Query psy13211
Match_columns 89
No_of_seqs 111 out of 1662
Neff 10.8
Searched_HMMs 46136
Date Fri Aug 16 22:59:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13211.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13211hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 2.1E-23 4.6E-28 120.3 0.2 75 9-85 164-238 (279)
2 KOG2462|consensus 99.9 1.1E-22 2.3E-27 117.5 0.8 81 2-82 182-263 (279)
3 KOG3623|consensus 99.8 6.7E-20 1.4E-24 117.0 3.6 80 5-84 893-972 (1007)
4 KOG3623|consensus 99.5 9E-15 1.9E-19 94.1 3.9 78 7-84 241-331 (1007)
5 KOG3576|consensus 99.5 1.4E-15 2.9E-20 85.4 -1.2 77 7-83 118-194 (267)
6 KOG1074|consensus 99.4 2.6E-14 5.7E-19 92.8 1.8 79 8-86 607-692 (958)
7 KOG3576|consensus 99.3 5E-13 1.1E-17 75.2 -0.8 73 9-81 148-231 (267)
8 KOG1074|consensus 99.2 6.3E-12 1.4E-16 82.1 0.6 55 7-61 354-408 (958)
9 PHA02768 hypothetical protein; 99.1 5.2E-11 1.1E-15 54.1 1.8 42 7-50 6-47 (55)
10 PHA02768 hypothetical protein; 99.0 9E-11 2E-15 53.4 1.1 44 34-79 5-48 (55)
11 PHA00733 hypothetical protein 99.0 4E-11 8.7E-16 63.9 -1.5 75 9-85 43-122 (128)
12 PF13465 zf-H2C2_2: Zinc-finge 98.9 6.7E-10 1.5E-14 43.5 1.6 25 21-45 1-25 (26)
13 KOG3608|consensus 98.8 1.1E-09 2.4E-14 66.4 1.1 78 8-85 181-260 (467)
14 KOG3608|consensus 98.8 1.8E-09 3.8E-14 65.5 0.8 78 7-86 238-316 (467)
15 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.3E-09 2.9E-14 42.7 -0.3 25 49-73 1-25 (26)
16 PHA00616 hypothetical protein 98.7 1.6E-08 3.6E-13 44.0 2.2 32 7-38 2-33 (44)
17 PHA00616 hypothetical protein 98.5 1.1E-07 2.4E-12 41.4 2.5 33 34-66 1-33 (44)
18 PHA00733 hypothetical protein 98.5 1.7E-07 3.7E-12 50.1 3.8 50 7-58 74-123 (128)
19 PLN03086 PRLI-interacting fact 98.3 4.4E-07 9.4E-12 58.6 2.7 61 8-73 455-515 (567)
20 PLN03086 PRLI-interacting fact 98.3 7.5E-07 1.6E-11 57.5 2.7 67 4-73 476-552 (567)
21 KOG3993|consensus 98.1 1.6E-06 3.5E-11 54.0 1.9 27 4-30 293-319 (500)
22 PHA00732 hypothetical protein 98.1 1.1E-06 2.5E-11 43.2 0.4 44 7-56 2-46 (79)
23 PHA00732 hypothetical protein 98.0 4E-06 8.6E-11 41.2 2.0 44 34-83 1-45 (79)
24 KOG3993|consensus 97.9 5.6E-07 1.2E-11 55.9 -3.2 81 7-87 268-381 (500)
25 PF00096 zf-C2H2: Zinc finger, 97.8 8.4E-06 1.8E-10 30.6 1.1 21 8-28 2-22 (23)
26 PF05605 zf-Di19: Drought indu 97.8 0.00011 2.5E-09 33.4 4.7 49 6-57 2-52 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.7 2.7E-05 5.9E-10 29.1 1.2 23 35-57 1-23 (23)
28 PF13912 zf-C2H2_6: C2H2-type 97.6 3.5E-05 7.5E-10 30.0 0.9 24 34-57 1-24 (27)
29 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00013 2.9E-09 27.1 1.5 22 8-29 2-23 (24)
30 PF13894 zf-C2H2_4: C2H2-type 97.2 0.00029 6.3E-09 26.2 1.5 23 35-57 1-23 (24)
31 smart00355 ZnF_C2H2 zinc finge 97.2 0.00071 1.5E-08 25.4 2.6 22 8-29 2-23 (26)
32 PRK04860 hypothetical protein; 97.1 0.00015 3.3E-09 40.2 0.2 38 34-75 119-156 (160)
33 PF13912 zf-C2H2_6: C2H2-type 97.0 0.00016 3.5E-09 28.1 0.1 24 7-30 2-25 (27)
34 smart00355 ZnF_C2H2 zinc finge 96.9 0.0011 2.4E-08 24.8 2.2 24 35-58 1-24 (26)
35 PF09237 GAGA: GAGA factor; I 96.8 0.0013 2.9E-08 29.4 2.1 33 30-62 20-52 (54)
36 PF05605 zf-Di19: Drought indu 96.6 0.00059 1.3E-08 31.1 0.2 49 34-85 2-52 (54)
37 PF09237 GAGA: GAGA factor; I 96.5 0.0029 6.4E-08 28.4 2.1 27 8-34 26-52 (54)
38 PRK04860 hypothetical protein; 96.5 0.001 2.2E-08 37.0 0.5 37 7-47 120-156 (160)
39 PF12756 zf-C2H2_2: C2H2 type 96.4 0.0021 4.5E-08 32.4 1.7 49 9-57 2-73 (100)
40 COG5189 SFP1 Putative transcri 96.1 0.0044 9.4E-08 38.0 1.9 53 31-83 346-419 (423)
41 PF12874 zf-met: Zinc-finger o 96.0 0.0034 7.4E-08 23.7 0.9 20 36-55 2-21 (25)
42 PF13909 zf-H2C2_5: C2H2-type 95.0 0.016 3.6E-07 21.6 1.2 20 8-28 2-21 (24)
43 PF12171 zf-C2H2_jaz: Zinc-fin 94.4 0.0094 2E-07 23.0 -0.2 19 36-54 3-21 (27)
44 PF13913 zf-C2HC_2: zinc-finge 94.0 0.065 1.4E-06 20.4 1.8 20 7-27 3-22 (25)
45 smart00451 ZnF_U1 U1-like zinc 92.7 0.084 1.8E-06 21.3 1.3 19 8-26 5-23 (35)
46 COG5048 FOG: Zn-finger [Genera 92.6 0.014 3E-07 36.3 -1.7 59 7-65 290-354 (467)
47 KOG1146|consensus 91.1 0.19 4.2E-06 36.5 2.3 54 2-55 461-539 (1406)
48 COG5048 FOG: Zn-finger [Genera 90.7 0.059 1.3E-06 33.6 -0.4 56 33-88 288-349 (467)
49 KOG2186|consensus 90.5 0.073 1.6E-06 31.8 -0.1 46 7-55 4-49 (276)
50 KOG4167|consensus 89.2 0.15 3.2E-06 34.9 0.5 26 5-30 791-816 (907)
51 KOG2893|consensus 88.5 0.18 3.8E-06 30.1 0.5 41 9-53 13-53 (341)
52 COG4049 Uncharacterized protei 88.0 0.035 7.5E-07 25.4 -2.1 28 29-56 12-39 (65)
53 cd00350 rubredoxin_like Rubred 84.3 0.25 5.3E-06 20.0 -0.3 9 33-41 16-24 (33)
54 COG5189 SFP1 Putative transcri 80.3 0.71 1.5E-05 28.8 0.5 47 8-54 351-418 (423)
55 PF13451 zf-trcl: Probable zin 78.7 3.1 6.7E-05 18.6 2.2 38 33-70 3-41 (49)
56 KOG1146|consensus 77.2 0.48 1E-05 34.6 -0.9 76 5-85 1259-1351(1406)
57 COG1592 Rubrerythrin [Energy p 75.5 0.85 1.8E-05 25.7 -0.1 23 34-69 134-156 (166)
58 PF13878 zf-C2H2_3: zinc-finge 75.1 4.7 0.0001 17.1 2.2 24 6-29 13-38 (41)
59 TIGR00373 conserved hypothetic 72.1 2.6 5.6E-05 23.5 1.3 33 30-71 105-137 (158)
60 COG2888 Predicted Zn-ribbon RN 68.6 1.8 3.8E-05 20.2 0.1 31 34-69 27-57 (61)
61 PRK09710 lar restriction allev 67.8 3.2 6.9E-05 19.6 0.9 16 1-16 1-16 (64)
62 PRK00464 nrdR transcriptional 66.4 0.42 9.2E-06 26.6 -2.5 16 35-50 29-44 (154)
63 smart00614 ZnF_BED BED zinc fi 64.8 5.5 0.00012 17.5 1.3 19 9-27 21-44 (50)
64 PF04959 ARS2: Arsenite-resist 64.0 2.4 5.1E-05 25.0 0.1 25 34-58 77-101 (214)
65 PF15269 zf-C2H2_7: Zinc-finge 63.8 4.7 0.0001 17.7 1.0 21 35-55 21-41 (54)
66 PRK06266 transcription initiat 62.6 4.4 9.6E-05 23.1 1.0 32 32-72 115-146 (178)
67 PF05443 ROS_MUCR: ROS/MUCR tr 61.7 6.7 0.00014 21.4 1.5 21 9-32 75-95 (132)
68 cd00729 rubredoxin_SM Rubredox 59.6 2.4 5.2E-05 17.3 -0.3 8 34-41 18-25 (34)
69 PF13719 zinc_ribbon_5: zinc-r 59.5 4.4 9.4E-05 16.7 0.5 31 9-44 5-35 (37)
70 PF12013 DUF3505: Protein of u 58.4 13 0.00029 19.1 2.3 19 38-56 88-106 (109)
71 COG1997 RPL43A Ribosomal prote 56.1 2.3 4.9E-05 21.4 -0.8 37 33-79 34-70 (89)
72 smart00734 ZnF_Rad18 Rad18-lik 55.4 11 0.00025 14.2 1.3 18 36-54 3-20 (26)
73 PF02892 zf-BED: BED zinc fing 53.8 6.9 0.00015 16.5 0.7 19 8-26 18-40 (45)
74 KOG3408|consensus 53.6 12 0.00026 20.1 1.6 22 34-55 57-78 (129)
75 TIGR02605 CxxC_CxxC_SSSS putat 52.3 1.5 3.3E-05 19.4 -1.6 10 7-16 6-15 (52)
76 smart00531 TFIIE Transcription 51.7 11 0.00024 20.7 1.4 39 31-73 96-134 (147)
77 COG3091 SprT Zn-dependent meta 49.3 2.8 6.1E-05 23.4 -1.1 33 33-70 116-148 (156)
78 KOG0402|consensus 47.2 5.7 0.00012 19.9 -0.2 12 4-15 34-45 (92)
79 smart00659 RPOLCX RNA polymera 46.9 6 0.00013 17.2 -0.1 10 7-16 3-12 (44)
80 TIGR02098 MJ0042_CXXC MJ0042 f 45.6 2.2 4.8E-05 17.5 -1.6 8 9-16 5-12 (38)
81 PF10013 DUF2256: Uncharacteri 44.0 12 0.00025 16.2 0.6 16 36-51 10-25 (42)
82 PF12907 zf-met2: Zinc-binding 43.9 9.5 0.00021 16.3 0.3 26 7-32 2-31 (40)
83 COG5236 Uncharacterized conser 43.6 42 0.00091 21.7 3.1 35 3-38 217-251 (493)
84 PF08790 zf-LYAR: LYAR-type C2 43.3 3.5 7.5E-05 16.2 -1.0 8 9-16 3-10 (28)
85 KOG4167|consensus 42.5 5.3 0.00012 28.0 -0.8 25 62-86 792-816 (907)
86 PF09538 FYDLN_acid: Protein o 41.3 21 0.00045 18.8 1.3 15 33-47 25-39 (108)
87 KOG2785|consensus 41.0 41 0.00089 21.9 2.8 49 7-55 167-241 (390)
88 PF13717 zinc_ribbon_4: zinc-r 40.7 11 0.00023 15.5 0.2 9 35-43 26-34 (36)
89 KOG0227|consensus 40.6 9.3 0.0002 22.3 0.0 20 62-81 53-72 (222)
90 KOG4173|consensus 39.6 29 0.00064 20.6 1.9 18 9-26 109-126 (253)
91 COG3677 Transposase and inacti 39.5 9.4 0.0002 20.6 -0.1 22 58-79 49-70 (129)
92 KOG2593|consensus 39.2 22 0.00049 23.4 1.5 38 30-70 124-161 (436)
93 smart00154 ZnF_AN1 AN1-like Zi 38.7 8.1 0.00018 16.2 -0.3 15 62-76 12-26 (39)
94 KOG0782|consensus 37.7 11 0.00023 26.0 -0.0 20 1-20 267-290 (1004)
95 COG4957 Predicted transcriptio 37.3 16 0.00035 20.1 0.6 21 9-32 79-99 (148)
96 KOG4727|consensus 37.0 2.8 6E-05 23.9 -2.4 22 62-83 75-96 (193)
97 COG1198 PriA Primosomal protei 36.9 3.2 7E-05 28.9 -2.5 11 60-70 473-483 (730)
98 PF08274 PhnA_Zn_Ribbon: PhnA 36.0 11 0.00023 15.0 -0.1 9 33-41 18-26 (30)
99 PRK14890 putative Zn-ribbon RN 35.7 8.6 0.00019 17.9 -0.5 31 34-69 25-55 (59)
100 PF10571 UPF0547: Uncharacteri 34.7 15 0.00033 13.9 0.2 9 8-16 16-24 (26)
101 COG2331 Uncharacterized protei 34.0 28 0.00061 17.2 1.1 10 7-16 13-22 (82)
102 PF15135 UPF0515: Uncharacteri 33.3 14 0.00031 22.5 0.0 18 1-18 150-167 (278)
103 PF09723 Zn-ribbon_8: Zinc rib 32.1 13 0.00028 15.8 -0.2 30 34-70 5-34 (42)
104 COG3357 Predicted transcriptio 30.8 27 0.00058 17.9 0.7 31 33-73 57-87 (97)
105 PTZ00448 hypothetical protein; 30.6 48 0.001 21.5 1.9 23 6-28 314-336 (373)
106 PLN02294 cytochrome c oxidase 30.3 22 0.00049 20.3 0.5 15 32-46 139-153 (174)
107 COG4338 Uncharacterized protei 30.2 17 0.00038 16.2 0.0 16 36-51 14-29 (54)
108 smart00834 CxxC_CXXC_SSSS Puta 30.2 16 0.00034 14.9 -0.1 30 34-70 5-34 (41)
109 COG5112 UFD2 U1-like Zn-finger 29.8 41 0.00089 17.7 1.3 21 35-55 56-76 (126)
110 cd00924 Cyt_c_Oxidase_Vb Cytoc 28.9 24 0.00052 18.2 0.4 17 28-45 74-90 (97)
111 PHA00626 hypothetical protein 28.6 27 0.00057 16.2 0.5 17 32-48 21-37 (59)
112 PRK09678 DNA-binding transcrip 28.3 7.1 0.00015 18.9 -1.5 41 8-50 3-45 (72)
113 TIGR00100 hypA hydrogenase nic 27.3 14 0.00031 19.4 -0.6 24 35-70 71-94 (115)
114 KOG2482|consensus 27.2 39 0.00086 21.8 1.2 22 7-28 196-217 (423)
115 KOG0717|consensus 27.0 40 0.00087 22.6 1.2 20 9-28 295-314 (508)
116 PF04423 Rad50_zn_hook: Rad50 26.6 21 0.00045 15.9 -0.1 13 36-48 22-34 (54)
117 PRK03976 rpl37ae 50S ribosomal 26.2 30 0.00064 17.6 0.4 33 4-46 34-66 (90)
118 PF00446 GnRH: Gonadotropin-re 26.1 33 0.00071 9.9 0.5 6 2-7 3-8 (10)
119 PTZ00255 60S ribosomal protein 25.7 32 0.0007 17.5 0.5 33 4-46 34-66 (90)
120 KOG1409|consensus 25.5 33 0.00071 22.2 0.6 40 36-76 284-323 (404)
121 PRK03824 hypA hydrogenase nick 25.3 13 0.00027 20.3 -1.1 13 35-47 71-83 (135)
122 PRK08222 hydrogenase 4 subunit 25.2 88 0.0019 17.9 2.3 39 33-71 113-163 (181)
123 PF11931 DUF3449: Domain of un 24.7 24 0.00053 20.6 0.0 28 55-82 94-122 (196)
124 COG1773 Rubredoxin [Energy pro 24.7 20 0.00043 16.5 -0.3 12 6-17 3-14 (55)
125 PF06309 Torsin: Torsin; Inte 24.6 30 0.00065 18.8 0.3 16 1-19 56-71 (127)
126 KOG1842|consensus 24.4 61 0.0013 21.7 1.7 22 34-55 15-36 (505)
127 TIGR00280 L37a ribosomal prote 24.4 33 0.00072 17.5 0.4 33 4-46 33-65 (91)
128 COG0068 HypF Hydrogenase matur 23.7 34 0.00073 24.2 0.5 38 37-75 126-164 (750)
129 COG1885 Uncharacterized protei 23.6 38 0.00082 17.8 0.5 12 5-16 48-59 (115)
130 KOG2636|consensus 23.6 12 0.00025 24.8 -1.6 28 55-82 394-422 (497)
131 COG1326 Uncharacterized archae 23.5 30 0.00065 20.3 0.2 13 62-74 30-42 (201)
132 KOG0801|consensus 23.4 43 0.00092 19.2 0.8 18 1-18 133-150 (205)
133 COG1675 TFA1 Transcription ini 23.2 80 0.0017 18.2 1.8 35 29-72 108-142 (176)
134 KOG3214|consensus 23.2 33 0.00072 17.8 0.3 15 5-19 46-60 (109)
135 KOG4489|consensus 23.1 44 0.00096 16.4 0.7 22 2-23 36-57 (87)
136 PF09845 DUF2072: Zn-ribbon co 22.9 33 0.00071 18.8 0.3 15 34-48 1-15 (131)
137 PF07754 DUF1610: Domain of un 22.9 30 0.00066 12.9 0.1 8 34-41 16-23 (24)
138 KOG0978|consensus 22.6 29 0.00062 24.4 0.0 21 57-77 673-693 (698)
139 KOG2071|consensus 22.2 50 0.0011 22.8 1.0 23 8-30 420-442 (579)
140 COG4896 Uncharacterized protei 21.8 60 0.0013 15.3 1.0 40 8-47 4-44 (68)
141 PF06524 NOA36: NOA36 protein; 21.4 21 0.00046 22.0 -0.7 27 59-85 206-232 (314)
142 cd00065 FYVE FYVE domain; Zinc 21.2 72 0.0016 14.0 1.2 12 7-18 3-14 (57)
143 PRK12380 hydrogenase nickel in 21.2 23 0.00051 18.6 -0.5 12 35-46 71-82 (113)
144 PF01780 Ribosomal_L37ae: Ribo 20.9 24 0.00053 17.9 -0.4 11 4-14 33-43 (90)
145 PF01428 zf-AN1: AN1-like Zinc 20.6 21 0.00045 15.1 -0.7 14 33-46 12-25 (43)
No 1
>KOG2462|consensus
Probab=99.86 E-value=2.1e-23 Score=120.32 Aligned_cols=75 Identities=16% Similarity=0.230 Sum_probs=38.5
Q ss_pred CccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCCCCCCCCcchh
Q psy13211 9 STDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGPKPKPDSTRSL 85 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~~~~~~~~~~~ 85 (89)
|.+|+++|.....|..|.++|+ -|.+|.+||+.|..+..|+.|+|+|+|||||.|..|+|.|.|.++|..|+++|
T Consensus 164 C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTH 238 (279)
T KOG2462|consen 164 CKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTH 238 (279)
T ss_pred CCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhh
Confidence 4444444444444544544444 34455555555555555555555555555555555555555555555555444
No 2
>KOG2462|consensus
Probab=99.85 E-value=1.1e-22 Score=117.45 Aligned_cols=81 Identities=20% Similarity=0.272 Sum_probs=74.6
Q ss_pred cccC-CCCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCCCCCCC
Q psy13211 2 FFHG-KTKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGPKPKPD 80 (89)
Q Consensus 2 ~~~~-~~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~~~~~~ 80 (89)
++|+ -..|.+||+.|.+..-|+.|.++|+|||||.|..|++.|...++|..|+++|.+.|+|+|..|+|.|..-+-|..
T Consensus 182 rTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnK 261 (279)
T KOG2462|consen 182 RTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNK 261 (279)
T ss_pred hccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHH
Confidence 4566 668999999999999999999999999999999999999999999999999999999999999999988777666
Q ss_pred Cc
Q psy13211 81 ST 82 (89)
Q Consensus 81 ~~ 82 (89)
|.
T Consensus 262 H~ 263 (279)
T KOG2462|consen 262 HS 263 (279)
T ss_pred hh
Confidence 54
No 3
>KOG3623|consensus
Probab=99.79 E-value=6.7e-20 Score=117.02 Aligned_cols=80 Identities=18% Similarity=0.390 Sum_probs=75.5
Q ss_pred CCCCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCCCCCCCCcch
Q psy13211 5 GKTKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGPKPKPDSTRS 84 (89)
Q Consensus 5 ~~~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~~~~~~~~~~ 84 (89)
|-|.|..|+++|...+.|..|.--|+|.+||+|.+|.+.|...-.|+.|.|.|.|||||+|++|+++|...+.|-.|+..
T Consensus 893 gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMNH 972 (1007)
T KOG3623|consen 893 GMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMNH 972 (1007)
T ss_pred ccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhcc
Confidence 55779999999999999999999999999999999999999999999999999999999999999999999999877654
No 4
>KOG3623|consensus
Probab=99.52 E-value=9e-15 Score=94.10 Aligned_cols=78 Identities=15% Similarity=0.212 Sum_probs=70.9
Q ss_pred CCCccchhhcccHHHHHHHHHHhcC-------------CCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhc
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTG-------------RKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLR 73 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~-------------~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~ 73 (89)
+.|..|..+|.++..|..|+.+|.. .+-|+|.+|++.|...-.|..|+|+|.|||||.|+.|.++|.
T Consensus 241 fsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFS 320 (1007)
T KOG3623|consen 241 FSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFS 320 (1007)
T ss_pred CcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccc
Confidence 4599999999999999999988742 245899999999999999999999999999999999999999
Q ss_pred CCCCCCCCcch
Q psy13211 74 GPKPKPDSTRS 84 (89)
Q Consensus 74 ~~~~~~~~~~~ 84 (89)
..+.|--|+.+
T Consensus 321 HSGSySSHmSS 331 (1007)
T KOG3623|consen 321 HSGSYSSHMSS 331 (1007)
T ss_pred cCCcccccccc
Confidence 99999888765
No 5
>KOG3576|consensus
Probab=99.50 E-value=1.4e-15 Score=85.36 Aligned_cols=77 Identities=12% Similarity=0.129 Sum_probs=70.2
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCCCCCCCCcc
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGPKPKPDSTR 83 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~~~~~~~~~ 83 (89)
+.|.+|++.|....-|..|+..|...+.+.|..||+.|...-.|.+|.++|+|-+||+|..|++.|++.-.|..|.+
T Consensus 118 ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 118 FTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred eeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 45999999998888899999999999999999999999999999999999999999999999999999887765543
No 6
>KOG1074|consensus
Probab=99.45 E-value=2.6e-14 Score=92.82 Aligned_cols=79 Identities=23% Similarity=0.354 Sum_probs=73.2
Q ss_pred CCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhcCC----CCCCch---HHHhhhcCCCCCCC
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQ----ESCSSL---KALRKLRGPKPKPD 80 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~e----k~~~c~---~~~~~~~~~~~~~~ 80 (89)
.|..|.++.+..+.|+.|.++|+||+||+|.+|++.|....+|..|+.+|... -++.|+ +|.+.|+....++.
T Consensus 607 qCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQ 686 (958)
T KOG1074|consen 607 QCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQ 686 (958)
T ss_pred ceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccccc
Confidence 38999999999999999999999999999999999999999999999888754 467898 99999999999999
Q ss_pred Ccchhh
Q psy13211 81 STRSLR 86 (89)
Q Consensus 81 ~~~~~~ 86 (89)
|+++|.
T Consensus 687 hIriH~ 692 (958)
T KOG1074|consen 687 HIRIHL 692 (958)
T ss_pred eEEeec
Confidence 999986
No 7
>KOG3576|consensus
Probab=99.26 E-value=5e-13 Score=75.21 Aligned_cols=73 Identities=21% Similarity=0.299 Sum_probs=59.8
Q ss_pred CccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhc-----------CCCCCCchHHHhhhcCCCC
Q psy13211 9 STDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTH-----------GQESCSSLKALRKLRGPKP 77 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~-----------~ek~~~c~~~~~~~~~~~~ 77 (89)
|+.||+.|.....|+.|+++|+|.+||.|..|++.|...-.|..|.+... .++-|.|..|+-+-.....
T Consensus 148 ct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~ 227 (267)
T KOG3576|consen 148 CTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEV 227 (267)
T ss_pred HhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhH
Confidence 89999999999999999999999999999999999999999999976332 3477899998764444433
Q ss_pred CCCC
Q psy13211 78 KPDS 81 (89)
Q Consensus 78 ~~~~ 81 (89)
+..|
T Consensus 228 ~~~h 231 (267)
T KOG3576|consen 228 YYLH 231 (267)
T ss_pred HHHH
Confidence 3333
No 8
>KOG1074|consensus
Probab=99.16 E-value=6.3e-12 Score=82.11 Aligned_cols=55 Identities=27% Similarity=0.419 Sum_probs=48.1
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhcCCC
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek 61 (89)
-+|..|.++|...+.|+.|.++|+|++||+|.+||..|..+.+|.-|...|...-
T Consensus 354 hkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~e~~ 408 (958)
T KOG1074|consen 354 HKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHREKY 408 (958)
T ss_pred chhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeeccccC
Confidence 4689999999999999999999999999999999999999999998877776644
No 9
>PHA02768 hypothetical protein; Provisional
Probab=99.09 E-value=5.2e-11 Score=54.14 Aligned_cols=42 Identities=17% Similarity=0.148 Sum_probs=28.6
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhH
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGA 50 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l 50 (89)
+.|++|++.|...++|..|+++|+ +|+.|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 467777777777777777777776 566777777766655544
No 10
>PHA02768 hypothetical protein; Provisional
Probab=99.02 E-value=9e-11 Score=53.36 Aligned_cols=44 Identities=14% Similarity=0.275 Sum_probs=40.0
Q ss_pred CcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCCCCCC
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGPKPKP 79 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~~~~~ 79 (89)
.|.|+.||+.|...++|..|+++|+ ++++|..|++.|...+.|.
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 4789999999999999999999999 6999999999999777664
No 11
>PHA00733 hypothetical protein
Probab=98.96 E-value=4e-11 Score=63.92 Aligned_cols=75 Identities=15% Similarity=0.267 Sum_probs=58.7
Q ss_pred CccchhhcccHHHHHHH--HH---HhcCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCCCCCCCCcc
Q psy13211 9 STDIQVRMFRIHIIRNH--YR---KHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGPKPKPDSTR 83 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h--~~---~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~~~~~~~~~ 83 (89)
|.+|...|.....|..+ .. .+.+++||.|..|+..|.....|..|++.+ +.+|.|..|++.|.....|..|+.
T Consensus 43 ~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~ 120 (128)
T PHA00733 43 RAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVC 120 (128)
T ss_pred HHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHH
Confidence 88888777766555544 11 234578999999999999999999998865 468999999999999888877755
Q ss_pred hh
Q psy13211 84 SL 85 (89)
Q Consensus 84 ~~ 85 (89)
..
T Consensus 121 ~~ 122 (128)
T PHA00733 121 KK 122 (128)
T ss_pred Hh
Confidence 43
No 12
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.92 E-value=6.7e-10 Score=43.55 Aligned_cols=25 Identities=48% Similarity=1.012 Sum_probs=18.9
Q ss_pred HHHHHHHHhcCCCCcccccchhhhc
Q psy13211 21 IIRNHYRKHTGRKPFKCVVCKQFFA 45 (89)
Q Consensus 21 ~l~~h~~~h~~~~p~~c~~c~~~f~ 45 (89)
+|..|+++|+|++||.|..|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4667788888888888888877764
No 13
>KOG3608|consensus
Probab=98.83 E-value=1.1e-09 Score=66.35 Aligned_cols=78 Identities=21% Similarity=0.301 Sum_probs=68.7
Q ss_pred CCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHh--cCCCCCCchHHHhhhcCCCCCCCCcchh
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRT--HGQESCSSLKALRKLRGPKPKPDSTRSL 85 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h--~~ek~~~c~~~~~~~~~~~~~~~~~~~~ 85 (89)
++.-|-+.+..+..|..|.++|++++...|..||..|.....|..|.+.. ....+|.|..|-+.|..++.|..|..-|
T Consensus 181 ~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rH 260 (467)
T KOG3608|consen 181 NWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRH 260 (467)
T ss_pred cchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHh
Confidence 46778899999999999999999999999999999999999999997744 4567999999999999998887776544
No 14
>KOG3608|consensus
Probab=98.77 E-value=1.8e-09 Score=65.47 Aligned_cols=78 Identities=13% Similarity=0.213 Sum_probs=58.5
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHh-HhcCCCCCCchHHHhhhcCCCCCCCCcchh
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLR-RTHGQESCSSLKALRKLRGPKPKPDSTRSL 85 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~-~h~~ek~~~c~~~~~~~~~~~~~~~~~~~~ 85 (89)
+.|..|.+.|.....|..|+..|. ..|.|++|.......+.|..|++ .|...+||+|+.|...+..++.|..|+..|
T Consensus 238 fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~H 315 (467)
T KOG3608|consen 238 FQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVH 315 (467)
T ss_pred hHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhc
Confidence 447777777777777777776664 36778888888888888888877 466778888888888888888887777665
Q ss_pred h
Q psy13211 86 R 86 (89)
Q Consensus 86 ~ 86 (89)
-
T Consensus 316 S 316 (467)
T KOG3608|consen 316 S 316 (467)
T ss_pred c
Confidence 4
No 15
>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=98.74 E-value=1.3e-09 Score=42.70 Aligned_cols=25 Identities=12% Similarity=0.235 Sum_probs=22.7
Q ss_pred hHHHHHhHhcCCCCCCchHHHhhhc
Q psy13211 49 GAYQHLRRTHGQESCSSLKALRKLR 73 (89)
Q Consensus 49 ~l~~h~~~h~~ek~~~c~~~~~~~~ 73 (89)
+|..|+++|++++||.|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4788999999999999999999875
No 16
>PHA00616 hypothetical protein
Probab=98.68 E-value=1.6e-08 Score=43.96 Aligned_cols=32 Identities=3% Similarity=-0.104 Sum_probs=19.8
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccc
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCV 38 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~ 38 (89)
+.|..||+.|...++|..|++.|+|++++.|.
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 35666666666666666666666666666554
No 17
>PHA00616 hypothetical protein
Probab=98.53 E-value=1.1e-07 Score=41.41 Aligned_cols=33 Identities=21% Similarity=0.425 Sum_probs=31.2
Q ss_pred CcccccchhhhcChhhHHHHHhHhcCCCCCCch
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTHGQESCSSL 66 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~ 66 (89)
||+|..||..|....++..|++.+++++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 689999999999999999999999999999874
No 18
>PHA00733 hypothetical protein
Probab=98.52 E-value=1.7e-07 Score=50.06 Aligned_cols=50 Identities=16% Similarity=0.246 Sum_probs=43.6
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhc
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTH 58 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~ 58 (89)
+.|.+|++.|.....|..|++.+ +.++.|..|++.|.....|..|+....
T Consensus 74 y~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 74 YVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred ccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhc
Confidence 46999999999999999999876 357999999999999999998876443
No 19
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.32 E-value=4.4e-07 Score=58.58 Aligned_cols=61 Identities=11% Similarity=0.130 Sum_probs=48.8
Q ss_pred CCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhc
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLR 73 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~ 73 (89)
.|..|++.|. ...|..|+.+++ .|+.|. |+..+ ....|..|+..+.+++++.|..|+..+.
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~ 515 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQ 515 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccc
Confidence 5888888885 567888888874 688888 88644 5678888888888889999998888775
No 20
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.26 E-value=7.5e-07 Score=57.53 Aligned_cols=67 Identities=13% Similarity=0.203 Sum_probs=55.0
Q ss_pred cCCCCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcC----------hhhHHHHHhHhcCCCCCCchHHHhhhc
Q psy13211 4 HGKTKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFAT----------YSGAYQHLRRTHGQESCSSLKALRKLR 73 (89)
Q Consensus 4 ~~~~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~----------~~~l~~h~~~h~~ek~~~c~~~~~~~~ 73 (89)
|....|. |+..+ ....|..|+.+|.+.+|+.|..|+..+.. ...|..|... .|.+++.|..|++.+.
T Consensus 476 Hkpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~-CG~rt~~C~~Cgk~Vr 552 (567)
T PLN03086 476 HEPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI-CGSRTAPCDSCGRSVM 552 (567)
T ss_pred CCCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHh-cCCcceEccccCCeee
Confidence 6566798 99755 66789999999999999999999988842 3478888776 5999999999988665
No 21
>KOG3993|consensus
Probab=98.11 E-value=1.6e-06 Score=53.95 Aligned_cols=27 Identities=15% Similarity=0.110 Sum_probs=23.5
Q ss_pred cCCCCCccchhhcccHHHHHHHHHHhc
Q psy13211 4 HGKTKSTDIQVRMFRIHIIRNHYRKHT 30 (89)
Q Consensus 4 ~~~~~~~~c~~~f~~~~~l~~h~~~h~ 30 (89)
|-.|+|.+|+++|....||..|.++|-
T Consensus 293 ~vEYrCPEC~KVFsCPANLASHRRWHK 319 (500)
T KOG3993|consen 293 HVEYRCPECDKVFSCPANLASHRRWHK 319 (500)
T ss_pred EeeecCCcccccccCchhhhhhhcccC
Confidence 567899999999999999999988873
No 22
>PHA00732 hypothetical protein
Probab=98.05 E-value=1.1e-06 Score=43.15 Aligned_cols=44 Identities=25% Similarity=0.421 Sum_probs=34.6
Q ss_pred CCCccchhhcccHHHHHHHHHH-hcCCCCcccccchhhhcChhhHHHHHhH
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRK-HTGRKPFKCVVCKQFFATYSGAYQHLRR 56 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~-h~~~~p~~c~~c~~~f~~~~~l~~h~~~ 56 (89)
++|.+|++.|....+|..|++. |. ++.|..|++.|.. +..|.+.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~~---l~~H~~~ 46 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYRR---LNQHFYS 46 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeCC---hhhhhcc
Confidence 4699999999999999999874 55 3579999998873 6666644
No 23
>PHA00732 hypothetical protein
Probab=98.02 E-value=4e-06 Score=41.24 Aligned_cols=44 Identities=23% Similarity=0.219 Sum_probs=35.8
Q ss_pred CcccccchhhhcChhhHHHHHhH-hcCCCCCCchHHHhhhcCCCCCCCCcc
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRR-THGQESCSSLKALRKLRGPKPKPDSTR 83 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~-h~~ek~~~c~~~~~~~~~~~~~~~~~~ 83 (89)
||.|..|+..|.....|..|++. |. ++.|..|++.|. .+..|..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~ 45 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFY 45 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhc
Confidence 68899999999999999999874 55 468999999987 3555553
No 24
>KOG3993|consensus
Probab=97.86 E-value=5.6e-07 Score=55.92 Aligned_cols=81 Identities=12% Similarity=0.136 Sum_probs=62.8
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhHhc--------C-------------------
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTH--------G------------------- 59 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~--------~------------------- 59 (89)
+=|..|...|-....|.+|.-...--.-|.|.+|++.|.-.++|..|.+=|. +
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r 347 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER 347 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc
Confidence 3477888888887788888643333346899999999999999999976332 1
Q ss_pred ------CCCCCchHHHhhhcCCCCCCCCcchhhh
Q psy13211 60 ------QESCSSLKALRKLRGPKPKPDSTRSLRK 87 (89)
Q Consensus 60 ------ek~~~c~~~~~~~~~~~~~~~~~~~~~~ 87 (89)
+-.|.|..|++.|.+-.-|..|+.+|++
T Consensus 348 sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 348 SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred cCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 1247899999999999999999887765
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=97.84 E-value=8.4e-06 Score=30.60 Aligned_cols=21 Identities=14% Similarity=0.131 Sum_probs=13.2
Q ss_pred CCccchhhcccHHHHHHHHHH
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRK 28 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~ 28 (89)
.|.+|++.|.....|..|++.
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHhH
Confidence 456666666666666666654
No 26
>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=97.80 E-value=0.00011 Score=33.44 Aligned_cols=49 Identities=16% Similarity=0.279 Sum_probs=35.9
Q ss_pred CCCCccchhhcccHHHHHHHHHH-hcCC-CCcccccchhhhcChhhHHHHHhHh
Q psy13211 6 KTKSTDIQVRMFRIHIIRNHYRK-HTGR-KPFKCVVCKQFFATYSGAYQHLRRT 57 (89)
Q Consensus 6 ~~~~~~c~~~f~~~~~l~~h~~~-h~~~-~p~~c~~c~~~f~~~~~l~~h~~~h 57 (89)
+++|+.|++. .....|..|... |..+ +.+.|++|...+. .+|..|+..+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHh
Confidence 6889999994 556789999665 5543 5689999987544 4777787654
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=97.65 E-value=2.7e-05 Score=29.15 Aligned_cols=23 Identities=35% Similarity=0.817 Sum_probs=20.3
Q ss_pred cccccchhhhcChhhHHHHHhHh
Q psy13211 35 FKCVVCKQFFATYSGAYQHLRRT 57 (89)
Q Consensus 35 ~~c~~c~~~f~~~~~l~~h~~~h 57 (89)
|.|..|++.|.....|..|++.|
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 57999999999999999998764
No 28
>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=97.55 E-value=3.5e-05 Score=30.01 Aligned_cols=24 Identities=33% Similarity=0.712 Sum_probs=14.0
Q ss_pred CcccccchhhhcChhhHHHHHhHh
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRT 57 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h 57 (89)
||.|..|+..|.....|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 355666666666666666665544
No 29
>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=97.38 E-value=0.00013 Score=27.14 Aligned_cols=22 Identities=18% Similarity=0.182 Sum_probs=12.7
Q ss_pred CCccchhhcccHHHHHHHHHHh
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRKH 29 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~h 29 (89)
.|.+|+..|.....|..|+.++
T Consensus 2 ~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 2 QCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp E-SSTS-EESSHHHHHHHHHHH
T ss_pred CCcCCCCcCCcHHHHHHHHHhh
Confidence 4666666666666666666554
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=97.17 E-value=0.00029 Score=26.16 Aligned_cols=23 Identities=35% Similarity=0.729 Sum_probs=18.6
Q ss_pred cccccchhhhcChhhHHHHHhHh
Q psy13211 35 FKCVVCKQFFATYSGAYQHLRRT 57 (89)
Q Consensus 35 ~~c~~c~~~f~~~~~l~~h~~~h 57 (89)
|.|..|+..|.....|..|+..+
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 57999999999999999998765
No 31
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.17 E-value=0.00071 Score=25.40 Aligned_cols=22 Identities=14% Similarity=0.271 Sum_probs=13.6
Q ss_pred CCccchhhcccHHHHHHHHHHh
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRKH 29 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~h 29 (89)
.|.+|++.|.....+..|+..|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4666666666666666666544
No 32
>PRK04860 hypothetical protein; Provisional
Probab=97.05 E-value=0.00015 Score=40.22 Aligned_cols=38 Identities=18% Similarity=0.359 Sum_probs=31.5
Q ss_pred CcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCC
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGP 75 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~ 75 (89)
+|.|. |+. ....+..|.++++++++|.|..|++.+...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 68897 876 666788899999999999999998877643
No 33
>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=97.05 E-value=0.00016 Score=28.07 Aligned_cols=24 Identities=17% Similarity=0.290 Sum_probs=21.0
Q ss_pred CCCccchhhcccHHHHHHHHHHhc
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHT 30 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~ 30 (89)
+.|.+|++.|.....|..|++.|.
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhc
Confidence 468999999999999999987664
No 34
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.95 E-value=0.0011 Score=24.84 Aligned_cols=24 Identities=25% Similarity=0.652 Sum_probs=20.5
Q ss_pred cccccchhhhcChhhHHHHHhHhc
Q psy13211 35 FKCVVCKQFFATYSGAYQHLRRTH 58 (89)
Q Consensus 35 ~~c~~c~~~f~~~~~l~~h~~~h~ 58 (89)
+.|..|+..|.....+..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 468899999999999999988654
No 35
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.82 E-value=0.0013 Score=29.44 Aligned_cols=33 Identities=18% Similarity=0.402 Sum_probs=22.3
Q ss_pred cCCCCcccccchhhhcChhhHHHHHhHhcCCCC
Q psy13211 30 TGRKPFKCVVCKQFFATYSGAYQHLRRTHGQES 62 (89)
Q Consensus 30 ~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~ 62 (89)
..+.|..|++|+..+....+|.+|+.+..+.+|
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 356688899999999999999999888777665
No 36
>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=96.62 E-value=0.00059 Score=31.06 Aligned_cols=49 Identities=12% Similarity=0.146 Sum_probs=34.2
Q ss_pred CcccccchhhhcChhhHHHHHhH-hcCC-CCCCchHHHhhhcCCCCCCCCcchh
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRR-THGQ-ESCSSLKALRKLRGPKPKPDSTRSL 85 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~-h~~e-k~~~c~~~~~~~~~~~~~~~~~~~~ 85 (89)
.|.|+.|++. .....|..|... |..+ +.+.|+.|...+.. ++..|+...
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~--~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVTD--NLIRHLNSQ 52 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhhh--HHHHHHHHh
Confidence 4789999994 456778899664 4443 57899999876543 665665543
No 37
>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=96.52 E-value=0.0029 Score=28.38 Aligned_cols=27 Identities=15% Similarity=0.126 Sum_probs=20.6
Q ss_pred CCccchhhcccHHHHHHHHHHhcCCCC
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRKHTGRKP 34 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~h~~~~p 34 (89)
+|++|+..+.+..+|..|+..+.+.+|
T Consensus 26 tCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 26 TCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp E-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCcchhhccchhhHHHHHHHHhcccC
Confidence 399999999999999999988877765
No 38
>PRK04860 hypothetical protein; Provisional
Probab=96.45 E-value=0.001 Score=37.03 Aligned_cols=37 Identities=19% Similarity=0.345 Sum_probs=30.2
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcCh
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATY 47 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~ 47 (89)
+.|. |+. ....+..|.+++.++++|.|..|+..+...
T Consensus 120 Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 120 YRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 5576 876 455688999999999999999999877653
No 39
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.45 E-value=0.0021 Score=32.38 Aligned_cols=49 Identities=18% Similarity=0.392 Sum_probs=17.9
Q ss_pred CccchhhcccHHHHHHHHHHhcCC-----------------------CCcccccchhhhcChhhHHHHHhHh
Q psy13211 9 STDIQVRMFRIHIIRNHYRKHTGR-----------------------KPFKCVVCKQFFATYSGAYQHLRRT 57 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~~~h~~~-----------------------~p~~c~~c~~~f~~~~~l~~h~~~h 57 (89)
|..|+..|.....|..|+....+. ..+.|..|+..|.....|..|++.+
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -----------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 778888888888888887532220 1367888888888888888887753
No 40
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.10 E-value=0.0044 Score=38.04 Aligned_cols=53 Identities=15% Similarity=0.309 Sum_probs=41.0
Q ss_pred CCCCccccc--chhhhcChhhHHHHHhH-h------------------cCCCCCCchHHHhhhcCCCCCCCCcc
Q psy13211 31 GRKPFKCVV--CKQFFATYSGAYQHLRR-T------------------HGQESCSSLKALRKLRGPKPKPDSTR 83 (89)
Q Consensus 31 ~~~p~~c~~--c~~~f~~~~~l~~h~~~-h------------------~~ek~~~c~~~~~~~~~~~~~~~~~~ 83 (89)
+++||.|.+ |.+.+.....|.-|+.. | ...|||+|..|.++...-+.|+-|..
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 458999976 88999998888887542 2 12489999999999888777776643
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.02 E-value=0.0034 Score=23.68 Aligned_cols=20 Identities=35% Similarity=0.720 Sum_probs=10.2
Q ss_pred ccccchhhhcChhhHHHHHh
Q psy13211 36 KCVVCKQFFATYSGAYQHLR 55 (89)
Q Consensus 36 ~c~~c~~~f~~~~~l~~h~~ 55 (89)
.|.+|...|.....+..|++
T Consensus 2 ~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCcCCHHHHHHHHC
Confidence 35555555555555555543
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.01 E-value=0.016 Score=21.55 Aligned_cols=20 Identities=10% Similarity=0.173 Sum_probs=9.8
Q ss_pred CCccchhhcccHHHHHHHHHH
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRK 28 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~ 28 (89)
+|+.|+.... ...|..|+..
T Consensus 2 ~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 2 KCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp E-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCcCC-HHHHHHHHHh
Confidence 4555665554 4555556554
No 43
>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=94.42 E-value=0.0094 Score=23.01 Aligned_cols=19 Identities=26% Similarity=0.705 Sum_probs=9.3
Q ss_pred ccccchhhhcChhhHHHHH
Q psy13211 36 KCVVCKQFFATYSGAYQHL 54 (89)
Q Consensus 36 ~c~~c~~~f~~~~~l~~h~ 54 (89)
.|..|++.|.....+..|+
T Consensus 3 ~C~~C~k~f~~~~~~~~H~ 21 (27)
T PF12171_consen 3 YCDACDKYFSSENQLKQHM 21 (27)
T ss_dssp BBTTTTBBBSSHHHHHCCT
T ss_pred CcccCCCCcCCHHHHHHHH
Confidence 3555555555555444443
No 44
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.03 E-value=0.065 Score=20.37 Aligned_cols=20 Identities=5% Similarity=0.031 Sum_probs=12.1
Q ss_pred CCCccchhhcccHHHHHHHHH
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYR 27 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~ 27 (89)
.+|..|++.| ....|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3577777777 3445666653
No 45
>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=92.68 E-value=0.084 Score=21.34 Aligned_cols=19 Identities=11% Similarity=-0.024 Sum_probs=9.3
Q ss_pred CCccchhhcccHHHHHHHH
Q psy13211 8 KSTDIQVRMFRIHIIRNHY 26 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~ 26 (89)
-|..|+..|.....+..|+
T Consensus 5 ~C~~C~~~~~~~~~~~~H~ 23 (35)
T smart00451 5 YCKLCNVTFTDEISVEAHL 23 (35)
T ss_pred EccccCCccCCHHHHHHHH
Confidence 3555555555444444443
No 46
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.61 E-value=0.014 Score=36.32 Aligned_cols=59 Identities=24% Similarity=0.503 Sum_probs=43.2
Q ss_pred CCCccchhhcccHHHHHHHHH--HhcCC--CCcccc--cchhhhcChhhHHHHHhHhcCCCCCCc
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYR--KHTGR--KPFKCV--VCKQFFATYSGAYQHLRRTHGQESCSS 65 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~--~h~~~--~p~~c~--~c~~~f~~~~~l~~h~~~h~~ek~~~c 65 (89)
..+..|...|.....+..|.+ .|.++ +|+.|. .|+..|.....+..|...+.+-.++.+
T Consensus 290 ~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (467)
T COG5048 290 IKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKE 354 (467)
T ss_pred CCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcccc
Confidence 456777777777777777777 67777 777777 677888777777777777776665554
No 47
>KOG1146|consensus
Probab=91.13 E-value=0.19 Score=36.46 Aligned_cols=54 Identities=22% Similarity=0.314 Sum_probs=43.2
Q ss_pred cccCCCCCccchhhcccHHHHHHHHHH-hc------------------------CCCCcccccchhhhcChhhHHHHHh
Q psy13211 2 FFHGKTKSTDIQVRMFRIHIIRNHYRK-HT------------------------GRKPFKCVVCKQFFATYSGAYQHLR 55 (89)
Q Consensus 2 ~~~~~~~~~~c~~~f~~~~~l~~h~~~-h~------------------------~~~p~~c~~c~~~f~~~~~l~~h~~ 55 (89)
+|--+.+|..|+..|.....|..|+++ |. +.+||.|..|...+....+|..|++
T Consensus 461 S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 461 SFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred cccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 444678899999999999999999987 21 1247888889888888888888876
No 48
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.68 E-value=0.059 Score=33.55 Aligned_cols=56 Identities=18% Similarity=0.156 Sum_probs=49.0
Q ss_pred CCcccccchhhhcChhhHHHHHh--HhcCC--CCCCch--HHHhhhcCCCCCCCCcchhhhc
Q psy13211 33 KPFKCVVCKQFFATYSGAYQHLR--RTHGQ--ESCSSL--KALRKLRGPKPKPDSTRSLRKK 88 (89)
Q Consensus 33 ~p~~c~~c~~~f~~~~~l~~h~~--~h~~e--k~~~c~--~~~~~~~~~~~~~~~~~~~~~~ 88 (89)
.++.|..|...|.....+..|.+ .|.++ +++.|. .|++.|.....+..|...++..
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~ 349 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI 349 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCC
Confidence 36788889999999999999999 89999 999999 7999999999888888777653
No 49
>KOG2186|consensus
Probab=90.46 E-value=0.073 Score=31.80 Aligned_cols=46 Identities=13% Similarity=0.251 Sum_probs=31.5
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHh
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLR 55 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~ 55 (89)
+.|.+||....-. .+-.|+..-++ .-|.|..|+..|.. .....|..
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 5688888766443 46667766555 56888889988877 44555654
No 50
>KOG4167|consensus
Probab=89.24 E-value=0.15 Score=34.93 Aligned_cols=26 Identities=19% Similarity=0.317 Sum_probs=22.8
Q ss_pred CCCCCccchhhcccHHHHHHHHHHhc
Q psy13211 5 GKTKSTDIQVRMFRIHIIRNHYRKHT 30 (89)
Q Consensus 5 ~~~~~~~c~~~f~~~~~l~~h~~~h~ 30 (89)
|-++|.+|+++|.....+..||++|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 45679999999999889999999885
No 51
>KOG2893|consensus
Probab=88.50 E-value=0.18 Score=30.11 Aligned_cols=41 Identities=22% Similarity=0.315 Sum_probs=28.9
Q ss_pred CccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHH
Q psy13211 9 STDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQH 53 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h 53 (89)
|=.|++.|....-|.+|++. +.|+|.+|.+..-+...|..|
T Consensus 13 cwycnrefddekiliqhqka----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceee
Confidence 77889999888888888764 678899996444344444444
No 52
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=88.00 E-value=0.035 Score=25.40 Aligned_cols=28 Identities=18% Similarity=0.488 Sum_probs=19.7
Q ss_pred hcCCCCcccccchhhhcChhhHHHHHhH
Q psy13211 29 HTGRKPFKCVVCKQFFATYSGAYQHLRR 56 (89)
Q Consensus 29 h~~~~p~~c~~c~~~f~~~~~l~~h~~~ 56 (89)
..||.-+.|+.|+..|........|...
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 4566667788888888777777766543
No 53
>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=84.25 E-value=0.25 Score=20.02 Aligned_cols=9 Identities=44% Similarity=1.206 Sum_probs=5.1
Q ss_pred CCcccccch
Q psy13211 33 KPFKCVVCK 41 (89)
Q Consensus 33 ~p~~c~~c~ 41 (89)
.|+.|++|+
T Consensus 16 ~~~~CP~Cg 24 (33)
T cd00350 16 APWVCPVCG 24 (33)
T ss_pred CCCcCcCCC
Confidence 455666664
No 54
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=80.33 E-value=0.71 Score=28.82 Aligned_cols=47 Identities=21% Similarity=0.424 Sum_probs=34.0
Q ss_pred CCcc--chhhcccHHHHHHHHHH-h------------------cCCCCcccccchhhhcChhhHHHHH
Q psy13211 8 KSTD--IQVRMFRIHIIRNHYRK-H------------------TGRKPFKCVVCKQFFATYSGAYQHL 54 (89)
Q Consensus 8 ~~~~--c~~~f~~~~~l~~h~~~-h------------------~~~~p~~c~~c~~~f~~~~~l~~h~ 54 (89)
+|.+ |.+.|.....|+-|+.- | ...+||.|.+|++.+.....|.-|+
T Consensus 351 kCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 351 KCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred cCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 4544 67888877777777642 2 1248999999999998888777663
No 55
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=78.68 E-value=3.1 Score=18.61 Aligned_cols=38 Identities=16% Similarity=0.250 Sum_probs=20.2
Q ss_pred CCcccccchhhhcChhhHHHHHhHh-cCCCCCCchHHHh
Q psy13211 33 KPFKCVVCKQFFATYSGAYQHLRRT-HGQESCSSLKALR 70 (89)
Q Consensus 33 ~p~~c~~c~~~f~~~~~l~~h~~~h-~~ek~~~c~~~~~ 70 (89)
+.+.|..||..|...+.=...-..- ....|-.|..|.+
T Consensus 3 k~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~RC~~CR~ 41 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFTAGEQKFYAEKGFDNEPKRCPSCRQ 41 (49)
T ss_pred eeEEcccCCCeEEEehhHHHHHHhcCCcCCCccCHHHHH
Confidence 4566777777776655443332221 1124666777754
No 56
>KOG1146|consensus
Probab=77.16 E-value=0.48 Score=34.62 Aligned_cols=76 Identities=17% Similarity=0.144 Sum_probs=50.3
Q ss_pred CCCCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcChhhHHHHHhH-----------------hcCCCCCCchH
Q psy13211 5 GKTKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRR-----------------THGQESCSSLK 67 (89)
Q Consensus 5 ~~~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~~~l~~h~~~-----------------h~~ek~~~c~~ 67 (89)
|...|..|.+.+.....+. +. .-..+|.|.+|...|.....++.|.+. +..-.+| |+.
T Consensus 1259 Ge~~c~~~~~~~~~~~~~~-~l---~~~~~~~~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~~-c~~ 1333 (1406)
T KOG1146|consen 1259 GEGECGAVDELLTPSFGIS-TL---DVTHRYLCRQCKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTYH-CLA 1333 (1406)
T ss_pred CcchhhhccccccCcccee-ec---ccchhHHHHHHHhhhcchhHHHHHHHHHHhccCccccCCCCcccCcccccc-chH
Confidence 4455666666665444333 22 234578888888888888888877641 1122456 899
Q ss_pred HHhhhcCCCCCCCCcchh
Q psy13211 68 ALRKLRGPKPKPDSTRSL 85 (89)
Q Consensus 68 ~~~~~~~~~~~~~~~~~~ 85 (89)
|...+.++..++-|.++.
T Consensus 1334 c~~~~~~~~alqihm~~~ 1351 (1406)
T KOG1146|consen 1334 CEVLLSGREALQIHMRSS 1351 (1406)
T ss_pred HHhhcchhHHHHHHHHHh
Confidence 999998888888877654
No 57
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=75.50 E-value=0.85 Score=25.75 Aligned_cols=23 Identities=17% Similarity=0.238 Sum_probs=15.7
Q ss_pred CcccccchhhhcChhhHHHHHhHhcCCCCCCchHHH
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKAL 69 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~ 69 (89)
-|.|.+||.. +.|+-|-+|++|+
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 4788888632 3446678888886
No 58
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=75.07 E-value=4.7 Score=17.13 Aligned_cols=24 Identities=13% Similarity=-0.035 Sum_probs=12.9
Q ss_pred CCCCccchhhccc--HHHHHHHHHHh
Q psy13211 6 KTKSTDIQVRMFR--IHIIRNHYRKH 29 (89)
Q Consensus 6 ~~~~~~c~~~f~~--~~~l~~h~~~h 29 (89)
...|++|+..|.. ......|.+-|
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHH
Confidence 3567777766543 23444554443
No 59
>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=72.13 E-value=2.6 Score=23.54 Aligned_cols=33 Identities=12% Similarity=-0.031 Sum_probs=24.5
Q ss_pred cCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhh
Q psy13211 30 TGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRK 71 (89)
Q Consensus 30 ~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~ 71 (89)
....-|.|+.|+..|.....+. --|.|+.|+..
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 3445688999998887777664 37999988764
No 60
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=68.64 E-value=1.8 Score=20.19 Aligned_cols=31 Identities=13% Similarity=0.101 Sum_probs=17.2
Q ss_pred CcccccchhhhcChhhHHHHHhHhcCCCCCCchHHH
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKAL 69 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~ 69 (89)
.|.|+.||......- .+-.....+|.|++|+
T Consensus 27 ~F~CPnCGe~~I~Rc-----~~CRk~g~~Y~Cp~CG 57 (61)
T COG2888 27 KFPCPNCGEVEIYRC-----AKCRKLGNPYRCPKCG 57 (61)
T ss_pred EeeCCCCCceeeehh-----hhHHHcCCceECCCcC
Confidence 467777874443322 2223334678887774
No 61
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=67.81 E-value=3.2 Score=19.64 Aligned_cols=16 Identities=6% Similarity=-0.078 Sum_probs=13.7
Q ss_pred CcccCCCCCccchhhc
Q psy13211 1 MFFHGKTKSTDIQVRM 16 (89)
Q Consensus 1 ~~~~~~~~~~~c~~~f 16 (89)
|++++-.+|+.|+..-
T Consensus 1 ~~~d~lKPCPFCG~~~ 16 (64)
T PRK09710 1 MRYDNVKPCPFCGCPS 16 (64)
T ss_pred CCcccccCCCCCCCce
Confidence 8899999999999653
No 62
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=66.38 E-value=0.42 Score=26.59 Aligned_cols=16 Identities=25% Similarity=0.721 Sum_probs=11.6
Q ss_pred cccccchhhhcChhhH
Q psy13211 35 FKCVVCKQFFATYSGA 50 (89)
Q Consensus 35 ~~c~~c~~~f~~~~~l 50 (89)
++|+.||..|.....+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 7788888888765544
No 63
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=64.77 E-value=5.5 Score=17.51 Aligned_cols=19 Identities=21% Similarity=0.260 Sum_probs=12.4
Q ss_pred CccchhhcccH-----HHHHHHHH
Q psy13211 9 STDIQVRMFRI-----HIIRNHYR 27 (89)
Q Consensus 9 ~~~c~~~f~~~-----~~l~~h~~ 27 (89)
|..|++.+... ++|..|+.
T Consensus 21 C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 21 CKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred ecCCCCEeeeCCCCCcHHHHHHHH
Confidence 77788776544 46666665
No 64
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=63.96 E-value=2.4 Score=25.02 Aligned_cols=25 Identities=20% Similarity=0.538 Sum_probs=17.6
Q ss_pred CcccccchhhhcChhhHHHHHhHhc
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTH 58 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~ 58 (89)
-|.|.+|++.|.....+.+|+..-+
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred EECCCCCCcccCChHHHHHHHhhcC
Confidence 4788889999988888888876433
No 65
>PF15269 zf-C2H2_7: Zinc-finger
Probab=63.77 E-value=4.7 Score=17.65 Aligned_cols=21 Identities=24% Similarity=0.605 Sum_probs=16.2
Q ss_pred cccccchhhhcChhhHHHHHh
Q psy13211 35 FKCVVCKQFFATYSGAYQHLR 55 (89)
Q Consensus 35 ~~c~~c~~~f~~~~~l~~h~~ 55 (89)
|+|.+|+-.....+.|..|++
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 478888877777788887765
No 66
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=62.57 E-value=4.4 Score=23.13 Aligned_cols=32 Identities=16% Similarity=0.089 Sum_probs=22.3
Q ss_pred CCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhh
Q psy13211 32 RKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKL 72 (89)
Q Consensus 32 ~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~ 72 (89)
..-|.|+.|+..|.....+. --|.|+.|+...
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 34578888888887766542 368888887643
No 67
>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=61.73 E-value=6.7 Score=21.38 Aligned_cols=21 Identities=19% Similarity=0.401 Sum_probs=12.9
Q ss_pred CccchhhcccHHHHHHHHHHhcCC
Q psy13211 9 STDIQVRMFRIHIIRNHYRKHTGR 32 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~~~h~~~ 32 (89)
|-+||+.|.. |..|.+.|.|-
T Consensus 75 clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 75 CLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp -TBT--EESB---HHHHHHHTT-S
T ss_pred EccCCcccch---HHHHHHHccCC
Confidence 8889998876 47888887653
No 68
>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=59.57 E-value=2.4 Score=17.26 Aligned_cols=8 Identities=50% Similarity=1.252 Sum_probs=4.0
Q ss_pred Ccccccch
Q psy13211 34 PFKCVVCK 41 (89)
Q Consensus 34 p~~c~~c~ 41 (89)
|..|++|+
T Consensus 18 p~~CP~Cg 25 (34)
T cd00729 18 PEKCPICG 25 (34)
T ss_pred CCcCcCCC
Confidence 44555554
No 69
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=59.55 E-value=4.4 Score=16.75 Aligned_cols=31 Identities=19% Similarity=0.393 Sum_probs=14.3
Q ss_pred CccchhhcccHHHHHHHHHHhcCCCCcccccchhhh
Q psy13211 9 STDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFF 44 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f 44 (89)
|+.|+..|.-... +...+.....|..|+..|
T Consensus 5 CP~C~~~f~v~~~-----~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 5 CPNCQTRFRVPDD-----KLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred CCCCCceEEcCHH-----HcccCCcEEECCCCCcEe
Confidence 5566655543321 122233345566665544
No 70
>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=58.40 E-value=13 Score=19.13 Aligned_cols=19 Identities=16% Similarity=0.233 Sum_probs=9.4
Q ss_pred ccchhhhcChhhHHHHHhH
Q psy13211 38 VVCKQFFATYSGAYQHLRR 56 (89)
Q Consensus 38 ~~c~~~f~~~~~l~~h~~~ 56 (89)
..|+........+..|.+.
T Consensus 88 ~~C~y~~~~~~~m~~H~~~ 106 (109)
T PF12013_consen 88 PHCGYITRSKKTMRKHWRK 106 (109)
T ss_pred CCCCcEeccHHHHHHHHHH
Confidence 4455555555555555443
No 71
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=56.10 E-value=2.3 Score=21.43 Aligned_cols=37 Identities=22% Similarity=0.247 Sum_probs=24.8
Q ss_pred CCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCCCCCC
Q psy13211 33 KPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGPKPKP 79 (89)
Q Consensus 33 ~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~~~~~ 79 (89)
.++.|+.|++.- ..++-+| .+.|.+|+..|.+..-.+
T Consensus 34 ~~~~Cp~C~~~~--------VkR~a~G--IW~C~kCg~~fAGgay~P 70 (89)
T COG1997 34 AKHVCPFCGRTT--------VKRIATG--IWKCRKCGAKFAGGAYTP 70 (89)
T ss_pred cCCcCCCCCCcc--------eeeeccC--eEEcCCCCCeeccccccc
Confidence 367888887441 2233334 889999999888776544
No 72
>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=55.37 E-value=11 Score=14.21 Aligned_cols=18 Identities=28% Similarity=0.416 Sum_probs=8.6
Q ss_pred ccccchhhhcChhhHHHHH
Q psy13211 36 KCVVCKQFFATYSGAYQHL 54 (89)
Q Consensus 36 ~c~~c~~~f~~~~~l~~h~ 54 (89)
.|++|...+ ....+..|.
T Consensus 3 ~CPiC~~~v-~~~~in~HL 20 (26)
T smart00734 3 QCPVCFREV-PENLINSHL 20 (26)
T ss_pred cCCCCcCcc-cHHHHHHHH
Confidence 355565555 334444443
No 73
>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=53.81 E-value=6.9 Score=16.55 Aligned_cols=19 Identities=11% Similarity=-0.012 Sum_probs=10.7
Q ss_pred CCccchhhcccH----HHHHHHH
Q psy13211 8 KSTDIQVRMFRI----HIIRNHY 26 (89)
Q Consensus 8 ~~~~c~~~f~~~----~~l~~h~ 26 (89)
.|..|++.+... ++|..|+
T Consensus 18 ~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 18 KCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp EETTTTEE-----SSTHHHHHHH
T ss_pred EeCCCCeEEeeCCCcHHHHHHhh
Confidence 488888777653 5677676
No 74
>KOG3408|consensus
Probab=53.61 E-value=12 Score=20.14 Aligned_cols=22 Identities=23% Similarity=0.714 Sum_probs=18.9
Q ss_pred CcccccchhhhcChhhHHHHHh
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLR 55 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~ 55 (89)
-|.|..|.+.|.....|..|.+
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHh
Confidence 4789999999999999988865
No 75
>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=52.30 E-value=1.5 Score=19.39 Aligned_cols=10 Identities=20% Similarity=0.179 Sum_probs=5.1
Q ss_pred CCCccchhhc
Q psy13211 7 TKSTDIQVRM 16 (89)
Q Consensus 7 ~~~~~c~~~f 16 (89)
+.|.+|+..|
T Consensus 6 y~C~~Cg~~f 15 (52)
T TIGR02605 6 YRCTACGHRF 15 (52)
T ss_pred EEeCCCCCEe
Confidence 3455555544
No 76
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=51.71 E-value=11 Score=20.67 Aligned_cols=39 Identities=10% Similarity=0.196 Sum_probs=24.7
Q ss_pred CCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhc
Q psy13211 31 GRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLR 73 (89)
Q Consensus 31 ~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~ 73 (89)
+..-|.|+.|+..|.....+.. .. .+..|.|+.|+....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEEE
Confidence 3446889999988876543321 11 234499999977443
No 77
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=49.28 E-value=2.8 Score=23.36 Aligned_cols=33 Identities=21% Similarity=0.438 Sum_probs=20.2
Q ss_pred CCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHh
Q psy13211 33 KPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALR 70 (89)
Q Consensus 33 ~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~ 70 (89)
-+|.|. |+..+.. ..+|-.+..|+ .|.|..|+.
T Consensus 116 ~~Y~C~-C~q~~l~---~RRhn~~~~g~-~YrC~~C~g 148 (156)
T COG3091 116 YPYRCQ-CQQHYLR---IRRHNTVRRGE-VYRCGKCGG 148 (156)
T ss_pred eeEEee-cCCccch---hhhcccccccc-eEEeccCCc
Confidence 367787 8766533 22333445566 888888865
No 78
>KOG0402|consensus
Probab=47.17 E-value=5.7 Score=19.86 Aligned_cols=12 Identities=17% Similarity=0.110 Sum_probs=9.7
Q ss_pred cCCCCCccchhh
Q psy13211 4 HGKTKSTDIQVR 15 (89)
Q Consensus 4 ~~~~~~~~c~~~ 15 (89)
|.++.|+.|++-
T Consensus 34 haky~CsfCGK~ 45 (92)
T KOG0402|consen 34 HAKYTCSFCGKK 45 (92)
T ss_pred hhhhhhhhcchh
Confidence 778889999863
No 79
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=46.91 E-value=6 Score=17.16 Aligned_cols=10 Identities=0% Similarity=-0.270 Sum_probs=5.5
Q ss_pred CCCccchhhc
Q psy13211 7 TKSTDIQVRM 16 (89)
Q Consensus 7 ~~~~~c~~~f 16 (89)
+.|.+|+..|
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 4456666544
No 80
>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=45.56 E-value=2.2 Score=17.51 Aligned_cols=8 Identities=0% Similarity=0.177 Sum_probs=3.9
Q ss_pred Cccchhhc
Q psy13211 9 STDIQVRM 16 (89)
Q Consensus 9 ~~~c~~~f 16 (89)
|+.|+..|
T Consensus 5 CP~C~~~~ 12 (38)
T TIGR02098 5 CPNCKTSF 12 (38)
T ss_pred CCCCCCEE
Confidence 44555444
No 81
>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=43.98 E-value=12 Score=16.19 Aligned_cols=16 Identities=25% Similarity=0.306 Sum_probs=12.0
Q ss_pred ccccchhhhcChhhHH
Q psy13211 36 KCVVCKQFFATYSGAY 51 (89)
Q Consensus 36 ~c~~c~~~f~~~~~l~ 51 (89)
.|..|++.|.+.....
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 5888998888866554
No 82
>PF12907 zf-met2: Zinc-binding
Probab=43.95 E-value=9.5 Score=16.27 Aligned_cols=26 Identities=12% Similarity=0.164 Sum_probs=14.6
Q ss_pred CCCccchhhcccH---HHHHHHHH-HhcCC
Q psy13211 7 TKSTDIQVRMFRI---HIIRNHYR-KHTGR 32 (89)
Q Consensus 7 ~~~~~c~~~f~~~---~~l~~h~~-~h~~~ 32 (89)
..|.+|-.+|... ..|..|.. .|+..
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 3577777666433 44666654 35543
No 83
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=43.57 E-value=42 Score=21.73 Aligned_cols=35 Identities=17% Similarity=0.280 Sum_probs=23.4
Q ss_pred ccCCCCCccchhhcccHHHHHHHHHHhcCCCCcccc
Q psy13211 3 FHGKTKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCV 38 (89)
Q Consensus 3 ~~~~~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~ 38 (89)
|-|-+.|..|..-|-....|..|++... ++-+.|+
T Consensus 217 FKGHP~C~FC~~~FYdDDEL~~HcR~~H-E~ChICD 251 (493)
T COG5236 217 FKGHPLCIFCKIYFYDDDELRRHCRLRH-EACHICD 251 (493)
T ss_pred cCCCchhhhccceecChHHHHHHHHhhh-hhhhhhh
Confidence 4456788889887777778888877533 2344444
No 84
>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=43.33 E-value=3.5 Score=16.17 Aligned_cols=8 Identities=13% Similarity=0.123 Sum_probs=3.5
Q ss_pred Cccchhhc
Q psy13211 9 STDIQVRM 16 (89)
Q Consensus 9 ~~~c~~~f 16 (89)
|.+|++.|
T Consensus 3 CiDC~~~F 10 (28)
T PF08790_consen 3 CIDCSKDF 10 (28)
T ss_dssp ETTTTEEE
T ss_pred eecCCCCc
Confidence 34444444
No 85
>KOG4167|consensus
Probab=42.49 E-value=5.3 Score=27.99 Aligned_cols=25 Identities=8% Similarity=0.008 Sum_probs=21.7
Q ss_pred CCCchHHHhhhcCCCCCCCCcchhh
Q psy13211 62 SCSSLKALRKLRGPKPKPDSTRSLR 86 (89)
Q Consensus 62 ~~~c~~~~~~~~~~~~~~~~~~~~~ 86 (89)
-|.|..|++.|--.+.+.+|+.+|+
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 5789999999999998888888875
No 86
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=41.27 E-value=21 Score=18.78 Aligned_cols=15 Identities=27% Similarity=0.592 Sum_probs=7.9
Q ss_pred CCcccccchhhhcCh
Q psy13211 33 KPFKCVVCKQFFATY 47 (89)
Q Consensus 33 ~p~~c~~c~~~f~~~ 47 (89)
.|..|+.||..|...
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 355566565555443
No 87
>KOG2785|consensus
Probab=40.97 E-value=41 Score=21.89 Aligned_cols=49 Identities=20% Similarity=0.310 Sum_probs=34.7
Q ss_pred CCCccchhhcccHHHHHHHHHHhcCC-----------------------CCcccccch---hhhcChhhHHHHHh
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRKHTGR-----------------------KPFKCVVCK---QFFATYSGAYQHLR 55 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~h~~~-----------------------~p~~c~~c~---~~f~~~~~l~~h~~ 55 (89)
+-|-.|++.+.....-..||..++|- ..+.|..|. ..|........|+.
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMR 241 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHh
Confidence 45888998888887777888776652 135566666 77777777777765
No 88
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=40.67 E-value=11 Score=15.50 Aligned_cols=9 Identities=22% Similarity=0.862 Sum_probs=4.0
Q ss_pred cccccchhh
Q psy13211 35 FKCVVCKQF 43 (89)
Q Consensus 35 ~~c~~c~~~ 43 (89)
..|..|+..
T Consensus 26 v~C~~C~~~ 34 (36)
T PF13717_consen 26 VRCSKCGHV 34 (36)
T ss_pred EECCCCCCE
Confidence 344444433
No 89
>KOG0227|consensus
Probab=40.56 E-value=9.3 Score=22.29 Aligned_cols=20 Identities=5% Similarity=-0.154 Sum_probs=8.6
Q ss_pred CCCchHHHhhhcCCCCCCCC
Q psy13211 62 SCSSLKALRKLRGPKPKPDS 81 (89)
Q Consensus 62 ~~~c~~~~~~~~~~~~~~~~ 81 (89)
.|.|.-|+..|..+..+.+|
T Consensus 53 ~yeCkLClT~H~ne~Syl~H 72 (222)
T KOG0227|consen 53 KYECKLCLTLHNNEGSYLAH 72 (222)
T ss_pred ceeehhhhhhhcchhhhhhh
Confidence 34444444444444444333
No 90
>KOG4173|consensus
Probab=39.62 E-value=29 Score=20.64 Aligned_cols=18 Identities=11% Similarity=0.082 Sum_probs=9.2
Q ss_pred CccchhhcccHHHHHHHH
Q psy13211 9 STDIQVRMFRIHIIRNHY 26 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~ 26 (89)
|++|.+.|....-|-.|.
T Consensus 109 Cs~C~r~~Pt~hLLd~HI 126 (253)
T KOG4173|consen 109 CSFCKRAFPTGHLLDAHI 126 (253)
T ss_pred hHHHHHhCCchhhhhHHH
Confidence 555555555544444443
No 91
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=39.53 E-value=9.4 Score=20.64 Aligned_cols=22 Identities=9% Similarity=0.120 Sum_probs=16.4
Q ss_pred cCCCCCCchHHHhhhcCCCCCC
Q psy13211 58 HGQESCSSLKALRKLRGPKPKP 79 (89)
Q Consensus 58 ~~ek~~~c~~~~~~~~~~~~~~ 79 (89)
.+...|.|..|++.|+.....+
T Consensus 49 ~~~qRyrC~~C~~tf~~~~~~~ 70 (129)
T COG3677 49 RGHQRYKCKSCGSTFTVETGSP 70 (129)
T ss_pred ccccccccCCcCcceeeeccCc
Confidence 3467789999999888765543
No 92
>KOG2593|consensus
Probab=39.23 E-value=22 Score=23.39 Aligned_cols=38 Identities=8% Similarity=0.121 Sum_probs=24.6
Q ss_pred cCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHh
Q psy13211 30 TGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALR 70 (89)
Q Consensus 30 ~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~ 70 (89)
+....|.|+.|.+.|.....+. -+...+-.|.|..|+.
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCccccchhhhHHHH---hhcccCceEEEecCCC
Confidence 3455789999988887765543 2333334788877754
No 93
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=38.74 E-value=8.1 Score=16.20 Aligned_cols=15 Identities=7% Similarity=-0.020 Sum_probs=7.4
Q ss_pred CCCchHHHhhhcCCC
Q psy13211 62 SCSSLKALRKLRGPK 76 (89)
Q Consensus 62 ~~~c~~~~~~~~~~~ 76 (89)
|+.|..|++.|-...
T Consensus 12 ~f~C~~C~~~FC~~H 26 (39)
T smart00154 12 GFKCRHCGNLFCGEH 26 (39)
T ss_pred CeECCccCCcccccc
Confidence 455555555444443
No 94
>KOG0782|consensus
Probab=37.67 E-value=11 Score=25.98 Aligned_cols=20 Identities=20% Similarity=0.187 Sum_probs=16.0
Q ss_pred CcccCCCC----CccchhhcccHH
Q psy13211 1 MFFHGKTK----STDIQVRMFRIH 20 (89)
Q Consensus 1 ~~~~~~~~----~~~c~~~f~~~~ 20 (89)
||||+|+- |+.|.++|-.+-
T Consensus 267 f~FhsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 267 FFFHSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred eeeccccEEEEEehHHHHHhhcch
Confidence 78999886 999998886553
No 95
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=37.29 E-value=16 Score=20.10 Aligned_cols=21 Identities=14% Similarity=0.256 Sum_probs=16.0
Q ss_pred CccchhhcccHHHHHHHHHHhcCC
Q psy13211 9 STDIQVRMFRIHIIRNHYRKHTGR 32 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~~~h~~~ 32 (89)
|-++|+.|.+ |+.|..+|.|-
T Consensus 79 cLEDGkkfKS---LKRHL~t~~gm 99 (148)
T COG4957 79 CLEDGKKFKS---LKRHLTTHYGL 99 (148)
T ss_pred EeccCcchHH---HHHHHhcccCC
Confidence 7788888843 88999887653
No 96
>KOG4727|consensus
Probab=36.99 E-value=2.8 Score=23.89 Aligned_cols=22 Identities=5% Similarity=-0.215 Sum_probs=19.4
Q ss_pred CCCchHHHhhhcCCCCCCCCcc
Q psy13211 62 SCSSLKALRKLRGPKPKPDSTR 83 (89)
Q Consensus 62 ~~~c~~~~~~~~~~~~~~~~~~ 83 (89)
-|-|+.|..++.+..+|..|+.
T Consensus 75 GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 75 GYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred ceeeeecceeehhhHHHHHHhc
Confidence 5789999999999999998875
No 97
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=36.86 E-value=3.2 Score=28.93 Aligned_cols=11 Identities=9% Similarity=-0.233 Sum_probs=6.9
Q ss_pred CCCCCchHHHh
Q psy13211 60 QESCSSLKALR 70 (89)
Q Consensus 60 ek~~~c~~~~~ 70 (89)
..|..|+.|+.
T Consensus 473 ~~p~~Cp~Cgs 483 (730)
T COG1198 473 PIPQSCPECGS 483 (730)
T ss_pred CCCCCCCCCCC
Confidence 35667777655
No 98
>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=36.04 E-value=11 Score=14.98 Aligned_cols=9 Identities=22% Similarity=0.645 Sum_probs=5.0
Q ss_pred CCcccccch
Q psy13211 33 KPFKCVVCK 41 (89)
Q Consensus 33 ~p~~c~~c~ 41 (89)
.-+.|..|+
T Consensus 18 ~~~vCp~C~ 26 (30)
T PF08274_consen 18 ELLVCPECG 26 (30)
T ss_dssp SSEEETTTT
T ss_pred CEEeCCccc
Confidence 345666664
No 99
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=35.66 E-value=8.6 Score=17.91 Aligned_cols=31 Identities=13% Similarity=0.188 Sum_probs=14.8
Q ss_pred CcccccchhhhcChhhHHHHHhHhcCCCCCCchHHH
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKAL 69 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~ 69 (89)
.|.|..||..-.+.- .+-.....+|.|++|+
T Consensus 25 ~F~CPnCG~~~I~RC-----~~CRk~~~~Y~CP~CG 55 (59)
T PRK14890 25 KFLCPNCGEVIIYRC-----EKCRKQSNPYTCPKCG 55 (59)
T ss_pred EeeCCCCCCeeEeec-----hhHHhcCCceECCCCC
Confidence 466777765422211 1112223567777664
No 100
>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=34.72 E-value=15 Score=13.94 Aligned_cols=9 Identities=0% Similarity=-0.167 Sum_probs=5.8
Q ss_pred CCccchhhc
Q psy13211 8 KSTDIQVRM 16 (89)
Q Consensus 8 ~~~~c~~~f 16 (89)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 466777665
No 101
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.01 E-value=28 Score=17.17 Aligned_cols=10 Identities=20% Similarity=0.222 Sum_probs=5.5
Q ss_pred CCCccchhhc
Q psy13211 7 TKSTDIQVRM 16 (89)
Q Consensus 7 ~~~~~c~~~f 16 (89)
+.|.+|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 3466666544
No 102
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=33.32 E-value=14 Score=22.46 Aligned_cols=18 Identities=6% Similarity=-0.045 Sum_probs=15.6
Q ss_pred CcccCCCCCccchhhccc
Q psy13211 1 MFFHGKTKSTDIQVRMFR 18 (89)
Q Consensus 1 ~~~~~~~~~~~c~~~f~~ 18 (89)
||=.|.+.|..|+..|..
T Consensus 150 mwG~aef~C~~C~h~F~G 167 (278)
T PF15135_consen 150 MWGIAEFHCPKCRHNFRG 167 (278)
T ss_pred ccceeeeecccccccchh
Confidence 788899999999999853
No 103
>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=32.11 E-value=13 Score=15.76 Aligned_cols=30 Identities=10% Similarity=0.305 Sum_probs=19.3
Q ss_pred CcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHh
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALR 70 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~ 70 (89)
.|.|..||..|.....+. . ..+-.|+.|+.
T Consensus 5 ey~C~~Cg~~fe~~~~~~------~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSIS------E-DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcC------C-CCCCcCCCCCC
Confidence 478889988886644332 1 34667777765
No 104
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=30.79 E-value=27 Score=17.86 Aligned_cols=31 Identities=16% Similarity=0.246 Sum_probs=18.0
Q ss_pred CCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhc
Q psy13211 33 KPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLR 73 (89)
Q Consensus 33 ~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~ 73 (89)
+|..|.-||..|... .-.+|-.|+.|..-..
T Consensus 57 ~Pa~CkkCGfef~~~----------~ik~pSRCP~CKSE~I 87 (97)
T COG3357 57 RPARCKKCGFEFRDD----------KIKKPSRCPKCKSEWI 87 (97)
T ss_pred cChhhcccCcccccc----------ccCCcccCCcchhhcc
Confidence 466777787666441 1224667777755443
No 105
>PTZ00448 hypothetical protein; Provisional
Probab=30.63 E-value=48 Score=21.53 Aligned_cols=23 Identities=13% Similarity=0.365 Sum_probs=14.9
Q ss_pred CCCCccchhhcccHHHHHHHHHH
Q psy13211 6 KTKSTDIQVRMFRIHIIRNHYRK 28 (89)
Q Consensus 6 ~~~~~~c~~~f~~~~~l~~h~~~ 28 (89)
.+.|+.|+-.|........|.++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 35688888777665555556553
No 106
>PLN02294 cytochrome c oxidase subunit Vb
Probab=30.29 E-value=22 Score=20.34 Aligned_cols=15 Identities=47% Similarity=1.088 Sum_probs=11.5
Q ss_pred CCCcccccchhhhcC
Q psy13211 32 RKPFKCVVCKQFFAT 46 (89)
Q Consensus 32 ~~p~~c~~c~~~f~~ 46 (89)
.+|..|.+||..|.-
T Consensus 139 Gkp~RCpeCG~~fkL 153 (174)
T PLN02294 139 GKSFECPVCTQYFEL 153 (174)
T ss_pred CCceeCCCCCCEEEE
Confidence 368889999887754
No 107
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.20 E-value=17 Score=16.16 Aligned_cols=16 Identities=25% Similarity=0.370 Sum_probs=11.8
Q ss_pred ccccchhhhcChhhHH
Q psy13211 36 KCVVCKQFFATYSGAY 51 (89)
Q Consensus 36 ~c~~c~~~f~~~~~l~ 51 (89)
.|.+|++.|.+...+.
T Consensus 14 ICpvCqRPFsWRkKW~ 29 (54)
T COG4338 14 ICPVCQRPFSWRKKWA 29 (54)
T ss_pred hhhhhcCchHHHHHHH
Confidence 5888888888766554
No 108
>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=30.18 E-value=16 Score=14.95 Aligned_cols=30 Identities=10% Similarity=0.238 Sum_probs=18.9
Q ss_pred CcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHh
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALR 70 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~ 70 (89)
.|.|..|+..|....... ....-.|+.|+.
T Consensus 5 ~y~C~~Cg~~fe~~~~~~-------~~~~~~CP~Cg~ 34 (41)
T smart00834 5 EYRCEDCGHTFEVLQKIS-------DDPLATCPECGG 34 (41)
T ss_pred EEEcCCCCCEEEEEEecC-------CCCCCCCCCCCC
Confidence 468888988776543321 134567887765
No 109
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=29.77 E-value=41 Score=17.75 Aligned_cols=21 Identities=24% Similarity=0.662 Sum_probs=18.0
Q ss_pred cccccchhhhcChhhHHHHHh
Q psy13211 35 FKCVVCKQFFATYSGAYQHLR 55 (89)
Q Consensus 35 ~~c~~c~~~f~~~~~l~~h~~ 55 (89)
+-|..|.+.|.....|..|.+
T Consensus 56 hYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 56 HYCIECARYFITEKALMEHKK 76 (126)
T ss_pred eeeehhHHHHHHHHHHHHHhc
Confidence 568899999999999988865
No 110
>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=28.89 E-value=24 Score=18.17 Aligned_cols=17 Identities=35% Similarity=0.809 Sum_probs=12.4
Q ss_pred HhcCCCCcccccchhhhc
Q psy13211 28 KHTGRKPFKCVVCKQFFA 45 (89)
Q Consensus 28 ~h~~~~p~~c~~c~~~f~ 45 (89)
.+.| +|..|..||..|.
T Consensus 74 l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 74 LEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EeCC-CceeCCCCCcEEE
Confidence 3444 6889999987774
No 111
>PHA00626 hypothetical protein
Probab=28.57 E-value=27 Score=16.17 Aligned_cols=17 Identities=12% Similarity=0.241 Sum_probs=13.0
Q ss_pred CCCcccccchhhhcChh
Q psy13211 32 RKPFKCVVCKQFFATYS 48 (89)
Q Consensus 32 ~~p~~c~~c~~~f~~~~ 48 (89)
...|.|..|+..|...+
T Consensus 21 snrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 21 SDDYVCCDCGYNDSKDA 37 (59)
T ss_pred CcceEcCCCCCeechhh
Confidence 45799999998886543
No 112
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=28.30 E-value=7.1 Score=18.95 Aligned_cols=41 Identities=17% Similarity=0.163 Sum_probs=21.3
Q ss_pred CCccchhhcccHHHHHHHHHHhcCCCCcccc--cchhhhcChhhH
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRKHTGRKPFKCV--VCKQFFATYSGA 50 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~--~c~~~f~~~~~l 50 (89)
.|..|+........-... .-..+.-+.|. .||..|.....+
T Consensus 3 ~CP~Cg~~a~irtSr~~s--~~~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 3 HCPLCQHAAHARTSRYIT--DTTKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred cCCCCCCccEEEEChhcC--hhhheeeeecCCCCCCCEEEEEEEE
Confidence 477777554322211111 11334456776 788888765544
No 113
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=27.32 E-value=14 Score=19.43 Aligned_cols=24 Identities=13% Similarity=0.130 Sum_probs=14.0
Q ss_pred cccccchhhhcChhhHHHHHhHhcCCCCCCchHHHh
Q psy13211 35 FKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALR 70 (89)
Q Consensus 35 ~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~ 70 (89)
..|..|+..|..... .+.|+.|+.
T Consensus 71 ~~C~~Cg~~~~~~~~------------~~~CP~Cgs 94 (115)
T TIGR00100 71 CECEDCSEEVSPEID------------LYRCPKCHG 94 (115)
T ss_pred EEcccCCCEEecCCc------------CccCcCCcC
Confidence 467777766544321 356777764
No 114
>KOG2482|consensus
Probab=27.20 E-value=39 Score=21.77 Aligned_cols=22 Identities=14% Similarity=0.163 Sum_probs=19.3
Q ss_pred CCCccchhhcccHHHHHHHHHH
Q psy13211 7 TKSTDIQVRMFRIHIIRNHYRK 28 (89)
Q Consensus 7 ~~~~~c~~~f~~~~~l~~h~~~ 28 (89)
..|-.|.+.|..+..|..||+.
T Consensus 196 ~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred heeeeeccccCCcHHHHHHHHh
Confidence 3588999999999999999985
No 115
>KOG0717|consensus
Probab=26.97 E-value=40 Score=22.64 Aligned_cols=20 Identities=10% Similarity=0.036 Sum_probs=16.0
Q ss_pred CccchhhcccHHHHHHHHHH
Q psy13211 9 STDIQVRMFRIHIIRNHYRK 28 (89)
Q Consensus 9 ~~~c~~~f~~~~~l~~h~~~ 28 (89)
|.+|.++|.+...+..|..+
T Consensus 295 C~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 295 CVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred EeeccccccchHHHHhhHHH
Confidence 78899999888888888653
No 116
>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=26.64 E-value=21 Score=15.92 Aligned_cols=13 Identities=15% Similarity=0.399 Sum_probs=6.8
Q ss_pred ccccchhhhcChh
Q psy13211 36 KCVVCKQFFATYS 48 (89)
Q Consensus 36 ~c~~c~~~f~~~~ 48 (89)
.|++|++.|....
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999998886543
No 117
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=26.24 E-value=30 Score=17.64 Aligned_cols=33 Identities=21% Similarity=0.299 Sum_probs=17.5
Q ss_pred cCCCCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcC
Q psy13211 4 HGKTKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFAT 46 (89)
Q Consensus 4 ~~~~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~ 46 (89)
|.++.|+.|++.-.. +. +.-.+.|..|+..|.-
T Consensus 34 ~a~y~CpfCgk~~vk--------R~--a~GIW~C~~C~~~~AG 66 (90)
T PRK03976 34 RAKHVCPVCGRPKVK--------RV--GTGIWECRKCGAKFAG 66 (90)
T ss_pred hcCccCCCCCCCceE--------EE--EEEEEEcCCCCCEEeC
Confidence 667778888643211 11 1224566666655544
No 118
>PF00446 GnRH: Gonadotropin-releasing hormone; InterPro: IPR002012 The gonadotropin-releasing hormones (GnRH) (gonadoliberin) [] are a family of peptides that play a pivotal role in reproduction. The main function of GnRH is to act on the pituitary to stimulate the synthesis and secretion of luteinizing and follicle-stimulating hormones, but GnRH also acts on the brain, retina, sympathetic nervous system, gonads and placenta in certain species. There seems to be at least three forms of GnRH. The second form is expressed in midbrain and seems to be widespread. The third form has only been found so far in fish. GnRH is a C-terminal amidated decapeptide processed from a larger precursor protein. Four of the ten residues are perfectly conserved in all species where GnRH has been sequenced.; GO: 0005179 hormone activity, 0007275 multicellular organismal development, 0005576 extracellular region
Probab=26.07 E-value=33 Score=9.91 Aligned_cols=6 Identities=33% Similarity=0.557 Sum_probs=2.6
Q ss_pred cccCCC
Q psy13211 2 FFHGKT 7 (89)
Q Consensus 2 ~~~~~~ 7 (89)
|.||+.
T Consensus 3 wS~~w~ 8 (10)
T PF00446_consen 3 WSHGWK 8 (10)
T ss_pred cccccC
Confidence 345443
No 119
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=25.72 E-value=32 Score=17.51 Aligned_cols=33 Identities=18% Similarity=0.201 Sum_probs=17.7
Q ss_pred cCCCCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcC
Q psy13211 4 HGKTKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFAT 46 (89)
Q Consensus 4 ~~~~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~ 46 (89)
|.++.|+.|++.-... .+.-.+.|..|+..|.-
T Consensus 34 ~a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~AG 66 (90)
T PTZ00255 34 HAKYFCPFCGKHAVKR----------QAVGIWRCKGCKKTVAG 66 (90)
T ss_pred hCCccCCCCCCCceee----------eeeEEEEcCCCCCEEeC
Confidence 6677788887432111 11234566666665544
No 120
>KOG1409|consensus
Probab=25.52 E-value=33 Score=22.18 Aligned_cols=40 Identities=20% Similarity=0.172 Sum_probs=24.3
Q ss_pred ccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhhcCCC
Q psy13211 36 KCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKLRGPK 76 (89)
Q Consensus 36 ~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~~~~~ 76 (89)
.|+.|...|-+.- ...+.+.-.|-+...|.+|++.+.+..
T Consensus 284 ~cQ~c~qpffwn~-~~m~~~k~~glr~h~crkcg~avc~~c 323 (404)
T KOG1409|consen 284 SCQKCNQPFFWNF-RQMWDRKQLGLRQHHCRKCGKAVCGKC 323 (404)
T ss_pred hhhhhCchHHHHH-HHHHhhhhhhhhhhhhhhhhhhcCccc
Confidence 4556665554432 334555556667777888888776653
No 121
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.28 E-value=13 Score=20.29 Aligned_cols=13 Identities=23% Similarity=0.539 Sum_probs=9.6
Q ss_pred cccccchhhhcCh
Q psy13211 35 FKCVVCKQFFATY 47 (89)
Q Consensus 35 ~~c~~c~~~f~~~ 47 (89)
+.|..|+..|...
T Consensus 71 ~~C~~CG~~~~~~ 83 (135)
T PRK03824 71 LKCRNCGNEWSLK 83 (135)
T ss_pred EECCCCCCEEecc
Confidence 6788898777654
No 122
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=25.19 E-value=88 Score=17.89 Aligned_cols=39 Identities=10% Similarity=0.190 Sum_probs=24.2
Q ss_pred CCcccccchhhhcChhhHHHHHhH--hcC------C----CCCCchHHHhh
Q psy13211 33 KPFKCVVCKQFFATYSGAYQHLRR--THG------Q----ESCSSLKALRK 71 (89)
Q Consensus 33 ~p~~c~~c~~~f~~~~~l~~h~~~--h~~------e----k~~~c~~~~~~ 71 (89)
....|..|+..|.....+..-... +.+ + .-+-|+.|.+.
T Consensus 113 ~~~~C~~Cg~~f~~~k~i~~~~~~l~~~~~~~~~~~~~~~~~~~Cp~Cr~k 163 (181)
T PRK08222 113 HLQRCSRCERPFAPQKTVALAAELLAQQQNAPQNREMLRAQASVCPECKQR 163 (181)
T ss_pred ccCcCcccCCccCcHhHHHHHHHHhhhccCcHhhHHHHHHHhccCHHHHhh
Confidence 467899999999876555432221 111 1 24679999763
No 123
>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=24.75 E-value=24 Score=20.64 Aligned_cols=28 Identities=7% Similarity=-0.111 Sum_probs=0.0
Q ss_pred hHhcCCCCCCchHHH-hhhcCCCCCCCCc
Q psy13211 55 RRTHGQESCSSLKAL-RKLRGPKPKPDST 82 (89)
Q Consensus 55 ~~h~~ek~~~c~~~~-~~~~~~~~~~~~~ 82 (89)
+.|.-.+.|.|.+|+ ..+.+.+.|..|.
T Consensus 94 KLhGL~~ey~CEICGN~~Y~GrkaFekHF 122 (196)
T PF11931_consen 94 KLHGLGVEYKCEICGNQSYKGRKAFEKHF 122 (196)
T ss_dssp -----------------------------
T ss_pred HHhCCCCeeeeEeCCCcceecHHHHHHhc
Confidence 345556778888884 4666777776663
No 124
>COG1773 Rubredoxin [Energy production and conversion]
Probab=24.65 E-value=20 Score=16.47 Aligned_cols=12 Identities=0% Similarity=-0.255 Sum_probs=8.4
Q ss_pred CCCCccchhhcc
Q psy13211 6 KTKSTDIQVRMF 17 (89)
Q Consensus 6 ~~~~~~c~~~f~ 17 (89)
+..|+.|+..|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 567888887664
No 125
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=24.62 E-value=30 Score=18.78 Aligned_cols=16 Identities=25% Similarity=0.285 Sum_probs=10.6
Q ss_pred CcccCCCCCccchhhcccH
Q psy13211 1 MFFHGKTKSTDIQVRMFRI 19 (89)
Q Consensus 1 ~~~~~~~~~~~c~~~f~~~ 19 (89)
|.|||++. +||.|...
T Consensus 56 lSfHG~tG---tGKn~v~~ 71 (127)
T PF06309_consen 56 LSFHGWTG---TGKNFVSR 71 (127)
T ss_pred EEeecCCC---CcHHHHHH
Confidence 57898766 56766543
No 126
>KOG1842|consensus
Probab=24.42 E-value=61 Score=21.73 Aligned_cols=22 Identities=27% Similarity=0.499 Sum_probs=12.3
Q ss_pred CcccccchhhhcChhhHHHHHh
Q psy13211 34 PFKCVVCKQFFATYSGAYQHLR 55 (89)
Q Consensus 34 p~~c~~c~~~f~~~~~l~~h~~ 55 (89)
.|.|+.|...|.....|..|.-
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d 36 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLD 36 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHh
Confidence 3555555555555555555544
No 127
>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=24.39 E-value=33 Score=17.50 Aligned_cols=33 Identities=18% Similarity=0.247 Sum_probs=17.5
Q ss_pred cCCCCCccchhhcccHHHHHHHHHHhcCCCCcccccchhhhcC
Q psy13211 4 HGKTKSTDIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFAT 46 (89)
Q Consensus 4 ~~~~~~~~c~~~f~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~ 46 (89)
|.++.|+.|++.-.. +. +.-.+.|..|+..|.-
T Consensus 33 ~a~y~CpfCgk~~vk--------R~--a~GIW~C~~C~~~~AG 65 (91)
T TIGR00280 33 KAKYVCPFCGKKTVK--------RG--STGIWTCRKCGAKFAG 65 (91)
T ss_pred hcCccCCCCCCCceE--------EE--eeEEEEcCCCCCEEeC
Confidence 667778888743211 11 2224566666665543
No 128
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=23.65 E-value=34 Score=24.24 Aligned_cols=38 Identities=13% Similarity=0.203 Sum_probs=15.9
Q ss_pred cccchhhhcChhhHHHHHhHhcCCCCCC-chHHHhhhcCC
Q psy13211 37 CVVCKQFFATYSGAYQHLRRTHGQESCS-SLKALRKLRGP 75 (89)
Q Consensus 37 c~~c~~~f~~~~~l~~h~~~h~~ek~~~-c~~~~~~~~~~ 75 (89)
|.-||..|+--..|. .-|.++..+.|. |+.|.+-+.++
T Consensus 126 CT~CGPRfTIi~alP-YDR~nTsM~~F~lC~~C~~EY~dP 164 (750)
T COG0068 126 CTNCGPRFTIIEALP-YDRENTSMADFPLCPFCDKEYKDP 164 (750)
T ss_pred cCCCCcceeeeccCC-CCcccCccccCcCCHHHHHHhcCc
Confidence 444554444433332 223344444443 44444444333
No 129
>COG1885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.61 E-value=38 Score=17.79 Aligned_cols=12 Identities=17% Similarity=0.188 Sum_probs=7.8
Q ss_pred CCCCCccchhhc
Q psy13211 5 GKTKSTDIQVRM 16 (89)
Q Consensus 5 ~~~~~~~c~~~f 16 (89)
|-+.|+.||..|
T Consensus 48 G~t~CP~Cg~~~ 59 (115)
T COG1885 48 GSTSCPKCGEPF 59 (115)
T ss_pred ccccCCCCCCcc
Confidence 556677777554
No 130
>KOG2636|consensus
Probab=23.57 E-value=12 Score=24.82 Aligned_cols=28 Identities=7% Similarity=-0.161 Sum_probs=21.3
Q ss_pred hHhcCCCCCCchHHH-hhhcCCCCCCCCc
Q psy13211 55 RRTHGQESCSSLKAL-RKLRGPKPKPDST 82 (89)
Q Consensus 55 ~~h~~ek~~~c~~~~-~~~~~~~~~~~~~ 82 (89)
+.|.-...|.|.+|+ .+..|.+.|.+|.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHh
Confidence 567777889999997 7777777776663
No 131
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=23.49 E-value=30 Score=20.30 Aligned_cols=13 Identities=0% Similarity=-0.302 Sum_probs=6.6
Q ss_pred CCCchHHHhhhcC
Q psy13211 62 SCSSLKALRKLRG 74 (89)
Q Consensus 62 ~~~c~~~~~~~~~ 74 (89)
...|..|+..+++
T Consensus 30 lvrC~eCG~V~~~ 42 (201)
T COG1326 30 LVRCEECGTVHPA 42 (201)
T ss_pred EEEccCCCcEeec
Confidence 3455555555543
No 132
>KOG0801|consensus
Probab=23.38 E-value=43 Score=19.17 Aligned_cols=18 Identities=11% Similarity=-0.020 Sum_probs=12.9
Q ss_pred CcccCCCCCccchhhccc
Q psy13211 1 MFFHGKTKSTDIQVRMFR 18 (89)
Q Consensus 1 ~~~~~~~~~~~c~~~f~~ 18 (89)
||-|.-.||.+|.+....
T Consensus 133 i~~~~g~KCPvC~K~V~s 150 (205)
T KOG0801|consen 133 IMDHSGMKCPVCHKVVPS 150 (205)
T ss_pred eeccCCccCCccccccCC
Confidence 455777889999886543
No 133
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=23.25 E-value=80 Score=18.24 Aligned_cols=35 Identities=14% Similarity=0.165 Sum_probs=21.2
Q ss_pred hcCCCCcccccchhhhcChhhHHHHHhHhcCCCCCCchHHHhhh
Q psy13211 29 HTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALRKL 72 (89)
Q Consensus 29 h~~~~p~~c~~c~~~f~~~~~l~~h~~~h~~ek~~~c~~~~~~~ 72 (89)
-....-|.|+.|...++...... ..|.|+.|+...
T Consensus 108 ~~~~~~y~C~~~~~r~sfdeA~~---------~~F~Cp~Cg~~L 142 (176)
T COG1675 108 ETENNYYVCPNCHVKYSFDEAME---------LGFTCPKCGEDL 142 (176)
T ss_pred hccCCceeCCCCCCcccHHHHHH---------hCCCCCCCCchh
Confidence 34455678877766665544332 138888887643
No 134
>KOG3214|consensus
Probab=23.21 E-value=33 Score=17.85 Aligned_cols=15 Identities=13% Similarity=0.076 Sum_probs=10.5
Q ss_pred CCCCCccchhhcccH
Q psy13211 5 GKTKSTDIQVRMFRI 19 (89)
Q Consensus 5 ~~~~~~~c~~~f~~~ 19 (89)
|+-.|++|+.+|...
T Consensus 46 G~~sC~iC~esFqt~ 60 (109)
T KOG3214|consen 46 GKASCRICEESFQTT 60 (109)
T ss_pred ceeeeeehhhhhccc
Confidence 445588888888654
No 135
>KOG4489|consensus
Probab=23.10 E-value=44 Score=16.41 Aligned_cols=22 Identities=14% Similarity=0.128 Sum_probs=15.1
Q ss_pred cccCCCCCccchhhcccHHHHH
Q psy13211 2 FFHGKTKSTDIQVRMFRIHIIR 23 (89)
Q Consensus 2 ~~~~~~~~~~c~~~f~~~~~l~ 23 (89)
||=++.+|..|.-.|.....|.
T Consensus 36 FfLERkPCtICslvFl~AlsLi 57 (87)
T KOG4489|consen 36 FFLERKPCTICSLVFLIALSLI 57 (87)
T ss_pred HHhccCCceehHHHHHHHHHHH
Confidence 3456778999988886655443
No 136
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=22.93 E-value=33 Score=18.77 Aligned_cols=15 Identities=33% Similarity=0.800 Sum_probs=11.6
Q ss_pred CcccccchhhhcChh
Q psy13211 34 PFKCVVCKQFFATYS 48 (89)
Q Consensus 34 p~~c~~c~~~f~~~~ 48 (89)
|.+|.-||..|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 567888888887654
No 137
>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=22.90 E-value=30 Score=12.95 Aligned_cols=8 Identities=50% Similarity=1.327 Sum_probs=5.3
Q ss_pred Ccccccch
Q psy13211 34 PFKCVVCK 41 (89)
Q Consensus 34 p~~c~~c~ 41 (89)
+|.|+-||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 56777665
No 138
>KOG0978|consensus
Probab=22.56 E-value=29 Score=24.45 Aligned_cols=21 Identities=5% Similarity=-0.123 Sum_probs=12.6
Q ss_pred hcCCCCCCchHHHhhhcCCCC
Q psy13211 57 THGQESCSSLKALRKLRGPKP 77 (89)
Q Consensus 57 h~~ek~~~c~~~~~~~~~~~~ 77 (89)
..+.+.-+|+.|+..|....-
T Consensus 673 r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 673 RYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred HHHHhcCCCCCCCCCCCcccc
Confidence 334456677777777765443
No 139
>KOG2071|consensus
Probab=22.24 E-value=50 Score=22.79 Aligned_cols=23 Identities=13% Similarity=0.102 Sum_probs=18.0
Q ss_pred CCccchhhcccHHHHHHHHHHhc
Q psy13211 8 KSTDIQVRMFRIHIIRNHYRKHT 30 (89)
Q Consensus 8 ~~~~c~~~f~~~~~l~~h~~~h~ 30 (89)
.|..||..|........|+..|.
T Consensus 420 qC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 420 QCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred hhcccccccccchhhhhHhhhhh
Confidence 49999999998877777766654
No 140
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.83 E-value=60 Score=15.30 Aligned_cols=40 Identities=10% Similarity=0.129 Sum_probs=18.7
Q ss_pred CCccchhhc-ccHHHHHHHHHHhcCCCCcccccchhhhcCh
Q psy13211 8 KSTDIQVRM-FRIHIIRNHYRKHTGRKPFKCVVCKQFFATY 47 (89)
Q Consensus 8 ~~~~c~~~f-~~~~~l~~h~~~h~~~~p~~c~~c~~~f~~~ 47 (89)
+|..|.+.- .....+..-+.....-+.|.|+.|.......
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~Rva~k 44 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEHRVAIK 44 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCceeEechhhHhhhchh
Confidence 567776542 2222232222222223347788886555443
No 141
>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=21.45 E-value=21 Score=22.00 Aligned_cols=27 Identities=22% Similarity=0.031 Sum_probs=20.2
Q ss_pred CCCCCCchHHHhhhcCCCCCCCCcchh
Q psy13211 59 GQESCSSLKALRKLRGPKPKPDSTRSL 85 (89)
Q Consensus 59 ~ek~~~c~~~~~~~~~~~~~~~~~~~~ 85 (89)
..+++.|++|+---...+.|....|+|
T Consensus 206 k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 206 KGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred cCCCCCCCCCCCcccccccceeeeecc
Confidence 347888999988777777776666655
No 142
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=21.22 E-value=72 Score=13.96 Aligned_cols=12 Identities=0% Similarity=-0.172 Sum_probs=6.8
Q ss_pred CCCccchhhccc
Q psy13211 7 TKSTDIQVRMFR 18 (89)
Q Consensus 7 ~~~~~c~~~f~~ 18 (89)
..|..|++.|..
T Consensus 3 ~~C~~C~~~F~~ 14 (57)
T cd00065 3 SSCMGCGKPFTL 14 (57)
T ss_pred CcCcccCccccC
Confidence 346666666643
No 143
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=21.20 E-value=23 Score=18.59 Aligned_cols=12 Identities=25% Similarity=0.393 Sum_probs=7.0
Q ss_pred cccccchhhhcC
Q psy13211 35 FKCVVCKQFFAT 46 (89)
Q Consensus 35 ~~c~~c~~~f~~ 46 (89)
..|..|+..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (113)
T PRK12380 71 AWCWDCSQVVEI 82 (113)
T ss_pred EEcccCCCEEec
Confidence 457777755543
No 144
>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=20.92 E-value=24 Score=17.94 Aligned_cols=11 Identities=18% Similarity=-0.004 Sum_probs=5.5
Q ss_pred cCCCCCccchh
Q psy13211 4 HGKTKSTDIQV 14 (89)
Q Consensus 4 ~~~~~~~~c~~ 14 (89)
|.++.|+.|++
T Consensus 33 ~~ky~Cp~Cgk 43 (90)
T PF01780_consen 33 HAKYTCPFCGK 43 (90)
T ss_dssp HS-BEESSSSS
T ss_pred hCCCcCCCCCC
Confidence 44555666654
No 145
>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=20.58 E-value=21 Score=15.15 Aligned_cols=14 Identities=43% Similarity=0.923 Sum_probs=8.1
Q ss_pred CCcccccchhhhcC
Q psy13211 33 KPFKCVVCKQFFAT 46 (89)
Q Consensus 33 ~p~~c~~c~~~f~~ 46 (89)
.|+.|..|+..|-.
T Consensus 12 ~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 12 LPFKCKHCGKSFCL 25 (43)
T ss_dssp SHEE-TTTS-EE-T
T ss_pred CCeECCCCCcccCc
Confidence 47788888877755
Done!