Query 038669
Match_columns 244
No_of_seqs 349 out of 1885
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 13:25:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038669.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038669hhsearch_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 7.2E-21 1.6E-25 159.8 3.9 87 95-184 159-245 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.7 6.9E-18 1.5E-22 141.9 0.1 82 93-177 183-266 (279)
3 KOG3623 Homeobox transcription 99.6 4.9E-16 1.1E-20 144.5 0.1 83 90-175 887-971 (1007)
4 KOG3576 Ovo and related transc 99.5 2.4E-15 5.3E-20 121.3 1.5 84 91-177 111-197 (267)
5 KOG1074 Transcriptional repres 99.5 7.9E-15 1.7E-19 138.4 0.3 54 126-182 608-661 (958)
6 KOG3623 Homeobox transcription 99.3 2.1E-13 4.6E-18 127.1 1.5 80 95-177 238-332 (1007)
7 KOG1074 Transcriptional repres 99.0 8.9E-10 1.9E-14 104.8 6.4 84 94-180 602-694 (958)
8 KOG3576 Ovo and related transc 98.9 1.3E-10 2.8E-15 94.1 -1.8 85 93-180 141-238 (267)
9 KOG3608 Zn finger proteins [Ge 98.9 2.8E-10 6.2E-15 98.9 0.1 82 95-179 235-317 (467)
10 PHA00733 hypothetical protein 98.9 4.7E-10 1E-14 86.4 0.4 81 94-179 37-124 (128)
11 PHA02768 hypothetical protein; 98.9 1.8E-09 3.8E-14 70.0 2.8 42 97-138 5-46 (55)
12 PHA02768 hypothetical protein; 98.6 7.3E-09 1.6E-13 67.1 -0.7 44 123-171 5-48 (55)
13 PLN03086 PRLI-interacting fact 98.5 6.4E-08 1.4E-12 90.7 3.7 77 95-177 451-537 (567)
14 PF13465 zf-H2C2_2: Zinc-finge 98.4 3E-08 6.4E-13 54.9 -1.1 24 143-166 3-26 (26)
15 KOG3993 Transcription factor ( 98.4 4.2E-08 9E-13 87.4 -1.4 81 97-180 267-382 (500)
16 KOG3608 Zn finger proteins [Ge 98.4 6.1E-08 1.3E-12 84.6 -0.5 86 91-179 286-377 (467)
17 PHA00733 hypothetical protein 98.2 7.3E-07 1.6E-11 68.7 1.6 53 94-149 70-122 (128)
18 PHA00732 hypothetical protein 98.0 3.9E-06 8.4E-11 59.1 2.7 38 97-134 1-38 (79)
19 PHA00616 hypothetical protein 98.0 1.4E-06 3E-11 53.9 -0.0 29 154-182 1-29 (44)
20 PF00096 zf-C2H2: Zinc finger, 97.8 1.6E-05 3.4E-10 42.3 2.7 23 98-120 1-23 (23)
21 PF00096 zf-C2H2: Zinc finger, 97.8 3.9E-06 8.4E-11 44.7 0.2 23 155-177 1-23 (23)
22 PLN03086 PRLI-interacting fact 97.8 7.2E-06 1.6E-10 77.2 2.1 72 96-174 477-560 (567)
23 PHA00616 hypothetical protein 97.8 1.2E-05 2.5E-10 49.7 1.3 25 97-121 1-25 (44)
24 COG5189 SFP1 Putative transcri 97.7 1.9E-05 4.2E-10 68.3 2.9 71 94-175 346-419 (423)
25 PHA00732 hypothetical protein 97.7 1.2E-05 2.6E-10 56.6 1.0 47 123-178 1-48 (79)
26 PF13912 zf-C2H2_6: C2H2-type 97.6 2.1E-05 4.6E-10 43.5 0.9 26 154-179 1-26 (27)
27 PF13912 zf-C2H2_6: C2H2-type 97.4 9.2E-05 2E-09 40.9 1.6 25 97-121 1-25 (27)
28 PF13894 zf-C2H2_4: C2H2-type 97.4 5.4E-05 1.2E-09 40.2 0.6 24 155-178 1-24 (24)
29 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00019 4.1E-09 38.0 2.7 24 98-121 1-24 (24)
30 PF13465 zf-H2C2_2: Zinc-finge 97.3 5.8E-05 1.2E-09 41.5 0.1 21 113-133 2-24 (26)
31 PF12756 zf-C2H2_2: C2H2 type 97.2 0.00011 2.3E-09 53.3 1.0 72 99-177 1-73 (100)
32 PF05605 zf-Di19: Drought indu 97.2 0.00031 6.7E-09 45.7 2.8 52 97-178 2-53 (54)
33 KOG3993 Transcription factor ( 97.1 0.00053 1.1E-08 61.7 3.9 135 41-178 297-483 (500)
34 smart00355 ZnF_C2H2 zinc finge 96.9 0.00031 6.7E-09 37.7 0.7 24 155-178 1-24 (26)
35 smart00355 ZnF_C2H2 zinc finge 96.7 0.00098 2.1E-08 35.6 1.7 24 98-121 1-24 (26)
36 PF09237 GAGA: GAGA factor; I 96.7 0.00079 1.7E-08 42.7 1.1 32 151-182 21-52 (54)
37 PF12874 zf-met: Zinc-finger o 96.5 0.0021 4.5E-08 34.6 1.8 23 98-120 1-23 (25)
38 PF12874 zf-met: Zinc-finger o 96.1 0.0021 4.5E-08 34.6 0.6 23 155-177 1-23 (25)
39 PRK04860 hypothetical protein; 95.9 0.0056 1.2E-07 48.9 2.3 40 95-167 117-156 (160)
40 PF12171 zf-C2H2_jaz: Zinc-fin 95.8 0.0048 1.1E-07 34.0 1.3 23 155-177 2-24 (27)
41 PF09237 GAGA: GAGA factor; I 95.8 0.015 3.2E-07 37.0 3.5 29 93-121 20-48 (54)
42 PF13909 zf-H2C2_5: C2H2-type 95.0 0.0077 1.7E-07 32.1 0.3 23 155-178 1-23 (24)
43 PF13909 zf-H2C2_5: C2H2-type 94.9 0.028 6.2E-07 29.8 2.4 22 98-120 1-22 (24)
44 PF12171 zf-C2H2_jaz: Zinc-fin 94.9 0.007 1.5E-07 33.3 -0.1 22 98-119 2-23 (27)
45 KOG2893 Zn finger protein [Gen 94.1 0.018 4E-07 48.3 0.7 20 99-118 12-31 (341)
46 COG5048 FOG: Zn-finger [Genera 93.6 0.059 1.3E-06 48.4 3.0 59 123-184 289-353 (467)
47 KOG1146 Homeobox protein [Gene 93.5 0.038 8.2E-07 56.5 1.7 73 93-175 461-539 (1406)
48 PF13913 zf-C2HC_2: zinc-finge 93.1 0.038 8.2E-07 29.9 0.7 21 155-176 3-23 (25)
49 smart00451 ZnF_U1 U1-like zinc 92.1 0.11 2.4E-06 29.9 1.8 23 97-119 3-25 (35)
50 PF13913 zf-C2HC_2: zinc-finge 91.6 0.15 3.3E-06 27.5 1.8 21 98-119 3-23 (25)
51 smart00451 ZnF_U1 U1-like zinc 91.0 0.13 2.7E-06 29.7 1.2 23 154-176 3-25 (35)
52 KOG2231 Predicted E3 ubiquitin 89.8 0.11 2.4E-06 50.1 0.4 32 98-129 100-146 (669)
53 PF12756 zf-C2H2_2: C2H2 type 89.5 0.32 7E-06 34.7 2.6 25 97-121 50-74 (100)
54 PF09538 FYDLN_acid: Protein o 85.9 0.54 1.2E-05 35.0 1.9 30 124-167 10-39 (108)
55 KOG1146 Homeobox protein [Gene 84.8 0.29 6.3E-06 50.4 0.0 33 145-178 1320-1352(1406)
56 PF09986 DUF2225: Uncharacteri 82.6 0.35 7.6E-06 40.5 -0.3 22 95-116 3-24 (214)
57 COG5189 SFP1 Putative transcri 82.2 0.63 1.4E-05 40.9 1.1 25 93-117 394-418 (423)
58 COG4049 Uncharacterized protei 80.6 1.1 2.3E-05 29.1 1.4 29 91-119 11-39 (65)
59 KOG4167 Predicted DNA-binding 78.1 1.1 2.4E-05 43.6 1.3 28 94-121 789-816 (907)
60 COG5048 FOG: Zn-finger [Genera 78.0 0.92 2E-05 40.6 0.8 70 96-168 288-367 (467)
61 PF05605 zf-Di19: Drought indu 77.6 1.6 3.4E-05 28.0 1.6 26 154-180 2-28 (54)
62 COG5236 Uncharacterized conser 77.4 1.8 3.8E-05 38.7 2.3 78 98-178 152-244 (493)
63 TIGR02300 FYDLN_acid conserved 76.1 2.1 4.6E-05 32.6 2.1 21 151-171 23-43 (129)
64 PF02892 zf-BED: BED zinc fing 74.5 3.1 6.8E-05 25.3 2.3 25 94-118 13-41 (45)
65 cd00350 rubredoxin_like Rubred 74.5 2.3 4.9E-05 24.4 1.5 11 98-108 2-12 (33)
66 COG1997 RPL43A Ribosomal prote 73.8 3.5 7.6E-05 29.3 2.6 34 122-168 34-67 (89)
67 PRK00464 nrdR transcriptional 73.5 2 4.4E-05 34.1 1.5 19 153-171 27-45 (154)
68 PF14353 CpXC: CpXC protein 73.1 1.4 3.1E-05 33.5 0.6 25 153-177 37-61 (128)
69 COG4049 Uncharacterized protei 71.9 1.3 2.8E-05 28.7 0.1 29 148-176 11-39 (65)
70 PF06524 NOA36: NOA36 protein; 70.0 5.3 0.00012 34.3 3.3 83 94-180 139-235 (314)
71 smart00614 ZnF_BED BED zinc fi 69.1 3.7 8E-05 25.8 1.8 25 96-120 17-47 (50)
72 TIGR00622 ssl1 transcription f 68.8 10 0.00022 28.4 4.3 78 95-179 13-106 (112)
73 PRK04860 hypothetical protein; 65.3 3.1 6.6E-05 33.3 1.0 26 153-182 118-143 (160)
74 PF05443 ROS_MUCR: ROS/MUCR tr 64.8 2 4.4E-05 33.2 -0.1 27 153-182 71-97 (132)
75 PF13717 zinc_ribbon_4: zinc-r 64.0 4.3 9.3E-05 23.8 1.2 14 152-165 23-36 (36)
76 COG1198 PriA Primosomal protei 63.5 5.3 0.00012 39.6 2.4 15 149-163 470-484 (730)
77 PF10571 UPF0547: Uncharacteri 63.4 6.4 0.00014 21.4 1.7 10 156-165 16-25 (26)
78 KOG0696 Serine/threonine prote 61.8 4.2 9.1E-05 37.7 1.3 58 94-162 70-129 (683)
79 PRK00398 rpoP DNA-directed RNA 61.6 4 8.6E-05 25.2 0.8 11 154-164 21-31 (46)
80 smart00531 TFIIE Transcription 61.4 4.7 0.0001 31.6 1.4 37 122-165 98-134 (147)
81 KOG4124 Putative transcription 60.7 2.4 5.3E-05 37.8 -0.4 69 95-173 347-417 (442)
82 KOG4167 Predicted DNA-binding 60.1 1.4 3E-05 42.9 -2.1 29 153-181 791-819 (907)
83 TIGR00280 L37a ribosomal prote 60.0 8.8 0.00019 27.6 2.4 34 122-168 34-67 (91)
84 PF13719 zinc_ribbon_5: zinc-r 60.0 4.8 0.0001 23.7 0.9 15 151-165 22-36 (37)
85 COG3677 Transposase and inacti 59.0 13 0.00029 28.4 3.5 45 114-166 21-65 (129)
86 PF05443 ROS_MUCR: ROS/MUCR tr 58.8 6.7 0.00014 30.3 1.8 25 94-121 69-93 (132)
87 PHA00626 hypothetical protein 58.5 7.8 0.00017 25.2 1.7 14 153-166 22-35 (59)
88 COG4530 Uncharacterized protei 58.1 5.3 0.00012 29.7 1.1 16 151-166 23-38 (129)
89 PF09723 Zn-ribbon_8: Zinc rib 57.9 3.9 8.5E-05 24.8 0.3 12 98-109 6-17 (42)
90 PRK03976 rpl37ae 50S ribosomal 57.4 10 0.00022 27.3 2.4 34 122-168 35-68 (90)
91 COG4957 Predicted transcriptio 57.2 5.2 0.00011 30.9 0.9 26 155-183 77-102 (148)
92 PRK06266 transcription initiat 57.0 8.2 0.00018 31.3 2.1 31 123-165 117-147 (178)
93 TIGR00373 conserved hypothetic 56.9 8.5 0.00018 30.6 2.2 31 122-164 108-138 (158)
94 cd00729 rubredoxin_SM Rubredox 56.3 5.4 0.00012 23.1 0.7 10 153-162 17-26 (34)
95 smart00734 ZnF_Rad18 Rad18-lik 56.2 6 0.00013 21.4 0.8 20 155-175 2-21 (26)
96 KOG2186 Cell growth-regulating 55.7 4.1 8.9E-05 34.8 0.2 37 98-135 4-41 (276)
97 PTZ00255 60S ribosomal protein 55.6 6.7 0.00015 28.1 1.2 34 122-168 35-68 (90)
98 TIGR02605 CxxC_CxxC_SSSS putat 52.9 5.2 0.00011 25.2 0.3 13 97-109 5-17 (52)
99 PF08790 zf-LYAR: LYAR-type C2 50.0 5.5 0.00012 22.1 0.0 21 155-176 1-21 (28)
100 PF12013 DUF3505: Protein of u 49.7 7.6 0.00017 28.6 0.8 81 95-179 9-109 (109)
101 KOG2186 Cell growth-regulating 49.2 6.5 0.00014 33.6 0.4 49 124-178 4-52 (276)
102 PF09845 DUF2072: Zn-ribbon co 48.2 8.5 0.00018 29.6 0.8 15 154-168 1-15 (131)
103 TIGR02098 MJ0042_CXXC MJ0042 f 47.9 7.7 0.00017 22.7 0.5 12 154-165 25-36 (38)
104 KOG3408 U1-like Zn-finger-cont 47.3 8.2 0.00018 29.2 0.6 26 151-176 54-79 (129)
105 TIGR01206 lysW lysine biosynth 47.1 15 0.00032 23.7 1.7 11 154-164 22-32 (54)
106 KOG2785 C2H2-type Zn-finger pr 46.1 5.8 0.00013 35.9 -0.4 79 97-175 3-89 (390)
107 smart00659 RPOLCX RNA polymera 45.8 12 0.00026 23.1 1.1 9 154-162 19-27 (44)
108 PF07754 DUF1610: Domain of un 44.6 24 0.00051 18.8 2.0 10 153-162 15-24 (24)
109 COG1592 Rubrerythrin [Energy p 44.4 13 0.00027 30.0 1.3 23 123-161 134-156 (166)
110 PRK09678 DNA-binding transcrip 44.1 13 0.00028 25.6 1.1 20 151-170 24-45 (72)
111 KOG2482 Predicted C2H2-type Zn 42.8 20 0.00042 32.2 2.3 24 97-120 195-218 (423)
112 PF01363 FYVE: FYVE zinc finge 42.4 13 0.00028 24.8 0.9 13 153-165 24-36 (69)
113 PF04959 ARS2: Arsenite-resist 42.2 29 0.00062 29.1 3.2 28 94-121 74-101 (214)
114 smart00834 CxxC_CXXC_SSSS Puta 42.0 12 0.00026 22.0 0.7 15 154-168 5-19 (41)
115 COG1327 Predicted transcriptio 40.9 18 0.0004 28.5 1.7 15 153-167 27-41 (156)
116 TIGR00244 transcriptional regu 40.6 23 0.00051 27.8 2.2 18 153-170 27-44 (147)
117 PRK06266 transcription initiat 40.4 5.9 0.00013 32.2 -1.1 29 97-132 117-145 (178)
118 COG1996 RPC10 DNA-directed RNA 40.1 12 0.00025 23.8 0.4 13 95-107 4-16 (49)
119 PF01780 Ribosomal_L37ae: Ribo 40.1 8.3 0.00018 27.7 -0.3 33 122-167 34-66 (90)
120 KOG2231 Predicted E3 ubiquitin 39.9 14 0.00031 36.1 1.1 69 98-175 183-260 (669)
121 KOG2071 mRNA cleavage and poly 39.8 14 0.0003 35.4 1.0 28 94-121 415-442 (579)
122 COG3364 Zn-ribbon containing p 39.1 16 0.00035 26.8 1.1 14 154-167 2-15 (112)
123 cd00065 FYVE FYVE domain; Zinc 38.5 22 0.00048 22.5 1.6 12 154-165 18-29 (57)
124 KOG2071 mRNA cleavage and poly 38.4 14 0.00031 35.4 0.9 30 152-181 416-445 (579)
125 smart00154 ZnF_AN1 AN1-like Zi 38.3 16 0.00036 21.7 0.9 14 154-167 12-25 (39)
126 KOG4173 Alpha-SNAP protein [In 38.1 5.1 0.00011 33.2 -1.8 80 95-178 77-171 (253)
127 PF12013 DUF3505: Protein of u 37.0 32 0.00069 25.2 2.5 26 96-121 79-108 (109)
128 KOG2932 E3 ubiquitin ligase in 37.0 37 0.0008 30.1 3.1 26 151-176 141-169 (389)
129 PF10013 DUF2256: Uncharacteri 36.6 24 0.00052 21.5 1.3 14 156-169 10-23 (42)
130 KOG3408 U1-like Zn-finger-cont 36.5 24 0.00053 26.7 1.7 27 93-119 53-79 (129)
131 PF01286 XPA_N: XPA protein N- 36.3 17 0.00036 21.2 0.6 10 126-135 6-15 (34)
132 PF09986 DUF2225: Uncharacteri 36.1 12 0.00027 31.2 0.1 25 152-176 3-27 (214)
133 COG1773 Rubredoxin [Energy pro 36.1 18 0.00038 23.5 0.8 13 97-109 3-15 (55)
134 COG2888 Predicted Zn-ribbon RN 35.3 35 0.00076 22.5 2.1 11 152-162 48-58 (61)
135 smart00661 RPOL9 RNA polymeras 35.3 27 0.00059 21.6 1.6 16 154-169 20-35 (52)
136 KOG2785 C2H2-type Zn-finger pr 35.0 12 0.00025 34.0 -0.3 72 95-175 164-241 (390)
137 COG5151 SSL1 RNA polymerase II 33.3 37 0.00081 30.1 2.6 28 153-180 387-414 (421)
138 COG3357 Predicted transcriptio 33.3 29 0.00063 24.9 1.6 14 122-135 57-70 (97)
139 KOG2893 Zn finger protein [Gen 33.2 9.8 0.00021 32.3 -0.9 28 94-121 31-59 (341)
140 PF04959 ARS2: Arsenite-resist 32.9 12 0.00027 31.3 -0.4 30 151-180 74-103 (214)
141 PF13878 zf-C2H2_3: zinc-finge 31.9 40 0.00087 20.3 1.8 24 98-121 14-39 (41)
142 PF03811 Zn_Tnp_IS1: InsA N-te 31.6 49 0.0011 19.4 2.1 18 143-160 18-35 (36)
143 PF01428 zf-AN1: AN1-like Zinc 31.5 18 0.0004 21.9 0.3 15 153-167 12-26 (43)
144 cd00924 Cyt_c_Oxidase_Vb Cytoc 31.3 22 0.00049 25.9 0.8 20 146-166 72-91 (97)
145 PF15269 zf-C2H2_7: Zinc-finge 30.7 40 0.00087 20.9 1.7 25 96-120 19-43 (54)
146 KOG2593 Transcription initiati 30.3 20 0.00044 33.0 0.5 36 122-163 127-162 (436)
147 smart00064 FYVE Protein presen 30.2 34 0.00075 22.5 1.5 10 99-108 12-21 (68)
148 KOG2636 Splicing factor 3a, su 29.8 29 0.00063 32.2 1.4 27 148-174 395-422 (497)
149 PF09332 Mcm10: Mcm10 replicat 29.3 14 0.00029 33.4 -0.8 18 96-113 251-268 (344)
150 PF03604 DNA_RNApol_7kD: DNA d 29.1 21 0.00045 20.4 0.2 10 154-163 17-26 (32)
151 PF13451 zf-trcl: Probable zin 28.5 26 0.00057 22.2 0.6 16 152-167 2-17 (49)
152 KOG2593 Transcription initiati 28.3 28 0.00061 32.1 1.0 16 97-112 128-143 (436)
153 PLN02294 cytochrome c oxidase 27.8 31 0.00066 27.8 1.0 16 152-167 139-154 (174)
154 PHA02998 RNA polymerase subuni 27.1 49 0.0011 26.9 2.1 31 30-60 69-100 (195)
155 PF15135 UPF0515: Uncharacteri 27.0 51 0.0011 28.3 2.3 61 94-170 109-171 (278)
156 PF07282 OrfB_Zn_ribbon: Putat 26.8 49 0.0011 21.9 1.8 16 151-166 43-58 (69)
157 KOG0978 E3 ubiquitin ligase in 26.5 58 0.0013 32.2 2.9 21 153-173 677-697 (698)
158 PRK14873 primosome assembly pr 26.0 31 0.00068 34.0 1.0 11 153-163 421-431 (665)
159 COG1571 Predicted DNA-binding 25.8 46 0.001 30.8 2.0 30 125-168 352-381 (421)
160 COG5112 UFD2 U1-like Zn-finger 25.6 22 0.00047 26.3 -0.1 25 151-175 52-76 (126)
161 PF00301 Rubredoxin: Rubredoxi 25.4 41 0.0009 21.0 1.1 14 97-110 1-14 (47)
162 COG3091 SprT Zn-dependent meta 25.4 31 0.00067 27.3 0.7 14 94-108 114-127 (156)
163 PF10276 zf-CHCC: Zinc-finger 25.3 31 0.00068 20.8 0.5 12 153-164 28-39 (40)
164 KOG0717 Molecular chaperone (D 25.0 48 0.001 31.0 1.9 22 98-119 293-314 (508)
165 smart00440 ZnF_C2C2 C2C2 Zinc 24.9 41 0.00089 20.1 1.0 12 154-165 28-39 (40)
166 KOG2482 Predicted C2H2-type Zn 24.2 33 0.00072 30.8 0.7 31 154-184 195-227 (423)
167 PF04810 zf-Sec23_Sec24: Sec23 24.2 44 0.00096 19.9 1.1 17 148-164 18-34 (40)
168 PF13240 zinc_ribbon_2: zinc-r 24.2 62 0.0013 16.8 1.5 7 157-163 16-22 (23)
169 PF07975 C1_4: TFIIH C1-like d 24.0 34 0.00073 21.8 0.5 27 153-179 20-46 (51)
170 PF14446 Prok-RING_1: Prokaryo 23.6 57 0.0012 21.1 1.5 12 155-166 22-33 (54)
171 TIGR00100 hypA hydrogenase nic 23.3 42 0.0009 25.1 1.0 19 43-61 39-57 (115)
172 PRK12380 hydrogenase nickel in 23.1 40 0.00087 25.1 0.9 21 42-62 38-58 (113)
173 COG0068 HypF Hydrogenase matur 22.8 17 0.00037 35.7 -1.4 54 100-163 126-182 (750)
174 PF11931 DUF3449: Domain of un 22.7 28 0.00061 28.7 0.0 23 152-174 99-122 (196)
175 PRK03824 hypA hydrogenase nick 22.4 33 0.00071 26.5 0.3 47 41-110 37-83 (135)
176 PF14311 DUF4379: Domain of un 22.4 78 0.0017 20.0 2.0 17 95-111 26-42 (55)
177 PRK04023 DNA polymerase II lar 21.7 58 0.0013 33.5 1.9 11 96-106 625-635 (1121)
178 COG5188 PRP9 Splicing factor 3 21.1 50 0.0011 29.8 1.2 27 148-174 368-395 (470)
179 KOG2636 Splicing factor 3a, su 20.7 51 0.0011 30.7 1.2 24 95-118 399-423 (497)
180 cd00730 rubredoxin Rubredoxin; 20.7 38 0.00082 21.4 0.3 12 98-109 2-13 (50)
181 PRK14873 primosome assembly pr 20.6 63 0.0014 31.9 1.9 15 149-163 405-419 (665)
182 PF12760 Zn_Tnp_IS1595: Transp 20.5 2.1E+02 0.0046 17.3 4.1 29 122-162 17-45 (46)
183 PRK12496 hypothetical protein; 20.5 57 0.0012 26.0 1.3 8 156-163 145-152 (164)
184 PF04423 Rad50_zn_hook: Rad50 20.4 37 0.00081 21.5 0.2 12 156-167 22-33 (54)
185 PF11787 Aft1_HRR: Aft1 HRR do 20.0 77 0.0017 22.0 1.7 14 46-59 63-76 (76)
186 PF10083 DUF2321: Uncharacteri 20.0 77 0.0017 25.2 1.9 19 151-169 65-83 (158)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.81 E-value=7.2e-21 Score=159.83 Aligned_cols=87 Identities=23% Similarity=0.300 Sum_probs=81.1
Q ss_pred CceeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhHhhcc
Q 038669 95 KLVFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQALGGHK 174 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L~~H~ 174 (244)
.+-+.|++|+|.|.+-.+|+.|+++|+-++.|.+||+.|.+.+.| +-|+|+|+|||||.|.+|+|+|+..++|+.||
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLL---QGHiRTHTGEKPF~C~hC~kAFADRSNLRAHm 235 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLL---QGHIRTHTGEKPFSCPHCGKAFADRSNLRAHM 235 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHh---hcccccccCCCCccCCcccchhcchHHHHHHH
Confidence 566888899999999999999999999999999999999999999 99999999999999999999999999999999
Q ss_pred cccccccCCC
Q 038669 175 RCHYDGGEKS 184 (244)
Q Consensus 175 r~H~~~~~~~ 184 (244)
++|.+.+.-.
T Consensus 236 QTHS~~K~~q 245 (279)
T KOG2462|consen 236 QTHSDVKKHQ 245 (279)
T ss_pred HhhcCCcccc
Confidence 9999887543
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.67 E-value=6.9e-18 Score=141.93 Aligned_cols=82 Identities=26% Similarity=0.368 Sum_probs=77.6
Q ss_pred CCCceeEeccccccccCHHHHHHhHHHhc--CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhH
Q 038669 93 DQKLVFKCSVCDKAFSSYQALGGHKASHR--KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQAL 170 (244)
Q Consensus 93 ~~~~p~~C~~C~k~F~~~~~L~~H~~~H~--k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L 170 (244)
+...+++|.+|||.|....-|++|+|+|| |||.|..|++.|..+.+| +.|+.+|.+.|+|+|..|+|.|...+.|
T Consensus 183 TH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNL---RAHmQTHS~~K~~qC~~C~KsFsl~SyL 259 (279)
T KOG2462|consen 183 THTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNL---RAHMQTHSDVKKHQCPRCGKSFALKSYL 259 (279)
T ss_pred ccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHH---HHHHHhhcCCccccCcchhhHHHHHHHH
Confidence 45578999999999999999999999999 999999999999999999 9999999999999999999999999999
Q ss_pred hhccccc
Q 038669 171 GGHKRCH 177 (244)
Q Consensus 171 ~~H~r~H 177 (244)
.+|...-
T Consensus 260 nKH~ES~ 266 (279)
T KOG2462|consen 260 NKHSESA 266 (279)
T ss_pred HHhhhhc
Confidence 9997643
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.55 E-value=4.9e-16 Score=144.47 Aligned_cols=83 Identities=20% Similarity=0.321 Sum_probs=78.9
Q ss_pred CCCCCCceeEeccccccccCHHHHHHhHHHhc--CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCc
Q 038669 90 SSSDQKLVFKCSVCDKAFSSYQALGGHKASHR--KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTG 167 (244)
Q Consensus 90 ~~~~~~~p~~C~~C~k~F~~~~~L~~H~~~H~--k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~ 167 (244)
...+...+|.|+.|+|.|.-.+.|.+|+--|+ +||.|.+|.+.|..+.+| ..|+|.|.|||||+|..|+|.|...
T Consensus 887 ~~kte~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHL---tEHkRLHSGEKPfQCdKClKRFSHS 963 (1007)
T KOG3623|consen 887 HAKTEDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHL---TEHKRLHSGEKPFQCDKCLKRFSHS 963 (1007)
T ss_pred cccCccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhh---hhhhhhccCCCcchhhhhhhhcccc
Confidence 44567789999999999999999999999999 899999999999999999 9999999999999999999999999
Q ss_pred hhHhhccc
Q 038669 168 QALGGHKR 175 (244)
Q Consensus 168 ~~L~~H~r 175 (244)
+.+.+||-
T Consensus 964 GSYSQHMN 971 (1007)
T KOG3623|consen 964 GSYSQHMN 971 (1007)
T ss_pred cchHhhhc
Confidence 99999985
No 4
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.52 E-value=2.4e-15 Score=121.26 Aligned_cols=84 Identities=26% Similarity=0.349 Sum_probs=77.8
Q ss_pred CCCCCceeEeccccccccCHHHHHHhHHHhc--CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCch
Q 038669 91 SSDQKLVFKCSVCDKAFSSYQALGGHKASHR--KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQ 168 (244)
Q Consensus 91 ~~~~~~p~~C~~C~k~F~~~~~L~~H~~~H~--k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~ 168 (244)
+..+...|.|.+|+|.|....-|.+|+..|. +.+-|..|++.|.....| ++|+|+|+|.|||+|..|+|+|.+..
T Consensus 111 sssd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdl---krh~rthtgvrpykc~~c~kaftqrc 187 (267)
T KOG3576|consen 111 SSSDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDL---KRHTRTHTGVRPYKCSLCEKAFTQRC 187 (267)
T ss_pred CCCCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhh---hhhhccccCccccchhhhhHHHHhhc
Confidence 3445678999999999999999999999999 889999999999999999 99999999999999999999999999
Q ss_pred hHhhccc-cc
Q 038669 169 ALGGHKR-CH 177 (244)
Q Consensus 169 ~L~~H~r-~H 177 (244)
.|..|.+ +|
T Consensus 188 sleshl~kvh 197 (267)
T KOG3576|consen 188 SLESHLKKVH 197 (267)
T ss_pred cHHHHHHHHc
Confidence 9999975 45
No 5
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.46 E-value=7.9e-15 Score=138.44 Aligned_cols=54 Identities=17% Similarity=0.163 Sum_probs=43.6
Q ss_pred CCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhHhhcccccccccC
Q 038669 126 GGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQALGGHKRCHYDGGE 182 (244)
Q Consensus 126 c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L~~H~r~H~~~~~ 182 (244)
|-+|.+.......| +.|.|+|+|||||+|.+||++|.++.+|+.|+-+|.-..+
T Consensus 608 CiiC~rVlSC~saL---qmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~ 661 (958)
T KOG1074|consen 608 CIICLRVLSCPSAL---QMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPP 661 (958)
T ss_pred eeeeeecccchhhh---hhhhhcccCcCccccccccchhccccchhhcccccccCcc
Confidence 44444444444444 8899999999999999999999999999999999976644
No 6
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.35 E-value=2.1e-13 Score=127.14 Aligned_cols=80 Identities=18% Similarity=0.282 Sum_probs=73.8
Q ss_pred CceeEeccccccccCHHHHHHhHHHhc---------------CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcc
Q 038669 95 KLVFKCSVCDKAFSSYQALGGHKASHR---------------KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSI 159 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H~~~H~---------------k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~ 159 (244)
+..|.|..|.++|.++..|.+||.+|. +.|.|.+|++.|..+.+| +.|+|+|.|||||+|+.
T Consensus 238 e~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHL---KEHlRIHSGEKPfeCpn 314 (1007)
T KOG3623|consen 238 EPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHL---KEHLRIHSGEKPFECPN 314 (1007)
T ss_pred CCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHH---HhhheeecCCCCcCCcc
Confidence 445889999999999999999999986 468999999999999999 99999999999999999
Q ss_pred cccccCCchhHhhccccc
Q 038669 160 CHKSFPTGQALGGHKRCH 177 (244)
Q Consensus 160 Cgk~F~~~~~L~~H~r~H 177 (244)
|+|.|...+.+..||-.-
T Consensus 315 CkKRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 315 CKKRFSHSGSYSSHMSSK 332 (1007)
T ss_pred cccccccCCccccccccc
Confidence 999999999999998543
No 7
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.96 E-value=8.9e-10 Score=104.79 Aligned_cols=84 Identities=24% Similarity=0.290 Sum_probs=77.8
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhc--CCCCCCCCCCCCCCCCCCccccccccccCCC----CceeCc---cccccc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHR--KGSGGGDEHSASTTTNTNATATTTGVPNATG----RTHECS---ICHKSF 164 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~--k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~e----kp~~C~---~Cgk~F 164 (244)
...|.+|-+|-++....++|+.|.|+|+ +||+|.+|++.|..+.+| +.|+.+|... -+|.|+ +|.+.|
T Consensus 602 ~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNL---kaH~~vHka~p~~R~q~ScP~~~ic~~kf 678 (958)
T KOG1074|consen 602 RTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNL---KAHMSVHKAKPPARVQFSCPSTFICQKKF 678 (958)
T ss_pred cCCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccch---hhcccccccCccccccccCCchhhhcccc
Confidence 4568999999999999999999999999 999999999999999999 9999999764 358899 999999
Q ss_pred CCchhHhhcccccccc
Q 038669 165 PTGQALGGHKRCHYDG 180 (244)
Q Consensus 165 ~~~~~L~~H~r~H~~~ 180 (244)
...-.|.+|+|+|.+.
T Consensus 679 tn~V~lpQhIriH~~~ 694 (958)
T KOG1074|consen 679 TNAVTLPQHIRIHLGG 694 (958)
T ss_pred cccccccceEEeecCC
Confidence 9999999999999955
No 8
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.89 E-value=1.3e-10 Score=94.14 Aligned_cols=85 Identities=15% Similarity=0.119 Sum_probs=73.5
Q ss_pred CCCceeEeccccccccCHHHHHHhHHHhc--CCCCCCCCCCCCCCCCCCcccccccc-ccC----------CCCceeCcc
Q 038669 93 DQKLVFKCSVCDKAFSSYQALGGHKASHR--KGSGGGDEHSASTTTNTNATATTTGV-PNA----------TGRTHECSI 159 (244)
Q Consensus 93 ~~~~p~~C~~C~k~F~~~~~L~~H~~~H~--k~~~c~~c~~~f~~~~~l~~~~~H~r-~h~----------~ekp~~C~~ 159 (244)
...+.|-|..|||.|.....|++|+|+|+ +||.|..|++.|.+.-.| ..|.+ +|. ..|-|.|+.
T Consensus 141 ~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsl---eshl~kvhgv~~~yaykerr~kl~vced 217 (267)
T KOG3576|consen 141 SDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSL---ESHLKKVHGVQHQYAYKERRAKLYVCED 217 (267)
T ss_pred cHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccH---HHHHHHHcCchHHHHHHHhhhheeeecc
Confidence 34577889999999999999999999999 899999999999999888 66765 443 247799999
Q ss_pred cccccCCchhHhhcccccccc
Q 038669 160 CHKSFPTGQALGGHKRCHYDG 180 (244)
Q Consensus 160 Cgk~F~~~~~L~~H~r~H~~~ 180 (244)
||..-.....+..|++.|+-.
T Consensus 218 cg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 218 CGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred cCCCCCChhHHHHHHHhcCCC
Confidence 999999999999999888654
No 9
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.89 E-value=2.8e-10 Score=98.93 Aligned_cols=82 Identities=18% Similarity=0.273 Sum_probs=75.4
Q ss_pred CceeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCcccccccc-ccCCCCceeCcccccccCCchhHhhc
Q 038669 95 KLVFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGV-PNATGRTHECSICHKSFPTGQALGGH 173 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r-~h~~ekp~~C~~Cgk~F~~~~~L~~H 173 (244)
..+|+|..|.|.|.+...|+.|+..|..-|.|+.|.........| ..|++ .|+..|||+|..|.+.|.+.+.|.+|
T Consensus 235 ~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL---~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH 311 (467)
T KOG3608|consen 235 TNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSL---TTHIRYRHSKDKPFKCDECDTRCVRESDLAKH 311 (467)
T ss_pred CCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHH---HHHHHhhhccCCCccccchhhhhccHHHHHHH
Confidence 357999999999999999999999999999999999999888888 99998 78889999999999999999999999
Q ss_pred cccccc
Q 038669 174 KRCHYD 179 (244)
Q Consensus 174 ~r~H~~ 179 (244)
..+|..
T Consensus 312 ~~~HS~ 317 (467)
T KOG3608|consen 312 VQVHSK 317 (467)
T ss_pred HHhccc
Confidence 988874
No 10
>PHA00733 hypothetical protein
Probab=98.86 E-value=4.7e-10 Score=86.43 Aligned_cols=81 Identities=11% Similarity=0.009 Sum_probs=67.9
Q ss_pred CCceeEeccccccccCHHHHHHh--H----HHhc-CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCC
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGH--K----ASHR-KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPT 166 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H--~----~~H~-k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~ 166 (244)
.++++.|.+|.+.|.....|..| + ..|. ++|.|..|++.|.....| ..|++.| +.+|.|.+|++.|..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L---~~H~r~h--~~~~~C~~CgK~F~~ 111 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSL---KQHIRYT--EHSKVCPVCGKEFRN 111 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHH---HHHHhcC--CcCccCCCCCCccCC
Confidence 56889999999999888777766 2 2232 799999999999999988 8898876 467999999999999
Q ss_pred chhHhhccccccc
Q 038669 167 GQALGGHKRCHYD 179 (244)
Q Consensus 167 ~~~L~~H~r~H~~ 179 (244)
...|..|++.+++
T Consensus 112 ~~sL~~H~~~~h~ 124 (128)
T PHA00733 112 TDSTLDHVCKKHN 124 (128)
T ss_pred HHHHHHHHHHhcC
Confidence 9999999876543
No 11
>PHA02768 hypothetical protein; Provisional
Probab=98.85 E-value=1.8e-09 Score=69.96 Aligned_cols=42 Identities=14% Similarity=0.293 Sum_probs=32.5
Q ss_pred eeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCC
Q 038669 97 VFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNT 138 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~ 138 (244)
-|+|+.||+.|...++|..|+++|++++.|..|++.|...+.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~~~s~ 46 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISLRTGE 46 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcCCcccCCcccceecccce
Confidence 389999999999999999999999765555555555554443
No 12
>PHA02768 hypothetical protein; Provisional
Probab=98.57 E-value=7.3e-09 Score=67.10 Aligned_cols=44 Identities=9% Similarity=-0.125 Sum_probs=36.5
Q ss_pred CCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhHh
Q 038669 123 GSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQALG 171 (244)
Q Consensus 123 ~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L~ 171 (244)
.|.|+.|++.|.....| ..|+++|+ ++|+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L---~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSM---ITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHH---HHHHHhcC--CcccCCcccceecccceeE
Confidence 46888888888888888 88888887 6888888888888777664
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.52 E-value=6.4e-08 Score=90.73 Aligned_cols=77 Identities=13% Similarity=0.181 Sum_probs=65.6
Q ss_pred CceeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCC--------
Q 038669 95 KLVFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPT-------- 166 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~-------- 166 (244)
++.+.|..|++.|. ...|..|+.+|++++.|. |+..+ ....| ..|+.+|..+|++.|.+|++.|..
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~Hkpv~Cp-Cg~~~-~R~~L---~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~ 524 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFHEPLQCP-CGVVL-EKEQM---VQHQASTCPLRLITCRFCGDMVQAGGSAMDVR 524 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcCCCccCC-CCCCc-chhHH---HhhhhccCCCCceeCCCCCCccccCccccchh
Confidence 45678999999996 678999999988999999 99755 45677 889999999999999999999953
Q ss_pred --chhHhhccccc
Q 038669 167 --GQALGGHKRCH 177 (244)
Q Consensus 167 --~~~L~~H~r~H 177 (244)
...|..|..++
T Consensus 525 d~~s~Lt~HE~~C 537 (567)
T PLN03086 525 DRLRGMSEHESIC 537 (567)
T ss_pred hhhhhHHHHHHhc
Confidence 34788998876
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=98.40 E-value=3e-08 Score=54.87 Aligned_cols=24 Identities=21% Similarity=0.420 Sum_probs=21.0
Q ss_pred cccccccCCCCceeCcccccccCC
Q 038669 143 TTTGVPNATGRTHECSICHKSFPT 166 (244)
Q Consensus 143 ~~H~r~h~~ekp~~C~~Cgk~F~~ 166 (244)
..|+++|+++|||.|++|++.|.+
T Consensus 3 ~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 3 RRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHSSSSSEEESSSSEEESS
T ss_pred HHHhhhcCCCCCCCCCCCcCeeCc
Confidence 667788889999999999999964
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.37 E-value=4.2e-08 Score=87.36 Aligned_cols=81 Identities=15% Similarity=0.229 Sum_probs=66.2
Q ss_pred eeEeccccccccCHHHHHHhH--HHhcCCCCCCCCCCCCCCCCCCccccccccccC--------C---------------
Q 038669 97 VFKCSVCDKAFSSYQALGGHK--ASHRKGSGGGDEHSASTTTNTNATATTTGVPNA--------T--------------- 151 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~--~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~--------~--------------- 151 (244)
-|.|..|...|.....|.+|+ ++-+-.|.|.+|++.|....+| ..|.|.|. +
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANL---ASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ 343 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANL---ASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQ 343 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhh---hhhhcccCCchhhhhcCCCChhhhhhhhhhhh
Confidence 388999999998888888887 3334788999999999988888 77777763 1
Q ss_pred ----------CCceeCcccccccCCchhHhhcccccccc
Q 038669 152 ----------GRTHECSICHKSFPTGQALGGHKRCHYDG 180 (244)
Q Consensus 152 ----------ekp~~C~~Cgk~F~~~~~L~~H~r~H~~~ 180 (244)
+-.|.|.+|+|.|.+...|++|+-+|..-
T Consensus 344 ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 344 EAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred hccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 12599999999999999999998888754
No 16
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.37 E-value=6.1e-08 Score=84.62 Aligned_cols=86 Identities=19% Similarity=0.232 Sum_probs=70.1
Q ss_pred CCCCCceeEeccccccccCHHHHHHhHHHhc-CCCCCCC--CCCCCCCCCCCccccccccccC-C--CCceeCccccccc
Q 038669 91 SSDQKLVFKCSVCDKAFSSYQALGGHKASHR-KGSGGGD--EHSASTTTNTNATATTTGVPNA-T--GRTHECSICHKSF 164 (244)
Q Consensus 91 ~~~~~~p~~C~~C~k~F~~~~~L~~H~~~H~-k~~~c~~--c~~~f~~~~~l~~~~~H~r~h~-~--ekp~~C~~Cgk~F 164 (244)
.++..+||+|+.|++.|...+.|..|..+|. -.|.|.. |...|.....+ .+|++.+. | +-+|.|..|.+.|
T Consensus 286 rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~---~~H~~evhEg~np~~Y~CH~Cdr~f 362 (467)
T KOG3608|consen 286 RHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQM---RRHFLEVHEGNNPILYACHCCDRFF 362 (467)
T ss_pred hhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHH---HHHHHHhccCCCCCceeeecchhhh
Confidence 3567899999999999999999999999999 5688876 77777766666 78887443 4 4679999999999
Q ss_pred CCchhHhhccccccc
Q 038669 165 PTGQALGGHKRCHYD 179 (244)
Q Consensus 165 ~~~~~L~~H~r~H~~ 179 (244)
.++.+|..|++.-++
T Consensus 363 t~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 363 TSGKSLSAHLMKKHG 377 (467)
T ss_pred ccchhHHHHHHHhhc
Confidence 999999999754443
No 17
>PHA00733 hypothetical protein
Probab=98.17 E-value=7.3e-07 Score=68.70 Aligned_cols=53 Identities=15% Similarity=0.107 Sum_probs=47.4
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCcccccccccc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGVPN 149 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h 149 (244)
+.+||.|..|++.|.....|..|++.|..+|.|..|++.|.....| ..|+...
T Consensus 70 ~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~sL---~~H~~~~ 122 (128)
T PHA00733 70 AVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDST---LDHVCKK 122 (128)
T ss_pred CCCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHHHH---HHHHHHh
Confidence 4689999999999999999999999888889999999999998888 7776643
No 18
>PHA00732 hypothetical protein
Probab=98.02 E-value=3.9e-06 Score=59.10 Aligned_cols=38 Identities=18% Similarity=0.258 Sum_probs=28.4
Q ss_pred eeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCC
Q 038669 97 VFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSAST 134 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~ 134 (244)
||.|..|++.|....+|..|++.+..++.|..|++.|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~ 38 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYR 38 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeC
Confidence 58899999999999999999885333345555555554
No 19
>PHA00616 hypothetical protein
Probab=97.98 E-value=1.4e-06 Score=53.87 Aligned_cols=29 Identities=14% Similarity=0.173 Sum_probs=26.6
Q ss_pred ceeCcccccccCCchhHhhcccccccccC
Q 038669 154 THECSICHKSFPTGQALGGHKRCHYDGGE 182 (244)
Q Consensus 154 p~~C~~Cgk~F~~~~~L~~H~r~H~~~~~ 182 (244)
||+|..||+.|...+.|..|++.|+++++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~ 29 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNK 29 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCc
Confidence 68999999999999999999999998865
No 20
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.85 E-value=1.6e-05 Score=42.30 Aligned_cols=23 Identities=43% Similarity=0.870 Sum_probs=21.8
Q ss_pred eEeccccccccCHHHHHHhHHHh
Q 038669 98 FKCSVCDKAFSSYQALGGHKASH 120 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~H 120 (244)
|+|.+|++.|.....|..|++.|
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 79999999999999999999876
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=97.84 E-value=3.9e-06 Score=44.71 Aligned_cols=23 Identities=43% Similarity=0.769 Sum_probs=21.7
Q ss_pred eeCcccccccCCchhHhhccccc
Q 038669 155 HECSICHKSFPTGQALGGHKRCH 177 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~H 177 (244)
|.|.+|++.|.+...|..|++.|
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
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.84 E-value=7.2e-06 Score=77.16 Aligned_cols=72 Identities=15% Similarity=0.168 Sum_probs=59.0
Q ss_pred ceeEeccccccccCHHHHHHhHHHhc--CCCCCCCCCCCCCCC----------CCCccccccccccCCCCceeCcccccc
Q 038669 96 LVFKCSVCDKAFSSYQALGGHKASHR--KGSGGGDEHSASTTT----------NTNATATTTGVPNATGRTHECSICHKS 163 (244)
Q Consensus 96 ~p~~C~~C~k~F~~~~~L~~H~~~H~--k~~~c~~c~~~f~~~----------~~l~~~~~H~r~h~~ekp~~C~~Cgk~ 163 (244)
++|.|. |++.| .+..|..|+.+|. +++.|..|+..|... ..| ..|..++ |.+++.|..||+.
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~L---t~HE~~C-G~rt~~C~~Cgk~ 550 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGM---SEHESIC-GSRTAPCDSCGRS 550 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhH---HHHHHhc-CCcceEccccCCe
Confidence 679999 99766 6689999999988 899999999988521 245 7888886 8999999999999
Q ss_pred cCCchhHhhcc
Q 038669 164 FPTGQALGGHK 174 (244)
Q Consensus 164 F~~~~~L~~H~ 174 (244)
|... .|..|+
T Consensus 551 Vrlr-dm~~H~ 560 (567)
T PLN03086 551 VMLK-EMDIHQ 560 (567)
T ss_pred eeeh-hHHHHH
Confidence 9765 566775
No 23
>PHA00616 hypothetical protein
Probab=97.76 E-value=1.2e-05 Score=49.74 Aligned_cols=25 Identities=20% Similarity=0.422 Sum_probs=23.4
Q ss_pred eeEeccccccccCHHHHHHhHHHhc
Q 038669 97 VFKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
||+|..||+.|...+.|..|++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h 25 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH 25 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc
Confidence 6899999999999999999999887
No 24
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.74 E-value=1.9e-05 Score=68.31 Aligned_cols=71 Identities=20% Similarity=0.424 Sum_probs=47.8
Q ss_pred CCceeEecc--ccccccCHHHHHHhHHH-hcCCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhH
Q 038669 94 QKLVFKCSV--CDKAFSSYQALGGHKAS-HRKGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQAL 170 (244)
Q Consensus 94 ~~~p~~C~~--C~k~F~~~~~L~~H~~~-H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L 170 (244)
++|||+|.+ |.|.|+..-.|+-|+.- |..+..-. ...- ..|..--...|||.|++|+|.+..-.-|
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~--------~p~p---~~~~~F~~~~KPYrCevC~KRYKNlNGL 414 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHE--------NPSP---EKMNIFSAKDKPYRCEVCDKRYKNLNGL 414 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCC--------CCCc---cccccccccCCceeccccchhhccCccc
Confidence 359999997 99999999999999754 32111000 0000 1111112256999999999999999999
Q ss_pred hhccc
Q 038669 171 GGHKR 175 (244)
Q Consensus 171 ~~H~r 175 (244)
+.|+.
T Consensus 415 KYHr~ 419 (423)
T COG5189 415 KYHRK 419 (423)
T ss_pred eeccc
Confidence 88864
No 25
>PHA00732 hypothetical protein
Probab=97.71 E-value=1.2e-05 Score=56.60 Aligned_cols=47 Identities=17% Similarity=0.177 Sum_probs=38.2
Q ss_pred CCCCCCCCCCCCCCCCCccccccccc-cCCCCceeCcccccccCCchhHhhcccccc
Q 038669 123 GSGGGDEHSASTTTNTNATATTTGVP-NATGRTHECSICHKSFPTGQALGGHKRCHY 178 (244)
Q Consensus 123 ~~~c~~c~~~f~~~~~l~~~~~H~r~-h~~ekp~~C~~Cgk~F~~~~~L~~H~r~H~ 178 (244)
+|.|..|++.|.....| ..|++. |. ++.|+.|++.|. .|..|.+++.
T Consensus 1 py~C~~Cgk~F~s~s~L---k~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFAL---KQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHH---HHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 57899999999998888 899884 65 368999999997 5777876553
No 26
>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=97.61 E-value=2.1e-05 Score=43.49 Aligned_cols=26 Identities=42% Similarity=0.731 Sum_probs=24.2
Q ss_pred ceeCcccccccCCchhHhhccccccc
Q 038669 154 THECSICHKSFPTGQALGGHKRCHYD 179 (244)
Q Consensus 154 p~~C~~Cgk~F~~~~~L~~H~r~H~~ 179 (244)
||+|..|++.|....+|..|++.|..
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 68999999999999999999999864
No 27
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.39 E-value=9.2e-05 Score=40.87 Aligned_cols=25 Identities=52% Similarity=0.836 Sum_probs=23.2
Q ss_pred eeEeccccccccCHHHHHHhHHHhc
Q 038669 97 VFKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
+|+|..|++.|.....|..|++.|.
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 6999999999999999999998874
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.38 E-value=5.4e-05 Score=40.16 Aligned_cols=24 Identities=42% Similarity=0.754 Sum_probs=20.2
Q ss_pred eeCcccccccCCchhHhhcccccc
Q 038669 155 HECSICHKSFPTGQALGGHKRCHY 178 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~H~ 178 (244)
|.|++|++.|.+...|..|+++|.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999998763
No 29
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.37 E-value=0.00019 Score=37.98 Aligned_cols=24 Identities=38% Similarity=0.841 Sum_probs=20.3
Q ss_pred eEeccccccccCHHHHHHhHHHhc
Q 038669 98 FKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
|.|.+|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999998873
No 30
>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=97.30 E-value=5.8e-05 Score=41.54 Aligned_cols=21 Identities=19% Similarity=-0.005 Sum_probs=12.2
Q ss_pred HHHhHHHhc--CCCCCCCCCCCC
Q 038669 113 LGGHKASHR--KGSGGGDEHSAS 133 (244)
Q Consensus 113 L~~H~~~H~--k~~~c~~c~~~f 133 (244)
|..|+++|+ ++|.|..|++.|
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F 24 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSF 24 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEE
T ss_pred HHHHhhhcCCCCCCCCCCCcCee
Confidence 555666665 555666665554
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.24 E-value=0.00011 Score=53.32 Aligned_cols=72 Identities=24% Similarity=0.379 Sum_probs=21.9
Q ss_pred EeccccccccCHHHHHHhHHHhcC-CCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhHhhccccc
Q 038669 99 KCSVCDKAFSSYQALGGHKASHRK-GSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQALGGHKRCH 177 (244)
Q Consensus 99 ~C~~C~k~F~~~~~L~~H~~~H~k-~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L~~H~r~H 177 (244)
+|..|+..|.....|..|+....+ .... ...+.....+ ..+.+.. -...+.|.+|++.|.+...|..|++.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~---~~~l~~~~~~---~~~~~~~-~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPD---QKYLVDPNRL---LNYLRKK-VKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Ccccccccccccccccccccccccccccc---cccccccccc---ccccccc-cCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 599999999999999999865441 1110 0001111111 1222211 123699999999999999999999865
No 32
>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=97.21 E-value=0.00031 Score=45.69 Aligned_cols=52 Identities=23% Similarity=0.423 Sum_probs=36.9
Q ss_pred eeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhHhhcccc
Q 038669 97 VFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQALGGHKRC 176 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L~~H~r~ 176 (244)
.|.|++|++. .+...|..|...... . ..+.+.|++|...+. .+|..|++.
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~------------------------~---~~~~v~CPiC~~~~~--~~l~~Hl~~ 51 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHR------------------------S---ESKNVVCPICSSRVT--DNLIRHLNS 51 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCc------------------------C---CCCCccCCCchhhhh--hHHHHHHHH
Confidence 4889999994 556789999655320 0 234688999998655 489999876
Q ss_pred cc
Q 038669 177 HY 178 (244)
Q Consensus 177 H~ 178 (244)
++
T Consensus 52 ~H 53 (54)
T PF05605_consen 52 QH 53 (54)
T ss_pred hc
Confidence 54
No 33
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.08 E-value=0.00053 Score=61.70 Aligned_cols=135 Identities=17% Similarity=0.278 Sum_probs=76.9
Q ss_pred CCChHHHHHHHHHHHhcCCCCCccccCCCC-CCcCcCCC--CCCCCCCCCCCCCCCCCceeEeccccccccCHHHHHHhH
Q 038669 41 PPTEEEYLALCLVMLARGTTSTAALTNCNT-TTTASQRQ--KSPAPSTAATTSSSDQKLVFKCSVCDKAFSSYQALGGHK 117 (244)
Q Consensus 41 ~~s~ee~~a~cl~~ls~~~~~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~~~p~~C~~C~k~F~~~~~L~~H~ 117 (244)
.+.|.+.+.+|-.-|+..+++...-..... .......+ ..........+.+.....-|.|.+|+|.|.....|+.|+
T Consensus 297 rCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHq 376 (500)
T KOG3993|consen 297 RCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQ 376 (500)
T ss_pred cCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhH
Confidence 446888899999999888876432211110 00000000 000000000122223445899999999999999999999
Q ss_pred HHhc-----CC-----C--------------------------------------CCCCCCCCCCCCCCCcccccccccc
Q 038669 118 ASHR-----KG-----S--------------------------------------GGGDEHSASTTTNTNATATTTGVPN 149 (244)
Q Consensus 118 ~~H~-----k~-----~--------------------------------------~c~~c~~~f~~~~~l~~~~~H~r~h 149 (244)
.+|. +. + .|..|+..+..+..- ..+.+.-
T Consensus 377 lthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~s---gg~~rlg 453 (500)
T KOG3993|consen 377 LTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSS---GGYGRLG 453 (500)
T ss_pred HhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCCCCCCCCcccCCCC---Ccccccc
Confidence 8887 11 1 122333333333222 3333333
Q ss_pred CCCCceeCcccccccCCchhHhhcc-cccc
Q 038669 150 ATGRTHECSICHKSFPTGQALGGHK-RCHY 178 (244)
Q Consensus 150 ~~ekp~~C~~Cgk~F~~~~~L~~H~-r~H~ 178 (244)
..+.-|.|.+|.-.|.....|.+|+ +.|-
T Consensus 454 ~~~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 454 IAEQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred chhhccccccchHhhhcCcchHhHhhhcCh
Confidence 3456688999999999999999986 4453
No 34
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.93 E-value=0.00031 Score=37.67 Aligned_cols=24 Identities=38% Similarity=0.641 Sum_probs=22.1
Q ss_pred eeCcccccccCCchhHhhcccccc
Q 038669 155 HECSICHKSFPTGQALGGHKRCHY 178 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~H~ 178 (244)
|+|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999999775
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.73 E-value=0.00098 Score=35.62 Aligned_cols=24 Identities=38% Similarity=0.775 Sum_probs=22.0
Q ss_pred eEeccccccccCHHHHHHhHHHhc
Q 038669 98 FKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
|+|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 679999999999999999999874
No 36
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.67 E-value=0.00079 Score=42.69 Aligned_cols=32 Identities=16% Similarity=0.253 Sum_probs=23.5
Q ss_pred CCCceeCcccccccCCchhHhhcccccccccC
Q 038669 151 TGRTHECSICHKSFPTGQALGGHKRCHYDGGE 182 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~~~~~L~~H~r~H~~~~~ 182 (244)
.+.|..|++|+..+.+..+|.+|+.++++.++
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 46899999999999999999999988877665
No 37
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.45 E-value=0.0021 Score=34.60 Aligned_cols=23 Identities=43% Similarity=0.820 Sum_probs=21.3
Q ss_pred eEeccccccccCHHHHHHhHHHh
Q 038669 98 FKCSVCDKAFSSYQALGGHKASH 120 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~H 120 (244)
|.|.+|++.|.+...|..|++.+
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 78999999999999999999765
No 38
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.09 E-value=0.0021 Score=34.61 Aligned_cols=23 Identities=39% Similarity=0.761 Sum_probs=21.2
Q ss_pred eeCcccccccCCchhHhhccccc
Q 038669 155 HECSICHKSFPTGQALGGHKRCH 177 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~H 177 (244)
|.|.+|++.|.+...|..|++.+
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 39
>PRK04860 hypothetical protein; Provisional
Probab=95.85 E-value=0.0056 Score=48.91 Aligned_cols=40 Identities=15% Similarity=0.438 Sum_probs=27.9
Q ss_pred CceeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCc
Q 038669 95 KLVFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTG 167 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~ 167 (244)
.-+|.|. |++ ....+.+|.++|+ ++++|.|..|++.|...
T Consensus 117 ~~~Y~C~-C~~---~~~~~rrH~ri~~-----------------------------g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 117 TFPYRCK-CQE---HQLTVRRHNRVVR-----------------------------GEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEEcC-CCC---eeCHHHHHHHHhc-----------------------------CCccEECCCCCceeEEe
Confidence 3679998 987 4555666766664 66778888887777543
No 40
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.82 E-value=0.0048 Score=33.96 Aligned_cols=23 Identities=26% Similarity=0.582 Sum_probs=21.1
Q ss_pred eeCcccccccCCchhHhhccccc
Q 038669 155 HECSICHKSFPTGQALGGHKRCH 177 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~H 177 (244)
|.|..|++.|.+...|..|++.+
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCcccCCCCcCCHHHHHHHHccC
Confidence 78999999999999999999764
No 41
>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=95.77 E-value=0.015 Score=36.97 Aligned_cols=29 Identities=14% Similarity=0.330 Sum_probs=21.1
Q ss_pred CCCceeEeccccccccCHHHHHHhHHHhc
Q 038669 93 DQKLVFKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 93 ~~~~p~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
..+.|..|++|+..+.+..+|.+|+.+++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHT
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHh
Confidence 35789999999999999999999997765
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.98 E-value=0.0077 Score=32.05 Aligned_cols=23 Identities=26% Similarity=0.395 Sum_probs=18.6
Q ss_pred eeCcccccccCCchhHhhcccccc
Q 038669 155 HECSICHKSFPTGQALGGHKRCHY 178 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~H~ 178 (244)
|+|..|..... ...|..|++.|.
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 78999999998 889999998864
No 43
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.92 E-value=0.028 Score=29.79 Aligned_cols=22 Identities=32% Similarity=0.579 Sum_probs=18.2
Q ss_pred eEeccccccccCHHHHHHhHHHh
Q 038669 98 FKCSVCDKAFSSYQALGGHKASH 120 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~H 120 (244)
|+|..|+.... ...|..|++.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 79999999998 89999999886
No 44
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.88 E-value=0.007 Score=33.29 Aligned_cols=22 Identities=50% Similarity=0.783 Sum_probs=20.1
Q ss_pred eEeccccccccCHHHHHHhHHH
Q 038669 98 FKCSVCDKAFSSYQALGGHKAS 119 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~ 119 (244)
|-|..|++.|.+...|..|+++
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 7899999999999999999865
No 45
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=94.12 E-value=0.018 Score=48.33 Aligned_cols=20 Identities=25% Similarity=0.527 Sum_probs=14.7
Q ss_pred EeccccccccCHHHHHHhHH
Q 038669 99 KCSVCDKAFSSYQALGGHKA 118 (244)
Q Consensus 99 ~C~~C~k~F~~~~~L~~H~~ 118 (244)
-|=+|++.|....-|.+|++
T Consensus 12 wcwycnrefddekiliqhqk 31 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQK 31 (341)
T ss_pred eeeecccccchhhhhhhhhh
Confidence 37788888888777776654
No 46
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.56 E-value=0.059 Score=48.43 Aligned_cols=59 Identities=15% Similarity=0.159 Sum_probs=50.9
Q ss_pred CCCCCCCCCCCCCCCCCcccccccc--ccCCC--CceeCc--ccccccCCchhHhhcccccccccCCC
Q 038669 123 GSGGGDEHSASTTTNTNATATTTGV--PNATG--RTHECS--ICHKSFPTGQALGGHKRCHYDGGEKS 184 (244)
Q Consensus 123 ~~~c~~c~~~f~~~~~l~~~~~H~r--~h~~e--kp~~C~--~Cgk~F~~~~~L~~H~r~H~~~~~~~ 184 (244)
.+.|..|...|.....+ ..|.+ .|.++ ++|.|. .|++.|.+...+..|..+|++.....
T Consensus 289 ~~~~~~~~~~~s~~~~l---~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (467)
T COG5048 289 PIKSKQCNISFSRSSPL---TRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAK 353 (467)
T ss_pred CCCCccccCCccccccc---cccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccc
Confidence 56778888888888888 88888 79999 999999 79999999999999999998876543
No 47
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.49 E-value=0.038 Score=56.49 Aligned_cols=73 Identities=22% Similarity=0.291 Sum_probs=50.6
Q ss_pred CCCceeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCccccccccc------cCCCCceeCcccccccCC
Q 038669 93 DQKLVFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGVP------NATGRTHECSICHKSFPT 166 (244)
Q Consensus 93 ~~~~p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~------h~~ekp~~C~~Cgk~F~~ 166 (244)
+-.+.|+|..|+..|.....|..|||+-+-.+.-..|... +.|.+. -.+.++|.|..|...|..
T Consensus 461 S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~g----------q~~~~~arg~~~~~~~~p~~C~~C~~sttt 530 (1406)
T KOG1146|consen 461 SFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAG----------QNHPRLARGEVYRCPGKPYPCRACNYSTTT 530 (1406)
T ss_pred cccccccCCccchhhhhHHHhhhcccccccccchhHhHhc----------cccccccccccccCCCCcccceeeeeeeec
Confidence 3457799999999999999999999884411111222100 122221 124589999999999999
Q ss_pred chhHhhccc
Q 038669 167 GQALGGHKR 175 (244)
Q Consensus 167 ~~~L~~H~r 175 (244)
+.+|.+|+.
T Consensus 531 ng~Lsihlq 539 (1406)
T KOG1146|consen 531 NGNLSIHLQ 539 (1406)
T ss_pred chHHHHHHH
Confidence 999999985
No 48
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.14 E-value=0.038 Score=29.90 Aligned_cols=21 Identities=29% Similarity=0.689 Sum_probs=17.4
Q ss_pred eeCcccccccCCchhHhhcccc
Q 038669 155 HECSICHKSFPTGQALGGHKRC 176 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~ 176 (244)
..|..||+.| ....|.+|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4699999999 67889999754
No 49
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=92.08 E-value=0.11 Score=29.94 Aligned_cols=23 Identities=22% Similarity=0.559 Sum_probs=20.6
Q ss_pred eeEeccccccccCHHHHHHhHHH
Q 038669 97 VFKCSVCDKAFSSYQALGGHKAS 119 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~ 119 (244)
+|.|.+|++.|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58999999999999999999854
No 50
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.55 E-value=0.15 Score=27.49 Aligned_cols=21 Identities=24% Similarity=0.645 Sum_probs=17.0
Q ss_pred eEeccccccccCHHHHHHhHHH
Q 038669 98 FKCSVCDKAFSSYQALGGHKAS 119 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~ 119 (244)
..|..||+.| ....|..|+.+
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 56678888764
No 51
>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=90.99 E-value=0.13 Score=29.74 Aligned_cols=23 Identities=17% Similarity=0.502 Sum_probs=20.4
Q ss_pred ceeCcccccccCCchhHhhcccc
Q 038669 154 THECSICHKSFPTGQALGGHKRC 176 (244)
Q Consensus 154 p~~C~~Cgk~F~~~~~L~~H~r~ 176 (244)
+|.|.+|++.|....++..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999999999999753
No 52
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.84 E-value=0.11 Score=50.14 Aligned_cols=32 Identities=25% Similarity=0.389 Sum_probs=23.3
Q ss_pred eEecccccccc---------------CHHHHHHhHHHhcCCCCCCCC
Q 038669 98 FKCSVCDKAFS---------------SYQALGGHKASHRKGSGGGDE 129 (244)
Q Consensus 98 ~~C~~C~k~F~---------------~~~~L~~H~~~H~k~~~c~~c 129 (244)
+.|.+|++.|. +...|+.|++..++-+.|..|
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~~~~c~lC 146 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHKLHLCSLC 146 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhhhhccccc
Confidence 56889988874 678899999655555655555
No 53
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=89.55 E-value=0.32 Score=34.66 Aligned_cols=25 Identities=40% Similarity=0.772 Sum_probs=22.2
Q ss_pred eeEeccccccccCHHHHHHhHHHhc
Q 038669 97 VFKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
.+.|.+|++.|.+...|..|++.+.
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 6999999999999999999999763
No 54
>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=85.85 E-value=0.54 Score=35.02 Aligned_cols=30 Identities=13% Similarity=0.151 Sum_probs=21.0
Q ss_pred CCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCc
Q 038669 124 SGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTG 167 (244)
Q Consensus 124 ~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~ 167 (244)
+.|..|++.|-- | +..|-.|++||..|.-.
T Consensus 10 R~Cp~CG~kFYD---L-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYD---L-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhcc---C-----------CCCCccCCCCCCccCcc
Confidence 356666666633 3 34788899999999776
No 55
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=84.77 E-value=0.29 Score=50.37 Aligned_cols=33 Identities=21% Similarity=0.264 Sum_probs=25.7
Q ss_pred cccccCCCCceeCcccccccCCchhHhhcccccc
Q 038669 145 TGVPNATGRTHECSICHKSFPTGQALGGHKRCHY 178 (244)
Q Consensus 145 H~r~h~~ekp~~C~~Cgk~F~~~~~L~~H~r~H~ 178 (244)
|...+..-+.| |.+|...|.....|..|||+-.
T Consensus 1320 ~~l~~~d~~~~-c~~c~~~~~~~~alqihm~~~~ 1352 (1406)
T KOG1146|consen 1320 PPLRVPDCTYH-CLACEVLLSGREALQIHMRSSA 1352 (1406)
T ss_pred CcccCcccccc-chHHHhhcchhHHHHHHHHHhh
Confidence 33344444667 9999999999999999998643
No 56
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=82.59 E-value=0.35 Score=40.50 Aligned_cols=22 Identities=27% Similarity=0.628 Sum_probs=15.3
Q ss_pred CceeEeccccccccCHHHHHHh
Q 038669 95 KLVFKCSVCDKAFSSYQALGGH 116 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H 116 (244)
++.+.|++|++.|....-..+.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~ 24 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGK 24 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCC
Confidence 3567899999999876544333
No 57
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=82.24 E-value=0.63 Score=40.93 Aligned_cols=25 Identities=28% Similarity=0.725 Sum_probs=21.0
Q ss_pred CCCceeEeccccccccCHHHHHHhH
Q 038669 93 DQKLVFKCSVCDKAFSSYQALGGHK 117 (244)
Q Consensus 93 ~~~~p~~C~~C~k~F~~~~~L~~H~ 117 (244)
...|||+|++|+|.|+..-.|+-|+
T Consensus 394 ~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 394 AKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred ccCCceeccccchhhccCccceecc
Confidence 3569999999999998888888774
No 58
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=80.55 E-value=1.1 Score=29.10 Aligned_cols=29 Identities=17% Similarity=0.369 Sum_probs=24.8
Q ss_pred CCCCCceeEeccccccccCHHHHHHhHHH
Q 038669 91 SSDQKLVFKCSVCDKAFSSYQALGGHKAS 119 (244)
Q Consensus 91 ~~~~~~p~~C~~C~k~F~~~~~L~~H~~~ 119 (244)
+-.||.-++|+.|+..|.....+.+|...
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 34588899999999999999999999753
No 59
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=78.08 E-value=1.1 Score=43.64 Aligned_cols=28 Identities=29% Similarity=0.603 Sum_probs=25.2
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
...-|.|..|+|+|.-...+..||++|.
T Consensus 789 ~~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 789 PTGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CCceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 3466999999999999999999999997
No 60
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=78.04 E-value=0.92 Score=40.62 Aligned_cols=70 Identities=13% Similarity=0.076 Sum_probs=58.3
Q ss_pred ceeEeccccccccCHHHHHHhHH--Hhc-C---CCCCC--CCCCCCCCCCCCccccccccccCCCCceeCcc--cccccC
Q 038669 96 LVFKCSVCDKAFSSYQALGGHKA--SHR-K---GSGGG--DEHSASTTTNTNATATTTGVPNATGRTHECSI--CHKSFP 165 (244)
Q Consensus 96 ~p~~C~~C~k~F~~~~~L~~H~~--~H~-k---~~~c~--~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~--Cgk~F~ 165 (244)
.++.|..|...|.....|..|.+ .|. . ++.|. .|++.|.....+ ..|...|.+.+++.|.. |.+.+.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~ 364 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDAL---KRHILLHTSISPAKEKLLNSSSKFS 364 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccc---cCCcccccCCCccccccccCccccc
Confidence 57999999999999999999999 787 3 67788 799999999988 99999999988888865 445554
Q ss_pred Cch
Q 038669 166 TGQ 168 (244)
Q Consensus 166 ~~~ 168 (244)
...
T Consensus 365 ~~~ 367 (467)
T COG5048 365 PLL 367 (467)
T ss_pred ccc
Confidence 433
No 61
>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=77.59 E-value=1.6 Score=27.99 Aligned_cols=26 Identities=23% Similarity=0.368 Sum_probs=19.5
Q ss_pred ceeCcccccccCCchhHhhcccc-cccc
Q 038669 154 THECSICHKSFPTGQALGGHKRC-HYDG 180 (244)
Q Consensus 154 p~~C~~Cgk~F~~~~~L~~H~r~-H~~~ 180 (244)
-|.|++|++. .+...|..|... |..+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~ 28 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSE 28 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCC
Confidence 4899999995 456789999654 5444
No 62
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=77.38 E-value=1.8 Score=38.65 Aligned_cols=78 Identities=18% Similarity=0.196 Sum_probs=50.6
Q ss_pred eEecc--ccccccCHHHHHHhHHHhcCCCCCCCCC---CCCCCC------CCCccccccccccCCC---Cc-eeCccccc
Q 038669 98 FKCSV--CDKAFSSYQALGGHKASHRKGSGGGDEH---SASTTT------NTNATATTTGVPNATG---RT-HECSICHK 162 (244)
Q Consensus 98 ~~C~~--C~k~F~~~~~L~~H~~~H~k~~~c~~c~---~~f~~~------~~l~~~~~H~r~h~~e---kp-~~C~~Cgk 162 (244)
|.|+. |..+......|+.|..+.+..+-|.+|- +.|... ..| ..|...-..+ |- -.|.+|.+
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~L---r~H~~~G~~e~GFKGHP~C~FC~~ 228 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTL---RDHKNGGLEEEGFKGHPLCIFCKI 228 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccc---cccccCCccccCcCCCchhhhccc
Confidence 77874 7666666788999988776667777773 334332 223 4444332222 21 25999999
Q ss_pred ccCCchhHhhcccccc
Q 038669 163 SFPTGQALGGHKRCHY 178 (244)
Q Consensus 163 ~F~~~~~L~~H~r~H~ 178 (244)
.|-....|.+|+|-.+
T Consensus 229 ~FYdDDEL~~HcR~~H 244 (493)
T COG5236 229 YFYDDDELRRHCRLRH 244 (493)
T ss_pred eecChHHHHHHHHhhh
Confidence 9999999988877433
No 63
>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=76.11 E-value=2.1 Score=32.65 Aligned_cols=21 Identities=24% Similarity=0.347 Sum_probs=15.2
Q ss_pred CCCceeCcccccccCCchhHh
Q 038669 151 TGRTHECSICHKSFPTGQALG 171 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~~~~~L~ 171 (244)
+..|-.|++||..|.....+.
T Consensus 23 nk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 23 NRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred CCCCccCCCcCCccCcchhhc
Confidence 346888999999887664444
No 64
>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=74.55 E-value=3.1 Score=25.27 Aligned_cols=25 Identities=28% Similarity=0.390 Sum_probs=16.6
Q ss_pred CCceeEeccccccccCH----HHHHHhHH
Q 038669 94 QKLVFKCSVCDKAFSSY----QALGGHKA 118 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~----~~L~~H~~ 118 (244)
+..-.+|..|++.+... .+|..|++
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 45668999999998774 78889983
No 65
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=74.53 E-value=2.3 Score=24.42 Aligned_cols=11 Identities=27% Similarity=0.999 Sum_probs=6.5
Q ss_pred eEecccccccc
Q 038669 98 FKCSVCDKAFS 108 (244)
Q Consensus 98 ~~C~~C~k~F~ 108 (244)
|+|.+||..+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 56666665543
No 66
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=73.81 E-value=3.5 Score=29.33 Aligned_cols=34 Identities=12% Similarity=0.078 Sum_probs=24.5
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCch
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQ 168 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~ 168 (244)
..|.|+.|++.- +.|+- -..+.|..||..|+-..
T Consensus 34 ~~~~Cp~C~~~~-----------VkR~a--~GIW~C~kCg~~fAGga 67 (89)
T COG1997 34 AKHVCPFCGRTT-----------VKRIA--TGIWKCRKCGAKFAGGA 67 (89)
T ss_pred cCCcCCCCCCcc-----------eeeec--cCeEEcCCCCCeecccc
Confidence 678999998752 23332 35699999999998654
No 67
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=73.51 E-value=2 Score=34.07 Aligned_cols=19 Identities=37% Similarity=0.648 Sum_probs=13.7
Q ss_pred CceeCcccccccCCchhHh
Q 038669 153 RTHECSICHKSFPTGQALG 171 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L~ 171 (244)
+.|+|..||+.|...-.+.
T Consensus 27 ~~~~c~~c~~~f~~~e~~~ 45 (154)
T PRK00464 27 RRRECLACGKRFTTFERVE 45 (154)
T ss_pred eeeeccccCCcceEeEecc
Confidence 3488999999997754443
No 68
>PF14353 CpXC: CpXC protein
Probab=73.14 E-value=1.4 Score=33.51 Aligned_cols=25 Identities=20% Similarity=0.274 Sum_probs=19.1
Q ss_pred CceeCcccccccCCchhHhhccccc
Q 038669 153 RTHECSICHKSFPTGQALGGHKRCH 177 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L~~H~r~H 177 (244)
--|.|+.||+.|.-...+..|-..|
T Consensus 37 ~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 37 FSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred CEEECCCCCCceecCCCEEEEcCCC
Confidence 3589999999998877777765433
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=71.94 E-value=1.3 Score=28.73 Aligned_cols=29 Identities=14% Similarity=0.159 Sum_probs=24.4
Q ss_pred ccCCCCceeCcccccccCCchhHhhcccc
Q 038669 148 PNATGRTHECSICHKSFPTGQALGGHKRC 176 (244)
Q Consensus 148 ~h~~ekp~~C~~Cgk~F~~~~~L~~H~r~ 176 (244)
...||.-+.|+-||+.|...-.+.+|...
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 44577889999999999999999999743
No 70
>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=70.02 E-value=5.3 Score=34.30 Aligned_cols=83 Identities=19% Similarity=0.258 Sum_probs=50.4
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhc----CCCCCCCCCCCCCCCC------CCccccccccc----cCCCCceeCcc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHR----KGSGGGDEHSASTTTN------TNATATTTGVP----NATGRTHECSI 159 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~----k~~~c~~c~~~f~~~~------~l~~~~~H~r~----h~~ekp~~C~~ 159 (244)
|.+.|+|..|...+-....+ .|+++-. ..|.|..|++.-..+- .- ..|.+. ....+++.|+.
T Consensus 139 GGrif~CsfC~~flCEDDQF-EHQAsCQvLe~E~~KC~SCNrlGq~sCLRCK~cfC---ddHvrrKg~ky~k~k~~PCPK 214 (314)
T PF06524_consen 139 GGRIFKCSFCDNFLCEDDQF-EHQASCQVLESETFKCQSCNRLGQYSCLRCKICFC---DDHVRRKGFKYEKGKPIPCPK 214 (314)
T ss_pred CCeEEEeecCCCeeeccchh-hhhhhhhhhhcccccccccccccchhhhheeeeeh---hhhhhhcccccccCCCCCCCC
Confidence 67899999998655433333 4554432 5666665554322110 00 112221 12348899999
Q ss_pred cccccCCchhHhhcccccccc
Q 038669 160 CHKSFPTGQALGGHKRCHYDG 180 (244)
Q Consensus 160 Cgk~F~~~~~L~~H~r~H~~~ 180 (244)
||.-......|..-.|+|.-+
T Consensus 215 Cg~et~eTkdLSmStR~hkyG 235 (314)
T PF06524_consen 215 CGYETQETKDLSMSTRSHKYG 235 (314)
T ss_pred CCCcccccccceeeeecchhc
Confidence 999998888888888888633
No 71
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=69.09 E-value=3.7 Score=25.81 Aligned_cols=25 Identities=32% Similarity=0.476 Sum_probs=19.6
Q ss_pred ceeEeccccccccCH-----HHHHHhHH-Hh
Q 038669 96 LVFKCSVCDKAFSSY-----QALGGHKA-SH 120 (244)
Q Consensus 96 ~p~~C~~C~k~F~~~-----~~L~~H~~-~H 120 (244)
.--.|..|++.+... ++|.+|++ .|
T Consensus 17 ~~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 17 QRAKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred eEEEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 456899999999765 68888887 45
No 72
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=68.76 E-value=10 Score=28.38 Aligned_cols=78 Identities=14% Similarity=0.167 Sum_probs=51.8
Q ss_pred CceeEeccccccccCHHHHHHhHHHhc----CCC------------CCCCCCCCCCCCCCCccccccccccCCCCceeCc
Q 038669 95 KLVFKCSVCDKAFSSYQALGGHKASHR----KGS------------GGGDEHSASTTTNTNATATTTGVPNATGRTHECS 158 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H~~~H~----k~~------------~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~ 158 (244)
+.|-.|.+||-..-+...|.+. -|+ ++| .|-.|...|...... ..-. -.....|+|.
T Consensus 13 ~LP~~CpiCgLtLVss~HLARS--yHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~---~~~~--~~~~~~y~C~ 85 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARS--YHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVS---PFDE--LKDSHRYVCA 85 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHh--hhccCCCcccccccccccCCCCcccCcCCCCCCcccc---cccc--cccccceeCC
Confidence 4678899999888777777643 233 333 266677777653221 0000 1123469999
Q ss_pred ccccccCCchhHhhccccccc
Q 038669 159 ICHKSFPTGQALGGHKRCHYD 179 (244)
Q Consensus 159 ~Cgk~F~~~~~L~~H~r~H~~ 179 (244)
.|...|--.-+.-.|...|.-
T Consensus 86 ~C~~~FC~dCD~fiHe~Lh~C 106 (112)
T TIGR00622 86 VCKNVFCVDCDVFVHESLHCC 106 (112)
T ss_pred CCCCccccccchhhhhhccCC
Confidence 999999999999999888863
No 73
>PRK04860 hypothetical protein; Provisional
Probab=65.33 E-value=3.1 Score=33.27 Aligned_cols=26 Identities=15% Similarity=0.305 Sum_probs=22.4
Q ss_pred CceeCcccccccCCchhHhhcccccccccC
Q 038669 153 RTHECSICHKSFPTGQALGGHKRCHYDGGE 182 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L~~H~r~H~~~~~ 182 (244)
-+|.|. |++ ....+.+|.++|++++.
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~ 143 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAV 143 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCcc
Confidence 379998 998 77889999999999874
No 74
>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=64.84 E-value=2 Score=33.17 Aligned_cols=27 Identities=33% Similarity=0.369 Sum_probs=17.1
Q ss_pred CceeCcccccccCCchhHhhcccccccccC
Q 038669 153 RTHECSICHKSFPTGQALGGHKRCHYDGGE 182 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L~~H~r~H~~~~~ 182 (244)
.-..|-+|||.|.. |.+|++.|+|-.+
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 44689999999965 5999999987655
No 75
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=64.04 E-value=4.3 Score=23.82 Aligned_cols=14 Identities=43% Similarity=0.816 Sum_probs=10.7
Q ss_pred CCceeCcccccccC
Q 038669 152 GRTHECSICHKSFP 165 (244)
Q Consensus 152 ekp~~C~~Cgk~F~ 165 (244)
.+..+|..|+..|.
T Consensus 23 g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 23 GRKVRCSKCGHVFF 36 (36)
T ss_pred CcEEECCCCCCEeC
Confidence 45678999988873
No 76
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=63.55 E-value=5.3 Score=39.56 Aligned_cols=15 Identities=13% Similarity=0.344 Sum_probs=10.6
Q ss_pred cCCCCceeCcccccc
Q 038669 149 NATGRTHECSICHKS 163 (244)
Q Consensus 149 h~~ekp~~C~~Cgk~ 163 (244)
|....|+.|+.||-.
T Consensus 470 ~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 470 YQEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCCC
Confidence 334578889999854
No 77
>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=63.43 E-value=6.4 Score=21.39 Aligned_cols=10 Identities=30% Similarity=0.693 Sum_probs=7.9
Q ss_pred eCcccccccC
Q 038669 156 ECSICHKSFP 165 (244)
Q Consensus 156 ~C~~Cgk~F~ 165 (244)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5888888884
No 78
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=61.75 E-value=4.2 Score=37.65 Aligned_cols=58 Identities=19% Similarity=0.285 Sum_probs=40.6
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhc-CCCCCCCCCCCCCCCCCCccccccc-cccCCCCceeCccccc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHR-KGSGGGDEHSASTTTNTNATATTTG-VPNATGRTHECSICHK 162 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~-k~~~c~~c~~~f~~~~~l~~~~~H~-r~h~~ekp~~C~~Cgk 162 (244)
|+.-|+|.+|. +..|++.|. ..|.|+.-++.+..-..- ..|. ++|+-.-|--|.+||-
T Consensus 70 gKQGfQCqvC~--------fvvHkrChefVtF~CPGadkg~dtDdpr---~kHkf~~~tYssPTFCDhCGs 129 (683)
T KOG0696|consen 70 GKQGFQCQVCC--------FVVHKRCHEFVTFSCPGADKGPDTDDPR---SKHKFKIHTYSSPTFCDHCGS 129 (683)
T ss_pred ccCceeeeEEe--------ehhhhhhcceEEEECCCCCCCCCCCCcc---cccceeeeecCCCchhhhHHH
Confidence 55669999996 457999998 778888777766554433 4443 4677667777888863
No 79
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=61.64 E-value=4 Score=25.19 Aligned_cols=11 Identities=18% Similarity=0.525 Sum_probs=6.9
Q ss_pred ceeCccccccc
Q 038669 154 THECSICHKSF 164 (244)
Q Consensus 154 p~~C~~Cgk~F 164 (244)
.+.|+.||..+
T Consensus 21 ~~~Cp~CG~~~ 31 (46)
T PRK00398 21 GVRCPYCGYRI 31 (46)
T ss_pred ceECCCCCCeE
Confidence 46777776544
No 80
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=61.40 E-value=4.7 Score=31.56 Aligned_cols=37 Identities=16% Similarity=0.141 Sum_probs=21.5
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccC
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFP 165 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~ 165 (244)
..|.|+.|+..|.....+ .. .+. ..-|.|+.||....
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~---~~---~d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 98 AYYKCPNCQSKYTFLEAN---QL---LDM-DGTFTCPRCGEELE 134 (147)
T ss_pred cEEECcCCCCEeeHHHHH---Hh---cCC-CCcEECCCCCCEEE
Confidence 456788888777653222 11 011 23399999987653
No 81
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=60.74 E-value=2.4 Score=37.82 Aligned_cols=69 Identities=25% Similarity=0.394 Sum_probs=37.3
Q ss_pred CceeEecc--ccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhHhh
Q 038669 95 KLVFKCSV--CDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQALGG 172 (244)
Q Consensus 95 ~~p~~C~~--C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L~~ 172 (244)
.++|+|.+ |.+.+...-.|+.|...-+ |...-.....- .-|..--...|+|.|++|.+.+..-..|.-
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h-------~s~i~~~s~~~---~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~ 416 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGH-------CSPITTPTPAP---IPHQGFVVENKPYRCEVCSKRYKNLNGLKY 416 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCc-------CCCCCCCCCCC---CCcceeeeccCcccChhhhhhhccCCCCCc
Confidence 46678865 8888777666666643211 11000000000 122222224599999999998877655554
Q ss_pred c
Q 038669 173 H 173 (244)
Q Consensus 173 H 173 (244)
|
T Consensus 417 ~ 417 (442)
T KOG4124|consen 417 H 417 (442)
T ss_pred e
Confidence 4
No 82
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=60.14 E-value=1.4 Score=42.94 Aligned_cols=29 Identities=21% Similarity=0.334 Sum_probs=26.0
Q ss_pred CceeCcccccccCCchhHhhccccccccc
Q 038669 153 RTHECSICHKSFPTGQALGGHKRCHYDGG 181 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L~~H~r~H~~~~ 181 (244)
-.|-|..|+|.|-.--.++.||++|....
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~q~ 819 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQQE 819 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 46999999999999999999999998654
No 83
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=60.00 E-value=8.8 Score=27.61 Aligned_cols=34 Identities=12% Similarity=0.118 Sum_probs=23.7
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCch
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQ 168 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~ 168 (244)
..|.|+.|++.-.... +.-.++|..|++.|+-..
T Consensus 34 a~y~CpfCgk~~vkR~-------------a~GIW~C~~C~~~~AGGA 67 (91)
T TIGR00280 34 AKYVCPFCGKKTVKRG-------------STGIWTCRKCGAKFAGGA 67 (91)
T ss_pred cCccCCCCCCCceEEE-------------eeEEEEcCCCCCEEeCCc
Confidence 6789999986432211 224699999999997653
No 84
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=59.98 E-value=4.8 Score=23.70 Aligned_cols=15 Identities=33% Similarity=0.762 Sum_probs=11.3
Q ss_pred CCCceeCcccccccC
Q 038669 151 TGRTHECSICHKSFP 165 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~ 165 (244)
+.+..+|..|+..|.
T Consensus 22 ~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 22 GGRKVRCPKCGHVFR 36 (37)
T ss_pred CCcEEECCCCCcEee
Confidence 345688999988874
No 85
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=59.02 E-value=13 Score=28.45 Aligned_cols=45 Identities=11% Similarity=0.099 Sum_probs=26.6
Q ss_pred HHhHHHhcCCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCC
Q 038669 114 GGHKASHRKGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPT 166 (244)
Q Consensus 114 ~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~ 166 (244)
..+++.+...-.|+.|+.... ..+-..-.+...|+|..|++.|..
T Consensus 21 ~~~~~~~~~~~~cP~C~s~~~--------~k~g~~~~~~qRyrC~~C~~tf~~ 65 (129)
T COG3677 21 AYAIRMQITKVNCPRCKSSNV--------VKIGGIRRGHQRYKCKSCGSTFTV 65 (129)
T ss_pred HHHHhhhcccCcCCCCCccce--------eeECCccccccccccCCcCcceee
Confidence 345555555556777765441 111112223567999999999974
No 86
>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=58.78 E-value=6.7 Score=30.30 Aligned_cols=25 Identities=28% Similarity=0.494 Sum_probs=16.6
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
.+.--.|-+|||.|.. |++|++.|.
T Consensus 69 ~~d~i~clecGk~~k~---LkrHL~~~~ 93 (132)
T PF05443_consen 69 TPDYIICLECGKKFKT---LKRHLRTHH 93 (132)
T ss_dssp -SS-EE-TBT--EESB---HHHHHHHTT
T ss_pred ccCeeEEccCCcccch---HHHHHHHcc
Confidence 3455789999999976 689999994
No 87
>PHA00626 hypothetical protein
Probab=58.51 E-value=7.8 Score=25.20 Aligned_cols=14 Identities=14% Similarity=0.199 Sum_probs=11.7
Q ss_pred CceeCcccccccCC
Q 038669 153 RTHECSICHKSFPT 166 (244)
Q Consensus 153 kp~~C~~Cgk~F~~ 166 (244)
..|+|..||..|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 56999999998865
No 88
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=58.09 E-value=5.3 Score=29.68 Aligned_cols=16 Identities=19% Similarity=0.231 Sum_probs=13.0
Q ss_pred CCCceeCcccccccCC
Q 038669 151 TGRTHECSICHKSFPT 166 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~~ 166 (244)
...|..|++||++|..
T Consensus 23 NrdPiVsPytG~s~P~ 38 (129)
T COG4530 23 NRDPIVSPYTGKSYPR 38 (129)
T ss_pred CCCccccCcccccchH
Confidence 3478999999999954
No 89
>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=57.92 E-value=3.9 Score=24.81 Aligned_cols=12 Identities=25% Similarity=0.999 Sum_probs=7.1
Q ss_pred eEeccccccccC
Q 038669 98 FKCSVCDKAFSS 109 (244)
Q Consensus 98 ~~C~~C~k~F~~ 109 (244)
|+|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (42)
T PF09723_consen 6 YRCEECGHEFEV 17 (42)
T ss_pred EEeCCCCCEEEE
Confidence 666666666543
No 90
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=57.39 E-value=10 Score=27.27 Aligned_cols=34 Identities=15% Similarity=0.126 Sum_probs=23.4
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCch
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQ 168 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~ 168 (244)
..|.|+.|++.-.... +.-.+.|..|++.|+-..
T Consensus 35 a~y~CpfCgk~~vkR~-------------a~GIW~C~~C~~~~AGGA 68 (90)
T PRK03976 35 AKHVCPVCGRPKVKRV-------------GTGIWECRKCGAKFAGGA 68 (90)
T ss_pred cCccCCCCCCCceEEE-------------EEEEEEcCCCCCEEeCCc
Confidence 6789999975432211 224699999999997643
No 91
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=57.16 E-value=5.2 Score=30.86 Aligned_cols=26 Identities=27% Similarity=0.277 Sum_probs=22.2
Q ss_pred eeCcccccccCCchhHhhcccccccccCC
Q 038669 155 HECSICHKSFPTGQALGGHKRCHYDGGEK 183 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~H~~~~~~ 183 (244)
..|-+|||.|. .|++|+++|++-.+.
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTPd 102 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTPD 102 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCHH
Confidence 47999999995 699999999987764
No 92
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=57.03 E-value=8.2 Score=31.35 Aligned_cols=31 Identities=13% Similarity=0.011 Sum_probs=18.2
Q ss_pred CCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccC
Q 038669 123 GSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFP 165 (244)
Q Consensus 123 ~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~ 165 (244)
-|.|+.|+..|..-..+ +--|.|+.||....
T Consensus 117 ~Y~Cp~C~~rytf~eA~------------~~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAM------------EYGFRCPQCGEMLE 147 (178)
T ss_pred EEECCCCCcEEeHHHHh------------hcCCcCCCCCCCCe
Confidence 45677776666554333 12477888876543
No 93
>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=56.85 E-value=8.5 Score=30.58 Aligned_cols=31 Identities=10% Similarity=-0.060 Sum_probs=17.2
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCccccccc
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSF 164 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F 164 (244)
.-|.|+.|+..|..-..+ +--|.|+.||...
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~------------~~~F~Cp~Cg~~L 138 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAM------------ELNFTCPRCGAML 138 (158)
T ss_pred CeEECCCCCcEeeHHHHH------------HcCCcCCCCCCEe
Confidence 345666666665553333 1247777777554
No 94
>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=56.35 E-value=5.4 Score=23.08 Aligned_cols=10 Identities=30% Similarity=0.889 Sum_probs=6.4
Q ss_pred CceeCccccc
Q 038669 153 RTHECSICHK 162 (244)
Q Consensus 153 kp~~C~~Cgk 162 (244)
.|..|++||.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4566777764
No 95
>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=56.19 E-value=6 Score=21.43 Aligned_cols=20 Identities=15% Similarity=0.586 Sum_probs=15.5
Q ss_pred eeCcccccccCCchhHhhccc
Q 038669 155 HECSICHKSFPTGQALGGHKR 175 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r 175 (244)
..|++|++.+ ....++.|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999998 5577788865
No 96
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=55.73 E-value=4.1 Score=34.80 Aligned_cols=37 Identities=19% Similarity=0.247 Sum_probs=22.9
Q ss_pred eEeccccccccCHHHHHHhHHHhc-CCCCCCCCCCCCCC
Q 038669 98 FKCSVCDKAFSSYQALGGHKASHR-KGSGGGDEHSASTT 135 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~H~-k~~~c~~c~~~f~~ 135 (244)
|.|.+||....-. .|..|+..-+ .-|.|-.|++.|..
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn~~fSCIDC~k~F~~ 41 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRNAYFSCIDCGKTFER 41 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccCCeeEEeeccccccc
Confidence 7899999776543 4566765443 44555555555554
No 97
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=55.61 E-value=6.7 Score=28.15 Aligned_cols=34 Identities=12% Similarity=0.049 Sum_probs=23.7
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCch
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQ 168 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~ 168 (244)
..|.|+.|++.-.... +.-.+.|..|++.|+-..
T Consensus 35 a~y~CpfCgk~~vkR~-------------a~GIW~C~~C~~~~AGGA 68 (90)
T PTZ00255 35 AKYFCPFCGKHAVKRQ-------------AVGIWRCKGCKKTVAGGA 68 (90)
T ss_pred CCccCCCCCCCceeee-------------eeEEEEcCCCCCEEeCCc
Confidence 6789999986432211 235799999999997653
No 98
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=52.89 E-value=5.2 Score=25.17 Aligned_cols=13 Identities=23% Similarity=0.943 Sum_probs=8.5
Q ss_pred eeEeccccccccC
Q 038669 97 VFKCSVCDKAFSS 109 (244)
Q Consensus 97 p~~C~~C~k~F~~ 109 (244)
-|+|..||..|..
T Consensus 5 ey~C~~Cg~~fe~ 17 (52)
T TIGR02605 5 EYRCTACGHRFEV 17 (52)
T ss_pred EEEeCCCCCEeEE
Confidence 3677777776653
No 99
>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=49.98 E-value=5.5 Score=22.11 Aligned_cols=21 Identities=33% Similarity=0.846 Sum_probs=13.7
Q ss_pred eeCcccccccCCchhHhhcccc
Q 038669 155 HECSICHKSFPTGQALGGHKRC 176 (244)
Q Consensus 155 ~~C~~Cgk~F~~~~~L~~H~r~ 176 (244)
|.|-.|++.| .......|...
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~C 21 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTSC 21 (28)
T ss_dssp EEETTTTEEE-EGGGTTT----
T ss_pred CeeecCCCCc-CcCCcCCCCcc
Confidence 5788999999 66677777654
No 100
>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=49.68 E-value=7.6 Score=28.59 Aligned_cols=81 Identities=12% Similarity=0.073 Sum_probs=46.5
Q ss_pred CceeEeccccccccCHHHHHHhHHH-hcCC--C----------CCC--CC-CCCCCCCCCCccccccccccCCCCceeC-
Q 038669 95 KLVFKCSVCDKAFSSYQALGGHKAS-HRKG--S----------GGG--DE-HSASTTTNTNATATTTGVPNATGRTHEC- 157 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H~~~-H~k~--~----------~c~--~c-~~~f~~~~~l~~~~~H~r~h~~ekp~~C- 157 (244)
-+-..|..|+..... ..+..|++. |... . ... .. ...+............+.++. =|.|
T Consensus 9 ~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~---G~~C~ 84 (109)
T PF12013_consen 9 YRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYD---GYRCQ 84 (109)
T ss_pred CCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCC---Ceeee
Confidence 355789999988766 778899884 3311 0 000 00 000000000000012223332 2899
Q ss_pred ---cccccccCCchhHhhccccccc
Q 038669 158 ---SICHKSFPTGQALGGHKRCHYD 179 (244)
Q Consensus 158 ---~~Cgk~F~~~~~L~~H~r~H~~ 179 (244)
..|+..+.+...+..|.+.++|
T Consensus 85 ~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 85 CDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred cCCCCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999987764
No 101
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=49.18 E-value=6.5 Score=33.62 Aligned_cols=49 Identities=12% Similarity=0.127 Sum_probs=35.3
Q ss_pred CCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhHhhcccccc
Q 038669 124 SGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQALGGHKRCHY 178 (244)
Q Consensus 124 ~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L~~H~r~H~ 178 (244)
|.|..|+..-.-.. + .+|+....+ .-|.|-.|++.|-+ -.+..|..+-+
T Consensus 4 FtCnvCgEsvKKp~-v---ekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 4 FTCNVCGESVKKPQ-V---EKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred Eehhhhhhhccccc-h---HHHHHhccC-CeeEEeeccccccc-chhhhhhhhcc
Confidence 56888876654432 3 567765555 67999999999988 67778877654
No 102
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=48.21 E-value=8.5 Score=29.59 Aligned_cols=15 Identities=33% Similarity=0.972 Sum_probs=12.4
Q ss_pred ceeCcccccccCCch
Q 038669 154 THECSICHKSFPTGQ 168 (244)
Q Consensus 154 p~~C~~Cgk~F~~~~ 168 (244)
||+|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 688888999998765
No 103
>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=47.86 E-value=7.7 Score=22.66 Aligned_cols=12 Identities=17% Similarity=0.515 Sum_probs=8.9
Q ss_pred ceeCcccccccC
Q 038669 154 THECSICHKSFP 165 (244)
Q Consensus 154 p~~C~~Cgk~F~ 165 (244)
...|+.|+..|.
T Consensus 25 ~v~C~~C~~~~~ 36 (38)
T TIGR02098 25 KVRCGKCGHVWY 36 (38)
T ss_pred EEECCCCCCEEE
Confidence 477888887764
No 104
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=47.30 E-value=8.2 Score=29.21 Aligned_cols=26 Identities=27% Similarity=0.459 Sum_probs=22.7
Q ss_pred CCCceeCcccccccCCchhHhhcccc
Q 038669 151 TGRTHECSICHKSFPTGQALGGHKRC 176 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~~~~~L~~H~r~ 176 (244)
|.-.|-|-.|.+-|....+|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 44569999999999999999999864
No 105
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=47.12 E-value=15 Score=23.74 Aligned_cols=11 Identities=18% Similarity=0.461 Sum_probs=8.0
Q ss_pred ceeCccccccc
Q 038669 154 THECSICHKSF 164 (244)
Q Consensus 154 p~~C~~Cgk~F 164 (244)
...|+.||..|
T Consensus 22 iV~Cp~CGael 32 (54)
T TIGR01206 22 LVICDECGAEL 32 (54)
T ss_pred EEeCCCCCCEE
Confidence 46788888665
No 106
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=46.12 E-value=5.8 Score=35.86 Aligned_cols=79 Identities=20% Similarity=0.310 Sum_probs=45.7
Q ss_pred eeEeccccccccCHHHHHHhHHH--hc---CC--CCCC-CCCCCCCCCCCCccccccccccCCCCceeCcccccccCCch
Q 038669 97 VFKCSVCDKAFSSYQALGGHKAS--HR---KG--SGGG-DEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQ 168 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~--H~---k~--~~c~-~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~ 168 (244)
-|.|.-|...|.....-+.|+.+ |. |. +.-+ +-...|...........-...-.++-++.|.+|.|.|....
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 38999999999998777888764 54 21 1111 11111111100000000000122456799999999999999
Q ss_pred hHhhccc
Q 038669 169 ALGGHKR 175 (244)
Q Consensus 169 ~L~~H~r 175 (244)
+...|+.
T Consensus 83 a~~~hl~ 89 (390)
T KOG2785|consen 83 AHENHLK 89 (390)
T ss_pred hHHHHHH
Confidence 9998864
No 107
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=45.76 E-value=12 Score=23.08 Aligned_cols=9 Identities=22% Similarity=0.556 Sum_probs=5.1
Q ss_pred ceeCccccc
Q 038669 154 THECSICHK 162 (244)
Q Consensus 154 p~~C~~Cgk 162 (244)
+..|+.||.
T Consensus 19 ~irC~~CG~ 27 (44)
T smart00659 19 VVRCRECGY 27 (44)
T ss_pred ceECCCCCc
Confidence 455666653
No 108
>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=44.60 E-value=24 Score=18.84 Aligned_cols=10 Identities=20% Similarity=0.447 Sum_probs=8.2
Q ss_pred CceeCccccc
Q 038669 153 RTHECSICHK 162 (244)
Q Consensus 153 kp~~C~~Cgk 162 (244)
-.|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 5799999984
No 109
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=44.41 E-value=13 Score=29.97 Aligned_cols=23 Identities=13% Similarity=-0.000 Sum_probs=17.1
Q ss_pred CCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccc
Q 038669 123 GSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICH 161 (244)
Q Consensus 123 ~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cg 161 (244)
.+.|..||..+ .|+-|-+|++||
T Consensus 134 ~~vC~vCGy~~----------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH----------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc----------------cCCCCCcCCCCC
Confidence 36788887543 356788999998
No 110
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=44.10 E-value=13 Score=25.58 Aligned_cols=20 Identities=30% Similarity=0.644 Sum_probs=14.9
Q ss_pred CCCceeCc--ccccccCCchhH
Q 038669 151 TGRTHECS--ICHKSFPTGQAL 170 (244)
Q Consensus 151 ~ekp~~C~--~Cgk~F~~~~~L 170 (244)
.++-++|. .||..|.....+
T Consensus 24 ~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 24 KERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred heeeeecCCCCCCCEEEEEEEE
Confidence 45678998 899999875443
No 111
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=42.84 E-value=20 Score=32.19 Aligned_cols=24 Identities=25% Similarity=0.569 Sum_probs=21.7
Q ss_pred eeEeccccccccCHHHHHHhHHHh
Q 038669 97 VFKCSVCDKAFSSYQALGGHKASH 120 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~H 120 (244)
.++|-.|.|.|..+..|+.||+..
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhc
Confidence 488999999999999999999753
No 112
>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=42.40 E-value=13 Score=24.78 Aligned_cols=13 Identities=31% Similarity=0.723 Sum_probs=4.6
Q ss_pred CceeCcccccccC
Q 038669 153 RTHECSICHKSFP 165 (244)
Q Consensus 153 kp~~C~~Cgk~F~ 165 (244)
+.|.|..||..|-
T Consensus 24 rrhhCr~CG~~vC 36 (69)
T PF01363_consen 24 RRHHCRNCGRVVC 36 (69)
T ss_dssp -EEE-TTT--EEE
T ss_pred eeEccCCCCCEEC
Confidence 3455555555553
No 113
>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=42.22 E-value=29 Score=29.13 Aligned_cols=28 Identities=18% Similarity=0.444 Sum_probs=21.2
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
.+..|.|..|+|.|.-..-...|+..-+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcC
Confidence 5667999999999999999999986533
No 114
>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=42.05 E-value=12 Score=22.01 Aligned_cols=15 Identities=27% Similarity=0.512 Sum_probs=11.6
Q ss_pred ceeCcccccccCCch
Q 038669 154 THECSICHKSFPTGQ 168 (244)
Q Consensus 154 p~~C~~Cgk~F~~~~ 168 (244)
-|+|..||+.|....
T Consensus 5 ~y~C~~Cg~~fe~~~ 19 (41)
T smart00834 5 EYRCEDCGHTFEVLQ 19 (41)
T ss_pred EEEcCCCCCEEEEEE
Confidence 389999999886543
No 115
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=40.92 E-value=18 Score=28.50 Aligned_cols=15 Identities=40% Similarity=0.687 Sum_probs=11.0
Q ss_pred CceeCcccccccCCc
Q 038669 153 RTHECSICHKSFPTG 167 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~ 167 (244)
+.-.|..||+.|++.
T Consensus 27 RRReC~~C~~RFTTf 41 (156)
T COG1327 27 RRRECLECGERFTTF 41 (156)
T ss_pred hhhcccccccccchh
Confidence 446788888888764
No 116
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=40.59 E-value=23 Score=27.79 Aligned_cols=18 Identities=39% Similarity=0.707 Sum_probs=13.4
Q ss_pred CceeCcccccccCCchhH
Q 038669 153 RTHECSICHKSFPTGQAL 170 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L 170 (244)
+.-+|..||+.|++.-..
T Consensus 27 RRReC~~C~~RFTTyErv 44 (147)
T TIGR00244 27 RRRECLECHERFTTFERA 44 (147)
T ss_pred ecccCCccCCccceeeec
Confidence 456899999999876443
No 117
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=40.43 E-value=5.9 Score=32.17 Aligned_cols=29 Identities=21% Similarity=0.287 Sum_probs=15.3
Q ss_pred eeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCC
Q 038669 97 VFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSA 132 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~ 132 (244)
-|.|+.|+..|....++. ..|.|+.|+..
T Consensus 117 ~Y~Cp~C~~rytf~eA~~-------~~F~Cp~Cg~~ 145 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAME-------YGFRCPQCGEM 145 (178)
T ss_pred EEECCCCCcEEeHHHHhh-------cCCcCCCCCCC
Confidence 355666665555554442 24556655544
No 118
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=40.07 E-value=12 Score=23.76 Aligned_cols=13 Identities=23% Similarity=0.841 Sum_probs=9.4
Q ss_pred CceeEeccccccc
Q 038669 95 KLVFKCSVCDKAF 107 (244)
Q Consensus 95 ~~p~~C~~C~k~F 107 (244)
...|+|..||+.|
T Consensus 4 ~~~Y~C~~Cg~~~ 16 (49)
T COG1996 4 MMEYKCARCGREV 16 (49)
T ss_pred eEEEEhhhcCCee
Confidence 3457888888777
No 119
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=40.05 E-value=8.3 Score=27.69 Aligned_cols=33 Identities=18% Similarity=0.174 Sum_probs=21.6
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCc
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTG 167 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~ 167 (244)
..|.|+.|++.-.. |... -.++|..|++.|+-.
T Consensus 34 ~ky~Cp~Cgk~~vk-----------R~a~--GIW~C~~C~~~~AGG 66 (90)
T PF01780_consen 34 AKYTCPFCGKTSVK-----------RVAT--GIWKCKKCGKKFAGG 66 (90)
T ss_dssp S-BEESSSSSSEEE-----------EEET--TEEEETTTTEEEE-B
T ss_pred CCCcCCCCCCceeE-----------Eeee--EEeecCCCCCEEeCC
Confidence 68889999875311 2222 359999999999754
No 120
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.91 E-value=14 Score=36.08 Aligned_cols=69 Identities=14% Similarity=0.086 Sum_probs=41.4
Q ss_pred eEeccccccccCHHHHHHhHHHhcCCCCCCCCC------CCCCCCCCCccccccccccCCCCceeCc--ccc-cccCCch
Q 038669 98 FKCSVCDKAFSSYQALGGHKASHRKGSGGGDEH------SASTTTNTNATATTTGVPNATGRTHECS--ICH-KSFPTGQ 168 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~------~~f~~~~~l~~~~~H~r~h~~ekp~~C~--~Cg-k~F~~~~ 168 (244)
-.|..|...|-....|..|++.+. |.|..|. ..|..-..| ..|-| +..|.|. .|- +.|....
T Consensus 183 p~C~~C~~~fld~~el~rH~~~~h--~~chfC~~~~~~neyy~~~~dL---e~HfR----~~HflCE~~~C~~~~f~~~~ 253 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLRFDH--EFCHFCDYKTGQNEYYNDYDDL---EEHFR----KGHFLCEEEFCRTKKFYVAF 253 (669)
T ss_pred ccchhhhhhhccHHHHHHhhccce--eheeecCcccccchhcccchHH---HHHhh----hcCccccccccccceeeehh
Confidence 469999999999999999998764 3444443 223333334 44444 4557887 564 3444443
Q ss_pred hHhhccc
Q 038669 169 ALGGHKR 175 (244)
Q Consensus 169 ~L~~H~r 175 (244)
.+..|++
T Consensus 254 ~~ei~lk 260 (669)
T KOG2231|consen 254 ELEIELK 260 (669)
T ss_pred HHHHHHH
Confidence 4444444
No 121
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=39.79 E-value=14 Score=35.41 Aligned_cols=28 Identities=18% Similarity=0.348 Sum_probs=24.5
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~ 121 (244)
...+.+|..||..|........||-.|-
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 4567899999999999999999988886
No 122
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=39.07 E-value=16 Score=26.77 Aligned_cols=14 Identities=36% Similarity=0.990 Sum_probs=8.7
Q ss_pred ceeCcccccccCCc
Q 038669 154 THECSICHKSFPTG 167 (244)
Q Consensus 154 p~~C~~Cgk~F~~~ 167 (244)
||.|..||..|...
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 45666666666654
No 123
>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=38.46 E-value=22 Score=22.47 Aligned_cols=12 Identities=33% Similarity=0.822 Sum_probs=6.0
Q ss_pred ceeCcccccccC
Q 038669 154 THECSICHKSFP 165 (244)
Q Consensus 154 p~~C~~Cgk~F~ 165 (244)
.|.|..||+.|-
T Consensus 18 k~~Cr~Cg~~~C 29 (57)
T cd00065 18 RHHCRNCGRIFC 29 (57)
T ss_pred ccccCcCcCCcC
Confidence 344555555544
No 124
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=38.44 E-value=14 Score=35.35 Aligned_cols=30 Identities=20% Similarity=0.354 Sum_probs=25.1
Q ss_pred CCceeCcccccccCCchhHhhccccccccc
Q 038669 152 GRTHECSICHKSFPTGQALGGHKRCHYDGG 181 (244)
Q Consensus 152 ekp~~C~~Cgk~F~~~~~L~~H~r~H~~~~ 181 (244)
.+|.+|..||.+|........||..|-...
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~dwh 445 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDDWH 445 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhhhh
Confidence 467899999999999988888888776553
No 125
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=38.28 E-value=16 Score=21.74 Aligned_cols=14 Identities=21% Similarity=0.475 Sum_probs=12.3
Q ss_pred ceeCcccccccCCc
Q 038669 154 THECSICHKSFPTG 167 (244)
Q Consensus 154 p~~C~~Cgk~F~~~ 167 (244)
||+|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 89999999999664
No 126
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.05 E-value=5.1 Score=33.20 Aligned_cols=80 Identities=20% Similarity=0.258 Sum_probs=52.5
Q ss_pred CceeEecc--ccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCcccccccc-c---------cCCCCceeCc--cc
Q 038669 95 KLVFKCSV--CDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGV-P---------NATGRTHECS--IC 160 (244)
Q Consensus 95 ~~p~~C~~--C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r-~---------h~~ekp~~C~--~C 160 (244)
...|-|.+ |-..|........|...- -...|..|.+.|.....| ..|+. . -.|.-.|+|- .|
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~-h~~sCs~C~r~~Pt~hLL---d~HI~E~HDs~Fqa~veRG~dMy~ClvEgC 152 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTL-HGNSCSFCKRAFPTGHLL---DAHILEWHDSLFQALVERGQDMYQCLVEGC 152 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhc-ccchhHHHHHhCCchhhh---hHHHHHHHHHHHHHHHHcCccHHHHHHHhh
Confidence 34577775 667777666666664322 123577888888776666 44442 2 2345569994 59
Q ss_pred ccccCCchhHhhcc-cccc
Q 038669 161 HKSFPTGQALGGHK-RCHY 178 (244)
Q Consensus 161 gk~F~~~~~L~~H~-r~H~ 178 (244)
+-.|.+..+-..|+ ++|.
T Consensus 153 t~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 153 TEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred hhhhhhhhhhhhHHHHhcc
Confidence 99999998888885 6664
No 127
>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=37.05 E-value=32 Score=25.20 Aligned_cols=26 Identities=15% Similarity=0.291 Sum_probs=22.7
Q ss_pred ceeEe----ccccccccCHHHHHHhHHHhc
Q 038669 96 LVFKC----SVCDKAFSSYQALGGHKASHR 121 (244)
Q Consensus 96 ~p~~C----~~C~k~F~~~~~L~~H~~~H~ 121 (244)
.-|.| ..|++.+.+...+..|.+.+.
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 44999 999999999999999988764
No 128
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=36.98 E-value=37 Score=30.08 Aligned_cols=26 Identities=19% Similarity=0.498 Sum_probs=21.5
Q ss_pred CCCceeCcc---cccccCCchhHhhcccc
Q 038669 151 TGRTHECSI---CHKSFPTGQALGGHKRC 176 (244)
Q Consensus 151 ~ekp~~C~~---Cgk~F~~~~~L~~H~r~ 176 (244)
-+-.|.|.. |-++|.+.-+|..|+.-
T Consensus 141 ~g~iFmC~~~~GC~RTyLsqrDlqAHInh 169 (389)
T KOG2932|consen 141 MGGIFMCAAPHGCLRTYLSQRDLQAHINH 169 (389)
T ss_pred ccceEEeecchhHHHHHhhHHHHHHHhhh
Confidence 356799965 99999999999999753
No 129
>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=36.59 E-value=24 Score=21.54 Aligned_cols=14 Identities=21% Similarity=0.695 Sum_probs=11.0
Q ss_pred eCcccccccCCchh
Q 038669 156 ECSICHKSFPTGQA 169 (244)
Q Consensus 156 ~C~~Cgk~F~~~~~ 169 (244)
.|.+||+.|...-.
T Consensus 10 ~C~~C~rpf~WRKK 23 (42)
T PF10013_consen 10 ICPVCGRPFTWRKK 23 (42)
T ss_pred cCcccCCcchHHHH
Confidence 59999999986543
No 130
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=36.50 E-value=24 Score=26.72 Aligned_cols=27 Identities=26% Similarity=0.356 Sum_probs=24.1
Q ss_pred CCCceeEeccccccccCHHHHHHhHHH
Q 038669 93 DQKLVFKCSVCDKAFSSYQALGGHKAS 119 (244)
Q Consensus 93 ~~~~p~~C~~C~k~F~~~~~L~~H~~~ 119 (244)
.|-..|-|-.|.+-|....+|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 367789999999999999999999875
No 131
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=36.26 E-value=17 Score=21.19 Aligned_cols=10 Identities=0% Similarity=-0.217 Sum_probs=2.4
Q ss_pred CCCCCCCCCC
Q 038669 126 GGDEHSASTT 135 (244)
Q Consensus 126 c~~c~~~f~~ 135 (244)
|..|++.|..
T Consensus 6 C~eC~~~f~d 15 (34)
T PF01286_consen 6 CDECGKPFMD 15 (34)
T ss_dssp -TTT--EES-
T ss_pred HhHhCCHHHH
Confidence 3334444433
No 132
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=36.14 E-value=12 Score=31.22 Aligned_cols=25 Identities=28% Similarity=0.620 Sum_probs=19.3
Q ss_pred CCceeCcccccccCCchhHhhcccc
Q 038669 152 GRTHECSICHKSFPTGQALGGHKRC 176 (244)
Q Consensus 152 ekp~~C~~Cgk~F~~~~~L~~H~r~ 176 (244)
+|.+.|++|++.|...--+.+..|.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceE
Confidence 4668999999999988766666553
No 133
>COG1773 Rubredoxin [Energy production and conversion]
Probab=36.06 E-value=18 Score=23.51 Aligned_cols=13 Identities=31% Similarity=0.948 Sum_probs=10.8
Q ss_pred eeEeccccccccC
Q 038669 97 VFKCSVCDKAFSS 109 (244)
Q Consensus 97 p~~C~~C~k~F~~ 109 (244)
.|+|.+||..|.-
T Consensus 3 ~~~C~~CG~vYd~ 15 (55)
T COG1773 3 RWRCSVCGYVYDP 15 (55)
T ss_pred ceEecCCceEecc
Confidence 5899999998854
No 134
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=35.30 E-value=35 Score=22.48 Aligned_cols=11 Identities=27% Similarity=0.661 Sum_probs=7.8
Q ss_pred CCceeCccccc
Q 038669 152 GRTHECSICHK 162 (244)
Q Consensus 152 ekp~~C~~Cgk 162 (244)
..+|.|+.||.
T Consensus 48 g~~Y~Cp~CGF 58 (61)
T COG2888 48 GNPYRCPKCGF 58 (61)
T ss_pred CCceECCCcCc
Confidence 35788888874
No 135
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=35.30 E-value=27 Score=21.62 Aligned_cols=16 Identities=25% Similarity=0.414 Sum_probs=12.0
Q ss_pred ceeCcccccccCCchh
Q 038669 154 THECSICHKSFPTGQA 169 (244)
Q Consensus 154 p~~C~~Cgk~F~~~~~ 169 (244)
.|.|+.||..+.....
T Consensus 20 ~~vC~~Cg~~~~~~~~ 35 (52)
T smart00661 20 RFVCRKCGYEEPIEQK 35 (52)
T ss_pred EEECCcCCCeEECCCc
Confidence 6899999987765443
No 136
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=34.98 E-value=12 Score=34.00 Aligned_cols=72 Identities=19% Similarity=0.215 Sum_probs=46.6
Q ss_pred CceeEeccccccccCHHHHHHhHHHhcCCCCCCCCCCCCCCCCCCccccccccccCC---CCceeCcccc---cccCCch
Q 038669 95 KLVFKCSVCDKAFSSYQALGGHKASHRKGSGGGDEHSASTTTNTNATATTTGVPNAT---GRTHECSICH---KSFPTGQ 168 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~~L~~H~~~H~k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~---ekp~~C~~Cg---k~F~~~~ 168 (244)
..|-.|-.|++.|.+-..-..||..|++.|.-..- +... ..-...-.| .+-|.|-.|. +.|.+-.
T Consensus 164 ~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdre-YL~D--------~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sle 234 (390)
T KOG2785|consen 164 LIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDRE-YLTD--------EKGLLKYLGEKVGIGFICLFCNELGRPFSSLE 234 (390)
T ss_pred cCCcceeecCCCcccHHHHHHHHhhccCCcCCchH-hhhc--------hhHHHHHHHHHhccCceEEEeccccCcccccH
Confidence 34577999999999998888999888865532210 0000 000000111 2347888888 9999999
Q ss_pred hHhhccc
Q 038669 169 ALGGHKR 175 (244)
Q Consensus 169 ~L~~H~r 175 (244)
+...||+
T Consensus 235 avr~HM~ 241 (390)
T KOG2785|consen 235 AVRAHMR 241 (390)
T ss_pred HHHHHHh
Confidence 9999984
No 137
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=33.33 E-value=37 Score=30.06 Aligned_cols=28 Identities=18% Similarity=0.362 Sum_probs=23.7
Q ss_pred CceeCcccccccCCchhHhhcccccccc
Q 038669 153 RTHECSICHKSFPTGQALGGHKRCHYDG 180 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L~~H~r~H~~~ 180 (244)
-.|.|+.|...|-...+.-.|...|..-
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~ 414 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLHFCI 414 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHhhCC
Confidence 4699999999999999998998877543
No 138
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=33.26 E-value=29 Score=24.94 Aligned_cols=14 Identities=0% Similarity=-0.273 Sum_probs=8.7
Q ss_pred CCCCCCCCCCCCCC
Q 038669 122 KGSGGGDEHSASTT 135 (244)
Q Consensus 122 k~~~c~~c~~~f~~ 135 (244)
.|-.|..||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 45567777766654
No 139
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=33.21 E-value=9.8 Score=32.33 Aligned_cols=28 Identities=32% Similarity=0.548 Sum_probs=22.2
Q ss_pred CCceeEeccccccccCHHHHHHh-HHHhc
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGH-KASHR 121 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H-~~~H~ 121 (244)
..+-|+|.+|.|.+.+--.|..| |.+|.
T Consensus 31 kakhfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 31 KAKHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred hhccceeeeehhhhccCCCceeehhhhhh
Confidence 45779999999998888888887 56664
No 140
>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=32.92 E-value=12 Score=31.27 Aligned_cols=30 Identities=17% Similarity=0.258 Sum_probs=21.8
Q ss_pred CCCceeCcccccccCCchhHhhcccccccc
Q 038669 151 TGRTHECSICHKSFPTGQALGGHKRCHYDG 180 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~~~~~L~~H~r~H~~~ 180 (244)
.+..|.|..|+|.|.-..-..+|+..-+.+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 445699999999999999999998654444
No 141
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=31.87 E-value=40 Score=20.27 Aligned_cols=24 Identities=25% Similarity=0.405 Sum_probs=17.9
Q ss_pred eEeccccccccC--HHHHHHhHHHhc
Q 038669 98 FKCSVCDKAFSS--YQALGGHKASHR 121 (244)
Q Consensus 98 ~~C~~C~k~F~~--~~~L~~H~~~H~ 121 (244)
-+|..||..|.. ...-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 589999988854 456667877774
No 142
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=31.60 E-value=49 Score=19.41 Aligned_cols=18 Identities=17% Similarity=0.418 Sum_probs=13.4
Q ss_pred cccccccCCCCceeCccc
Q 038669 143 TTTGVPNATGRTHECSIC 160 (244)
Q Consensus 143 ~~H~r~h~~ekp~~C~~C 160 (244)
.+|-+...|...|.|..|
T Consensus 18 ~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 18 KKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCCEeEecCcC
Confidence 556666667778999888
No 143
>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=31.51 E-value=18 Score=21.87 Aligned_cols=15 Identities=33% Similarity=0.565 Sum_probs=10.2
Q ss_pred CceeCcccccccCCc
Q 038669 153 RTHECSICHKSFPTG 167 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~ 167 (244)
-||.|..|++.|=..
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 489999999999765
No 144
>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=31.27 E-value=22 Score=25.87 Aligned_cols=20 Identities=15% Similarity=0.315 Sum_probs=15.1
Q ss_pred ccccCCCCceeCcccccccCC
Q 038669 146 GVPNATGRTHECSICHKSFPT 166 (244)
Q Consensus 146 ~r~h~~ekp~~C~~Cgk~F~~ 166 (244)
+..+.| +++.|..||..|.-
T Consensus 72 ~~l~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 72 MWLEKG-KPKRCPECGHVFKL 91 (97)
T ss_pred EEEeCC-CceeCCCCCcEEEE
Confidence 344555 79999999988853
No 145
>PF15269 zf-C2H2_7: Zinc-finger
Probab=30.74 E-value=40 Score=20.88 Aligned_cols=25 Identities=20% Similarity=0.305 Sum_probs=19.8
Q ss_pred ceeEeccccccccCHHHHHHhHHHh
Q 038669 96 LVFKCSVCDKAFSSYQALGGHKASH 120 (244)
Q Consensus 96 ~p~~C~~C~k~F~~~~~L~~H~~~H 120 (244)
-.|+|-.|......++.|-.||.-.
T Consensus 19 ~~ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 19 FKYKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred ccceeecCCcccchHHHHHHHHHHH
Confidence 3488999998888888888888654
No 146
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=30.30 E-value=20 Score=33.04 Aligned_cols=36 Identities=11% Similarity=0.125 Sum_probs=22.4
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccc
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKS 163 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~ 163 (244)
..|.|+.|.+.|.....+ +......-.|.|..|+--
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~------~L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEAL------QLLDNETGEFHCENCGGE 162 (436)
T ss_pred ccccCCccccchhhhHHH------HhhcccCceEEEecCCCc
Confidence 578899998888764432 111222345889888743
No 147
>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 KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=29.77 E-value=29 Score=32.21 Aligned_cols=27 Identities=19% Similarity=0.337 Sum_probs=21.6
Q ss_pred ccCCCCceeCcccc-cccCCchhHhhcc
Q 038669 148 PNATGRTHECSICH-KSFPTGQALGGHK 174 (244)
Q Consensus 148 ~h~~ekp~~C~~Cg-k~F~~~~~L~~H~ 174 (244)
.|.-.+-|.|.+|| +++.-..++.+|-
T Consensus 395 LHGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 395 LHGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred hcCCCcccceeeccCccccCcHHHHHHh
Confidence 34446779999999 8888888888884
No 149
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=29.29 E-value=14 Score=33.36 Aligned_cols=18 Identities=11% Similarity=0.157 Sum_probs=9.1
Q ss_pred ceeEeccccccccCHHHH
Q 038669 96 LVFKCSVCDKAFSSYQAL 113 (244)
Q Consensus 96 ~p~~C~~C~k~F~~~~~L 113 (244)
+-+.|..|.+.+......
T Consensus 251 kav~C~~C~yt~~~~~~~ 268 (344)
T PF09332_consen 251 KAVTCKQCKYTAFKPSDR 268 (344)
T ss_dssp EEEEETTT--EESS--HH
T ss_pred EEEEcCCCCCcccCcchh
Confidence 347788888776555443
No 150
>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=29.09 E-value=21 Score=20.42 Aligned_cols=10 Identities=20% Similarity=0.600 Sum_probs=5.9
Q ss_pred ceeCcccccc
Q 038669 154 THECSICHKS 163 (244)
Q Consensus 154 p~~C~~Cgk~ 163 (244)
+-.|..||..
T Consensus 17 ~irC~~CG~R 26 (32)
T PF03604_consen 17 PIRCPECGHR 26 (32)
T ss_dssp TSSBSSSS-S
T ss_pred cEECCcCCCe
Confidence 4567777743
No 151
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=28.54 E-value=26 Score=22.15 Aligned_cols=16 Identities=25% Similarity=0.478 Sum_probs=13.1
Q ss_pred CCceeCcccccccCCc
Q 038669 152 GRTHECSICHKSFPTG 167 (244)
Q Consensus 152 ekp~~C~~Cgk~F~~~ 167 (244)
++.+.|..||..|...
T Consensus 2 Dk~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFT 17 (49)
T ss_pred CeeEEcccCCCeEEEe
Confidence 4678999999998754
No 152
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=28.32 E-value=28 Score=32.14 Aligned_cols=16 Identities=31% Similarity=0.789 Sum_probs=8.2
Q ss_pred eeEeccccccccCHHH
Q 038669 97 VFKCSVCDKAFSSYQA 112 (244)
Q Consensus 97 p~~C~~C~k~F~~~~~ 112 (244)
-|.|..|.+.|....+
T Consensus 128 ~Y~Cp~C~kkyt~Lea 143 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEA 143 (436)
T ss_pred cccCCccccchhhhHH
Confidence 3555555555544443
No 153
>PLN02294 cytochrome c oxidase subunit Vb
Probab=27.82 E-value=31 Score=27.83 Aligned_cols=16 Identities=31% Similarity=0.926 Sum_probs=13.1
Q ss_pred CCceeCcccccccCCc
Q 038669 152 GRTHECSICHKSFPTG 167 (244)
Q Consensus 152 ekp~~C~~Cgk~F~~~ 167 (244)
++|+.|..||..|.-.
T Consensus 139 Gkp~RCpeCG~~fkL~ 154 (174)
T PLN02294 139 GKSFECPVCTQYFELE 154 (174)
T ss_pred CCceeCCCCCCEEEEE
Confidence 4799999999988643
No 154
>PHA02998 RNA polymerase subunit; Provisional
Probab=27.11 E-value=49 Score=26.90 Aligned_cols=31 Identities=32% Similarity=0.351 Sum_probs=19.7
Q ss_pred ccCCCCCCCC-CCCChHHHHHHHHHHHhcCCC
Q 038669 30 TKRKRSKRPH-NPPTEEEYLALCLVMLARGTT 60 (244)
Q Consensus 30 ~k~krskr~r-~~~s~ee~~a~cl~~ls~~~~ 60 (244)
+|.|-|=|-+ .-++.+||-.+|.|.-+..+.
T Consensus 69 ~knklsyrnkp~i~tn~~y~~lc~~ir~tng~ 100 (195)
T PHA02998 69 AKNKLSYRNKPSIETNLEYKDLCDMIRGTNGT 100 (195)
T ss_pred ccccccccCCcCCcccccHHHHHHHHHhcCCc
Confidence 3445554432 555889999999887664443
No 155
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=26.96 E-value=51 Score=28.26 Aligned_cols=61 Identities=15% Similarity=0.230 Sum_probs=34.1
Q ss_pred CCceeEeccccccccCHHHHHHhHHHhc--CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCchhH
Q 038669 94 QKLVFKCSVCDKAFSSYQALGGHKASHR--KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQAL 170 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~~~~~L~~H~~~H~--k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~~L 170 (244)
..+.|.|..|...+= +++-. ..-.|..|.+.|.--..- .. -|---|.|..|++.|.....+
T Consensus 109 ~drqFaC~~Cd~~Ww--------Rrvp~rKeVSRCr~C~~rYDPVP~d------km--wG~aef~C~~C~h~F~G~~qm 171 (278)
T PF15135_consen 109 VDRQFACSSCDHMWW--------RRVPQRKEVSRCRKCRKRYDPVPCD------KM--WGIAEFHCPKCRHNFRGFAQM 171 (278)
T ss_pred cceeeeccccchHHH--------hccCcccccccccccccccCCCccc------cc--cceeeeecccccccchhhhhc
Confidence 457899999975531 12211 334677777665432110 00 022348899999888765444
No 156
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.81 E-value=49 Score=21.88 Aligned_cols=16 Identities=25% Similarity=0.613 Sum_probs=12.0
Q ss_pred CCCceeCcccccccCC
Q 038669 151 TGRTHECSICHKSFPT 166 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~~ 166 (244)
..+.|.|+.||..+..
T Consensus 43 ~~r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 43 SGRVFTCPNCGFEMDR 58 (69)
T ss_pred ccceEEcCCCCCEECc
Confidence 3567999999887654
No 157
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=26.53 E-value=58 Score=32.18 Aligned_cols=21 Identities=24% Similarity=0.567 Sum_probs=14.7
Q ss_pred CceeCcccccccCCchhHhhc
Q 038669 153 RTHECSICHKSFPTGQALGGH 173 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L~~H 173 (244)
|.-+|+.|+.+|.....+..|
T Consensus 677 RqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred hcCCCCCCCCCCCcccccccC
Confidence 445788888888777666555
No 158
>PRK14873 primosome assembly protein PriA; Provisional
Probab=25.98 E-value=31 Score=33.97 Aligned_cols=11 Identities=18% Similarity=0.573 Sum_probs=8.4
Q ss_pred CceeCcccccc
Q 038669 153 RTHECSICHKS 163 (244)
Q Consensus 153 kp~~C~~Cgk~ 163 (244)
.|+.|+.||..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 46789999864
No 159
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=25.83 E-value=46 Score=30.79 Aligned_cols=30 Identities=7% Similarity=0.001 Sum_probs=20.9
Q ss_pred CCCCCCCCCCCCCCCccccccccccCCCCceeCcccccccCCch
Q 038669 125 GGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKSFPTGQ 168 (244)
Q Consensus 125 ~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~F~~~~ 168 (244)
.|+.|+....+. |..-|+|..||+.+....
T Consensus 352 ~Cp~Cg~~m~S~--------------G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRMKSA--------------GRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCchhhc--------------CCCCcccccccccCCccc
Confidence 688887665442 223699999998887654
No 160
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=25.58 E-value=22 Score=26.30 Aligned_cols=25 Identities=36% Similarity=0.493 Sum_probs=21.6
Q ss_pred CCCceeCcccccccCCchhHhhccc
Q 038669 151 TGRTHECSICHKSFPTGQALGGHKR 175 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~~~~~L~~H~r 175 (244)
|.-.|-|-.|.+-|.+..+|..|++
T Consensus 52 GlGqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 52 GLGQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred CCceeeeehhHHHHHHHHHHHHHhc
Confidence 3456889999999999999999975
No 161
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=25.38 E-value=41 Score=20.98 Aligned_cols=14 Identities=21% Similarity=0.788 Sum_probs=10.5
Q ss_pred eeEeccccccccCH
Q 038669 97 VFKCSVCDKAFSSY 110 (244)
Q Consensus 97 p~~C~~C~k~F~~~ 110 (244)
.|+|.+|+..|...
T Consensus 1 ky~C~~CgyvYd~~ 14 (47)
T PF00301_consen 1 KYQCPVCGYVYDPE 14 (47)
T ss_dssp EEEETTTSBEEETT
T ss_pred CcCCCCCCEEEcCC
Confidence 37899999887553
No 162
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=25.37 E-value=31 Score=27.27 Aligned_cols=14 Identities=14% Similarity=0.807 Sum_probs=9.9
Q ss_pred CCceeEecccccccc
Q 038669 94 QKLVFKCSVCDKAFS 108 (244)
Q Consensus 94 ~~~p~~C~~C~k~F~ 108 (244)
...+|.|. |+..|-
T Consensus 114 ~~~~Y~C~-C~q~~l 127 (156)
T COG3091 114 TTYPYRCQ-CQQHYL 127 (156)
T ss_pred cceeEEee-cCCccc
Confidence 45678888 887753
No 163
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=25.28 E-value=31 Score=20.79 Aligned_cols=12 Identities=17% Similarity=0.598 Sum_probs=10.4
Q ss_pred CceeCccccccc
Q 038669 153 RTHECSICHKSF 164 (244)
Q Consensus 153 kp~~C~~Cgk~F 164 (244)
++-.|++||..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 578999999887
No 164
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=24.95 E-value=48 Score=31.01 Aligned_cols=22 Identities=41% Similarity=0.789 Sum_probs=19.7
Q ss_pred eEeccccccccCHHHHHHhHHH
Q 038669 98 FKCSVCDKAFSSYQALGGHKAS 119 (244)
Q Consensus 98 ~~C~~C~k~F~~~~~L~~H~~~ 119 (244)
+-|-+|+|.|.+..+|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999988754
No 165
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=24.86 E-value=41 Score=20.08 Aligned_cols=12 Identities=17% Similarity=0.495 Sum_probs=9.8
Q ss_pred ceeCcccccccC
Q 038669 154 THECSICHKSFP 165 (244)
Q Consensus 154 p~~C~~Cgk~F~ 165 (244)
-|.|..|+..|.
T Consensus 28 fy~C~~C~~~w~ 39 (40)
T smart00440 28 FYVCTKCGHRWR 39 (40)
T ss_pred EEEeCCCCCEeC
Confidence 489999998774
No 166
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=24.25 E-value=33 Score=30.76 Aligned_cols=31 Identities=29% Similarity=0.423 Sum_probs=25.1
Q ss_pred ceeCcccccccCCchhHhhccc--ccccccCCC
Q 038669 154 THECSICHKSFPTGQALGGHKR--CHYDGGEKS 184 (244)
Q Consensus 154 p~~C~~Cgk~F~~~~~L~~H~r--~H~~~~~~~ 184 (244)
.+.|-.|.|.|..+..|..||| .|..-.+..
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinPkn 227 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKN 227 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCCCc
Confidence 4789999999999999999986 465555543
No 167
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=24.19 E-value=44 Score=19.86 Aligned_cols=17 Identities=24% Similarity=0.509 Sum_probs=10.7
Q ss_pred ccCCCCceeCccccccc
Q 038669 148 PNATGRTHECSICHKSF 164 (244)
Q Consensus 148 ~h~~ekp~~C~~Cgk~F 164 (244)
...+.+.+.|.+|+..-
T Consensus 18 ~~~~~~~w~C~~C~~~N 34 (40)
T PF04810_consen 18 FDDGGKTWICNFCGTKN 34 (40)
T ss_dssp EETTTTEEEETTT--EE
T ss_pred EcCCCCEEECcCCCCcC
Confidence 34456789999998643
No 168
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=24.17 E-value=62 Score=16.83 Aligned_cols=7 Identities=29% Similarity=0.937 Sum_probs=4.7
Q ss_pred Ccccccc
Q 038669 157 CSICHKS 163 (244)
Q Consensus 157 C~~Cgk~ 163 (244)
|+.||..
T Consensus 16 C~~CG~~ 22 (23)
T PF13240_consen 16 CPNCGTP 22 (23)
T ss_pred hhhhCCc
Confidence 7777754
No 169
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=23.97 E-value=34 Score=21.84 Aligned_cols=27 Identities=19% Similarity=0.248 Sum_probs=16.7
Q ss_pred CceeCcccccccCCchhHhhccccccc
Q 038669 153 RTHECSICHKSFPTGQALGGHKRCHYD 179 (244)
Q Consensus 153 kp~~C~~Cgk~F~~~~~L~~H~r~H~~ 179 (244)
..|+|+.|...|--.-++-.|...|.-
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH~C 46 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLHNC 46 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-SS
T ss_pred CeEECCCCCCccccCcChhhhccccCC
Confidence 569999999999888888888877753
No 170
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=23.56 E-value=57 Score=21.07 Aligned_cols=12 Identities=17% Similarity=0.534 Sum_probs=7.2
Q ss_pred eeCcccccccCC
Q 038669 155 HECSICHKSFPT 166 (244)
Q Consensus 155 ~~C~~Cgk~F~~ 166 (244)
-.|+.||..+.+
T Consensus 22 VvCp~CgapyHR 33 (54)
T PF14446_consen 22 VVCPECGAPYHR 33 (54)
T ss_pred EECCCCCCcccH
Confidence 467777665544
No 171
>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=23.31 E-value=42 Score=25.10 Aligned_cols=19 Identities=16% Similarity=0.329 Sum_probs=13.5
Q ss_pred ChHHHHHHHHHHHhcCCCC
Q 038669 43 TEEEYLALCLVMLARGTTS 61 (244)
Q Consensus 43 s~ee~~a~cl~~ls~~~~~ 61 (244)
=+.+.|..|+-.++.+...
T Consensus 39 V~p~~L~faf~~~~~~t~~ 57 (115)
T TIGR00100 39 VNPSQLQFAFEVVREGTVA 57 (115)
T ss_pred cCHHHHHHHHHHHhCCCcc
Confidence 3567788888888776654
No 172
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=23.08 E-value=40 Score=25.12 Aligned_cols=21 Identities=19% Similarity=0.336 Sum_probs=15.2
Q ss_pred CChHHHHHHHHHHHhcCCCCC
Q 038669 42 PTEEEYLALCLVMLARGTTST 62 (244)
Q Consensus 42 ~s~ee~~a~cl~~ls~~~~~~ 62 (244)
.=+.|.|..|+-.++.+....
T Consensus 38 ~v~pe~L~f~f~~~~~~T~~e 58 (113)
T PRK12380 38 CVEESAVRFSFEIVCHGTVAQ 58 (113)
T ss_pred ccCHHHHHHHHHHHhCCCccC
Confidence 346778888988888776543
No 173
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=22.78 E-value=17 Score=35.72 Aligned_cols=54 Identities=15% Similarity=0.148 Sum_probs=29.0
Q ss_pred eccccccccCHHHHHHhHHHhc--CCC-CCCCCCCCCCCCCCCccccccccccCCCCceeCcccccc
Q 038669 100 CSVCDKAFSSYQALGGHKASHR--KGS-GGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHKS 163 (244)
Q Consensus 100 C~~C~k~F~~~~~L~~H~~~H~--k~~-~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk~ 163 (244)
|..||=.|+--..|--- |-+| ..| -|+.|.+.+....+ .|-|. .|..|+.||-.
T Consensus 126 CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~n-------RRfHA--Qp~aCp~CGP~ 182 (750)
T COG0068 126 CTNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLN-------RRFHA--QPIACPKCGPH 182 (750)
T ss_pred cCCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCccc-------ccccc--ccccCcccCCC
Confidence 77788777654443222 1122 333 47777665544332 22232 57789999853
No 174
>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=22.74 E-value=28 Score=28.74 Aligned_cols=23 Identities=30% Similarity=0.600 Sum_probs=0.0
Q ss_pred CCceeCccccc-ccCCchhHhhcc
Q 038669 152 GRTHECSICHK-SFPTGQALGGHK 174 (244)
Q Consensus 152 ekp~~C~~Cgk-~F~~~~~L~~H~ 174 (244)
.+-|.|.+||- +|.-..++.+|-
T Consensus 99 ~~ey~CEICGN~~Y~GrkaFekHF 122 (196)
T PF11931_consen 99 GVEYKCEICGNQSYKGRKAFEKHF 122 (196)
T ss_dssp ------------------------
T ss_pred CCeeeeEeCCCcceecHHHHHHhc
Confidence 46799999983 444566667763
No 175
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=22.41 E-value=33 Score=26.47 Aligned_cols=47 Identities=23% Similarity=0.409 Sum_probs=28.7
Q ss_pred CCChHHHHHHHHHHHhcCCCCCccccCCCCCCcCcCCCCCCCCCCCCCCCCCCCCceeEeccccccccCH
Q 038669 41 PPTEEEYLALCLVMLARGTTSTAALTNCNTTTTASQRQKSPAPSTAATTSSSDQKLVFKCSVCDKAFSSY 110 (244)
Q Consensus 41 ~~s~ee~~a~cl~~ls~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~C~~C~k~F~~~ 110 (244)
..-+.+.+..|+-.++.+..-..+ . -.-......+.|..||+.|...
T Consensus 37 s~V~pe~L~fafe~l~~gt~~ega-----------~------------L~i~~~p~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 37 QDVDKEIVEFALNELLKGTILEGA-----------E------------IIFEEEEAVLKCRNCGNEWSLK 83 (135)
T ss_pred hhhhHHHHHHHHHHHHcCCcccCC-----------E------------EEEEecceEEECCCCCCEEecc
Confidence 334677788888888876544310 0 0001123569999999988654
No 176
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.36 E-value=78 Score=20.03 Aligned_cols=17 Identities=24% Similarity=0.647 Sum_probs=12.4
Q ss_pred CceeEeccccccccCHH
Q 038669 95 KLVFKCSVCDKAFSSYQ 111 (244)
Q Consensus 95 ~~p~~C~~C~k~F~~~~ 111 (244)
.--++|..||..|...-
T Consensus 26 ~v~W~C~~Cgh~w~~~v 42 (55)
T PF14311_consen 26 KVWWKCPKCGHEWKASV 42 (55)
T ss_pred EEEEECCCCCCeeEccH
Confidence 34489999998886543
No 177
>PRK04023 DNA polymerase II large subunit; Validated
Probab=21.66 E-value=58 Score=33.54 Aligned_cols=11 Identities=36% Similarity=0.585 Sum_probs=8.3
Q ss_pred ceeEecccccc
Q 038669 96 LVFKCSVCDKA 106 (244)
Q Consensus 96 ~p~~C~~C~k~ 106 (244)
....|..||..
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 44678889877
No 178
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=21.07 E-value=50 Score=29.83 Aligned_cols=27 Identities=19% Similarity=0.321 Sum_probs=20.4
Q ss_pred ccCCCCceeCcccc-cccCCchhHhhcc
Q 038669 148 PNATGRTHECSICH-KSFPTGQALGGHK 174 (244)
Q Consensus 148 ~h~~ekp~~C~~Cg-k~F~~~~~L~~H~ 174 (244)
.|.-++-|.|.+|| +++.-...+.+|-
T Consensus 368 lhgLd~ef~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 368 LHGLDIEFECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred hcCCCcceeeeecccccccchHHHHhhh
Confidence 45556779999999 7777777777773
No 179
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=20.74 E-value=51 Score=30.68 Aligned_cols=24 Identities=17% Similarity=0.596 Sum_probs=19.5
Q ss_pred CceeEecccc-ccccCHHHHHHhHH
Q 038669 95 KLVFKCSVCD-KAFSSYQALGGHKA 118 (244)
Q Consensus 95 ~~p~~C~~C~-k~F~~~~~L~~H~~ 118 (244)
..-|.|.+|| +++.-..++.+|-.
T Consensus 399 ~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 399 DIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred CcccceeeccCccccCcHHHHHHhH
Confidence 4559999999 88888888888853
No 180
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=20.68 E-value=38 Score=21.44 Aligned_cols=12 Identities=17% Similarity=0.982 Sum_probs=8.5
Q ss_pred eEeccccccccC
Q 038669 98 FKCSVCDKAFSS 109 (244)
Q Consensus 98 ~~C~~C~k~F~~ 109 (244)
|+|.+||..|..
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 677888877653
No 181
>PRK14873 primosome assembly protein PriA; Provisional
Probab=20.59 E-value=63 Score=31.87 Aligned_cols=15 Identities=27% Similarity=0.702 Sum_probs=9.6
Q ss_pred cCCCCceeCcccccc
Q 038669 149 NATGRTHECSICHKS 163 (244)
Q Consensus 149 h~~ekp~~C~~Cgk~ 163 (244)
|...+...|..||..
T Consensus 405 h~~~~~l~Ch~CG~~ 419 (665)
T PRK14873 405 PSAGGTPRCRWCGRA 419 (665)
T ss_pred ecCCCeeECCCCcCC
Confidence 334456778888764
No 182
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=20.55 E-value=2.1e+02 Score=17.28 Aligned_cols=29 Identities=21% Similarity=0.181 Sum_probs=17.5
Q ss_pred CCCCCCCCCCCCCCCCCCccccccccccCCCCceeCccccc
Q 038669 122 KGSGGGDEHSASTTTNTNATATTTGVPNATGRTHECSICHK 162 (244)
Q Consensus 122 k~~~c~~c~~~f~~~~~l~~~~~H~r~h~~ekp~~C~~Cgk 162 (244)
..+.|+.|+.. ....+ .+...|+|..|++
T Consensus 17 ~g~~CP~Cg~~--~~~~~----------~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 17 DGFVCPHCGST--KHYRL----------KTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCCCe--eeEEe----------CCCCeEECCCCCC
Confidence 44678888764 11111 1246799999976
No 183
>PRK12496 hypothetical protein; Provisional
Probab=20.53 E-value=57 Score=26.05 Aligned_cols=8 Identities=38% Similarity=1.016 Sum_probs=4.7
Q ss_pred eCcccccc
Q 038669 156 ECSICHKS 163 (244)
Q Consensus 156 ~C~~Cgk~ 163 (244)
.|++||..
T Consensus 145 ~C~~CG~~ 152 (164)
T PRK12496 145 VCEICGSP 152 (164)
T ss_pred cCCCCCCh
Confidence 36777643
No 184
>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=20.41 E-value=37 Score=21.48 Aligned_cols=12 Identities=17% Similarity=0.703 Sum_probs=6.6
Q ss_pred eCcccccccCCc
Q 038669 156 ECSICHKSFPTG 167 (244)
Q Consensus 156 ~C~~Cgk~F~~~ 167 (244)
.|+.|++.|...
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 899999999753
No 185
>PF11787 Aft1_HRR: Aft1 HRR domain; InterPro: IPR021756 This domain is found in the transcription factor Aft1 which is required for a wide range of stress responses. The HRR domain is involved in meiotic recombination. It has been shown to be necessary and sufficient to repress recombination [].
Probab=20.02 E-value=77 Score=22.01 Aligned_cols=14 Identities=43% Similarity=0.406 Sum_probs=12.3
Q ss_pred HHHHHHHHHHhcCC
Q 038669 46 EYLALCLVMLARGT 59 (244)
Q Consensus 46 e~~a~cl~~ls~~~ 59 (244)
-|.|+.|.||+.++
T Consensus 63 ~dAANgLfmLAqg~ 76 (76)
T PF11787_consen 63 NDAANGLFMLAQGR 76 (76)
T ss_pred HHHHHHHHHHhcCC
Confidence 79999999999763
No 186
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.01 E-value=77 Score=25.18 Aligned_cols=19 Identities=21% Similarity=0.450 Sum_probs=15.6
Q ss_pred CCCceeCcccccccCCchh
Q 038669 151 TGRTHECSICHKSFPTGQA 169 (244)
Q Consensus 151 ~ekp~~C~~Cgk~F~~~~~ 169 (244)
-+.|.-|..||+.|++...
T Consensus 65 ~~~PsYC~~CGkpyPWt~~ 83 (158)
T PF10083_consen 65 YEAPSYCHNCGKPYPWTEN 83 (158)
T ss_pred CCCChhHHhCCCCCchHHH
Confidence 3589999999999998543
Done!