Query 044181
Match_columns 178
No_of_seqs 220 out of 1796
Neff 9.2
Searched_HMMs 46136
Date Fri Mar 29 12:13:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044181.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044181hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 3.1E-25 6.7E-30 167.5 5.2 116 12-129 128-254 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 1.6E-23 3.5E-28 158.3 1.7 108 1-112 146-265 (279)
3 KOG1074 Transcriptional repres 99.7 1.9E-18 4.1E-23 146.6 0.9 53 14-68 353-405 (958)
4 KOG3623 Homeobox transcription 99.7 9.1E-18 2E-22 140.7 1.8 90 12-121 892-982 (1007)
5 KOG3576 Ovo and related transc 99.6 2E-16 4.3E-21 115.1 -1.8 98 12-129 115-223 (267)
6 KOG3608 Zn finger proteins [Ge 99.6 3.3E-16 7.2E-21 122.2 -0.9 120 1-124 195-325 (467)
7 KOG3576 Ovo and related transc 99.5 2.6E-15 5.6E-20 109.3 -0.8 104 1-116 133-238 (267)
8 KOG1074 Transcriptional repres 99.4 1.2E-14 2.6E-19 123.8 -1.1 89 12-116 603-694 (958)
9 KOG3623 Homeobox transcription 99.4 2.1E-14 4.4E-19 120.9 -0.9 81 12-112 238-331 (1007)
10 PHA00733 hypothetical protein 99.4 6.5E-13 1.4E-17 92.3 5.2 84 12-116 38-125 (128)
11 KOG3608 Zn finger proteins [Ge 99.1 1.4E-11 3.1E-16 96.5 -0.8 103 14-118 263-381 (467)
12 PHA02768 hypothetical protein; 99.0 1.6E-10 3.4E-15 67.5 2.3 44 44-107 5-48 (55)
13 PHA02768 hypothetical protein; 99.0 2.7E-11 5.8E-16 70.7 -2.6 44 14-61 5-48 (55)
14 KOG3993 Transcription factor ( 98.8 1.7E-09 3.6E-14 86.8 1.3 103 12-116 265-382 (500)
15 PHA00733 hypothetical protein 98.7 2.3E-09 5E-14 74.5 0.3 61 2-68 63-123 (128)
16 PLN03086 PRLI-interacting fact 98.7 3E-08 6.4E-13 83.8 4.9 81 43-126 452-549 (567)
17 PF13465 zf-H2C2_2: Zinc-finge 98.6 1.9E-08 4.1E-13 50.2 1.5 17 86-102 10-26 (26)
18 PF13465 zf-H2C2_2: Zinc-finge 98.6 5.6E-09 1.2E-13 52.2 -1.1 24 33-56 3-26 (26)
19 PLN03086 PRLI-interacting fact 98.6 2.1E-08 4.6E-13 84.6 1.4 95 11-114 450-565 (567)
20 PHA00616 hypothetical protein 98.5 5.6E-08 1.2E-12 54.1 1.4 33 90-122 1-33 (44)
21 KOG3993 Transcription factor ( 98.5 8.4E-08 1.8E-12 77.2 2.6 55 12-68 293-380 (500)
22 PHA00732 hypothetical protein 98.4 1.8E-07 3.8E-12 59.4 2.9 46 44-113 1-47 (79)
23 PHA00616 hypothetical protein 98.2 4.5E-07 9.8E-12 50.5 1.2 26 44-69 1-26 (44)
24 PHA00732 hypothetical protein 98.1 3.2E-07 6.9E-12 58.3 -1.7 47 14-68 1-48 (79)
25 PF00096 zf-C2H2: Zinc finger, 98.1 1.7E-06 3.6E-11 41.7 1.0 23 91-113 1-23 (23)
26 COG5189 SFP1 Putative transcri 98.0 3.4E-06 7.4E-11 65.9 2.3 71 41-111 346-419 (423)
27 PF00096 zf-C2H2: Zinc finger, 98.0 4.3E-06 9.3E-11 40.2 1.4 23 45-67 1-23 (23)
28 PF05605 zf-Di19: Drought indu 97.8 6.5E-05 1.4E-09 44.2 4.6 51 44-114 2-53 (54)
29 PF13912 zf-C2H2_6: C2H2-type 97.7 1.3E-05 2.9E-10 40.1 0.7 26 90-115 1-26 (27)
30 PF13894 zf-C2H2_4: C2H2-type 97.6 3.3E-05 7.2E-10 37.1 1.3 24 91-114 1-24 (24)
31 PF13912 zf-C2H2_6: C2H2-type 97.5 5.4E-05 1.2E-09 37.8 1.3 25 44-68 1-25 (27)
32 PF13894 zf-C2H2_4: C2H2-type 97.4 9.6E-05 2.1E-09 35.4 1.9 23 45-67 1-23 (24)
33 PF09237 GAGA: GAGA factor; I 97.4 0.00011 2.4E-09 41.9 2.0 32 87-118 21-52 (54)
34 smart00355 ZnF_C2H2 zinc finge 97.3 0.00018 3.9E-09 34.9 2.3 25 91-115 1-25 (26)
35 PF12756 zf-C2H2_2: C2H2 type 97.3 9.6E-05 2.1E-09 48.5 1.6 67 47-114 2-74 (100)
36 smart00355 ZnF_C2H2 zinc finge 97.1 0.00043 9.3E-09 33.5 2.1 24 45-68 1-24 (26)
37 COG5189 SFP1 Putative transcri 97.0 0.00014 3E-09 57.1 -0.1 52 12-65 347-419 (423)
38 PRK04860 hypothetical protein; 96.8 0.0002 4.3E-09 51.6 -1.2 36 14-55 119-154 (160)
39 PF05605 zf-Di19: Drought indu 96.7 0.00019 4.2E-09 42.1 -1.1 51 13-68 1-53 (54)
40 PF09237 GAGA: GAGA factor; I 96.7 0.0024 5.2E-08 36.5 3.1 32 39-70 19-50 (54)
41 PRK04860 hypothetical protein; 96.6 0.0013 2.9E-08 47.4 2.4 38 44-103 119-156 (160)
42 PF12756 zf-C2H2_2: C2H2 type 96.6 0.0015 3.3E-08 42.6 2.5 50 16-67 1-73 (100)
43 PF12874 zf-met: Zinc-finger o 96.5 0.001 2.2E-08 32.3 0.7 23 91-113 1-23 (25)
44 PF12874 zf-met: Zinc-finger o 96.2 0.0021 4.6E-08 31.2 0.9 23 45-67 1-23 (25)
45 PF12171 zf-C2H2_jaz: Zinc-fin 96.0 0.0027 5.8E-08 31.6 0.8 22 91-112 2-23 (27)
46 KOG1146 Homeobox protein [Gene 95.7 0.0092 2E-07 55.0 3.1 95 16-112 438-540 (1406)
47 COG5048 FOG: Zn-finger [Genera 95.6 0.0067 1.5E-07 49.5 1.9 57 13-71 288-350 (467)
48 PF13909 zf-H2C2_5: C2H2-type 95.6 0.007 1.5E-07 29.0 1.2 23 91-114 1-23 (24)
49 PF13909 zf-H2C2_5: C2H2-type 95.3 0.011 2.4E-07 28.3 1.4 22 45-67 1-22 (24)
50 PF13913 zf-C2HC_2: zinc-finge 95.3 0.014 2.9E-07 28.5 1.6 21 91-112 3-23 (25)
51 PF12171 zf-C2H2_jaz: Zinc-fin 95.0 0.0063 1.4E-07 30.2 -0.1 22 45-66 2-23 (27)
52 PF13913 zf-C2HC_2: zinc-finge 94.4 0.039 8.4E-07 26.9 1.9 21 45-66 3-23 (25)
53 smart00451 ZnF_U1 U1-like zinc 93.9 0.037 8E-07 28.9 1.4 23 90-112 3-25 (35)
54 smart00451 ZnF_U1 U1-like zinc 93.3 0.087 1.9E-06 27.4 2.3 23 44-66 3-25 (35)
55 COG5048 FOG: Zn-finger [Genera 92.7 0.033 7.2E-07 45.4 0.1 63 43-123 288-356 (467)
56 KOG1146 Homeobox protein [Gene 92.7 0.14 3.1E-06 47.6 3.9 93 12-113 1258-1351(1406)
57 KOG2893 Zn finger protein [Gen 91.7 0.063 1.4E-06 40.9 0.5 50 42-114 9-59 (341)
58 PF09986 DUF2225: Uncharacteri 85.7 0.25 5.3E-06 37.4 0.0 46 12-57 3-61 (214)
59 PF09538 FYDLN_acid: Protein o 84.4 0.47 1E-05 31.9 0.9 30 15-57 10-39 (108)
60 PF12013 DUF3505: Protein of u 84.3 4.1 8.8E-05 27.2 5.5 69 43-115 10-109 (109)
61 COG5236 Uncharacterized conser 83.0 1.1 2.3E-05 36.3 2.5 68 45-112 152-242 (493)
62 COG4049 Uncharacterized protei 80.8 0.73 1.6E-05 26.9 0.7 28 85-112 12-39 (65)
63 PF09723 Zn-ribbon_8: Zinc rib 79.4 0.45 9.8E-06 26.2 -0.5 30 14-52 5-34 (42)
64 COG4049 Uncharacterized protei 79.1 1.1 2.3E-05 26.3 1.0 31 36-66 9-39 (65)
65 cd00350 rubredoxin_like Rubred 78.5 0.49 1.1E-05 24.5 -0.5 10 43-52 16-25 (33)
66 smart00614 ZnF_BED BED zinc fi 78.4 1.4 3.1E-05 25.0 1.4 24 91-114 19-48 (50)
67 PF09986 DUF2225: Uncharacteri 77.6 0.76 1.6E-05 34.8 0.1 53 42-103 3-61 (214)
68 PF02892 zf-BED: BED zinc fing 76.0 2.5 5.3E-05 23.2 1.9 26 40-65 12-41 (45)
69 PF14353 CpXC: CpXC protein 75.7 0.65 1.4E-05 32.0 -0.7 44 15-64 2-58 (128)
70 PRK00398 rpoP DNA-directed RNA 73.3 1 2.2E-05 25.1 -0.1 30 13-54 2-31 (46)
71 COG1592 Rubrerythrin [Energy p 73.1 3.1 6.6E-05 30.2 2.2 11 87-97 146-156 (166)
72 COG1996 RPC10 DNA-directed RNA 71.0 1.7 3.7E-05 24.8 0.4 29 12-52 4-32 (49)
73 TIGR02300 FYDLN_acid conserved 70.3 1.8 4E-05 29.8 0.6 34 14-60 9-42 (129)
74 TIGR02098 MJ0042_CXXC MJ0042 f 70.3 0.69 1.5E-05 24.6 -1.3 34 15-55 3-36 (38)
75 COG1198 PriA Primosomal protei 69.3 3.5 7.6E-05 37.0 2.2 13 87-99 472-484 (730)
76 KOG2231 Predicted E3 ubiquitin 68.8 3.9 8.5E-05 36.1 2.3 15 99-113 221-235 (669)
77 KOG2186 Cell growth-regulating 68.5 3.2 6.8E-05 32.1 1.5 46 15-65 4-49 (276)
78 PRK14873 primosome assembly pr 68.3 4 8.7E-05 36.3 2.3 11 89-99 421-431 (665)
79 KOG4167 Predicted DNA-binding 67.8 1.1 2.3E-05 39.6 -1.2 26 90-115 792-817 (907)
80 COG2888 Predicted Zn-ribbon RN 67.4 1.6 3.4E-05 25.9 -0.2 9 44-52 27-35 (61)
81 PF05443 ROS_MUCR: ROS/MUCR tr 67.4 3.2 7E-05 29.0 1.3 26 42-70 70-95 (132)
82 TIGR00373 conserved hypothetic 66.9 4.2 9.1E-05 29.2 1.8 23 39-61 104-126 (158)
83 PF13717 zinc_ribbon_4: zinc-r 66.7 1.4 2.9E-05 23.4 -0.5 33 15-54 3-35 (36)
84 PHA00626 hypothetical protein 66.7 4.2 9.2E-05 23.8 1.5 15 88-102 21-35 (59)
85 COG1997 RPL43A Ribosomal prote 66.5 3.4 7.3E-05 26.5 1.1 32 72-105 37-68 (89)
86 smart00531 TFIIE Transcription 65.4 1.1 2.4E-05 31.8 -1.4 37 12-54 97-133 (147)
87 TIGR00595 priA primosomal prot 65.1 5.9 0.00013 34.0 2.7 11 88-98 251-261 (505)
88 PRK06266 transcription initiat 65.0 4.6 0.0001 29.6 1.8 20 41-60 114-133 (178)
89 COG5188 PRP9 Splicing factor 3 64.9 1.8 3.8E-05 35.1 -0.5 29 83-111 367-396 (470)
90 PRK00464 nrdR transcriptional 64.3 1.6 3.5E-05 31.3 -0.7 18 44-61 28-45 (154)
91 COG5236 Uncharacterized conser 63.9 5.1 0.00011 32.5 2.0 98 13-112 178-303 (493)
92 KOG4167 Predicted DNA-binding 58.7 1.7 3.6E-05 38.5 -1.6 25 44-68 792-816 (907)
93 PF13719 zinc_ribbon_5: zinc-r 58.0 2.3 5E-05 22.6 -0.6 34 15-55 3-36 (37)
94 smart00734 ZnF_Rad18 Rad18-lik 57.9 11 0.00023 18.3 1.8 19 46-65 3-21 (26)
95 KOG2186 Cell growth-regulating 56.4 6.4 0.00014 30.5 1.3 55 45-120 4-58 (276)
96 KOG4124 Putative transcription 55.1 3.3 7.2E-05 33.5 -0.4 68 42-109 347-417 (442)
97 COG0068 HypF Hydrogenase matur 54.5 2.7 5.8E-05 37.2 -1.1 14 47-60 126-139 (750)
98 smart00659 RPOLCX RNA polymera 54.1 4.3 9.3E-05 22.5 0.0 10 15-24 3-12 (44)
99 COG3091 SprT Zn-dependent meta 53.5 4.4 9.6E-05 28.9 0.0 8 44-51 140-147 (156)
100 PRK05580 primosome assembly pr 53.1 13 0.00028 33.2 2.9 12 88-99 419-430 (679)
101 PF09845 DUF2072: Zn-ribbon co 52.7 7.1 0.00015 27.1 0.9 15 90-104 1-15 (131)
102 KOG2593 Transcription initiati 52.2 3.8 8.3E-05 34.1 -0.5 15 13-27 127-141 (436)
103 smart00440 ZnF_C2C2 C2C2 Zinc 51.8 5.8 0.00013 21.5 0.3 12 44-55 28-39 (40)
104 KOG1813 Predicted E3 ubiquitin 51.7 17 0.00037 28.9 3.0 61 41-113 238-302 (313)
105 COG1655 Uncharacterized protei 51.7 4.1 8.9E-05 31.1 -0.4 40 12-53 17-71 (267)
106 PF04959 ARS2: Arsenite-resist 50.5 11 0.00023 28.7 1.7 28 40-67 73-100 (214)
107 PF12013 DUF3505: Protein of u 50.3 15 0.00032 24.4 2.2 24 45-68 81-108 (109)
108 KOG2893 Zn finger protein [Gen 50.2 1.7 3.6E-05 33.4 -2.7 49 12-67 9-58 (341)
109 PRK14890 putative Zn-ribbon RN 50.1 5.2 0.00011 23.7 -0.0 8 45-52 26-33 (59)
110 PF11494 Ta0938: Ta0938; Inte 48.7 9.9 0.00021 24.9 1.1 40 12-58 12-51 (105)
111 PHA02998 RNA polymerase subuni 48.1 8.4 0.00018 28.2 0.8 39 13-57 142-184 (195)
112 COG4957 Predicted transcriptio 47.7 11 0.00023 26.4 1.2 25 91-118 77-101 (148)
113 PRK04023 DNA polymerase II lar 47.7 12 0.00027 34.7 1.9 12 89-100 662-673 (1121)
114 COG5152 Uncharacterized conser 47.6 4 8.7E-05 30.4 -1.0 46 42-99 194-239 (259)
115 PF04810 zf-Sec23_Sec24: Sec23 47.3 11 0.00024 20.3 1.0 32 14-53 2-33 (40)
116 smart00661 RPOL9 RNA polymeras 47.0 17 0.00037 20.4 1.8 13 90-102 20-32 (52)
117 COG3677 Transposase and inacti 47.0 29 0.00063 24.1 3.3 16 87-102 50-65 (129)
118 cd00730 rubredoxin Rubredoxin; 46.7 9.9 0.00021 21.7 0.8 36 14-52 1-42 (50)
119 KOG2785 C2H2-type Zn-finger pr 46.6 14 0.00031 30.3 1.9 69 44-112 3-90 (390)
120 PF10122 Mu-like_Com: Mu-like 46.5 13 0.00028 21.3 1.2 31 13-53 3-33 (51)
121 smart00834 CxxC_CXXC_SSSS Puta 46.0 10 0.00022 20.1 0.7 14 44-57 5-18 (41)
122 PF04959 ARS2: Arsenite-resist 44.1 7.8 0.00017 29.4 0.1 28 87-114 74-101 (214)
123 PRK03824 hypA hydrogenase nick 43.9 7.1 0.00015 27.3 -0.1 38 18-56 45-82 (135)
124 KOG2785 C2H2-type Zn-finger pr 43.0 12 0.00025 30.8 0.9 68 44-112 166-242 (390)
125 cd00924 Cyt_c_Oxidase_Vb Cytoc 42.5 10 0.00022 25.0 0.4 21 80-101 70-90 (97)
126 TIGR00622 ssl1 transcription f 42.2 21 0.00046 24.1 1.9 48 16-67 57-104 (112)
127 PF10571 UPF0547: Uncharacteri 41.8 15 0.00033 17.8 0.9 10 46-55 16-25 (26)
128 PF00301 Rubredoxin: Rubredoxi 41.1 9.5 0.00021 21.5 0.1 37 14-53 1-43 (47)
129 PRK09678 DNA-binding transcrip 40.9 5.3 0.00012 24.8 -1.0 42 15-60 2-45 (72)
130 COG4530 Uncharacterized protei 40.6 12 0.00026 25.2 0.5 32 16-61 11-42 (129)
131 PF08790 zf-LYAR: LYAR-type C2 38.7 5 0.00011 20.0 -1.1 20 91-111 1-20 (28)
132 PF13878 zf-C2H2_3: zinc-finge 38.6 28 0.0006 18.9 1.7 24 91-114 14-39 (41)
133 PF15269 zf-C2H2_7: Zinc-finge 38.6 27 0.00059 19.5 1.6 23 45-67 21-43 (54)
134 KOG3408 U1-like Zn-finger-cont 38.4 20 0.00042 24.6 1.3 26 41-66 54-79 (129)
135 COG3364 Zn-ribbon containing p 37.3 18 0.00039 24.0 1.0 16 90-105 2-17 (112)
136 KOG4173 Alpha-SNAP protein [In 37.2 6.4 0.00014 29.6 -1.3 47 16-64 108-166 (253)
137 TIGR02605 CxxC_CxxC_SSSS putat 37.2 16 0.00036 20.5 0.7 14 44-57 5-18 (52)
138 PF07754 DUF1610: Domain of un 37.0 19 0.00042 17.2 0.8 10 43-52 15-24 (24)
139 smart00154 ZnF_AN1 AN1-like Zi 36.8 12 0.00026 20.1 0.1 12 44-55 12-23 (39)
140 KOG2636 Splicing factor 3a, su 36.1 24 0.00052 29.7 1.7 29 83-111 394-423 (497)
141 KOG2071 mRNA cleavage and poly 35.5 25 0.00055 30.6 1.8 30 88-117 416-445 (579)
142 PF13451 zf-trcl: Probable zin 34.8 18 0.0004 20.6 0.6 18 42-59 2-19 (49)
143 PF06524 NOA36: NOA36 protein; 32.9 13 0.00028 29.0 -0.2 29 86-114 205-233 (314)
144 COG4640 Predicted membrane pro 32.6 37 0.00081 28.2 2.3 31 72-108 3-33 (465)
145 PTZ00255 60S ribosomal protein 32.4 20 0.00044 23.2 0.6 16 89-104 53-68 (90)
146 TIGR00280 L37a ribosomal prote 31.9 17 0.00038 23.6 0.2 15 90-104 53-67 (91)
147 KOG2071 mRNA cleavage and poly 31.1 33 0.00071 30.0 1.8 28 41-68 415-442 (579)
148 KOG2636 Splicing factor 3a, su 31.0 35 0.00075 28.8 1.9 29 37-65 394-423 (497)
149 PLN02294 cytochrome c oxidase 31.0 23 0.0005 25.8 0.7 21 80-101 132-152 (174)
150 PF01780 Ribosomal_L37ae: Ribo 30.2 9.7 0.00021 24.7 -1.1 31 71-103 36-66 (90)
151 PF01428 zf-AN1: AN1-like Zinc 29.8 18 0.00038 19.7 0.0 15 43-57 12-26 (43)
152 KOG2482 Predicted C2H2-type Zn 29.7 32 0.0007 28.0 1.4 24 44-67 195-218 (423)
153 COG1594 RPB9 DNA-directed RNA 29.6 21 0.00045 24.2 0.3 36 14-55 72-111 (113)
154 COG4888 Uncharacterized Zn rib 29.6 11 0.00023 25.0 -1.0 15 42-56 20-34 (104)
155 PF01363 FYVE: FYVE zinc finge 29.4 20 0.00044 21.4 0.2 30 13-56 8-37 (69)
156 PF09416 UPF1_Zn_bind: RNA hel 29.0 7.5 0.00016 27.8 -2.0 16 15-30 15-30 (152)
157 KOG0782 Predicted diacylglycer 28.9 9.4 0.0002 33.2 -1.7 39 13-58 252-290 (1004)
158 PF11931 DUF3449: Domain of un 28.5 19 0.00041 26.9 0.0 27 84-110 95-122 (196)
159 PRK03976 rpl37ae 50S ribosomal 28.4 21 0.00045 23.2 0.2 33 70-104 36-68 (90)
160 PF15135 UPF0515: Uncharacteri 28.4 51 0.0011 25.6 2.2 58 37-102 105-167 (278)
161 PF10013 DUF2256: Uncharacteri 28.2 36 0.00078 18.7 1.0 16 91-106 9-24 (42)
162 PF05191 ADK_lid: Adenylate ki 28.1 28 0.00061 18.3 0.6 12 89-100 20-31 (36)
163 PRK12380 hydrogenase nickel in 28.0 72 0.0016 21.4 2.8 43 13-56 40-82 (113)
164 KOG2482 Predicted C2H2-type Zn 27.1 36 0.00078 27.8 1.3 23 90-112 195-217 (423)
165 KOG2907 RNA polymerase I trans 26.5 30 0.00064 23.4 0.6 11 45-55 103-113 (116)
166 PRK04351 hypothetical protein; 25.8 20 0.00042 25.6 -0.3 28 44-77 112-139 (149)
167 PF08274 PhnA_Zn_Ribbon: PhnA 25.2 33 0.00071 17.3 0.5 13 41-53 16-28 (30)
168 PTZ00448 hypothetical protein; 25.1 50 0.0011 27.2 1.8 24 90-113 314-337 (373)
169 PF10276 zf-CHCC: Zinc-finger 25.0 28 0.00061 18.9 0.3 17 38-54 23-39 (40)
170 PF07975 C1_4: TFIIH C1-like d 23.7 19 0.00041 20.7 -0.6 26 42-67 19-44 (51)
171 COG1571 Predicted DNA-binding 23.6 51 0.0011 27.7 1.6 18 87-104 364-381 (421)
172 PRK00432 30S ribosomal protein 23.3 55 0.0012 18.6 1.3 11 90-100 37-47 (50)
173 COG1773 Rubredoxin [Energy pro 23.3 36 0.00077 19.9 0.5 13 44-56 3-15 (55)
174 PF01286 XPA_N: XPA protein N- 23.3 27 0.00058 18.2 -0.0 11 92-102 5-15 (34)
175 PF04423 Rad50_zn_hook: Rad50 22.7 29 0.00062 19.8 0.0 12 46-57 22-33 (54)
176 smart00064 FYVE Protein presen 22.5 44 0.00094 19.9 0.8 29 14-56 10-38 (68)
177 PF12907 zf-met2: Zinc-binding 22.0 16 0.00035 19.9 -1.1 27 91-117 2-32 (40)
178 PF05129 Elf1: Transcription e 21.8 24 0.00052 22.3 -0.5 39 12-56 20-58 (81)
179 PLN03238 probable histone acet 21.7 69 0.0015 25.5 1.9 36 88-123 46-81 (290)
180 KOG1044 Actin-binding LIM Zn-f 21.1 34 0.00074 29.9 0.2 83 13-104 132-232 (670)
181 PF04780 DUF629: Protein of un 20.9 62 0.0013 27.6 1.6 30 88-117 55-85 (466)
182 PF06397 Desulfoferrod_N: Desu 20.9 49 0.0011 17.5 0.7 11 43-53 5-15 (36)
183 PF02591 DUF164: Putative zinc 20.8 13 0.00029 21.5 -1.7 32 15-52 23-54 (56)
184 cd00729 rubredoxin_SM Rubredox 20.6 53 0.0012 16.9 0.8 10 89-98 17-26 (34)
185 COG3357 Predicted transcriptio 20.2 48 0.001 21.5 0.7 14 43-56 57-70 (97)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.91 E-value=3.1e-25 Score=167.50 Aligned_cols=116 Identities=22% Similarity=0.308 Sum_probs=107.5
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCC---CCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCC--------cc
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMA---AGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGG--------VD 80 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~---~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~--------~~ 80 (178)
...|.|..|||.+++..+|. +|..+|- ..+.+.|++|||.|.+...|+.|+++|+-.-.|..|++ ..
T Consensus 128 ~~r~~c~eCgk~ysT~snLs--rHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLS--RHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred CCceeccccccccccccccc--hhhcccccccccccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhc
Confidence 57899999999999999996 8999986 46789999999999999999999999997777999987 78
Q ss_pred ccccCCCCCCCcCCcccccCCCchHHHHHHhhhccCCCCCCCCcccCcC
Q 044181 81 MQQLPIKPKTHECSVCGLEFAIGQALGGHMRRHRAAGLHGNEKLSDLSG 129 (178)
Q Consensus 81 h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~ 129 (178)
|+++|+|||||.|..|+|.|+..++|+.||++|.+.|.|.|..+...++
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFs 254 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFA 254 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHH
Confidence 9999999999999999999999999999999999999999998876554
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.87 E-value=1.6e-23 Score=158.26 Aligned_cols=108 Identities=22% Similarity=0.325 Sum_probs=79.7
Q ss_pred CcccccccCCC--CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCC--CCCC
Q 044181 1 MKRAFQESSEL--DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRF--TDGN 76 (178)
Q Consensus 1 lkr~~~~~~~~--~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~--~~~c 76 (178)
|-||+..|-.. .+-+.|..|+|+|..-..| +.|+++|+ -+++|.+|||.|.++|-|+.|+|+|+||+| |..|
T Consensus 146 LsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpAL--kMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC 221 (279)
T KOG2462|consen 146 LSRHKQTHRSLDSKKAFSCKYCGKVYVSMPAL--KMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHC 221 (279)
T ss_pred cchhhcccccccccccccCCCCCceeeehHHH--hhHhhccC--CCcccccccccccchHHhhcccccccCCCCccCCcc
Confidence 34666666332 4556777777777766666 37777776 567777777777777777777777777776 6666
Q ss_pred CC--------ccccccCCCCCCCcCCcccccCCCchHHHHHHhh
Q 044181 77 GG--------VDMQQLPIKPKTHECSVCGLEFAIGQALGGHMRR 112 (178)
Q Consensus 77 ~~--------~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~~ 112 (178)
++ +-||++|.+.|+|+|..|+|+|+..++|.+|...
T Consensus 222 ~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 222 GKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 55 5677777799999999999999999999999753
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.70 E-value=1.9e-18 Score=146.58 Aligned_cols=53 Identities=17% Similarity=0.390 Sum_probs=49.1
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcC
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~ 68 (178)
+.+|..|.|+|.....|+ +|+|+||||+||+|.+||..|..+.+|+.|...|+
T Consensus 353 khkCr~CakvfgS~SaLq--iHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~ 405 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQ--IHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHR 405 (958)
T ss_pred cchhhhhHhhcCchhhhh--hhhhccCCCCCeeecccccccccccceeeeeeecc
Confidence 348999999999999996 99999999999999999999999999999987664
No 4
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.68 E-value=9.1e-18 Score=140.71 Aligned_cols=90 Identities=17% Similarity=0.308 Sum_probs=80.6
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTH 91 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~ 91 (178)
+..|.|+.|.|+|...+.|. +|.--|+|.+||+|.+|.|+|+.+..|..|+|.|+ |||||
T Consensus 892 ~gmyaCDqCDK~FqKqSSLa--RHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHS------------------GEKPf 951 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLA--RHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHS------------------GEKPF 951 (1007)
T ss_pred cccchHHHHHHHHHhhHHHH--HhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhcc------------------CCCcc
Confidence 78999999999999999995 99999999999999999999999999999999887 79999
Q ss_pred cCCcccccCCCchHHHHHHhh-hccCCCCCC
Q 044181 92 ECSVCGLEFAIGQALGGHMRR-HRAAGLHGN 121 (178)
Q Consensus 92 ~C~~Cgk~F~~~~~L~~H~~~-H~~~~~~~~ 121 (178)
+|+.|+|.|+.+++...||.- .+--|+|..
T Consensus 952 QCdKClKRFSHSGSYSQHMNHRYSYCKpyrE 982 (1007)
T KOG3623|consen 952 QCDKCLKRFSHSGSYSQHMNHRYSYCKPYRE 982 (1007)
T ss_pred hhhhhhhhcccccchHhhhccchhcccchhh
Confidence 999999999999999999962 333344443
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.56 E-value=2e-16 Score=115.07 Aligned_cols=98 Identities=21% Similarity=0.304 Sum_probs=80.5
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTH 91 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~ 91 (178)
.-.|.|.+|+|.|+-..-|. +|+..|...+.|-|..|||.|...-.|++|.++|+ |.+||
T Consensus 115 ~d~ftCrvCgK~F~lQRmln--rh~kch~~vkr~lct~cgkgfndtfdlkrh~rtht------------------gvrpy 174 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLN--RHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHT------------------GVRPY 174 (267)
T ss_pred CCeeeeehhhhhhhHHHHHH--HHhhhccHHHHHHHhhccCcccchhhhhhhhcccc------------------Ccccc
Confidence 56788888888888877775 88888888888888888888888888888888776 79999
Q ss_pred cCCcccccCCCchHHHHHHh-hhc----------cCCCCCCCCcccCcC
Q 044181 92 ECSVCGLEFAIGQALGGHMR-RHR----------AAGLHGNEKLSDLSG 129 (178)
Q Consensus 92 ~C~~Cgk~F~~~~~L~~H~~-~H~----------~~~~~~~~~~~~~~~ 129 (178)
+|..|+|.|++.-+|..|.+ +|. ..+.|.|+.++-.+.
T Consensus 175 kc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~ 223 (267)
T KOG3576|consen 175 KCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSE 223 (267)
T ss_pred chhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCC
Confidence 99999999999999999975 554 347788888764333
No 6
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.55 E-value=3.3e-16 Score=122.15 Aligned_cols=120 Identities=15% Similarity=0.239 Sum_probs=104.8
Q ss_pred CcccccccCCCCcccchhhhHHHhcCCCCCCcccccc--cCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCC
Q 044181 1 MKRAFQESSELDHSLNMANCLMFLSHGRGFNAVNGVN--TMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGG 78 (178)
Q Consensus 1 lkr~~~~~~~~~~~~~C~~C~~~f~~~~~l~~~~h~~--~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~ 78 (178)
|++|.+.||+ |+-..|..||.+|+++..|- .|++ +-....+|.|..|.|.|.....|..|+..|..-+.|..|++
T Consensus 195 LreH~r~Hs~-eKvvACp~Cg~~F~~~tkl~--DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdm 271 (467)
T KOG3608|consen 195 LREHIRTHSN-EKVVACPHCGELFRTKTKLF--DHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDM 271 (467)
T ss_pred HHHHHHhcCC-CeEEecchHHHHhccccHHH--HHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhccccccccc
Confidence 6789999999 99999999999999999886 5554 44456799999999999999999999999988777877765
Q ss_pred --------cccccc-CCCCCCCcCCcccccCCCchHHHHHHhhhccCCCCCCCCc
Q 044181 79 --------VDMQQL-PIKPKTHECSVCGLEFAIGQALGGHMRRHRAAGLHGNEKL 124 (178)
Q Consensus 79 --------~~h~~~-h~~~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~~~~~~~~~ 124 (178)
..|++. |+.+|||+|+.|++.|.+.+.|.+|..+|+ +..|.|+-+
T Consensus 272 tc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~ 325 (467)
T KOG3608|consen 272 TCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHP 325 (467)
T ss_pred CCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCC
Confidence 678886 999999999999999999999999999998 667887663
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.49 E-value=2.6e-15 Score=109.26 Aligned_cols=104 Identities=16% Similarity=0.217 Sum_probs=85.0
Q ss_pred CcccccccCCCCcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCcc
Q 044181 1 MKRAFQESSELDHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVD 80 (178)
Q Consensus 1 lkr~~~~~~~~~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~ 80 (178)
|-||.+.|++ .+.|-|..|||.|.....| ++|+++|||-+||+|..|+|+|....+|..|.+.-.|..
T Consensus 133 lnrh~kch~~-vkr~lct~cgkgfndtfdl--krh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~--------- 200 (267)
T KOG3576|consen 133 LNRHLKCHSD-VKRHLCTFCGKGFNDTFDL--KRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQ--------- 200 (267)
T ss_pred HHHHhhhccH-HHHHHHhhccCcccchhhh--hhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCch---------
Confidence 4689999977 9999999999999988777 699999999999999999999999999999976432211
Q ss_pred cccc--CCCCCCCcCCcccccCCCchHHHHHHhhhccC
Q 044181 81 MQQL--PIKPKTHECSVCGLEFAIGQALGGHMRRHRAA 116 (178)
Q Consensus 81 h~~~--h~~~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~ 116 (178)
|+-. ...+|-|.|+.||.+-.....+-.|.+.|...
T Consensus 201 ~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 201 HQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred HHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 1100 11467899999999888888888898876644
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.43 E-value=1.2e-14 Score=123.75 Aligned_cols=89 Identities=26% Similarity=0.426 Sum_probs=79.7
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTH 91 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~ 91 (178)
..|.+|.+|.++++....|+ .|.|+|+|||||+|.+||++|..+.||+.|+-+|....+ -.-.|
T Consensus 603 TdPNqCiiC~rVlSC~saLq--mHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~--------------~R~q~ 666 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQ--MHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPP--------------ARVQF 666 (958)
T ss_pred CCccceeeeeecccchhhhh--hhhhcccCcCccccccccchhccccchhhcccccccCcc--------------ccccc
Confidence 67899999999999999996 999999999999999999999999999999999963221 23468
Q ss_pred cCC---cccccCCCchHHHHHHhhhccC
Q 044181 92 ECS---VCGLEFAIGQALGGHMRRHRAA 116 (178)
Q Consensus 92 ~C~---~Cgk~F~~~~~L~~H~~~H~~~ 116 (178)
.|+ +|-+.|.....|..|+++|.+.
T Consensus 667 ScP~~~ic~~kftn~V~lpQhIriH~~~ 694 (958)
T KOG1074|consen 667 SCPSTFICQKKFTNAVTLPQHIRIHLGG 694 (958)
T ss_pred cCCchhhhcccccccccccceEEeecCC
Confidence 999 9999999999999999999954
No 9
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.41 E-value=2.1e-14 Score=120.89 Aligned_cols=81 Identities=20% Similarity=0.377 Sum_probs=70.0
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCC-------------CCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMA-------------AGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGG 78 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~-------------~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~ 78 (178)
+.-|.|..|...|.....|. +|+.+|. +.+.|+|.+|||+|+.+..|+.|+|+|+
T Consensus 238 e~nfsC~lCsytFAyRtQLE--rhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHS---------- 305 (1007)
T KOG3623|consen 238 EPNFSCMLCSYTFAYRTQLE--RHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHS---------- 305 (1007)
T ss_pred CCCCcchhhhhhhhhHHHHH--HHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeec----------
Confidence 56788999999999888886 8887774 3467999999999999999988888877
Q ss_pred ccccccCCCCCCCcCCcccccCCCchHHHHHHhh
Q 044181 79 VDMQQLPIKPKTHECSVCGLEFAIGQALGGHMRR 112 (178)
Q Consensus 79 ~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~~ 112 (178)
|||||.|+.|+|.|+.+++...||-.
T Consensus 306 --------GEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 306 --------GEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred --------CCCCcCCcccccccccCCcccccccc
Confidence 79999999999999999999999853
No 10
>PHA00733 hypothetical protein
Probab=99.38 E-value=6.5e-13 Score=92.25 Aligned_cols=84 Identities=19% Similarity=0.286 Sum_probs=70.5
Q ss_pred CcccchhhhHHHhcCCCCCCcc----cccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAV----NGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIK 87 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~----~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~ 87 (178)
.+++.|++|.+.|.....|..+ .|+.++ +++||.|+.|++.|....+|..|++.|.
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~-~~kPy~C~~Cgk~Fss~s~L~~H~r~h~------------------- 97 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSK-AVSPYVCPLCLMPFSSSVSLKQHIRYTE------------------- 97 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccC-CCCCccCCCCCCcCCCHHHHHHHHhcCC-------------------
Confidence 6899999999999988777533 343444 5889999999999999999999998652
Q ss_pred CCCCcCCcccccCCCchHHHHHHhhhccC
Q 044181 88 PKTHECSVCGLEFAIGQALGGHMRRHRAA 116 (178)
Q Consensus 88 ~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~ 116 (178)
.+|.|..|++.|.....|..|+....+.
T Consensus 98 -~~~~C~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 98 -HSKVCPVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred -cCccCCCCCCccCCHHHHHHHHHHhcCc
Confidence 3699999999999999999999866554
No 11
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.07 E-value=1.4e-11 Score=96.50 Aligned_cols=103 Identities=17% Similarity=0.260 Sum_probs=69.7
Q ss_pred ccchhhhHHHhcCCCCCCccccccc-CCCCCceecCcCCCcCCChHHHHHHHHhcCCC-CCCCC--CCC--------ccc
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNT-MAAGRAFECKTCNRQFPSFQALGGHRASHKKP-RFTDG--NGG--------VDM 81 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~-H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~-~~~~~--c~~--------~~h 81 (178)
-|.|+.|.+..+..+.|. +|++. |+.+|||+|+.|++.|...+.|++|..+|+.. +.|+- |.. ..|
T Consensus 263 ~ykCplCdmtc~~~ssL~--~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H 340 (467)
T KOG3608|consen 263 CYKCPLCDMTCSSASSLT--THIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRH 340 (467)
T ss_pred cccccccccCCCChHHHH--HHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHH
Confidence 344444444444444443 55544 77788999999999999999999998888743 23533 543 455
Q ss_pred cc-cCCC--CCCCcCCcccccCCCchHHHHHHh-hhccCCC
Q 044181 82 QQ-LPIK--PKTHECSVCGLEFAIGQALGGHMR-RHRAAGL 118 (178)
Q Consensus 82 ~~-~h~~--~k~~~C~~Cgk~F~~~~~L~~H~~-~H~~~~~ 118 (178)
++ .|.| +-+|.|-.|++.|++..+|..|.. .|.-.-|
T Consensus 341 ~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~P 381 (467)
T KOG3608|consen 341 FLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLP 381 (467)
T ss_pred HHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCC
Confidence 54 3545 456999999999999999999975 4543333
No 12
>PHA02768 hypothetical protein; Provisional
Probab=99.02 E-value=1.6e-10 Score=67.49 Aligned_cols=44 Identities=16% Similarity=0.230 Sum_probs=39.3
Q ss_pred ceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCCcCCcccccCCCchHHH
Q 044181 44 AFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALG 107 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~ 107 (178)
-|.|++||+.|...++|..|+++|+ ++|+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--------------------k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--------------------TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--------------------CcccCCcccceecccceeE
Confidence 4899999999999999999999984 5799999999999887764
No 13
>PHA02768 hypothetical protein; Provisional
Probab=98.96 E-value=2.7e-11 Score=70.70 Aligned_cols=44 Identities=7% Similarity=0.058 Sum_probs=40.2
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHH
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALG 61 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~ 61 (178)
.|+|+.||+.|++..+|+ .|+++|+ ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~--~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMI--THLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHH--HHHHhcC--CcccCCcccceecccceeE
Confidence 589999999999999996 9999999 7999999999999877664
No 14
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.79 E-value=1.7e-09 Score=86.75 Aligned_cols=103 Identities=17% Similarity=0.228 Sum_probs=73.7
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCC---CCCC-C---------
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFT---DGNG-G--------- 78 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~---~~c~-~--------- 78 (178)
.++|-|..|...|.....|. .|.-.-.-.-.|+|.+|+|.|+...||..|+|+|.-...- +.-. +
T Consensus 265 iGdyiCqLCK~kYeD~F~LA--QHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~ 342 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALA--QHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEV 342 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHh--hccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhh
Confidence 56899999999999887785 6654333344699999999999999999999999522110 0000 0
Q ss_pred cccccc--CCCCCCCcCCcccccCCCchHHHHHHhhhccC
Q 044181 79 VDMQQL--PIKPKTHECSVCGLEFAIGQALGGHMRRHRAA 116 (178)
Q Consensus 79 ~~h~~~--h~~~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~ 116 (178)
+.-.+. ...+--|.|.+|+|.|.+..+|+.|+-+|...
T Consensus 343 ~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 343 QEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred hhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 000000 12234799999999999999999998887644
No 15
>PHA00733 hypothetical protein
Probab=98.72 E-value=2.3e-09 Score=74.49 Aligned_cols=61 Identities=13% Similarity=0.247 Sum_probs=51.3
Q ss_pred cccccccCCCCcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcC
Q 044181 2 KRAFQESSELDHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 2 kr~~~~~~~~~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~ 68 (178)
.+|...+ + +++|.|..||+.|.+...|. .|+++| +.+|.|..|++.|.....|..|+....
T Consensus 63 ~~~~~~~-~-~kPy~C~~Cgk~Fss~s~L~--~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 63 YKLLTSK-A-VSPYVCPLCLMPFSSSVSLK--QHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred HhhcccC-C-CCCccCCCCCCcCCCHHHHH--HHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhc
Confidence 4555555 3 79999999999999999985 888877 457999999999999999999988654
No 16
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.65 E-value=3e-08 Score=83.75 Aligned_cols=81 Identities=15% Similarity=0.231 Sum_probs=62.3
Q ss_pred CceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCC-------ccccccCCCCCCCcCCcccccCCC----------chH
Q 044181 43 RAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGG-------VDMQQLPIKPKTHECSVCGLEFAI----------GQA 105 (178)
Q Consensus 43 k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~-------~~h~~~h~~~k~~~C~~Cgk~F~~----------~~~ 105 (178)
+++.|+.|++.|. ...|..|+++|+.+..|. |+. ..|+.+|.+.+++.|..|++.|.. ...
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~Hkpv~Cp-Cg~~~~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~ 529 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFHEPLQCP-CGVVLEKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRG 529 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcCCCccCC-CCCCcchhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhh
Confidence 3458888988885 577888888876666677 765 567778888999999999998852 347
Q ss_pred HHHHHhhhccCCCCCCCCccc
Q 044181 106 LGGHMRRHRAAGLHGNEKLSD 126 (178)
Q Consensus 106 L~~H~~~H~~~~~~~~~~~~~ 126 (178)
|..|..++ |.+++.|..++.
T Consensus 530 Lt~HE~~C-G~rt~~C~~Cgk 549 (567)
T PLN03086 530 MSEHESIC-GSRTAPCDSCGR 549 (567)
T ss_pred HHHHHHhc-CCcceEccccCC
Confidence 88898885 888888876643
No 17
>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=98.60 E-value=1.9e-08 Score=50.25 Aligned_cols=17 Identities=29% Similarity=0.636 Sum_probs=15.0
Q ss_pred CCCCCCcCCcccccCCC
Q 044181 86 IKPKTHECSVCGLEFAI 102 (178)
Q Consensus 86 ~~~k~~~C~~Cgk~F~~ 102 (178)
+|++||.|++|++.|.+
T Consensus 10 ~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 10 TGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp SSSSSEEESSSSEEESS
T ss_pred CCCCCCCCCCCcCeeCc
Confidence 37999999999999974
No 18
>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=98.57 E-value=5.6e-09 Score=52.20 Aligned_cols=24 Identities=17% Similarity=0.580 Sum_probs=21.0
Q ss_pred ccccccCCCCCceecCcCCCcCCC
Q 044181 33 VNGVNTMAAGRAFECKTCNRQFPS 56 (178)
Q Consensus 33 ~~h~~~H~~~k~~~C~~C~k~f~~ 56 (178)
.+|+++|+|++||.|++|++.|.+
T Consensus 3 ~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 3 RRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHSSSSSEEESSSSEEESS
T ss_pred HHHhhhcCCCCCCCCCCCcCeeCc
Confidence 378999999999999999998863
No 19
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.55 E-value=2.1e-08 Score=84.63 Aligned_cols=95 Identities=15% Similarity=0.311 Sum_probs=73.3
Q ss_pred CCcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCC--CCCCCC----------
Q 044181 11 LDHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRF--TDGNGG---------- 78 (178)
Q Consensus 11 ~~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~--~~~c~~---------- 78 (178)
+++.+.|..|++.|. ...|. .|+.+|. +++.|+ ||+.+ ....|..|+.+|...++ |..|++
T Consensus 450 l~~H~~C~~Cgk~f~-~s~Le--kH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d 522 (567)
T PLN03086 450 AKNHVHCEKCGQAFQ-QGEME--KHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMD 522 (567)
T ss_pred cccCccCCCCCCccc-hHHHH--HHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccc
Confidence 467789999999996 45674 8988875 799999 99766 56899999999976665 888865
Q ss_pred --------ccccccCCCCCCCcCCcccccCCCchHHHHHHh-hhc
Q 044181 79 --------VDMQQLPIKPKTHECSVCGLEFAIGQALGGHMR-RHR 114 (178)
Q Consensus 79 --------~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~-~H~ 114 (178)
..|.... |.+++.|..||+.|.. ..|..|+. +|.
T Consensus 523 ~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrl-rdm~~H~~~~h~ 565 (567)
T PLN03086 523 VRDRLRGMSEHESIC-GSRTAPCDSCGRSVML-KEMDIHQIAVHQ 565 (567)
T ss_pred hhhhhhhHHHHHHhc-CCcceEccccCCeeee-hhHHHHHHHhhc
Confidence 2355554 8999999999999964 56677764 443
No 20
>PHA00616 hypothetical protein
Probab=98.48 E-value=5.6e-08 Score=54.10 Aligned_cols=33 Identities=18% Similarity=0.192 Sum_probs=30.6
Q ss_pred CCcCCcccccCCCchHHHHHHhhhccCCCCCCC
Q 044181 90 THECSVCGLEFAIGQALGGHMRRHRAAGLHGNE 122 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~~L~~H~~~H~~~~~~~~~ 122 (178)
||+|..||+.|.+.+.|..|++.|+|++++.++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 699999999999999999999999999877664
No 21
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.47 E-value=8.4e-08 Score=77.17 Aligned_cols=55 Identities=18% Similarity=0.341 Sum_probs=47.9
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCC--------CCC-------------------------ceecCcCCCcCCChH
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMA--------AGR-------------------------AFECKTCNRQFPSFQ 58 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~--------~~k-------------------------~~~C~~C~k~f~~~~ 58 (178)
-.+|+|.+|+|+|+.-.+|. .|.|.|. +.. -|.|.+|+|.|.+..
T Consensus 293 ~vEYrCPEC~KVFsCPANLA--SHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqA 370 (500)
T KOG3993|consen 293 HVEYRCPECDKVFSCPANLA--SHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQA 370 (500)
T ss_pred EeeecCCcccccccCchhhh--hhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHH
Confidence 36899999999999999996 8999884 222 389999999999999
Q ss_pred HHHHHHHhcC
Q 044181 59 ALGGHRASHK 68 (178)
Q Consensus 59 ~L~~H~~~h~ 68 (178)
.|+.|+.+|.
T Consensus 371 YLrKHqlthq 380 (500)
T KOG3993|consen 371 YLRKHQLTHQ 380 (500)
T ss_pred HHHHhHHhhh
Confidence 9999998883
No 22
>PHA00732 hypothetical protein
Probab=98.43 E-value=1.8e-07 Score=59.45 Aligned_cols=46 Identities=26% Similarity=0.561 Sum_probs=34.8
Q ss_pred ceecCcCCCcCCChHHHHHHHHh-cCCCCCCCCCCCccccccCCCCCCCcCCcccccCCCchHHHHHHhhh
Q 044181 44 AFECKTCNRQFPSFQALGGHRAS-HKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALGGHMRRH 113 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~-h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~~H 113 (178)
||.|..|++.|.+..+|..|++. |. ++.|+.||+.|. .|..|.+.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---------------------~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---------------------LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---------------------CCccCCCCCEeC---Chhhhhccc
Confidence 57888999999888888888874 43 257888888887 466776543
No 23
>PHA00616 hypothetical protein
Probab=98.23 E-value=4.5e-07 Score=50.49 Aligned_cols=26 Identities=23% Similarity=0.409 Sum_probs=24.5
Q ss_pred ceecCcCCCcCCChHHHHHHHHhcCC
Q 044181 44 AFECKTCNRQFPSFQALGGHRASHKK 69 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~h~~ 69 (178)
||+|..||+.|...+.|..|++.|++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg 26 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHK 26 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcC
Confidence 69999999999999999999999884
No 24
>PHA00732 hypothetical protein
Probab=98.07 E-value=3.2e-07 Score=58.27 Aligned_cols=47 Identities=15% Similarity=0.235 Sum_probs=39.6
Q ss_pred ccchhhhHHHhcCCCCCCcccccc-cCCCCCceecCcCCCcCCChHHHHHHHHhcC
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVN-TMAAGRAFECKTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~-~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~ 68 (178)
||.|..|++.|.+...|. .|++ .|++ +.|+.|++.|. .|..|.+++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk--~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALK--QHARRNHTL---TKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHH--HHhhcccCC---CccCCCCCEeC---ChhhhhcccC
Confidence 689999999999999996 8987 4764 58999999998 5888887654
No 25
>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=98.05 E-value=1.7e-06 Score=41.71 Aligned_cols=23 Identities=43% Similarity=0.911 Sum_probs=21.5
Q ss_pred CcCCcccccCCCchHHHHHHhhh
Q 044181 91 HECSVCGLEFAIGQALGGHMRRH 113 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~H 113 (178)
|.|++|++.|.+...|..|++.|
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 68999999999999999999875
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=98.00 E-value=3.4e-06 Score=65.89 Aligned_cols=71 Identities=21% Similarity=0.481 Sum_probs=49.5
Q ss_pred CCCceecCc--CCCcCCChHHHHHHHHh-cCCCCCCCCCCCccccccCCCCCCCcCCcccccCCCchHHHHHHh
Q 044181 41 AGRAFECKT--CNRQFPSFQALGGHRAS-HKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALGGHMR 111 (178)
Q Consensus 41 ~~k~~~C~~--C~k~f~~~~~L~~H~~~-h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~ 111 (178)
++|||+|++ |+|.++....|+.|+.. |..++.-..-.-..+.-.-..+|||.|++|+|.+...-.|+-|.+
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 469999987 99999999999999874 322221111111112222346899999999999998888887754
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.95 E-value=4.3e-06 Score=40.22 Aligned_cols=23 Identities=30% Similarity=0.710 Sum_probs=21.4
Q ss_pred eecCcCCCcCCChHHHHHHHHhc
Q 044181 45 FECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
|+|+.|++.|.....|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 28
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.76 E-value=6.5e-05 Score=44.17 Aligned_cols=51 Identities=25% Similarity=0.571 Sum_probs=39.2
Q ss_pred ceecCcCCCcCCChHHHHHHHHh-cCCCCCCCCCCCccccccCCCCCCCcCCcccccCCCchHHHHHHhhhc
Q 044181 44 AFECKTCNRQFPSFQALGGHRAS-HKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALGGHMRRHR 114 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~-h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~~H~ 114 (178)
.|.|++|++.| ....|..|... |.. ..+.+.|++|...+. .+|..|+..+.
T Consensus 2 ~f~CP~C~~~~-~~~~L~~H~~~~H~~-----------------~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKGF-SESSLVEHCEDEHRS-----------------ESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCcc-CHHHHHHHHHhHCcC-----------------CCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 48999999955 56789999765 432 346799999998765 48999998754
No 29
>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=97.69 E-value=1.3e-05 Score=40.06 Aligned_cols=26 Identities=38% Similarity=0.645 Sum_probs=23.7
Q ss_pred CCcCCcccccCCCchHHHHHHhhhcc
Q 044181 90 THECSVCGLEFAIGQALGGHMRRHRA 115 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~~L~~H~~~H~~ 115 (178)
||+|..|++.|.+...|..|++.|.+
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 68999999999999999999998753
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=97.59 E-value=3.3e-05 Score=37.08 Aligned_cols=24 Identities=38% Similarity=0.832 Sum_probs=20.0
Q ss_pred CcCCcccccCCCchHHHHHHhhhc
Q 044181 91 HECSVCGLEFAIGQALGGHMRRHR 114 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~H~ 114 (178)
|.|++|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 689999999999999999998763
No 31
>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=97.49 E-value=5.4e-05 Score=37.77 Aligned_cols=25 Identities=44% Similarity=0.897 Sum_probs=23.1
Q ss_pred ceecCcCCCcCCChHHHHHHHHhcC
Q 044181 44 AFECKTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~h~ 68 (178)
||+|..|++.|.....|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 6899999999999999999998874
No 32
>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=97.44 E-value=9.6e-05 Score=35.39 Aligned_cols=23 Identities=35% Similarity=0.756 Sum_probs=19.6
Q ss_pred eecCcCCCcCCChHHHHHHHHhc
Q 044181 45 FECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
|.|++|++.|.+...|..|++.|
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 78999999999999999999875
No 33
>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=97.41 E-value=0.00011 Score=41.95 Aligned_cols=32 Identities=16% Similarity=0.359 Sum_probs=24.2
Q ss_pred CCCCCcCCcccccCCCchHHHHHHhhhccCCC
Q 044181 87 KPKTHECSVCGLEFAIGQALGGHMRRHRAAGL 118 (178)
Q Consensus 87 ~~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~~~ 118 (178)
.+.|..|++|+..+.+..+|++|+.++++.+|
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 57899999999999999999999999888775
No 34
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.35 E-value=0.00018 Score=34.92 Aligned_cols=25 Identities=40% Similarity=0.675 Sum_probs=22.4
Q ss_pred CcCCcccccCCCchHHHHHHhhhcc
Q 044181 91 HECSVCGLEFAIGQALGGHMRRHRA 115 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~H~~ 115 (178)
|.|..|++.|.....|..|++.|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~~ 25 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHXX 25 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhcc
Confidence 6899999999999999999997753
No 35
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.35 E-value=9.6e-05 Score=48.51 Aligned_cols=67 Identities=24% Similarity=0.404 Sum_probs=22.3
Q ss_pred cCcCCCcCCChHHHHHHHHhcCCCCC------CCCCCCccccccCCCCCCCcCCcccccCCCchHHHHHHhhhc
Q 044181 47 CKTCNRQFPSFQALGGHRASHKKPRF------TDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALGGHMRRHR 114 (178)
Q Consensus 47 C~~C~k~f~~~~~L~~H~~~h~~~~~------~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~~H~ 114 (178)
|..|+..|.....|..|+....+-.. ........+...- -...+.|..|++.|.+...|..|++.+.
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~-~~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKK-VKESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccc-cCCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 56666666666666666643322111 0000111111111 1236999999999999999999999754
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.10 E-value=0.00043 Score=33.52 Aligned_cols=24 Identities=33% Similarity=0.693 Sum_probs=21.8
Q ss_pred eecCcCCCcCCChHHHHHHHHhcC
Q 044181 45 FECKTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~h~ 68 (178)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 679999999999999999999774
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.05 E-value=0.00014 Score=57.09 Aligned_cols=52 Identities=15% Similarity=0.425 Sum_probs=41.1
Q ss_pred Ccccchhh--hHHHhcCCCCCCccccccc-C------------------CCCCceecCcCCCcCCChHHHHHHHH
Q 044181 12 DHSLNMAN--CLMFLSHGRGFNAVNGVNT-M------------------AAGRAFECKTCNRQFPSFQALGGHRA 65 (178)
Q Consensus 12 ~~~~~C~~--C~~~f~~~~~l~~~~h~~~-H------------------~~~k~~~C~~C~k~f~~~~~L~~H~~ 65 (178)
++||.|++ |.|.+.....|. -|+.. | ..+|||+|++|+|.++....|+.|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLK--YH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLK--YHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchh--hhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 59999986 789999888885 44322 1 14689999999999999999988864
No 38
>PRK04860 hypothetical protein; Provisional
Probab=96.77 E-value=0.0002 Score=51.61 Aligned_cols=36 Identities=11% Similarity=0.337 Sum_probs=19.4
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCC
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFP 55 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~ 55 (178)
+|.|. |++ ....+ .+|.++|+++++|.|..|++.|.
T Consensus 119 ~Y~C~-C~~---~~~~~--rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTV--RRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHH--HHHHHHhcCCccEECCCCCceeE
Confidence 45665 654 22223 35666666666666666665554
No 39
>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=96.75 E-value=0.00019 Score=42.10 Aligned_cols=51 Identities=16% Similarity=0.260 Sum_probs=37.2
Q ss_pred cccchhhhHHHhcCCCCCCccccc-ccCCCC-CceecCcCCCcCCChHHHHHHHHhcC
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGV-NTMAAG-RAFECKTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~-~~H~~~-k~~~C~~C~k~f~~~~~L~~H~~~h~ 68 (178)
+.|.|+.|++.|+. ..|. .|. ..|..+ +.+.|++|...+. .+|..|+..+.
T Consensus 1 ~~f~CP~C~~~~~~-~~L~--~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 1 DSFTCPYCGKGFSE-SSLV--EHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CCcCCCCCCCccCH-HHHH--HHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 36999999996654 4564 675 346654 5799999998755 48999987653
No 40
>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=96.70 E-value=0.0024 Score=36.52 Aligned_cols=32 Identities=13% Similarity=0.191 Sum_probs=22.6
Q ss_pred CCCCCceecCcCCCcCCChHHHHHHHHhcCCC
Q 044181 39 MAAGRAFECKTCNRQFPSFQALGGHRASHKKP 70 (178)
Q Consensus 39 H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~ 70 (178)
+..+.|..|++|+..+.+..+|.+|+.++.+.
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 44678999999999999999999999776543
No 41
>PRK04860 hypothetical protein; Provisional
Probab=96.65 E-value=0.0013 Score=47.36 Aligned_cols=38 Identities=18% Similarity=0.503 Sum_probs=32.2
Q ss_pred ceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCCcCCcccccCCCc
Q 044181 44 AFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIG 103 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~ 103 (178)
+|.|. |++ ...++.+|.++|+ |+++|.|..|++.|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~------------------g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVR------------------GEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhc------------------CCccEECCCCCceeEEe
Confidence 69998 998 5677899999887 68899999999988643
No 42
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.64 E-value=0.0015 Score=42.64 Aligned_cols=50 Identities=24% Similarity=0.345 Sum_probs=21.7
Q ss_pred chhhhHHHhcCCCCCCccccccc-CC----------------------CCCceecCcCCCcCCChHHHHHHHHhc
Q 044181 16 NMANCLMFLSHGRGFNAVNGVNT-MA----------------------AGRAFECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 16 ~C~~C~~~f~~~~~l~~~~h~~~-H~----------------------~~k~~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
+|..|+..|.....|. .|+.. |. -...+.|..|++.|.+...|..|++.+
T Consensus 1 ~C~~C~~~f~~~~~l~--~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLL--QHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp --------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccc--cccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 4888888888877765 55522 21 012599999999999999999999975
No 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.51 E-value=0.001 Score=32.32 Aligned_cols=23 Identities=26% Similarity=0.660 Sum_probs=21.0
Q ss_pred CcCCcccccCCCchHHHHHHhhh
Q 044181 91 HECSVCGLEFAIGQALGGHMRRH 113 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~H 113 (178)
|.|.+|++.|.+...|..|++.+
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 67999999999999999999864
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.23 E-value=0.0021 Score=31.17 Aligned_cols=23 Identities=39% Similarity=0.716 Sum_probs=20.7
Q ss_pred eecCcCCCcCCChHHHHHHHHhc
Q 044181 45 FECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
|.|.+|++.|.+...|..|++.+
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 68999999999999999998754
No 45
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.05 E-value=0.0027 Score=31.55 Aligned_cols=22 Identities=27% Similarity=0.558 Sum_probs=20.4
Q ss_pred CcCCcccccCCCchHHHHHHhh
Q 044181 91 HECSVCGLEFAIGQALGGHMRR 112 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~ 112 (178)
|-|..|++.|.+...+..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7899999999999999999875
No 46
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.67 E-value=0.0092 Score=55.03 Aligned_cols=95 Identities=17% Similarity=0.262 Sum_probs=68.6
Q ss_pred chhhhHHHhcCCCCCCccccc-ccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCC-cccccc------CCC
Q 044181 16 NMANCLMFLSHGRGFNAVNGV-NTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGG-VDMQQL------PIK 87 (178)
Q Consensus 16 ~C~~C~~~f~~~~~l~~~~h~-~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~-~~h~~~------h~~ 87 (178)
.|..|+..|.++..+. .|+ ..|+..+.|+|+.|+-.|.....|..|+|+-+-+.....|-. ..|.+. -.+
T Consensus 438 e~~~~e~~~~s~r~~~--~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~ 515 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLE--GQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCP 515 (1406)
T ss_pred cccchhhhhhhhcccc--cceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCC
Confidence 5777888888887775 443 447888999999999999999999999997321111112211 122211 224
Q ss_pred CCCCcCCcccccCCCchHHHHHHhh
Q 044181 88 PKTHECSVCGLEFAIGQALGGHMRR 112 (178)
Q Consensus 88 ~k~~~C~~Cgk~F~~~~~L~~H~~~ 112 (178)
.++|.|..|..+|....+|.+|+..
T Consensus 516 ~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 516 GKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred CCcccceeeeeeeecchHHHHHHHH
Confidence 6899999999999999999999874
No 47
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.60 E-value=0.0067 Score=49.50 Aligned_cols=57 Identities=18% Similarity=0.363 Sum_probs=51.9
Q ss_pred cccchhhhHHHhcCCCCCCcccccc--cCCCC--CceecC--cCCCcCCChHHHHHHHHhcCCCC
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGVN--TMAAG--RAFECK--TCNRQFPSFQALGGHRASHKKPR 71 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~~--~H~~~--k~~~C~--~C~k~f~~~~~L~~H~~~h~~~~ 71 (178)
.++.|..|...|++...|. .|.+ .|+++ +++.|. .|++.|.+...+.+|...|.+..
T Consensus 288 ~~~~~~~~~~~~s~~~~l~--~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLT--RHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSIS 350 (467)
T ss_pred cCCCCccccCCcccccccc--ccccccccccccCCceeeeccCCCccccccccccCCcccccCCC
Confidence 4799999999999999996 8999 89999 999999 79999999999999999997543
No 48
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.59 E-value=0.007 Score=29.04 Aligned_cols=23 Identities=26% Similarity=0.629 Sum_probs=18.2
Q ss_pred CcCCcccccCCCchHHHHHHhhhc
Q 044181 91 HECSVCGLEFAIGQALGGHMRRHR 114 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~H~ 114 (178)
|+|+.|+.... ...|.+|++.|.
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 68999998887 889999999865
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.33 E-value=0.011 Score=28.29 Aligned_cols=22 Identities=23% Similarity=0.510 Sum_probs=17.9
Q ss_pred eecCcCCCcCCChHHHHHHHHhc
Q 044181 45 FECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
|+|+.|+.... ...|..|++.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 78999999988 89999999875
No 50
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.29 E-value=0.014 Score=28.52 Aligned_cols=21 Identities=29% Similarity=0.618 Sum_probs=17.9
Q ss_pred CcCCcccccCCCchHHHHHHhh
Q 044181 91 HECSVCGLEFAIGQALGGHMRR 112 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~ 112 (178)
..|+.||+.| ....|.+|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4799999999 67889999864
No 51
>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=94.99 E-value=0.0063 Score=30.17 Aligned_cols=22 Identities=36% Similarity=0.694 Sum_probs=19.3
Q ss_pred eecCcCCCcCCChHHHHHHHHh
Q 044181 45 FECKTCNRQFPSFQALGGHRAS 66 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~ 66 (178)
|-|..|++.|.+...+..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7799999999999999888764
No 52
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.36 E-value=0.039 Score=26.87 Aligned_cols=21 Identities=29% Similarity=0.615 Sum_probs=17.1
Q ss_pred eecCcCCCcCCChHHHHHHHHh
Q 044181 45 FECKTCNRQFPSFQALGGHRAS 66 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~ 66 (178)
..|+.||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4699999999 56789999764
No 53
>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=93.91 E-value=0.037 Score=28.91 Aligned_cols=23 Identities=17% Similarity=0.541 Sum_probs=20.6
Q ss_pred CCcCCcccccCCCchHHHHHHhh
Q 044181 90 THECSVCGLEFAIGQALGGHMRR 112 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~~L~~H~~~ 112 (178)
+|.|+.|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999999999999864
No 54
>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=93.31 E-value=0.087 Score=27.44 Aligned_cols=23 Identities=30% Similarity=0.576 Sum_probs=20.4
Q ss_pred ceecCcCCCcCCChHHHHHHHHh
Q 044181 44 AFECKTCNRQFPSFQALGGHRAS 66 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~ 66 (178)
+|.|++|++.|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 68899999999999999988864
No 55
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.74 E-value=0.033 Score=45.38 Aligned_cols=63 Identities=25% Similarity=0.425 Sum_probs=52.5
Q ss_pred CceecCcCCCcCCChHHHHHHHH--hcCCCCCCCCCCCccccccCCCC--CCCcCC--cccccCCCchHHHHHHhhhccC
Q 044181 43 RAFECKTCNRQFPSFQALGGHRA--SHKKPRFTDGNGGVDMQQLPIKP--KTHECS--VCGLEFAIGQALGGHMRRHRAA 116 (178)
Q Consensus 43 k~~~C~~C~k~f~~~~~L~~H~~--~h~~~~~~~~c~~~~h~~~h~~~--k~~~C~--~Cgk~F~~~~~L~~H~~~H~~~ 116 (178)
.++.|..|...|.....|..|.+ .|. ++ +++.|+ .|++.|.+...+..|..+|.+.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~------------------~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~ 349 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS------------------GESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI 349 (467)
T ss_pred cCCCCccccCCccccccccccccccccc------------------cccCCceeeeccCCCccccccccccCCcccccCC
Confidence 46888888888888888888877 455 66 899999 7999999999999999999988
Q ss_pred CCCCCCC
Q 044181 117 GLHGNEK 123 (178)
Q Consensus 117 ~~~~~~~ 123 (178)
.+..+..
T Consensus 350 ~~~~~~~ 356 (467)
T COG5048 350 SPAKEKL 356 (467)
T ss_pred Ccccccc
Confidence 7666544
No 56
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=92.68 E-value=0.14 Score=47.64 Aligned_cols=93 Identities=20% Similarity=0.295 Sum_probs=65.9
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCC-ccccccCCCCCC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGG-VDMQQLPIKPKT 90 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~-~~h~~~h~~~k~ 90 (178)
-++|.|..|.+.|+....+. +---..+|.|..|...|.....|..|++.-. +.-...+. ..++..+-..+.
T Consensus 1258 sGe~~c~~~~~~~~~~~~~~------~l~~~~~~~~~~~~~~~~~~~~l~~~~~k~~--~~~~~~~~~~~~~l~~~d~~~ 1329 (1406)
T KOG1146|consen 1258 SGEGECGAVDELLTPSFGIS------TLDVTHRYLCRQCKMAFDGEAPLTAHQRKFC--FAGRGSGGSMPPPLRVPDCTY 1329 (1406)
T ss_pred CCcchhhhccccccCcccee------ecccchhHHHHHHHhhhcchhHHHHHHHHHH--hccCccccCCCCcccCccccc
Confidence 46899999999987765541 2223568999999999999999999984321 00111111 334444444566
Q ss_pred CcCCcccccCCCchHHHHHHhhh
Q 044181 91 HECSVCGLEFAIGQALGGHMRRH 113 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~H 113 (178)
| |..|...|.....|..||++-
T Consensus 1330 ~-c~~c~~~~~~~~alqihm~~~ 1351 (1406)
T KOG1146|consen 1330 H-CLACEVLLSGREALQIHMRSS 1351 (1406)
T ss_pred c-chHHHhhcchhHHHHHHHHHh
Confidence 7 999999999999999999963
No 57
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=91.66 E-value=0.063 Score=40.90 Aligned_cols=50 Identities=30% Similarity=0.632 Sum_probs=39.1
Q ss_pred CCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCCcCCcccccCCCchHHHHH-Hhhhc
Q 044181 42 GRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALGGH-MRRHR 114 (178)
Q Consensus 42 ~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H-~~~H~ 114 (178)
.||+ |=+|++.|....-|.+|++ .|.|+|.+|-|.+-+.-.|..| |++|.
T Consensus 9 ~kpw-cwycnrefddekiliqhqk----------------------akhfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQK----------------------AKHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred CCce-eeecccccchhhhhhhhhh----------------------hccceeeeehhhhccCCCceeehhhhhh
Confidence 4566 6689999999888888877 5669999999877677777777 56664
No 58
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=85.75 E-value=0.25 Score=37.43 Aligned_cols=46 Identities=9% Similarity=0.089 Sum_probs=29.6
Q ss_pred CcccchhhhHHHhcCCCCCCcccc-cccCC-------CCCc-----eecCcCCCcCCCh
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNG-VNTMA-------AGRA-----FECKTCNRQFPSF 57 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h-~~~H~-------~~k~-----~~C~~C~k~f~~~ 57 (178)
++.+.|++|++.|........... .+..+ +..| ..|+.||.+|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 578999999999988855431111 12222 3333 4799999887644
No 59
>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=84.45 E-value=0.47 Score=31.93 Aligned_cols=30 Identities=20% Similarity=0.460 Sum_probs=22.0
Q ss_pred cchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCCh
Q 044181 15 LNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSF 57 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~ 57 (178)
-.|..||+.| .-|. ..|-.|+.||..|...
T Consensus 10 R~Cp~CG~kF---YDLn----------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKF---YDLN----------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchh---ccCC----------CCCccCCCCCCccCcc
Confidence 4688888887 5562 3577888898888755
No 60
>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=84.33 E-value=4.1 Score=27.17 Aligned_cols=69 Identities=16% Similarity=0.297 Sum_probs=43.6
Q ss_pred CceecCcCCCcCCChHHHHHHHHh-cCCCC--------------------------CCCCCCCccccccCCCCCCCcC--
Q 044181 43 RAFECKTCNRQFPSFQALGGHRAS-HKKPR--------------------------FTDGNGGVDMQQLPIKPKTHEC-- 93 (178)
Q Consensus 43 k~~~C~~C~k~f~~~~~L~~H~~~-h~~~~--------------------------~~~~c~~~~h~~~h~~~k~~~C-- 93 (178)
+-..|..|+.+... +.+..|.+. |.... +-..+.-...+.++.| |.|
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G---~~C~~ 85 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDG---YRCQC 85 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCC---eeeec
Confidence 34568888877654 678888873 32110 0011111233344433 899
Q ss_pred --CcccccCCCchHHHHHHhhhcc
Q 044181 94 --SVCGLEFAIGQALGGHMRRHRA 115 (178)
Q Consensus 94 --~~Cgk~F~~~~~L~~H~~~H~~ 115 (178)
..|+..+.+...+.+|.+.++|
T Consensus 86 ~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 86 DPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999987654
No 61
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=82.98 E-value=1.1 Score=36.28 Aligned_cols=68 Identities=22% Similarity=0.367 Sum_probs=46.7
Q ss_pred eecCc--CCCcCCChHHHHHHHHhcCCCCCCCCCCC-----------------ccccccCCCCCCC----cCCcccccCC
Q 044181 45 FECKT--CNRQFPSFQALGGHRASHKKPRFTDGNGG-----------------VDMQQLPIKPKTH----ECSVCGLEFA 101 (178)
Q Consensus 45 ~~C~~--C~k~f~~~~~L~~H~~~h~~~~~~~~c~~-----------------~~h~~~h~~~k~~----~C~~Cgk~F~ 101 (178)
|.|+. |.......-.|+.|.++..+...|..|-. ..|......+.-| .|..|...|-
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FY 231 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFY 231 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccceec
Confidence 77865 67777777888899887766666655532 3444443333222 6888999998
Q ss_pred CchHHHHHHhh
Q 044181 102 IGQALGGHMRR 112 (178)
Q Consensus 102 ~~~~L~~H~~~ 112 (178)
....|.+|+|.
T Consensus 232 dDDEL~~HcR~ 242 (493)
T COG5236 232 DDDELRRHCRL 242 (493)
T ss_pred ChHHHHHHHHh
Confidence 88899888875
No 62
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=80.82 E-value=0.73 Score=26.93 Aligned_cols=28 Identities=18% Similarity=0.351 Sum_probs=24.3
Q ss_pred CCCCCCCcCCcccccCCCchHHHHHHhh
Q 044181 85 PIKPKTHECSVCGLEFAIGQALGGHMRR 112 (178)
Q Consensus 85 h~~~k~~~C~~Cgk~F~~~~~L~~H~~~ 112 (178)
-.||.-+.|+.||..|.......+|...
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 3477889999999999999999999854
No 63
>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=79.41 E-value=0.45 Score=26.16 Aligned_cols=30 Identities=10% Similarity=0.233 Sum_probs=19.9
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCC
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNR 52 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k 52 (178)
+|.|..||..|.... .+.. ..+-.|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~--------~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQ--------SISE-DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEE--------EcCC-CCCCcCCCCCC
Confidence 688888887774331 2333 55677888886
No 64
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=79.14 E-value=1.1 Score=26.27 Aligned_cols=31 Identities=16% Similarity=0.254 Sum_probs=25.2
Q ss_pred cccCCCCCceecCcCCCcCCChHHHHHHHHh
Q 044181 36 VNTMAAGRAFECKTCNRQFPSFQALGGHRAS 66 (178)
Q Consensus 36 ~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~ 66 (178)
.++-.||.-+.|+-||..|.......+|...
T Consensus 9 v~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 9 VRDRDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred eeccCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 3556688889999999999988888888753
No 65
>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=78.51 E-value=0.49 Score=24.54 Aligned_cols=10 Identities=20% Similarity=0.786 Sum_probs=7.8
Q ss_pred CceecCcCCC
Q 044181 43 RAFECKTCNR 52 (178)
Q Consensus 43 k~~~C~~C~k 52 (178)
.++.|++||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 6778888875
No 66
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=78.43 E-value=1.4 Score=25.03 Aligned_cols=24 Identities=29% Similarity=0.728 Sum_probs=18.7
Q ss_pred CcCCcccccCCCc-----hHHHHHHh-hhc
Q 044181 91 HECSVCGLEFAIG-----QALGGHMR-RHR 114 (178)
Q Consensus 91 ~~C~~Cgk~F~~~-----~~L~~H~~-~H~ 114 (178)
-.|..|++.+... ++|.+|++ .|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 4689999888655 69999988 564
No 67
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.64 E-value=0.76 Score=34.79 Aligned_cols=53 Identities=15% Similarity=0.337 Sum_probs=31.2
Q ss_pred CCceecCcCCCcCCChHHHHHHHHhc-CCCCCCCCCCCccccccCCCCCC-----CcCCcccccCCCc
Q 044181 42 GRAFECKTCNRQFPSFQALGGHRASH-KKPRFTDGNGGVDMQQLPIKPKT-----HECSVCGLEFAIG 103 (178)
Q Consensus 42 ~k~~~C~~C~k~f~~~~~L~~H~~~h-~~~~~~~~c~~~~h~~~h~~~k~-----~~C~~Cgk~F~~~ 103 (178)
++.+.|++|++.|....-..+..+.- ...-+| ..+.+..| +.|+.||.+|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~---------~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFC---------PRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCc---------cccCCCCCeeeeEEECCCCCCccccc
Confidence 57789999999998775444444321 111111 11223444 4899999876544
No 68
>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=75.99 E-value=2.5 Score=23.21 Aligned_cols=26 Identities=19% Similarity=0.349 Sum_probs=16.9
Q ss_pred CCCCceecCcCCCcCCCh----HHHHHHHH
Q 044181 40 AAGRAFECKTCNRQFPSF----QALGGHRA 65 (178)
Q Consensus 40 ~~~k~~~C~~C~k~f~~~----~~L~~H~~ 65 (178)
.++.-.+|..|++.+... ++|.+|++
T Consensus 12 ~~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 12 GDKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp GCSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CCcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 356678999999988764 78888884
No 69
>PF14353 CpXC: CpXC protein
Probab=75.69 E-value=0.65 Score=32.02 Aligned_cols=44 Identities=18% Similarity=0.247 Sum_probs=28.2
Q ss_pred cchhhhHHHhcCCCCCCcccccccCCCCC-------------ceecCcCCCcCCChHHHHHHH
Q 044181 15 LNMANCLMFLSHGRGFNAVNGVNTMAAGR-------------AFECKTCNRQFPSFQALGGHR 64 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~~~h~~~H~~~k-------------~~~C~~C~k~f~~~~~L~~H~ 64 (178)
..|+.|+..|.-..+. .+.+... .|.|+.||..|.-...+..|.
T Consensus 2 itCP~C~~~~~~~v~~------~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWT------SINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred cCCCCCCCeeEEEEEe------EEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEc
Confidence 5799999888766443 2333322 488999998886555444443
No 70
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=73.32 E-value=1 Score=25.15 Aligned_cols=30 Identities=13% Similarity=0.194 Sum_probs=19.8
Q ss_pred cccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcC
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQF 54 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f 54 (178)
.+|.|..||..|.-.... ....|+.||..+
T Consensus 2 ~~y~C~~CG~~~~~~~~~------------~~~~Cp~CG~~~ 31 (46)
T PRK00398 2 AEYKCARCGREVELDEYG------------TGVRCPYCGYRI 31 (46)
T ss_pred CEEECCCCCCEEEECCCC------------CceECCCCCCeE
Confidence 368899999766433111 168899998654
No 71
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=73.06 E-value=3.1 Score=30.24 Aligned_cols=11 Identities=27% Similarity=0.899 Sum_probs=9.8
Q ss_pred CCCCCcCCccc
Q 044181 87 KPKTHECSVCG 97 (178)
Q Consensus 87 ~~k~~~C~~Cg 97 (178)
|+-|..|++||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 68889999998
No 72
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=70.95 E-value=1.7 Score=24.79 Aligned_cols=29 Identities=17% Similarity=0.221 Sum_probs=17.6
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNR 52 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k 52 (178)
.-.|.|+.||+.|. .+ .......|+.||.
T Consensus 4 ~~~Y~C~~Cg~~~~---~~---------~~~~~irCp~Cg~ 32 (49)
T COG1996 4 MMEYKCARCGREVE---LD---------QETRGIRCPYCGS 32 (49)
T ss_pred eEEEEhhhcCCeee---hh---------hccCceeCCCCCc
Confidence 35688888887771 11 1234567887774
No 73
>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=70.32 E-value=1.8 Score=29.80 Aligned_cols=34 Identities=21% Similarity=0.103 Sum_probs=24.0
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHH
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQAL 60 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L 60 (178)
...|..||+.| ..| +..|-.|+.||..|.....+
T Consensus 9 Kr~Cp~cg~kF---YDL----------nk~p~vcP~cg~~~~~~~~~ 42 (129)
T TIGR02300 9 KRICPNTGSKF---YDL----------NRRPAVSPYTGEQFPPEEAL 42 (129)
T ss_pred cccCCCcCccc---ccc----------CCCCccCCCcCCccCcchhh
Confidence 35788888877 555 23588899999888665333
No 74
>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=70.26 E-value=0.69 Score=24.59 Aligned_cols=34 Identities=18% Similarity=0.312 Sum_probs=19.7
Q ss_pred cchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCC
Q 044181 15 LNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFP 55 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~ 55 (178)
+.|+.|+..|.-.... .........|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~-------~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQ-------LGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHH-------cCCCCCEEECCCCCCEEE
Confidence 5678888776433221 112223577888887763
No 75
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=69.33 E-value=3.5 Score=36.95 Aligned_cols=13 Identities=38% Similarity=0.968 Sum_probs=9.6
Q ss_pred CCCCCcCCccccc
Q 044181 87 KPKTHECSVCGLE 99 (178)
Q Consensus 87 ~~k~~~C~~Cgk~ 99 (178)
...|..|+.||-.
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 4678888888854
No 76
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.81 E-value=3.9 Score=36.11 Aligned_cols=15 Identities=20% Similarity=0.244 Sum_probs=8.6
Q ss_pred cCCCchHHHHHHhhh
Q 044181 99 EFAIGQALGGHMRRH 113 (178)
Q Consensus 99 ~F~~~~~L~~H~~~H 113 (178)
-|.....|..|-+.+
T Consensus 221 yy~~~~dLe~HfR~~ 235 (669)
T KOG2231|consen 221 YYNDYDDLEEHFRKG 235 (669)
T ss_pred hcccchHHHHHhhhc
Confidence 455556666666543
No 77
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=68.49 E-value=3.2 Score=32.12 Aligned_cols=46 Identities=13% Similarity=0.305 Sum_probs=34.4
Q ss_pred cchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHH
Q 044181 15 LNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRA 65 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~ 65 (178)
|.|..||-...- ..+. .|+-.-.+ .-|.|-.|++.|.. -....|..
T Consensus 4 FtCnvCgEsvKK-p~ve--kH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVE--KHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhccc-cchH--HHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 789999988753 4554 68766666 67999999999988 44555654
No 78
>PRK14873 primosome assembly protein PriA; Provisional
Probab=68.26 E-value=4 Score=36.29 Aligned_cols=11 Identities=27% Similarity=0.836 Sum_probs=7.9
Q ss_pred CCCcCCccccc
Q 044181 89 KTHECSVCGLE 99 (178)
Q Consensus 89 k~~~C~~Cgk~ 99 (178)
.|+.|+.||..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 47788888753
No 79
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=67.81 E-value=1.1 Score=39.65 Aligned_cols=26 Identities=31% Similarity=0.577 Sum_probs=23.5
Q ss_pred CCcCCcccccCCCchHHHHHHhhhcc
Q 044181 90 THECSVCGLEFAIGQALGGHMRRHRA 115 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~~L~~H~~~H~~ 115 (178)
-|.|.+|||.|-.-.++..||+.|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 48999999999999999999999863
No 80
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=67.41 E-value=1.6 Score=25.89 Aligned_cols=9 Identities=33% Similarity=1.102 Sum_probs=4.8
Q ss_pred ceecCcCCC
Q 044181 44 AFECKTCNR 52 (178)
Q Consensus 44 ~~~C~~C~k 52 (178)
.|.|+.||.
T Consensus 27 ~F~CPnCGe 35 (61)
T COG2888 27 KFPCPNCGE 35 (61)
T ss_pred EeeCCCCCc
Confidence 355555554
No 81
>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=67.40 E-value=3.2 Score=28.95 Aligned_cols=26 Identities=23% Similarity=0.479 Sum_probs=17.0
Q ss_pred CCceecCcCCCcCCChHHHHHHHHhcCCC
Q 044181 42 GRAFECKTCNRQFPSFQALGGHRASHKKP 70 (178)
Q Consensus 42 ~k~~~C~~C~k~f~~~~~L~~H~~~h~~~ 70 (178)
+.--.|-+||+.|.. |++|.+.|.|-
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S
T ss_pred cCeeEEccCCcccch---HHHHHHHccCC
Confidence 345789999999975 79999999653
No 82
>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=66.87 E-value=4.2 Score=29.24 Aligned_cols=23 Identities=17% Similarity=0.212 Sum_probs=16.4
Q ss_pred CCCCCceecCcCCCcCCChHHHH
Q 044181 39 MAAGRAFECKTCNRQFPSFQALG 61 (178)
Q Consensus 39 H~~~k~~~C~~C~k~f~~~~~L~ 61 (178)
.+...-|.|+.|+..|+.-..+.
T Consensus 104 e~~~~~Y~Cp~c~~r~tf~eA~~ 126 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTFNEAME 126 (158)
T ss_pred ccCCCeEECCCCCcEeeHHHHHH
Confidence 34556788888888887766663
No 83
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=66.71 E-value=1.4 Score=23.39 Aligned_cols=33 Identities=21% Similarity=0.488 Sum_probs=21.1
Q ss_pred cchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcC
Q 044181 15 LNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQF 54 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f 54 (178)
..|+.|+..|.-... ++-......+|..|+..|
T Consensus 3 i~Cp~C~~~y~i~d~-------~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDE-------KIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHH-------HCCCCCcEEECCCCCCEe
Confidence 467888877754433 233444568888888776
No 84
>PHA00626 hypothetical protein
Probab=66.67 E-value=4.2 Score=23.79 Aligned_cols=15 Identities=20% Similarity=0.423 Sum_probs=12.5
Q ss_pred CCCCcCCcccccCCC
Q 044181 88 PKTHECSVCGLEFAI 102 (178)
Q Consensus 88 ~k~~~C~~Cgk~F~~ 102 (178)
...|.|..||..|+.
T Consensus 21 snrYkCkdCGY~ft~ 35 (59)
T PHA00626 21 SDDYVCCDCGYNDSK 35 (59)
T ss_pred CcceEcCCCCCeech
Confidence 457999999999964
No 85
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=66.46 E-value=3.4 Score=26.54 Aligned_cols=32 Identities=22% Similarity=0.419 Sum_probs=20.9
Q ss_pred CCCCCCCccccccCCCCCCCcCCcccccCCCchH
Q 044181 72 FTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQA 105 (178)
Q Consensus 72 ~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~ 105 (178)
.|..|+...+.+.-+| -|.|..||..|+-..+
T Consensus 37 ~Cp~C~~~~VkR~a~G--IW~C~kCg~~fAGgay 68 (89)
T COG1997 37 VCPFCGRTTVKRIATG--IWKCRKCGAKFAGGAY 68 (89)
T ss_pred cCCCCCCcceeeeccC--eEEcCCCCCeeccccc
Confidence 3666665544444333 5899999999975543
No 86
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=65.36 E-value=1.1 Score=31.76 Aligned_cols=37 Identities=14% Similarity=0.255 Sum_probs=19.5
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQF 54 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f 54 (178)
...|.|+.|+..|+....+. . ... ...|.|+.||...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~---~--~d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQ---L--LDM-DGTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHH---h--cCC-CCcEECCCCCCEE
Confidence 35677777777666433221 0 011 2337777777644
No 87
>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=65.13 E-value=5.9 Score=33.99 Aligned_cols=11 Identities=36% Similarity=0.984 Sum_probs=7.6
Q ss_pred CCCCcCCcccc
Q 044181 88 PKTHECSVCGL 98 (178)
Q Consensus 88 ~k~~~C~~Cgk 98 (178)
.-|..|+.||.
T Consensus 251 ~~~~~Cp~C~s 261 (505)
T TIGR00595 251 PIPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCCC
Confidence 45677888874
No 88
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=65.00 E-value=4.6 Score=29.64 Aligned_cols=20 Identities=25% Similarity=0.486 Sum_probs=14.5
Q ss_pred CCCceecCcCCCcCCChHHH
Q 044181 41 AGRAFECKTCNRQFPSFQAL 60 (178)
Q Consensus 41 ~~k~~~C~~C~k~f~~~~~L 60 (178)
...-|.|+.|+..|..-..+
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAM 133 (178)
T ss_pred CCCEEECCCCCcEEeHHHHh
Confidence 44568888888888766554
No 89
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=64.86 E-value=1.8 Score=35.12 Aligned_cols=29 Identities=21% Similarity=0.417 Sum_probs=22.3
Q ss_pred ccCCCCCCCcCCccc-ccCCCchHHHHHHh
Q 044181 83 QLPIKPKTHECSVCG-LEFAIGQALGGHMR 111 (178)
Q Consensus 83 ~~h~~~k~~~C~~Cg-k~F~~~~~L~~H~~ 111 (178)
+.|.-++.|.|.+|| +.+.-.....+|-.
T Consensus 367 klhgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 367 KLHGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred HhcCCCcceeeeecccccccchHHHHhhhh
Confidence 456667889999999 77777777777743
No 90
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=64.28 E-value=1.6 Score=31.26 Aligned_cols=18 Identities=28% Similarity=0.807 Sum_probs=14.0
Q ss_pred ceecCcCCCcCCChHHHH
Q 044181 44 AFECKTCNRQFPSFQALG 61 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~ 61 (178)
.++|+.||++|.....+.
T Consensus 28 ~~~c~~c~~~f~~~e~~~ 45 (154)
T PRK00464 28 RRECLACGKRFTTFERVE 45 (154)
T ss_pred eeeccccCCcceEeEecc
Confidence 489999999998765543
No 91
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=63.89 E-value=5.1 Score=32.50 Aligned_cols=98 Identities=15% Similarity=0.157 Sum_probs=58.0
Q ss_pred cccchhhhH---HHhcCCCCCCcc----cccccCCCCCc----eecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCC---
Q 044181 13 HSLNMANCL---MFLSHGRGFNAV----NGVNTMAAGRA----FECKTCNRQFPSFQALGGHRASHKKPRFTDGNGG--- 78 (178)
Q Consensus 13 ~~~~C~~C~---~~f~~~~~l~~~----~h~~~H~~~k~----~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~--- 78 (178)
..+-|.+|- +.|...-.|-.+ .|......+.- -.|..|...|-....|..|++.... .|..|++
T Consensus 178 ~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE--~ChICD~v~p 255 (493)
T COG5236 178 GFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHE--ACHICDMVGP 255 (493)
T ss_pred CcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccceecChHHHHHHHHhhhh--hhhhhhccCc
Confidence 566777775 445444332212 34433332322 3599999999999999999985332 2555554
Q ss_pred cccc--------ccCCCCCCCcCCc--c--c--ccCCCchHHHHHHhh
Q 044181 79 VDMQ--------QLPIKPKTHECSV--C--G--LEFAIGQALGGHMRR 112 (178)
Q Consensus 79 ~~h~--------~~h~~~k~~~C~~--C--g--k~F~~~~~L~~H~~~ 112 (178)
..|| ..|-..-.|.|.. | | ..|.....|..|..-
T Consensus 256 ~~~QYFK~Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~~~~el~~h~~~ 303 (493)
T COG5236 256 IRYQYFKSYEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHTELLEHLTR 303 (493)
T ss_pred cchhhhhCHHHHHHHhhcCceEEEEEEEecCcEEEeccHHHHHHHHHH
Confidence 2222 2233444576754 4 3 478888899999753
No 92
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=58.74 E-value=1.7 Score=38.51 Aligned_cols=25 Identities=24% Similarity=0.701 Sum_probs=23.2
Q ss_pred ceecCcCCCcCCChHHHHHHHHhcC
Q 044181 44 AFECKTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~h~ 68 (178)
-|.|.+|+|.|....+++.||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4999999999999999999999995
No 93
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=57.98 E-value=2.3 Score=22.58 Aligned_cols=34 Identities=24% Similarity=0.492 Sum_probs=21.8
Q ss_pred cchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCC
Q 044181 15 LNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFP 55 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~ 55 (178)
..|+.|+..|.-... ++-.+.+..+|..|+..|.
T Consensus 3 i~CP~C~~~f~v~~~-------~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDD-------KLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHH-------HcccCCcEEECCCCCcEee
Confidence 368888877753321 2334556788999988774
No 94
>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=57.86 E-value=11 Score=18.33 Aligned_cols=19 Identities=21% Similarity=0.538 Sum_probs=14.3
Q ss_pred ecCcCCCcCCChHHHHHHHH
Q 044181 46 ECKTCNRQFPSFQALGGHRA 65 (178)
Q Consensus 46 ~C~~C~k~f~~~~~L~~H~~ 65 (178)
.|++|++.+ ....+..|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 589999988 5567777765
No 95
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=56.45 E-value=6.4 Score=30.50 Aligned_cols=55 Identities=20% Similarity=0.400 Sum_probs=37.3
Q ss_pred eecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCCcCCcccccCCCchHHHHHHhhhccCCCCC
Q 044181 45 FECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALGGHMRRHRAAGLHG 120 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~~~~~ 120 (178)
|.|..||-.-.-+ .+.+|+-.-. + .-|+|-.||+.|-. .....|...-+...-|+
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCr------------------n-~~fSCIDC~k~F~~-~sYknH~kCITEaQKYg 58 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCR------------------N-AYFSCIDCGKTFER-VSYKNHTKCITEAQKYG 58 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhcc------------------C-CeeEEeeccccccc-chhhhhhhhcchHHHhh
Confidence 7899998776544 5666765332 2 56899999999987 66678877555433333
No 96
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=55.05 E-value=3.3 Score=33.54 Aligned_cols=68 Identities=21% Similarity=0.435 Sum_probs=41.2
Q ss_pred CCceecCc--CCCcCCChHHHHHHHHh-cCCCCCCCCCCCccccccCCCCCCCcCCcccccCCCchHHHHH
Q 044181 42 GRAFECKT--CNRQFPSFQALGGHRAS-HKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALGGH 109 (178)
Q Consensus 42 ~k~~~C~~--C~k~f~~~~~L~~H~~~-h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~H 109 (178)
.++|+|.+ |.+.++....|+.|... |......+.---+-|+-.....|+|.|++|.+.+...-.|.-|
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCce
Confidence 57899976 88888877777766543 2111101100113455555678999999999887655444433
No 97
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=54.53 E-value=2.7 Score=37.25 Aligned_cols=14 Identities=36% Similarity=0.928 Sum_probs=7.3
Q ss_pred cCcCCCcCCChHHH
Q 044181 47 CKTCNRQFPSFQAL 60 (178)
Q Consensus 47 C~~C~k~f~~~~~L 60 (178)
|.-||-.|+-...|
T Consensus 126 CT~CGPRfTIi~al 139 (750)
T COG0068 126 CTNCGPRFTIIEAL 139 (750)
T ss_pred cCCCCcceeeeccC
Confidence 55555555544444
No 98
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=54.06 E-value=4.3 Score=22.54 Aligned_cols=10 Identities=10% Similarity=-0.124 Sum_probs=5.7
Q ss_pred cchhhhHHHh
Q 044181 15 LNMANCLMFL 24 (178)
Q Consensus 15 ~~C~~C~~~f 24 (178)
|.|..||..|
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 5566666444
No 99
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=53.47 E-value=4.4 Score=28.86 Aligned_cols=8 Identities=25% Similarity=1.165 Sum_probs=4.2
Q ss_pred ceecCcCC
Q 044181 44 AFECKTCN 51 (178)
Q Consensus 44 ~~~C~~C~ 51 (178)
.|.|..|+
T Consensus 140 ~YrC~~C~ 147 (156)
T COG3091 140 VYRCGKCG 147 (156)
T ss_pred eEEeccCC
Confidence 45555554
No 100
>PRK05580 primosome assembly protein PriA; Validated
Probab=53.09 E-value=13 Score=33.19 Aligned_cols=12 Identities=33% Similarity=0.891 Sum_probs=8.0
Q ss_pred CCCCcCCccccc
Q 044181 88 PKTHECSVCGLE 99 (178)
Q Consensus 88 ~k~~~C~~Cgk~ 99 (178)
..|..|+.||..
T Consensus 419 ~~~~~Cp~Cg~~ 430 (679)
T PRK05580 419 PIPKACPECGST 430 (679)
T ss_pred CCCCCCCCCcCC
Confidence 456778888653
No 101
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=52.70 E-value=7.1 Score=27.11 Aligned_cols=15 Identities=40% Similarity=0.957 Sum_probs=13.0
Q ss_pred CCcCCcccccCCCch
Q 044181 90 THECSVCGLEFAIGQ 104 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~ 104 (178)
|++|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 689999999998765
No 102
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=52.17 E-value=3.8 Score=34.07 Aligned_cols=15 Identities=13% Similarity=0.062 Sum_probs=7.5
Q ss_pred cccchhhhHHHhcCC
Q 044181 13 HSLNMANCLMFLSHG 27 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~ 27 (178)
..|.|+.|++.|+..
T Consensus 127 ~~Y~Cp~C~kkyt~L 141 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSL 141 (436)
T ss_pred ccccCCccccchhhh
Confidence 445555555555433
No 103
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=51.78 E-value=5.8 Score=21.46 Aligned_cols=12 Identities=17% Similarity=0.814 Sum_probs=9.5
Q ss_pred ceecCcCCCcCC
Q 044181 44 AFECKTCNRQFP 55 (178)
Q Consensus 44 ~~~C~~C~k~f~ 55 (178)
-|.|..|+..|.
T Consensus 28 fy~C~~C~~~w~ 39 (40)
T smart00440 28 FYVCTKCGHRWR 39 (40)
T ss_pred EEEeCCCCCEeC
Confidence 489999998764
No 104
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.72 E-value=17 Score=28.85 Aligned_cols=61 Identities=18% Similarity=0.287 Sum_probs=41.1
Q ss_pred CCCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCCcCCcccc----cCCCchHHHHHHhhh
Q 044181 41 AGRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTHECSVCGL----EFAIGQALGGHMRRH 113 (178)
Q Consensus 41 ~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk----~F~~~~~L~~H~~~H 113 (178)
+.-||.|.+|.+.|..+ +++-.+.++|..|.++.+++ ++ .|-+|++ .|.....|..-+..+
T Consensus 238 ~~~Pf~c~icr~~f~~p------Vvt~c~h~fc~~ca~~~~qk---~~---~c~vC~~~t~g~~~~akeL~~~L~~k 302 (313)
T KOG1813|consen 238 ELLPFKCFICRKYFYRP------VVTKCGHYFCEVCALKPYQK---GE---KCYVCSQQTHGSFNVAKELLVSLKLK 302 (313)
T ss_pred ccCCccccccccccccc------hhhcCCceeehhhhcccccc---CC---cceecccccccccchHHHHHHHHHhh
Confidence 34589999999987643 56677888999998765544 23 4556665 466666666655543
No 105
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.71 E-value=4.1 Score=31.13 Aligned_cols=40 Identities=10% Similarity=0.236 Sum_probs=27.8
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCC----------c-----eecCcCCCc
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGR----------A-----FECKTCNRQ 53 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k----------~-----~~C~~C~k~ 53 (178)
++.+.|++|+..|.....+. .-.|+-.|+- | ..|+.|+.+
T Consensus 17 kk~ieCPvC~tkFkkeev~t--gsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKT--GSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred hceeccCcccchhhhhheec--cceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 58899999999998876664 3444444332 2 379999853
No 106
>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=50.54 E-value=11 Score=28.66 Aligned_cols=28 Identities=14% Similarity=0.355 Sum_probs=22.1
Q ss_pred CCCCceecCcCCCcCCChHHHHHHHHhc
Q 044181 40 AAGRAFECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 40 ~~~k~~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
.++..|.|.+|+|.|.-...+..|+..-
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nK 100 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNK 100 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhc
Confidence 3556799999999999999999998754
No 107
>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=50.34 E-value=15 Score=24.40 Aligned_cols=24 Identities=17% Similarity=0.387 Sum_probs=21.8
Q ss_pred eec----CcCCCcCCChHHHHHHHHhcC
Q 044181 45 FEC----KTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 45 ~~C----~~C~k~f~~~~~L~~H~~~h~ 68 (178)
|.| ..|+..+.+...+..|.+.+.
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 899 999999999999999988654
No 108
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=50.17 E-value=1.7 Score=33.38 Aligned_cols=49 Identities=18% Similarity=0.295 Sum_probs=33.9
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHH-HHhc
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGH-RASH 67 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H-~~~h 67 (178)
+++. |=.|+.-|....-|+ .|...|.|+|-+|.|..-+--.|..| +.+|
T Consensus 9 ~kpw-cwycnrefddekili------qhqkakhfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILI------QHQKAKHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred CCce-eeecccccchhhhhh------hhhhhccceeeeehhhhccCCCceeehhhhh
Confidence 3443 668888887776664 35566789999998776666667766 4555
No 109
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=50.14 E-value=5.2 Score=23.71 Aligned_cols=8 Identities=38% Similarity=1.161 Sum_probs=4.0
Q ss_pred eecCcCCC
Q 044181 45 FECKTCNR 52 (178)
Q Consensus 45 ~~C~~C~k 52 (178)
|.|+.||.
T Consensus 26 F~CPnCG~ 33 (59)
T PRK14890 26 FLCPNCGE 33 (59)
T ss_pred eeCCCCCC
Confidence 45555554
No 110
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=48.73 E-value=9.9 Score=24.89 Aligned_cols=40 Identities=15% Similarity=0.238 Sum_probs=18.1
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChH
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQ 58 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~ 58 (178)
.++-.|+.||+.+.. . +..+-...--|.|..|-+.|...-
T Consensus 12 ~ke~~CalCG~tWg~--~-----y~Ev~G~rLfFCCd~ca~EF~nmi 51 (105)
T PF11494_consen 12 TKEMGCALCGATWGD--Y-----YEEVDGERLFFCCDDCAKEFKNMI 51 (105)
T ss_dssp SGGGS-SS---S-----S-----S-B-TT--BSSS--SSSS-TTS-T
T ss_pred cccccccccCCcHHH--H-----HHhhcCCEEEEEcHHHHHHHHHHH
Confidence 788899999998862 2 223444344578899999998753
No 111
>PHA02998 RNA polymerase subunit; Provisional
Probab=48.15 E-value=8.4 Score=28.23 Aligned_cols=39 Identities=21% Similarity=0.355 Sum_probs=23.8
Q ss_pred cccchhhhHHHhcCCCCCCcccccccCCCCCc----eecCcCCCcCCCh
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGVNTMAAGRA----FECKTCNRQFPSF 57 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~----~~C~~C~k~f~~~ 57 (178)
-...|+.|+. ....+ ..+++.+++.| |+|..||+.|.-+
T Consensus 142 t~v~CPkCg~---~~A~f---~qlQTRSADEPmT~FYkC~~CG~~wkpp 184 (195)
T PHA02998 142 YNTPCPNCKS---KNTTP---MMIQTRAADEPPLVRHACRDCKKHFKPP 184 (195)
T ss_pred cCCCCCCCCC---CceEE---EEEeeccCCCCceEEEEcCCCCCccCCc
Confidence 3568888882 22222 23345544444 7899999988754
No 112
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=47.72 E-value=11 Score=26.38 Aligned_cols=25 Identities=24% Similarity=0.311 Sum_probs=20.3
Q ss_pred CcCCcccccCCCchHHHHHHhhhccCCC
Q 044181 91 HECSVCGLEFAIGQALGGHMRRHRAAGL 118 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~~H~~~~~ 118 (178)
..|-++||.|. +|++|..+|.|--|
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCH
Confidence 36888999994 69999999987643
No 113
>PRK04023 DNA polymerase II large subunit; Validated
Probab=47.72 E-value=12 Score=34.68 Aligned_cols=12 Identities=42% Similarity=0.855 Sum_probs=8.3
Q ss_pred CCCcCCcccccC
Q 044181 89 KTHECSVCGLEF 100 (178)
Q Consensus 89 k~~~C~~Cgk~F 100 (178)
.++.|+.||..-
T Consensus 662 ~~y~CPKCG~El 673 (1121)
T PRK04023 662 EEDECEKCGREP 673 (1121)
T ss_pred CCCcCCCCCCCC
Confidence 357788888543
No 114
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=47.59 E-value=4 Score=30.44 Aligned_cols=46 Identities=26% Similarity=0.434 Sum_probs=30.2
Q ss_pred CCceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCCCccccccCCCCCCCcCCccccc
Q 044181 42 GRAFECKTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQLPIKPKTHECSVCGLE 99 (178)
Q Consensus 42 ~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~ 99 (178)
.-||.|.+|.+.|.++ +.+.-|..+|..|..+..+ +.-+|-+||+.
T Consensus 194 ~IPF~C~iCKkdy~sp------vvt~CGH~FC~~Cai~~y~------kg~~C~~Cgk~ 239 (259)
T COG5152 194 KIPFLCGICKKDYESP------VVTECGHSFCSLCAIRKYQ------KGDECGVCGKA 239 (259)
T ss_pred CCceeehhchhhccch------hhhhcchhHHHHHHHHHhc------cCCcceecchh
Confidence 4589999999988764 3444566677777653322 23467888864
No 115
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=47.26 E-value=11 Score=20.29 Aligned_cols=32 Identities=16% Similarity=0.453 Sum_probs=16.6
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCc
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQ 53 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~ 53 (178)
+..|..|+-.+..- ..+..+.+.+.|.+|+..
T Consensus 2 p~rC~~C~aylNp~--------~~~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 2 PVRCRRCRAYLNPF--------CQFDDGGKTWICNFCGTK 33 (40)
T ss_dssp S-B-TTT--BS-TT--------SEEETTTTEEEETTT--E
T ss_pred ccccCCCCCEECCc--------ceEcCCCCEEECcCCCCc
Confidence 56777777544322 334456778999999864
No 116
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=47.05 E-value=17 Score=20.37 Aligned_cols=13 Identities=38% Similarity=0.756 Sum_probs=9.8
Q ss_pred CCcCCcccccCCC
Q 044181 90 THECSVCGLEFAI 102 (178)
Q Consensus 90 ~~~C~~Cgk~F~~ 102 (178)
-|.|+.||..+..
T Consensus 20 ~~vC~~Cg~~~~~ 32 (52)
T smart00661 20 RFVCRKCGYEEPI 32 (52)
T ss_pred EEECCcCCCeEEC
Confidence 6889999976543
No 117
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=46.96 E-value=29 Score=24.06 Aligned_cols=16 Identities=25% Similarity=0.735 Sum_probs=13.2
Q ss_pred CCCCCcCCcccccCCC
Q 044181 87 KPKTHECSVCGLEFAI 102 (178)
Q Consensus 87 ~~k~~~C~~Cgk~F~~ 102 (178)
|..-|.|..|++.|..
T Consensus 50 ~~qRyrC~~C~~tf~~ 65 (129)
T COG3677 50 GHQRYKCKSCGSTFTV 65 (129)
T ss_pred cccccccCCcCcceee
Confidence 4667999999999963
No 118
>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=46.74 E-value=9.9 Score=21.75 Aligned_cols=36 Identities=11% Similarity=0.226 Sum_probs=20.5
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCC------CCceecCcCCC
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAA------GRAFECKTCNR 52 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~------~k~~~C~~C~k 52 (178)
.|.|..||-.+.-...-. ...+-.| ...|.|++|+-
T Consensus 1 ~y~C~~CgyiYd~~~Gd~---~~~i~pGt~f~~Lp~~w~CP~C~a 42 (50)
T cd00730 1 KYECRICGYIYDPAEGDP---DEGIPPGTPFEDLPDDWVCPVCGA 42 (50)
T ss_pred CcCCCCCCeEECCCCCCc---ccCcCCCCCHhHCCCCCCCCCCCC
Confidence 378999998776543221 1122211 22578999985
No 119
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=46.60 E-value=14 Score=30.33 Aligned_cols=69 Identities=25% Similarity=0.418 Sum_probs=43.9
Q ss_pred ceecCcCCCcCCChHHHHHHHHh--cC---CCCCCCCCCC------cccc-------c-cCCCCCCCcCCcccccCCCch
Q 044181 44 AFECKTCNRQFPSFQALGGHRAS--HK---KPRFTDGNGG------VDMQ-------Q-LPIKPKTHECSVCGLEFAIGQ 104 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~--h~---~~~~~~~c~~------~~h~-------~-~h~~~k~~~C~~Cgk~F~~~~ 104 (178)
-|+|..|...|.....-+.|.++ |. +.+.-..-+. ..++ . .-.++-++.|..|.|.|....
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 47899999999988777777764 31 1110000000 0000 0 123456889999999999999
Q ss_pred HHHHHHhh
Q 044181 105 ALGGHMRR 112 (178)
Q Consensus 105 ~L~~H~~~ 112 (178)
+...|+..
T Consensus 83 a~~~hl~S 90 (390)
T KOG2785|consen 83 AHENHLKS 90 (390)
T ss_pred hHHHHHHH
Confidence 99999864
No 120
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=46.46 E-value=13 Score=21.34 Aligned_cols=31 Identities=13% Similarity=0.384 Sum_probs=21.8
Q ss_pred cccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCc
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQ 53 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~ 53 (178)
+++.|..|++.+.....+. +-.-+|+-|+..
T Consensus 3 ~eiRC~~CnklLa~~g~~~----------~leIKCpRC~ti 33 (51)
T PF10122_consen 3 KEIRCGHCNKLLAKAGEVI----------ELEIKCPRCKTI 33 (51)
T ss_pred cceeccchhHHHhhhcCcc----------EEEEECCCCCcc
Confidence 5789999999988754441 224578888864
No 121
>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=45.98 E-value=10 Score=20.09 Aligned_cols=14 Identities=21% Similarity=0.909 Sum_probs=10.6
Q ss_pred ceecCcCCCcCCCh
Q 044181 44 AFECKTCNRQFPSF 57 (178)
Q Consensus 44 ~~~C~~C~k~f~~~ 57 (178)
.|+|..||..|...
T Consensus 5 ~y~C~~Cg~~fe~~ 18 (41)
T smart00834 5 EYRCEDCGHTFEVL 18 (41)
T ss_pred EEEcCCCCCEEEEE
Confidence 37899999887643
No 122
>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=44.09 E-value=7.8 Score=29.37 Aligned_cols=28 Identities=18% Similarity=0.400 Sum_probs=21.2
Q ss_pred CCCCCcCCcccccCCCchHHHHHHhhhc
Q 044181 87 KPKTHECSVCGLEFAIGQALGGHMRRHR 114 (178)
Q Consensus 87 ~~k~~~C~~Cgk~F~~~~~L~~H~~~H~ 114 (178)
.+.-|.|..|+|.|.-.....+|+..-+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcC
Confidence 4456999999999999999999987543
No 123
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=43.92 E-value=7.1 Score=27.27 Aligned_cols=38 Identities=13% Similarity=0.236 Sum_probs=17.3
Q ss_pred hhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCC
Q 044181 18 ANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPS 56 (178)
Q Consensus 18 ~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~ 56 (178)
..|...+.....+. ..-+.+......+.|..||..|..
T Consensus 45 ~fafe~l~~gt~~e-ga~L~i~~~p~~~~C~~CG~~~~~ 82 (135)
T PRK03824 45 EFALNELLKGTILE-GAEIIFEEEEAVLKCRNCGNEWSL 82 (135)
T ss_pred HHHHHHHHcCCccc-CCEEEEEecceEEECCCCCCEEec
Confidence 34444444444332 112233444445666666655543
No 124
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=42.96 E-value=12 Score=30.84 Aligned_cols=68 Identities=21% Similarity=0.260 Sum_probs=46.2
Q ss_pred ceecCcCCCcCCChHHHHHHHHhcCCCCC------CCCCCCccccccCCCCCCCcCCccc---ccCCCchHHHHHHhh
Q 044181 44 AFECKTCNRQFPSFQALGGHRASHKKPRF------TDGNGGVDMQQLPIKPKTHECSVCG---LEFAIGQALGGHMRR 112 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~------~~~c~~~~h~~~h~~~k~~~C~~Cg---k~F~~~~~L~~H~~~ 112 (178)
|-.|-.|++.|.....-..||..+.+-+. -+.-++...+..- -..-|.|-.|+ +.|.+..+.+.||.-
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeK-V~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEK-VGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHH-hccCceEEEeccccCcccccHHHHHHHhh
Confidence 56799999999999888899988776432 1222221111100 02357788887 999999999999974
No 125
>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=42.52 E-value=10 Score=24.99 Aligned_cols=21 Identities=29% Similarity=0.430 Sum_probs=16.0
Q ss_pred cccccCCCCCCCcCCcccccCC
Q 044181 80 DMQQLPIKPKTHECSVCGLEFA 101 (178)
Q Consensus 80 ~h~~~h~~~k~~~C~~Cgk~F~ 101 (178)
..+..+.| +++.|.+||..|.
T Consensus 70 ~W~~l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 70 IWMWLEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EEEEEeCC-CceeCCCCCcEEE
Confidence 33455666 7999999999885
No 126
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.18 E-value=21 Score=24.13 Aligned_cols=48 Identities=13% Similarity=0.146 Sum_probs=25.2
Q ss_pred chhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhc
Q 044181 16 NMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 16 ~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
.|-.|++.|....... ...-+....|.|+.|...|-....+-.|...|
T Consensus 57 ~C~~C~~~f~~~~~~~----~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSP----FDELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cccCcCCCCCCccccc----ccccccccceeCCCCCCccccccchhhhhhcc
Confidence 4666666665442211 00012233577777777776666666665554
No 127
>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=41.84 E-value=15 Score=17.85 Aligned_cols=10 Identities=30% Similarity=0.806 Sum_probs=7.6
Q ss_pred ecCcCCCcCC
Q 044181 46 ECKTCNRQFP 55 (178)
Q Consensus 46 ~C~~C~k~f~ 55 (178)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 4888888874
No 128
>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=41.13 E-value=9.5 Score=21.52 Aligned_cols=37 Identities=11% Similarity=0.220 Sum_probs=18.8
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCC------CCceecCcCCCc
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAA------GRAFECKTCNRQ 53 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~------~k~~~C~~C~k~ 53 (178)
.|.|..||-++.-...-. ...+-.| ...|.|+.|+-.
T Consensus 1 ky~C~~CgyvYd~~~Gd~---~~~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 1 KYQCPVCGYVYDPEKGDP---ENGIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EEEETTTSBEEETTTBBG---GGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred CcCCCCCCEEEcCCcCCc---ccCcCCCCCHHHCCCCCcCcCCCCc
Confidence 378888887776554321 1122221 234889988753
No 129
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=40.86 E-value=5.3 Score=24.76 Aligned_cols=42 Identities=12% Similarity=0.371 Sum_probs=24.5
Q ss_pred cchhhhHHHhcCCCCCCcccccccCCCCCceecC--cCCCcCCChHHH
Q 044181 15 LNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECK--TCNRQFPSFQAL 60 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~--~C~k~f~~~~~L 60 (178)
+.|+.||....-... +.+...+.++-+.|. .||..|.....+
T Consensus 2 m~CP~Cg~~a~irtS----r~~s~~~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 2 FHCPLCQHAAHARTS----RYITDTTKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred ccCCCCCCccEEEEC----hhcChhhheeeeecCCCCCCCEEEEEEEE
Confidence 468888844411111 111223567778898 899998765443
No 130
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.63 E-value=12 Score=25.15 Aligned_cols=32 Identities=3% Similarity=-0.050 Sum_probs=20.8
Q ss_pred chhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHH
Q 044181 16 NMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALG 61 (178)
Q Consensus 16 ~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~ 61 (178)
-|+.||+.| ..| ...|-.|++||++|. .+.|.
T Consensus 11 idPetg~KF---YDL----------NrdPiVsPytG~s~P-~s~fe 42 (129)
T COG4530 11 IDPETGKKF---YDL----------NRDPIVSPYTGKSYP-RSYFE 42 (129)
T ss_pred cCccccchh---hcc----------CCCccccCcccccch-HHHHH
Confidence 366677666 334 245888999999994 34443
No 131
>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=38.73 E-value=5 Score=20.03 Aligned_cols=20 Identities=25% Similarity=0.596 Sum_probs=12.3
Q ss_pred CcCCcccccCCCchHHHHHHh
Q 044181 91 HECSVCGLEFAIGQALGGHMR 111 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L~~H~~ 111 (178)
|.|-.|++.| .....+.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 5688899999 4555556654
No 132
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=38.65 E-value=28 Score=18.88 Aligned_cols=24 Identities=25% Similarity=0.613 Sum_probs=16.7
Q ss_pred CcCCcccccCCCc--hHHHHHHhhhc
Q 044181 91 HECSVCGLEFAIG--QALGGHMRRHR 114 (178)
Q Consensus 91 ~~C~~Cgk~F~~~--~~L~~H~~~H~ 114 (178)
-+|+.||..|... ..-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 5899999877644 34555777664
No 133
>PF15269 zf-C2H2_7: Zinc-finger
Probab=38.60 E-value=27 Score=19.47 Aligned_cols=23 Identities=17% Similarity=0.255 Sum_probs=18.7
Q ss_pred eecCcCCCcCCChHHHHHHHHhc
Q 044181 45 FECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 45 ~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
|+|-+|.-+...++.|-.||+.-
T Consensus 21 ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred ceeecCCcccchHHHHHHHHHHH
Confidence 67888988888888888888743
No 134
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=38.41 E-value=20 Score=24.61 Aligned_cols=26 Identities=35% Similarity=0.589 Sum_probs=22.9
Q ss_pred CCCceecCcCCCcCCChHHHHHHHHh
Q 044181 41 AGRAFECKTCNRQFPSFQALGGHRAS 66 (178)
Q Consensus 41 ~~k~~~C~~C~k~f~~~~~L~~H~~~ 66 (178)
|...|-|-.|.+-|.....|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 45569999999999999999999875
No 135
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=37.25 E-value=18 Score=23.98 Aligned_cols=16 Identities=38% Similarity=0.872 Sum_probs=13.4
Q ss_pred CCcCCcccccCCCchH
Q 044181 90 THECSVCGLEFAIGQA 105 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~~ 105 (178)
|+.|..||..|...+.
T Consensus 2 pH~CtrCG~vf~~g~~ 17 (112)
T COG3364 2 PHQCTRCGEVFDDGSE 17 (112)
T ss_pred CceecccccccccccH
Confidence 6889999999988644
No 136
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.22 E-value=6.4 Score=29.57 Aligned_cols=47 Identities=13% Similarity=0.311 Sum_probs=23.6
Q ss_pred chhhhHHHhcCCCCCCcccccc-cC---------CCCCceec--CcCCCcCCChHHHHHHH
Q 044181 16 NMANCLMFLSHGRGFNAVNGVN-TM---------AAGRAFEC--KTCNRQFPSFQALGGHR 64 (178)
Q Consensus 16 ~C~~C~~~f~~~~~l~~~~h~~-~H---------~~~k~~~C--~~C~k~f~~~~~L~~H~ 64 (178)
.|.+|.++|.++.-|. .|+. .| .|.--|.| +.|+..|.....-..|+
T Consensus 108 sCs~C~r~~Pt~hLLd--~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~ 166 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLD--AHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHM 166 (253)
T ss_pred hhHHHHHhCCchhhhh--HHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHH
Confidence 5666666666555443 3321 11 23334555 33666666555555554
No 137
>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=37.21 E-value=16 Score=20.55 Aligned_cols=14 Identities=21% Similarity=0.933 Sum_probs=11.0
Q ss_pred ceecCcCCCcCCCh
Q 044181 44 AFECKTCNRQFPSF 57 (178)
Q Consensus 44 ~~~C~~C~k~f~~~ 57 (178)
.|+|..||..|...
T Consensus 5 ey~C~~Cg~~fe~~ 18 (52)
T TIGR02605 5 EYRCTACGHRFEVL 18 (52)
T ss_pred EEEeCCCCCEeEEE
Confidence 38899999988743
No 138
>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=37.02 E-value=19 Score=17.20 Aligned_cols=10 Identities=30% Similarity=0.830 Sum_probs=6.6
Q ss_pred CceecCcCCC
Q 044181 43 RAFECKTCNR 52 (178)
Q Consensus 43 k~~~C~~C~k 52 (178)
.+|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 3677777763
No 139
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=36.78 E-value=12 Score=20.06 Aligned_cols=12 Identities=33% Similarity=1.029 Sum_probs=6.4
Q ss_pred ceecCcCCCcCC
Q 044181 44 AFECKTCNRQFP 55 (178)
Q Consensus 44 ~~~C~~C~k~f~ 55 (178)
||+|..|++.|-
T Consensus 12 ~f~C~~C~~~FC 23 (39)
T smart00154 12 GFKCRHCGNLFC 23 (39)
T ss_pred CeECCccCCccc
Confidence 455555555554
No 140
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=36.09 E-value=24 Score=29.73 Aligned_cols=29 Identities=21% Similarity=0.423 Sum_probs=24.1
Q ss_pred ccCCCCCCCcCCccc-ccCCCchHHHHHHh
Q 044181 83 QLPIKPKTHECSVCG-LEFAIGQALGGHMR 111 (178)
Q Consensus 83 ~~h~~~k~~~C~~Cg-k~F~~~~~L~~H~~ 111 (178)
+.|.-.+.|.|.+|| +++.-..+..+|-.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 456667889999999 89988899999954
No 141
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=35.47 E-value=25 Score=30.59 Aligned_cols=30 Identities=27% Similarity=0.508 Sum_probs=25.5
Q ss_pred CCCCcCCcccccCCCchHHHHHHhhhccCC
Q 044181 88 PKTHECSVCGLEFAIGQALGGHMRRHRAAG 117 (178)
Q Consensus 88 ~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~~ 117 (178)
..|-+|..||..|-.......||-+|....
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~dwh 445 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDDWH 445 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhhhh
Confidence 467899999999999999989888887554
No 142
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=34.75 E-value=18 Score=20.57 Aligned_cols=18 Identities=22% Similarity=0.621 Sum_probs=14.4
Q ss_pred CCceecCcCCCcCCChHH
Q 044181 42 GRAFECKTCNRQFPSFQA 59 (178)
Q Consensus 42 ~k~~~C~~C~k~f~~~~~ 59 (178)
++.+.|..||..|.....
T Consensus 2 Dk~l~C~dCg~~FvfTa~ 19 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAG 19 (49)
T ss_pred CeeEEcccCCCeEEEehh
Confidence 578899999999876543
No 143
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=32.91 E-value=13 Score=29.01 Aligned_cols=29 Identities=31% Similarity=0.457 Sum_probs=22.3
Q ss_pred CCCCCCcCCcccccCCCchHHHHHHhhhc
Q 044181 86 IKPKTHECSVCGLEFAIGQALGGHMRRHR 114 (178)
Q Consensus 86 ~~~k~~~C~~Cgk~F~~~~~L~~H~~~H~ 114 (178)
...+++.|+.||........|..-.|+|.
T Consensus 205 ~k~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 205 EKGKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred ccCCCCCCCCCCCcccccccceeeeecch
Confidence 34589999999988877777776666664
No 144
>COG4640 Predicted membrane protein [Function unknown]
Probab=32.58 E-value=37 Score=28.22 Aligned_cols=31 Identities=23% Similarity=0.457 Sum_probs=21.5
Q ss_pred CCCCCCCccccccCCCCCCCcCCcccccCCCchHHHH
Q 044181 72 FTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQALGG 108 (178)
Q Consensus 72 ~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~~L~~ 108 (178)
+|..|+.. ..|-.+.|..||..|.....+..
T Consensus 3 fC~kcG~q------k~Ed~~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 3 FCPKCGSQ------KAEDDVQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred cccccccc------cccccccccccCCcCCchhhhhh
Confidence 56666531 23455679999999988877665
No 145
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=32.39 E-value=20 Score=23.23 Aligned_cols=16 Identities=25% Similarity=0.393 Sum_probs=12.3
Q ss_pred CCCcCCcccccCCCch
Q 044181 89 KTHECSVCGLEFAIGQ 104 (178)
Q Consensus 89 k~~~C~~Cgk~F~~~~ 104 (178)
-.|.|..|++.|+-..
T Consensus 53 GIW~C~~C~~~~AGGA 68 (90)
T PTZ00255 53 GIWRCKGCKKTVAGGA 68 (90)
T ss_pred EEEEcCCCCCEEeCCc
Confidence 3589999999987543
No 146
>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=31.94 E-value=17 Score=23.58 Aligned_cols=15 Identities=40% Similarity=0.833 Sum_probs=11.9
Q ss_pred CCcCCcccccCCCch
Q 044181 90 THECSVCGLEFAIGQ 104 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~ 104 (178)
.|.|..|++.|+-..
T Consensus 53 IW~C~~C~~~~AGGA 67 (91)
T TIGR00280 53 IWTCRKCGAKFAGGA 67 (91)
T ss_pred EEEcCCCCCEEeCCc
Confidence 589999999987543
No 147
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=31.07 E-value=33 Score=29.96 Aligned_cols=28 Identities=21% Similarity=0.445 Sum_probs=23.6
Q ss_pred CCCceecCcCCCcCCChHHHHHHHHhcC
Q 044181 41 AGRAFECKTCNRQFPSFQALGGHRASHK 68 (178)
Q Consensus 41 ~~k~~~C~~C~k~f~~~~~L~~H~~~h~ 68 (178)
..+|-.|..||..|........||..|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 4567899999999999988888887773
No 148
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=31.00 E-value=35 Score=28.84 Aligned_cols=29 Identities=14% Similarity=0.359 Sum_probs=23.7
Q ss_pred ccCCCCCceecCcCC-CcCCChHHHHHHHH
Q 044181 37 NTMAAGRAFECKTCN-RQFPSFQALGGHRA 65 (178)
Q Consensus 37 ~~H~~~k~~~C~~C~-k~f~~~~~L~~H~~ 65 (178)
+-|--+..|.|.+|| +++.-...+.+|-.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 456677889999999 88888888888864
No 149
>PLN02294 cytochrome c oxidase subunit Vb
Probab=31.00 E-value=23 Score=25.82 Aligned_cols=21 Identities=33% Similarity=0.441 Sum_probs=15.4
Q ss_pred cccccCCCCCCCcCCcccccCC
Q 044181 80 DMQQLPIKPKTHECSVCGLEFA 101 (178)
Q Consensus 80 ~h~~~h~~~k~~~C~~Cgk~F~ 101 (178)
..+..+.| +|+.|.+||..|.
T Consensus 132 ~Wf~L~kG-kp~RCpeCG~~fk 152 (174)
T PLN02294 132 VWFWLEKG-KSFECPVCTQYFE 152 (174)
T ss_pred EEEEecCC-CceeCCCCCCEEE
Confidence 33445554 7999999999885
No 150
>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=30.15 E-value=9.7 Score=24.69 Aligned_cols=31 Identities=23% Similarity=0.380 Sum_probs=18.1
Q ss_pred CCCCCCCCccccccCCCCCCCcCCcccccCCCc
Q 044181 71 RFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIG 103 (178)
Q Consensus 71 ~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~ 103 (178)
+.|..|++..-.+.-+|. |.|..|++.|+-.
T Consensus 36 y~Cp~Cgk~~vkR~a~GI--W~C~~C~~~~AGG 66 (90)
T PF01780_consen 36 YTCPFCGKTSVKRVATGI--WKCKKCGKKFAGG 66 (90)
T ss_dssp BEESSSSSSEEEEEETTE--EEETTTTEEEE-B
T ss_pred CcCCCCCCceeEEeeeEE--eecCCCCCEEeCC
Confidence 345555553333333343 8999999988643
No 151
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=29.79 E-value=18 Score=19.74 Aligned_cols=15 Identities=33% Similarity=0.755 Sum_probs=10.0
Q ss_pred CceecCcCCCcCCCh
Q 044181 43 RAFECKTCNRQFPSF 57 (178)
Q Consensus 43 k~~~C~~C~k~f~~~ 57 (178)
-|+.|..|++.|-..
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 489999999999754
No 152
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=29.73 E-value=32 Score=28.03 Aligned_cols=24 Identities=21% Similarity=0.468 Sum_probs=21.6
Q ss_pred ceecCcCCCcCCChHHHHHHHHhc
Q 044181 44 AFECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
.+.|-.|.+.|..+..|+.||+..
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhc
Confidence 489999999999999999999853
No 153
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=29.64 E-value=21 Score=24.17 Aligned_cols=36 Identities=14% Similarity=0.279 Sum_probs=20.8
Q ss_pred ccchhhhHHHhcCCCCCCcccccccCCCCC----ceecCcCCCcCC
Q 044181 14 SLNMANCLMFLSHGRGFNAVNGVNTMAAGR----AFECKTCNRQFP 55 (178)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k----~~~C~~C~k~f~ 55 (178)
.+.|+.||-.- ..+ --+++-.++- -|+|..||..|.
T Consensus 72 ~~~CpkCg~~e---a~y---~~~QtRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 72 KEKCPKCGNKE---AYY---WQLQTRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred cccCCCCCCce---eEE---EeeehhccCCCceEEEEecccCCEee
Confidence 46788888322 222 1123333333 389999998875
No 154
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=29.56 E-value=11 Score=24.98 Aligned_cols=15 Identities=27% Similarity=0.680 Sum_probs=7.9
Q ss_pred CCceecCcCCCcCCC
Q 044181 42 GRAFECKTCNRQFPS 56 (178)
Q Consensus 42 ~k~~~C~~C~k~f~~ 56 (178)
++.|.|+.||..-..
T Consensus 20 ~k~FtCp~Cghe~vs 34 (104)
T COG4888 20 PKTFTCPRCGHEKVS 34 (104)
T ss_pred CceEecCccCCeeee
Confidence 445666666654333
No 155
>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=29.37 E-value=20 Score=21.42 Aligned_cols=30 Identities=30% Similarity=0.477 Sum_probs=11.7
Q ss_pred cccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCC
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPS 56 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~ 56 (178)
+.-.|..|++.|+- + .+.+.|..||..|-.
T Consensus 8 ~~~~C~~C~~~F~~---~-----------~rrhhCr~CG~~vC~ 37 (69)
T PF01363_consen 8 EASNCMICGKKFSL---F-----------RRRHHCRNCGRVVCS 37 (69)
T ss_dssp G-SB-TTT--B-BS---S-----------S-EEE-TTT--EEEC
T ss_pred CCCcCcCcCCcCCC---c-----------eeeEccCCCCCEECC
Confidence 44578888888731 1 234557777765543
No 156
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=29.04 E-value=7.5 Score=27.77 Aligned_cols=16 Identities=25% Similarity=0.640 Sum_probs=8.3
Q ss_pred cchhhhHHHhcCCCCC
Q 044181 15 LNMANCLMFLSHGRGF 30 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l 30 (178)
..|..|+|-|.++..-
T Consensus 15 v~C~~c~kWFCNg~~~ 30 (152)
T PF09416_consen 15 VKCNTCNKWFCNGRGN 30 (152)
T ss_dssp EEETTTTEEEES--TT
T ss_pred eEcCCCCcEeecCCCC
Confidence 4566666666665443
No 157
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=28.89 E-value=9.4 Score=33.22 Aligned_cols=39 Identities=13% Similarity=0.138 Sum_probs=27.0
Q ss_pred cccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChH
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQ 58 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~ 58 (178)
.+-+|..|||.|.++..|..|. --.-.|..|..+|..+-
T Consensus 252 qeGkC~~CgKgFQQKf~FhsKE-------ivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 252 QEGKCNTCGKGFQQKFFFHSKE-------IVAISCSWCKQAYHLKV 290 (1004)
T ss_pred hccccchhhhhhhhheeecccc-------EEEEEehHHHHHhhcch
Confidence 4568999999999887764221 12456888988876553
No 158
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=28.47 E-value=19 Score=26.90 Aligned_cols=27 Identities=22% Similarity=0.423 Sum_probs=0.0
Q ss_pred cCCCCCCCcCCccc-ccCCCchHHHHHH
Q 044181 84 LPIKPKTHECSVCG-LEFAIGQALGGHM 110 (178)
Q Consensus 84 ~h~~~k~~~C~~Cg-k~F~~~~~L~~H~ 110 (178)
.|.-.+.|.|.+|| .+|.-..+..+|-
T Consensus 95 LhGL~~ey~CEICGN~~Y~GrkaFekHF 122 (196)
T PF11931_consen 95 LHGLGVEYKCEICGNQSYKGRKAFEKHF 122 (196)
T ss_dssp ----------------------------
T ss_pred HhCCCCeeeeEeCCCcceecHHHHHHhc
Confidence 44456789999998 4555566666774
No 159
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=28.38 E-value=21 Score=23.16 Aligned_cols=33 Identities=24% Similarity=0.436 Sum_probs=18.6
Q ss_pred CCCCCCCCCccccccCCCCCCCcCCcccccCCCch
Q 044181 70 PRFTDGNGGVDMQQLPIKPKTHECSVCGLEFAIGQ 104 (178)
Q Consensus 70 ~~~~~~c~~~~h~~~h~~~k~~~C~~Cgk~F~~~~ 104 (178)
.+.|..|++..-.+.- .-.|.|..|++.|+-..
T Consensus 36 ~y~CpfCgk~~vkR~a--~GIW~C~~C~~~~AGGA 68 (90)
T PRK03976 36 KHVCPVCGRPKVKRVG--TGIWECRKCGAKFAGGA 68 (90)
T ss_pred CccCCCCCCCceEEEE--EEEEEcCCCCCEEeCCc
Confidence 3445555442222222 23589999999887543
No 160
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=28.36 E-value=51 Score=25.65 Aligned_cols=58 Identities=16% Similarity=0.189 Sum_probs=32.1
Q ss_pred ccCCCCCceecCcCCCcCCChHHHHHHHHhc--CCCCCCCCCCCcccc---ccCCCCCCCcCCcccccCCC
Q 044181 37 NTMAAGRAFECKTCNRQFPSFQALGGHRASH--KKPRFTDGNGGVDMQ---QLPIKPKTHECSVCGLEFAI 102 (178)
Q Consensus 37 ~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h--~~~~~~~~c~~~~h~---~~h~~~k~~~C~~Cgk~F~~ 102 (178)
.+-+.++.|.|..|+..+ . +++- .....|..|.++.-- ..--|.--|.|..|+..|..
T Consensus 105 ~ip~~drqFaC~~Cd~~W------w--Rrvp~rKeVSRCr~C~~rYDPVP~dkmwG~aef~C~~C~h~F~G 167 (278)
T PF15135_consen 105 LIPSVDRQFACSSCDHMW------W--RRVPQRKEVSRCRKCRKRYDPVPCDKMWGIAEFHCPKCRHNFRG 167 (278)
T ss_pred cccccceeeeccccchHH------H--hccCcccccccccccccccCCCccccccceeeeecccccccchh
Confidence 344556889999997532 1 1222 222347777652110 00113345899999999874
No 161
>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=28.16 E-value=36 Score=18.70 Aligned_cols=16 Identities=31% Similarity=0.704 Sum_probs=12.2
Q ss_pred CcCCcccccCCCchHH
Q 044181 91 HECSVCGLEFAIGQAL 106 (178)
Q Consensus 91 ~~C~~Cgk~F~~~~~L 106 (178)
-.|..||+.|+.....
T Consensus 9 K~C~~C~rpf~WRKKW 24 (42)
T PF10013_consen 9 KICPVCGRPFTWRKKW 24 (42)
T ss_pred CcCcccCCcchHHHHH
Confidence 3699999999876544
No 162
>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=28.10 E-value=28 Score=18.31 Aligned_cols=12 Identities=33% Similarity=0.667 Sum_probs=6.1
Q ss_pred CCCcCCcccccC
Q 044181 89 KTHECSVCGLEF 100 (178)
Q Consensus 89 k~~~C~~Cgk~F 100 (178)
.+-.|+.||-.+
T Consensus 20 ~~~~Cd~cg~~L 31 (36)
T PF05191_consen 20 VEGVCDNCGGEL 31 (36)
T ss_dssp STTBCTTTTEBE
T ss_pred CCCccCCCCCee
Confidence 334566665443
No 163
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=28.04 E-value=72 Score=21.44 Aligned_cols=43 Identities=9% Similarity=0.097 Sum_probs=26.8
Q ss_pred cccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCC
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPS 56 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~ 56 (178)
.|-.-..|...+...+-+. ..-+.+..-.-.+.|..||..|..
T Consensus 40 ~pe~L~f~f~~~~~~T~~e-gA~L~I~~vp~~~~C~~Cg~~~~~ 82 (113)
T PRK12380 40 EESAVRFSFEIVCHGTVAQ-GCDLHIVYKPAQAWCWDCSQVVEI 82 (113)
T ss_pred CHHHHHHHHHHHhCCCccC-CCEEEEEeeCcEEEcccCCCEEec
Confidence 4445566777777666554 223445555567889999876653
No 164
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=27.07 E-value=36 Score=27.77 Aligned_cols=23 Identities=30% Similarity=0.509 Sum_probs=21.1
Q ss_pred CCcCCcccccCCCchHHHHHHhh
Q 044181 90 THECSVCGLEFAIGQALGGHMRR 112 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~~L~~H~~~ 112 (178)
.+.|-.|.+.|.....|+.||+.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 47899999999999999999985
No 165
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=26.47 E-value=30 Score=23.41 Aligned_cols=11 Identities=27% Similarity=1.062 Sum_probs=7.9
Q ss_pred eecCcCCCcCC
Q 044181 45 FECKTCNRQFP 55 (178)
Q Consensus 45 ~~C~~C~k~f~ 55 (178)
|.|..|++.|.
T Consensus 103 YTC~kC~~k~~ 113 (116)
T KOG2907|consen 103 YTCPKCKYKFT 113 (116)
T ss_pred EEcCccceeee
Confidence 77777777664
No 166
>PRK04351 hypothetical protein; Provisional
Probab=25.78 E-value=20 Score=25.58 Aligned_cols=28 Identities=21% Similarity=0.452 Sum_probs=15.8
Q ss_pred ceecCcCCCcCCChHHHHHHHHhcCCCCCCCCCC
Q 044181 44 AFECKTCNRQFPSFQALGGHRASHKKPRFTDGNG 77 (178)
Q Consensus 44 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~c~ 77 (178)
.|.|..||..+.+ +++.....+.|+.|.
T Consensus 112 ~Y~C~~Cg~~~~r------~Rr~n~~~yrCg~C~ 139 (149)
T PRK04351 112 LYECQSCGQQYLR------KRRINTKRYRCGKCR 139 (149)
T ss_pred EEECCCCCCEeee------eeecCCCcEEeCCCC
Confidence 4778778765432 233334455577775
No 167
>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=25.24 E-value=33 Score=17.34 Aligned_cols=13 Identities=23% Similarity=0.784 Sum_probs=8.0
Q ss_pred CCCceecCcCCCc
Q 044181 41 AGRAFECKTCNRQ 53 (178)
Q Consensus 41 ~~k~~~C~~C~k~ 53 (178)
+..-|.|+.|+..
T Consensus 16 D~~~~vCp~C~~e 28 (30)
T PF08274_consen 16 DGELLVCPECGHE 28 (30)
T ss_dssp -SSSEEETTTTEE
T ss_pred cCCEEeCCccccc
Confidence 4456778888743
No 168
>PTZ00448 hypothetical protein; Provisional
Probab=25.07 E-value=50 Score=27.20 Aligned_cols=24 Identities=21% Similarity=0.425 Sum_probs=21.3
Q ss_pred CCcCCcccccCCCchHHHHHHhhh
Q 044181 90 THECSVCGLEFAIGQALGGHMRRH 113 (178)
Q Consensus 90 ~~~C~~Cgk~F~~~~~L~~H~~~H 113 (178)
.|.|..|+-.|......+.|+++-
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CccccccccccCCHHHHHHHhhhh
Confidence 689999999999888999999863
No 169
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=25.01 E-value=28 Score=18.89 Aligned_cols=17 Identities=12% Similarity=0.366 Sum_probs=11.3
Q ss_pred cCCCCCceecCcCCCcC
Q 044181 38 TMAAGRAFECKTCNRQF 54 (178)
Q Consensus 38 ~H~~~k~~~C~~C~k~f 54 (178)
+....++-.|+.||..|
T Consensus 23 l~~~~~~~~CpYCg~~y 39 (40)
T PF10276_consen 23 LDDEPGPVVCPYCGTRY 39 (40)
T ss_dssp -TTTTCEEEETTTTEEE
T ss_pred cCCCCCeEECCCCCCEE
Confidence 33333478899999876
No 170
>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=23.65 E-value=19 Score=20.71 Aligned_cols=26 Identities=19% Similarity=0.358 Sum_probs=13.8
Q ss_pred CCceecCcCCCcCCChHHHHHHHHhc
Q 044181 42 GRAFECKTCNRQFPSFQALGGHRASH 67 (178)
Q Consensus 42 ~k~~~C~~C~k~f~~~~~L~~H~~~h 67 (178)
...|+|+.|+..|-..-.+-.|...|
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CCeEECCCCCCccccCcChhhhcccc
Confidence 46799999999998777666555444
No 171
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=23.60 E-value=51 Score=27.69 Aligned_cols=18 Identities=17% Similarity=0.313 Sum_probs=13.9
Q ss_pred CCCCCcCCcccccCCCch
Q 044181 87 KPKTHECSVCGLEFAIGQ 104 (178)
Q Consensus 87 ~~k~~~C~~Cgk~F~~~~ 104 (178)
|..-|.|+.||..+....
T Consensus 364 G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 364 GRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCCcccccccccCCccc
Confidence 444799999999987553
No 172
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=23.35 E-value=55 Score=18.60 Aligned_cols=11 Identities=27% Similarity=0.718 Sum_probs=6.8
Q ss_pred CCcCCcccccC
Q 044181 90 THECSVCGLEF 100 (178)
Q Consensus 90 ~~~C~~Cgk~F 100 (178)
.+.|..||.++
T Consensus 37 r~~C~~Cgyt~ 47 (50)
T PRK00432 37 RWHCGKCGYTE 47 (50)
T ss_pred cEECCCcCCEE
Confidence 46677777543
No 173
>COG1773 Rubredoxin [Energy production and conversion]
Probab=23.34 E-value=36 Score=19.91 Aligned_cols=13 Identities=15% Similarity=0.728 Sum_probs=10.2
Q ss_pred ceecCcCCCcCCC
Q 044181 44 AFECKTCNRQFPS 56 (178)
Q Consensus 44 ~~~C~~C~k~f~~ 56 (178)
.|+|..||..|.-
T Consensus 3 ~~~C~~CG~vYd~ 15 (55)
T COG1773 3 RWRCSVCGYVYDP 15 (55)
T ss_pred ceEecCCceEecc
Confidence 5889999987753
No 174
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=23.26 E-value=27 Score=18.25 Aligned_cols=11 Identities=36% Similarity=0.887 Sum_probs=5.6
Q ss_pred cCCcccccCCC
Q 044181 92 ECSVCGLEFAI 102 (178)
Q Consensus 92 ~C~~Cgk~F~~ 102 (178)
.|.+||+.|..
T Consensus 5 ~C~eC~~~f~d 15 (34)
T PF01286_consen 5 KCDECGKPFMD 15 (34)
T ss_dssp E-TTT--EES-
T ss_pred hHhHhCCHHHH
Confidence 58889998864
No 175
>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=22.70 E-value=29 Score=19.84 Aligned_cols=12 Identities=25% Similarity=0.573 Sum_probs=6.4
Q ss_pred ecCcCCCcCCCh
Q 044181 46 ECKTCNRQFPSF 57 (178)
Q Consensus 46 ~C~~C~k~f~~~ 57 (178)
.|++|++.|..-
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 899999988754
No 176
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF12907 zf-met2: Zinc-binding
Probab=21.97 E-value=16 Score=19.85 Aligned_cols=27 Identities=22% Similarity=0.430 Sum_probs=18.8
Q ss_pred CcCCcccccCC---CchHHHHHHh-hhccCC
Q 044181 91 HECSVCGLEFA---IGQALGGHMR-RHRAAG 117 (178)
Q Consensus 91 ~~C~~Cgk~F~---~~~~L~~H~~-~H~~~~ 117 (178)
+.|.+|-.+|. ....|..|.. .|....
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~ 32 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNT 32 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCC
Confidence 67999997774 4456888875 566643
No 178
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=21.77 E-value=24 Score=22.31 Aligned_cols=39 Identities=10% Similarity=0.334 Sum_probs=14.5
Q ss_pred CcccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCC
Q 044181 12 DHSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPS 56 (178)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~ 56 (178)
+.-|.|+.|+-. ..+. .-+..-.+-..-.|..||..|..
T Consensus 20 ~~~F~CPfC~~~----~sV~--v~idkk~~~~~~~C~~Cg~~~~~ 58 (81)
T PF05129_consen 20 PKVFDCPFCNHE----KSVS--VKIDKKEGIGILSCRVCGESFQT 58 (81)
T ss_dssp SS----TTT--S----S-EE--EEEETTTTEEEEEESSS--EEEE
T ss_pred CceEcCCcCCCC----CeEE--EEEEccCCEEEEEecCCCCeEEE
Confidence 577888888821 1121 11111133335678888876643
No 179
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=21.73 E-value=69 Score=25.48 Aligned_cols=36 Identities=17% Similarity=0.156 Sum_probs=28.2
Q ss_pred CCCCcCCcccccCCCchHHHHHHhhhccCCCCCCCC
Q 044181 88 PKTHECSVCGLEFAIGQALGGHMRRHRAAGLHGNEK 123 (178)
Q Consensus 88 ~k~~~C~~Cgk~F~~~~~L~~H~~~H~~~~~~~~~~ 123 (178)
..-|-|+.|-+-|.+...|.+|+....-..|++.+.
T Consensus 46 ~~lyiCe~Clky~~~~~~l~~H~~~C~~r~PPG~eI 81 (290)
T PLN03238 46 TKLYICEYCLKYMRKKKSLLRHLAKCDIRQPPGGGI 81 (290)
T ss_pred CeEEEcCCCcchhCCHHHHHHHHHhCCCCCCCcCEe
Confidence 567999999999999999999988555445555443
No 180
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=21.09 E-value=34 Score=29.89 Aligned_cols=83 Identities=23% Similarity=0.388 Sum_probs=46.6
Q ss_pred cccchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCCcCCChHHHHHHHHhcCCCCC------------CCCCCC-c
Q 044181 13 HSLNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRASHKKPRF------------TDGNGG-V 79 (178)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~------------~~~c~~-~ 79 (178)
.+-.|+-|+.....+..|- ..-...|.. -|+|..|+.. |..--..+.+... |..|.+ .
T Consensus 132 ~ps~cagc~~~lk~gq~ll-ald~qwhv~--cfkc~~c~~v------L~gey~skdg~pyce~dy~~~fgvkc~~c~~fi 202 (670)
T KOG1044|consen 132 GPSTCAGCGEELKNGQALL-ALDKQWHVS--CFKCKSCSAV------LNGEYMSKDGVPYCEKDYQAKFGVKCEECEKFI 202 (670)
T ss_pred CCccccchhhhhhccceee-eeccceeee--eeehhhhccc------ccceeeccCCCcchhhhhhhhcCeehHHhhhhh
Confidence 4567888888887776652 222344543 5888888865 3332333333333 334433 1
Q ss_pred cccccCCCCCCC-----cCCcccccCCCch
Q 044181 80 DMQQLPIKPKTH-----ECSVCGLEFAIGQ 104 (178)
Q Consensus 80 ~h~~~h~~~k~~-----~C~~Cgk~F~~~~ 104 (178)
.-..+..|++.| .|..||..|....
T Consensus 203 sgkvLqag~kh~HPtCARCsRCgqmF~eGE 232 (670)
T KOG1044|consen 203 SGKVLQAGDKHFHPTCARCSRCGQMFGEGE 232 (670)
T ss_pred hhhhhhccCcccCcchhhhhhhccccccch
Confidence 111234466666 5788999998654
No 181
>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=20.91 E-value=62 Score=27.63 Aligned_cols=30 Identities=23% Similarity=0.331 Sum_probs=24.9
Q ss_pred CCCCcCCcccccCCCchHHHHHHh-hhccCC
Q 044181 88 PKTHECSVCGLEFAIGQALGGHMR-RHRAAG 117 (178)
Q Consensus 88 ~k~~~C~~Cgk~F~~~~~L~~H~~-~H~~~~ 117 (178)
-+=|.|+.|.+.|.....+..|+. .|.+.-
T Consensus 55 WrFWiCp~CskkF~d~~~~~~H~~~eH~~~l 85 (466)
T PF04780_consen 55 WRFWICPRCSKKFSDAESCLSHMEQEHPAGL 85 (466)
T ss_pred eeEeeCCcccceeCCHHHHHHHHHHhhhhhc
Confidence 344689999999999999999987 577664
No 182
>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=20.88 E-value=49 Score=17.50 Aligned_cols=11 Identities=18% Similarity=0.821 Sum_probs=5.3
Q ss_pred CceecCcCCCc
Q 044181 43 RAFECKTCNRQ 53 (178)
Q Consensus 43 k~~~C~~C~k~ 53 (178)
+-|+|..||..
T Consensus 5 ~~YkC~~CGni 15 (36)
T PF06397_consen 5 EFYKCEHCGNI 15 (36)
T ss_dssp EEEE-TTT--E
T ss_pred cEEEccCCCCE
Confidence 35788888753
No 183
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=20.77 E-value=13 Score=21.46 Aligned_cols=32 Identities=19% Similarity=0.266 Sum_probs=17.3
Q ss_pred cchhhhHHHhcCCCCCCcccccccCCCCCceecCcCCC
Q 044181 15 LNMANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNR 52 (178)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~~~h~~~H~~~k~~~C~~C~k 52 (178)
-.|.-|++..+.... ..+..++.-..|+.||+
T Consensus 23 ~~C~gC~~~l~~~~~------~~i~~~~~i~~Cp~CgR 54 (56)
T PF02591_consen 23 GTCSGCHMELPPQEL------NEIRKGDEIVFCPNCGR 54 (56)
T ss_pred CccCCCCEEcCHHHH------HHHHcCCCeEECcCCCc
Confidence 356666655544311 23344455666777765
No 184
>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=20.61 E-value=53 Score=16.91 Aligned_cols=10 Identities=30% Similarity=1.105 Sum_probs=7.3
Q ss_pred CCCcCCcccc
Q 044181 89 KTHECSVCGL 98 (178)
Q Consensus 89 k~~~C~~Cgk 98 (178)
.|..|++||.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4678888874
No 185
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=20.21 E-value=48 Score=21.54 Aligned_cols=14 Identities=36% Similarity=0.831 Sum_probs=12.1
Q ss_pred CceecCcCCCcCCC
Q 044181 43 RAFECKTCNRQFPS 56 (178)
Q Consensus 43 k~~~C~~C~k~f~~ 56 (178)
+|-.|..||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 58899999999875
Done!