 22-51 (67)
147 COG4888 Uncharacterized Zn rib 36.4 3.7 8.1E-05 22.0 -1.8 14 40-53 20-33 (104)
148 KOG0782|consensus 35.2 5.7 0.00012 28.3 -1.6 38 41-84 252-289 (1004)
149 COG3091 SprT Zn-dependent meta 35.1 18 0.00038 21.1 0.6 37 39-81 114-150 (156)
150 COG4338 Uncharacterized protei 34.8 17 0.00037 16.8 0.4 15 73-87 14-28 (54)
151 PF10083 DUF2321: Uncharacteri 34.4 20 0.00043 21.0 0.7 19 40-58 66-84 (158)
152 cd01407 SIR2-fam SIR2 family o 34.1 45 0.00098 20.3 2.3 44 31-79 98-141 (218)
153 COG1773 Rubredoxin [Energy pro 33.9 15 0.00032 17.5 0.1 14 42-55 3-16 (55)
154 PTZ00409 Sir2 (Silent Informat 33.8 60 0.0013 20.8 2.8 24 32-55 127-150 (271)
155 COG1198 PriA Primosomal protei 33.6 26 0.00056 25.8 1.3 12 69-80 473-484 (730)
156 PRK00432 30S ribosomal protein 33.3 27 0.00059 16.1 1.0 11 71-81 37-47 (50)
157 TIGR00515 accD acetyl-CoA carb 33.1 24 0.00052 22.8 1.0 12 71-82 45-56 (285)
158 KOG2923|consensus 33.0 32 0.00068 17.0 1.2 30 42-78 22-51 (67)
159 PF01215 COX5B: Cytochrome c o 32.9 12 0.00026 21.4 -0.3 18 37-55 108-125 (136)
160 COG4855 Uncharacterized protei 32.6 20 0.00043 17.8 0.4 28 73-100 25-52 (76)
161 cd01413 SIR2_Af2 SIR2_Af2: Arc 32.6 46 0.00099 20.4 2.1 25 32-56 103-127 (222)
162 PLN03238 probable histone acet 31.9 68 0.0015 20.9 2.8 23 70-92 47-69 (290)
163 PF07282 OrfB_Zn_ribbon: Putat 31.7 42 0.00092 16.2 1.6 15 69-83 44-58 (69)
164 PF01363 FYVE: FYVE zinc finge 31.6 27 0.00059 16.8 0.9 10 44-53 11-20 (69)
165 cd01121 Sms Sms (bacterial rad 31.6 31 0.00066 23.1 1.3 12 39-50 11-22 (372)
166 TIGR00686 phnA alkylphosphonat 31.2 24 0.00053 19.3 0.7 8 72-79 20-27 (109)
167 CHL00174 accD acetyl-CoA carbo 31.1 27 0.0006 22.7 1.0 30 43-82 39-68 (296)
168 PF04606 Ogr_Delta: Ogr/Delta- 30.6 9.2 0.0002 17.3 -0.9 13 70-82 24-38 (47)
169 KOG2231|consensus 30.4 64 0.0014 23.7 2.7 20 44-63 184-203 (669)
170 PF02176 zf-TRAF: TRAF-type zi 30.2 21 0.00046 16.6 0.3 39 42-82 9-53 (60)
171 PF02591 DUF164: Putative zinc 30.0 50 0.0011 15.3 1.6 31 44-79 24-54 (56)
172 KOG1842|consensus 29.8 36 0.00078 23.6 1.4 20 72-91 16-35 (505)
173 COG1656 Uncharacterized conser 29.6 56 0.0012 19.4 2.0 22 71-92 130-151 (165)
174 PTZ00043 cytochrome c oxidase 29.4 21 0.00046 22.3 0.3 15 41-55 180-194 (268)
175 KOG2807|consensus 28.9 83 0.0018 21.0 2.8 54 41-94 289-368 (378)
176 COG5151 SSL1 RNA polymerase II 28.8 21 0.00045 23.5 0.2 24 71-94 388-411 (421)
177 PRK00762 hypA hydrogenase nick 28.8 24 0.00051 19.7 0.4 33 40-79 68-100 (124)
178 PF07295 DUF1451: Protein of u 28.7 16 0.00035 21.1 -0.3 10 42-51 112-121 (146)
179 cd00974 DSRD Desulforedoxin (D 28.5 22 0.00047 14.7 0.2 12 42-53 4-15 (34)
180 TIGR00319 desulf_FeS4 desulfof 28.2 22 0.00048 14.7 0.2 13 41-53 6-18 (34)
181 KOG3362|consensus 28.0 22 0.00048 20.5 0.2 19 72-90 130-148 (156)
182 PTZ00408 NAD-dependent deacety 27.7 56 0.0012 20.5 1.9 25 31-55 106-130 (242)
183 PRK10220 hypothetical protein; 27.1 38 0.00082 18.6 1.0 8 72-79 21-28 (111)
184 PRK05654 acetyl-CoA carboxylas 27.1 33 0.00072 22.2 0.9 11 72-82 47-57 (292)
185 PF10263 SprT-like: SprT-like 26.9 19 0.00041 20.5 -0.2 32 41-81 122-153 (157)
186 PRK04351 hypothetical protein; 26.3 31 0.00068 19.9 0.6 33 41-82 111-143 (149)
187 COG3677 Transposase and inacti 25.7 28 0.0006 19.6 0.3 17 40-56 51-67 (129)
188 PF14803 Nudix_N_2: Nudix N-te 25.5 15 0.00033 15.5 -0.6 9 71-79 22-30 (34)
189 cd01410 SIRT7 SIRT7: Eukaryoti 25.4 1E+02 0.0022 18.8 2.7 43 33-79 86-128 (206)
190 PF09947 DUF2180: Uncharacteri 25.0 23 0.0005 17.7 -0.1 7 44-50 18-24 (68)
191 cd00730 rubredoxin Rubredoxin; 24.9 28 0.0006 16.1 0.2 12 43-54 2-13 (50)
192 PF14787 zf-CCHC_5: GAG-polypr 24.8 24 0.00052 15.2 -0.0 14 44-57 4-17 (36)
193 PF12907 zf-met2: Zinc-binding 24.8 54 0.0012 14.5 1.1 18 44-61 3-23 (40)
194 PLN02748 tRNA dimethylallyltra 24.7 61 0.0013 22.6 1.8 23 70-92 417-440 (468)
195 PF01927 Mut7-C: Mut7-C RNAse 24.5 62 0.0013 18.5 1.6 47 43-89 92-142 (147)
196 PRK00481 NAD-dependent deacety 24.5 61 0.0013 20.1 1.7 25 32-56 112-136 (242)
197 PTZ00448 hypothetical protein; 24.4 66 0.0014 21.7 1.9 22 71-92 314-335 (373)
198 TIGR00595 priA primosomal prot 23.8 56 0.0012 22.9 1.6 9 71-79 253-261 (505)
199 COG1579 Zn-ribbon protein, pos 23.4 56 0.0012 20.6 1.4 35 42-81 197-231 (239)
200 TIGR00627 tfb4 transcription f 23.1 53 0.0011 21.2 1.2 11 42-52 255-265 (279)
201 PLN00104 MYST -like histone ac 23.0 81 0.0018 22.0 2.1 26 69-94 196-221 (450)
202 PRK14892 putative transcriptio 23.0 27 0.00059 18.8 -0.0 34 41-82 20-53 (99)
203 COG1645 Uncharacterized Zn-fin 22.9 33 0.00071 19.5 0.3 8 73-80 46-53 (131)
204 KOG3014|consensus 22.9 85 0.0019 20.0 2.0 23 73-95 39-63 (257)
205 KOG2636|consensus 22.7 62 0.0013 22.5 1.5 30 32-61 391-421 (497)
206 PF00301 Rubredoxin: Rubredoxi 22.6 42 0.00092 15.3 0.6 10 72-81 2-11 (47)
207 COG1439 Predicted nucleic acid 22.5 40 0.00088 20.2 0.6 13 41-53 138-150 (177)
208 smart00731 SprT SprT homologue 22.4 41 0.0009 19.1 0.6 33 41-81 111-143 (146)
209 COG2051 RPS27A Ribosomal prote 22.3 29 0.00063 17.2 -0.0 12 71-82 38-49 (67)
210 cd01408 SIRT1 SIRT1: Eukaryoti 21.9 1E+02 0.0023 19.1 2.3 22 33-54 107-128 (235)
211 KOG2684|consensus 21.7 1.1E+02 0.0024 21.1 2.5 42 33-79 194-235 (412)
212 PTZ00064 histone acetyltransfe 21.6 1E+02 0.0022 22.0 2.4 25 70-94 279-303 (552)
213 PF05290 Baculo_IE-1: Baculovi 21.4 54 0.0012 18.8 0.9 13 73-85 123-135 (140)
214 PRK06260 threonine synthase; V 21.3 50 0.0011 22.2 0.9 9 42-50 19-27 (397)
215 COG0068 HypF Hydrogenase matur 21.2 32 0.0007 25.3 0.0 28 45-79 154-181 (750)
216 PRK06450 threonine synthase; V 20.7 54 0.0012 21.6 1.0 10 43-52 4-13 (338)
217 KOG1280|consensus 20.7 93 0.002 21.0 2.0 37 41-78 78-116 (381)
218 PF04438 zf-HIT: HIT zinc fing 20.5 51 0.0011 13.4 0.6 11 40-50 11-21 (30)
219 KOG1994|consensus 20.5 52 0.0011 20.7 0.8 22 41-62 238-259 (268)
220 COG5188 PRP9 Splicing factor 3 20.3 52 0.0011 22.2 0.8 23 41-63 237-259 (470)
221 KOG3507|consensus 20.2 51 0.0011 16.0 0.6 12 70-81 36-47 (62)
222 PLN02925 4-hydroxy-3-methylbut 20.1 1.1E+02 0.0024 22.7 2.4 26 72-97 635-660 (733)
223 PRK00420 hypothetical protein; 20.1 62 0.0014 17.9 1.0 10 72-81 41-50 (112)
224 PF10537 WAC_Acf1_DNA_bd: ATP- 20.1 1.7E+02 0.0036 15.8 2.7 36 42-79 3-38 (102)
225 cd01412 SIRT5_Af1_CobB SIRT5_A 20.0 87 0.0019 19.1 1.7 25 31-55 98-122 (224)
No 1
>KOG2462|consensus
Probab=99.63 E-value=3.3e-16 Score=94.79 Aligned_cols=60 Identities=22% Similarity=0.453 Sum_probs=43.1
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcCCCCCC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHKEFKIE 101 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e~~~~ 101 (101)
-|++|.+|||.|..+=.|..|+|+|+| ++||.|..|+++|...++|+.|+++|.+-|+|+
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiRTHTG-EKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~q 245 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIRTHTG-EKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQ 245 (279)
T ss_pred CCcccccccccccchHHhhcccccccC-CCCccCCcccchhcchHHHHHHHHhhcCCcccc
Confidence 367777777777777777777777777 667777777777777777777777777666653
No 2
>KOG2462|consensus
Probab=99.61 E-value=3.4e-16 Score=94.75 Aligned_cols=64 Identities=20% Similarity=0.410 Sum_probs=59.3
Q ss_pred ccccceecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHH
Q psy10080 28 MLVPYNVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 28 ~~~~~~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~ 92 (101)
=++.-+.++|+|+|||.|..|++.|..+++|..|+.+|.+ .+.|.|..|+++|...+.|.+|..
T Consensus 201 WLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~-~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 201 WLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSD-VKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred HHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcC-CccccCcchhhHHHHHHHHHHhhh
Confidence 3455778899999999999999999999999999999999 889999999999999999999975
No 3
>KOG3623|consensus
Probab=99.43 E-value=1.4e-14 Score=97.31 Aligned_cols=60 Identities=28% Similarity=0.544 Sum_probs=45.3
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcCCCCCC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHKEFKIE 101 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e~~~~ 101 (101)
-.|.|..|.|+|...+.|.+|.--|+| .+||.|..|.++|.++..|..|.|+|.|||||.
T Consensus 893 gmyaCDqCDK~FqKqSSLaRHKYEHsG-qRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQ 952 (1007)
T KOG3623|consen 893 GMYACDQCDKAFQKQSSLARHKYEHSG-QRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQ 952 (1007)
T ss_pred ccchHHHHHHHHHhhHHHHHhhhhhcC-CCCcccchhhHhhhhhhhhhhhhhhccCCCcch
Confidence 367777777777777777777777777 777777777777777777777777777777763
No 4
>KOG3623|consensus
Probab=99.42 E-value=1.6e-13 Score=92.43 Aligned_cols=65 Identities=22% Similarity=0.424 Sum_probs=59.9
Q ss_pred ccccceecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHH
Q psy10080 28 MLVPYNVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRL 93 (101)
Q Consensus 28 ~~~~~~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~ 93 (101)
+++..++=+|.|++||+|.+|.|.|..+-.|..|.|.|+| ++||.|+.|++.|++..+..+||..
T Consensus 908 SSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSG-EKPfQCdKClKRFSHSGSYSQHMNH 972 (1007)
T KOG3623|consen 908 SSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSG-EKPFQCDKCLKRFSHSGSYSQHMNH 972 (1007)
T ss_pred HHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccC-CCcchhhhhhhhcccccchHhhhcc
Confidence 5555677789999999999999999999999999999999 8899999999999999999999874
No 5
>KOG3576|consensus
Probab=99.24 E-value=6e-13 Score=78.00 Aligned_cols=65 Identities=18% Similarity=0.413 Sum_probs=52.0
Q ss_pred cceecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcC
Q psy10080 31 PYNVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHK 96 (101)
Q Consensus 31 ~~~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~ 96 (101)
..+++.|..-+.+.|..||+.|...-.|.+|.++|+| .+||.|..|+++|.+..+|..|.+.-+|
T Consensus 134 nrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtg-vrpykc~~c~kaftqrcsleshl~kvhg 198 (267)
T KOG3576|consen 134 NRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTG-VRPYKCSLCEKAFTQRCSLESHLKKVHG 198 (267)
T ss_pred HHHhhhccHHHHHHHhhccCcccchhhhhhhhccccC-ccccchhhhhHHHHhhccHHHHHHHHcC
Confidence 3444455556678888899999988889999999999 8889999999999999999888765443
No 6
>KOG3576|consensus
Probab=99.05 E-value=5.3e-11 Score=69.94 Aligned_cols=69 Identities=19% Similarity=0.455 Sum_probs=60.8
Q ss_pred ceecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcCCCCCC
Q psy10080 32 YNVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHKEFKIE 101 (101)
Q Consensus 32 ~~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e~~~~ 101 (101)
.....+.+..-|.|..|++.|....-|.+|+.-|+. .+.+.|..||+.|...-.|.+|.|+|+|-+||+
T Consensus 107 ~t~gsssd~d~ftCrvCgK~F~lQRmlnrh~kch~~-vkr~lct~cgkgfndtfdlkrh~rthtgvrpyk 175 (267)
T KOG3576|consen 107 STIGSSSDQDSFTCRVCGKKFGLQRMLNRHLKCHSD-VKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYK 175 (267)
T ss_pred ccccCCCCCCeeeeehhhhhhhHHHHHHHHhhhccH-HHHHHHhhccCcccchhhhhhhhccccCccccc
Confidence 333444455689999999999999999999999998 878899999999999999999999999999885
No 7
>KOG1074|consensus
Probab=99.05 E-value=3.2e-11 Score=82.43 Aligned_cols=58 Identities=22% Similarity=0.501 Sum_probs=54.0
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcCCCC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHKEFK 99 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e~~ 99 (101)
.+++|..|.+.|...+.|..|.|.|+| ++||+|++||..|+.+.+|..|...|...+|
T Consensus 352 ~khkCr~CakvfgS~SaLqiHlRSHTG-ERPfqCnvCG~~FSTkGNLKvH~~rH~e~~p 409 (958)
T KOG1074|consen 352 FKHKCRFCAKVFGSDSALQIHLRSHTG-ERPFQCNVCGNRFSTKGNLKVHFQRHREKYP 409 (958)
T ss_pred ccchhhhhHhhcCchhhhhhhhhccCC-CCCeeecccccccccccceeeeeeeccccCC
Confidence 468899999999999999999999999 8899999999999999999999888877765
No 8
>PHA02768 hypothetical protein; Provisional
Probab=99.02 E-value=1e-10 Score=55.20 Aligned_cols=44 Identities=20% Similarity=0.471 Sum_probs=39.1
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHH
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIM 88 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~ 88 (101)
-|.|+.||+.|...++|..|++.|.. ++.|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~k---~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHNT---NLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcCC---cccCCcccceecccceeE
Confidence 47999999999999999999999983 688999999998777664
No 9
>PHA00733 hypothetical protein
Probab=98.98 E-value=1.2e-09 Score=60.76 Aligned_cols=56 Identities=21% Similarity=0.538 Sum_probs=48.9
Q ss_pred CCCcccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcC
Q psy10080 38 GKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHK 96 (101)
Q Consensus 38 ~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~ 96 (101)
.+.+||.|..|++.|.....|..|++.+.. ++.|..|++.|....+|..|+...++
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~---~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYTEH---SKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHHhcCCc---CccCCCCCCccCCHHHHHHHHHHhcC
Confidence 346799999999999999999999987633 68999999999999999999886654
No 10
>KOG1074|consensus
Probab=98.89 E-value=5.1e-10 Score=76.77 Aligned_cols=53 Identities=23% Similarity=0.473 Sum_probs=27.4
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
|.+|-.|.+.+..++.|..|.+.|+| ++||+|.+||++|..+.+|+.|+.+|.
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtG-ERPFkCKiCgRAFtTkGNLkaH~~vHk 657 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTG-ERPFKCKICGRAFTTKGNLKAHMSVHK 657 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccC-cCccccccccchhccccchhhcccccc
Confidence 44455555555555555555555555 445555555555555555555554443
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=98.71 E-value=1.5e-08 Score=41.13 Aligned_cols=26 Identities=35% Similarity=0.715 Sum_probs=22.4
Q ss_pred HHHHHhhhhhCCCCceeccccccccCC
Q psy10080 57 NLMRHLRVECGKEPSQMCLFCSYKCKH 83 (101)
Q Consensus 57 ~l~~h~~~h~~~~~~~~c~~c~~~f~~ 83 (101)
+|..|+++|++ ++||.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~-~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTG-EKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSS-SSSEEESSSSEEESS
T ss_pred CHHHHhhhcCC-CCCCCCCCCcCeeCc
Confidence 47889999999 788999999998863
No 12
>PHA00616 hypothetical protein
Probab=98.66 E-value=1.6e-08 Score=45.67 Aligned_cols=34 Identities=18% Similarity=0.336 Sum_probs=26.3
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLF 76 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~ 76 (101)
||+|..||+.|...+.+..|++.|++ ..++.|..
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg-~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHK-QNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcC-CCccceeE
Confidence 57888888888888888888888888 66776654
No 13
>PHA00616 hypothetical protein
Probab=98.62 E-value=2.8e-08 Score=44.89 Aligned_cols=30 Identities=27% Similarity=0.502 Sum_probs=28.1
Q ss_pred ceeccccccccCChHHHHHHHHHhcCCCCC
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLKHKEFKI 100 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h~~e~~~ 100 (101)
||.|..||+.|.....|..|++.|+|++++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~ 30 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKL 30 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcc
Confidence 588999999999999999999999999775
No 14
>PHA00732 hypothetical protein
Probab=98.54 E-value=4.9e-08 Score=49.91 Aligned_cols=45 Identities=20% Similarity=0.462 Sum_probs=37.3
Q ss_pred ccccCcchhhccChHHHHHHhhh-hhCCCCceeccccccccCChHHHHHHHHH
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRV-ECGKEPSQMCLFCSYKCKHKTDIMHHMRL 93 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~-h~~~~~~~~c~~c~~~f~~~~~l~~h~~~ 93 (101)
||.|..|++.|.....|..|++. |.+ +.|..|++.|. .+..|.+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~----~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL----TKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC----CccCCCCCEeC---Chhhhhcc
Confidence 68999999999999999999884 554 47999999997 46667643
No 15
>KOG3993|consensus
Probab=98.39 E-value=1.8e-07 Score=60.48 Aligned_cols=56 Identities=21% Similarity=0.446 Sum_probs=47.8
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCC--------------------------------CCceeccccccccCChHHHHH
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGK--------------------------------EPSQMCLFCSYKCKHKTDIMH 89 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~--------------------------------~~~~~c~~c~~~f~~~~~l~~ 89 (101)
.|+|++|+|.|....+|..|+|+|... .-.|.|..|++.|.+...|+.
T Consensus 295 EYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrK 374 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRK 374 (500)
T ss_pred eecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHH
Confidence 699999999999999999999988431 113789999999999999999
Q ss_pred HHHHhcCC
Q psy10080 90 HMRLKHKE 97 (101)
Q Consensus 90 h~~~h~~e 97 (101)
|+.+|...
T Consensus 375 Hqlthq~~ 382 (500)
T KOG3993|consen 375 HQLTHQRA 382 (500)
T ss_pred hHHhhhcc
Confidence 98888643
No 16
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.39 E-value=7.8e-07 Score=42.31 Aligned_cols=52 Identities=21% Similarity=0.567 Sum_probs=40.3
Q ss_pred ccccCcchhhccChHHHHHHhh-hhhCCCCceeccccccccCChHHHHHHHHHhcC
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLR-VECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHK 96 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~-~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~ 96 (101)
.|.|+.|++. .....|..|.. .|..+.+.+.|+.|...+. .+|..|+..+++
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 5889999994 55678999955 4766556789999998654 489999988764
No 17
>KOG3608|consensus
Probab=98.38 E-value=3.6e-07 Score=58.10 Aligned_cols=57 Identities=21% Similarity=0.521 Sum_probs=31.9
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcCC-CCC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHKE-FKI 100 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e-~~~ 100 (101)
.+|.|..|.|.|.+...|..|+.-|.. .|.|+.|+.+....++|..|++..+.+ +||
T Consensus 236 n~fqC~~C~KrFaTeklL~~Hv~rHvn---~ykCplCdmtc~~~ssL~~H~r~rHs~dkpf 293 (467)
T KOG3608|consen 236 NSFQCAQCFKRFATEKLLKSHVVRHVN---CYKCPLCDMTCSSASSLTTHIRYRHSKDKPF 293 (467)
T ss_pred CchHHHHHHHHHhHHHHHHHHHHHhhh---cccccccccCCCChHHHHHHHHhhhccCCCc
Confidence 355555555555555555555554443 355666666666666666666654433 554
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.33 E-value=4.6e-07 Score=42.89 Aligned_cols=25 Identities=16% Similarity=0.444 Sum_probs=23.8
Q ss_pred ceeccccccccCChHHHHHHHHHhc
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
.|.|+.||+.|....+|..|+++|+
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC
Confidence 3789999999999999999999999
No 19
>KOG3608|consensus
Probab=98.28 E-value=1.4e-06 Score=55.56 Aligned_cols=53 Identities=21% Similarity=0.582 Sum_probs=35.5
Q ss_pred ccccCcchhhccChHHHHHHhhh-hhCCCCceeccccccccCChHHHHHHHHHhc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRV-ECGKEPSQMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~-h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
-|+|+.|..+.+..+.|.+|++. |+. .+||+|+.|++.|...+.|++|..+|.
T Consensus 263 ~ykCplCdmtc~~~ssL~~H~r~rHs~-dkpfKCd~Cd~~c~~esdL~kH~~~HS 316 (467)
T KOG3608|consen 263 CYKCPLCDMTCSSASSLTTHIRYRHSK-DKPFKCDECDTRCVRESDLAKHVQVHS 316 (467)
T ss_pred cccccccccCCCChHHHHHHHHhhhcc-CCCccccchhhhhccHHHHHHHHHhcc
Confidence 46677777777777777777665 444 666777777777777777777766665
No 20
>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=98.20 E-value=1.8e-06 Score=33.72 Aligned_cols=22 Identities=27% Similarity=0.573 Sum_probs=13.7
Q ss_pred eeccccccccCChHHHHHHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMRL 93 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~~ 93 (101)
|.|..|++.|.....|..|++.
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 3566666666666666666654
No 21
>PHA00733 hypothetical protein
Probab=98.12 E-value=2.5e-06 Score=47.58 Aligned_cols=56 Identities=9% Similarity=0.147 Sum_probs=44.2
Q ss_pred CcccccCcchhhccChHHHHHHhh-----hhhCCCCceeccccccccCChHHHHHHHHHhcC
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLR-----VECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHK 96 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~-----~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~ 96 (101)
++++.|..|.+.|..+..|..+.. .+.+ ..||.|..|++.|.....|..|++.+..
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~-~kPy~C~~Cgk~Fss~s~L~~H~r~h~~ 98 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKA-VSPYVCPLCLMPFSSSVSLKQHIRYTEH 98 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCC-CCCccCCCCCCcCCCHHHHHHHHhcCCc
Confidence 568999999998888777666511 2233 5689999999999999999999997643
No 22
>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=98.09 E-value=2.4e-06 Score=33.39 Aligned_cols=23 Identities=43% Similarity=0.940 Sum_probs=21.0
Q ss_pred cccCcchhhccChHHHHHHhhhh
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVE 65 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h 65 (101)
|.|+.|++.|..+..|..|++.|
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 68999999999999999998864
No 23
>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=98.04 E-value=4.5e-07 Score=36.71 Aligned_cols=23 Identities=17% Similarity=0.551 Sum_probs=19.6
Q ss_pred ceecccCCCcccccCcchhhccC
Q psy10080 32 YNVDKEGKKTTWACPMCRKIYAF 54 (101)
Q Consensus 32 ~~~~~~~~~~p~~C~~c~~~~~~ 54 (101)
.++..|.+++||.|+.|++.|..
T Consensus 4 ~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 4 RHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHSSSSSEEESSSSEEESS
T ss_pred HHhhhcCCCCCCCCCCCcCeeCc
Confidence 45668999999999999998863
No 24
>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=98.04 E-value=6e-06 Score=38.23 Aligned_cols=35 Identities=14% Similarity=0.410 Sum_probs=22.6
Q ss_pred hhCCCCceeccccccccCChHHHHHHHHHhcCCCC
Q psy10080 65 ECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHKEFK 99 (101)
Q Consensus 65 h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e~~ 99 (101)
+..+..|..|++|+..+++.-+|.+|+.++++.||
T Consensus 18 ~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 18 KSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 33336677888888888888888888888887765
No 25
>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=97.94 E-value=6.2e-06 Score=33.46 Aligned_cols=24 Identities=17% Similarity=0.212 Sum_probs=14.2
Q ss_pred eeccccccccCChHHHHHHHHHhc
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
|.|..|++.|....+|..|++.|.
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 556666666666666666655543
No 26
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.92 E-value=1.5e-05 Score=31.04 Aligned_cols=23 Identities=26% Similarity=0.612 Sum_probs=14.3
Q ss_pred eeccccccccCChHHHHHHHHHh
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMRLK 94 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~~h 94 (101)
|.|+.|+..|.....|..|++.+
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 45667777777777777776655
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=97.89 E-value=7.2e-06 Score=33.27 Aligned_cols=26 Identities=27% Similarity=0.607 Sum_probs=23.4
Q ss_pred ccccCcchhhccChHHHHHHhhhhhC
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECG 67 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~ 67 (101)
||.|..|++.|.....|..|++.|.+
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 68999999999999999999987653
No 28
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.83 E-value=2.5e-05 Score=53.01 Aligned_cols=51 Identities=16% Similarity=0.341 Sum_probs=22.1
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcCCC
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHKEF 98 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e~ 98 (101)
++.|+.|++.|. ...+..|+..+. .++.|+ |+..+ ....|..|+.+|.+++
T Consensus 453 H~~C~~Cgk~f~-~s~LekH~~~~H---kpv~Cp-Cg~~~-~R~~L~~H~~thCp~K 503 (567)
T PLN03086 453 HVHCEKCGQAFQ-QGEMEKHMKVFH---EPLQCP-CGVVL-EKEQMVQHQASTCPLR 503 (567)
T ss_pred CccCCCCCCccc-hHHHHHHHHhcC---CCccCC-CCCCc-chhHHHhhhhccCCCC
Confidence 344555555443 334444444432 134444 44322 3344444444444443
No 29
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.63 E-value=2.5e-05 Score=49.29 Aligned_cols=53 Identities=23% Similarity=0.503 Sum_probs=41.8
Q ss_pred CcccccCc--chhhccChHHHHHHhhh-h-----------------hCCCCceeccccccccCChHHHHHHHH
Q psy10080 40 KTTWACPM--CRKIYAFKYNLMRHLRV-E-----------------CGKEPSQMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 40 ~~p~~C~~--c~~~~~~~~~l~~h~~~-h-----------------~~~~~~~~c~~c~~~f~~~~~l~~h~~ 92 (101)
.+||+|++ |.|.+.....|.-|+.- | ..+.+||+|.+|++.+.....|..|..
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 37999975 99999999999988642 2 111478999999999998888877653
No 30
>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=97.57 E-value=6.7e-05 Score=29.11 Aligned_cols=23 Identities=35% Similarity=0.847 Sum_probs=19.1
Q ss_pred cccCcchhhccChHHHHHHhhhh
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVE 65 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h 65 (101)
|.|+.|++.|.....|..|+..+
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 68999999999999999998865
No 31
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.56 E-value=0.00011 Score=50.07 Aligned_cols=55 Identities=18% Similarity=0.382 Sum_probs=41.6
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC----------ChHHHHHHHHHhcCCCC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK----------HKTDIMHHMRLKHKEFK 99 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~----------~~~~l~~h~~~h~~e~~ 99 (101)
.|+.|+ |++.+ ....|..|+..|.+ .+++.|..|+..|. ....|..|.... |.++
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp-~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt 541 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCP-LRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRT 541 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCC-CCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcc
Confidence 588898 98655 56788889888888 77889999988874 235788888775 5544
No 32
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.51 E-value=0.00013 Score=28.64 Aligned_cols=22 Identities=32% Similarity=0.522 Sum_probs=13.6
Q ss_pred eccccccccCChHHHHHHHHHh
Q psy10080 73 MCLFCSYKCKHKTDIMHHMRLK 94 (101)
Q Consensus 73 ~c~~c~~~f~~~~~l~~h~~~h 94 (101)
.|..|++.|.....|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4566666666666666666654
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.28 E-value=0.00032 Score=36.94 Aligned_cols=24 Identities=29% Similarity=0.624 Sum_probs=20.8
Q ss_pred ceeccccccccCChHHHHHHHHHh
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLK 94 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h 94 (101)
.+.|..|+..|.+...|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 488999999999999999999864
No 34
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.26 E-value=0.00031 Score=27.54 Aligned_cols=24 Identities=33% Similarity=0.791 Sum_probs=21.3
Q ss_pred cccCcchhhccChHHHHHHhhhhh
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVEC 66 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~ 66 (101)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999988664
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=97.21 E-value=0.00068 Score=31.49 Aligned_cols=35 Identities=26% Similarity=0.469 Sum_probs=23.6
Q ss_pred ccCCCcccccCcchhhccChHHHHHHhhhhhCCCCc
Q psy10080 36 KEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPS 71 (101)
Q Consensus 36 ~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~ 71 (101)
....+.|..|+.|+..+....+|.+|+....+ .+|
T Consensus 18 ~~~S~~PatCP~C~a~~~~srnLrRHle~~H~-~k~ 52 (54)
T PF09237_consen 18 KSQSEQPATCPICGAVIRQSRNLRRHLEIRHF-KKP 52 (54)
T ss_dssp CCTTS--EE-TTT--EESSHHHHHHHHHHHTT-TS-
T ss_pred hhccCCCCCCCcchhhccchhhHHHHHHHHhc-ccC
Confidence 34456799999999999999999999987766 443
No 36
>PRK04860 hypothetical protein; Provisional
Probab=97.00 E-value=0.00049 Score=39.85 Aligned_cols=39 Identities=28% Similarity=0.527 Sum_probs=32.4
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCCh
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHK 84 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~ 84 (101)
-+|.|. |+. ....+.+|.++|++ .++|.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g-~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRG-EAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcC-CccEECCCCCceeEEe
Confidence 589998 987 55678899999999 8789999999887643
No 37
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.98 E-value=0.00095 Score=26.06 Aligned_cols=23 Identities=30% Similarity=0.753 Sum_probs=14.9
Q ss_pred eeccccccccCChHHHHHHHHHhc
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
|.|+.|+.... ...|..|++.++
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 46777777666 777877777654
No 38
>PHA00732 hypothetical protein
Probab=96.96 E-value=0.00084 Score=34.38 Aligned_cols=26 Identities=15% Similarity=0.301 Sum_probs=22.8
Q ss_pred ceeccccccccCChHHHHHHHHH-hcC
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRL-KHK 96 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~-h~~ 96 (101)
||.|..|++.|.+..+|..|++. |++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~ 27 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL 27 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC
Confidence 57899999999999999999984 554
No 39
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.92 E-value=0.00077 Score=26.54 Aligned_cols=22 Identities=18% Similarity=0.472 Sum_probs=14.1
Q ss_pred eeccccccccCChHHHHHHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMRL 93 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~~ 93 (101)
|.|..|...|.+...+..|++.
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 3466666677777666666653
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.75 E-value=0.0011 Score=26.08 Aligned_cols=23 Identities=30% Similarity=0.735 Sum_probs=20.3
Q ss_pred cccCcchhhccChHHHHHHhhhh
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVE 65 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h 65 (101)
|.|..|++.|.....+..|.+.+
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 67999999999999999997754
No 41
>KOG3993|consensus
Probab=96.37 E-value=0.00085 Score=44.09 Aligned_cols=53 Identities=17% Similarity=0.375 Sum_probs=42.7
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
-|-|..|.-.|.....|..|.=...- ..-|+|+.|++.|+-..+|..|.|-|.
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV-~vEYrCPEC~KVFsCPANLASHRRWHK 319 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIV-HVEYRCPECDKVFSCPANLASHRRWHK 319 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeE-EeeecCCcccccccCchhhhhhhcccC
Confidence 47899999899999999888432222 234899999999999999999998774
No 42
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.93 E-value=0.0042 Score=24.95 Aligned_cols=21 Identities=24% Similarity=0.710 Sum_probs=12.5
Q ss_pred cccCcchhhccChHHHHHHhh
Q psy10080 43 WACPMCRKIYAFKYNLMRHLR 63 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~ 63 (101)
|.|..|++.|.....+..|+.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 456666666666666655544
No 43
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.70 E-value=0.012 Score=23.25 Aligned_cols=20 Identities=20% Similarity=0.526 Sum_probs=11.9
Q ss_pred eccccccccCChHHHHHHHHH
Q psy10080 73 MCLFCSYKCKHKTDIMHHMRL 93 (101)
Q Consensus 73 ~c~~c~~~f~~~~~l~~h~~~ 93 (101)
.|+.|++.| ....|..|+.+
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHh
Confidence 466666666 45566666543
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=94.62 E-value=0.034 Score=23.47 Aligned_cols=22 Identities=14% Similarity=0.501 Sum_probs=16.4
Q ss_pred ceeccccccccCChHHHHHHHH
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~ 92 (101)
+|.|..|+..|.....+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4668888888887777777764
No 45
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.19 E-value=0.0082 Score=39.08 Aligned_cols=58 Identities=21% Similarity=0.325 Sum_probs=51.5
Q ss_pred cccccCcchhhccChHHHHHHhh--hhhCCC--Cceecc--ccccccCChHHHHHHHHHhcCCCC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLR--VECGKE--PSQMCL--FCSYKCKHKTDIMHHMRLKHKEFK 99 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~--~h~~~~--~~~~c~--~c~~~f~~~~~l~~h~~~h~~e~~ 99 (101)
.++.|..|...|.....+..|.+ .|.+ . .++.|+ .|++.|.+...+..|..+|++..+
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~-~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSG-ESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISP 351 (467)
T ss_pred cCCCCccccCCcccccccccccccccccc-ccCCceeeeccCCCccccccccccCCcccccCCCc
Confidence 47889999999999999999999 7999 5 789999 799999999999999998887643
No 46
>KOG2186|consensus
Probab=94.01 E-value=0.026 Score=34.96 Aligned_cols=49 Identities=14% Similarity=0.331 Sum_probs=34.3
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhc
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
|.|..||.... +..+..|+....+ . .|.|..|+..|.. -+...|....+
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~-~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-A-YFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-C-eeEEeeccccccc-chhhhhhhhcc
Confidence 67888887665 4457778776665 3 5888889988876 55666665444
No 47
>PRK04860 hypothetical protein; Provisional
Probab=92.95 E-value=0.079 Score=30.84 Aligned_cols=26 Identities=23% Similarity=0.393 Sum_probs=22.3
Q ss_pred ceeccccccccCChHHHHHHHHHhcCCCCC
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLKHKEFKI 100 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h~~e~~~ 100 (101)
+|.|. |+. ....+..|.++|+|+++|
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~Y 144 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVY 144 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccE
Confidence 58897 886 788899999999999765
No 48
>KOG1146|consensus
Probab=92.10 E-value=0.2 Score=37.88 Aligned_cols=57 Identities=21% Similarity=0.404 Sum_probs=45.9
Q ss_pred ccCCCcccccCcchhhccChHHHHHHhhhhh-----------------C-------CCCceeccccccccCChHHHHHHH
Q psy10080 36 KEGKKTTWACPMCRKIYAFKYNLMRHLRVEC-----------------G-------KEPSQMCLFCSYKCKHKTDIMHHM 91 (101)
Q Consensus 36 ~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~-----------------~-------~~~~~~c~~c~~~f~~~~~l~~h~ 91 (101)
.+...+.+.|+.|+..|.....|..|++.-. + ...+|.|..|..+++...+|-.|+
T Consensus 459 L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihl 538 (1406)
T KOG1146|consen 459 LHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHL 538 (1406)
T ss_pred eecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHH
Confidence 3444589999999999999999999998710 0 024688999999999999999997
Q ss_pred H
Q psy10080 92 R 92 (101)
Q Consensus 92 ~ 92 (101)
.
T Consensus 539 q 539 (1406)
T KOG1146|consen 539 Q 539 (1406)
T ss_pred H
Confidence 6
No 49
>KOG2893|consensus
Probab=92.08 E-value=0.042 Score=33.91 Aligned_cols=42 Identities=19% Similarity=0.348 Sum_probs=30.7
Q ss_pred ccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHH
Q psy10080 44 ACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHH 90 (101)
Q Consensus 44 ~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h 90 (101)
.|..|++.|....-|..||+ .+.|+|-.|-+.+.+-..|.-|
T Consensus 12 wcwycnrefddekiliqhqk-----akhfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQK-----AKHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhh-----hccceeeeehhhhccCCCceee
Confidence 47778888888888888877 5678888887666555555544
No 50
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=91.79 E-value=0.1 Score=29.23 Aligned_cols=15 Identities=13% Similarity=0.516 Sum_probs=13.0
Q ss_pred ccccCcchhhccChH
Q psy10080 42 TWACPMCRKIYAFKY 56 (101)
Q Consensus 42 p~~C~~c~~~~~~~~ 56 (101)
|++|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 789999999998765
No 51
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=91.77 E-value=0.15 Score=26.55 Aligned_cols=24 Identities=29% Similarity=0.782 Sum_probs=21.1
Q ss_pred ccccCcchhhccChHHHHHHhhhh
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVE 65 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h 65 (101)
.+.|..|++.|.....|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 799999999999999999998864
No 52
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=90.78 E-value=0.12 Score=30.29 Aligned_cols=23 Identities=35% Similarity=1.107 Sum_probs=18.0
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCS 78 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~ 78 (101)
-|.|++||.+ +.+ ..|.+|++|+
T Consensus 134 ~~vC~vCGy~-------------~~g-e~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEG-EAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccC-CCCCcCCCCC
Confidence 6999999843 445 6688899998
No 53
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=90.72 E-value=0.22 Score=23.67 Aligned_cols=30 Identities=20% Similarity=0.552 Sum_probs=23.2
Q ss_pred ecccCCCcccccCcchhhccChHHHHHHhh
Q psy10080 34 VDKEGKKTTWACPMCRKIYAFKYNLMRHLR 63 (101)
Q Consensus 34 ~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~ 63 (101)
..+..|+.-+.|+.|+..|.....+.+|..
T Consensus 9 v~~RDGE~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 9 VRDRDGEEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred eeccCCceeeeCCchhHHHHHhHHHHHHhh
Confidence 344556777889999999998888888854
No 54
>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=90.10 E-value=0.14 Score=21.53 Aligned_cols=24 Identities=33% Similarity=0.874 Sum_probs=14.3
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
|.|..||.++.-. ..++.|+.|+.
T Consensus 2 ~~C~~CGy~y~~~-------------~~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGE-------------EAPWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCC-------------cCCCcCcCCCC
Confidence 5677777554321 24667877764
No 55
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=89.53 E-value=0.073 Score=32.39 Aligned_cols=43 Identities=26% Similarity=0.495 Sum_probs=27.6
Q ss_pred cccccCcchhhccChHHHHHHhhh----------hhCCCCc-----eeccccccccCCh
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRV----------ECGKEPS-----QMCLFCSYKCKHK 84 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~----------h~~~~~~-----~~c~~c~~~f~~~ 84 (101)
+...|+.|++.|..........++ ..+ ..| .+|+.||.++...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~-vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKG-VNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCC-CCCeeeeEEECCCCCCccccc
Confidence 467899999999887544433321 122 222 5799999877533
No 56
>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=89.52 E-value=0.15 Score=21.72 Aligned_cols=25 Identities=32% Similarity=0.875 Sum_probs=16.1
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.|.|..||.++... ..|..|+.|+.
T Consensus 2 ~~~C~~CG~i~~g~-------------~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGE-------------EAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECC-------------cCCCcCcCCCC
Confidence 47888888654321 34567888874
No 57
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=88.73 E-value=0.27 Score=21.20 Aligned_cols=34 Identities=15% Similarity=0.324 Sum_probs=21.6
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
..|+.|+..|....... ... .....|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~-~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GAN-GGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCC-CCEEECCCCCCEEE
Confidence 57889998877665421 111 22467999987763
No 58
>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=88.63 E-value=0.24 Score=26.95 Aligned_cols=30 Identities=17% Similarity=0.421 Sum_probs=18.9
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCCh
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHK 84 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~ 84 (101)
..|+.||..|-.. . +.|..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL-----------n-k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------N-KDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------C-CCCccCCCCCCccCcc
Confidence 3677787655432 1 4467788888777544
No 59
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=87.67 E-value=0.13 Score=33.13 Aligned_cols=24 Identities=25% Similarity=0.519 Sum_probs=20.6
Q ss_pred CcccccCcchhhccChHHHHHHhh
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLR 63 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~ 63 (101)
.+||.|..|+|.+.....|.-|+.
T Consensus 396 ~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 396 DKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CCceeccccchhhccCccceeccc
Confidence 589999999999999888887743
No 60
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=87.64 E-value=0.41 Score=20.67 Aligned_cols=34 Identities=18% Similarity=0.510 Sum_probs=21.5
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
-.|+.|+..|..... ++..+ .....|..|+..|.
T Consensus 3 i~CP~C~~~f~v~~~-----~l~~~-~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDD-----KLPAG-GRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHH-----HcccC-CcEEECCCCCcEee
Confidence 368888888776653 11222 33577888887663
No 61
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=86.53 E-value=0.3 Score=25.61 Aligned_cols=27 Identities=15% Similarity=0.277 Sum_probs=19.1
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccc
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCS 78 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~ 78 (101)
.|-.|..||..|..... ++|..|+.|.
T Consensus 57 ~Pa~CkkCGfef~~~~i-----------k~pSRCP~CK 83 (97)
T COG3357 57 RPARCKKCGFEFRDDKI-----------KKPSRCPKCK 83 (97)
T ss_pred cChhhcccCcccccccc-----------CCcccCCcch
Confidence 58899999988775211 4567788874
No 62
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=85.64 E-value=0.31 Score=25.34 Aligned_cols=31 Identities=26% Similarity=0.589 Sum_probs=22.2
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
.+|.|+.|++. .+.+.-++ .|.|..|+..|.
T Consensus 34 ~~~~Cp~C~~~--------~VkR~a~G---IW~C~kCg~~fA 64 (89)
T COG1997 34 AKHVCPFCGRT--------TVKRIATG---IWKCRKCGAKFA 64 (89)
T ss_pred cCCcCCCCCCc--------ceeeeccC---eEEcCCCCCeec
Confidence 47899999864 22344455 689999998874
No 63
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=85.12 E-value=0.33 Score=21.98 Aligned_cols=29 Identities=17% Similarity=0.617 Sum_probs=18.2
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
.|.|+.||..|..... ...+.|+.||..+
T Consensus 3 ~y~C~~CG~~~~~~~~-----------~~~~~Cp~CG~~~ 31 (46)
T PRK00398 3 EYKCARCGREVELDEY-----------GTGVRCPYCGYRI 31 (46)
T ss_pred EEECCCCCCEEEECCC-----------CCceECCCCCCeE
Confidence 5788888876654321 1146788887654
No 64
>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=85.10 E-value=0.46 Score=29.04 Aligned_cols=27 Identities=26% Similarity=0.333 Sum_probs=17.1
Q ss_pred ceeccccccccCChHHHHHHHHHhcCC
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLKHKE 97 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h~~e 97 (101)
.|.|..|++.|.-...+..|+...+.+
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred EECCCCCCcccCChHHHHHHHhhcCHH
Confidence 477777888887777777777665543
No 65
>KOG2785|consensus
Probab=84.74 E-value=3 Score=27.78 Aligned_cols=53 Identities=25% Similarity=0.355 Sum_probs=41.1
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCC----------------------Cceeccccc---cccCChHHHHHHHHH
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKE----------------------PSQMCLFCS---YKCKHKTDIMHHMRL 93 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~----------------------~~~~c~~c~---~~f~~~~~l~~h~~~ 93 (101)
-|=.|-.|++.+..--.-..||..+.+.- .-+.|..|. +.|.+..+.+.||.-
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 46678999999888877788887655531 236788887 999999999999873
No 66
>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=84.56 E-value=0.61 Score=18.57 Aligned_cols=10 Identities=30% Similarity=1.042 Sum_probs=7.5
Q ss_pred eccccccccC
Q psy10080 73 MCLFCSYKCK 82 (101)
Q Consensus 73 ~c~~c~~~f~ 82 (101)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5888888774
No 67
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=83.35 E-value=0.91 Score=21.67 Aligned_cols=52 Identities=17% Similarity=0.272 Sum_probs=26.1
Q ss_pred ccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCChHHHHHHHHHhcCCCC
Q psy10080 44 ACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHKTDIMHHMRLKHKEFK 99 (101)
Q Consensus 44 ~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e~~ 99 (101)
+|..|++.+.-........+.-..+...|.|..|.... ......+..+|.+.
T Consensus 4 kC~lCdk~~~Id~~~~~aKrLrnrPi~tYmC~eC~~RI----~~~t~~r~~~g~f~ 55 (56)
T PF09963_consen 4 KCILCDKKEEIDEDTPEAKRLRNRPIHTYMCDECKERI----REETNERIATGKFN 55 (56)
T ss_pred EEEecCCEEEeccCCHHHHHhhcCCCcceeChhHHHHH----hHHHHhhhccCCCC
Confidence 56677776544432222223322325568888885332 23334445555543
No 68
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=83.26 E-value=1 Score=21.73 Aligned_cols=32 Identities=16% Similarity=0.630 Sum_probs=17.2
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.|.|+.||...-..-. +--.- ..+|.|+.||-
T Consensus 25 ~F~CPnCG~~~I~RC~-----~CRk~-~~~Y~CP~CGF 56 (59)
T PRK14890 25 KFLCPNCGEVIIYRCE-----KCRKQ-SNPYTCPKCGF 56 (59)
T ss_pred EeeCCCCCCeeEeech-----hHHhc-CCceECCCCCC
Confidence 5778888765222211 11111 34788988873
No 69
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=82.92 E-value=0.69 Score=24.84 Aligned_cols=15 Identities=13% Similarity=0.470 Sum_probs=12.7
Q ss_pred ccccCcchhhccChH
Q psy10080 42 TWACPMCRKIYAFKY 56 (101)
Q Consensus 42 p~~C~~c~~~~~~~~ 56 (101)
|++|..||..|..-+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 789999999998754
No 70
>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=82.84 E-value=0.86 Score=25.75 Aligned_cols=24 Identities=33% Similarity=0.520 Sum_probs=12.8
Q ss_pred ceeccccccccCChHHHHHHHHHhcCC
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLKHKE 97 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h~~e 97 (101)
...|..||+.|... .+|++.|+|.
T Consensus 72 ~i~clecGk~~k~L---krHL~~~~gl 95 (132)
T PF05443_consen 72 YIICLECGKKFKTL---KRHLRTHHGL 95 (132)
T ss_dssp -EE-TBT--EESBH---HHHHHHTT-S
T ss_pred eeEEccCCcccchH---HHHHHHccCC
Confidence 35677788777543 7777777654
No 71
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=82.53 E-value=1.4 Score=20.23 Aligned_cols=8 Identities=25% Similarity=0.787 Sum_probs=4.3
Q ss_pred HHHHHHHH
Q psy10080 85 TDIMHHMR 92 (101)
Q Consensus 85 ~~l~~h~~ 92 (101)
++|.+|+.
T Consensus 37 s~L~rHl~ 44 (50)
T smart00614 37 SNLRRHLR 44 (50)
T ss_pred HHHHHHHH
Confidence 45555555
No 72
>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=81.62 E-value=0.82 Score=25.59 Aligned_cols=30 Identities=7% Similarity=0.106 Sum_probs=18.3
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCCh
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHK 84 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~ 84 (101)
..|+.||+.|-.. . +.|..|+.||..|.-.
T Consensus 10 r~Cp~cg~kFYDL-----------n-k~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------N-RRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc-----------C-CCCccCCCcCCccCcc
Confidence 3677777655432 1 4466778887776544
No 73
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=81.48 E-value=1.2 Score=19.16 Aligned_cols=33 Identities=18% Similarity=0.389 Sum_probs=20.1
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
..|+.|+..|...... +... .....|..|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~-----ip~~-g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEK-----IPPK-GRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHH-----CCCC-CcEEECCCCCCEe
Confidence 3678888777766542 1111 2346788888765
No 74
>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=80.93 E-value=2 Score=23.18 Aligned_cols=25 Identities=28% Similarity=0.583 Sum_probs=21.9
Q ss_pred eec----cccccccCChHHHHHHHHHhcC
Q psy10080 72 QMC----LFCSYKCKHKTDIMHHMRLKHK 96 (101)
Q Consensus 72 ~~c----~~c~~~f~~~~~l~~h~~~h~~ 96 (101)
|.| ..|+..+.+...+..|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 779 8899999999999999988765
No 75
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=80.87 E-value=0.83 Score=22.04 Aligned_cols=31 Identities=16% Similarity=0.519 Sum_probs=17.9
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCS 78 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~ 78 (101)
.|.|+.||...-.... +--.- ..+|.|+.||
T Consensus 27 ~F~CPnCGe~~I~Rc~-----~CRk~-g~~Y~Cp~CG 57 (61)
T COG2888 27 KFPCPNCGEVEIYRCA-----KCRKL-GNPYRCPKCG 57 (61)
T ss_pred EeeCCCCCceeeehhh-----hHHHc-CCceECCCcC
Confidence 5788888854332221 11111 4479999887
No 76
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=80.59 E-value=1 Score=25.80 Aligned_cols=38 Identities=18% Similarity=0.396 Sum_probs=23.7
Q ss_pred CcccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
..-|.|+.|+..|.....+..- . . ...|.|+.||....
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~-d---~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLL-D---M-DGTFTCPRCGEELE 134 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhc-C---C-CCcEECCCCCCEEE
Confidence 3478899999888854332210 1 1 22389999987653
No 77
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=79.96 E-value=0.31 Score=28.21 Aligned_cols=12 Identities=25% Similarity=0.603 Sum_probs=5.6
Q ss_pred cccCcchhhccC
Q psy10080 43 WACPMCRKIYAF 54 (101)
Q Consensus 43 ~~C~~c~~~~~~ 54 (101)
++|+.||..|..
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 444455544443
No 78
>PHA00626 hypothetical protein
Probab=79.49 E-value=0.67 Score=22.07 Aligned_cols=12 Identities=25% Similarity=0.647 Sum_probs=6.8
Q ss_pred ceeccccccccC
Q psy10080 71 SQMCLFCSYKCK 82 (101)
Q Consensus 71 ~~~c~~c~~~f~ 82 (101)
.|.|..|+..|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 455666665554
No 79
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=77.77 E-value=1.2 Score=26.38 Aligned_cols=32 Identities=22% Similarity=0.487 Sum_probs=22.1
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
.-|.|+.|+..|+..-++ ..-|.|+.||....
T Consensus 116 ~~Y~Cp~C~~rytf~eA~----------~~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAM----------EYGFRCPQCGEMLE 147 (178)
T ss_pred CEEECCCCCcEEeHHHHh----------hcCCcCCCCCCCCe
Confidence 468899998877765443 12488999986553
No 80
>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=77.37 E-value=1.2 Score=25.89 Aligned_cols=32 Identities=16% Similarity=0.314 Sum_probs=21.6
Q ss_pred CcccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
..-|.|+.|+..|+..-++. .-|.|+.||...
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~----------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME----------LNFTCPRCGAML 138 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH----------cCCcCCCCCCEe
Confidence 34677888887777655442 148888888654
No 81
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=77.37 E-value=1.3 Score=20.02 Aligned_cols=26 Identities=23% Similarity=0.629 Sum_probs=16.2
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceeccccccc
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYK 80 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~ 80 (101)
|.|..||..|... . ..+..|+.||..
T Consensus 3 Y~C~~Cg~~~~~~-----------~-~~~irC~~CG~r 28 (44)
T smart00659 3 YICGECGRENEIK-----------S-KDVVRCRECGYR 28 (44)
T ss_pred EECCCCCCEeecC-----------C-CCceECCCCCce
Confidence 6778888765532 1 335678888744
No 82
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=77.04 E-value=3.2 Score=16.40 Aligned_cols=19 Identities=21% Similarity=0.406 Sum_probs=12.1
Q ss_pred eccccccccCChHHHHHHHH
Q psy10080 73 MCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 73 ~c~~c~~~f~~~~~l~~h~~ 92 (101)
.|+.|.+.+ ....+..|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 467777776 4556666654
No 83
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=75.19 E-value=1.5 Score=20.38 Aligned_cols=29 Identities=14% Similarity=0.541 Sum_probs=18.4
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccc
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYK 80 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~ 80 (101)
.-|.|..|++.|..... .....|+.||..
T Consensus 5 ~~Y~C~~Cg~~~~~~~~-----------~~~irCp~Cg~r 33 (49)
T COG1996 5 MEYKCARCGREVELDQE-----------TRGIRCPYCGSR 33 (49)
T ss_pred EEEEhhhcCCeeehhhc-----------cCceeCCCCCcE
Confidence 36889999987732111 335678888753
No 84
>KOG4167|consensus
Probab=73.85 E-value=0.88 Score=32.74 Aligned_cols=25 Identities=16% Similarity=0.125 Sum_probs=22.4
Q ss_pred ceeccccccccCChHHHHHHHHHhc
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
-|.|.+|++.|..-.+++.||+.|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 3889999999999999999999875
No 85
>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=73.13 E-value=5.3 Score=17.61 Aligned_cols=20 Identities=20% Similarity=0.592 Sum_probs=9.4
Q ss_pred eeccccccccCC----hHHHHHHH
Q psy10080 72 QMCLFCSYKCKH----KTDIMHHM 91 (101)
Q Consensus 72 ~~c~~c~~~f~~----~~~l~~h~ 91 (101)
..|..|++.+.. ..+|.+|+
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHH
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhh
Confidence 455556554443 35566665
No 86
>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=72.65 E-value=1.9 Score=18.08 Aligned_cols=10 Identities=20% Similarity=0.484 Sum_probs=5.5
Q ss_pred ceeccccccc
Q psy10080 71 SQMCLFCSYK 80 (101)
Q Consensus 71 ~~~c~~c~~~ 80 (101)
+..|..||..
T Consensus 17 ~irC~~CG~R 26 (32)
T PF03604_consen 17 PIRCPECGHR 26 (32)
T ss_dssp TSSBSSSS-S
T ss_pred cEECCcCCCe
Confidence 4567777643
No 87
>PF14353 CpXC: CpXC protein
Probab=72.53 E-value=2.4 Score=23.49 Aligned_cols=11 Identities=36% Similarity=0.531 Sum_probs=5.5
Q ss_pred ceecccccccc
Q psy10080 71 SQMCLFCSYKC 81 (101)
Q Consensus 71 ~~~c~~c~~~f 81 (101)
.+.|+.||..|
T Consensus 38 ~~~CP~Cg~~~ 48 (128)
T PF14353_consen 38 SFTCPSCGHKF 48 (128)
T ss_pred EEECCCCCCce
Confidence 34555555444
No 88
>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=71.92 E-value=0.91 Score=18.46 Aligned_cols=8 Identities=38% Similarity=0.878 Sum_probs=3.7
Q ss_pred cccccccc
Q psy10080 74 CLFCSYKC 81 (101)
Q Consensus 74 c~~c~~~f 81 (101)
|..|++.|
T Consensus 3 CiDC~~~F 10 (28)
T PF08790_consen 3 CIDCSKDF 10 (28)
T ss_dssp ETTTTEEE
T ss_pred eecCCCCc
Confidence 44444444
No 89
>KOG1146|consensus
Probab=70.88 E-value=3.2 Score=32.03 Aligned_cols=57 Identities=21% Similarity=0.404 Sum_probs=44.6
Q ss_pred CcccccCcchhhccChHHHHHHhhhhh----------------CCCCceeccccccccCChHHHHHHHHHhcCC
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVEC----------------GKEPSQMCLFCSYKCKHKTDIMHHMRLKHKE 97 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~----------------~~~~~~~c~~c~~~f~~~~~l~~h~~~h~~e 97 (101)
..+|.|..|...|.....|..|++... ....+| |..|...|+....|+.|+++-+++
T Consensus 1282 ~~~~~~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~~~~~alqihm~~~~~~ 1354 (1406)
T KOG1146|consen 1282 THRYLCRQCKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTYH-CLACEVLLSGREALQIHMRSSAHR 1354 (1406)
T ss_pred chhHHHHHHHhhhcchhHHHHHHHHHHhccCccccCCCCcccCcccccc-chHHHhhcchhHHHHHHHHHhhhc
Confidence 458999999999999999998875321 002345 999999999999999999975544
No 90
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=67.57 E-value=1.6 Score=21.94 Aligned_cols=11 Identities=27% Similarity=0.483 Sum_probs=5.2
Q ss_pred ceecc--cccccc
Q psy10080 71 SQMCL--FCSYKC 81 (101)
Q Consensus 71 ~~~c~--~c~~~f 81 (101)
.+.|. .||.+|
T Consensus 27 Y~qC~N~eCg~tF 39 (72)
T PRK09678 27 YHQCQNVNCSATF 39 (72)
T ss_pred eeecCCCCCCCEE
Confidence 34454 455544
No 91
>KOG3408|consensus
Probab=66.85 E-value=3.9 Score=22.77 Aligned_cols=21 Identities=14% Similarity=0.392 Sum_probs=15.7
Q ss_pred eeccccccccCChHHHHHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~ 92 (101)
|-|..|.+.|.....|..|.+
T Consensus 58 fyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 58 FYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred eehhhhhhhhcchHHHHHHHh
Confidence 567777777877777777765
No 92
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.81 E-value=6.8 Score=19.06 Aligned_cols=9 Identities=33% Similarity=0.748 Sum_probs=5.0
Q ss_pred Cceeccccc
Q psy10080 70 PSQMCLFCS 78 (101)
Q Consensus 70 ~~~~c~~c~ 78 (101)
..|.|+.|.
T Consensus 30 rtymC~eC~ 38 (68)
T COG4896 30 RTYMCPECE 38 (68)
T ss_pred eeEechhhH
Confidence 346666664
No 93
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=63.93 E-value=4.2 Score=18.88 Aligned_cols=16 Identities=25% Similarity=0.582 Sum_probs=12.1
Q ss_pred cccccCcchhhccChH
Q psy10080 41 TTWACPMCRKIYAFKY 56 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~ 56 (101)
+++.|..||..|....
T Consensus 3 k~l~C~dCg~~FvfTa 18 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFTA 18 (49)
T ss_pred eeEEcccCCCeEEEeh
Confidence 5778999998777654
No 94
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=61.98 E-value=13 Score=16.38 Aligned_cols=9 Identities=44% Similarity=1.434 Sum_probs=4.2
Q ss_pred ccCcchhhc
Q psy10080 44 ACPMCRKIY 52 (101)
Q Consensus 44 ~C~~c~~~~ 52 (101)
.|+.||..|
T Consensus 15 ~C~~CgM~Y 23 (41)
T PF13878_consen 15 TCPTCGMLY 23 (41)
T ss_pred CCCCCCCEE
Confidence 445555443
No 95
>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=61.94 E-value=3.3 Score=16.18 Aligned_cols=10 Identities=30% Similarity=0.936 Sum_probs=7.5
Q ss_pred cccccCcchh
Q psy10080 41 TTWACPMCRK 50 (101)
Q Consensus 41 ~p~~C~~c~~ 50 (101)
-+|.|+.||.
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 3788888873
No 96
>KOG4167|consensus
Probab=61.63 E-value=2.6 Score=30.53 Aligned_cols=26 Identities=15% Similarity=0.368 Sum_probs=22.7
Q ss_pred ccccCcchhhccChHHHHHHhhhhhC
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECG 67 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~ 67 (101)
-|.|..|++.|.....+-.||+.|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 58899999999988888899988864
No 97
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=61.01 E-value=2.2 Score=22.45 Aligned_cols=30 Identities=33% Similarity=0.688 Sum_probs=18.7
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
..|.|+.|++.-. .+...| .|.|..|++.|
T Consensus 34 ~ky~Cp~Cgk~~v--------kR~a~G---IW~C~~C~~~~ 63 (90)
T PF01780_consen 34 AKYTCPFCGKTSV--------KRVATG---IWKCKKCGKKF 63 (90)
T ss_dssp S-BEESSSSSSEE--------EEEETT---EEEETTTTEEE
T ss_pred CCCcCCCCCCcee--------EEeeeE---EeecCCCCCEE
Confidence 3688888886421 133344 58888888766
No 98
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=60.86 E-value=2.6 Score=23.82 Aligned_cols=16 Identities=19% Similarity=0.586 Sum_probs=12.5
Q ss_pred CcccccCcchhhccCh
Q psy10080 40 KTTWACPMCRKIYAFK 55 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~ 55 (101)
...+.|..||..|...
T Consensus 68 p~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 68 EAVLKCRNCGNEWSLK 83 (135)
T ss_pred ceEEECCCCCCEEecc
Confidence 3578999999887754
No 99
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=60.78 E-value=8 Score=22.04 Aligned_cols=23 Identities=22% Similarity=0.251 Sum_probs=14.3
Q ss_pred eeccccccccCChHHHHHHHHHhcCC
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMRLKHKE 97 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~~h~~e 97 (101)
..|.++|+.|. +|.+|+.+|.|.
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCC
Confidence 45666666653 567777776654
No 100
>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=60.53 E-value=3.2 Score=17.84 Aligned_cols=31 Identities=16% Similarity=0.457 Sum_probs=19.5
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYK 80 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~ 80 (101)
.|.|..|+..|...... ..+ ....|+.||..
T Consensus 5 ~y~C~~Cg~~fe~~~~~------~~~--~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKI------SDD--PLATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEec------CCC--CCCCCCCCCCc
Confidence 47899999887654321 112 23569999864
No 101
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=57.90 E-value=3.7 Score=21.63 Aligned_cols=31 Identities=26% Similarity=0.512 Sum_probs=19.8
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
..|.|+.|++.-. .+...+ .|.|..|++.|.
T Consensus 35 a~y~CpfCgk~~v--------kR~a~G---IW~C~~C~~~~A 65 (90)
T PTZ00255 35 AKYFCPFCGKHAV--------KRQAVG---IWRCKGCKKTVA 65 (90)
T ss_pred CCccCCCCCCCce--------eeeeeE---EEEcCCCCCEEe
Confidence 4788999985311 122334 588988987774
No 102
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.53 E-value=5.3 Score=21.88 Aligned_cols=11 Identities=0% Similarity=0.015 Sum_probs=6.5
Q ss_pred ceecccccccc
Q psy10080 71 SQMCLFCSYKC 81 (101)
Q Consensus 71 ~~~c~~c~~~f 81 (101)
|..|+.||++|
T Consensus 26 PiVsPytG~s~ 36 (129)
T COG4530 26 PIVSPYTGKSY 36 (129)
T ss_pred ccccCcccccc
Confidence 45566666665
No 103
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=56.26 E-value=5.1 Score=23.51 Aligned_cols=49 Identities=20% Similarity=0.282 Sum_probs=29.1
Q ss_pred cccccceecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceeccccccc
Q psy10080 27 KMLVPYNVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYK 80 (101)
Q Consensus 27 ~~~~~~~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~ 80 (101)
+...+.-...|+.-....|..|++.+....... ..... . ...|+.|+..
T Consensus 90 ~AG~~~vielHG~l~~~~C~~C~~~~~~~~~~~---~~~~~-~-~~~C~~C~~~ 138 (178)
T PF02146_consen 90 KAGSPKVIELHGSLFRLRCSKCGKEYDREDIVD---SIDEE-E-PPRCPKCGGL 138 (178)
T ss_dssp HTTESCEEETTEEEEEEEETTTSBEEEGHHHHH---HHHTT-S-SCBCTTTSCB
T ss_pred cccchhhHHHHhhhceeeecCCCccccchhhcc---ccccc-c-cccccccCcc
Confidence 333344455677777889999999877543221 12222 2 2368888753
No 104
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=56.13 E-value=3.6 Score=21.73 Aligned_cols=31 Identities=29% Similarity=0.577 Sum_probs=19.7
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
..|.|+.|++.-. .+...+ .|.|..|++.|.
T Consensus 34 a~y~CpfCgk~~v--------kR~a~G---IW~C~~C~~~~A 64 (91)
T TIGR00280 34 AKYVCPFCGKKTV--------KRGSTG---IWTCRKCGAKFA 64 (91)
T ss_pred cCccCCCCCCCce--------EEEeeE---EEEcCCCCCEEe
Confidence 4788998875311 133334 588888887763
No 105
>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=55.68 E-value=3.4 Score=19.35 Aligned_cols=27 Identities=15% Similarity=0.600 Sum_probs=15.4
Q ss_pred CcccccCcchhhccChHHHHHHhhhhh
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVEC 66 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~ 66 (101)
...|.|+.|.+.|-..-.+-.|...|.
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-S
T ss_pred CCeEECCCCCCccccCcChhhhccccC
Confidence 347999999999988887777755544
No 106
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=55.14 E-value=8.2 Score=25.20 Aligned_cols=57 Identities=25% Similarity=0.571 Sum_probs=44.4
Q ss_pred CCcccccCcchhhccChHHHHHHhhhhhCCCCceeccc--cccccCChHHHHHHHHHhcC
Q psy10080 39 KKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLF--CSYKCKHKTDIMHHMRLKHK 96 (101)
Q Consensus 39 ~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~--c~~~f~~~~~l~~h~~~h~~ 96 (101)
..+++.|..|...|........|.+.+.+ .+++.|.. |...+.....+..|.+.++.
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (467)
T COG5048 30 APRPDSCPNCTDSFSRLEHLTRHIRSHTG-EKPSQCSYSGCDKSFSRPLELSRHLRTHHN 88 (467)
T ss_pred CCchhhcccccccccccchhhhhcccccc-cCCccccccccccccCCcchhhhhcccccc
Confidence 34688899999999999889999999999 77777765 55677777777777766554
No 107
>PLN02294 cytochrome c oxidase subunit Vb
Probab=54.88 E-value=9.6 Score=22.60 Aligned_cols=11 Identities=27% Similarity=0.464 Sum_probs=5.9
Q ss_pred ceecccccccc
Q psy10080 71 SQMCLFCSYKC 81 (101)
Q Consensus 71 ~~~c~~c~~~f 81 (101)
+..|..||..|
T Consensus 141 p~RCpeCG~~f 151 (174)
T PLN02294 141 SFECPVCTQYF 151 (174)
T ss_pred ceeCCCCCCEE
Confidence 45565565544
No 108
>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=54.67 E-value=4.4 Score=17.92 Aligned_cols=30 Identities=13% Similarity=0.414 Sum_probs=19.6
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.|.|..||..|..... +.. ..+..|+.|+.
T Consensus 5 ey~C~~Cg~~fe~~~~------~~~--~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQS------ISE--DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEE------cCC--CCCCcCCCCCC
Confidence 4789999988775432 111 23457999986
No 109
>KOG2593|consensus
Probab=54.16 E-value=8.9 Score=26.09 Aligned_cols=36 Identities=22% Similarity=0.406 Sum_probs=20.7
Q ss_pred CcccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
..-|.|+.|.+.|...-.+ +-+-.. .-.|.|..|+.
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~---~L~~~~-~~~F~C~~C~g 161 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEAL---QLLDNE-TGEFHCENCGG 161 (436)
T ss_pred cccccCCccccchhhhHHH---Hhhccc-CceEEEecCCC
Confidence 3468888888777654332 222221 22577877764
No 110
>KOG4173|consensus
Probab=53.71 E-value=7.9 Score=23.77 Aligned_cols=47 Identities=30% Similarity=0.565 Sum_probs=31.1
Q ss_pred ccCcchhhccChHHHHHHhh-h---------hhCCCCceeccc--cccccCChHHHHHHH
Q psy10080 44 ACPMCRKIYAFKYNLMRHLR-V---------ECGKEPSQMCLF--CSYKCKHKTDIMHHM 91 (101)
Q Consensus 44 ~C~~c~~~~~~~~~l~~h~~-~---------h~~~~~~~~c~~--c~~~f~~~~~l~~h~ 91 (101)
.|..|.+.|.+...|..|+. + -.| ..-|.|.+ |+-.|...-.-..|+
T Consensus 108 sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG-~dMy~ClvEgCt~KFkT~r~RkdH~ 166 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERG-QDMYQCLVEGCTEKFKTSRDRKDHM 166 (253)
T ss_pred hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcC-ccHHHHHHHhhhhhhhhhhhhhhHH
Confidence 68888888888877777743 1 233 34566743 777777766666664
No 111
>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=52.15 E-value=10 Score=16.96 Aligned_cols=17 Identities=12% Similarity=0.434 Sum_probs=11.5
Q ss_pred eeccccccccCChHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIM 88 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~ 88 (101)
-.|..|++.|++..-..
T Consensus 9 K~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 9 KICPVCGRPFTWRKKWA 25 (42)
T ss_pred CcCcccCCcchHHHHHH
Confidence 35888888887665443
No 112
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=52.13 E-value=3.8 Score=17.58 Aligned_cols=31 Identities=26% Similarity=0.607 Sum_probs=17.7
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
+.|+.||.+|..... .. ...-.|..||..+.
T Consensus 2 r~C~~Cg~~Yh~~~~--------pP-~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 2 RICPKCGRIYHIEFN--------PP-KVEGVCDNCGGELV 32 (36)
T ss_dssp EEETTTTEEEETTTB-----------SSTTBCTTTTEBEB
T ss_pred cCcCCCCCccccccC--------CC-CCCCccCCCCCeeE
Confidence 357788877664321 12 33456888876543
No 113
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.11 E-value=2.5 Score=23.68 Aligned_cols=15 Identities=20% Similarity=0.598 Sum_probs=8.4
Q ss_pred CceeccccccccCCh
Q psy10080 70 PSQMCLFCSYKCKHK 84 (101)
Q Consensus 70 ~~~~c~~c~~~f~~~ 84 (101)
+|.-|..||+.|+|.
T Consensus 67 ~psfchncgs~fpwt 81 (160)
T COG4306 67 PPSFCHNCGSRFPWT 81 (160)
T ss_pred CcchhhcCCCCCCcH
Confidence 344466666666554
No 114
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=51.69 E-value=7.9 Score=26.32 Aligned_cols=29 Identities=17% Similarity=0.401 Sum_probs=18.2
Q ss_pred ccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCCh
Q psy10080 44 ACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHK 84 (101)
Q Consensus 44 ~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~ 84 (101)
.|+.||..+.+.. ..-|.|..|+..+...
T Consensus 352 ~Cp~Cg~~m~S~G------------~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSAG------------RNGFRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhcC------------CCCcccccccccCCcc
Confidence 6888886544322 2267888888776544
No 115
>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=51.42 E-value=5.9 Score=21.17 Aligned_cols=17 Identities=24% Similarity=0.696 Sum_probs=13.1
Q ss_pred cCCCcccccCcchhhccC
Q psy10080 37 EGKKTTWACPMCRKIYAF 54 (101)
Q Consensus 37 ~~~~~p~~C~~c~~~~~~ 54 (101)
+.+ +|.+|..||..|.-
T Consensus 75 ~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 75 EKG-KPKRCPECGHVFKL 91 (97)
T ss_pred eCC-CceeCCCCCcEEEE
Confidence 344 59999999988763
No 116
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=50.85 E-value=4.7 Score=21.25 Aligned_cols=31 Identities=29% Similarity=0.558 Sum_probs=19.3
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
..|.|+.|++.-. .+...+ .|.|..|++.|.
T Consensus 35 a~y~CpfCgk~~v--------kR~a~G---IW~C~~C~~~~A 65 (90)
T PRK03976 35 AKHVCPVCGRPKV--------KRVGTG---IWECRKCGAKFA 65 (90)
T ss_pred cCccCCCCCCCce--------EEEEEE---EEEcCCCCCEEe
Confidence 4788888875311 133334 578888887764
No 117
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=50.30 E-value=7 Score=17.04 Aligned_cols=14 Identities=14% Similarity=0.645 Sum_probs=11.0
Q ss_pred ccccCcchhhccCh
Q psy10080 42 TWACPMCRKIYAFK 55 (101)
Q Consensus 42 p~~C~~c~~~~~~~ 55 (101)
|+.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78899898887653
No 118
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=50.25 E-value=7.5 Score=21.27 Aligned_cols=27 Identities=15% Similarity=0.317 Sum_probs=17.1
Q ss_pred CcccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.-.+.|..|+..|.... ..+.|+.||.
T Consensus 68 p~~~~C~~Cg~~~~~~~-------------~~~~CP~Cgs 94 (113)
T PRK12380 68 PAQAWCWDCSQVVEIHQ-------------HDAQCPHCHG 94 (113)
T ss_pred CcEEEcccCCCEEecCC-------------cCccCcCCCC
Confidence 34678899986655421 2355888874
No 119
>KOG0717|consensus
Probab=50.05 E-value=11 Score=25.99 Aligned_cols=21 Identities=19% Similarity=0.529 Sum_probs=15.7
Q ss_pred eeccccccccCChHHHHHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~ 92 (101)
+-|.+|.++|.+...|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 348888888888888877765
No 120
>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=49.80 E-value=6.6 Score=18.27 Aligned_cols=12 Identities=17% Similarity=0.567 Sum_probs=6.4
Q ss_pred eccccccccCCh
Q psy10080 73 MCLFCSYKCKHK 84 (101)
Q Consensus 73 ~c~~c~~~f~~~ 84 (101)
.|++|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 799999998743
No 121
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=49.58 E-value=8.1 Score=21.20 Aligned_cols=27 Identities=15% Similarity=0.227 Sum_probs=17.5
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccc
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYK 80 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~ 80 (101)
-...|..|+..|.... ..+.|+.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~-------------~~~~CP~Cgs~ 95 (115)
T TIGR00100 69 VECECEDCSEEVSPEI-------------DLYRCPKCHGI 95 (115)
T ss_pred cEEEcccCCCEEecCC-------------cCccCcCCcCC
Confidence 3578999987665431 13568888743
No 122
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=49.22 E-value=7.2 Score=21.38 Aligned_cols=29 Identities=14% Similarity=0.378 Sum_probs=17.5
Q ss_pred CcccccCcchhhccChHHHHHHhhhhhCCCCceeccccccc
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYK 80 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~ 80 (101)
.-.+.|..|+..|.... ...+.|+.||..
T Consensus 68 p~~~~C~~Cg~~~~~~~------------~~~~~CP~Cgs~ 96 (114)
T PRK03681 68 EAECWCETCQQYVTLLT------------QRVRRCPQCHGD 96 (114)
T ss_pred CcEEEcccCCCeeecCC------------ccCCcCcCcCCC
Confidence 34678999987554321 112568888843
No 123
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=48.58 E-value=12 Score=16.32 Aligned_cols=19 Identities=11% Similarity=0.205 Sum_probs=12.1
Q ss_pred ceeccccccccCChHHHHH
Q psy10080 71 SQMCLFCSYKCKHKTDIMH 89 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~ 89 (101)
...|..|+..+.....|.+
T Consensus 19 id~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 19 IDVCPSCGGIWFDAGELEK 37 (41)
T ss_pred EEECCCCCeEEccHHHHHH
Confidence 4567777777666665543
No 124
>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=48.45 E-value=6.4 Score=16.98 Aligned_cols=13 Identities=23% Similarity=0.649 Sum_probs=7.2
Q ss_pred cccccCcchhhcc
Q psy10080 41 TTWACPMCRKIYA 53 (101)
Q Consensus 41 ~p~~C~~c~~~~~ 53 (101)
+-|+|..||++..
T Consensus 5 ~~YkC~~CGniVe 17 (36)
T PF06397_consen 5 EFYKCEHCGNIVE 17 (36)
T ss_dssp EEEE-TTT--EEE
T ss_pred cEEEccCCCCEEE
Confidence 3689999998643
No 125
>KOG2071|consensus
Probab=48.37 E-value=12 Score=26.48 Aligned_cols=28 Identities=11% Similarity=0.245 Sum_probs=22.7
Q ss_pred CcccccCcchhhccChHHHHHHhhhhhC
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVECG 67 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~~ 67 (101)
..|.+|..||..|........|+..|..
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhh
Confidence 4678999999999999888877766643
No 126
>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=48.24 E-value=6.5 Score=17.98 Aligned_cols=30 Identities=17% Similarity=0.494 Sum_probs=19.0
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.|.|..|+..|..... ... .....|+.|+.
T Consensus 5 ey~C~~Cg~~fe~~~~------~~~--~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQK------MSD--DPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEe------cCC--CCCCCCCCCCC
Confidence 4789999988775421 111 22356999985
No 127
>PF15269 zf-C2H2_7: Zinc-finger
Probab=45.62 E-value=22 Score=16.15 Aligned_cols=21 Identities=29% Similarity=0.972 Sum_probs=12.6
Q ss_pred eeccccccccCChHHHHHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~ 92 (101)
|.|-.|.-+..-.+.|-.|+.
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 445556555556666666665
No 128
>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=45.05 E-value=6.6 Score=21.45 Aligned_cols=26 Identities=15% Similarity=0.252 Sum_probs=15.6
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYK 80 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~ 80 (101)
...|..|+..|..... .+.|+.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~~-------------~~~CP~Cgs~ 95 (113)
T PF01155_consen 70 RARCRDCGHEFEPDEF-------------DFSCPRCGSP 95 (113)
T ss_dssp EEEETTTS-EEECHHC-------------CHH-SSSSSS
T ss_pred cEECCCCCCEEecCCC-------------CCCCcCCcCC
Confidence 5778889887775431 2458888754
No 129
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=44.65 E-value=20 Score=24.87 Aligned_cols=29 Identities=21% Similarity=0.232 Sum_probs=23.8
Q ss_pred CCceeccccccccCChHHHHHHHH-HhcCC
Q psy10080 69 EPSQMCLFCSYKCKHKTDIMHHMR-LKHKE 97 (101)
Q Consensus 69 ~~~~~c~~c~~~f~~~~~l~~h~~-~h~~e 97 (101)
..-+.|+.|.+.|.....+..|+. .|.+.
T Consensus 55 WrFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 55 WRFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eeEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 456889999999999999999976 45554
No 130
>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=44.29 E-value=13 Score=15.26 Aligned_cols=10 Identities=20% Similarity=0.414 Sum_probs=6.4
Q ss_pred Cceecccccc
Q psy10080 70 PSQMCLFCSY 79 (101)
Q Consensus 70 ~~~~c~~c~~ 79 (101)
..+.|+.|+.
T Consensus 18 ~~~vCp~C~~ 27 (30)
T PF08274_consen 18 ELLVCPECGH 27 (30)
T ss_dssp SSEEETTTTE
T ss_pred CEEeCCcccc
Confidence 3567777764
No 131
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.25 E-value=6.4 Score=20.05 Aligned_cols=32 Identities=16% Similarity=0.597 Sum_probs=18.2
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
.|.|..|+..|.. ..++. . .+.-.|+.|+-.+
T Consensus 12 ~Y~c~~cg~~~dv----vq~~~---d-dplt~ce~c~a~~ 43 (82)
T COG2331 12 SYECTECGNRFDV----VQAMT---D-DPLTTCEECGARL 43 (82)
T ss_pred EEeecccchHHHH----HHhcc---c-CccccChhhChHH
Confidence 4789999876543 22222 2 3344577776543
No 132
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=43.99 E-value=30 Score=21.60 Aligned_cols=43 Identities=21% Similarity=0.389 Sum_probs=26.2
Q ss_pred ceecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 32 YNVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 32 ~~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.-...|+.-....|..|++.+.....+. ..... ..| .|+.|+.
T Consensus 109 ~VielHG~~~~~~C~~C~~~~~~~~~~~---~~~~~-~~p-~Cp~Cgg 151 (244)
T PRK14138 109 KVIELHGNVEEYYCVRCGKRYTVEDVIE---KLEKS-DVP-RCDDCSG 151 (244)
T ss_pred eEEEccCCcCeeEECCCCCcccHHHHHH---HHhcC-CCC-CCCCCCC
Confidence 4455688777889999998876543322 11112 223 5888863
No 133
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=43.84 E-value=9.3 Score=21.05 Aligned_cols=15 Identities=20% Similarity=0.583 Sum_probs=10.5
Q ss_pred CcccccCcchhhccC
Q psy10080 40 KTTWACPMCRKIYAF 54 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~ 54 (101)
+-.+.|..|+..|..
T Consensus 69 p~~~~C~~Cg~~~~~ 83 (117)
T PRK00564 69 KVELECKDCSHVFKP 83 (117)
T ss_pred CCEEEhhhCCCcccc
Confidence 346789999876654
No 134
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=41.83 E-value=17 Score=22.91 Aligned_cols=43 Identities=19% Similarity=0.270 Sum_probs=25.5
Q ss_pred ceecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 32 YNVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 32 ~~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.-...|+.-..+.|..|+..+........ ...+ . +-.|+.|+.
T Consensus 112 ~Vi~lHGsl~~~~C~~C~~~~~~~~~~~~---~~~~-~-~p~C~~Cg~ 154 (250)
T COG0846 112 NVIELHGSLKRVRCSKCGNQYYDEDVIKF---IEDG-L-IPRCPKCGG 154 (250)
T ss_pred cEEEeccceeeeEeCCCcCccchhhhhhh---cccC-C-CCcCccCCC
Confidence 44455777788999999877664331111 1111 2 235888886
No 135
>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=41.61 E-value=7.8 Score=17.15 Aligned_cols=15 Identities=27% Similarity=0.762 Sum_probs=9.2
Q ss_pred cccccCcchhhccCh
Q psy10080 41 TTWACPMCRKIYAFK 55 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~ 55 (101)
-|+.|..|++.|-..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 388999999887754
No 136
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=40.60 E-value=12 Score=20.55 Aligned_cols=25 Identities=20% Similarity=0.368 Sum_probs=16.9
Q ss_pred ceeccccccccCChHHHHHHHHHhc
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLKH 95 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h~ 95 (101)
.|.|..|...|...-++--|..+|.
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred ceeCCCCCCccccccchhhhhhccC
Confidence 4677777777776666666666553
No 137
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=39.44 E-value=11 Score=20.47 Aligned_cols=21 Identities=19% Similarity=0.520 Sum_probs=17.1
Q ss_pred eeccccccccCChHHHHHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~ 92 (101)
+-|..|.+.|.+...|..|.+
T Consensus 56 hYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 56 HYCIECARYFITEKALMEHKK 76 (126)
T ss_pred eeeehhHHHHHHHHHHHHHhc
Confidence 448889999999888888865
No 138
>PRK12496 hypothetical protein; Provisional
Probab=39.37 E-value=18 Score=21.21 Aligned_cols=28 Identities=29% Similarity=0.688 Sum_probs=17.6
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
..+.|..|++.|.... ..-.|+.||...
T Consensus 126 w~~~C~gC~~~~~~~~-------------~~~~C~~CG~~~ 153 (164)
T PRK12496 126 WRKVCKGCKKKYPEDY-------------PDDVCEICGSPV 153 (164)
T ss_pred eeEECCCCCccccCCC-------------CCCcCCCCCChh
Confidence 3477999998775321 113488898654
No 139
>KOG2482|consensus
Probab=39.36 E-value=23 Score=23.63 Aligned_cols=53 Identities=23% Similarity=0.466 Sum_probs=35.9
Q ss_pred cccccCcchhh-ccChHHHHHHhhh-hh---CC-----------------CCceeccccccccCChHHHHHHHHH
Q psy10080 41 TTWACPMCRKI-YAFKYNLMRHLRV-EC---GK-----------------EPSQMCLFCSYKCKHKTDIMHHMRL 93 (101)
Q Consensus 41 ~p~~C~~c~~~-~~~~~~l~~h~~~-h~---~~-----------------~~~~~c~~c~~~f~~~~~l~~h~~~ 93 (101)
+..+|-.|... ....+.+..|... |. |. -..+.|..|.+.|.....|..|||.
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHh
Confidence 45668888764 4455666666442 21 10 1136799999999999999999984
No 140
>PF14369 zf-RING_3: zinc-finger
Probab=38.97 E-value=14 Score=15.72 Aligned_cols=10 Identities=20% Similarity=0.301 Sum_probs=7.2
Q ss_pred eccccccccC
Q psy10080 73 MCLFCSYKCK 82 (101)
Q Consensus 73 ~c~~c~~~f~ 82 (101)
.|+.|+..|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 4888887764
No 141
>PRK14873 primosome assembly protein PriA; Provisional
Probab=38.95 E-value=20 Score=25.98 Aligned_cols=10 Identities=20% Similarity=0.421 Sum_probs=6.5
Q ss_pred ceeccccccc
Q psy10080 71 SQMCLFCSYK 80 (101)
Q Consensus 71 ~~~c~~c~~~ 80 (101)
++.|+.|+..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 5667777653
No 142
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=38.73 E-value=18 Score=24.85 Aligned_cols=9 Identities=33% Similarity=0.837 Sum_probs=5.1
Q ss_pred cccccCcch
Q psy10080 41 TTWACPMCR 49 (101)
Q Consensus 41 ~p~~C~~c~ 49 (101)
.-++|+.|+
T Consensus 20 ~~g~Cp~C~ 28 (454)
T TIGR00416 20 WQGKCPACH 28 (454)
T ss_pred ccEECcCCC
Confidence 445566665
No 143
>PRK11823 DNA repair protein RadA; Provisional
Probab=38.52 E-value=21 Score=24.46 Aligned_cols=8 Identities=38% Similarity=0.903 Sum_probs=3.8
Q ss_pred ccccCcch
Q psy10080 42 TWACPMCR 49 (101)
Q Consensus 42 p~~C~~c~ 49 (101)
-++|+.|+
T Consensus 21 ~g~Cp~C~ 28 (446)
T PRK11823 21 LGRCPECG 28 (446)
T ss_pred CeeCcCCC
Confidence 34455554
No 144
>PRK05978 hypothetical protein; Provisional
Probab=38.26 E-value=17 Score=21.07 Aligned_cols=33 Identities=27% Similarity=0.575 Sum_probs=18.6
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCCh
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHK 84 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~ 84 (101)
..+|+.|++.--..+.| +..-.|+.||..|...
T Consensus 33 ~grCP~CG~G~LF~g~L----------kv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 33 RGRCPACGEGKLFRAFL----------KPVDHCAACGEDFTHH 65 (148)
T ss_pred cCcCCCCCCCccccccc----------ccCCCccccCCccccC
Confidence 45789998643322222 1123588888776543
No 145
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=38.14 E-value=9 Score=16.35 Aligned_cols=10 Identities=20% Similarity=0.494 Sum_probs=4.3
Q ss_pred eecccccccc
Q psy10080 72 QMCLFCSYKC 81 (101)
Q Consensus 72 ~~c~~c~~~f 81 (101)
.-|..||-.+
T Consensus 22 isC~~CGPr~ 31 (35)
T PF07503_consen 22 ISCTNCGPRY 31 (35)
T ss_dssp --BTTCC-SC
T ss_pred ccCCCCCCCE
Confidence 4466776444
No 146
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=37.13 E-value=19 Score=17.42 Aligned_cols=30 Identities=33% Similarity=0.752 Sum_probs=17.8
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCS 78 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~ 78 (101)
.|.|+ ||..|.-. | .....| +...+|++|+
T Consensus 22 tyPCP-CGDRFeIs--L---eDl~~G-E~VArCPSCS 51 (67)
T COG5216 22 TYPCP-CGDRFEIS--L---EDLRNG-EVVARCPSCS 51 (67)
T ss_pred EecCC-CCCEeEEE--H---HHhhCC-ceEEEcCCce
Confidence 56666 67666542 1 234566 5556788886
No 147
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=36.43 E-value=3.7 Score=22.05 Aligned_cols=14 Identities=29% Similarity=0.714 Sum_probs=9.6
Q ss_pred CcccccCcchhhcc
Q psy10080 40 KTTWACPMCRKIYA 53 (101)
Q Consensus 40 ~~p~~C~~c~~~~~ 53 (101)
++.|.|+.|+..-.
T Consensus 20 ~k~FtCp~Cghe~v 33 (104)
T COG4888 20 PKTFTCPRCGHEKV 33 (104)
T ss_pred CceEecCccCCeee
Confidence 45788888886533
No 148
>KOG0782|consensus
Probab=35.18 E-value=5.7 Score=28.26 Aligned_cols=38 Identities=18% Similarity=0.352 Sum_probs=21.5
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccCCh
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCKHK 84 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~~~ 84 (101)
..-+|..|++.|.++- ..|..|.....|..|..+|-.+
T Consensus 252 qeGkC~~CgKgFQQKf------~FhsKEivAisCSWCKqayH~K 289 (1004)
T KOG0782|consen 252 QEGKCNTCGKGFQQKF------FFHSKEIVAISCSWCKQAYHLK 289 (1004)
T ss_pred hccccchhhhhhhhhe------eeccccEEEEEehHHHHHhhcc
Confidence 3456778887776553 2344434445566676665433
No 149
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=35.10 E-value=18 Score=21.14 Aligned_cols=37 Identities=30% Similarity=0.482 Sum_probs=23.6
Q ss_pred CCcccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 39 KKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 39 ~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
...+|.|. |+.-|... .+|-.+-.| + .|.|..|+...
T Consensus 114 ~~~~Y~C~-C~q~~l~~---RRhn~~~~g-~-~YrC~~C~gkL 150 (156)
T COG3091 114 TTYPYRCQ-CQQHYLRI---RRHNTVRRG-E-VYRCGKCGGKL 150 (156)
T ss_pred cceeEEee-cCCccchh---hhccccccc-c-eEEeccCCceE
Confidence 34588999 98765543 344444555 4 58898887543
No 150
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.82 E-value=17 Score=16.79 Aligned_cols=15 Identities=13% Similarity=0.470 Sum_probs=10.3
Q ss_pred eccccccccCChHHH
Q psy10080 73 MCLFCSYKCKHKTDI 87 (101)
Q Consensus 73 ~c~~c~~~f~~~~~l 87 (101)
.|+.|++-|++..-+
T Consensus 14 ICpvCqRPFsWRkKW 28 (54)
T COG4338 14 ICPVCQRPFSWRKKW 28 (54)
T ss_pred hhhhhcCchHHHHHH
Confidence 578888888766443
No 151
>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=34.38 E-value=20 Score=21.00 Aligned_cols=19 Identities=26% Similarity=0.482 Sum_probs=15.7
Q ss_pred CcccccCcchhhccChHHH
Q psy10080 40 KTTWACPMCRKIYAFKYNL 58 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l 58 (101)
..|..|..||+.|.+....
T Consensus 66 ~~PsYC~~CGkpyPWt~~~ 84 (158)
T PF10083_consen 66 EAPSYCHNCGKPYPWTENA 84 (158)
T ss_pred CCChhHHhCCCCCchHHHH
Confidence 3689999999999998553
No 152
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=34.06 E-value=45 Score=20.32 Aligned_cols=44 Identities=20% Similarity=0.310 Sum_probs=26.1
Q ss_pred cceecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 31 PYNVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 31 ~~~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
+.-...|+.-....|..|++.+...... ...... .. -.|+.|+.
T Consensus 98 ~~v~elHG~~~~~~C~~C~~~~~~~~~~---~~~~~~-~~-p~C~~Cg~ 141 (218)
T cd01407 98 PKVIELHGSLFRVRCTKCGKEYPRDELQ---ADIDRE-EV-PRCPKCGG 141 (218)
T ss_pred CCEEECcCCcCcceeCCCcCCCcHHHHh---HhhccC-CC-CcCCCCCC
Confidence 3556668887788999999876544221 111122 22 35888864
No 153
>COG1773 Rubredoxin [Energy production and conversion]
Probab=33.90 E-value=15 Score=17.50 Aligned_cols=14 Identities=29% Similarity=1.030 Sum_probs=10.5
Q ss_pred ccccCcchhhccCh
Q psy10080 42 TWACPMCRKIYAFK 55 (101)
Q Consensus 42 p~~C~~c~~~~~~~ 55 (101)
.|+|..||..|.-.
T Consensus 3 ~~~C~~CG~vYd~e 16 (55)
T COG1773 3 RWRCSVCGYVYDPE 16 (55)
T ss_pred ceEecCCceEeccc
Confidence 68899999776543
No 154
>PTZ00409 Sir2 (Silent Information Regulator) protein; Provisional
Probab=33.76 E-value=60 Score=20.78 Aligned_cols=24 Identities=21% Similarity=0.326 Sum_probs=17.1
Q ss_pred ceecccCCCcccccCcchhhccCh
Q psy10080 32 YNVDKEGKKTTWACPMCRKIYAFK 55 (101)
Q Consensus 32 ~~~~~~~~~~p~~C~~c~~~~~~~ 55 (101)
.-...|+.-....|..|+..+...
T Consensus 127 ~V~ElHG~l~~~~C~~C~~~~~~~ 150 (271)
T PTZ00409 127 KVIPLHGSVFEARCCTCRKTIQLN 150 (271)
T ss_pred cEEEeccCcCcceeCCCCCCcccC
Confidence 345567777788899998776543
No 155
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=33.57 E-value=26 Score=25.81 Aligned_cols=12 Identities=25% Similarity=0.421 Sum_probs=8.0
Q ss_pred CCceeccccccc
Q psy10080 69 EPSQMCLFCSYK 80 (101)
Q Consensus 69 ~~~~~c~~c~~~ 80 (101)
..|..|+.||..
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 456778888754
No 156
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=33.26 E-value=27 Score=16.13 Aligned_cols=11 Identities=27% Similarity=0.498 Sum_probs=8.1
Q ss_pred ceecccccccc
Q psy10080 71 SQMCLFCSYKC 81 (101)
Q Consensus 71 ~~~c~~c~~~f 81 (101)
.+.|..|+..+
T Consensus 37 r~~C~~Cgyt~ 47 (50)
T PRK00432 37 RWHCGKCGYTE 47 (50)
T ss_pred cEECCCcCCEE
Confidence 57788888654
No 157
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=33.14 E-value=24 Score=22.77 Aligned_cols=12 Identities=17% Similarity=0.537 Sum_probs=7.4
Q ss_pred ceeccccccccC
Q psy10080 71 SQMCLFCSYKCK 82 (101)
Q Consensus 71 ~~~c~~c~~~f~ 82 (101)
.+.|+.|+.-|.
T Consensus 45 ~~vc~~c~~h~r 56 (285)
T TIGR00515 45 LEVCPKCDHHMR 56 (285)
T ss_pred CCCCCCCCCcCc
Confidence 356777776554
No 158
>KOG2923|consensus
Probab=32.96 E-value=32 Score=16.96 Aligned_cols=30 Identities=30% Similarity=0.746 Sum_probs=16.9
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceeccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCS 78 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~ 78 (101)
.|.|+ ||..|..... ..-.| +....|+.|+
T Consensus 22 ~yPCp-CGDrf~It~e-----dL~~g-e~Va~CpsCS 51 (67)
T KOG2923|consen 22 YYPCP-CGDRFQITLE-----DLENG-EDVARCPSCS 51 (67)
T ss_pred EcCCC-CCCeeeecHH-----HHhCC-CeeecCCCce
Confidence 45565 6766654322 33455 4446788886
No 159
>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=32.93 E-value=12 Score=21.37 Aligned_cols=18 Identities=28% Similarity=0.746 Sum_probs=13.4
Q ss_pred cCCCcccccCcchhhccCh
Q psy10080 37 EGKKTTWACPMCRKIYAFK 55 (101)
Q Consensus 37 ~~~~~p~~C~~c~~~~~~~ 55 (101)
+.++ |.+|+.||..|.-.
T Consensus 108 ~~g~-~~RCpeCG~~fkL~ 125 (136)
T PF01215_consen 108 HKGK-PQRCPECGQVFKLK 125 (136)
T ss_dssp ETTS-EEEETTTEEEEEEE
T ss_pred eCCC-ccCCCCCCeEEEEE
Confidence 3444 89999999887643
No 160
>COG4855 Uncharacterized protein conserved in archaea [Function unknown]
Probab=32.60 E-value=20 Score=17.84 Aligned_cols=28 Identities=11% Similarity=0.262 Sum_probs=12.5
Q ss_pred eccccccccCChHHHHHHHHHhcCCCCC
Q psy10080 73 MCLFCSYKCKHKTDIMHHMRLKHKEFKI 100 (101)
Q Consensus 73 ~c~~c~~~f~~~~~l~~h~~~h~~e~~~ 100 (101)
.|.+||+...-....+.-..+..|.+||
T Consensus 25 iCIVCG~GlC~EHli~eE~p~w~G~YP~ 52 (76)
T COG4855 25 ICIVCGMGLCMEHLIREETPMWGGGYPF 52 (76)
T ss_pred EEEEeCchHHHHHHHhhhcccccCCCCC
Confidence 4566665554443333333334444443
No 161
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=32.59 E-value=46 Score=20.45 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=18.0
Q ss_pred ceecccCCCcccccCcchhhccChH
Q psy10080 32 YNVDKEGKKTTWACPMCRKIYAFKY 56 (101)
Q Consensus 32 ~~~~~~~~~~p~~C~~c~~~~~~~~ 56 (101)
.-...|+.-....|..|++.+....
T Consensus 103 ~v~elHG~l~~~~C~~C~~~~~~~~ 127 (222)
T cd01413 103 NVIELHGTLQTAYCVNCGSKYDLEE 127 (222)
T ss_pred cEEEccCCcCcceECCCCCCcchhH
Confidence 3455677777888999998776543
No 162
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=31.91 E-value=68 Score=20.90 Aligned_cols=23 Identities=17% Similarity=0.547 Sum_probs=15.7
Q ss_pred CceeccccccccCChHHHHHHHH
Q psy10080 70 PSQMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 70 ~~~~c~~c~~~f~~~~~l~~h~~ 92 (101)
..|.|..|-+.|.+...+.+|+.
T Consensus 47 ~lyiCe~Clky~~~~~~l~~H~~ 69 (290)
T PLN03238 47 KLYICEYCLKYMRKKKSLLRHLA 69 (290)
T ss_pred eEEEcCCCcchhCCHHHHHHHHH
Confidence 34667777777777777777765
No 163
>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=31.65 E-value=42 Score=16.17 Aligned_cols=15 Identities=13% Similarity=0.414 Sum_probs=9.9
Q ss_pred CCceeccccccccCC
Q psy10080 69 EPSQMCLFCSYKCKH 83 (101)
Q Consensus 69 ~~~~~c~~c~~~f~~ 83 (101)
...|.|+.||..+..
T Consensus 44 ~r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 44 GRVFTCPNCGFEMDR 58 (69)
T ss_pred cceEEcCCCCCEECc
Confidence 345788888866543
No 164
>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=31.56 E-value=27 Score=16.85 Aligned_cols=10 Identities=30% Similarity=0.969 Sum_probs=3.0
Q ss_pred ccCcchhhcc
Q psy10080 44 ACPMCRKIYA 53 (101)
Q Consensus 44 ~C~~c~~~~~ 53 (101)
.|..|++.|.
T Consensus 11 ~C~~C~~~F~ 20 (69)
T PF01363_consen 11 NCMICGKKFS 20 (69)
T ss_dssp B-TTT--B-B
T ss_pred cCcCcCCcCC
Confidence 4555555553
No 165
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=31.56 E-value=31 Score=23.13 Aligned_cols=12 Identities=33% Similarity=0.617 Sum_probs=7.9
Q ss_pred CCcccccCcchh
Q psy10080 39 KKTTWACPMCRK 50 (101)
Q Consensus 39 ~~~p~~C~~c~~ 50 (101)
.+.-++|+.|+.
T Consensus 11 ~~~~g~cp~c~~ 22 (372)
T cd01121 11 PKWLGKCPECGE 22 (372)
T ss_pred CCccEECcCCCC
Confidence 345677888874
No 166
>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=31.24 E-value=24 Score=19.29 Aligned_cols=8 Identities=38% Similarity=1.020 Sum_probs=3.8
Q ss_pred eecccccc
Q psy10080 72 QMCLFCSY 79 (101)
Q Consensus 72 ~~c~~c~~ 79 (101)
|.|+.|+.
T Consensus 20 ~iCpeC~~ 27 (109)
T TIGR00686 20 LICPSCLY 27 (109)
T ss_pred eECccccc
Confidence 44555543
No 167
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=31.15 E-value=27 Score=22.69 Aligned_cols=30 Identities=27% Similarity=0.566 Sum_probs=16.1
Q ss_pred cccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 43 WACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
.+|+.|+..+-.+. |. ...+.|+.|+.-|.
T Consensus 39 ~kc~~C~~~~~~~~-l~---------~~~~vcp~c~~h~r 68 (296)
T CHL00174 39 VQCENCYGLNYKKF-LK---------SKMNICEQCGYHLK 68 (296)
T ss_pred eECCCccchhhHHH-HH---------HcCCCCCCCCCCcC
Confidence 35777775433221 11 22456888876654
No 168
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=30.57 E-value=9.2 Score=17.31 Aligned_cols=13 Identities=15% Similarity=0.176 Sum_probs=7.5
Q ss_pred Cceeccc--cccccC
Q psy10080 70 PSQMCLF--CSYKCK 82 (101)
Q Consensus 70 ~~~~c~~--c~~~f~ 82 (101)
..+.|.. ||.+|.
T Consensus 24 ~Y~qC~N~~Cg~tfv 38 (47)
T PF04606_consen 24 LYCQCTNPECGHTFV 38 (47)
T ss_pred EEEEECCCcCCCEEE
Confidence 3456643 776664
No 169
>KOG2231|consensus
Probab=30.37 E-value=64 Score=23.66 Aligned_cols=20 Identities=35% Similarity=0.723 Sum_probs=11.5
Q ss_pred ccCcchhhccChHHHHHHhh
Q psy10080 44 ACPMCRKIYAFKYNLMRHLR 63 (101)
Q Consensus 44 ~C~~c~~~~~~~~~l~~h~~ 63 (101)
.|..|...|.....|..|++
T Consensus 184 ~C~~C~~~fld~~el~rH~~ 203 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLR 203 (669)
T ss_pred cchhhhhhhccHHHHHHhhc
Confidence 45556666665555655554
No 170
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=30.17 E-value=21 Score=16.57 Aligned_cols=39 Identities=26% Similarity=0.648 Sum_probs=19.1
Q ss_pred ccccCc--chhhccChHHHHHHhhhhhCCCCceeccc----cccccC
Q psy10080 42 TWACPM--CRKIYAFKYNLMRHLRVECGKEPSQMCLF----CSYKCK 82 (101)
Q Consensus 42 p~~C~~--c~~~~~~~~~l~~h~~~h~~~~~~~~c~~----c~~~f~ 82 (101)
+-.|+. |...+. ...|..|....=. ..+..|.. |...+.
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~-~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECP-KRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTST-TSEEE-SS----S--EEE
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCC-CCcEECCCCCCCCCCccc
Confidence 456765 444344 4467778664333 44567777 766554
No 171
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=29.99 E-value=50 Score=15.35 Aligned_cols=31 Identities=16% Similarity=0.331 Sum_probs=17.3
Q ss_pred ccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 44 ACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 44 ~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.|..|....+.... ..+..+ .....|+.|++
T Consensus 24 ~C~gC~~~l~~~~~----~~i~~~-~~i~~Cp~CgR 54 (56)
T PF02591_consen 24 TCSGCHMELPPQEL----NEIRKG-DEIVFCPNCGR 54 (56)
T ss_pred ccCCCCEEcCHHHH----HHHHcC-CCeEECcCCCc
Confidence 67777765443322 233333 34567999986
No 172
>KOG1842|consensus
Probab=29.81 E-value=36 Score=23.59 Aligned_cols=20 Identities=15% Similarity=0.473 Sum_probs=9.5
Q ss_pred eeccccccccCChHHHHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIMHHM 91 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~ 91 (101)
|.|+.|...|.....|..|.
T Consensus 16 flCPiC~~dl~~~~~L~~H~ 35 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHL 35 (505)
T ss_pred ccCchHhhhhhhHHHHHHHH
Confidence 44444444444444444443
No 173
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=29.61 E-value=56 Score=19.38 Aligned_cols=22 Identities=9% Similarity=0.042 Sum_probs=15.5
Q ss_pred ceeccccccccCChHHHHHHHH
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~ 92 (101)
-+.|+.|++.|---+.+..-.+
T Consensus 130 f~~C~~CgkiYW~GsHw~~m~~ 151 (165)
T COG1656 130 FYRCPKCGKIYWKGSHWRRMVE 151 (165)
T ss_pred eeECCCCcccccCchHHHHHHH
Confidence 4679999999976666654433
No 174
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=29.42 E-value=21 Score=22.30 Aligned_cols=15 Identities=20% Similarity=0.651 Sum_probs=12.5
Q ss_pred cccccCcchhhccCh
Q psy10080 41 TTWACPMCRKIYAFK 55 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~ 55 (101)
++.+|..||..|.-.
T Consensus 180 kpqRCpECGqVFKLV 194 (268)
T PTZ00043 180 FLYRCGECDQIFMLV 194 (268)
T ss_pred CCccCCCCCcEEEEE
Confidence 499999999988753
No 175
>KOG2807|consensus
Probab=28.93 E-value=83 Score=21.01 Aligned_cols=54 Identities=19% Similarity=0.274 Sum_probs=34.0
Q ss_pred cccccCcchhhccChHHHHHHhhh----------hhC----C------------CCceeccccccccCChHHHHHHHHHh
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRV----------ECG----K------------EPSQMCLFCSYKCKHKTDIMHHMRLK 94 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~----------h~~----~------------~~~~~c~~c~~~f~~~~~l~~h~~~h 94 (101)
-|-.|+.|+-+......|.+-.+. ... + ...|.|..|...|....+.--|..+|
T Consensus 289 LP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhh
Confidence 477888888887777777653220 000 0 12367777888887777777676665
No 176
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=28.84 E-value=21 Score=23.52 Aligned_cols=24 Identities=21% Similarity=0.409 Sum_probs=17.0
Q ss_pred ceeccccccccCChHHHHHHHHHh
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMRLK 94 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~~h 94 (101)
.|.|..|...|....+.--|..+|
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHHHh
Confidence 367777877887777777676655
No 177
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=28.78 E-value=24 Score=19.68 Aligned_cols=33 Identities=12% Similarity=0.238 Sum_probs=17.6
Q ss_pred CcccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 40 KTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.-.+.| .|+..|.....-.. +. ...+.|+.|+.
T Consensus 68 p~~~~C-~Cg~~~~~~~~~~~----~~--~~~~~CP~Cgs 100 (124)
T PRK00762 68 PVEIEC-ECGYEGVVDEDEID----HY--AAVIECPVCGN 100 (124)
T ss_pred CeeEEe-eCcCcccccccchh----cc--ccCCcCcCCCC
Confidence 346789 99977654311000 01 11256999974
No 178
>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=28.70 E-value=16 Score=21.07 Aligned_cols=10 Identities=30% Similarity=0.637 Sum_probs=6.7
Q ss_pred ccccCcchhh
Q psy10080 42 TWACPMCRKI 51 (101)
Q Consensus 42 p~~C~~c~~~ 51 (101)
.+.|..||..
T Consensus 112 ~l~C~~Cg~~ 121 (146)
T PF07295_consen 112 TLVCENCGHE 121 (146)
T ss_pred eEecccCCCE
Confidence 5677777754
No 179
>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=28.54 E-value=22 Score=14.73 Aligned_cols=12 Identities=25% Similarity=0.872 Sum_probs=8.8
Q ss_pred ccccCcchhhcc
Q psy10080 42 TWACPMCRKIYA 53 (101)
Q Consensus 42 p~~C~~c~~~~~ 53 (101)
-|+|..|+....
T Consensus 4 ~ykC~~CGniv~ 15 (34)
T cd00974 4 VYKCEICGNIVE 15 (34)
T ss_pred EEEcCCCCcEEE
Confidence 578888887643
No 180
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=28.18 E-value=22 Score=14.67 Aligned_cols=13 Identities=23% Similarity=0.782 Sum_probs=9.5
Q ss_pred cccccCcchhhcc
Q psy10080 41 TTWACPMCRKIYA 53 (101)
Q Consensus 41 ~p~~C~~c~~~~~ 53 (101)
+-|+|..|+....
T Consensus 6 ~~ykC~~Cgniv~ 18 (34)
T TIGR00319 6 QVYKCEVCGNIVE 18 (34)
T ss_pred cEEEcCCCCcEEE
Confidence 3688999987653
No 181
>KOG3362|consensus
Probab=27.99 E-value=22 Score=20.54 Aligned_cols=19 Identities=21% Similarity=0.331 Sum_probs=10.0
Q ss_pred eeccccccccCChHHHHHH
Q psy10080 72 QMCLFCSYKCKHKTDIMHH 90 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h 90 (101)
|.|..||-.+.+-.=+..|
T Consensus 130 ysC~~CG~kyCsv~C~~~H 148 (156)
T KOG3362|consen 130 YSCVNCGTKYCSVRCLKTH 148 (156)
T ss_pred hHHHhcCCceeechhhhhc
Confidence 4566666555554444444
No 182
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=27.71 E-value=56 Score=20.48 Aligned_cols=25 Identities=8% Similarity=0.266 Sum_probs=18.4
Q ss_pred cceecccCCCcccccCcchhhccCh
Q psy10080 31 PYNVDKEGKKTTWACPMCRKIYAFK 55 (101)
Q Consensus 31 ~~~~~~~~~~~p~~C~~c~~~~~~~ 55 (101)
..-...|+.-....|..|+..|...
T Consensus 106 ~~v~elHG~~~~~~C~~C~~~~~~~ 130 (242)
T PTZ00408 106 THVLHMHGELLKVRCTATGHVFDWT 130 (242)
T ss_pred CcEEEecCccceEEECCCCcccCch
Confidence 3455668887788999999877653
No 183
>PRK10220 hypothetical protein; Provisional
Probab=27.14 E-value=38 Score=18.61 Aligned_cols=8 Identities=25% Similarity=0.687 Sum_probs=3.8
Q ss_pred eecccccc
Q psy10080 72 QMCLFCSY 79 (101)
Q Consensus 72 ~~c~~c~~ 79 (101)
|.|+.|+.
T Consensus 21 ~vCpeC~h 28 (111)
T PRK10220 21 YICPECAH 28 (111)
T ss_pred EECCcccC
Confidence 44555543
No 184
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=27.09 E-value=33 Score=22.22 Aligned_cols=11 Identities=18% Similarity=0.615 Sum_probs=6.9
Q ss_pred eeccccccccC
Q psy10080 72 QMCLFCSYKCK 82 (101)
Q Consensus 72 ~~c~~c~~~f~ 82 (101)
+.|+.|+.-|.
T Consensus 47 ~vc~~c~~h~r 57 (292)
T PRK05654 47 NVCPKCGHHMR 57 (292)
T ss_pred CCCCCCCCCee
Confidence 46777776553
No 185
>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=26.87 E-value=19 Score=20.47 Aligned_cols=32 Identities=22% Similarity=0.427 Sum_probs=19.3
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
-.|.|..|+..+... .++ . ...+.|..|+..+
T Consensus 122 ~~~~C~~C~~~~~r~------~~~--~-~~~~~C~~C~~~l 153 (157)
T PF10263_consen 122 YVYRCPSCGREYKRH------RRS--K-RKRYRCGRCGGPL 153 (157)
T ss_pred eEEEcCCCCCEeeee------ccc--c-hhhEECCCCCCEE
Confidence 367888888765332 232 1 2347788887655
No 186
>PRK04351 hypothetical protein; Provisional
Probab=26.30 E-value=31 Score=19.94 Aligned_cols=33 Identities=24% Similarity=0.351 Sum_probs=20.2
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
-.|.|..|+..+.. +++ +. ...|.|..|+..+.
T Consensus 111 y~Y~C~~Cg~~~~r------~Rr-~n--~~~yrCg~C~g~L~ 143 (149)
T PRK04351 111 YLYECQSCGQQYLR------KRR-IN--TKRYRCGKCRGKLK 143 (149)
T ss_pred EEEECCCCCCEeee------eee-cC--CCcEEeCCCCcEee
Confidence 46889889865543 222 22 23588988876654
No 187
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=25.66 E-value=28 Score=19.61 Aligned_cols=17 Identities=12% Similarity=0.563 Sum_probs=13.7
Q ss_pred CcccccCcchhhccChH
Q psy10080 40 KTTWACPMCRKIYAFKY 56 (101)
Q Consensus 40 ~~p~~C~~c~~~~~~~~ 56 (101)
.-.|.|..|++.|....
T Consensus 51 ~qRyrC~~C~~tf~~~~ 67 (129)
T COG3677 51 HQRYKCKSCGSTFTVET 67 (129)
T ss_pred ccccccCCcCcceeeec
Confidence 45799999999887653
No 188
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=25.47 E-value=15 Score=15.54 Aligned_cols=9 Identities=22% Similarity=0.877 Sum_probs=5.8
Q ss_pred ceecccccc
Q psy10080 71 SQMCLFCSY 79 (101)
Q Consensus 71 ~~~c~~c~~ 79 (101)
.+.|+.|+.
T Consensus 22 R~vC~~Cg~ 30 (34)
T PF14803_consen 22 RLVCPACGF 30 (34)
T ss_dssp EEEETTTTE
T ss_pred ceECCCCCC
Confidence 466777764
No 189
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=25.41 E-value=1e+02 Score=18.77 Aligned_cols=43 Identities=16% Similarity=0.192 Sum_probs=25.4
Q ss_pred eecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 33 NVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 33 ~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
-...|+.-....|..|+..+.....+. ..... .....|+.|+.
T Consensus 86 vielHG~~~~~~C~~C~~~~~~~~~~~---~~~~~-~~~p~C~~Cgg 128 (206)
T cd01410 86 LSELHGNMFIEVCKSCGPEYVRDDVVE---TRGDK-ETGRRCHACGG 128 (206)
T ss_pred EEEecCCcCcccCCCCCCccchHHHHH---HhhcC-CCCCcCCCCcC
Confidence 455688778888999997765443221 11112 22235888864
No 190
>PF09947 DUF2180: Uncharacterized protein conserved in archaea (DUF2180); InterPro: IPR017211 This group represents a predicted zinc finger protein, AF1427 type.
Probab=24.99 E-value=23 Score=17.66 Aligned_cols=7 Identities=29% Similarity=0.985 Sum_probs=3.2
Q ss_pred ccCcchh
Q psy10080 44 ACPMCRK 50 (101)
Q Consensus 44 ~C~~c~~ 50 (101)
.|..||+
T Consensus 18 vCivCG~ 24 (68)
T PF09947_consen 18 VCIVCGA 24 (68)
T ss_pred hHHhcCc
Confidence 3444554
No 191
>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=24.93 E-value=28 Score=16.15 Aligned_cols=12 Identities=33% Similarity=0.924 Sum_probs=9.5
Q ss_pred cccCcchhhccC
Q psy10080 43 WACPMCRKIYAF 54 (101)
Q Consensus 43 ~~C~~c~~~~~~ 54 (101)
|.|..|+..+.-
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 789999987764
No 192
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=24.79 E-value=24 Score=15.22 Aligned_cols=14 Identities=29% Similarity=0.759 Sum_probs=7.1
Q ss_pred ccCcchhhccChHH
Q psy10080 44 ACPMCRKIYAFKYN 57 (101)
Q Consensus 44 ~C~~c~~~~~~~~~ 57 (101)
.|..|++.|.+.+.
T Consensus 4 ~CprC~kg~Hwa~~ 17 (36)
T PF14787_consen 4 LCPRCGKGFHWASE 17 (36)
T ss_dssp C-TTTSSSCS-TTT
T ss_pred cCcccCCCcchhhh
Confidence 46666666665543
No 193
>PF12907 zf-met2: Zinc-binding
Probab=24.79 E-value=54 Score=14.48 Aligned_cols=18 Identities=28% Similarity=0.707 Sum_probs=8.6
Q ss_pred ccCcchhhccCh---HHHHHH
Q psy10080 44 ACPMCRKIYAFK---YNLMRH 61 (101)
Q Consensus 44 ~C~~c~~~~~~~---~~l~~h 61 (101)
.|..|...|-.. ..|..|
T Consensus 3 ~C~iC~qtF~~t~~~~~L~eH 23 (40)
T PF12907_consen 3 ICKICRQTFMQTTNEPQLKEH 23 (40)
T ss_pred CcHHhhHHHHhcCCHHHHHHH
Confidence 466666443332 335444
No 194
>PLN02748 tRNA dimethylallyltransferase
Probab=24.74 E-value=61 Score=22.63 Aligned_cols=23 Identities=13% Similarity=0.301 Sum_probs=17.8
Q ss_pred Cceecccccc-ccCChHHHHHHHH
Q psy10080 70 PSQMCLFCSY-KCKHKTDIMHHMR 92 (101)
Q Consensus 70 ~~~~c~~c~~-~f~~~~~l~~h~~ 92 (101)
+.|.|..|+. .+.....+..|++
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlk 440 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQ 440 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhc
Confidence 4567999997 7888888888765
No 195
>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=24.54 E-value=62 Score=18.48 Aligned_cols=47 Identities=15% Similarity=0.036 Sum_probs=24.9
Q ss_pred cccCcchhhccChHHHHHHhh----hhhCCCCceeccccccccCChHHHHH
Q psy10080 43 WACPMCRKIYAFKYNLMRHLR----VECGKEPSQMCLFCSYKCKHKTDIMH 89 (101)
Q Consensus 43 ~~C~~c~~~~~~~~~l~~h~~----~h~~~~~~~~c~~c~~~f~~~~~l~~ 89 (101)
-.|..|+..+...+.-..... +......-+.|+.|++.|-.-+.+.+
T Consensus 92 sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiyW~GsH~~~ 142 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIYWEGSHWRR 142 (147)
T ss_pred CccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEecccccHHH
Confidence 568888875443322111001 11110224789999999976555543
No 196
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=24.45 E-value=61 Score=20.14 Aligned_cols=25 Identities=16% Similarity=0.379 Sum_probs=17.7
Q ss_pred ceecccCCCcccccCcchhhccChH
Q psy10080 32 YNVDKEGKKTTWACPMCRKIYAFKY 56 (101)
Q Consensus 32 ~~~~~~~~~~p~~C~~c~~~~~~~~ 56 (101)
.-...|+.-....|..|++.+....
T Consensus 112 ~v~elHG~~~~~~C~~C~~~~~~~~ 136 (242)
T PRK00481 112 NVIELHGSLLRARCTKCGQTYDLDE 136 (242)
T ss_pred ceeeccCCcCceeeCCCCCCcChhh
Confidence 3455677777888999987765443
No 197
>PTZ00448 hypothetical protein; Provisional
Probab=24.45 E-value=66 Score=21.74 Aligned_cols=22 Identities=18% Similarity=0.434 Sum_probs=17.1
Q ss_pred ceeccccccccCChHHHHHHHH
Q psy10080 71 SQMCLFCSYKCKHKTDIMHHMR 92 (101)
Q Consensus 71 ~~~c~~c~~~f~~~~~l~~h~~ 92 (101)
.|.|..|+-.|......+.|.+
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~K 335 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYR 335 (373)
T ss_pred CccccccccccCCHHHHHHHhh
Confidence 4779999999977777777765
No 198
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.78 E-value=56 Score=22.87 Aligned_cols=9 Identities=22% Similarity=0.663 Sum_probs=5.4
Q ss_pred ceecccccc
Q psy10080 71 SQMCLFCSY 79 (101)
Q Consensus 71 ~~~c~~c~~ 79 (101)
|..|+.|+.
T Consensus 253 ~~~Cp~C~s 261 (505)
T TIGR00595 253 PKTCPQCGS 261 (505)
T ss_pred CCCCCCCCC
Confidence 455666654
No 199
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=23.44 E-value=56 Score=20.62 Aligned_cols=35 Identities=14% Similarity=0.360 Sum_probs=19.7
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
-..|..|....+... ..-.+. + .....|+.||+-.
T Consensus 197 g~~C~GC~m~l~~~~--~~~V~~--~-d~iv~CP~CgRIL 231 (239)
T COG1579 197 GRVCGGCHMKLPSQT--LSKVRK--K-DEIVFCPYCGRIL 231 (239)
T ss_pred CCcccCCeeeecHHH--HHHHhc--C-CCCccCCccchHH
Confidence 345777876555432 222232 3 4456699999754
No 200
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.13 E-value=53 Score=21.20 Aligned_cols=11 Identities=18% Similarity=0.866 Sum_probs=5.9
Q ss_pred ccccCcchhhc
Q psy10080 42 TWACPMCRKIY 52 (101)
Q Consensus 42 p~~C~~c~~~~ 52 (101)
-|.|+.|--.|
T Consensus 255 GyvCs~Clsi~ 265 (279)
T TIGR00627 255 GFVCSVCLSVL 265 (279)
T ss_pred eEECCCccCCc
Confidence 36666665443
No 201
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=22.99 E-value=81 Score=21.97 Aligned_cols=26 Identities=27% Similarity=0.443 Sum_probs=21.4
Q ss_pred CCceeccccccccCChHHHHHHHHHh
Q psy10080 69 EPSQMCLFCSYKCKHKTDIMHHMRLK 94 (101)
Q Consensus 69 ~~~~~c~~c~~~f~~~~~l~~h~~~h 94 (101)
...|.|..|-+.|.....|.+|+...
T Consensus 196 ~~lyiCe~Cl~y~~~~~~~~~H~~~C 221 (450)
T PLN00104 196 SKLYFCEFCLKFMKRKEQLQRHMKKC 221 (450)
T ss_pred CeEEEchhhhhhhcCHHHHHHHHhcC
Confidence 34588999999999999999998643
No 202
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=22.98 E-value=27 Score=18.75 Aligned_cols=34 Identities=18% Similarity=0.499 Sum_probs=18.5
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceeccccccccC
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKCK 82 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f~ 82 (101)
.-|.|+.|+.. ...- ....+ .....|..||..+.
T Consensus 20 t~f~CP~Cge~-~v~v------~~~k~-~~h~~C~~CG~y~~ 53 (99)
T PRK14892 20 KIFECPRCGKV-SISV------KIKKN-IAIITCGNCGLYTE 53 (99)
T ss_pred cEeECCCCCCe-Eeee------ecCCC-cceEECCCCCCccC
Confidence 36788888831 1110 11113 44567888886654
No 203
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=22.91 E-value=33 Score=19.51 Aligned_cols=8 Identities=38% Similarity=1.385 Sum_probs=4.9
Q ss_pred eccccccc
Q psy10080 73 MCLFCSYK 80 (101)
Q Consensus 73 ~c~~c~~~ 80 (101)
.|+.|++.
T Consensus 46 ~CPvC~~~ 53 (131)
T COG1645 46 FCPVCGYR 53 (131)
T ss_pred ECCCCCce
Confidence 47777743
No 204
>KOG3014|consensus
Probab=22.86 E-value=85 Score=20.03 Aligned_cols=23 Identities=22% Similarity=0.401 Sum_probs=12.0
Q ss_pred ecccccccc--CChHHHHHHHHHhc
Q psy10080 73 MCLFCSYKC--KHKTDIMHHMRLKH 95 (101)
Q Consensus 73 ~c~~c~~~f--~~~~~l~~h~~~h~ 95 (101)
.|..|+..+ .....-..|.+.|+
T Consensus 39 ~C~~Cgm~Yt~~s~EDe~~H~~fH~ 63 (257)
T KOG3014|consen 39 KCKECGMKYTVTSPEDEALHEKFHN 63 (257)
T ss_pred ehhhcCceecCCCHHHHHHHHHHHH
Confidence 466666433 34455555665554
No 205
>KOG2636|consensus
Probab=22.69 E-value=62 Score=22.53 Aligned_cols=30 Identities=20% Similarity=0.491 Sum_probs=22.0
Q ss_pred ceecccCCCcccccCcch-hhccChHHHHHH
Q psy10080 32 YNVDKEGKKTTWACPMCR-KIYAFKYNLMRH 61 (101)
Q Consensus 32 ~~~~~~~~~~p~~C~~c~-~~~~~~~~l~~h 61 (101)
+-.+.|+=...|.|.+|| .++.-+..+.+|
T Consensus 391 WLyKLHGL~~ey~CEICGNy~Y~GrkaF~RH 421 (497)
T KOG2636|consen 391 WLYKLHGLDIEYNCEICGNYVYKGRKAFDRH 421 (497)
T ss_pred HHHhhcCCCcccceeeccCccccCcHHHHHH
Confidence 445556667789999999 466667777777
No 206
>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=22.57 E-value=42 Score=15.31 Aligned_cols=10 Identities=30% Similarity=0.803 Sum_probs=5.8
Q ss_pred eecccccccc
Q psy10080 72 QMCLFCSYKC 81 (101)
Q Consensus 72 ~~c~~c~~~f 81 (101)
|+|..|+..+
T Consensus 2 y~C~~CgyvY 11 (47)
T PF00301_consen 2 YQCPVCGYVY 11 (47)
T ss_dssp EEETTTSBEE
T ss_pred cCCCCCCEEE
Confidence 4566666544
No 207
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=22.48 E-value=40 Score=20.20 Aligned_cols=13 Identities=23% Similarity=0.723 Sum_probs=10.5
Q ss_pred cccccCcchhhcc
Q psy10080 41 TTWACPMCRKIYA 53 (101)
Q Consensus 41 ~p~~C~~c~~~~~ 53 (101)
..+.|..|.+.|.
T Consensus 138 w~~rC~GC~~~f~ 150 (177)
T COG1439 138 WRLRCHGCKRIFP 150 (177)
T ss_pred eeEEEecCceecC
Confidence 4677999998887
No 208
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=22.43 E-value=41 Score=19.10 Aligned_cols=33 Identities=24% Similarity=0.381 Sum_probs=18.5
Q ss_pred cccccCcchhhccChHHHHHHhhhhhCCCCceecccccccc
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSYKC 81 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~~f 81 (101)
-.|.|..|+..+. .+.+... ...+.|..|+..+
T Consensus 111 ~~y~C~~C~~~~~------~~rr~~~--~~~y~C~~C~g~l 143 (146)
T smart00731 111 YPYRCTGCGQRYL------RVRRSNN--VSRYRCGKCGGKL 143 (146)
T ss_pred EEEECCCCCCCCc------eEccccC--cceEEcCCCCCEE
Confidence 3788888886543 2222211 1347787787654
No 209
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=22.33 E-value=29 Score=17.22 Aligned_cols=12 Identities=25% Similarity=0.600 Sum_probs=8.0
Q ss_pred ceeccccccccC
Q psy10080 71 SQMCLFCSYKCK 82 (101)
Q Consensus 71 ~~~c~~c~~~f~ 82 (101)
...|..||....
T Consensus 38 ~V~C~~CG~~l~ 49 (67)
T COG2051 38 VVTCLICGTTLA 49 (67)
T ss_pred EEEecccccEEE
Confidence 356888876653
No 210
>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.
Probab=21.88 E-value=1e+02 Score=19.13 Aligned_cols=22 Identities=23% Similarity=0.428 Sum_probs=16.4
Q ss_pred eecccCCCcccccCcchhhccC
Q psy10080 33 NVDKEGKKTTWACPMCRKIYAF 54 (101)
Q Consensus 33 ~~~~~~~~~p~~C~~c~~~~~~ 54 (101)
-...|+.-....|..|+..+..
T Consensus 107 V~elHG~l~~~~C~~C~~~~~~ 128 (235)
T cd01408 107 IIEAHGSFATAHCIKCKHKYPG 128 (235)
T ss_pred EEEeCcCCCccccccCCCcCCH
Confidence 4556777778889999987654
No 211
>KOG2684|consensus
Probab=21.74 E-value=1.1e+02 Score=21.08 Aligned_cols=42 Identities=24% Similarity=0.362 Sum_probs=26.3
Q ss_pred eecccCCCcccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 33 NVDKEGKKTTWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 33 ~~~~~~~~~p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
-...|+.=+...|..|+..+... .+.. ..-+. +.| .|+.|..
T Consensus 194 lVq~HGSf~t~sCt~C~~k~~~~-~~~~--~~~~~-~vp-~CP~C~~ 235 (412)
T KOG2684|consen 194 LVQCHGSFKTASCTKCGYKKPFE-ELRE--DIRNQ-EVP-VCPDCEG 235 (412)
T ss_pred eEEeccccceeeecccccccChH-HHHH--HHhcC-cCc-cCccccc
Confidence 45567777788999999766655 3322 33344 444 4888853
No 212
>PTZ00064 histone acetyltransferase; Provisional
Probab=21.58 E-value=1e+02 Score=21.96 Aligned_cols=25 Identities=12% Similarity=0.369 Sum_probs=21.2
Q ss_pred CceeccccccccCChHHHHHHHHHh
Q psy10080 70 PSQMCLFCSYKCKHKTDIMHHMRLK 94 (101)
Q Consensus 70 ~~~~c~~c~~~f~~~~~l~~h~~~h 94 (101)
..|.|..|-+.|.....|.+|+...
T Consensus 279 ~LYICEfCLkY~~s~~~l~rH~~~C 303 (552)
T PTZ00064 279 TLHFCEYCLDFFCFEDELIRHLSRC 303 (552)
T ss_pred eEEEccchhhhhCCHHHHHHHHhcC
Confidence 3588999999999999999998743
No 213
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=21.42 E-value=54 Score=18.78 Aligned_cols=13 Identities=23% Similarity=0.629 Sum_probs=9.6
Q ss_pred eccccccccCChH
Q psy10080 73 MCLFCSYKCKHKT 85 (101)
Q Consensus 73 ~c~~c~~~f~~~~ 85 (101)
+|+.|..+|.+..
T Consensus 123 vCPvCkTSFKss~ 135 (140)
T PF05290_consen 123 VCPVCKTSFKSSS 135 (140)
T ss_pred CCCcccccccccc
Confidence 5888888887653
No 214
>PRK06260 threonine synthase; Validated
Probab=21.29 E-value=50 Score=22.21 Aligned_cols=9 Identities=33% Similarity=1.132 Sum_probs=4.7
Q ss_pred ccccCcchh
Q psy10080 42 TWACPMCRK 50 (101)
Q Consensus 42 p~~C~~c~~ 50 (101)
.+.|+.|+-
T Consensus 19 ~~~Cp~cg~ 27 (397)
T PRK06260 19 IYTCPECGG 27 (397)
T ss_pred cccCCCCCC
Confidence 345655554
No 215
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=21.17 E-value=32 Score=25.28 Aligned_cols=28 Identities=32% Similarity=0.637 Sum_probs=14.9
Q ss_pred cCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 45 CPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 45 C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
|+.|.+.|..+.+ +|.|.. |.-|+.||-
T Consensus 154 C~~C~~EY~dP~n----RRfHAQ---p~aCp~CGP 181 (750)
T COG0068 154 CPFCDKEYKDPLN----RRFHAQ---PIACPKCGP 181 (750)
T ss_pred CHHHHHHhcCccc----cccccc---cccCcccCC
Confidence 5555555554443 344444 456777764
No 216
>PRK06450 threonine synthase; Validated
Probab=20.72 E-value=54 Score=21.60 Aligned_cols=10 Identities=30% Similarity=0.424 Sum_probs=5.3
Q ss_pred cccCcchhhc
Q psy10080 43 WACPMCRKIY 52 (101)
Q Consensus 43 ~~C~~c~~~~ 52 (101)
+.|..|++.+
T Consensus 4 ~~C~~Cg~~~ 13 (338)
T PRK06450 4 EVCMKCGKER 13 (338)
T ss_pred eEECCcCCcC
Confidence 4555565543
No 217
>KOG1280|consensus
Probab=20.72 E-value=93 Score=20.95 Aligned_cols=37 Identities=19% Similarity=0.482 Sum_probs=24.1
Q ss_pred cccccCcchhhccChHHHHHHhh-hhhCCCC-ceeccccc
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLR-VECGKEP-SQMCLFCS 78 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~-~h~~~~~-~~~c~~c~ 78 (101)
.-|.|+.|+..-.+...+..|.. .|.. .. ...|+.|+
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpd-a~~~~icp~c~ 116 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPE-ASTSVICPLCA 116 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcc-cCcceeeeccc
Confidence 36889999987666677888854 4544 32 24566664
No 218
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=20.51 E-value=51 Score=13.39 Aligned_cols=11 Identities=27% Similarity=0.942 Sum_probs=3.7
Q ss_pred CcccccCcchh
Q psy10080 40 KTTWACPMCRK 50 (101)
Q Consensus 40 ~~p~~C~~c~~ 50 (101)
...|.|+.|+.
T Consensus 11 ~~kY~Cp~C~~ 21 (30)
T PF04438_consen 11 PAKYRCPRCGA 21 (30)
T ss_dssp EESEE-TTT--
T ss_pred CCEEECCCcCC
Confidence 33445554443
No 219
>KOG1994|consensus
Probab=20.46 E-value=52 Score=20.68 Aligned_cols=22 Identities=23% Similarity=0.446 Sum_probs=19.0
Q ss_pred cccccCcchhhccChHHHHHHh
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHL 62 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~ 62 (101)
.-|.|-+||-.|.....|..|-
T Consensus 238 eh~YC~fCG~~y~~~edl~ehC 259 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEHC 259 (268)
T ss_pred cceEEEEeccccCCHHHHHHhC
Confidence 4799999999999999888774
No 220
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=20.35 E-value=52 Score=22.16 Aligned_cols=23 Identities=17% Similarity=0.314 Sum_probs=19.5
Q ss_pred cccccCcchhhccChHHHHHHhh
Q psy10080 41 TTWACPMCRKIYAFKYNLMRHLR 63 (101)
Q Consensus 41 ~p~~C~~c~~~~~~~~~l~~h~~ 63 (101)
+.+-|..|++.|...+.+..|..
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~ 259 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLE 259 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHh
Confidence 35779999999999999988854
No 221
>KOG3507|consensus
Probab=20.25 E-value=51 Score=15.97 Aligned_cols=12 Identities=25% Similarity=0.595 Sum_probs=7.6
Q ss_pred Cceecccccccc
Q psy10080 70 PSQMCLFCSYKC 81 (101)
Q Consensus 70 ~~~~c~~c~~~f 81 (101)
..+.|..||...
T Consensus 36 D~irCReCG~RI 47 (62)
T KOG3507|consen 36 DVIRCRECGYRI 47 (62)
T ss_pred CcEehhhcchHH
Confidence 356777777544
No 222
>PLN02925 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase
Probab=20.12 E-value=1.1e+02 Score=22.71 Aligned_cols=26 Identities=15% Similarity=0.245 Sum_probs=19.4
Q ss_pred eeccccccccCChHHHHHHHHHhcCC
Q psy10080 72 QMCLFCSYKCKHKTDIMHHMRLKHKE 97 (101)
Q Consensus 72 ~~c~~c~~~f~~~~~l~~h~~~h~~e 97 (101)
.-|+.||++......+...++.+++.
T Consensus 635 isCPgCGRT~~dlq~~~~~I~~~~~h 660 (733)
T PLN02925 635 VSCPSCGRTLFDLQEVSAEIREKTSH 660 (733)
T ss_pred EECCCCCCccccHHHHHHHHHHHhhc
Confidence 45999999988877777777666544
No 223
>PRK00420 hypothetical protein; Validated
Probab=20.11 E-value=62 Score=17.85 Aligned_cols=10 Identities=10% Similarity=0.142 Sum_probs=6.3
Q ss_pred eecccccccc
Q psy10080 72 QMCLFCSYKC 81 (101)
Q Consensus 72 ~~c~~c~~~f 81 (101)
..|+.||...
T Consensus 41 ~~Cp~Cg~~~ 50 (112)
T PRK00420 41 VVCPVHGKVY 50 (112)
T ss_pred eECCCCCCee
Confidence 4577777644
No 224
>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=20.06 E-value=1.7e+02 Score=15.83 Aligned_cols=36 Identities=8% Similarity=0.135 Sum_probs=21.4
Q ss_pred ccccCcchhhccChHHHHHHhhhhhCCCCceecccccc
Q psy10080 42 TWACPMCRKIYAFKYNLMRHLRVECGKEPSQMCLFCSY 79 (101)
Q Consensus 42 p~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~~c~~c~~ 79 (101)
.|.|+.-+..|..-..+...+..... +.|.|...|+
T Consensus 3 Vf~i~~T~EiF~dYe~Y~~R~~~y~~--~vwtC~~TGk 38 (102)
T PF10537_consen 3 VFYIPFTGEIFRDYEEYLKRMILYNQ--RVWTCEITGK 38 (102)
T ss_pred eEEeCCCCcccCCHHHHHHHHHHHhC--CeeEEecCCC
Confidence 45566666667766666555544443 3477777664
No 225
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=20.04 E-value=87 Score=19.13 Aligned_cols=25 Identities=12% Similarity=0.193 Sum_probs=17.3
Q ss_pred cceecccCCCcccccCcchhhccCh
Q psy10080 31 PYNVDKEGKKTTWACPMCRKIYAFK 55 (101)
Q Consensus 31 ~~~~~~~~~~~p~~C~~c~~~~~~~ 55 (101)
..-...|+.-....|..|+..+...
T Consensus 98 ~~v~e~HG~~~~~~C~~C~~~~~~~ 122 (224)
T cd01412 98 RNVIELHGSLFRVRCSSCGYVGENN 122 (224)
T ss_pred CceEeeCCCcCccccCCCCCCCCcc
Confidence 4455667777778888888766543
Done!