Query 044013
Match_columns 153
No_of_seqs 265 out of 2146
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 10:37:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044013.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044013hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.8 2E-21 4.3E-26 150.7 0.7 92 12-116 177-268 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.6 1.5E-16 3.2E-21 123.7 3.8 85 10-105 144-230 (279)
3 KOG3623 Homeobox transcription 99.4 5.5E-14 1.2E-18 120.9 2.1 78 23-110 892-969 (1007)
4 KOG3576 Ovo and related transc 99.3 1.2E-13 2.7E-18 103.6 -1.5 78 23-110 115-192 (267)
5 KOG3623 Homeobox transcription 99.1 1E-11 2.2E-16 107.2 0.4 63 11-81 909-971 (1007)
6 KOG1074 Transcriptional repres 99.1 6.5E-11 1.4E-15 103.5 3.2 78 24-110 604-687 (958)
7 PHA02768 hypothetical protein; 99.1 9.5E-11 2.1E-15 70.7 2.7 44 25-77 5-48 (55)
8 KOG1074 Transcriptional repres 99.0 4.6E-10 1E-14 98.3 3.7 57 25-89 353-409 (958)
9 KOG3576 Ovo and related transc 99.0 3.2E-11 6.9E-16 90.7 -3.0 69 12-88 133-201 (267)
10 PHA00733 hypothetical protein 98.6 2E-08 4.3E-13 71.3 3.2 72 23-105 38-114 (128)
11 KOG3608 Zn finger proteins [Ge 98.6 4.1E-09 8.9E-14 85.0 -1.2 104 10-123 277-385 (467)
12 PHA00733 hypothetical protein 98.5 2.9E-08 6.3E-13 70.4 1.1 52 21-81 69-120 (128)
13 PHA00616 hypothetical protein 98.5 4.8E-08 1.1E-12 56.3 1.5 33 25-57 1-33 (44)
14 PF13465 zf-H2C2_2: Zinc-finge 98.5 2.7E-08 5.8E-13 51.4 0.4 23 40-62 1-23 (26)
15 PHA02768 hypothetical protein; 98.4 1.1E-07 2.3E-12 57.5 1.3 42 53-105 5-46 (55)
16 PHA00732 hypothetical protein 98.3 7.2E-07 1.6E-11 58.1 2.9 44 25-81 1-45 (79)
17 PLN03086 PRLI-interacting fact 98.3 9.5E-07 2.1E-11 76.1 4.3 67 23-103 451-517 (567)
18 KOG3608 Zn finger proteins [Ge 98.1 3.8E-07 8.2E-12 73.9 -0.7 68 24-101 236-303 (467)
19 PLN03086 PRLI-interacting fact 98.1 1E-06 2.2E-11 75.9 1.3 74 12-100 468-551 (567)
20 PF13465 zf-H2C2_2: Zinc-finge 98.1 5.5E-07 1.2E-11 46.4 -0.3 25 75-101 1-25 (26)
21 PF00096 zf-C2H2: Zinc finger, 98.0 4.2E-06 9.2E-11 41.4 2.2 23 26-48 1-23 (23)
22 PF13912 zf-C2H2_6: C2H2-type 97.6 3.8E-05 8.3E-10 39.4 2.0 25 25-49 1-25 (27)
23 COG5189 SFP1 Putative transcri 97.6 3E-05 6.5E-10 62.2 1.7 52 23-81 347-419 (423)
24 PF13894 zf-C2H2_4: C2H2-type 97.5 8E-05 1.7E-09 36.6 2.2 23 26-48 1-23 (24)
25 PF05605 zf-Di19: Drought indu 97.5 0.0001 2.2E-09 44.4 2.7 47 25-81 2-50 (54)
26 PHA00616 hypothetical protein 97.5 1.1E-05 2.5E-10 46.5 -1.5 34 53-95 1-34 (44)
27 KOG3993 Transcription factor ( 97.2 3.7E-05 8.1E-10 63.7 -1.5 70 7-85 278-380 (500)
28 PF09237 GAGA: GAGA factor; I 97.2 0.00054 1.2E-08 40.6 3.3 37 17-53 16-52 (54)
29 smart00355 ZnF_C2H2 zinc finge 97.1 0.00041 8.8E-09 34.4 2.1 24 26-49 1-24 (26)
30 PHA00732 hypothetical protein 97.0 0.00042 9.2E-09 45.1 2.1 39 53-102 1-39 (79)
31 PRK04860 hypothetical protein; 97.0 0.00039 8.5E-09 51.1 1.9 36 23-62 117-152 (160)
32 PF12874 zf-met: Zinc-finger o 96.7 0.0013 2.8E-08 32.9 1.7 23 26-48 1-23 (25)
33 PF00096 zf-C2H2: Zinc finger, 95.9 0.00043 9.4E-09 34.0 -2.6 23 54-84 1-23 (23)
34 COG5048 FOG: Zn-finger [Genera 95.6 0.0054 1.2E-07 49.7 1.3 60 24-91 288-353 (467)
35 PF12171 zf-C2H2_jaz: Zinc-fin 95.4 0.005 1.1E-07 31.5 0.4 22 26-47 2-23 (27)
36 PF12756 zf-C2H2_2: C2H2 type 95.3 0.0023 5E-08 42.1 -1.4 21 27-47 1-21 (100)
37 PF13909 zf-H2C2_5: C2H2-type 95.1 0.02 4.3E-07 28.2 2.1 23 26-49 1-23 (24)
38 COG5189 SFP1 Putative transcri 95.0 0.014 3.1E-07 47.2 1.9 45 50-100 346-408 (423)
39 PF13913 zf-C2HC_2: zinc-finge 94.9 0.021 4.5E-07 28.8 1.7 21 26-47 3-23 (25)
40 KOG3993 Transcription factor ( 94.8 0.0065 1.4E-07 50.7 -0.6 53 25-85 267-319 (500)
41 PF13912 zf-C2H2_6: C2H2-type 94.6 0.0036 7.9E-08 31.8 -1.6 25 53-85 1-25 (27)
42 smart00355 ZnF_C2H2 zinc finge 94.3 0.016 3.5E-07 28.2 0.5 24 54-85 1-24 (26)
43 PF13894 zf-C2H2_4: C2H2-type 94.1 0.0042 9E-08 30.1 -2.0 21 54-81 1-21 (24)
44 smart00451 ZnF_U1 U1-like zinc 93.5 0.059 1.3E-06 28.8 1.8 23 25-47 3-25 (35)
45 PF09237 GAGA: GAGA factor; I 93.3 0.011 2.5E-07 35.0 -1.3 33 49-89 20-52 (54)
46 PF05605 zf-Di19: Drought indu 93.3 0.048 1.1E-06 32.5 1.4 40 53-100 2-41 (54)
47 PRK04860 hypothetical protein; 92.8 0.038 8.2E-07 40.7 0.4 36 53-101 119-154 (160)
48 PF12756 zf-C2H2_2: C2H2 type 92.0 0.14 2.9E-06 33.5 2.4 25 25-49 50-74 (100)
49 cd00350 rubredoxin_like Rubred 91.1 0.19 4.2E-06 26.9 1.9 25 26-62 2-26 (33)
50 KOG2893 Zn finger protein [Gen 87.5 0.35 7.6E-06 37.9 1.7 50 23-85 9-59 (341)
51 KOG1146 Homeobox protein [Gene 86.0 0.33 7.2E-06 45.9 1.0 52 23-81 463-539 (1406)
52 COG1592 Rubrerythrin [Energy p 84.6 0.69 1.5E-05 34.2 2.0 23 25-60 134-156 (166)
53 COG5048 FOG: Zn-finger [Genera 84.6 1.2 2.7E-05 35.9 3.7 61 22-88 30-90 (467)
54 cd00729 rubredoxin_SM Rubredox 82.8 0.95 2.1E-05 24.4 1.6 26 25-62 2-27 (34)
55 TIGR00373 conserved hypothetic 80.9 1 2.2E-05 32.9 1.6 31 23-62 107-137 (158)
56 PRK06266 transcription initiat 80.7 1 2.2E-05 33.7 1.6 30 24-62 116-145 (178)
57 PF09986 DUF2225: Uncharacteri 79.5 0.53 1.1E-05 36.1 -0.3 24 23-46 3-26 (214)
58 smart00531 TFIIE Transcription 79.3 0.96 2.1E-05 32.5 1.1 35 24-62 98-132 (147)
59 PF09723 Zn-ribbon_8: Zinc rib 78.9 1.1 2.3E-05 25.3 1.0 31 25-62 5-35 (42)
60 TIGR02605 CxxC_CxxC_SSSS putat 78.2 0.82 1.8E-05 26.7 0.4 31 25-62 5-35 (52)
61 smart00834 CxxC_CXXC_SSSS Puta 77.4 0.88 1.9E-05 25.0 0.3 30 25-61 5-34 (41)
62 PF02892 zf-BED: BED zinc fing 75.3 3 6.5E-05 23.4 2.2 25 22-46 13-41 (45)
63 PF05443 ROS_MUCR: ROS/MUCR tr 73.5 1.9 4.2E-05 30.7 1.3 27 24-53 71-97 (132)
64 COG4049 Uncharacterized protei 73.2 1.9 4.1E-05 26.1 1.0 26 22-47 14-39 (65)
65 smart00614 ZnF_BED BED zinc fi 73.1 3 6.6E-05 24.2 1.9 25 25-49 18-48 (50)
66 PF09538 FYDLN_acid: Protein o 72.3 2.6 5.7E-05 28.9 1.7 30 26-73 10-39 (108)
67 COG1996 RPC10 DNA-directed RNA 67.6 3.2 6.8E-05 24.4 1.1 30 23-62 4-33 (49)
68 COG2888 Predicted Zn-ribbon RN 67.2 3.2 6.9E-05 25.4 1.1 31 25-60 27-57 (61)
69 PF13719 zinc_ribbon_5: zinc-r 66.8 3.2 6.9E-05 22.7 1.0 32 26-62 3-34 (37)
70 PRK00398 rpoP DNA-directed RNA 66.7 2.6 5.6E-05 24.0 0.6 29 24-62 2-30 (46)
71 smart00659 RPOLCX RNA polymera 66.6 4 8.6E-05 23.3 1.4 27 25-62 2-28 (44)
72 TIGR02098 MJ0042_CXXC MJ0042 f 66.4 3 6.5E-05 22.6 0.8 32 26-62 3-34 (38)
73 TIGR02300 FYDLN_acid conserved 63.9 5.4 0.00012 28.2 1.9 34 26-77 10-43 (129)
74 PRK14890 putative Zn-ribbon RN 63.9 5.3 0.00012 24.4 1.6 30 25-60 25-55 (59)
75 PF13717 zinc_ribbon_4: zinc-r 59.4 6.6 0.00014 21.3 1.4 32 26-62 3-34 (36)
76 PF04959 ARS2: Arsenite-resist 58.9 8.5 0.00018 29.6 2.4 25 23-47 75-99 (214)
77 PRK00464 nrdR transcriptional 58.6 1.9 4.1E-05 31.5 -1.2 10 26-35 1-10 (154)
78 COG3357 Predicted transcriptio 56.0 6.5 0.00014 26.2 1.1 14 24-37 57-70 (97)
79 smart00734 ZnF_Rad18 Rad18-lik 56.0 9.3 0.0002 19.2 1.5 19 27-46 3-21 (26)
80 COG3364 Zn-ribbon containing p 55.9 7.9 0.00017 26.4 1.5 28 25-62 2-29 (112)
81 COG4957 Predicted transcriptio 54.8 6.5 0.00014 28.1 1.0 25 26-53 77-101 (148)
82 PRK03824 hypA hydrogenase nick 52.0 7.5 0.00016 27.6 1.0 15 24-38 69-83 (135)
83 KOG2593 Transcription initiati 48.4 5.7 0.00012 33.6 -0.1 37 23-62 126-162 (436)
84 TIGR00100 hypA hydrogenase nic 47.7 12 0.00025 25.8 1.4 26 25-62 70-95 (115)
85 KOG4167 Predicted DNA-binding 47.3 5.2 0.00011 36.2 -0.5 26 25-50 792-817 (907)
86 COG3091 SprT Zn-dependent meta 47.1 8.4 0.00018 28.1 0.6 35 23-62 115-149 (156)
87 KOG4124 Putative transcription 46.9 5.9 0.00013 32.8 -0.2 23 24-46 348-372 (442)
88 KOG3214 Uncharacterized Zn rib 46.2 4.4 9.6E-05 27.4 -0.9 20 90-109 47-66 (109)
89 PF12013 DUF3505: Protein of u 45.4 19 0.0004 24.3 2.1 24 26-49 81-108 (109)
90 KOG3408 U1-like Zn-finger-cont 45.1 14 0.0003 26.0 1.4 26 22-47 54-79 (129)
91 smart00154 ZnF_AN1 AN1-like Zi 44.9 11 0.00023 20.9 0.7 13 25-37 12-24 (39)
92 PRK12380 hydrogenase nickel in 43.6 16 0.00035 25.1 1.6 26 25-62 70-95 (113)
93 PRK00564 hypA hydrogenase nick 43.1 15 0.00033 25.3 1.4 14 25-38 71-84 (117)
94 PF07754 DUF1610: Domain of un 42.0 12 0.00027 18.6 0.6 10 24-33 15-24 (24)
95 PF06524 NOA36: NOA36 protein; 41.3 54 0.0012 26.3 4.3 24 51-81 207-230 (314)
96 PF01428 zf-AN1: AN1-like Zinc 40.1 12 0.00026 21.0 0.4 15 24-38 12-26 (43)
97 PF07800 DUF1644: Protein of u 38.6 22 0.00048 26.1 1.7 58 25-90 80-138 (162)
98 PF03604 DNA_RNApol_7kD: DNA d 38.4 25 0.00054 18.6 1.5 26 26-62 1-26 (32)
99 PF10571 UPF0547: Uncharacteri 38.4 15 0.00032 18.5 0.5 11 26-36 15-25 (26)
100 KOG1146 Homeobox protein [Gene 36.6 7.9 0.00017 37.2 -1.1 51 27-84 438-489 (1406)
101 COG1655 Uncharacterized protei 36.2 7.8 0.00017 30.3 -1.0 29 23-51 17-45 (267)
102 KOG2186 Cell growth-regulating 36.0 16 0.00035 28.9 0.7 54 26-90 4-57 (276)
103 PHA00626 hypothetical protein 36.0 17 0.00038 22.0 0.7 15 24-38 22-36 (59)
104 PF01155 HypA: Hydrogenase exp 35.8 17 0.00037 24.9 0.8 26 25-62 70-95 (113)
105 PF09845 DUF2072: Zn-ribbon co 34.5 17 0.00037 25.8 0.6 15 25-39 1-15 (131)
106 KOG0717 Molecular chaperone (D 34.2 25 0.00054 30.3 1.6 22 26-47 293-314 (508)
107 PF07295 DUF1451: Protein of u 33.9 33 0.00071 24.8 2.0 10 25-34 112-121 (146)
108 smart00064 FYVE Protein presen 33.9 26 0.00057 21.2 1.3 30 26-67 11-40 (68)
109 KOG2785 C2H2-type Zn-finger pr 33.7 37 0.0008 28.5 2.5 54 24-81 165-241 (390)
110 PF07975 C1_4: TFIIH C1-like d 33.7 14 0.0003 21.9 -0.0 25 24-48 20-44 (51)
111 KOG2071 mRNA cleavage and poly 33.2 25 0.00054 31.1 1.5 26 24-49 417-442 (579)
112 PRK03681 hypA hydrogenase nick 32.9 22 0.00047 24.5 0.9 27 25-62 70-96 (114)
113 COG0068 HypF Hydrogenase matur 32.8 11 0.00023 34.1 -0.8 29 70-100 133-161 (750)
114 cd00065 FYVE FYVE domain; Zinc 31.8 35 0.00077 19.7 1.6 29 27-67 4-32 (57)
115 KOG2482 Predicted C2H2-type Zn 30.9 30 0.00066 28.7 1.5 23 25-47 195-217 (423)
116 PF08790 zf-LYAR: LYAR-type C2 30.3 17 0.00038 18.7 0.0 19 26-45 1-19 (28)
117 COG1997 RPL43A Ribosomal prote 29.8 21 0.00046 23.6 0.4 28 25-62 35-62 (89)
118 PF10013 DUF2256: Uncharacteri 27.7 25 0.00054 19.9 0.4 14 27-40 10-23 (42)
119 PF13824 zf-Mss51: Zinc-finger 27.7 49 0.0011 19.9 1.7 12 50-61 11-22 (55)
120 PF10276 zf-CHCC: Zinc-finger 27.2 32 0.00069 19.2 0.8 12 24-35 28-39 (40)
121 PRK09678 DNA-binding transcrip 26.6 17 0.00037 23.1 -0.5 42 26-76 2-45 (72)
122 PF14311 DUF4379: Domain of un 25.9 60 0.0013 18.9 1.9 14 26-39 29-42 (55)
123 PRK00762 hypA hydrogenase nick 25.8 34 0.00074 23.8 0.9 13 25-38 70-82 (124)
124 COG1675 TFA1 Transcription ini 25.8 46 0.001 24.9 1.6 14 25-38 113-126 (176)
125 PF01363 FYVE: FYVE zinc finge 25.7 19 0.00041 21.9 -0.4 30 26-67 10-39 (69)
126 KOG0696 Serine/threonine prote 25.6 30 0.00066 29.9 0.7 59 24-99 72-130 (683)
127 PF11789 zf-Nse: Zinc-finger o 25.5 37 0.0008 20.3 0.9 34 24-61 23-56 (57)
128 KOG2636 Splicing factor 3a, su 25.4 39 0.00084 29.0 1.3 24 23-46 399-423 (497)
129 PF04423 Rad50_zn_hook: Rad50 25.3 28 0.00061 20.3 0.3 12 27-38 22-33 (54)
130 KOG0978 E3 ubiquitin ligase in 25.1 57 0.0012 29.6 2.3 11 26-36 644-654 (698)
131 PF11672 DUF3268: Protein of u 25.1 24 0.00053 23.9 0.0 11 24-34 1-11 (102)
132 PF13878 zf-C2H2_3: zinc-finge 24.9 71 0.0015 17.7 1.9 24 26-49 14-39 (41)
133 PF05191 ADK_lid: Adenylate ki 24.7 40 0.00086 18.3 0.8 12 26-37 2-13 (36)
134 PF13451 zf-trcl: Probable zin 24.2 35 0.00076 20.0 0.6 18 23-40 2-19 (49)
135 PLN02294 cytochrome c oxidase 23.8 34 0.00073 25.5 0.6 14 24-37 140-153 (174)
136 KOG2461 Transcription factor B 23.8 1.4E+02 0.003 25.3 4.2 15 41-55 347-361 (396)
137 PF11931 DUF3449: Domain of un 23.6 27 0.00057 26.6 0.0 21 24-44 100-121 (196)
138 KOG4602 Nanos and related prot 23.6 48 0.001 26.5 1.4 12 23-34 231-242 (318)
139 PRK01343 zinc-binding protein; 22.7 62 0.0013 19.6 1.5 11 26-36 10-20 (57)
140 cd02335 ZZ_ADA2 Zinc finger, Z 22.7 47 0.001 19.0 1.0 28 52-81 14-42 (49)
141 COG4530 Uncharacterized protei 22.4 39 0.00084 23.4 0.6 25 27-62 11-35 (129)
142 cd00924 Cyt_c_Oxidase_Vb Cytoc 22.4 37 0.00079 22.8 0.5 14 24-37 78-91 (97)
143 PRK05978 hypothetical protein; 22.3 65 0.0014 23.4 1.8 11 92-102 54-64 (148)
144 COG1198 PriA Primosomal protei 21.9 86 0.0019 28.7 2.9 25 74-100 461-485 (730)
145 PTZ00303 phosphatidylinositol 21.8 70 0.0015 29.8 2.2 66 26-100 461-529 (1374)
146 PF06397 Desulfoferrod_N: Desu 21.2 43 0.00093 18.3 0.5 12 24-35 5-16 (36)
147 COG1773 Rubredoxin [Energy pro 21.1 44 0.00096 20.1 0.6 15 25-39 3-17 (55)
148 PTZ00255 60S ribosomal protein 21.0 25 0.00055 23.3 -0.5 8 25-32 36-43 (90)
149 PF05741 zf-nanos: Nanos RNA b 20.8 63 0.0014 19.4 1.2 23 12-34 14-42 (55)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.82 E-value=2e-21 Score=150.70 Aligned_cols=92 Identities=17% Similarity=0.330 Sum_probs=77.1
Q ss_pred CCCcccccCCCCcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCC
Q 044013 12 SSSDDETDAGTGRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHS 91 (153)
Q Consensus 12 ~~~h~~~~~~gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~ 91 (153)
|..|.++|+ -|++|.+|||.|..++-|++|+|+|||||||.|+.|+++ |+..++|..||+ +|.+.|+|
T Consensus 177 LkMHirTH~---l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kA-------FADRSNLRAHmQ-THS~~K~~- 244 (279)
T KOG2462|consen 177 LKMHIRTHT---LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKA-------FADRSNLRAHMQ-THSDVKKH- 244 (279)
T ss_pred HhhHhhccC---CCcccccccccccchHHhhcccccccCCCCccCCcccch-------hcchHHHHHHHH-hhcCCccc-
Confidence 445555555 489999999999999999999999999999999955555 999999999999 99999999
Q ss_pred CCCCCccccccCCcccchhhhcCCC
Q 044013 92 NYDSYGQNYHQHLNMIGDEIWRGNR 116 (153)
Q Consensus 92 ~~~~~~~~f~~~~~~~~~~~~~~~~ 116 (153)
.|..|+|+|++.. .++.+....++
T Consensus 245 qC~~C~KsFsl~S-yLnKH~ES~C~ 268 (279)
T KOG2462|consen 245 QCPRCGKSFALKS-YLNKHSESACL 268 (279)
T ss_pred cCcchhhHHHHHH-HHHHhhhhccc
Confidence 8999999996643 36666554443
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.63 E-value=1.5e-16 Score=123.69 Aligned_cols=85 Identities=22% Similarity=0.416 Sum_probs=72.5
Q ss_pred CCCCCcccccCC--CCcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCC
Q 044013 10 SKSSSDDETDAG--TGRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNN 87 (153)
Q Consensus 10 ~~~~~h~~~~~~--gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~ 87 (153)
+.|+.|...|-. ..+.+.|.+|+|.|....+|+.|+|+|+ -|++|. +|||+ |+++=-|+.|+| +||||
T Consensus 144 snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~-----iCGKa--FSRPWLLQGHiR-THTGE 213 (279)
T KOG2462|consen 144 SNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECG-----ICGKA--FSRPWLLQGHIR-THTGE 213 (279)
T ss_pred cccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccc-----ccccc--ccchHHhhcccc-cccCC
Confidence 457788765554 3577999999999999999999999999 578888 56666 999999999999 99999
Q ss_pred CCCCCCCCCccccccCCc
Q 044013 88 NNHSNYDSYGQNYHQHLN 105 (153)
Q Consensus 88 kp~~~~~~~~~~f~~~~~ 105 (153)
||| .|..|+|+|....+
T Consensus 214 KPF-~C~hC~kAFADRSN 230 (279)
T KOG2462|consen 214 KPF-SCPHCGKAFADRSN 230 (279)
T ss_pred CCc-cCCcccchhcchHH
Confidence 999 89999999965444
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.42 E-value=5.5e-14 Score=120.94 Aligned_cols=78 Identities=19% Similarity=0.364 Sum_probs=72.2
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCcccccc
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQNYHQ 102 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f~~ 102 (153)
.-+|.|+.|.|.|...+.|.+|.--|+|.+||+|. ||.|+ |..+..|..|+| .|.|+||| .|+-|++.|+.
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~-----iCkKA--FKHKHHLtEHkR-LHSGEKPf-QCdKClKRFSH 962 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCI-----ICKKA--FKHKHHLTEHKR-LHSGEKPF-QCDKCLKRFSH 962 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccc-----hhhHh--hhhhhhhhhhhh-hccCCCcc-hhhhhhhhccc
Confidence 35899999999999999999999999999999999 66666 999999999999 99999999 79999999998
Q ss_pred CCcccchh
Q 044013 103 HLNMIGDE 110 (153)
Q Consensus 103 ~~~~~~~~ 110 (153)
+++ +.++
T Consensus 963 SGS-YSQH 969 (1007)
T KOG3623|consen 963 SGS-YSQH 969 (1007)
T ss_pred ccc-hHhh
Confidence 888 6666
No 4
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.32 E-value=1.2e-13 Score=103.60 Aligned_cols=78 Identities=17% Similarity=0.300 Sum_probs=70.1
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCcccccc
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQNYHQ 102 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f~~ 102 (153)
...|.|.+|+|.|....-|.+|+..|...|.|.|..||+. |.....|++|++ +|||.+|| .|..|.++|.+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkg-------fndtfdlkrh~r-thtgvrpy-kc~~c~kaftq 185 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKG-------FNDTFDLKRHTR-THTGVRPY-KCSLCEKAFTQ 185 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCc-------ccchhhhhhhhc-cccCcccc-chhhhhHHHHh
Confidence 3569999999999999999999999999999999966655 999999999999 99999999 89999999988
Q ss_pred CCcccchh
Q 044013 103 HLNMIGDE 110 (153)
Q Consensus 103 ~~~~~~~~ 110 (153)
..+ +..+
T Consensus 186 rcs-lesh 192 (267)
T KOG3576|consen 186 RCS-LESH 192 (267)
T ss_pred hcc-HHHH
Confidence 777 4443
No 5
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.12 E-value=1e-11 Score=107.22 Aligned_cols=63 Identities=19% Similarity=0.484 Sum_probs=56.1
Q ss_pred CCCCcccccCCCCcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccc
Q 044013 11 KSSSDDETDAGTGRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQR 81 (153)
Q Consensus 11 ~~~~h~~~~~~gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~ 81 (153)
.|.+|.=.|++ .|||+|.+|.|+|..+-.|..|+|.|.|||||.|..|++. |+...+...||.
T Consensus 909 SLaRHKYEHsG-qRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKR-------FSHSGSYSQHMN 971 (1007)
T KOG3623|consen 909 SLARHKYEHSG-QRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKR-------FSHSGSYSQHMN 971 (1007)
T ss_pred HHHHhhhhhcC-CCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhh-------cccccchHhhhc
Confidence 35555545555 9999999999999999999999999999999999988888 999999999996
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.07 E-value=6.5e-11 Score=103.47 Aligned_cols=78 Identities=17% Similarity=0.339 Sum_probs=65.4
Q ss_pred cceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCC---CCC---CCc
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHS---NYD---SYG 97 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~---~~~---~~~ 97 (153)
-|-+|.+|.+..+-+++|+.|.|+|+||+||+|. |||++ |+++.+|+.||. +|....|+. +|. +|-
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCK-----iCgRA--FtTkGNLkaH~~-vHka~p~~R~q~ScP~~~ic~ 675 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCK-----ICGRA--FTTKGNLKAHMS-VHKAKPPARVQFSCPSTFICQ 675 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccc-----cccch--hccccchhhccc-ccccCccccccccCCchhhhc
Confidence 4789999999999999999999999999999999 66666 999999999999 998877653 677 888
Q ss_pred cccccCCcccchh
Q 044013 98 QNYHQHLNMIGDE 110 (153)
Q Consensus 98 ~~f~~~~~~~~~~ 110 (153)
+.|..... +.++
T Consensus 676 ~kftn~V~-lpQh 687 (958)
T KOG1074|consen 676 KKFTNAVT-LPQH 687 (958)
T ss_pred cccccccc-ccce
Confidence 88854443 4444
No 7
>PHA02768 hypothetical protein; Provisional
Probab=99.07 E-value=9.5e-11 Score=70.74 Aligned_cols=44 Identities=14% Similarity=0.326 Sum_probs=38.3
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhh
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWD 77 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~ 77 (153)
-|+|++||+.|+..++|..|+++|+ +||+|.. |+|+ |.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~-----C~k~--f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSN-----CKRI--SLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCc-----ccce--ecccceeE
Confidence 4899999999999999999999999 7999984 4555 99888775
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.95 E-value=4.6e-10 Score=98.25 Aligned_cols=57 Identities=21% Similarity=0.363 Sum_probs=51.5
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNN 89 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp 89 (153)
+++|.+|+|.|...++|+.|.|.|||++||+|.+|+.+ |+++.+|+.|.. .|+-+-|
T Consensus 353 khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~-------FSTkGNLKvH~~-rH~e~~p 409 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNR-------FSTKGNLKVHFQ-RHREKYP 409 (958)
T ss_pred cchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccc-------cccccceeeeee-eccccCC
Confidence 47899999999999999999999999999999977777 999999999998 7776554
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.95 E-value=3.2e-11 Score=90.73 Aligned_cols=69 Identities=19% Similarity=0.342 Sum_probs=57.0
Q ss_pred CCCcccccCCCCcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCC
Q 044013 12 SSSDDETDAGTGRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNN 88 (153)
Q Consensus 12 ~~~h~~~~~~gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~k 88 (153)
|..|++-+.. .|.|.|..|||.|...-.|++|+|+|||.+||+|..|+++ |.+..+|..|.+.+|.-..
T Consensus 133 lnrh~kch~~-vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~ka-------ftqrcsleshl~kvhgv~~ 201 (267)
T KOG3576|consen 133 LNRHLKCHSD-VKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKA-------FTQRCSLESHLKKVHGVQH 201 (267)
T ss_pred HHHHhhhccH-HHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHH-------HHhhccHHHHHHHHcCchH
Confidence 3445555544 5679999999999999999999999999999999966666 9999999999875776443
No 10
>PHA00733 hypothetical protein
Probab=98.65 E-value=2e-08 Score=71.27 Aligned_cols=72 Identities=13% Similarity=0.118 Sum_probs=51.1
Q ss_pred CcceeccccccccCChhHHHHH--HH---hhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCc
Q 044013 23 GRSYECVFCKRGFTTAQALGGH--MN---IHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYG 97 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H--~r---~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~ 97 (153)
.+++.|.+|.+.|..+..|..+ ++ .+.+.+||.|+.|++. |.....|..|++ +| ..+| .|..|+
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~-------Fss~s~L~~H~r-~h--~~~~-~C~~Cg 106 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMP-------FSSSVSLKQHIR-YT--EHSK-VCPVCG 106 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCc-------CCCHHHHHHHHh-cC--CcCc-cCCCCC
Confidence 4678888888888877766655 21 2234778888855555 888888888888 66 3466 788888
Q ss_pred cccccCCc
Q 044013 98 QNYHQHLN 105 (153)
Q Consensus 98 ~~f~~~~~ 105 (153)
+.|.....
T Consensus 107 K~F~~~~s 114 (128)
T PHA00733 107 KEFRNTDS 114 (128)
T ss_pred CccCCHHH
Confidence 88865554
No 11
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.62 E-value=4.1e-09 Score=85.03 Aligned_cols=104 Identities=13% Similarity=0.200 Sum_probs=84.1
Q ss_pred CCCCCcccccCCCCcceeccccccccCChhHHHHHHHhhcCCCCCCCCC--CCCCCCCCCccCCCCChhhhccccccCCC
Q 044013 10 SKSSSDDETDAGTGRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPP--SSSSISDKLTFFPSPSTWDDHQRSVHTNN 87 (153)
Q Consensus 10 ~~~~~h~~~~~~gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~--c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~ 87 (153)
+.|..|++.+++..|||+|+.|.+.|.+.+.|..|..+|+ +..|.|.. |..+ |.+..++.+|++.+|.|.
T Consensus 277 ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s-------~r~~~q~~~H~~evhEg~ 348 (467)
T KOG3608|consen 277 SSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYS-------VRTYTQMRRHFLEVHEGN 348 (467)
T ss_pred HHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHH-------HHHHHHHHHHHHHhccCC
Confidence 4467788888888999999999999999999999999999 77899986 5555 899999999998788777
Q ss_pred CC--CCCCCCCccccccCCcccchhhhc-CCCCcccCCC
Q 044013 88 NN--HSNYDSYGQNYHQHLNMIGDEIWR-GNRSLRVGPS 123 (153)
Q Consensus 88 kp--~~~~~~~~~~f~~~~~~~~~~~~~-~~~sl~~~~~ 123 (153)
.| | .|-.|.|.|.++.+ +..++.. ..+.+-.|-.
T Consensus 349 np~~Y-~CH~Cdr~ft~G~~-L~~HL~kkH~f~~PsGh~ 385 (467)
T KOG3608|consen 349 NPILY-ACHCCDRFFTSGKS-LSAHLMKKHGFRLPSGHK 385 (467)
T ss_pred CCCce-eeecchhhhccchh-HHHHHHHhhcccCCCCCC
Confidence 65 6 78999999987777 6665444 4555555543
No 12
>PHA00733 hypothetical protein
Probab=98.52 E-value=2.9e-08 Score=70.43 Aligned_cols=52 Identities=21% Similarity=0.379 Sum_probs=45.9
Q ss_pred CCCcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccc
Q 044013 21 GTGRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQR 81 (153)
Q Consensus 21 ~gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~ 81 (153)
++.+||.|+.|++.|.....|..|+++| +.+|.|+.|++. |.....|..|+.
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~-------F~~~~sL~~H~~ 120 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKE-------FRNTDSTLDHVC 120 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCc-------cCCHHHHHHHHH
Confidence 3478999999999999999999999987 468999955555 999999999987
No 13
>PHA00616 hypothetical protein
Probab=98.50 E-value=4.8e-08 Score=56.31 Aligned_cols=33 Identities=18% Similarity=0.303 Sum_probs=31.1
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRP 57 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~ 57 (153)
||+|..||+.|...+.|..|++.|+|++|+.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 789999999999999999999999999999886
No 14
>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=98.50 E-value=2.7e-08 Score=51.37 Aligned_cols=23 Identities=26% Similarity=0.377 Sum_probs=18.2
Q ss_pred HHHHHHHhhcCCCCCCCCCCCCC
Q 044013 40 ALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 40 ~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
+|..|+++|++++||.|+.|++.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~ 23 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKS 23 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEE
T ss_pred CHHHHhhhcCCCCCCCCCCCcCe
Confidence 47888888888888888855555
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.40 E-value=1.1e-07 Score=57.48 Aligned_cols=42 Identities=12% Similarity=0.074 Sum_probs=35.0
Q ss_pred CCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCccccccCCc
Q 044013 53 AKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQNYHQHLN 105 (153)
Q Consensus 53 p~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f~~~~~ 105 (153)
.|.|+.|++. |+..++|..|++ +|+ +|| .|..|++.|++...
T Consensus 5 ~y~C~~CGK~-------Fs~~~~L~~H~r-~H~--k~~-kc~~C~k~f~~~s~ 46 (55)
T PHA02768 5 GYECPICGEI-------YIKRKSMITHLR-KHN--TNL-KLSNCKRISLRTGE 46 (55)
T ss_pred ccCcchhCCe-------eccHHHHHHHHH-hcC--Ccc-cCCcccceecccce
Confidence 4789955555 999999999999 999 688 78999999976544
No 16
>PHA00732 hypothetical protein
Probab=98.26 E-value=7.2e-07 Score=58.11 Aligned_cols=44 Identities=23% Similarity=0.348 Sum_probs=36.5
Q ss_pred ceeccccccccCChhHHHHHHH-hhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccc
Q 044013 25 SYECVFCKRGFTTAQALGGHMN-IHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQR 81 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r-~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~ 81 (153)
||.|..|++.|.....|..|++ .|+ ++.|+.|++. |. .|..|+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKs-------F~---~l~~H~~ 45 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKS-------YR---RLNQHFY 45 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCE-------eC---Chhhhhc
Confidence 6899999999999999999998 466 4679966666 87 5888876
No 17
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.26 E-value=9.5e-07 Score=76.07 Aligned_cols=67 Identities=13% Similarity=0.191 Sum_probs=55.7
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCcccccc
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQNYHQ 102 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f~~ 102 (153)
++++.|+.|++.|. ...|..|+.+|+ +|+.|+ |+.. + ....|..|+. +|..++|+ .|.+|+..|.+
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~-------~-~R~~L~~H~~-thCp~Kpi-~C~fC~~~v~~ 516 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVV-------L-EKEQMVQHQA-STCPLRLI-TCRFCGDMVQA 516 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCC-------c-chhHHHhhhh-ccCCCCce-eCCCCCCcccc
Confidence 45678999999996 577999999985 899998 7754 6 5578999998 99999999 79999999854
Q ss_pred C
Q 044013 103 H 103 (153)
Q Consensus 103 ~ 103 (153)
+
T Consensus 517 g 517 (567)
T PLN03086 517 G 517 (567)
T ss_pred C
Confidence 3
No 18
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.13 E-value=3.8e-07 Score=73.85 Aligned_cols=68 Identities=22% Similarity=0.369 Sum_probs=49.6
Q ss_pred cceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCccccc
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQNYH 101 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f~ 101 (153)
.+|.|..|.|.|.+...|..|++.|. .-|+|+.|... .+..++|..|++..|...||| .|+.|...|-
T Consensus 236 n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmt-------c~~~ssL~~H~r~rHs~dkpf-KCd~Cd~~c~ 303 (467)
T KOG3608|consen 236 NSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMT-------CSSASSLTTHIRYRHSKDKPF-KCDECDTRCV 303 (467)
T ss_pred CchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccC-------CCChHHHHHHHHhhhccCCCc-cccchhhhhc
Confidence 46666666666666666666666654 25677766666 788888888888568888888 7888888873
No 19
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.10 E-value=1e-06 Score=75.86 Aligned_cols=74 Identities=11% Similarity=0.113 Sum_probs=59.1
Q ss_pred CCCcccccCCCCcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCC----------CChhhhccc
Q 044013 12 SSSDDETDAGTGRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPS----------PSTWDDHQR 81 (153)
Q Consensus 12 ~~~h~~~~~~gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~----------~~~L~~H~~ 81 (153)
|..|++..+ +|+.|+ ||+.+ ....|..|+++|...+|+.|+.|+.. |.. ...|..|..
T Consensus 468 LekH~~~~H---kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~-------v~~g~~~~d~~d~~s~Lt~HE~ 535 (567)
T PLN03086 468 MEKHMKVFH---EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDM-------VQAGGSAMDVRDRLRGMSEHES 535 (567)
T ss_pred HHHHHHhcC---CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCc-------cccCccccchhhhhhhHHHHHH
Confidence 445555542 789999 99765 66899999999999999999966666 742 347999998
Q ss_pred cccCCCCCCCCCCCCcccc
Q 044013 82 SVHTNNNNHSNYDSYGQNY 100 (153)
Q Consensus 82 ~~Ht~~kp~~~~~~~~~~f 100 (153)
+. |.+++ .|..|++.+
T Consensus 536 -~C-G~rt~-~C~~Cgk~V 551 (567)
T PLN03086 536 -IC-GSRTA-PCDSCGRSV 551 (567)
T ss_pred -hc-CCcce-EccccCCee
Confidence 64 88998 789999997
No 20
>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=98.09 E-value=5.5e-07 Score=46.36 Aligned_cols=25 Identities=20% Similarity=0.368 Sum_probs=23.0
Q ss_pred hhhhccccccCCCCCCCCCCCCccccc
Q 044013 75 TWDDHQRSVHTNNNNHSNYDSYGQNYH 101 (153)
Q Consensus 75 ~L~~H~~~~Ht~~kp~~~~~~~~~~f~ 101 (153)
+|..|++ +|++++|| .|..|+++|.
T Consensus 1 ~l~~H~~-~H~~~k~~-~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMR-THTGEKPY-KCPYCGKSFS 25 (26)
T ss_dssp HHHHHHH-HHSSSSSE-EESSSSEEES
T ss_pred CHHHHhh-hcCCCCCC-CCCCCcCeeC
Confidence 5889999 99999999 8999999984
No 21
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.02 E-value=4.2e-06 Score=41.44 Aligned_cols=23 Identities=35% Similarity=0.852 Sum_probs=21.4
Q ss_pred eeccccccccCChhHHHHHHHhh
Q 044013 26 YECVFCKRGFTTAQALGGHMNIH 48 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H 48 (153)
|.|++|++.|..+..|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 22
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.63 E-value=3.8e-05 Score=39.41 Aligned_cols=25 Identities=32% Similarity=0.618 Sum_probs=23.0
Q ss_pred ceeccccccccCChhHHHHHHHhhc
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHR 49 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~ 49 (153)
||+|..|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 6899999999999999999998775
No 23
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.59 E-value=3e-05 Score=62.23 Aligned_cols=52 Identities=21% Similarity=0.459 Sum_probs=39.8
Q ss_pred Ccceeccc--cccccCChhHHHHHHH-hh------------------cCCCCCCCCCCCCCCCCCCccCCCCChhhhccc
Q 044013 23 GRSYECVF--CKRGFTTAQALGGHMN-IH------------------RKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQR 81 (153)
Q Consensus 23 ekp~~C~~--Cgk~F~~~~~L~~H~r-~H------------------~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~ 81 (153)
+|||+|++ |.|.|++...|+-|+. -| ...|||+|++|++. |....-|+.|..
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KR-------YKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKR-------YKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchh-------hccCccceeccc
Confidence 59999997 9999999999999975 23 12378888866666 777777777754
No 24
>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=97.52 E-value=8e-05 Score=36.58 Aligned_cols=23 Identities=30% Similarity=0.827 Sum_probs=19.2
Q ss_pred eeccccccccCChhHHHHHHHhh
Q 044013 26 YECVFCKRGFTTAQALGGHMNIH 48 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H 48 (153)
|.|++|++.|.+...|..|+++|
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 78999999999999999999876
No 25
>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=97.48 E-value=0.0001 Score=44.39 Aligned_cols=47 Identities=26% Similarity=0.467 Sum_probs=36.2
Q ss_pred ceeccccccccCChhHHHHHHH-hhcCC-CCCCCCCCCCCCCCCCccCCCCChhhhccc
Q 044013 25 SYECVFCKRGFTTAQALGGHMN-IHRKD-RAKNRPPSSSSISDKLTFFPSPSTWDDHQR 81 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r-~H~ge-kp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~ 81 (153)
.|.|++|++. .....|..|.. .|..+ +.+.||.|... +.. +|..|+.
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~-------~~~--~l~~Hl~ 50 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSR-------VTD--NLIRHLN 50 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhh-------hhh--HHHHHHH
Confidence 4899999994 55788999977 46654 57999977655 553 8999987
No 26
>PHA00616 hypothetical protein
Probab=97.47 E-value=1.1e-05 Score=46.46 Aligned_cols=34 Identities=9% Similarity=-0.018 Sum_probs=28.7
Q ss_pred CCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCC
Q 044013 53 AKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDS 95 (153)
Q Consensus 53 p~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~ 95 (153)
||+|+.||+. |...++|..|++ .|+|++|+ .++.
T Consensus 1 pYqC~~CG~~-------F~~~s~l~~H~r-~~hg~~~~-~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGI-------FRKKKEVIEHLL-SVHKQNKL-TLEY 34 (44)
T ss_pred CCccchhhHH-------HhhHHHHHHHHH-HhcCCCcc-ceeE
Confidence 7899955555 999999999999 99999998 5543
No 27
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.25 E-value=3.7e-05 Score=63.67 Aligned_cols=70 Identities=20% Similarity=0.249 Sum_probs=51.3
Q ss_pred CCCCCCCCcccccCCCCcceeccccccccCChhHHHHHHHhhc--------CCCC-------------------------
Q 044013 7 EDYSKSSSDDETDAGTGRSYECVFCKRGFTTAQALGGHMNIHR--------KDRA------------------------- 53 (153)
Q Consensus 7 ~~~~~~~~h~~~~~~gekp~~C~~Cgk~F~~~~~L~~H~r~H~--------gekp------------------------- 53 (153)
+|.+.|..|.=.++- .--|+|+.|+|.|+-+.+|..|.|-|. +..|
T Consensus 278 eD~F~LAQHrC~RIV-~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi 356 (500)
T KOG3993|consen 278 EDAFALAQHRCPRIV-HVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGI 356 (500)
T ss_pred hhHHHHhhccCCeeE-EeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCce
Confidence 355677777655554 335999999999999999999999873 2222
Q ss_pred CCCCCCCCCCCCCCccCCCCChhhhccccccC
Q 044013 54 KNRPPSSSSISDKLTFFPSPSTWDDHQRSVHT 85 (153)
Q Consensus 54 ~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht 85 (153)
|.|. +|+|. |.+...|+.|+. +|.
T Consensus 357 ~~C~-----~C~Kk--FrRqAYLrKHql-thq 380 (500)
T KOG3993|consen 357 FSCH-----TCGKK--FRRQAYLRKHQL-THQ 380 (500)
T ss_pred eecH-----Hhhhh--hHHHHHHHHhHH-hhh
Confidence 5566 55555 999999999987 543
No 28
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.18 E-value=0.00054 Score=40.60 Aligned_cols=37 Identities=14% Similarity=0.371 Sum_probs=26.0
Q ss_pred cccCCCCcceeccccccccCChhHHHHHHHhhcCCCC
Q 044013 17 ETDAGTGRSYECVFCKRGFTTAQALGGHMNIHRKDRA 53 (153)
Q Consensus 17 ~~~~~gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp 53 (153)
+.+...+.|..|++|+..++...+|++|+.++.+.||
T Consensus 16 k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 16 KSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred HHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3445557899999999999999999999998888776
No 29
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.11 E-value=0.00041 Score=34.36 Aligned_cols=24 Identities=38% Similarity=0.728 Sum_probs=20.4
Q ss_pred eeccccccccCChhHHHHHHHhhc
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHR 49 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~ 49 (153)
|.|..|++.|.....|..|+++|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 578889999999999999988765
No 30
>PHA00732 hypothetical protein
Probab=97.03 E-value=0.00042 Score=45.08 Aligned_cols=39 Identities=15% Similarity=0.144 Sum_probs=31.0
Q ss_pred CCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCcccccc
Q 044013 53 AKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQNYHQ 102 (153)
Q Consensus 53 p~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f~~ 102 (153)
||.|..|++. |.+..+|..|++..|++ + .|..|+++|.+
T Consensus 1 py~C~~Cgk~-------F~s~s~Lk~H~r~~H~~---~-~C~~CgKsF~~ 39 (79)
T PHA00732 1 MFKCPICGFT-------TVTLFALKQHARRNHTL---T-KCPVCNKSYRR 39 (79)
T ss_pred CccCCCCCCc-------cCCHHHHHHHhhcccCC---C-ccCCCCCEeCC
Confidence 6889966555 99999999999723654 4 69999999953
No 31
>PRK04860 hypothetical protein; Provisional
Probab=97.00 E-value=0.00039 Score=51.11 Aligned_cols=36 Identities=14% Similarity=0.309 Sum_probs=30.3
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.-+|.|. |++ ....+.+|.++|+++++|.|..|+..
T Consensus 117 ~~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~ 152 (160)
T PRK04860 117 TFPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGET 152 (160)
T ss_pred EEEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCce
Confidence 3579998 987 56678999999999999999966665
No 32
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.66 E-value=0.0013 Score=32.91 Aligned_cols=23 Identities=22% Similarity=0.712 Sum_probs=20.9
Q ss_pred eeccccccccCChhHHHHHHHhh
Q 044013 26 YECVFCKRGFTTAQALGGHMNIH 48 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H 48 (153)
|.|.+|++.|.....|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999999865
No 33
>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=95.87 E-value=0.00043 Score=33.96 Aligned_cols=23 Identities=35% Similarity=0.424 Sum_probs=17.8
Q ss_pred CCCCCCCCCCCCCCccCCCCChhhhcccccc
Q 044013 54 KNRPPSSSSISDKLTFFPSPSTWDDHQRSVH 84 (153)
Q Consensus 54 ~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~H 84 (153)
|.|+.|++. |.....|..|++ .|
T Consensus 1 y~C~~C~~~-------f~~~~~l~~H~~-~H 23 (23)
T PF00096_consen 1 YKCPICGKS-------FSSKSNLKRHMR-RH 23 (23)
T ss_dssp EEETTTTEE-------ESSHHHHHHHHH-HH
T ss_pred CCCCCCCCc-------cCCHHHHHHHHh-HC
Confidence 468855555 999999999997 44
No 34
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.59 E-value=0.0054 Score=49.72 Aligned_cols=60 Identities=17% Similarity=0.274 Sum_probs=54.3
Q ss_pred cceeccccccccCChhHHHHHHH--hhcCC--CCCCCC--CCCCCCCCCCccCCCCChhhhccccccCCCCCCC
Q 044013 24 RSYECVFCKRGFTTAQALGGHMN--IHRKD--RAKNRP--PSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHS 91 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r--~H~ge--kp~~C~--~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~ 91 (153)
.++.|..|...|.....|..|.+ .|+++ +|+.|+ .|++. |.+...+..|.. +|++.+++.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~-------~~~~~~~~~~~~-~~~~~~~~~ 353 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKL-------FSRNDALKRHIL-LHTSISPAK 353 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCcc-------ccccccccCCcc-cccCCCccc
Confidence 47899999999999999999999 89999 999999 56666 999999999999 999988763
No 35
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.44 E-value=0.005 Score=31.47 Aligned_cols=22 Identities=27% Similarity=0.623 Sum_probs=18.2
Q ss_pred eeccccccccCChhHHHHHHHh
Q 044013 26 YECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
|.|..|++.|.+...|..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6788888888888888888764
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=95.33 E-value=0.0023 Score=42.14 Aligned_cols=21 Identities=33% Similarity=0.842 Sum_probs=0.0
Q ss_pred eccccccccCChhHHHHHHHh
Q 044013 27 ECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 27 ~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
+|.+|+..|.....|..|+..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~ 21 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKK 21 (100)
T ss_dssp ---------------------
T ss_pred Ccccccccccccccccccccc
Confidence 478888888888888888763
No 37
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.13 E-value=0.02 Score=28.22 Aligned_cols=23 Identities=26% Similarity=0.628 Sum_probs=17.6
Q ss_pred eeccccccccCChhHHHHHHHhhc
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHR 49 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~ 49 (153)
|+|+.|..... ...|..|++.|.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999998887 889999998753
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=95.00 E-value=0.014 Score=47.18 Aligned_cols=45 Identities=11% Similarity=0.178 Sum_probs=34.8
Q ss_pred CCCCCCCCCCCCCCCCCCccCCCCChhhhccccccC------------------CCCCCCCCCCCcccc
Q 044013 50 KDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHT------------------NNNNHSNYDSYGQNY 100 (153)
Q Consensus 50 gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht------------------~~kp~~~~~~~~~~f 100 (153)
++|||+|++- .|.|+ |....-|+.|+...|. ..||| .|.+|++.|
T Consensus 346 d~KpykCpV~---gC~K~--YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPY-rCevC~KRY 408 (423)
T COG5189 346 DGKPYKCPVE---GCNKK--YKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPY-RCEVCDKRY 408 (423)
T ss_pred cCceecCCCC---Cchhh--hccccchhhhhhccccCcccCCCCCccccccccccCCce-eccccchhh
Confidence 4699999875 45577 9999999999863451 12688 799999998
No 39
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.90 E-value=0.021 Score=28.85 Aligned_cols=21 Identities=33% Similarity=0.669 Sum_probs=17.3
Q ss_pred eeccccccccCChhHHHHHHHh
Q 044013 26 YECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
..|++||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4799999999 67889989764
No 40
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=94.76 E-value=0.0065 Score=50.73 Aligned_cols=53 Identities=30% Similarity=0.502 Sum_probs=44.1
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHT 85 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht 85 (153)
-|.|..|.-.|-..-.|.+|.-.-.-..-|+|+ .|+|+ |+...+|..|.| -|.
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCP-----EC~KV--FsCPANLASHRR-WHK 319 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCP-----ECDKV--FSCPANLASHRR-WHK 319 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCC-----ccccc--ccCchhhhhhhc-ccC
Confidence 399999999999999999997654545579999 66666 999999999988 664
No 41
>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=94.62 E-value=0.0036 Score=31.80 Aligned_cols=25 Identities=24% Similarity=0.336 Sum_probs=20.3
Q ss_pred CCCCCCCCCCCCCCCccCCCCChhhhccccccC
Q 044013 53 AKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHT 85 (153)
Q Consensus 53 p~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht 85 (153)
||.|..|+.. |.....|..|++ .|.
T Consensus 1 ~~~C~~C~~~-------F~~~~~l~~H~~-~h~ 25 (27)
T PF13912_consen 1 PFECDECGKT-------FSSLSALREHKR-SHC 25 (27)
T ss_dssp SEEETTTTEE-------ESSHHHHHHHHC-TTT
T ss_pred CCCCCccCCc-------cCChhHHHHHhH-Hhc
Confidence 6788866666 999999999998 654
No 42
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.33 E-value=0.016 Score=28.24 Aligned_cols=24 Identities=29% Similarity=0.391 Sum_probs=19.3
Q ss_pred CCCCCCCCCCCCCCccCCCCChhhhccccccC
Q 044013 54 KNRPPSSSSISDKLTFFPSPSTWDDHQRSVHT 85 (153)
Q Consensus 54 ~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht 85 (153)
|.|..|++. |.....|..|++ .|.
T Consensus 1 ~~C~~C~~~-------f~~~~~l~~H~~-~H~ 24 (26)
T smart00355 1 YRCPECGKV-------FKSKSALKEHMR-THX 24 (26)
T ss_pred CCCCCCcch-------hCCHHHHHHHHH-Hhc
Confidence 568866655 999999999998 765
No 43
>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=94.13 E-value=0.0042 Score=30.13 Aligned_cols=21 Identities=33% Similarity=0.357 Sum_probs=15.6
Q ss_pred CCCCCCCCCCCCCCccCCCCChhhhccc
Q 044013 54 KNRPPSSSSISDKLTFFPSPSTWDDHQR 81 (153)
Q Consensus 54 ~~C~~c~~~~Cgk~~~F~~~~~L~~H~~ 81 (153)
|.|+.|+.. |.....|..|++
T Consensus 1 ~~C~~C~~~-------~~~~~~l~~H~~ 21 (24)
T PF13894_consen 1 FQCPICGKS-------FRSKSELRQHMR 21 (24)
T ss_dssp EE-SSTS-E-------ESSHHHHHHHHH
T ss_pred CCCcCCCCc-------CCcHHHHHHHHH
Confidence 468855555 999999999997
No 44
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.50 E-value=0.059 Score=28.78 Aligned_cols=23 Identities=22% Similarity=0.567 Sum_probs=19.9
Q ss_pred ceeccccccccCChhHHHHHHHh
Q 044013 25 SYECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
+|.|.+|++.|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999988888888764
No 45
>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=93.32 E-value=0.011 Score=35.02 Aligned_cols=33 Identities=6% Similarity=0.168 Sum_probs=21.2
Q ss_pred cCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCC
Q 044013 49 RKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNN 89 (153)
Q Consensus 49 ~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp 89 (153)
..+.|-.|+.|+ .. +++..+|.+|+. ++.+.+|
T Consensus 20 ~S~~PatCP~C~-----a~--~~~srnLrRHle-~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICG-----AV--IRQSRNLRRHLE-IRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT-------E--ESSHHHHHHHHH-HHTTTS-
T ss_pred ccCCCCCCCcch-----hh--ccchhhHHHHHH-HHhcccC
Confidence 356788999554 44 999999999998 6666655
No 46
>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=93.30 E-value=0.048 Score=32.52 Aligned_cols=40 Identities=13% Similarity=0.154 Sum_probs=30.1
Q ss_pred CCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCcccc
Q 044013 53 AKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQNY 100 (153)
Q Consensus 53 p~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f 100 (153)
.|.||.|++. |.. ..|..|....|..+.....|++|...+
T Consensus 2 ~f~CP~C~~~-------~~~-~~L~~H~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKG-------FSE-SSLVEHCEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCc-------cCH-HHHHHHHHhHCcCCCCCccCCCchhhh
Confidence 4789977665 876 469999875788765445899999864
No 47
>PRK04860 hypothetical protein; Provisional
Probab=92.78 E-value=0.038 Score=40.66 Aligned_cols=36 Identities=14% Similarity=0.075 Sum_probs=29.5
Q ss_pred CCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCccccc
Q 044013 53 AKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQNYH 101 (153)
Q Consensus 53 p~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f~ 101 (153)
+|.|. |+. ....+..|.+ +|++++|| .|..|++.|.
T Consensus 119 ~Y~C~-C~~----------~~~~~rrH~r-i~~g~~~Y-rC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE----------HQLTVRRHNR-VVRGEAVY-RCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC----------eeCHHHHHHH-HhcCCccE-ECCCCCceeE
Confidence 67885 543 3667899999 99999999 7889999873
No 48
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=92.05 E-value=0.14 Score=33.48 Aligned_cols=25 Identities=32% Similarity=0.805 Sum_probs=21.5
Q ss_pred ceeccccccccCChhHHHHHHHhhc
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHR 49 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~ 49 (153)
++.|.+|++.|.....|..|++.+.
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCcc
Confidence 6899999999999999999999653
No 49
>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=91.10 E-value=0.19 Score=26.90 Aligned_cols=25 Identities=16% Similarity=0.336 Sum_probs=18.1
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
|.|.+||..+.... .|+.||.|+..
T Consensus 2 ~~C~~CGy~y~~~~------------~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIYDGEE------------APWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEECCCc------------CCCcCcCCCCc
Confidence 78999997765432 68899977644
No 50
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=87.52 E-value=0.35 Score=37.90 Aligned_cols=50 Identities=24% Similarity=0.352 Sum_probs=37.2
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhc-cccccC
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDH-QRSVHT 85 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H-~~~~Ht 85 (153)
.|| .|=+|.+.|-...-|.+|+. .|-|+|- ||.|. .-+..-|..| |+ +|.
T Consensus 9 ~kp-wcwycnrefddekiliqhqk----akhfkch-----ichkk--l~sgpglsihcmq-vhk 59 (341)
T KOG2893|consen 9 DKP-WCWYCNREFDDEKILIQHQK----AKHFKCH-----ICHKK--LFSGPGLSIHCMQ-VHK 59 (341)
T ss_pred CCc-eeeecccccchhhhhhhhhh----hccceee-----eehhh--hccCCCceeehhh-hhh
Confidence 344 58899999999999998875 6789999 55555 6666667777 45 553
No 51
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=86.02 E-value=0.33 Score=45.95 Aligned_cols=52 Identities=21% Similarity=0.288 Sum_probs=42.7
Q ss_pred CcceeccccccccCChhHHHHHHHh-h------------------------cCCCCCCCCCCCCCCCCCCccCCCCChhh
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNI-H------------------------RKDRAKNRPPSSSSISDKLTFFPSPSTWD 77 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~-H------------------------~gekp~~C~~c~~~~Cgk~~~F~~~~~L~ 77 (153)
.|.|.|+.|+-.|+....|..|+|. | -+.+||.|..|..+ ++...+|.
T Consensus 463 ~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~s-------tttng~Ls 535 (1406)
T KOG1146|consen 463 FKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYS-------TTTNGNLS 535 (1406)
T ss_pred cccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeee-------eecchHHH
Confidence 3789999999999999999999998 1 11357788877777 88888998
Q ss_pred hccc
Q 044013 78 DHQR 81 (153)
Q Consensus 78 ~H~~ 81 (153)
.|+.
T Consensus 536 ihlq 539 (1406)
T KOG1146|consen 536 IHLQ 539 (1406)
T ss_pred HHHH
Confidence 8875
No 52
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=84.65 E-value=0.69 Score=34.22 Aligned_cols=23 Identities=17% Similarity=0.421 Sum_probs=18.3
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSS 60 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~ 60 (153)
-|.|++||. ++.|+-|-.||.|+
T Consensus 134 ~~vC~vCGy-------------~~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGY-------------THEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCC-------------cccCCCCCcCCCCC
Confidence 689999985 45668899999666
No 53
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=84.64 E-value=1.2 Score=35.87 Aligned_cols=61 Identities=26% Similarity=0.443 Sum_probs=49.7
Q ss_pred CCcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCC
Q 044013 22 TGRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNN 88 (153)
Q Consensus 22 gekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~k 88 (153)
..+++.|+.|...|........|.++|++++++.|..+++. +. |.....+..|.+ .+....
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~--~~~~~~~~~~~~-~~~~~~ 90 (467)
T COG5048 30 APRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCD---KS--FSRPLELSRHLR-THHNNP 90 (467)
T ss_pred CCchhhcccccccccccchhhhhcccccccCCccccccccc---cc--cCCcchhhhhcc-cccccc
Confidence 35678999999999999999999999999999999866433 55 788888888887 555443
No 54
>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=82.82 E-value=0.95 Score=24.41 Aligned_cols=26 Identities=12% Similarity=0.296 Sum_probs=17.6
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.|.|.+||..+... +.|..|+.|+..
T Consensus 2 ~~~C~~CG~i~~g~------------~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGE------------EAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECC------------cCCCcCcCCCCc
Confidence 48899999764332 257789977643
No 55
>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=80.89 E-value=1 Score=32.94 Aligned_cols=31 Identities=16% Similarity=0.117 Sum_probs=22.7
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
..-|.|+.|+..|+...++. --|.|+.||..
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 34588999998888887774 26889966544
No 56
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=80.71 E-value=1 Score=33.68 Aligned_cols=30 Identities=20% Similarity=0.283 Sum_probs=21.0
Q ss_pred cceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.-|.|+.|++.|+...++. --|.|+.|+..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCC
Confidence 4588888888888777653 35888855544
No 57
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=79.48 E-value=0.53 Score=36.13 Aligned_cols=24 Identities=21% Similarity=0.600 Sum_probs=18.5
Q ss_pred CcceeccccccccCChhHHHHHHH
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMN 46 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r 46 (153)
.+.+.|++|++.|.+........+
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCce
Confidence 356899999999998866655554
No 58
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=79.34 E-value=0.96 Score=32.54 Aligned_cols=35 Identities=20% Similarity=0.272 Sum_probs=20.7
Q ss_pred cceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.-|.|+.|+..|....++..- .. ..-|.|+.|+..
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~---d~-~~~f~Cp~Cg~~ 132 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLL---DM-DGTFTCPRCGEE 132 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhc---CC-CCcEECCCCCCE
Confidence 458888888888765543320 11 233888855544
No 59
>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=78.95 E-value=1.1 Score=25.31 Aligned_cols=31 Identities=29% Similarity=0.530 Sum_probs=21.3
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
-|.|..||..|..... +.. ..+-.|+.|+..
T Consensus 5 ey~C~~Cg~~fe~~~~------~~~-~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQS------ISE-DDPVPCPECGST 35 (42)
T ss_pred EEEeCCCCCEEEEEEE------cCC-CCCCcCCCCCCC
Confidence 4899999998876543 222 456679977763
No 60
>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=78.24 E-value=0.82 Score=26.70 Aligned_cols=31 Identities=23% Similarity=0.502 Sum_probs=20.4
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
-|.|..||..|.....+ .. ..+-.|+.|+..
T Consensus 5 ey~C~~Cg~~fe~~~~~------~~-~~~~~CP~Cg~~ 35 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKM------SD-DPLATCPECGGE 35 (52)
T ss_pred EEEeCCCCCEeEEEEec------CC-CCCCCCCCCCCC
Confidence 38899999988764322 11 345569977753
No 61
>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=77.43 E-value=0.88 Score=25.00 Aligned_cols=30 Identities=23% Similarity=0.470 Sum_probs=19.7
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSS 61 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~ 61 (153)
-|+|..||..|...... .. ..+-.|+.|+.
T Consensus 5 ~y~C~~Cg~~fe~~~~~------~~-~~~~~CP~Cg~ 34 (41)
T smart00834 5 EYRCEDCGHTFEVLQKI------SD-DPLATCPECGG 34 (41)
T ss_pred EEEcCCCCCEEEEEEec------CC-CCCCCCCCCCC
Confidence 48899999988754432 11 34556887765
No 62
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=75.34 E-value=3 Score=23.36 Aligned_cols=25 Identities=16% Similarity=0.496 Sum_probs=16.0
Q ss_pred CCcceeccccccccCCh----hHHHHHHH
Q 044013 22 TGRSYECVFCKRGFTTA----QALGGHMN 46 (153)
Q Consensus 22 gekp~~C~~Cgk~F~~~----~~L~~H~r 46 (153)
+..-..|.+|++.+... ++|..|++
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 35567899999988764 68888883
No 63
>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=73.51 E-value=1.9 Score=30.68 Aligned_cols=27 Identities=26% Similarity=0.463 Sum_probs=17.0
Q ss_pred cceeccccccccCChhHHHHHHHhhcCCCC
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRA 53 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~gekp 53 (153)
..-.|-+|||.|.. |++|++.|.|-.|
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred CeeEEccCCcccch---HHHHHHHccCCCH
Confidence 34679999999987 6999999976544
No 64
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=73.25 E-value=1.9 Score=26.14 Aligned_cols=26 Identities=19% Similarity=0.245 Sum_probs=21.4
Q ss_pred CCcceeccccccccCChhHHHHHHHh
Q 044013 22 TGRSYECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 22 gekp~~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
||.-+.|+.|+..|.......+|.+.
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 47778899999999888888888764
No 65
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=73.12 E-value=3 Score=24.18 Aligned_cols=25 Identities=20% Similarity=0.588 Sum_probs=19.0
Q ss_pred ceeccccccccCCh-----hHHHHHHH-hhc
Q 044013 25 SYECVFCKRGFTTA-----QALGGHMN-IHR 49 (153)
Q Consensus 25 p~~C~~Cgk~F~~~-----~~L~~H~r-~H~ 49 (153)
--.|..|++.++.. ++|.+|++ .|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 46799999988765 57888887 443
No 66
>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=72.28 E-value=2.6 Score=28.94 Aligned_cols=30 Identities=20% Similarity=0.401 Sum_probs=21.4
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSP 73 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~ 73 (153)
..|+.||++|.-.. ..|-.||.||.. |...
T Consensus 10 R~Cp~CG~kFYDLn-----------k~PivCP~CG~~-------~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLN-----------KDPIVCPKCGTE-------FPPE 39 (108)
T ss_pred ccCCCCcchhccCC-----------CCCccCCCCCCc-------cCcc
Confidence 47999999886531 357789966666 7666
No 67
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=67.55 E-value=3.2 Score=24.44 Aligned_cols=30 Identities=23% Similarity=0.401 Sum_probs=20.5
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
..-|.|..||+.|... .......|+.|+..
T Consensus 4 ~~~Y~C~~Cg~~~~~~----------~~~~~irCp~Cg~r 33 (49)
T COG1996 4 MMEYKCARCGREVELD----------QETRGIRCPYCGSR 33 (49)
T ss_pred eEEEEhhhcCCeeehh----------hccCceeCCCCCcE
Confidence 3569999999998321 12445689988765
No 68
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=67.16 E-value=3.2 Score=25.43 Aligned_cols=31 Identities=10% Similarity=0.162 Sum_probs=16.9
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSS 60 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~ 60 (153)
.|.|+.||..--.. -.+.-.-..||.|+.||
T Consensus 27 ~F~CPnCGe~~I~R-----c~~CRk~g~~Y~Cp~CG 57 (61)
T COG2888 27 KFPCPNCGEVEIYR-----CAKCRKLGNPYRCPKCG 57 (61)
T ss_pred EeeCCCCCceeeeh-----hhhHHHcCCceECCCcC
Confidence 47888888543222 12222235688888554
No 69
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=66.82 E-value=3.2 Score=22.67 Aligned_cols=32 Identities=16% Similarity=0.347 Sum_probs=19.9
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
..|+.|+..|.-... ++..+.+..+|+.|+..
T Consensus 3 i~CP~C~~~f~v~~~-----~l~~~~~~vrC~~C~~~ 34 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDD-----KLPAGGRKVRCPKCGHV 34 (37)
T ss_pred EECCCCCceEEcCHH-----HcccCCcEEECCCCCcE
Confidence 368888888876554 23334456678866554
No 70
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=66.71 E-value=2.6 Score=24.05 Aligned_cols=29 Identities=17% Similarity=0.334 Sum_probs=19.2
Q ss_pred cceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
..|.|..||..|..... .....|+.|+..
T Consensus 2 ~~y~C~~CG~~~~~~~~----------~~~~~Cp~CG~~ 30 (46)
T PRK00398 2 AEYKCARCGREVELDEY----------GTGVRCPYCGYR 30 (46)
T ss_pred CEEECCCCCCEEEECCC----------CCceECCCCCCe
Confidence 35889999987765322 115689977755
No 71
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=66.63 E-value=4 Score=23.34 Aligned_cols=27 Identities=15% Similarity=0.144 Sum_probs=19.3
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.|.|..||..|... ..-+..|+.|+..
T Consensus 2 ~Y~C~~Cg~~~~~~-----------~~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIK-----------SKDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecC-----------CCCceECCCCCce
Confidence 38899999887643 2346789977765
No 72
>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=66.40 E-value=3 Score=22.60 Aligned_cols=32 Identities=13% Similarity=0.173 Sum_probs=18.9
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
+.|+.|+..|.-..... .....-..|+.|+..
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~v~C~~C~~~ 34 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGKVRCGKCGHV 34 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCEEECCCCCCE
Confidence 57888988887665422 111224568866544
No 73
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=63.90 E-value=5.4 Score=28.23 Aligned_cols=34 Identities=18% Similarity=0.273 Sum_probs=24.2
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhh
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWD 77 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~ 77 (153)
..|+.||+.|.-. +..|-.|+.|+.. |.....++
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~-------~~~~~~~~ 43 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQ-------FPPEEALK 43 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCc-------cCcchhhc
Confidence 5899999998652 2368889977766 76664444
No 74
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=63.88 E-value=5.3 Score=24.39 Aligned_cols=30 Identities=10% Similarity=0.300 Sum_probs=16.6
Q ss_pred ceeccccccc-cCChhHHHHHHHhhcCCCCCCCCCCC
Q 044013 25 SYECVFCKRG-FTTAQALGGHMNIHRKDRAKNRPPSS 60 (153)
Q Consensus 25 p~~C~~Cgk~-F~~~~~L~~H~r~H~gekp~~C~~c~ 60 (153)
.|.|+.||.. -..-. +--.-..+|.|+.|+
T Consensus 25 ~F~CPnCG~~~I~RC~------~CRk~~~~Y~CP~CG 55 (59)
T PRK14890 25 KFLCPNCGEVIIYRCE------KCRKQSNPYTCPKCG 55 (59)
T ss_pred EeeCCCCCCeeEeech------hHHhcCCceECCCCC
Confidence 4888888865 22211 112224678888554
No 75
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=59.43 E-value=6.6 Score=21.30 Aligned_cols=32 Identities=16% Similarity=0.263 Sum_probs=19.3
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
..|+.|+..|.-.... +....+-.+|+.|+..
T Consensus 3 i~Cp~C~~~y~i~d~~-----ip~~g~~v~C~~C~~~ 34 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEK-----IPPKGRKVRCSKCGHV 34 (36)
T ss_pred EECCCCCCEEeCCHHH-----CCCCCcEEECCCCCCE
Confidence 4688888888766542 2233445677755544
No 76
>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=58.86 E-value=8.5 Score=29.65 Aligned_cols=25 Identities=16% Similarity=0.426 Sum_probs=20.5
Q ss_pred CcceeccccccccCChhHHHHHHHh
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
+..|.|..|+|.|........|+..
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhh
Confidence 5569999999999999999999884
No 77
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=58.63 E-value=1.9 Score=31.51 Aligned_cols=10 Identities=30% Similarity=0.726 Sum_probs=7.4
Q ss_pred eecccccccc
Q 044013 26 YECVFCKRGF 35 (153)
Q Consensus 26 ~~C~~Cgk~F 35 (153)
.+|++||-.+
T Consensus 1 m~cp~c~~~~ 10 (154)
T PRK00464 1 MRCPFCGHPD 10 (154)
T ss_pred CcCCCCCCCC
Confidence 3699998655
No 78
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=55.96 E-value=6.5 Score=26.19 Aligned_cols=14 Identities=29% Similarity=0.548 Sum_probs=9.7
Q ss_pred cceeccccccccCC
Q 044013 24 RSYECVFCKRGFTT 37 (153)
Q Consensus 24 kp~~C~~Cgk~F~~ 37 (153)
+|-.|..||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 46677777777754
No 79
>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=55.95 E-value=9.3 Score=19.17 Aligned_cols=19 Identities=21% Similarity=0.665 Sum_probs=11.8
Q ss_pred eccccccccCChhHHHHHHH
Q 044013 27 ECVFCKRGFTTAQALGGHMN 46 (153)
Q Consensus 27 ~C~~Cgk~F~~~~~L~~H~r 46 (153)
.|++|++.+ ....+..|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 577887776 4445555543
No 80
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=55.95 E-value=7.9 Score=26.37 Aligned_cols=28 Identities=18% Similarity=0.349 Sum_probs=19.4
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
|+.|..||..|...+.. +-. -|+.||..
T Consensus 2 pH~CtrCG~vf~~g~~~-----il~-----GCp~CG~n 29 (112)
T COG3364 2 PHQCTRCGEVFDDGSEE-----ILS-----GCPKCGCN 29 (112)
T ss_pred CceecccccccccccHH-----HHc-----cCccccch
Confidence 78999999999875432 222 38877655
No 81
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=54.83 E-value=6.5 Score=28.15 Aligned_cols=25 Identities=20% Similarity=0.291 Sum_probs=21.1
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRA 53 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp 53 (153)
..|-++||.|.. |++|+.+|.|-.|
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCCH
Confidence 569999999974 9999999988665
No 82
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=51.99 E-value=7.5 Score=27.60 Aligned_cols=15 Identities=13% Similarity=0.430 Sum_probs=11.6
Q ss_pred cceeccccccccCCh
Q 044013 24 RSYECVFCKRGFTTA 38 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~ 38 (153)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 358899999888664
No 83
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=48.41 E-value=5.7 Score=33.63 Aligned_cols=37 Identities=16% Similarity=0.302 Sum_probs=26.7
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
..-|.|+.|.+.|+...++.- +-...-.|.|..|+-.
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGGE 162 (436)
T ss_pred cccccCCccccchhhhHHHHh---hcccCceEEEecCCCc
Confidence 567999999999988766542 3333457889988743
No 84
>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=47.65 E-value=12 Score=25.84 Aligned_cols=26 Identities=15% Similarity=0.250 Sum_probs=17.6
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
...|..|++.|..... -+.||.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~~------------~~~CP~Cgs~ 95 (115)
T TIGR00100 70 ECECEDCSEEVSPEID------------LYRCPKCHGI 95 (115)
T ss_pred EEEcccCCCEEecCCc------------CccCcCCcCC
Confidence 3789999987765422 3678877654
No 85
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=47.30 E-value=5.2 Score=36.21 Aligned_cols=26 Identities=27% Similarity=0.594 Sum_probs=23.4
Q ss_pred ceeccccccccCChhHHHHHHHhhcC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRK 50 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~g 50 (153)
-|.|..|+|.|-.-..+..||.+|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 49999999999998999999999973
No 86
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=47.12 E-value=8.4 Score=28.12 Aligned_cols=35 Identities=14% Similarity=0.405 Sum_probs=24.0
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.-+|.|. |+..|.+ ..+|-.+-.|+ .|.|..|+-.
T Consensus 115 ~~~Y~C~-C~q~~l~---~RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 115 TYPYRCQ-CQQHYLR---IRRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred ceeEEee-cCCccch---hhhcccccccc-eEEeccCCce
Confidence 5689999 9987654 34455555666 8989877543
No 87
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=46.86 E-value=5.9 Score=32.84 Aligned_cols=23 Identities=22% Similarity=0.642 Sum_probs=18.2
Q ss_pred cceeccc--cccccCChhHHHHHHH
Q 044013 24 RSYECVF--CKRGFTTAQALGGHMN 46 (153)
Q Consensus 24 kp~~C~~--Cgk~F~~~~~L~~H~r 46 (153)
+||+|.+ |.+.++....|+.|..
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~ 372 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKL 372 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccc
Confidence 7899975 9999888877777753
No 88
>KOG3214 consensus Uncharacterized Zn ribbon-containing protein [Function unknown]
Probab=46.16 E-value=4.4 Score=27.45 Aligned_cols=20 Identities=0% Similarity=0.265 Sum_probs=14.7
Q ss_pred CCCCCCCccccccCCcccch
Q 044013 90 HSNYDSYGQNYHQHLNMIGD 109 (153)
Q Consensus 90 ~~~~~~~~~~f~~~~~~~~~ 109 (153)
+.+|.+|+.+|+.....+..
T Consensus 47 ~~sC~iC~esFqt~it~Lse 66 (109)
T KOG3214|consen 47 KASCRICEESFQTTITALSE 66 (109)
T ss_pred eeeeeehhhhhccchHhhcc
Confidence 45799999999766655544
No 89
>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=45.45 E-value=19 Score=24.27 Aligned_cols=24 Identities=17% Similarity=0.384 Sum_probs=20.8
Q ss_pred eec----cccccccCChhHHHHHHHhhc
Q 044013 26 YEC----VFCKRGFTTAQALGGHMNIHR 49 (153)
Q Consensus 26 ~~C----~~Cgk~F~~~~~L~~H~r~H~ 49 (153)
|.| ..|+..+.+...+..|.+.+.
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 889 899999999999999988654
No 90
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=45.07 E-value=14 Score=25.96 Aligned_cols=26 Identities=35% Similarity=0.666 Sum_probs=21.9
Q ss_pred CCcceeccccccccCChhHHHHHHHh
Q 044013 22 TGRSYECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 22 gekp~~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
|--.|-|-.|.+-|.+..+|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 44569999999999999999999764
No 91
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=44.90 E-value=11 Score=20.88 Aligned_cols=13 Identities=23% Similarity=0.713 Sum_probs=11.1
Q ss_pred ceeccccccccCC
Q 044013 25 SYECVFCKRGFTT 37 (153)
Q Consensus 25 p~~C~~Cgk~F~~ 37 (153)
||+|..|++.|-.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 8899999988865
No 92
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=43.63 E-value=16 Score=25.06 Aligned_cols=26 Identities=15% Similarity=0.189 Sum_probs=17.0
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.+.|..||..|.... ..+.||.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~------------~~~~CP~Cgs~ 95 (113)
T PRK12380 70 QAWCWDCSQVVEIHQ------------HDAQCPHCHGE 95 (113)
T ss_pred EEEcccCCCEEecCC------------cCccCcCCCCC
Confidence 478999997775432 34568877643
No 93
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=43.06 E-value=15 Score=25.34 Aligned_cols=14 Identities=29% Similarity=0.593 Sum_probs=10.2
Q ss_pred ceeccccccccCCh
Q 044013 25 SYECVFCKRGFTTA 38 (153)
Q Consensus 25 p~~C~~Cgk~F~~~ 38 (153)
.+.|..||..|...
T Consensus 71 ~~~C~~Cg~~~~~~ 84 (117)
T PRK00564 71 ELECKDCSHVFKPN 84 (117)
T ss_pred EEEhhhCCCccccC
Confidence 37888998777653
No 94
>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=41.95 E-value=12 Score=18.56 Aligned_cols=10 Identities=20% Similarity=0.561 Sum_probs=7.9
Q ss_pred cceecccccc
Q 044013 24 RSYECVFCKR 33 (153)
Q Consensus 24 kp~~C~~Cgk 33 (153)
-+|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 3699999984
No 95
>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=41.30 E-value=54 Score=26.25 Aligned_cols=24 Identities=8% Similarity=0.044 Sum_probs=14.1
Q ss_pred CCCCCCCCCCCCCCCCCccCCCCChhhhccc
Q 044013 51 DRAKNRPPSSSSISDKLTFFPSPSTWDDHQR 81 (153)
Q Consensus 51 ekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~ 81 (153)
.+|+.||.|+.. ......|..-.|
T Consensus 207 ~k~~PCPKCg~e-------t~eTkdLSmStR 230 (314)
T PF06524_consen 207 GKPIPCPKCGYE-------TQETKDLSMSTR 230 (314)
T ss_pred CCCCCCCCCCCc-------ccccccceeeee
Confidence 356777766655 555555555444
No 96
>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=40.08 E-value=12 Score=20.97 Aligned_cols=15 Identities=20% Similarity=0.722 Sum_probs=9.7
Q ss_pred cceeccccccccCCh
Q 044013 24 RSYECVFCKRGFTTA 38 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~ 38 (153)
-||.|..|++.|-..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 589999999998653
No 97
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=38.56 E-value=22 Score=26.14 Aligned_cols=58 Identities=17% Similarity=0.277 Sum_probs=41.2
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCC-CCChhhhccccccCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFP-SPSTWDDHQRSVHTNNNNH 90 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~-~~~~L~~H~~~~Ht~~kp~ 90 (153)
.-.|+.|--.-.-+... .--|.+...|+..|..=++. |. +-..|.+|.+..|...+|-
T Consensus 80 ~L~CPLCRG~V~GWtvv-e~AR~~LN~K~RsC~~e~C~-------F~GtY~eLrKHar~~HP~~rP~ 138 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVV-EPARRFLNAKKRSCSQESCS-------FSGTYSELRKHARSEHPSARPS 138 (162)
T ss_pred cccCccccCceeceEEc-hHHHHHhccCCccCcccccc-------cccCHHHHHHHHHhhCCCCCCc
Confidence 46799986544433333 33567778899888877777 75 5578999998678888875
No 98
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=38.42 E-value=25 Score=18.62 Aligned_cols=26 Identities=15% Similarity=0.255 Sum_probs=14.5
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
|.|..||..+.... .-+-.|+.||..
T Consensus 1 Y~C~~Cg~~~~~~~-----------~~~irC~~CG~R 26 (32)
T PF03604_consen 1 YICGECGAEVELKP-----------GDPIRCPECGHR 26 (32)
T ss_dssp EBESSSSSSE-BST-----------SSTSSBSSSS-S
T ss_pred CCCCcCCCeeEcCC-----------CCcEECCcCCCe
Confidence 67778887665221 235578866654
No 99
>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=38.36 E-value=15 Score=18.54 Aligned_cols=11 Identities=27% Similarity=0.582 Sum_probs=7.8
Q ss_pred eeccccccccC
Q 044013 26 YECVFCKRGFT 36 (153)
Q Consensus 26 ~~C~~Cgk~F~ 36 (153)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 36788887774
No 100
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=36.55 E-value=7.9 Score=37.22 Aligned_cols=51 Identities=20% Similarity=0.212 Sum_probs=38.4
Q ss_pred eccccccccCChhHHHHHHH-hhcCCCCCCCCCCCCCCCCCCccCCCCChhhhcccccc
Q 044013 27 ECVFCKRGFTTAQALGGHMN-IHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVH 84 (153)
Q Consensus 27 ~C~~Cgk~F~~~~~L~~H~r-~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~H 84 (153)
.|.-|+..+.....+..|+. .|+-.+-|+|+.|+-. |.....|-.|||+.|
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~-------yk~a~~L~vhmRskh 489 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWH-------YKLAQTLGVHMRSKH 489 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchh-------hhhHHHhhhcccccc
Confidence 35556666666666777665 4666789999977777 999999999999533
No 101
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.21 E-value=7.8 Score=30.30 Aligned_cols=29 Identities=24% Similarity=0.536 Sum_probs=22.7
Q ss_pred CcceeccccccccCChhHHHHHHHhhcCC
Q 044013 23 GRSYECVFCKRGFTTAQALGGHMNIHRKD 51 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~L~~H~r~H~ge 51 (153)
++.+.|++|+-.|.....+..-.|+-.|+
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiiagD 45 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIAGD 45 (267)
T ss_pred hceeccCcccchhhhhheeccceeEeccc
Confidence 35689999999999888777777766554
No 102
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=36.05 E-value=16 Score=28.90 Aligned_cols=54 Identities=15% Similarity=0.327 Sum_probs=38.4
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNH 90 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~ 90 (153)
|.|.+||-...-+ .+..|+-.-++ .-|.|--|+.. |.. .....|.. .-+-..-|
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~-------F~~-~sYknH~k-CITEaQKY 57 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKT-------FER-VSYKNHTK-CITEAQKY 57 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEeecccc-------ccc-chhhhhhh-hcchHHHh
Confidence 7899999876654 46668877776 67888855555 988 56788877 55555555
No 103
>PHA00626 hypothetical protein
Probab=36.03 E-value=17 Score=21.96 Aligned_cols=15 Identities=20% Similarity=0.421 Sum_probs=12.4
Q ss_pred cceeccccccccCCh
Q 044013 24 RSYECVFCKRGFTTA 38 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~ 38 (153)
..|+|..||..|+.-
T Consensus 22 nrYkCkdCGY~ft~~ 36 (59)
T PHA00626 22 DDYVCCDCGYNDSKD 36 (59)
T ss_pred cceEcCCCCCeechh
Confidence 469999999988753
No 104
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=35.81 E-value=17 Score=24.86 Aligned_cols=26 Identities=19% Similarity=0.264 Sum_probs=16.2
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.+.|..||+.|...... +.||.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~~~------------~~CP~Cgs~ 95 (113)
T PF01155_consen 70 RARCRDCGHEFEPDEFD------------FSCPRCGSP 95 (113)
T ss_dssp EEEETTTS-EEECHHCC------------HH-SSSSSS
T ss_pred cEECCCCCCEEecCCCC------------CCCcCCcCC
Confidence 37899999998765432 349977654
No 105
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=34.54 E-value=17 Score=25.84 Aligned_cols=15 Identities=27% Similarity=0.611 Sum_probs=12.3
Q ss_pred ceeccccccccCChh
Q 044013 25 SYECVFCKRGFTTAQ 39 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~ 39 (153)
|++|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 688999999988654
No 106
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=34.16 E-value=25 Score=30.30 Aligned_cols=22 Identities=32% Similarity=0.711 Sum_probs=20.3
Q ss_pred eeccccccccCChhHHHHHHHh
Q 044013 26 YECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
+-|.+|.|.|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999874
No 107
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=33.88 E-value=33 Score=24.80 Aligned_cols=10 Identities=20% Similarity=0.544 Sum_probs=7.3
Q ss_pred ceeccccccc
Q 044013 25 SYECVFCKRG 34 (153)
Q Consensus 25 p~~C~~Cgk~ 34 (153)
.|.|..||..
T Consensus 112 ~l~C~~Cg~~ 121 (146)
T PF07295_consen 112 TLVCENCGHE 121 (146)
T ss_pred eEecccCCCE
Confidence 4788888764
No 108
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=33.74 E-value=37 Score=28.45 Aligned_cols=54 Identities=17% Similarity=0.137 Sum_probs=40.3
Q ss_pred cceeccccccccCChhHHHHHHHhhcCC-----------------------CCCCCCCCCCCCCCCCccCCCCChhhhcc
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKD-----------------------RAKNRPPSSSSISDKLTFFPSPSTWDDHQ 80 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~ge-----------------------kp~~C~~c~~~~Cgk~~~F~~~~~L~~H~ 80 (153)
.|-.|-+|++.|........||..+.|. .-|.|-.|.-. ++. |....+...||
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~--~~~--f~sleavr~HM 240 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNEL--GRP--FSSLEAVRAHM 240 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccc--cCc--ccccHHHHHHH
Confidence 4678999999999999889999877662 12347766611 233 99999999998
Q ss_pred c
Q 044013 81 R 81 (153)
Q Consensus 81 ~ 81 (153)
+
T Consensus 241 ~ 241 (390)
T KOG2785|consen 241 R 241 (390)
T ss_pred h
Confidence 7
No 110
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=33.69 E-value=14 Score=21.89 Aligned_cols=25 Identities=28% Similarity=0.482 Sum_probs=11.6
Q ss_pred cceeccccccccCChhHHHHHHHhh
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIH 48 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H 48 (153)
..|+|+.|+..|-.-=.+-.|..+|
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CeEECCCCCCccccCcChhhhcccc
Confidence 4577777777776655555554444
No 111
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=33.20 E-value=25 Score=31.05 Aligned_cols=26 Identities=27% Similarity=0.562 Sum_probs=22.8
Q ss_pred cceeccccccccCChhHHHHHHHhhc
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHR 49 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~ 49 (153)
+|..|..||.+|........||.+|.
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CcchhcccccccccchhhhhHhhhhh
Confidence 57899999999999998888888875
No 112
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=32.92 E-value=22 Score=24.47 Aligned_cols=27 Identities=19% Similarity=0.335 Sum_probs=16.5
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.+.|..||..|..... ..+.||.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~~-----------~~~~CP~Cgs~ 96 (114)
T PRK03681 70 ECWCETCQQYVTLLTQ-----------RVRRCPQCHGD 96 (114)
T ss_pred EEEcccCCCeeecCCc-----------cCCcCcCcCCC
Confidence 4789999976654211 11568877643
No 113
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=32.76 E-value=11 Score=34.13 Aligned_cols=29 Identities=14% Similarity=0.116 Sum_probs=17.0
Q ss_pred CCCCChhhhccccccCCCCCCCCCCCCcccc
Q 044013 70 FPSPSTWDDHQRSVHTNNNNHSNYDSYGQNY 100 (153)
Q Consensus 70 F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~f 100 (153)
|+--..|..- | -+|.-+.|.-|+.|-+.|
T Consensus 133 fTIi~alPYD-R-~nTsM~~F~lC~~C~~EY 161 (750)
T COG0068 133 FTIIEALPYD-R-ENTSMADFPLCPFCDKEY 161 (750)
T ss_pred eeeeccCCCC-c-ccCccccCcCCHHHHHHh
Confidence 6665555332 3 455566666677776666
No 114
>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=31.83 E-value=35 Score=19.71 Aligned_cols=29 Identities=21% Similarity=0.361 Sum_probs=18.9
Q ss_pred eccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCC
Q 044013 27 ECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKL 67 (153)
Q Consensus 27 ~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~ 67 (153)
.|..|++.|.. ..+.+.|..|+..+|+..
T Consensus 4 ~C~~C~~~F~~------------~~rk~~Cr~Cg~~~C~~C 32 (57)
T cd00065 4 SCMGCGKPFTL------------TRRRHHCRNCGRIFCSKC 32 (57)
T ss_pred cCcccCccccC------------CccccccCcCcCCcChHH
Confidence 57888888875 134466887776655444
No 115
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=30.90 E-value=30 Score=28.71 Aligned_cols=23 Identities=26% Similarity=0.693 Sum_probs=20.7
Q ss_pred ceeccccccccCChhHHHHHHHh
Q 044013 25 SYECVFCKRGFTTAQALGGHMNI 47 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~ 47 (153)
.+.|-.|.|.|+.+..|+.|||.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 47899999999999999999984
No 116
>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=30.26 E-value=17 Score=18.74 Aligned_cols=19 Identities=21% Similarity=0.772 Sum_probs=10.8
Q ss_pred eeccccccccCChhHHHHHH
Q 044013 26 YECVFCKRGFTTAQALGGHM 45 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~ 45 (153)
|.|-.|++.|. ....+.|.
T Consensus 1 ~sCiDC~~~F~-~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDFD-GDSYKSHT 19 (28)
T ss_dssp EEETTTTEEEE-GGGTTT--
T ss_pred CeeecCCCCcC-cCCcCCCC
Confidence 56778888883 34444443
No 117
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=29.83 E-value=21 Score=23.57 Aligned_cols=28 Identities=18% Similarity=0.228 Sum_probs=16.0
Q ss_pred ceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
+|.|+.|++. .+.|+-+ .-+.|..|+..
T Consensus 35 ~~~Cp~C~~~--------~VkR~a~--GIW~C~kCg~~ 62 (89)
T COG1997 35 KHVCPFCGRT--------TVKRIAT--GIWKCRKCGAK 62 (89)
T ss_pred CCcCCCCCCc--------ceeeecc--CeEEcCCCCCe
Confidence 5778888764 1233333 34667766555
No 118
>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=27.73 E-value=25 Score=19.94 Aligned_cols=14 Identities=36% Similarity=0.646 Sum_probs=10.7
Q ss_pred eccccccccCChhH
Q 044013 27 ECVFCKRGFTTAQA 40 (153)
Q Consensus 27 ~C~~Cgk~F~~~~~ 40 (153)
.|.+||+.|+-...
T Consensus 10 ~C~~C~rpf~WRKK 23 (42)
T PF10013_consen 10 ICPVCGRPFTWRKK 23 (42)
T ss_pred cCcccCCcchHHHH
Confidence 68999999876543
No 119
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=27.72 E-value=49 Score=19.90 Aligned_cols=12 Identities=8% Similarity=-0.033 Sum_probs=6.7
Q ss_pred CCCCCCCCCCCC
Q 044013 50 KDRAKNRPPSSS 61 (153)
Q Consensus 50 gekp~~C~~c~~ 61 (153)
+...|.|+.||-
T Consensus 11 ~~v~~~Cp~cGi 22 (55)
T PF13824_consen 11 AHVNFECPDCGI 22 (55)
T ss_pred cccCCcCCCCCC
Confidence 345677775543
No 120
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=27.21 E-value=32 Score=19.23 Aligned_cols=12 Identities=17% Similarity=0.708 Sum_probs=10.2
Q ss_pred cceecccccccc
Q 044013 24 RSYECVFCKRGF 35 (153)
Q Consensus 24 kp~~C~~Cgk~F 35 (153)
++-.|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 478999999887
No 121
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=26.65 E-value=17 Score=23.10 Aligned_cols=42 Identities=14% Similarity=0.228 Sum_probs=20.2
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCC--CCCCCCCCCCccCCCCChh
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRP--PSSSSISDKLTFFPSPSTW 76 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~--~c~~~~Cgk~~~F~~~~~L 76 (153)
+.|+.||........-.... -+.++-+.|. .|+.. |.....+
T Consensus 2 m~CP~Cg~~a~irtSr~~s~--~~~~~Y~qC~N~eCg~t-------F~t~es~ 45 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITD--TTKERYHQCQNVNCSAT-------FITYESV 45 (72)
T ss_pred ccCCCCCCccEEEEChhcCh--hhheeeeecCCCCCCCE-------EEEEEEE
Confidence 46778875543322221111 1334556665 45555 6655444
No 122
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=25.92 E-value=60 Score=18.91 Aligned_cols=14 Identities=14% Similarity=0.615 Sum_probs=10.2
Q ss_pred eeccccccccCChh
Q 044013 26 YECVFCKRGFTTAQ 39 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~ 39 (153)
.+|..||..|...-
T Consensus 29 W~C~~Cgh~w~~~v 42 (55)
T PF14311_consen 29 WKCPKCGHEWKASV 42 (55)
T ss_pred EECCCCCCeeEccH
Confidence 77888887776543
No 123
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.77 E-value=34 Score=23.85 Aligned_cols=13 Identities=23% Similarity=0.335 Sum_probs=9.3
Q ss_pred ceeccccccccCCh
Q 044013 25 SYECVFCKRGFTTA 38 (153)
Q Consensus 25 p~~C~~Cgk~F~~~ 38 (153)
.+.| .||..|...
T Consensus 70 ~~~C-~Cg~~~~~~ 82 (124)
T PRK00762 70 EIEC-ECGYEGVVD 82 (124)
T ss_pred eEEe-eCcCccccc
Confidence 4788 888777654
No 124
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=25.75 E-value=46 Score=24.85 Aligned_cols=14 Identities=21% Similarity=0.565 Sum_probs=8.5
Q ss_pred ceeccccccccCCh
Q 044013 25 SYECVFCKRGFTTA 38 (153)
Q Consensus 25 p~~C~~Cgk~F~~~ 38 (153)
-|.|+.|.-.|+.-
T Consensus 113 ~y~C~~~~~r~sfd 126 (176)
T COG1675 113 YYVCPNCHVKYSFD 126 (176)
T ss_pred ceeCCCCCCcccHH
Confidence 47777776655543
No 125
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=25.67 E-value=19 Score=21.92 Aligned_cols=30 Identities=13% Similarity=0.370 Sum_probs=12.7
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCC
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKL 67 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~ 67 (153)
-.|.+|++.|... .+.+.|..||..+|..-
T Consensus 10 ~~C~~C~~~F~~~------------~rrhhCr~CG~~vC~~C 39 (69)
T PF01363_consen 10 SNCMICGKKFSLF------------RRRHHCRNCGRVVCSSC 39 (69)
T ss_dssp SB-TTT--B-BSS------------S-EEE-TTT--EEECCC
T ss_pred CcCcCcCCcCCCc------------eeeEccCCCCCEECCch
Confidence 4688888888531 33445887766655444
No 126
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=25.60 E-value=30 Score=29.87 Aligned_cols=59 Identities=17% Similarity=0.264 Sum_probs=36.3
Q ss_pred cceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhccccccCCCCCCCCCCCCccc
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDHQRSVHTNNNNHSNYDSYGQN 99 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H~~~~Ht~~kp~~~~~~~~~~ 99 (153)
.-|+|.+|- +..|+|.|. -..|.|+--.+. +..-..-..|...+||=.-|- -|+-|+.-
T Consensus 72 QGfQCqvC~--------fvvHkrChe-fVtF~CPGadkg-------~dtDdpr~kHkf~~~tYssPT-FCDhCGsL 130 (683)
T KOG0696|consen 72 QGFQCQVCC--------FVVHKRCHE-FVTFSCPGADKG-------PDTDDPRSKHKFKIHTYSSPT-FCDHCGSL 130 (683)
T ss_pred CceeeeEEe--------ehhhhhhcc-eEEEECCCCCCC-------CCCCCcccccceeeeecCCCc-hhhhHHHH
Confidence 345666652 457888775 567888855555 777777777765366655453 35555543
No 127
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=25.49 E-value=37 Score=20.32 Aligned_cols=34 Identities=12% Similarity=0.246 Sum_probs=15.6
Q ss_pred cceeccccccccCChhHHHHHHHhhcCCCCCCCCCCCC
Q 044013 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSS 61 (153)
Q Consensus 24 kp~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~ 61 (153)
.|+....|+-.|.... +...+ ...+...||+.|+
T Consensus 23 ~PV~s~~C~H~fek~a-I~~~i---~~~~~~~CPv~GC 56 (57)
T PF11789_consen 23 DPVKSKKCGHTFEKEA-ILQYI---QRNGSKRCPVAGC 56 (57)
T ss_dssp SEEEESSS--EEEHHH-HHHHC---TTTS-EE-SCCC-
T ss_pred CCcCcCCCCCeecHHH-HHHHH---HhcCCCCCCCCCC
Confidence 4666667777776443 33333 2345567776543
No 128
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=25.37 E-value=39 Score=29.01 Aligned_cols=24 Identities=25% Similarity=0.589 Sum_probs=19.5
Q ss_pred Ccceeccccc-cccCChhHHHHHHH
Q 044013 23 GRSYECVFCK-RGFTTAQALGGHMN 46 (153)
Q Consensus 23 ekp~~C~~Cg-k~F~~~~~L~~H~r 46 (153)
.+-|.|.||| +++.-+.++.+|-.
T Consensus 399 ~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 399 DIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred CcccceeeccCccccCcHHHHHHhH
Confidence 4569999999 78888888888865
No 129
>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=25.27 E-value=28 Score=20.32 Aligned_cols=12 Identities=25% Similarity=0.670 Sum_probs=6.5
Q ss_pred eccccccccCCh
Q 044013 27 ECVFCKRGFTTA 38 (153)
Q Consensus 27 ~C~~Cgk~F~~~ 38 (153)
.|+.|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899999998753
No 130
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=25.13 E-value=57 Score=29.59 Aligned_cols=11 Identities=18% Similarity=0.806 Sum_probs=7.0
Q ss_pred eeccccccccC
Q 044013 26 YECVFCKRGFT 36 (153)
Q Consensus 26 ~~C~~Cgk~F~ 36 (153)
-.|+.|...+.
T Consensus 644 LkCs~Cn~R~K 654 (698)
T KOG0978|consen 644 LKCSVCNTRWK 654 (698)
T ss_pred eeCCCccCchh
Confidence 46888875443
No 131
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=25.09 E-value=24 Score=23.93 Aligned_cols=11 Identities=18% Similarity=0.676 Sum_probs=8.0
Q ss_pred cceeccccccc
Q 044013 24 RSYECVFCKRG 34 (153)
Q Consensus 24 kp~~C~~Cgk~ 34 (153)
||-.|+.||..
T Consensus 1 ~p~~CpYCg~~ 11 (102)
T PF11672_consen 1 KPIICPYCGGP 11 (102)
T ss_pred CCcccCCCCCe
Confidence 46678888854
No 132
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=24.89 E-value=71 Score=17.68 Aligned_cols=24 Identities=17% Similarity=0.283 Sum_probs=17.5
Q ss_pred eeccccccccCC--hhHHHHHHHhhc
Q 044013 26 YECVFCKRGFTT--AQALGGHMNIHR 49 (153)
Q Consensus 26 ~~C~~Cgk~F~~--~~~L~~H~r~H~ 49 (153)
-.|+.||-.|.. +..-..|.+.|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 489999987765 445677777765
No 133
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=24.69 E-value=40 Score=18.27 Aligned_cols=12 Identities=25% Similarity=0.465 Sum_probs=7.9
Q ss_pred eeccccccccCC
Q 044013 26 YECVFCKRGFTT 37 (153)
Q Consensus 26 ~~C~~Cgk~F~~ 37 (153)
..|..||+.|..
T Consensus 2 r~C~~Cg~~Yh~ 13 (36)
T PF05191_consen 2 RICPKCGRIYHI 13 (36)
T ss_dssp EEETTTTEEEET
T ss_pred cCcCCCCCcccc
Confidence 357778777643
No 134
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=24.21 E-value=35 Score=20.01 Aligned_cols=18 Identities=17% Similarity=0.449 Sum_probs=13.1
Q ss_pred CcceeccccccccCChhH
Q 044013 23 GRSYECVFCKRGFTTAQA 40 (153)
Q Consensus 23 ekp~~C~~Cgk~F~~~~~ 40 (153)
.+++.|..||..|.-...
T Consensus 2 Dk~l~C~dCg~~FvfTa~ 19 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAG 19 (49)
T ss_pred CeeEEcccCCCeEEEehh
Confidence 357889999988775443
No 135
>PLN02294 cytochrome c oxidase subunit Vb
Probab=23.83 E-value=34 Score=25.50 Aligned_cols=14 Identities=36% Similarity=0.906 Sum_probs=11.6
Q ss_pred cceeccccccccCC
Q 044013 24 RSYECVFCKRGFTT 37 (153)
Q Consensus 24 kp~~C~~Cgk~F~~ 37 (153)
+|++|..||..|..
T Consensus 140 kp~RCpeCG~~fkL 153 (174)
T PLN02294 140 KSFECPVCTQYFEL 153 (174)
T ss_pred CceeCCCCCCEEEE
Confidence 68899999988864
No 136
>KOG2461 consensus Transcription factor BLIMP-1/PRDI-BF1, contains C2H2-type Zn-finger and SET domains [Transcription]
Probab=23.75 E-value=1.4e+02 Score=25.28 Aligned_cols=15 Identities=0% Similarity=-0.031 Sum_probs=5.7
Q ss_pred HHHHHHhhcCCCCCC
Q 044013 41 LGGHMNIHRKDRAKN 55 (153)
Q Consensus 41 L~~H~r~H~gekp~~ 55 (153)
+..+...+.++.++.
T Consensus 347 ~~~~~~~~~~~~~~~ 361 (396)
T KOG2461|consen 347 YTQSHSMEVAEPTDM 361 (396)
T ss_pred hhhhhhcccCCCCcc
Confidence 333333333333333
No 137
>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=23.63 E-value=27 Score=26.61 Aligned_cols=21 Identities=24% Similarity=0.651 Sum_probs=0.0
Q ss_pred cceeccccccc-cCChhHHHHH
Q 044013 24 RSYECVFCKRG-FTTAQALGGH 44 (153)
Q Consensus 24 kp~~C~~Cgk~-F~~~~~L~~H 44 (153)
+.|.|.+||.. |.-+.++..|
T Consensus 100 ~ey~CEICGN~~Y~GrkaFekH 121 (196)
T PF11931_consen 100 VEYKCEICGNQSYKGRKAFEKH 121 (196)
T ss_dssp ----------------------
T ss_pred CeeeeEeCCCcceecHHHHHHh
Confidence 46899999953 3334444444
No 138
>KOG4602 consensus Nanos and related proteins [General function prediction only]
Probab=23.56 E-value=48 Score=26.46 Aligned_cols=12 Identities=42% Similarity=0.869 Sum_probs=7.8
Q ss_pred Ccceeccccccc
Q 044013 23 GRSYECVFCKRG 34 (153)
Q Consensus 23 ekp~~C~~Cgk~ 34 (153)
.++..|.+|...
T Consensus 231 ~r~l~CvFC~nN 242 (318)
T KOG4602|consen 231 PRPLCCVFCFNN 242 (318)
T ss_pred CCceeEEeecCC
Confidence 356678888543
No 139
>PRK01343 zinc-binding protein; Provisional
Probab=22.71 E-value=62 Score=19.60 Aligned_cols=11 Identities=27% Similarity=0.446 Sum_probs=6.4
Q ss_pred eeccccccccC
Q 044013 26 YECVFCKRGFT 36 (153)
Q Consensus 26 ~~C~~Cgk~F~ 36 (153)
..|++|++.|.
T Consensus 10 ~~CP~C~k~~~ 20 (57)
T PRK01343 10 RPCPECGKPST 20 (57)
T ss_pred CcCCCCCCcCc
Confidence 45666666553
No 140
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=22.70 E-value=47 Score=19.03 Aligned_cols=28 Identities=7% Similarity=0.058 Sum_probs=15.1
Q ss_pred CCCCCCCC-CCCCCCCCccCCCCChhhhccc
Q 044013 52 RAKNRPPS-SSSISDKLTFFPSPSTWDDHQR 81 (153)
Q Consensus 52 kp~~C~~c-~~~~Cgk~~~F~~~~~L~~H~~ 81 (153)
.-|+|..| ...+|..- |........|..
T Consensus 14 ~r~~C~~C~d~dLC~~C--f~~g~~~~~H~~ 42 (49)
T cd02335 14 IRIKCAECPDFDLCLEC--FSAGAEIGKHRN 42 (49)
T ss_pred cEEECCCCCCcchhHHh--hhCcCCCCCCCC
Confidence 34566655 34455555 666655555554
No 141
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.38 E-value=39 Score=23.40 Aligned_cols=25 Identities=12% Similarity=-0.039 Sum_probs=17.8
Q ss_pred eccccccccCChhHHHHHHHhhcCCCCCCCCCCCCC
Q 044013 27 ECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62 (153)
Q Consensus 27 ~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~ 62 (153)
.|+.||+.|.-.. ..|-.|+.|+++
T Consensus 11 idPetg~KFYDLN-----------rdPiVsPytG~s 35 (129)
T COG4530 11 IDPETGKKFYDLN-----------RDPIVSPYTGKS 35 (129)
T ss_pred cCccccchhhccC-----------CCccccCccccc
Confidence 6788888887665 356778866666
No 142
>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=22.38 E-value=37 Score=22.83 Aligned_cols=14 Identities=21% Similarity=0.494 Sum_probs=11.9
Q ss_pred cceeccccccccCC
Q 044013 24 RSYECVFCKRGFTT 37 (153)
Q Consensus 24 kp~~C~~Cgk~F~~ 37 (153)
+|++|..||.-|..
T Consensus 78 ~~~rC~eCG~~fkL 91 (97)
T cd00924 78 KPKRCPECGHVFKL 91 (97)
T ss_pred CceeCCCCCcEEEE
Confidence 69999999988864
No 143
>PRK05978 hypothetical protein; Provisional
Probab=22.29 E-value=65 Score=23.36 Aligned_cols=11 Identities=9% Similarity=0.531 Sum_probs=8.1
Q ss_pred CCCCCcccccc
Q 044013 92 NYDSYGQNYHQ 102 (153)
Q Consensus 92 ~~~~~~~~f~~ 102 (153)
.|+.|+-.|..
T Consensus 54 ~C~~CG~~~~~ 64 (148)
T PRK05978 54 HCAACGEDFTH 64 (148)
T ss_pred CccccCCcccc
Confidence 48888888743
No 144
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=21.92 E-value=86 Score=28.69 Aligned_cols=25 Identities=8% Similarity=-0.061 Sum_probs=13.8
Q ss_pred ChhhhccccccCCCCCCCCCCCCcccc
Q 044013 74 STWDDHQRSVHTNNNNHSNYDSYGQNY 100 (153)
Q Consensus 74 ~~L~~H~~~~Ht~~kp~~~~~~~~~~f 100 (153)
..|.-|.- .|....|. .|+-|+...
T Consensus 461 ~~L~CH~C-g~~~~~p~-~Cp~Cgs~~ 485 (730)
T COG1198 461 GQLRCHYC-GYQEPIPQ-SCPECGSEH 485 (730)
T ss_pred CeeEeCCC-CCCCCCCC-CCCCCCCCe
Confidence 34444444 34444455 678887774
No 145
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=21.78 E-value=70 Score=29.82 Aligned_cols=66 Identities=12% Similarity=0.143 Sum_probs=36.4
Q ss_pred eeccccccccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCccCCCCChhhhc-cc--cccCCCCCCCCCCCCcccc
Q 044013 26 YECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSSISDKLTFFPSPSTWDDH-QR--SVHTNNNNHSNYDSYGQNY 100 (153)
Q Consensus 26 ~~C~~Cgk~F~~~~~L~~H~r~H~gekp~~C~~c~~~~Cgk~~~F~~~~~L~~H-~~--~~Ht~~kp~~~~~~~~~~f 100 (153)
-.|..|++.|.....+ .+.+.+.|..||...|++. -.....+..- .. ..-....|+..|..|-+.+
T Consensus 461 dtC~~C~kkFfSlsK~-------L~~RKHHCRkCGrVFC~~C--SSnRs~yp~aKLpKPgsseE~ppRRVCD~CYdq~ 529 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRP-------LGTRAHHCRSCGIRLCVFC--ITKRAHYSFAKLAKPGSSDEAEERLVCDTCYKEY 529 (1374)
T ss_pred CcccCcCCcccccccc-------cccccccccCCccccCccc--cCCcccCcccccCCCCCcccccccchhHHHHHHH
Confidence 4699999999764210 1234566998888877776 4443322111 11 0111223555677777655
No 146
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=21.16 E-value=43 Score=18.30 Aligned_cols=12 Identities=25% Similarity=0.622 Sum_probs=6.7
Q ss_pred cceecccccccc
Q 044013 24 RSYECVFCKRGF 35 (153)
Q Consensus 24 kp~~C~~Cgk~F 35 (153)
+-|+|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 469999998754
No 147
>COG1773 Rubredoxin [Energy production and conversion]
Probab=21.09 E-value=44 Score=20.08 Aligned_cols=15 Identities=13% Similarity=0.598 Sum_probs=11.2
Q ss_pred ceeccccccccCChh
Q 044013 25 SYECVFCKRGFTTAQ 39 (153)
Q Consensus 25 p~~C~~Cgk~F~~~~ 39 (153)
.|+|..||..|--..
T Consensus 3 ~~~C~~CG~vYd~e~ 17 (55)
T COG1773 3 RWRCSVCGYVYDPEK 17 (55)
T ss_pred ceEecCCceEecccc
Confidence 588999988776543
No 148
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=21.01 E-value=25 Score=23.34 Aligned_cols=8 Identities=50% Similarity=1.294 Sum_probs=3.9
Q ss_pred ceeccccc
Q 044013 25 SYECVFCK 32 (153)
Q Consensus 25 p~~C~~Cg 32 (153)
.|.|++|+
T Consensus 36 ~y~CpfCg 43 (90)
T PTZ00255 36 KYFCPFCG 43 (90)
T ss_pred CccCCCCC
Confidence 34555554
No 149
>PF05741 zf-nanos: Nanos RNA binding domain; InterPro: IPR024161 Nanos is a highly conserved RNA-binding protein in higher eukaryotes and functions as a key regulatory protein in translational control using a 3' untranslated region during the development and maintenance of germ cells. Nanos comprises a non-conserved amino-terminus and highly conserved carboxy- terminal regions. The C-terminal region has two conserved Cys-Cys-His-Cys (CCHC)-type zinc-finger motifs that are indispensable for nanos function [, , ]. The structure of the nanos-type zinc finger is composed of two independent zinc-finger (ZF) lobes, the N-terminal ZF1 and the C-terminal ZF2, which are connected by a linker helix []. These lobes create a large cleft. Zinc ions in ZF1 and ZF2 are bound to the CCHC motif by tetrahedral coordination.; PDB: 3ALR_B.
Probab=20.77 E-value=63 Score=19.40 Aligned_cols=23 Identities=30% Similarity=0.484 Sum_probs=7.5
Q ss_pred CCCcccccCCCC------cceeccccccc
Q 044013 12 SSSDDETDAGTG------RSYECVFCKRG 34 (153)
Q Consensus 12 ~~~h~~~~~~ge------kp~~C~~Cgk~ 34 (153)
.++|.-+...|. +.|.|++||..
T Consensus 14 y~sH~lk~~~G~v~CPvLr~y~Cp~CgAt 42 (55)
T PF05741_consen 14 YSSHTLKDPDGRVTCPVLRKYVCPICGAT 42 (55)
T ss_dssp HTSB-SB-TTS-B--TTGGG---TTT---
T ss_pred EcccEEECCCCCEeCHHHhcCcCCCCcCc
Confidence 455554444433 45777777753
Done!