Query 044109
Match_columns 236
No_of_seqs 358 out of 1615
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 11:32:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044109.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044109hhsearch_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 99.7 9.1E-18 2E-22 142.8 4.2 92 86-188 159-255 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.6 6.7E-17 1.4E-21 137.6 1.8 124 85-218 127-256 (279)
3 KOG3623 Homeobox transcription 99.3 1.4E-12 3.1E-17 123.0 2.1 78 83-169 889-971 (1007)
4 KOG3576 Ovo and related transc 99.2 1E-12 2.2E-17 107.6 0.2 81 82-171 111-197 (267)
5 KOG3576 Ovo and related transc 99.2 2.6E-12 5.7E-17 105.2 0.1 86 81-175 138-239 (267)
6 KOG3623 Homeobox transcription 99.1 1.6E-11 3.5E-16 116.0 0.3 109 88-203 210-336 (1007)
7 KOG1074 Transcriptional repres 99.1 7.5E-11 1.6E-15 113.0 3.9 81 87-174 604-694 (958)
8 PHA02768 hypothetical protein; 98.7 5.7E-09 1.2E-13 68.6 2.0 35 88-126 5-39 (55)
9 KOG1074 Transcriptional repres 98.7 1.2E-08 2.6E-13 98.2 4.1 76 89-196 880-955 (958)
10 PHA00733 hypothetical protein 98.7 8.7E-09 1.9E-13 80.2 2.5 78 85-171 37-122 (128)
11 PLN03086 PRLI-interacting fact 98.4 1.7E-07 3.6E-12 88.7 4.1 91 85-189 450-554 (567)
12 KOG3608 Zn finger proteins [Ge 98.4 8.9E-08 1.9E-12 84.6 0.9 83 82-172 286-377 (467)
13 PHA00616 hypothetical protein 98.3 1.3E-07 2.8E-12 59.4 0.5 33 88-120 1-33 (44)
14 KOG3608 Zn finger proteins [Ge 98.2 2.2E-07 4.7E-12 82.2 0.3 88 82-171 201-315 (467)
15 PF13465 zf-H2C2_2: Zinc-finge 98.2 3.6E-07 7.8E-12 51.2 1.1 22 103-126 1-22 (26)
16 PHA02768 hypothetical protein; 97.9 2.2E-06 4.7E-11 56.5 0.2 24 149-172 6-29 (55)
17 PLN03086 PRLI-interacting fact 97.9 7.3E-06 1.6E-10 77.8 2.5 80 87-171 477-564 (567)
18 PHA00733 hypothetical protein 97.8 8.2E-06 1.8E-10 63.5 1.9 50 83-143 68-119 (128)
19 PF00096 zf-C2H2: Zinc finger, 97.7 1.3E-05 2.8E-10 43.2 0.9 23 89-111 1-23 (23)
20 PHA00732 hypothetical protein 97.7 2.5E-05 5.5E-10 55.6 2.3 34 88-126 1-35 (79)
21 PF00096 zf-C2H2: Zinc finger, 97.7 1.3E-05 2.8E-10 43.2 0.4 23 149-171 1-23 (23)
22 KOG3993 Transcription factor ( 97.6 1E-05 2.3E-10 73.1 -1.0 24 148-171 356-379 (500)
23 COG5189 SFP1 Putative transcri 97.6 4.1E-05 8.9E-10 67.1 2.3 71 85-169 346-419 (423)
24 PF13465 zf-H2C2_2: Zinc-finge 97.5 2.6E-05 5.6E-10 43.6 0.5 19 82-100 8-26 (26)
25 PF13912 zf-C2H2_6: C2H2-type 97.4 6.2E-05 1.3E-09 42.1 1.3 26 88-113 1-26 (27)
26 PHA00616 hypothetical protein 97.4 7E-05 1.5E-09 47.0 1.2 28 148-175 1-28 (44)
27 PHA00732 hypothetical protein 97.3 0.00013 2.9E-09 51.9 1.8 43 116-170 1-46 (79)
28 PF13894 zf-C2H2_4: C2H2-type 97.1 0.00019 4.2E-09 38.4 1.0 23 89-111 1-23 (24)
29 PF12756 zf-C2H2_2: C2H2 type 97.0 0.00026 5.7E-09 51.5 1.4 70 90-171 1-73 (100)
30 PF13894 zf-C2H2_4: C2H2-type 97.0 0.00027 5.8E-09 37.8 0.7 23 149-171 1-23 (24)
31 PF13912 zf-C2H2_6: C2H2-type 96.9 0.00038 8.2E-09 38.9 0.9 25 148-172 1-25 (27)
32 smart00355 ZnF_C2H2 zinc finge 96.7 0.0012 2.7E-08 35.6 2.0 24 149-172 1-24 (26)
33 smart00355 ZnF_C2H2 zinc finge 96.7 0.00082 1.8E-08 36.3 1.1 25 89-113 1-25 (26)
34 PF05605 zf-Di19: Drought indu 96.4 0.00097 2.1E-08 43.8 0.5 32 88-120 2-35 (54)
35 PRK04860 hypothetical protein; 96.4 0.002 4.3E-08 52.0 2.0 34 87-126 118-151 (160)
36 PF09237 GAGA: GAGA factor; I 96.0 0.0052 1.1E-07 39.7 2.3 35 82-116 18-52 (54)
37 PF12874 zf-met: Zinc-finger o 95.7 0.004 8.6E-08 33.9 0.7 23 89-111 1-23 (25)
38 PF09237 GAGA: GAGA factor; I 95.5 0.0079 1.7E-07 38.8 1.6 30 142-171 18-47 (54)
39 KOG3993 Transcription factor ( 94.9 0.0056 1.2E-07 55.9 -0.7 49 117-174 268-321 (500)
40 PF12171 zf-C2H2_jaz: Zinc-fin 94.9 0.011 2.4E-07 33.0 0.7 22 89-110 2-23 (27)
41 PF05605 zf-Di19: Drought indu 94.5 0.013 2.8E-07 38.4 0.6 45 116-171 2-52 (54)
42 PF13909 zf-H2C2_5: C2H2-type 94.2 0.014 2.9E-07 31.5 0.1 24 149-173 1-24 (24)
43 PF12874 zf-met: Zinc-finger o 94.2 0.016 3.4E-07 31.5 0.3 23 149-171 1-23 (25)
44 PF13913 zf-C2HC_2: zinc-finge 93.5 0.036 7.8E-07 30.5 0.9 21 89-110 3-23 (25)
45 PF13909 zf-H2C2_5: C2H2-type 93.4 0.032 7E-07 30.0 0.6 23 89-112 1-23 (24)
46 PF12171 zf-C2H2_jaz: Zinc-fin 93.1 0.04 8.7E-07 30.6 0.7 22 149-170 2-23 (27)
47 PF13913 zf-C2HC_2: zinc-finge 92.7 0.095 2.1E-06 28.8 1.8 21 149-170 3-23 (25)
48 smart00451 ZnF_U1 U1-like zinc 91.0 0.13 2.7E-06 30.1 1.2 23 88-110 3-25 (35)
49 COG5048 FOG: Zn-finger [Genera 89.8 0.23 5E-06 44.5 2.5 67 87-160 288-365 (467)
50 PF12756 zf-C2H2_2: C2H2 type 88.3 0.25 5.4E-06 35.5 1.3 24 88-111 50-73 (100)
51 smart00451 ZnF_U1 U1-like zinc 88.0 0.34 7.4E-06 28.2 1.5 23 148-170 3-25 (35)
52 COG5048 FOG: Zn-finger [Genera 87.9 0.85 1.8E-05 40.8 4.8 45 82-126 313-361 (467)
53 KOG1146 Homeobox protein [Gene 85.3 0.63 1.4E-05 48.4 2.7 77 82-170 459-540 (1406)
54 COG5189 SFP1 Putative transcri 85.0 0.4 8.7E-06 42.6 1.0 25 84-108 394-418 (423)
55 PF09986 DUF2225: Uncharacteri 83.0 0.62 1.3E-05 39.3 1.3 25 86-110 3-27 (214)
56 PRK04860 hypothetical protein; 79.2 1.1 2.3E-05 36.2 1.4 37 147-187 118-154 (160)
57 COG2888 Predicted Zn-ribbon RN 74.7 1.3 2.8E-05 29.6 0.6 9 147-155 49-57 (61)
58 KOG2893 Zn finger protein [Gen 73.7 1.6 3.5E-05 37.4 1.1 39 87-138 10-48 (341)
59 COG4049 Uncharacterized protei 73.6 1.6 3.4E-05 28.8 0.8 30 82-111 11-40 (65)
60 PF02892 zf-BED: BED zinc fing 72.9 2.4 5.2E-05 26.1 1.5 24 85-108 13-40 (45)
61 smart00614 ZnF_BED BED zinc fi 70.8 2.6 5.7E-05 26.8 1.4 25 88-112 18-48 (50)
62 KOG1146 Homeobox protein [Gene 67.9 1.6 3.6E-05 45.5 -0.1 64 86-170 1282-1350(1406)
63 PF05443 ROS_MUCR: ROS/MUCR tr 67.4 2.6 5.6E-05 32.9 0.9 28 86-116 70-97 (132)
64 COG0068 HypF Hydrogenase matur 67.3 2.3 4.9E-05 41.9 0.7 56 90-157 125-182 (750)
65 PF06524 NOA36: NOA36 protein; 65.8 3.9 8.4E-05 35.5 1.7 85 83-172 137-233 (314)
66 cd00350 rubredoxin_like Rubred 65.7 4.9 0.00011 23.3 1.7 10 89-98 2-11 (33)
67 COG1198 PriA Primosomal protei 61.6 5.4 0.00012 39.8 2.1 48 90-157 437-484 (730)
68 KOG1280 Uncharacterized conser 60.9 7.6 0.00016 35.1 2.7 42 83-126 74-117 (381)
69 PRK14890 putative Zn-ribbon RN 60.3 4.1 8.9E-05 27.2 0.7 10 147-156 47-56 (59)
70 smart00834 CxxC_CXXC_SSSS Puta 60.2 4.9 0.00011 24.0 1.0 30 88-126 5-34 (41)
71 TIGR02605 CxxC_CxxC_SSSS putat 59.9 4.6 0.0001 25.7 0.9 30 88-126 5-34 (52)
72 TIGR00622 ssl1 transcription f 59.7 18 0.0004 27.3 4.2 78 86-172 13-105 (112)
73 KOG2893 Zn finger protein [Gen 57.6 2.9 6.3E-05 35.8 -0.4 31 83-113 29-60 (341)
74 smart00734 ZnF_Rad18 Rad18-lik 57.1 9 0.0002 21.0 1.7 20 149-169 2-21 (26)
75 PF09538 FYDLN_acid: Protein o 56.3 6.8 0.00015 29.5 1.4 11 90-100 11-21 (108)
76 COG4957 Predicted transcriptio 55.1 5.2 0.00011 31.2 0.7 26 88-116 76-101 (148)
77 PRK14873 primosome assembly pr 54.2 7.2 0.00016 38.6 1.6 53 85-158 379-432 (665)
78 PF09538 FYDLN_acid: Protein o 54.1 9 0.00019 28.8 1.8 15 147-161 25-39 (108)
79 smart00531 TFIIE Transcription 54.1 8.3 0.00018 30.4 1.7 17 87-103 98-114 (147)
80 COG1592 Rubrerythrin [Energy p 53.2 11 0.00024 30.6 2.3 24 88-126 134-157 (166)
81 cd00729 rubredoxin_SM Rubredox 53.0 10 0.00022 22.2 1.5 10 147-156 17-26 (34)
82 COG1997 RPL43A Ribosomal prote 50.2 9.6 0.00021 27.5 1.3 18 175-192 52-69 (89)
83 PF09723 Zn-ribbon_8: Zinc rib 48.5 9.1 0.0002 23.5 0.9 30 88-126 5-34 (42)
84 PHA00626 hypothetical protein 48.1 13 0.00029 24.5 1.6 14 147-160 22-35 (59)
85 PRK06266 transcription initiat 48.0 9.3 0.0002 31.3 1.1 9 149-157 137-145 (178)
86 TIGR00595 priA primosomal prot 46.6 13 0.00028 35.5 2.0 48 90-157 215-262 (505)
87 PF07295 DUF1451: Protein of u 46.1 11 0.00025 29.8 1.3 21 104-126 96-120 (146)
88 PF07754 DUF1610: Domain of un 45.8 8.9 0.00019 20.8 0.5 10 147-156 15-24 (24)
89 KOG4167 Predicted DNA-binding 45.5 4.4 9.6E-05 40.0 -1.3 27 87-113 791-817 (907)
90 PF13878 zf-C2H2_3: zinc-finge 44.8 16 0.00035 22.3 1.6 24 149-172 14-39 (41)
91 KOG2231 Predicted E3 ubiquitin 43.9 9 0.0002 37.7 0.5 25 89-113 100-140 (669)
92 COG4391 Uncharacterized protei 43.7 14 0.00031 24.8 1.3 44 107-159 15-59 (62)
93 COG1592 Rubrerythrin [Energy p 43.5 14 0.0003 30.0 1.5 24 116-156 134-157 (166)
94 COG3091 SprT Zn-dependent meta 43.1 12 0.00027 29.8 1.0 35 85-126 114-148 (156)
95 TIGR00373 conserved hypothetic 43.1 16 0.00034 29.3 1.7 20 86-105 107-126 (158)
96 KOG4167 Predicted DNA-binding 42.9 3.9 8.4E-05 40.4 -2.1 25 147-171 791-815 (907)
97 KOG4124 Putative transcription 42.4 18 0.00039 32.8 2.1 56 113-169 175-233 (442)
98 KOG2482 Predicted C2H2-type Zn 42.2 15 0.00032 33.3 1.5 29 88-116 195-225 (423)
99 PF10571 UPF0547: Uncharacteri 41.2 16 0.00034 20.2 1.0 10 150-159 16-25 (26)
100 PF04959 ARS2: Arsenite-resist 40.8 8.7 0.00019 32.5 -0.1 31 84-114 73-103 (214)
101 smart00659 RPOLCX RNA polymera 39.5 21 0.00045 22.3 1.5 26 88-126 2-27 (44)
102 PRK00464 nrdR transcriptional 39.4 11 0.00024 30.2 0.3 9 90-98 2-10 (154)
103 smart00154 ZnF_AN1 AN1-like Zi 38.3 15 0.00033 22.2 0.7 14 88-101 12-25 (39)
104 TIGR02300 FYDLN_acid conserved 36.8 26 0.00057 27.1 2.0 30 117-161 10-39 (129)
105 PF08790 zf-LYAR: LYAR-type C2 35.5 21 0.00045 20.1 0.9 20 89-109 1-20 (28)
106 PRK00398 rpoP DNA-directed RNA 35.2 19 0.00042 22.3 0.9 13 88-100 3-15 (46)
107 COG1996 RPC10 DNA-directed RNA 34.8 22 0.00047 22.8 1.0 28 87-126 5-32 (49)
108 PF10276 zf-CHCC: Zinc-finger 34.6 19 0.00042 22.0 0.7 13 87-99 28-40 (40)
109 TIGR00143 hypF [NiFe] hydrogen 34.0 16 0.00034 36.5 0.5 57 90-158 92-150 (711)
110 PRK05580 primosome assembly pr 32.6 29 0.00062 34.4 2.0 49 89-157 382-430 (679)
111 KOG3408 U1-like Zn-finger-cont 32.2 24 0.00051 27.1 1.0 28 83-110 52-79 (129)
112 PF12013 DUF3505: Protein of u 31.6 26 0.00056 25.9 1.2 26 88-113 80-109 (109)
113 PRK04023 DNA polymerase II lar 31.4 35 0.00075 35.3 2.3 11 87-97 625-635 (1121)
114 KOG2071 mRNA cleavage and poly 30.8 25 0.00055 34.0 1.2 28 86-113 416-443 (579)
115 PF04216 FdhE: Protein involve 30.4 11 0.00024 33.1 -1.1 33 89-126 173-205 (290)
116 KOG2186 Cell growth-regulating 29.2 18 0.0004 31.3 0.0 34 89-126 4-37 (276)
117 KOG2071 mRNA cleavage and poly 29.1 32 0.00069 33.3 1.6 25 147-171 417-441 (579)
118 KOG2593 Transcription initiati 28.9 29 0.00064 32.3 1.3 19 86-104 126-144 (436)
119 PF01428 zf-AN1: AN1-like Zinc 28.9 21 0.00046 21.9 0.3 15 87-101 12-26 (43)
120 PF12907 zf-met2: Zinc-binding 28.9 14 0.00031 22.7 -0.5 31 89-119 2-36 (40)
121 COG3357 Predicted transcriptio 28.8 42 0.00091 24.5 1.8 27 115-155 57-83 (97)
122 KOG4124 Putative transcription 27.6 27 0.00059 31.7 0.8 22 147-168 397-418 (442)
123 PF04959 ARS2: Arsenite-resist 26.8 27 0.00059 29.5 0.6 23 147-169 76-98 (214)
124 KOG4173 Alpha-SNAP protein [In 26.5 5.7 0.00012 33.4 -3.4 76 87-172 78-171 (253)
125 PTZ00303 phosphatidylinositol 26.4 33 0.00072 34.6 1.2 31 89-128 461-491 (1374)
126 PF13451 zf-trcl: Probable zin 26.4 32 0.00069 22.1 0.7 17 86-102 2-18 (49)
127 PF04423 Rad50_zn_hook: Rad50 25.5 23 0.00049 22.8 -0.1 11 150-160 22-32 (54)
128 PF02748 PyrI_C: Aspartate car 25.2 37 0.00081 21.9 0.9 18 83-100 30-47 (52)
129 KOG2186 Cell growth-regulating 23.3 44 0.00096 29.0 1.3 22 147-169 28-49 (276)
130 TIGR02098 MJ0042_CXXC MJ0042 f 23.2 52 0.0011 19.2 1.3 15 89-103 3-17 (38)
131 smart00440 ZnF_C2C2 C2C2 Zinc 22.9 34 0.00074 20.7 0.4 12 147-158 27-38 (40)
132 PTZ00255 60S ribosomal protein 22.7 41 0.00088 24.5 0.8 36 147-192 35-70 (90)
133 PF10013 DUF2256: Uncharacteri 22.4 37 0.00081 21.0 0.5 13 150-162 10-22 (42)
134 PF03604 DNA_RNApol_7kD: DNA d 22.4 84 0.0018 18.2 2.0 10 89-98 1-10 (32)
135 COG3677 Transposase and inacti 21.9 63 0.0014 25.0 1.8 14 147-160 52-65 (129)
136 PRK09678 DNA-binding transcrip 21.8 38 0.00083 23.5 0.5 16 147-162 26-43 (72)
137 PLN02294 cytochrome c oxidase 21.4 37 0.00081 27.6 0.5 13 147-159 140-152 (174)
138 PF15135 UPF0515: Uncharacteri 21.0 90 0.0019 27.1 2.7 62 82-160 106-167 (278)
139 PRK03564 formate dehydrogenase 21.0 63 0.0014 28.9 1.8 51 85-156 184-234 (309)
140 PF09845 DUF2072: Zn-ribbon co 20.8 49 0.0011 25.8 0.9 14 148-161 1-14 (131)
141 COG4530 Uncharacterized protei 20.5 55 0.0012 24.7 1.2 11 90-100 11-21 (129)
142 KOG2461 Transcription factor B 20.1 3.6E+02 0.0079 25.0 6.6 39 82-120 325-363 (396)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.70 E-value=9.1e-18 Score=142.84 Aligned_cols=92 Identities=23% Similarity=0.364 Sum_probs=50.4
Q ss_pred CceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCc--cccccccc---CCCCCCCCCcCCCC
Q 044109 86 QRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQP--YLHQNHYS---SISSLPLHGAAYNR 160 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~--~~~H~r~h---kp~~C~~Cgk~F~~ 160 (236)
.+.|.|++|+|.|.+..+|..|+|+|+ -|++|. .||| +|.++ |+.|+|+| |||.|+.|+|+|..
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~--iCGK-------aFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECG--ICGK-------AFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccC--CCcccc--cccc-------cccchHHhhcccccccCCCCccCCcccchhcc
Confidence 344555555555555555555555555 355555 5555 44443 35555555 55555555555555
Q ss_pred hhhhHHHhhhcCCCCCCCCCCCCCCCCC
Q 044109 161 SLGIQVHSMIHKPSHTSTSHGNGNIYGH 188 (236)
Q Consensus 161 ~~~L~~H~~~HkP~~~~~~~~~g~~~~~ 188 (236)
+++|+.|+++|-......|..||+.|..
T Consensus 228 RSNLRAHmQTHS~~K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 228 RSNLRAHMQTHSDVKKHQCPRCGKSFAL 255 (279)
T ss_pred hHHHHHHHHhhcCCccccCcchhhHHHH
Confidence 5555555555554445555555555543
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.63 E-value=6.7e-17 Score=137.58 Aligned_cols=124 Identities=13% Similarity=0.232 Sum_probs=112.3
Q ss_pred CCceeecccccccccCchhhhhhhhccCC---CCCCccCcCCCCCccCCCCcccCCc--cccccccc-CCCCCCCCCcCC
Q 044109 85 EQRVFSCNYCQRKFYSSQALGGHQNAHKR---ERTLAKRGQRIGTYTAASPFAFGQP--YLHQNHYS-SISSLPLHGAAY 158 (236)
Q Consensus 85 gekpf~C~~C~k~F~~~~~L~~H~r~Htg---ekp~~C~~~~C~k~~~~~~~~f~~~--~~~H~r~h-kp~~C~~Cgk~F 158 (236)
..-.|.|..|||.+.+.++|.+|+.+|.. .+.+.|+ .|+| .|... |+.|.|+| -+++|.+|||.|
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~--~C~K-------~YvSmpALkMHirTH~l~c~C~iCGKaF 197 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCK--YCGK-------VYVSMPALKMHIRTHTLPCECGICGKAF 197 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCC--CCCc-------eeeehHHHhhHhhccCCCcccccccccc
Confidence 44579999999999999999999999985 5789999 9999 55554 69999999 599999999999
Q ss_pred CChhhhHHHhhhcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCccccccchhhhhccc
Q 044109 159 NRSLGIQVHSMIHKPSHTSTSHGNGNIYGHNNWSRPPIEQQPAIGRLSSMENYYSTAAAA 218 (236)
Q Consensus 159 ~~~~~L~~H~~~HkP~~~~~~~~~g~~~~~~~~~r~~~~~qp~~~~l~~~~~~~~~~~~~ 218 (236)
.++.-|+.|+|+|.+++++.|..||+.|....-+|.+|..+-++-++. ...+..++++-
T Consensus 198 SRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~q-C~~C~KsFsl~ 256 (279)
T KOG2462|consen 198 SRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQ-CPRCGKSFALK 256 (279)
T ss_pred cchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCcccc-CcchhhHHHHH
Confidence 999999999999999999999999999999899999998889999998 88888887765
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.26 E-value=1.4e-12 Score=122.95 Aligned_cols=78 Identities=15% Similarity=0.244 Sum_probs=72.2
Q ss_pred CCCCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCc--cccccccc---CCCCCCCCCcC
Q 044109 83 PSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQP--YLHQNHYS---SISSLPLHGAA 157 (236)
Q Consensus 83 htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~--~~~H~r~h---kp~~C~~Cgk~ 157 (236)
-+.+-+|.|+.|.|.|.-.+.|.+|.--|+|.|||+|. +|.| +|.++ |..|+|.| |||+|..|+|+
T Consensus 889 kte~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~--iCkK-------AFKHKHHLtEHkRLHSGEKPfQCdKClKR 959 (1007)
T KOG3623|consen 889 KTEDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCI--ICKK-------AFKHKHHLTEHKRLHSGEKPFQCDKCLKR 959 (1007)
T ss_pred cCccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccc--hhhH-------hhhhhhhhhhhhhhccCCCcchhhhhhhh
Confidence 45678999999999999999999999999999999999 9999 77766 59999999 99999999999
Q ss_pred CCChhhhHHHhh
Q 044109 158 YNRSLGIQVHSM 169 (236)
Q Consensus 158 F~~~~~L~~H~~ 169 (236)
|..+.....||.
T Consensus 960 FSHSGSYSQHMN 971 (1007)
T KOG3623|consen 960 FSHSGSYSQHMN 971 (1007)
T ss_pred cccccchHhhhc
Confidence 999999999974
No 4
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.25 E-value=1e-12 Score=107.63 Aligned_cols=81 Identities=20% Similarity=0.362 Sum_probs=74.1
Q ss_pred CCCCCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCcc--ccccccc---CCCCCCCCCc
Q 044109 82 HPSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPY--LHQNHYS---SISSLPLHGA 156 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~--~~H~r~h---kp~~C~~Cgk 156 (236)
.-.+...|.|.+|+|+|.....|.+|+..|...|.|.|. .||| .|...+ ++|+|+| +||+|..|+|
T Consensus 111 sssd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct--~cgk-------gfndtfdlkrh~rthtgvrpykc~~c~k 181 (267)
T KOG3576|consen 111 SSSDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCT--FCGK-------GFNDTFDLKRHTRTHTGVRPYKCSLCEK 181 (267)
T ss_pred CCCCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHh--hccC-------cccchhhhhhhhccccCccccchhhhhH
Confidence 344567899999999999999999999999999999999 9999 888774 9999999 9999999999
Q ss_pred CCCChhhhHHHh-hhc
Q 044109 157 AYNRSLGIQVHS-MIH 171 (236)
Q Consensus 157 ~F~~~~~L~~H~-~~H 171 (236)
+|+++-.|..|. ++|
T Consensus 182 aftqrcsleshl~kvh 197 (267)
T KOG3576|consen 182 AFTQRCSLESHLKKVH 197 (267)
T ss_pred HHHhhccHHHHHHHHc
Confidence 999999999995 667
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.20 E-value=2.6e-12 Score=105.22 Aligned_cols=86 Identities=19% Similarity=0.232 Sum_probs=73.7
Q ss_pred CCCCCCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCc--ccccc-ccc-----------
Q 044109 81 DHPSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQP--YLHQN-HYS----------- 146 (236)
Q Consensus 81 ~~htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~--~~~H~-r~h----------- 146 (236)
..|...|.|-|..|||.|...-.|++|+|+|||.|||+|. .|+| +|.+. +..|. ++|
T Consensus 138 kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~--~c~k-------aftqrcsleshl~kvhgv~~~yayker 208 (267)
T KOG3576|consen 138 KCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCS--LCEK-------AFTQRCSLESHLKKVHGVQHQYAYKER 208 (267)
T ss_pred hhccHHHHHHHhhccCcccchhhhhhhhccccCccccchh--hhhH-------HHHhhccHHHHHHHHcCchHHHHHHHh
Confidence 4688889999999999999999999999999999999999 9999 77765 33332 122
Q ss_pred --CCCCCCCCCcCCCChhhhHHHhhhcCCCC
Q 044109 147 --SISSLPLHGAAYNRSLGIQVHSMIHKPSH 175 (236)
Q Consensus 147 --kp~~C~~Cgk~F~~~~~L~~H~~~HkP~~ 175 (236)
|.|.|..||..-.+...+..|.+.|.|..
T Consensus 209 r~kl~vcedcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 209 RAKLYVCEDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred hhheeeecccCCCCCChhHHHHHHHhcCCCC
Confidence 88999999998888889999999998764
No 6
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.09 E-value=1.6e-11 Score=115.98 Aligned_cols=109 Identities=17% Similarity=0.255 Sum_probs=89.3
Q ss_pred eeecccccccccCchhhhhhhhc-c-CCCCCCccCcCCCCCccCCCCcccCCccccccccc----------------CCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNA-H-KRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYS----------------SIS 149 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~-H-tgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~h----------------kp~ 149 (236)
...|.||.+.+.+.+.|+.|+.. | ..|-.|.|. .|.. +|++...|.+|+.+| +.|
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~--lCsy-----tFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKF 282 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCM--LCSY-----TFAYRTQLERHMQLHKPGGDQAISLTQSALLRKF 282 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcch--hhhh-----hhhhHHHHHHHHHhhcCCCcccccccchhhhccc
Confidence 35899999999999999999864 3 346679999 9988 445555567777665 679
Q ss_pred CCCCCCcCCCChhhhHHHhhhcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccC
Q 044109 150 SLPLHGAAYNRSLGIQVHSMIHKPSHTSTSHGNGNIYGHNNWSRPPIEQQPAIG 203 (236)
Q Consensus 150 ~C~~Cgk~F~~~~~L~~H~~~HkP~~~~~~~~~g~~~~~~~~~r~~~~~qp~~~ 203 (236)
+|++|||+|..+.+|+.|.|||.+.+++.|.-|+++|.|.|....+|...-=|+
T Consensus 283 KCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSSKKCIs 336 (1007)
T KOG3623|consen 283 KCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSSKKCIS 336 (1007)
T ss_pred cccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccccchhh
Confidence 999999999999999999999999999999999999999887777775544443
No 7
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.07 E-value=7.5e-11 Score=113.01 Aligned_cols=81 Identities=20% Similarity=0.246 Sum_probs=71.1
Q ss_pred ceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCccccccccc-------CCCCCC---CCCc
Q 044109 87 RVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYS-------SISSLP---LHGA 156 (236)
Q Consensus 87 kpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~h-------kp~~C~---~Cgk 156 (236)
.|-+|-+|.|.....++|+.|.|+|+|||||+|+ +||+ +|.-...|+.|+-+| -++.|| +|-+
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCK--iCgR-----AFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~ 676 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCK--ICGR-----AFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQK 676 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccc--cccc-----hhccccchhhcccccccCccccccccCCchhhhcc
Confidence 4679999999999999999999999999999999 9999 233344579999888 458999 9999
Q ss_pred CCCChhhhHHHhhhcCCC
Q 044109 157 AYNRSLGIQVHSMIHKPS 174 (236)
Q Consensus 157 ~F~~~~~L~~H~~~HkP~ 174 (236)
.|.....|..|.++|-+.
T Consensus 677 kftn~V~lpQhIriH~~~ 694 (958)
T KOG1074|consen 677 KFTNAVTLPQHIRIHLGG 694 (958)
T ss_pred cccccccccceEEeecCC
Confidence 999999999999999643
No 8
>PHA02768 hypothetical protein; Provisional
Probab=98.72 E-value=5.7e-09 Score=68.64 Aligned_cols=35 Identities=14% Similarity=0.338 Sum_probs=33.2
Q ss_pred eeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
-|+|++||+.|...++|.+|+++|+ +||+|. .|++
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~--~C~k 39 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLS--NCKR 39 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCC--cccc
Confidence 4899999999999999999999999 799999 9999
No 9
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.69 E-value=1.2e-08 Score=98.24 Aligned_cols=76 Identities=24% Similarity=0.333 Sum_probs=57.7
Q ss_pred eecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCcCCCChhhhHHHh
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGAAYNRSLGIQVHS 168 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk~F~~~~~L~~H~ 168 (236)
..|.+|++.|..+.+|..|+|+|+|+|||.|. .| ++.|..+.+|+.||
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~--fC------------------------------~~aFttrgnLKvHM 927 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCH--FC------------------------------EEAFTTRGNLKVHM 927 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccch--hh------------------------------hhhhhhhhhhhhhh
Confidence 68999999999999999999999999998888 54 55688899999999
Q ss_pred hhcCCCCCCCCCCCCCCCCCCCCCCCCC
Q 044109 169 MIHKPSHTSTSHGNGNIYGHNNWSRPPI 196 (236)
Q Consensus 169 ~~HkP~~~~~~~~~g~~~~~~~~~r~~~ 196 (236)
.+|.-...+...|+....++.+..-.+|
T Consensus 928 gtH~w~q~~srrG~~~~~~~~~vs~~~~ 955 (958)
T KOG1074|consen 928 GTHMWVQPPSRRGPSPFIGSTGVSPFPM 955 (958)
T ss_pred ccccccCCCccCCCCcccCCCCCCcccc
Confidence 9995444444334444444544444444
No 10
>PHA00733 hypothetical protein
Probab=98.68 E-value=8.7e-09 Score=80.18 Aligned_cols=78 Identities=14% Similarity=0.125 Sum_probs=63.9
Q ss_pred CCceeecccccccccCchhhhhh--h---hccCCCCCCccCcCCCCCccCCCCcccCCc--cccccccc-CCCCCCCCCc
Q 044109 85 EQRVFSCNYCQRKFYSSQALGGH--Q---NAHKRERTLAKRGQRIGTYTAASPFAFGQP--YLHQNHYS-SISSLPLHGA 156 (236)
Q Consensus 85 gekpf~C~~C~k~F~~~~~L~~H--~---r~Htgekp~~C~~~~C~k~~~~~~~~f~~~--~~~H~r~h-kp~~C~~Cgk 156 (236)
..+++.|.+|.+.|...+.|..| . ..+.+++||.|. .|++ .|... +..|++++ .+|.|+.|++
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~--~Cgk-------~Fss~s~L~~H~r~h~~~~~C~~CgK 107 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCP--LCLM-------PFSSSVSLKQHIRYTEHSKVCPVCGK 107 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCC--CCCC-------cCCCHHHHHHHHhcCCcCccCCCCCC
Confidence 46889999999999988877766 1 123458999999 9999 66665 47888876 7899999999
Q ss_pred CCCChhhhHHHhhhc
Q 044109 157 AYNRSLGIQVHSMIH 171 (236)
Q Consensus 157 ~F~~~~~L~~H~~~H 171 (236)
.|.....|..|+...
T Consensus 108 ~F~~~~sL~~H~~~~ 122 (128)
T PHA00733 108 EFRNTDSTLDHVCKK 122 (128)
T ss_pred ccCCHHHHHHHHHHh
Confidence 999999999998653
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.43 E-value=1.7e-07 Score=88.75 Aligned_cols=91 Identities=14% Similarity=0.238 Sum_probs=72.7
Q ss_pred CCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCc-cccccccc---CCCCCCCCCcCCCC
Q 044109 85 EQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQP-YLHQNHYS---SISSLPLHGAAYNR 160 (236)
Q Consensus 85 gekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~-~~~H~r~h---kp~~C~~Cgk~F~~ 160 (236)
.++++.|.+|++.|. ...|..|+++|+ +|+.|. |++ .+... +..|++.| +++.|+.|++.|..
T Consensus 450 l~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp---Cg~-------~~~R~~L~~H~~thCp~Kpi~C~fC~~~v~~ 516 (567)
T PLN03086 450 AKNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP---CGV-------VLEKEQMVQHQASTCPLRLITCRFCGDMVQA 516 (567)
T ss_pred cccCccCCCCCCccc-hHHHHHHHHhcC--CCccCC---CCC-------CcchhHHHhhhhccCCCCceeCCCCCCcccc
Confidence 356789999999996 678999999985 899997 997 34333 57888877 99999999998852
Q ss_pred ----------hhhhHHHhhhcCCCCCCCCCCCCCCCCCC
Q 044109 161 ----------SLGIQVHSMIHKPSHTSTSHGNGNIYGHN 189 (236)
Q Consensus 161 ----------~~~L~~H~~~HkP~~~~~~~~~g~~~~~~ 189 (236)
..+|..|..++ +.....|..||+.+...
T Consensus 517 g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr 554 (567)
T PLN03086 517 GGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK 554 (567)
T ss_pred CccccchhhhhhhHHHHHHhc-CCcceEccccCCeeeeh
Confidence 35799998886 88888899999766543
No 12
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.38 E-value=8.9e-08 Score=84.57 Aligned_cols=83 Identities=12% Similarity=0.165 Sum_probs=68.3
Q ss_pred CCCCCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCc--cccccccc------CCCCCCC
Q 044109 82 HPSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQP--YLHQNHYS------SISSLPL 153 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~--~~~H~r~h------kp~~C~~ 153 (236)
.|...|||+|+.|.+.|.+.+.|.+|..+|. +-.|.|+++.|.. .+... +++|++.+ -+|.|-.
T Consensus 286 rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~-------s~r~~~q~~~H~~evhEg~np~~Y~CH~ 357 (467)
T KOG3608|consen 286 RHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHY-------SVRTYTQMRRHFLEVHEGNNPILYACHC 357 (467)
T ss_pred hhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcH-------HHHHHHHHHHHHHHhccCCCCCceeeec
Confidence 5788999999999999999999999999998 6789999777987 44332 35665543 7899999
Q ss_pred CCcCCCChhhhHHHhh-hcC
Q 044109 154 HGAAYNRSLGIQVHSM-IHK 172 (236)
Q Consensus 154 Cgk~F~~~~~L~~H~~-~Hk 172 (236)
|.+.|++-.+|.+|.+ .|.
T Consensus 358 Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 358 CDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred chhhhccchhHHHHHHHhhc
Confidence 9999999999999965 453
No 13
>PHA00616 hypothetical protein
Probab=98.33 E-value=1.3e-07 Score=59.36 Aligned_cols=33 Identities=15% Similarity=0.337 Sum_probs=32.0
Q ss_pred eeecccccccccCchhhhhhhhccCCCCCCccC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKRERTLAKR 120 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~ 120 (236)
||+|..||+.|...+.|..|++.|+|++++.|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 699999999999999999999999999999987
No 14
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.25 E-value=2.2e-07 Score=82.15 Aligned_cols=88 Identities=14% Similarity=0.167 Sum_probs=62.9
Q ss_pred CCCCCceeecccccccccCchhhhhhhhccCC--CCCCccCcCCCCCccCCCCc-------------------cc--CCc
Q 044109 82 HPSEQRVFSCNYCQRKFYSSQALGGHQNAHKR--ERTLAKRGQRIGTYTAASPF-------------------AF--GQP 138 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~~~~L~~H~r~Htg--ekp~~C~~~~C~k~~~~~~~-------------------~f--~~~ 138 (236)
+|+++|...|..||+-|.+...|-.|.|..+. ..+|.|. .|-|+|++.-. .. ...
T Consensus 201 ~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~--~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ss 278 (467)
T KOG3608|consen 201 THSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCA--QCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASS 278 (467)
T ss_pred hcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHH--HHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHH
Confidence 68888888888888888888888777664442 3466666 66665443211 22 222
Q ss_pred cccccccc----CCCCCCCCCcCCCChhhhHHHhhhc
Q 044109 139 YLHQNHYS----SISSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 139 ~~~H~r~h----kp~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
|.+|+|+. |||+|..|.+.|.+-+.|.+|..+|
T Consensus 279 L~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~H 315 (467)
T KOG3608|consen 279 LTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVH 315 (467)
T ss_pred HHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhc
Confidence 47777764 9999999999999999999998888
No 15
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.25 E-value=3.6e-07 Score=51.22 Aligned_cols=22 Identities=23% Similarity=0.286 Sum_probs=20.7
Q ss_pred hhhhhhhccCCCCCCccCcCCCCC
Q 044109 103 ALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 103 ~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
+|.+|+++|+|+|||.|. .|++
T Consensus 1 ~l~~H~~~H~~~k~~~C~--~C~k 22 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCP--YCGK 22 (26)
T ss_dssp HHHHHHHHHSSSSSEEES--SSSE
T ss_pred CHHHHhhhcCCCCCCCCC--CCcC
Confidence 588999999999999999 9999
No 16
>PHA02768 hypothetical protein; Provisional
Probab=97.94 E-value=2.2e-06 Score=56.46 Aligned_cols=24 Identities=21% Similarity=0.349 Sum_probs=15.6
Q ss_pred CCCCCCCcCCCChhhhHHHhhhcC
Q 044109 149 SSLPLHGAAYNRSLGIQVHSMIHK 172 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~~Hk 172 (236)
|.|+.||+.|.+...|..|+++|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC
Confidence 556666666666666666666664
No 17
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.86 E-value=7.3e-06 Score=77.77 Aligned_cols=80 Identities=15% Similarity=0.187 Sum_probs=59.6
Q ss_pred ceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcc--c---CCccccccccc--CCCCCCCCCcCCC
Q 044109 87 RVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFA--F---GQPYLHQNHYS--SISSLPLHGAAYN 159 (236)
Q Consensus 87 kpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~--f---~~~~~~H~r~h--kp~~C~~Cgk~F~ 159 (236)
++|.|+ |++.| ....|..|+++|..+||+.|. .|++.+...... + ...+..|..+. +++.|..||+.|.
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~--fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vr 552 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCR--FCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVM 552 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCceeCC--CCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeee
Confidence 789999 99765 668999999999999999999 999932110000 0 11347787776 9999999999775
Q ss_pred ChhhhHHHh-hhc
Q 044109 160 RSLGIQVHS-MIH 171 (236)
Q Consensus 160 ~~~~L~~H~-~~H 171 (236)
. ..|..|+ .+|
T Consensus 553 l-rdm~~H~~~~h 564 (567)
T PLN03086 553 L-KEMDIHQIAVH 564 (567)
T ss_pred e-hhHHHHHHHhh
Confidence 4 5778885 445
No 18
>PHA00733 hypothetical protein
Probab=97.83 E-value=8.2e-06 Score=63.49 Aligned_cols=50 Identities=22% Similarity=0.296 Sum_probs=41.5
Q ss_pred CCCCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCc--ccccc
Q 044109 83 PSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQP--YLHQN 143 (236)
Q Consensus 83 htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~--~~~H~ 143 (236)
+.+.+||.|..|++.|.+...|..|+++| +++|.|. .|++ .|... +..|+
T Consensus 68 ~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~--~CgK-------~F~~~~sL~~H~ 119 (128)
T PHA00733 68 SKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCP--VCGK-------EFRNTDSTLDHV 119 (128)
T ss_pred cCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCC--CCCC-------ccCCHHHHHHHH
Confidence 34589999999999999999999999987 4689999 9999 66554 35554
No 19
>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=97.71 E-value=1.3e-05 Score=43.22 Aligned_cols=23 Identities=30% Similarity=0.700 Sum_probs=21.7
Q ss_pred eecccccccccCchhhhhhhhcc
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAH 111 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~H 111 (236)
|+|.+|++.|.+...|..|++.|
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 20
>PHA00732 hypothetical protein
Probab=97.68 E-value=2.5e-05 Score=55.61 Aligned_cols=34 Identities=21% Similarity=0.249 Sum_probs=30.1
Q ss_pred eeecccccccccCchhhhhhhhc-cCCCCCCccCcCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNA-HKRERTLAKRGQRIGT 126 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~-Htgekp~~C~~~~C~k 126 (236)
||.|..|++.|.+...|..|++. |++ +.|. .|++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~--~CgK 35 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCP--VCNK 35 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccC--CCCC
Confidence 68999999999999999999984 663 5799 9999
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=97.65 E-value=1.3e-05 Score=43.20 Aligned_cols=23 Identities=17% Similarity=0.379 Sum_probs=21.4
Q ss_pred CCCCCCCcCCCChhhhHHHhhhc
Q 044109 149 SSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
|.|+.|++.|..+..|+.|+++|
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 67999999999999999999875
No 22
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.58 E-value=1e-05 Score=73.13 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=22.6
Q ss_pred CCCCCCCCcCCCChhhhHHHhhhc
Q 044109 148 ISSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 148 p~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
.|.|..|+|.|.+...|+.|+.+|
T Consensus 356 i~~C~~C~KkFrRqAYLrKHqlth 379 (500)
T KOG3993|consen 356 IFSCHTCGKKFRRQAYLRKHQLTH 379 (500)
T ss_pred eeecHHhhhhhHHHHHHHHhHHhh
Confidence 488999999999999999999988
No 23
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.55 E-value=4.1e-05 Score=67.12 Aligned_cols=71 Identities=14% Similarity=0.275 Sum_probs=45.7
Q ss_pred CCceeeccc--ccccccCchhhhhhhhc-cCCCCCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCcCCCCh
Q 044109 85 EQRVFSCNY--CQRKFYSSQALGGHQNA-HKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGAAYNRS 161 (236)
Q Consensus 85 gekpf~C~~--C~k~F~~~~~L~~H~r~-Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk~F~~~ 161 (236)
++|||+|++ |.|++...-.|+-|+.- |...+...-+ .-.+ . -.|.- .-|||.|++|+|+|..-
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p--~p~~---~--~~F~~-------~~KPYrCevC~KRYKNl 411 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP--SPEK---M--NIFSA-------KDKPYRCEVCDKRYKNL 411 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCC--Cccc---c--ccccc-------cCCceeccccchhhccC
Confidence 359999986 99999999888888642 3222222211 1111 0 01100 01999999999999999
Q ss_pred hhhHHHhh
Q 044109 162 LGIQVHSM 169 (236)
Q Consensus 162 ~~L~~H~~ 169 (236)
.+|+-|..
T Consensus 412 NGLKYHr~ 419 (423)
T COG5189 412 NGLKYHRK 419 (423)
T ss_pred ccceeccc
Confidence 99988853
No 24
>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=97.53 E-value=2.6e-05 Score=43.60 Aligned_cols=19 Identities=21% Similarity=0.786 Sum_probs=17.5
Q ss_pred CCCCCceeecccccccccC
Q 044109 82 HPSEQRVFSCNYCQRKFYS 100 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~ 100 (236)
+|+++|||.|++|++.|.+
T Consensus 8 ~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 8 THTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHSSSSSEEESSSSEEESS
T ss_pred hcCCCCCCCCCCCcCeeCc
Confidence 6999999999999999974
No 25
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.44 E-value=6.2e-05 Score=42.13 Aligned_cols=26 Identities=35% Similarity=0.662 Sum_probs=24.0
Q ss_pred eeecccccccccCchhhhhhhhccCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKR 113 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htg 113 (236)
||+|..|++.|.+...|..|++.|.+
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 69999999999999999999998853
No 26
>PHA00616 hypothetical protein
Probab=97.39 E-value=7e-05 Score=47.04 Aligned_cols=28 Identities=7% Similarity=0.106 Sum_probs=25.0
Q ss_pred CCCCCCCCcCCCChhhhHHHhhhcCCCC
Q 044109 148 ISSLPLHGAAYNRSLGIQVHSMIHKPSH 175 (236)
Q Consensus 148 p~~C~~Cgk~F~~~~~L~~H~~~HkP~~ 175 (236)
||+|+.||+.|.++..|.+|++.|....
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~ 28 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQN 28 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCC
Confidence 7999999999999999999999886543
No 27
>PHA00732 hypothetical protein
Probab=97.29 E-value=0.00013 Score=51.89 Aligned_cols=43 Identities=9% Similarity=0.110 Sum_probs=23.8
Q ss_pred CCccCcCCCCCccCCCCcccCCc--cccccc-ccCCCCCCCCCcCCCChhhhHHHhhh
Q 044109 116 TLAKRGQRIGTYTAASPFAFGQP--YLHQNH-YSSISSLPLHGAAYNRSLGIQVHSMI 170 (236)
Q Consensus 116 p~~C~~~~C~k~~~~~~~~f~~~--~~~H~r-~hkp~~C~~Cgk~F~~~~~L~~H~~~ 170 (236)
||.|. .|++ .|.+. +..|++ .|.++.|+.||+.|. .|..|.++
T Consensus 1 py~C~--~Cgk-------~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCP--ICGF-------TTVTLFALKQHARRNHTLTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCC--CCCC-------ccCCHHHHHHHhhcccCCCccCCCCCEeC---Chhhhhcc
Confidence 45666 6666 44433 355655 345566666666665 35555543
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=97.12 E-value=0.00019 Score=38.37 Aligned_cols=23 Identities=35% Similarity=0.753 Sum_probs=19.7
Q ss_pred eecccccccccCchhhhhhhhcc
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAH 111 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~H 111 (236)
|.|.+|++.|.+...|..|+++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 78999999999999999999876
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.04 E-value=0.00026 Score=51.47 Aligned_cols=70 Identities=14% Similarity=0.189 Sum_probs=21.9
Q ss_pred ecccccccccCchhhhhhhhccCCC-CCCccCcCCCCCccCCCCcccCCcccccc--cccCCCCCCCCCcCCCChhhhHH
Q 044109 90 SCNYCQRKFYSSQALGGHQNAHKRE-RTLAKRGQRIGTYTAASPFAFGQPYLHQN--HYSSISSLPLHGAAYNRSLGIQV 166 (236)
Q Consensus 90 ~C~~C~k~F~~~~~L~~H~r~Htge-kp~~C~~~~C~k~~~~~~~~f~~~~~~H~--r~hkp~~C~~Cgk~F~~~~~L~~ 166 (236)
+|.+|+..|.....|..|+....+- .+ ... .+ .....+..+. .+...+.|..|++.|.....|+.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~-~~~--~l---------~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~ 68 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP-DQK--YL---------VDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQE 68 (100)
T ss_dssp ------------------------------------------------------------SSEEBSSSS-EESSHHHHHH
T ss_pred Cccccccccccccccccccccccccccc-ccc--cc---------ccccccccccccccCCCCCCCccCCCCcCHHHHHH
Confidence 5999999999999999998654432 22 111 00 0001111111 12256899999999999999999
Q ss_pred Hhhhc
Q 044109 167 HSMIH 171 (236)
Q Consensus 167 H~~~H 171 (236)
|++.+
T Consensus 69 Hm~~~ 73 (100)
T PF12756_consen 69 HMRSK 73 (100)
T ss_dssp HHHHT
T ss_pred HHcCc
Confidence 99875
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.97 E-value=0.00027 Score=37.80 Aligned_cols=23 Identities=17% Similarity=0.375 Sum_probs=19.3
Q ss_pred CCCCCCCcCCCChhhhHHHhhhc
Q 044109 149 SSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
|.|++|++.|.....|+.|+++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 67999999999999999999875
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.90 E-value=0.00038 Score=38.85 Aligned_cols=25 Identities=12% Similarity=0.077 Sum_probs=23.2
Q ss_pred CCCCCCCCcCCCChhhhHHHhhhcC
Q 044109 148 ISSLPLHGAAYNRSLGIQVHSMIHK 172 (236)
Q Consensus 148 p~~C~~Cgk~F~~~~~L~~H~~~Hk 172 (236)
||.|..|++.|.....|..|++.|.
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 6889999999999999999999885
No 32
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.69 E-value=0.0012 Score=35.56 Aligned_cols=24 Identities=17% Similarity=0.285 Sum_probs=21.9
Q ss_pred CCCCCCCcCCCChhhhHHHhhhcC
Q 044109 149 SSLPLHGAAYNRSLGIQVHSMIHK 172 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~~Hk 172 (236)
|.|+.|++.|.....|..|+++|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 679999999999999999998774
No 33
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.66 E-value=0.00082 Score=36.31 Aligned_cols=25 Identities=32% Similarity=0.628 Sum_probs=22.5
Q ss_pred eecccccccccCchhhhhhhhccCC
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAHKR 113 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~Htg 113 (236)
|.|..|++.|.....|..|++.|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~~ 25 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHXX 25 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhcc
Confidence 6899999999999999999997753
No 34
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.44 E-value=0.00097 Score=43.81 Aligned_cols=32 Identities=28% Similarity=0.671 Sum_probs=21.8
Q ss_pred eeecccccccccCchhhhhhhhc-cCCC-CCCccC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNA-HKRE-RTLAKR 120 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~-Htge-kp~~C~ 120 (236)
.|.|++|++. .+...|..|... |..+ +.+.|+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CP 35 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCP 35 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCC
Confidence 4889999994 556789999654 5543 334444
No 35
>PRK04860 hypothetical protein; Provisional
Probab=96.35 E-value=0.002 Score=52.00 Aligned_cols=34 Identities=24% Similarity=0.460 Sum_probs=31.1
Q ss_pred ceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 87 RVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 87 kpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
-+|.|. |++ ....+.+|.++|+++++|.|. .|+.
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~--~C~~ 151 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCR--RCGE 151 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECC--CCCc
Confidence 479998 998 667789999999999999999 9998
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=96.05 E-value=0.0052 Score=39.66 Aligned_cols=35 Identities=14% Similarity=0.301 Sum_probs=25.4
Q ss_pred CCCCCceeecccccccccCchhhhhhhhccCCCCC
Q 044109 82 HPSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERT 116 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp 116 (236)
.+..+.|-.|++|+..+.+..+|.+|+.++.+.||
T Consensus 18 ~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 18 KSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 45567899999999999999999999988877776
No 37
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.71 E-value=0.004 Score=33.91 Aligned_cols=23 Identities=30% Similarity=0.736 Sum_probs=21.2
Q ss_pred eecccccccccCchhhhhhhhcc
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAH 111 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~H 111 (236)
|.|..|++.|.+...|..|++.+
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 78999999999999999999865
No 38
>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=95.53 E-value=0.0079 Score=38.85 Aligned_cols=30 Identities=20% Similarity=0.325 Sum_probs=20.4
Q ss_pred cccccCCCCCCCCCcCCCChhhhHHHhhhc
Q 044109 142 QNHYSSISSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 142 H~r~hkp~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
|++...|..||+|+..+.+.-+|++|+.++
T Consensus 18 ~~~S~~PatCP~C~a~~~~srnLrRHle~~ 47 (54)
T PF09237_consen 18 KSQSEQPATCPICGAVIRQSRNLRRHLEIR 47 (54)
T ss_dssp CCTTS--EE-TTT--EESSHHHHHHHHHHH
T ss_pred hhccCCCCCCCcchhhccchhhHHHHHHHH
Confidence 333338999999999999999999999665
No 39
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=94.89 E-value=0.0056 Score=55.85 Aligned_cols=49 Identities=10% Similarity=0.170 Sum_probs=36.8
Q ss_pred CccCcCCCCCccCCCCcccCCcc--cccc--cc-cCCCCCCCCCcCCCChhhhHHHhhhcCCC
Q 044109 117 LAKRGQRIGTYTAASPFAFGQPY--LHQN--HY-SSISSLPLHGAAYNRSLGIQVHSMIHKPS 174 (236)
Q Consensus 117 ~~C~~~~C~k~~~~~~~~f~~~~--~~H~--r~-hkp~~C~~Cgk~F~~~~~L~~H~~~HkP~ 174 (236)
|.|+ .|.- .|...+ ..|. |+ |--|.|++|+|+|+-+.+|..|.|-|||.
T Consensus 268 yiCq--LCK~-------kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR 321 (500)
T KOG3993|consen 268 YICQ--LCKE-------KYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPR 321 (500)
T ss_pred HHHH--HHHH-------hhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCc
Confidence 7788 8876 444442 3443 22 36799999999999999999999999764
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=94.88 E-value=0.011 Score=32.96 Aligned_cols=22 Identities=32% Similarity=0.703 Sum_probs=20.5
Q ss_pred eecccccccccCchhhhhhhhc
Q 044109 89 FSCNYCQRKFYSSQALGGHQNA 110 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~ 110 (236)
|.|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7899999999999999999875
No 41
>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=94.55 E-value=0.013 Score=38.37 Aligned_cols=45 Identities=9% Similarity=0.098 Sum_probs=29.7
Q ss_pred CCccCcCCCCCccCCCCcccCCc-cccccc-cc----CCCCCCCCCcCCCChhhhHHHhhhc
Q 044109 116 TLAKRGQRIGTYTAASPFAFGQP-YLHQNH-YS----SISSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 116 p~~C~~~~C~k~~~~~~~~f~~~-~~~H~r-~h----kp~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
.|.|+ .|++ .|... |..|.. .| +.+.||+|...+. .+|..|+.++
T Consensus 2 ~f~CP--~C~~-------~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCP--YCGK-------GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred CcCCC--CCCC-------ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHh
Confidence 47888 8988 44433 444432 23 6788999988654 3788887654
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.25 E-value=0.014 Score=31.52 Aligned_cols=24 Identities=17% Similarity=0.202 Sum_probs=18.3
Q ss_pred CCCCCCCcCCCChhhhHHHhhhcCC
Q 044109 149 SSLPLHGAAYNRSLGIQVHSMIHKP 173 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~~HkP 173 (236)
|.|+.|..... ...|..|+++|.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 67999998877 8899999988643
No 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.17 E-value=0.016 Score=31.46 Aligned_cols=23 Identities=4% Similarity=0.044 Sum_probs=20.5
Q ss_pred CCCCCCCcCCCChhhhHHHhhhc
Q 044109 149 SSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
|.|.+|++.|.....|+.|++.+
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 57999999999999999998764
No 44
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.47 E-value=0.036 Score=30.49 Aligned_cols=21 Identities=33% Similarity=0.749 Sum_probs=17.5
Q ss_pred eecccccccccCchhhhhhhhc
Q 044109 89 FSCNYCQRKFYSSQALGGHQNA 110 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~ 110 (236)
..|..|+++| ....|.+|+.+
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 67789999764
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=93.40 E-value=0.032 Score=29.99 Aligned_cols=23 Identities=22% Similarity=0.473 Sum_probs=18.1
Q ss_pred eecccccccccCchhhhhhhhccC
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAHK 112 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~Ht 112 (236)
|+|..|..... ...|..|++.|.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999998887 889999998753
No 46
>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=93.08 E-value=0.04 Score=30.62 Aligned_cols=22 Identities=5% Similarity=-0.084 Sum_probs=19.8
Q ss_pred CCCCCCCcCCCChhhhHHHhhh
Q 044109 149 SSLPLHGAAYNRSLGIQVHSMI 170 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~~ 170 (236)
|-|..|++.|.....|..|++.
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 6799999999999999999865
No 47
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.65 E-value=0.095 Score=28.78 Aligned_cols=21 Identities=19% Similarity=0.398 Sum_probs=17.3
Q ss_pred CCCCCCCcCCCChhhhHHHhhh
Q 044109 149 SSLPLHGAAYNRSLGIQVHSMI 170 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~~ 170 (236)
..|+.||+.| ....|.+|+.+
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 56788999764
No 48
>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=90.98 E-value=0.13 Score=30.07 Aligned_cols=23 Identities=22% Similarity=0.531 Sum_probs=20.6
Q ss_pred eeecccccccccCchhhhhhhhc
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNA 110 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~ 110 (236)
+|.|.+|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58999999999999999999764
No 49
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=89.77 E-value=0.23 Score=44.49 Aligned_cols=67 Identities=16% Similarity=0.199 Sum_probs=48.1
Q ss_pred ceeecccccccccCchhhhhhhh--ccCCC--CCCccCcCCCCCccCCCCcccCCc--cccccccc---CCCCCCC--CC
Q 044109 87 RVFSCNYCQRKFYSSQALGGHQN--AHKRE--RTLAKRGQRIGTYTAASPFAFGQP--YLHQNHYS---SISSLPL--HG 155 (236)
Q Consensus 87 kpf~C~~C~k~F~~~~~L~~H~r--~Htge--kp~~C~~~~C~k~~~~~~~~f~~~--~~~H~r~h---kp~~C~~--Cg 155 (236)
.++.|..|...|.....|..|.+ .|+++ +|+.|.+..|++ .|.+. +..|...| +++.|.. |.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGK-------LFSRNDALKRHILLHTSISPAKEKLLNSS 360 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCc-------cccccccccCCcccccCCCccccccccCc
Confidence 57899999999999999999999 79999 999998556888 45444 36666666 4444433 44
Q ss_pred cCCCC
Q 044109 156 AAYNR 160 (236)
Q Consensus 156 k~F~~ 160 (236)
+.+..
T Consensus 361 ~~~~~ 365 (467)
T COG5048 361 SKFSP 365 (467)
T ss_pred ccccc
Confidence 44443
No 50
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=88.26 E-value=0.25 Score=35.46 Aligned_cols=24 Identities=38% Similarity=0.829 Sum_probs=21.5
Q ss_pred eeecccccccccCchhhhhhhhcc
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAH 111 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~H 111 (236)
.+.|.+|++.|.+...|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 799999999999999999999864
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=87.96 E-value=0.34 Score=28.16 Aligned_cols=23 Identities=9% Similarity=0.062 Sum_probs=19.8
Q ss_pred CCCCCCCCcCCCChhhhHHHhhh
Q 044109 148 ISSLPLHGAAYNRSLGIQVHSMI 170 (236)
Q Consensus 148 p~~C~~Cgk~F~~~~~L~~H~~~ 170 (236)
+|.|.+|++.|.....+..|.+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57799999999999999999754
No 52
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=87.87 E-value=0.85 Score=40.79 Aligned_cols=45 Identities=22% Similarity=0.340 Sum_probs=40.6
Q ss_pred CCCCC--ceeecc--cccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 82 HPSEQ--RVFSCN--YCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 82 ~htge--kpf~C~--~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
.|+++ +++.|. .|++.|.+...+.+|..+|++-+++.|....|.+
T Consensus 313 ~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 361 (467)
T COG5048 313 NHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSS 361 (467)
T ss_pred ccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcc
Confidence 79999 999999 7999999999999999999999998887556655
No 53
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=85.33 E-value=0.63 Score=48.42 Aligned_cols=77 Identities=13% Similarity=0.176 Sum_probs=50.7
Q ss_pred CCCCCceeecccccccccCchhhhhhhhc-cCCCCCCccCcCCCCCccCCCCcccCCcc-cccc--ccc-CCCCCCCCCc
Q 044109 82 HPSEQRVFSCNYCQRKFYSSQALGGHQNA-HKRERTLAKRGQRIGTYTAASPFAFGQPY-LHQN--HYS-SISSLPLHGA 156 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~~~~L~~H~r~-Htgekp~~C~~~~C~k~~~~~~~~f~~~~-~~H~--r~h-kp~~C~~Cgk 156 (236)
.|+-.|-|.|..|+-.|...+.|..|||. |..-+--.|. . .-.+.. .+-. +.- ++|.|..|..
T Consensus 459 L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~-----~-------gq~~~~~arg~~~~~~~~p~~C~~C~~ 526 (1406)
T KOG1146|consen 459 LHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCK-----A-------GQNHPRLARGEVYRCPGKPYPCRACNY 526 (1406)
T ss_pred eecccccccCCccchhhhhHHHhhhcccccccccchhHhH-----h-------ccccccccccccccCCCCcccceeeee
Confidence 45556889999999999999999999986 3322221222 1 000010 0000 011 8999999999
Q ss_pred CCCChhhhHHHhhh
Q 044109 157 AYNRSLGIQVHSMI 170 (236)
Q Consensus 157 ~F~~~~~L~~H~~~ 170 (236)
.++.+.+|.+|++.
T Consensus 527 stttng~LsihlqS 540 (1406)
T KOG1146|consen 527 STTTNGNLSIHLQS 540 (1406)
T ss_pred eeecchHHHHHHHH
Confidence 99999999999754
No 54
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=85.05 E-value=0.4 Score=42.61 Aligned_cols=25 Identities=16% Similarity=0.634 Sum_probs=20.0
Q ss_pred CCCceeecccccccccCchhhhhhh
Q 044109 84 SEQRVFSCNYCQRKFYSSQALGGHQ 108 (236)
Q Consensus 84 tgekpf~C~~C~k~F~~~~~L~~H~ 108 (236)
...|||+|.+|+|++...-.|+-|+
T Consensus 394 ~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 394 AKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred ccCCceeccccchhhccCccceecc
Confidence 3458888888888888888888774
No 55
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=83.00 E-value=0.62 Score=39.32 Aligned_cols=25 Identities=16% Similarity=0.538 Sum_probs=20.1
Q ss_pred CceeecccccccccCchhhhhhhhc
Q 044109 86 QRVFSCNYCQRKFYSSQALGGHQNA 110 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~~L~~H~r~ 110 (236)
+|.+.|++|++.|.+...+.+..++
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceE
Confidence 4678999999999998877766654
No 56
>PRK04860 hypothetical protein; Provisional
Probab=79.21 E-value=1.1 Score=36.20 Aligned_cols=37 Identities=8% Similarity=0.008 Sum_probs=28.6
Q ss_pred CCCCCCCCCcCCCChhhhHHHhhhcCCCCCCCCCCCCCCCC
Q 044109 147 SISSLPLHGAAYNRSLGIQVHSMIHKPSHTSTSHGNGNIYG 187 (236)
Q Consensus 147 kp~~C~~Cgk~F~~~~~L~~H~~~HkP~~~~~~~~~g~~~~ 187 (236)
-+|.|. |++ ....+++|.++|......-|..|+..+.
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 378897 887 6677889999998877777777776554
No 57
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=74.65 E-value=1.3 Score=29.55 Aligned_cols=9 Identities=22% Similarity=0.205 Sum_probs=7.5
Q ss_pred CCCCCCCCC
Q 044109 147 SISSLPLHG 155 (236)
Q Consensus 147 kp~~C~~Cg 155 (236)
.+|.||.||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 788888887
No 58
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=73.71 E-value=1.6 Score=37.37 Aligned_cols=39 Identities=28% Similarity=0.472 Sum_probs=31.6
Q ss_pred ceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCc
Q 044109 87 RVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQP 138 (236)
Q Consensus 87 kpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~ 138 (236)
|| -|=||++.|-...-|..||++ |-|+|- .|.|+ .|...
T Consensus 10 kp-wcwycnrefddekiliqhqka----khfkch--ichkk------l~sgp 48 (341)
T KOG2893|consen 10 KP-WCWYCNREFDDEKILIQHQKA----KHFKCH--ICHKK------LFSGP 48 (341)
T ss_pred Cc-eeeecccccchhhhhhhhhhh----ccceee--eehhh------hccCC
Confidence 44 489999999999999999864 568999 99984 56555
No 59
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=73.59 E-value=1.6 Score=28.83 Aligned_cols=30 Identities=17% Similarity=0.298 Sum_probs=25.9
Q ss_pred CCCCCceeecccccccccCchhhhhhhhcc
Q 044109 82 HPSEQRVFSCNYCQRKFYSSQALGGHQNAH 111 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~~~~L~~H~r~H 111 (236)
+.-||.-+.|+-|+..|.......+|.+.-
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKa 40 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKA 40 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHH
Confidence 456888999999999999999999998743
No 60
>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=72.93 E-value=2.4 Score=26.08 Aligned_cols=24 Identities=25% Similarity=0.556 Sum_probs=16.0
Q ss_pred CCceeecccccccccCc----hhhhhhh
Q 044109 85 EQRVFSCNYCQRKFYSS----QALGGHQ 108 (236)
Q Consensus 85 gekpf~C~~C~k~F~~~----~~L~~H~ 108 (236)
+....+|.+|++.+... +.|.+|+
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 44667999999988774 7899998
No 61
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=70.84 E-value=2.6 Score=26.82 Aligned_cols=25 Identities=32% Similarity=0.614 Sum_probs=19.7
Q ss_pred eeecccccccccCc-----hhhhhhhh-ccC
Q 044109 88 VFSCNYCQRKFYSS-----QALGGHQN-AHK 112 (236)
Q Consensus 88 pf~C~~C~k~F~~~-----~~L~~H~r-~Ht 112 (236)
--.|.+|++.+... ++|.+|++ .|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 45899999998766 58999987 554
No 62
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=67.89 E-value=1.6 Score=45.50 Aligned_cols=64 Identities=14% Similarity=0.111 Sum_probs=41.3
Q ss_pred CceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCc--cccccccc---CCCCCCCCCcCCCC
Q 044109 86 QRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQP--YLHQNHYS---SISSLPLHGAAYNR 160 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~--~~~H~r~h---kp~~C~~Cgk~F~~ 160 (236)
..+|.|..|.-.|.....|..|++ +|. + .+... ..-|...+ ++| |..|...|..
T Consensus 1282 ~~~~~~~~~~~~~~~~~~l~~~~~--------k~~-----~-------~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~~~ 1340 (1406)
T KOG1146|consen 1282 THRYLCRQCKMAFDGEAPLTAHQR--------KFC-----F-------AGRGSGGSMPPPLRVPDCTYH-CLACEVLLSG 1340 (1406)
T ss_pred chhHHHHHHHhhhcchhHHHHHHH--------HHH-----h-------ccCccccCCCCcccCcccccc-chHHHhhcch
Confidence 356777777777777777777761 111 1 11111 12233333 677 9999999999
Q ss_pred hhhhHHHhhh
Q 044109 161 SLGIQVHSMI 170 (236)
Q Consensus 161 ~~~L~~H~~~ 170 (236)
...|+.|+++
T Consensus 1341 ~~alqihm~~ 1350 (1406)
T KOG1146|consen 1341 REALQIHMRS 1350 (1406)
T ss_pred hHHHHHHHHH
Confidence 9999999987
No 63
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=67.38 E-value=2.6 Score=32.90 Aligned_cols=28 Identities=25% Similarity=0.431 Sum_probs=18.2
Q ss_pred CceeecccccccccCchhhhhhhhccCCCCC
Q 044109 86 QRVFSCNYCQRKFYSSQALGGHQNAHKRERT 116 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~~L~~H~r~Htgekp 116 (236)
+.-..|-+|||.|.. |++|.+.|.|--|
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred cCeeEEccCCcccch---HHHHHHHccCCCH
Confidence 445689999999987 6999999987654
No 64
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=67.26 E-value=2.3 Score=41.88 Aligned_cols=56 Identities=14% Similarity=0.277 Sum_probs=39.9
Q ss_pred ecccccccccCchhhhhhhhccCCCCCCc-cCcCCCCCccCCCCcccCCccccccccc-CCCCCCCCCcC
Q 044109 90 SCNYCQRKFYSSQALGGHQNAHKRERTLA-KRGQRIGTYTAASPFAFGQPYLHQNHYS-SISSLPLHGAA 157 (236)
Q Consensus 90 ~C~~C~k~F~~~~~L~~H~r~Htgekp~~-C~~~~C~k~~~~~~~~f~~~~~~H~r~h-kp~~C~~Cgk~ 157 (236)
.|+.||-+|+...+|--- |-+|.-+.|. |. .|.+ -+..++ -.|+| .|..||.||-.
T Consensus 125 ~CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~--~C~~-------EY~dP~--nRRfHAQp~aCp~CGP~ 182 (750)
T COG0068 125 NCTNCGPRFTIIEALPYD-RENTSMADFPLCP--FCDK-------EYKDPL--NRRFHAQPIACPKCGPH 182 (750)
T ss_pred ccCCCCcceeeeccCCCC-cccCccccCcCCH--HHHH-------HhcCcc--ccccccccccCcccCCC
Confidence 588899999887776533 4455555554 88 8887 676665 23567 88999999964
No 65
>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=65.75 E-value=3.9 Score=35.51 Aligned_cols=85 Identities=14% Similarity=0.234 Sum_probs=50.6
Q ss_pred CCCCceeecccccccccCchhhhhhhhccC--CCCCCccCcCCCCCccCCCCcccCCc--c-ccccccc-------CCCC
Q 044109 83 PSEQRVFSCNYCQRKFYSSQALGGHQNAHK--RERTLAKRGQRIGTYTAASPFAFGQP--Y-LHQNHYS-------SISS 150 (236)
Q Consensus 83 htgekpf~C~~C~k~F~~~~~L~~H~r~Ht--gekp~~C~~~~C~k~~~~~~~~f~~~--~-~~H~r~h-------kp~~ 150 (236)
..|.|.|+|.+|.. |.-...--.||..-- ..-.|+|. .|.+.-- -..+.-. + -.|.|.. +++.
T Consensus 137 ~hGGrif~CsfC~~-flCEDDQFEHQAsCQvLe~E~~KC~--SCNrlGq--~sCLRCK~cfCddHvrrKg~ky~k~k~~P 211 (314)
T PF06524_consen 137 DHGGRIFKCSFCDN-FLCEDDQFEHQASCQVLESETFKCQ--SCNRLGQ--YSCLRCKICFCDDHVRRKGFKYEKGKPIP 211 (314)
T ss_pred cCCCeEEEeecCCC-eeeccchhhhhhhhhhhhccccccc--ccccccc--hhhhheeeeehhhhhhhcccccccCCCCC
Confidence 45779999999985 444444445664311 12367887 7776100 0000001 1 3343321 8999
Q ss_pred CCCCCcCCCChhhhHHHhhhcC
Q 044109 151 LPLHGAAYNRSLGIQVHSMIHK 172 (236)
Q Consensus 151 C~~Cgk~F~~~~~L~~H~~~Hk 172 (236)
||.||........|..-.|+|+
T Consensus 212 CPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 212 CPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred CCCCCCcccccccceeeeecch
Confidence 9999988777778877778774
No 66
>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=65.71 E-value=4.9 Score=23.32 Aligned_cols=10 Identities=20% Similarity=0.843 Sum_probs=6.0
Q ss_pred eecccccccc
Q 044109 89 FSCNYCQRKF 98 (236)
Q Consensus 89 f~C~~C~k~F 98 (236)
|.|..||..+
T Consensus 2 ~~C~~CGy~y 11 (33)
T cd00350 2 YVCPVCGYIY 11 (33)
T ss_pred EECCCCCCEE
Confidence 5666776543
No 67
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=61.60 E-value=5.4 Score=39.76 Aligned_cols=48 Identities=19% Similarity=0.141 Sum_probs=29.8
Q ss_pred ecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCcC
Q 044109 90 SCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGAA 157 (236)
Q Consensus 90 ~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk~ 157 (236)
.|..||..|... +...-+..|...+-..|. .||. . ...|..||.||..
T Consensus 437 ~C~~Cg~v~~Cp-~Cd~~lt~H~~~~~L~CH--~Cg~-------~----------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 437 LCRDCGYIAECP-NCDSPLTLHKATGQLRCH--YCGY-------Q----------EPIPQSCPECGSE 484 (730)
T ss_pred ecccCCCcccCC-CCCcceEEecCCCeeEeC--CCCC-------C----------CCCCCCCCCCCCC
Confidence 577776655432 122223445555677888 8887 1 1268899999975
No 68
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=60.88 E-value=7.6 Score=35.07 Aligned_cols=42 Identities=17% Similarity=0.366 Sum_probs=27.0
Q ss_pred CCCCceeecccccccccCchhhhhhhhccCCCCCCc--cCcCCCCC
Q 044109 83 PSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLA--KRGQRIGT 126 (236)
Q Consensus 83 htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~--C~~~~C~k 126 (236)
|-.+.-|.|.||++.=.+...|+.|...-.-+-++. |. .|..
T Consensus 74 ~y~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp--~c~~ 117 (381)
T KOG1280|consen 74 HYDPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICP--LCAA 117 (381)
T ss_pred ccccccccCCcccccccchhHHHHHhhhcCcccCcceeee--cccc
Confidence 334557888999888777788888854433333333 45 7766
No 69
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=60.30 E-value=4.1 Score=27.17 Aligned_cols=10 Identities=20% Similarity=0.165 Sum_probs=7.9
Q ss_pred CCCCCCCCCc
Q 044109 147 SISSLPLHGA 156 (236)
Q Consensus 147 kp~~C~~Cgk 156 (236)
.+|.||.||-
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 6888888873
No 70
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=60.15 E-value=4.9 Score=24.03 Aligned_cols=30 Identities=17% Similarity=0.357 Sum_probs=17.0
Q ss_pred eeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
.|+|..||+.|....... . .....|. .||.
T Consensus 5 ~y~C~~Cg~~fe~~~~~~------~-~~~~~CP--~Cg~ 34 (41)
T smart00834 5 EYRCEDCGHTFEVLQKIS------D-DPLATCP--ECGG 34 (41)
T ss_pred EEEcCCCCCEEEEEEecC------C-CCCCCCC--CCCC
Confidence 367777777776543321 1 3344566 6665
No 71
>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=59.88 E-value=4.6 Score=25.70 Aligned_cols=30 Identities=17% Similarity=0.388 Sum_probs=18.2
Q ss_pred eeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
-|+|..|+..|.....+. . +.+..|. .||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~------~-~~~~~CP--~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMS------D-DPLATCP--ECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecC------C-CCCCCCC--CCCC
Confidence 378888888777543221 1 3445677 7775
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=59.68 E-value=18 Score=27.34 Aligned_cols=78 Identities=13% Similarity=0.101 Sum_probs=50.2
Q ss_pred CceeecccccccccCchhhhhhhhccCCCCCC------------ccCcCCCCCccCCCCcccCCcc---cccccccCCCC
Q 044109 86 QRVFSCNYCQRKFYSSQALGGHQNAHKRERTL------------AKRGQRIGTYTAASPFAFGQPY---LHQNHYSSISS 150 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~------------~C~~~~C~k~~~~~~~~f~~~~---~~H~r~hkp~~ 150 (236)
+-|-.|+.|+-....+.+|.+-..--.--++| .|- .|.+ .|...- ..-......|.
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~--~C~~-------~f~~~~~~~~~~~~~~~~y~ 83 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCF--GCQG-------PFPKPPVSPFDELKDSHRYV 83 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCccc--CcCC-------CCCCccccccccccccccee
Confidence 35678999999998888888764211111222 377 7777 333220 00011125789
Q ss_pred CCCCCcCCCChhhhHHHhhhcC
Q 044109 151 LPLHGAAYNRSLGIQVHSMIHK 172 (236)
Q Consensus 151 C~~Cgk~F~~~~~L~~H~~~Hk 172 (236)
|+.|...|--.-.+-.|..+|.
T Consensus 84 C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 84 CAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred CCCCCCccccccchhhhhhccC
Confidence 9999999998888888888874
No 73
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=57.56 E-value=2.9 Score=35.83 Aligned_cols=31 Identities=29% Similarity=0.686 Sum_probs=26.2
Q ss_pred CCCCceeecccccccccCchhhhhh-hhccCC
Q 044109 83 PSEQRVFSCNYCQRKFYSSQALGGH-QNAHKR 113 (236)
Q Consensus 83 htgekpf~C~~C~k~F~~~~~L~~H-~r~Htg 113 (236)
|..-|.|+|.+|.|+..+-..|..| +.+|+.
T Consensus 29 hqkakhfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 29 HQKAKHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred hhhhccceeeeehhhhccCCCceeehhhhhhh
Confidence 5566889999999999999999999 677764
No 74
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=57.12 E-value=9 Score=21.04 Aligned_cols=20 Identities=15% Similarity=-0.074 Sum_probs=14.8
Q ss_pred CCCCCCCcCCCChhhhHHHhh
Q 044109 149 SSLPLHGAAYNRSLGIQVHSM 169 (236)
Q Consensus 149 ~~C~~Cgk~F~~~~~L~~H~~ 169 (236)
..||+|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999987 4566777764
No 75
>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=56.29 E-value=6.8 Score=29.48 Aligned_cols=11 Identities=45% Similarity=1.168 Sum_probs=6.3
Q ss_pred ecccccccccC
Q 044109 90 SCNYCQRKFYS 100 (236)
Q Consensus 90 ~C~~C~k~F~~ 100 (236)
.|..||++|+-
T Consensus 11 ~Cp~CG~kFYD 21 (108)
T PF09538_consen 11 TCPSCGAKFYD 21 (108)
T ss_pred cCCCCcchhcc
Confidence 45566665554
No 76
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=55.14 E-value=5.2 Score=31.23 Aligned_cols=26 Identities=27% Similarity=0.259 Sum_probs=22.4
Q ss_pred eeecccccccccCchhhhhhhhccCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKRERT 116 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htgekp 116 (236)
-..|-+|||+|.+ |++|..+|.|--|
T Consensus 76 ~IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 76 YIICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred eEEEeccCcchHH---HHHHHhcccCCCH
Confidence 3589999999976 9999999998765
No 77
>PRK14873 primosome assembly protein PriA; Provisional
Probab=54.17 E-value=7.2 Score=38.56 Aligned_cols=53 Identities=17% Similarity=0.080 Sum_probs=34.8
Q ss_pred CCcee-ecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCcCC
Q 044109 85 EQRVF-SCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGAAY 158 (236)
Q Consensus 85 gekpf-~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk~F 158 (236)
|--|+ .|..||..+... +....+..|...+...|. .||. . . .|..|+.||...
T Consensus 379 Gyap~l~C~~Cg~~~~C~-~C~~~L~~h~~~~~l~Ch--~CG~-------~----------~-~p~~Cp~Cgs~~ 432 (665)
T PRK14873 379 GYVPSLACARCRTPARCR-HCTGPLGLPSAGGTPRCR--WCGR-------A----------A-PDWRCPRCGSDR 432 (665)
T ss_pred CCCCeeEhhhCcCeeECC-CCCCceeEecCCCeeECC--CCcC-------C----------C-cCccCCCCcCCc
Confidence 44344 788887765543 234455566667778899 9997 1 1 467899999753
No 78
>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=54.15 E-value=9 Score=28.82 Aligned_cols=15 Identities=13% Similarity=0.191 Sum_probs=11.3
Q ss_pred CCCCCCCCCcCCCCh
Q 044109 147 SISSLPLHGAAYNRS 161 (236)
Q Consensus 147 kp~~C~~Cgk~F~~~ 161 (236)
.|-.||.||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 577788898877644
No 79
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=54.12 E-value=8.3 Score=30.39 Aligned_cols=17 Identities=29% Similarity=0.634 Sum_probs=9.6
Q ss_pred ceeecccccccccCchh
Q 044109 87 RVFSCNYCQRKFYSSQA 103 (236)
Q Consensus 87 kpf~C~~C~k~F~~~~~ 103 (236)
.-|.|+.|++.|....+
T Consensus 98 ~~Y~Cp~C~~~y~~~ea 114 (147)
T smart00531 98 AYYKCPNCQSKYTFLEA 114 (147)
T ss_pred cEEECcCCCCEeeHHHH
Confidence 45666666666654443
No 80
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=53.15 E-value=11 Score=30.57 Aligned_cols=24 Identities=25% Similarity=0.437 Sum_probs=14.6
Q ss_pred eeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
.|.|.+||. +|.|+-|-.|+ .||.
T Consensus 134 ~~vC~vCGy-------------~~~ge~P~~CP--iCga 157 (166)
T COG1592 134 VWVCPVCGY-------------THEGEAPEVCP--ICGA 157 (166)
T ss_pred EEEcCCCCC-------------cccCCCCCcCC--CCCC
Confidence 566766653 45556666666 6663
No 81
>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=53.05 E-value=10 Score=22.23 Aligned_cols=10 Identities=30% Similarity=0.514 Sum_probs=5.8
Q ss_pred CCCCCCCCCc
Q 044109 147 SISSLPLHGA 156 (236)
Q Consensus 147 kp~~C~~Cgk 156 (236)
.|..||+||.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 3556666664
No 82
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=50.17 E-value=9.6 Score=27.51 Aligned_cols=18 Identities=6% Similarity=0.126 Sum_probs=9.0
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 044109 175 HTSTSHGNGNIYGHNNWS 192 (236)
Q Consensus 175 ~~~~~~~~g~~~~~~~~~ 192 (236)
.++.|..||+.|.-++|.
T Consensus 52 GIW~C~kCg~~fAGgay~ 69 (89)
T COG1997 52 GIWKCRKCGAKFAGGAYT 69 (89)
T ss_pred CeEEcCCCCCeecccccc
Confidence 344455555555544443
No 83
>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=48.49 E-value=9.1 Score=23.47 Aligned_cols=30 Identities=17% Similarity=0.469 Sum_probs=17.3
Q ss_pred eeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
.|+|..||..|-....+ .. ..+..|. .||.
T Consensus 5 ey~C~~Cg~~fe~~~~~------~~-~~~~~CP--~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSI------SE-DDPVPCP--ECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEc------CC-CCCCcCC--CCCC
Confidence 36777777777654332 22 3455666 6665
No 84
>PHA00626 hypothetical protein
Probab=48.06 E-value=13 Score=24.54 Aligned_cols=14 Identities=7% Similarity=-0.263 Sum_probs=10.0
Q ss_pred CCCCCCCCCcCCCC
Q 044109 147 SISSLPLHGAAYNR 160 (236)
Q Consensus 147 kp~~C~~Cgk~F~~ 160 (236)
..|.|+.||..|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 56788888876653
No 85
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=48.03 E-value=9.3 Score=31.29 Aligned_cols=9 Identities=22% Similarity=0.228 Sum_probs=4.7
Q ss_pred CCCCCCCcC
Q 044109 149 SSLPLHGAA 157 (236)
Q Consensus 149 ~~C~~Cgk~ 157 (236)
|.||.||..
T Consensus 137 F~Cp~Cg~~ 145 (178)
T PRK06266 137 FRCPQCGEM 145 (178)
T ss_pred CcCCCCCCC
Confidence 455555543
No 86
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=46.63 E-value=13 Score=35.47 Aligned_cols=48 Identities=19% Similarity=0.218 Sum_probs=31.6
Q ss_pred ecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCcC
Q 044109 90 SCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGAA 157 (236)
Q Consensus 90 ~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk~ 157 (236)
.|..||....-. +....+..|.......|. .||. . ..-|..||.||..
T Consensus 215 ~C~~Cg~~~~C~-~C~~~l~~h~~~~~l~Ch--~Cg~-------~----------~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 215 LCRSCGYILCCP-NCDVSLTYHKKEGKLRCH--YCGY-------Q----------EPIPKTCPQCGSE 262 (505)
T ss_pred EhhhCcCccCCC-CCCCceEEecCCCeEEcC--CCcC-------c----------CCCCCCCCCCCCC
Confidence 677777665443 234456667777778888 8887 1 1146679999874
No 87
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=46.09 E-value=11 Score=29.83 Aligned_cols=21 Identities=29% Similarity=0.260 Sum_probs=13.2
Q ss_pred hhhhhhccCCCCC----CccCcCCCCC
Q 044109 104 LGGHQNAHKRERT----LAKRGQRIGT 126 (236)
Q Consensus 104 L~~H~r~Htgekp----~~C~~~~C~k 126 (236)
|..|..-|+||++ |.|. .||.
T Consensus 96 ~~h~g~Y~sGE~~g~G~l~C~--~Cg~ 120 (146)
T PF07295_consen 96 LEHHGVYHSGEVVGPGTLVCE--NCGH 120 (146)
T ss_pred HHhcCCeecCcEecCceEecc--cCCC
Confidence 3333345677754 7788 8887
No 88
>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=45.81 E-value=8.9 Score=20.82 Aligned_cols=10 Identities=20% Similarity=0.006 Sum_probs=7.3
Q ss_pred CCCCCCCCCc
Q 044109 147 SISSLPLHGA 156 (236)
Q Consensus 147 kp~~C~~Cgk 156 (236)
.+|.||.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 5677888874
No 89
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=45.50 E-value=4.4 Score=39.99 Aligned_cols=27 Identities=22% Similarity=0.721 Sum_probs=24.5
Q ss_pred ceeecccccccccCchhhhhhhhccCC
Q 044109 87 RVFSCNYCQRKFYSSQALGGHQNAHKR 113 (236)
Q Consensus 87 kpf~C~~C~k~F~~~~~L~~H~r~Htg 113 (236)
.-|.|.+|+|.|.--..+..||++|.-
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 469999999999999999999999973
No 90
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=44.83 E-value=16 Score=22.33 Aligned_cols=24 Identities=21% Similarity=0.387 Sum_probs=16.2
Q ss_pred CCCCCCCcCCCC--hhhhHHHhhhcC
Q 044109 149 SSLPLHGAAYNR--SLGIQVHSMIHK 172 (236)
Q Consensus 149 ~~C~~Cgk~F~~--~~~L~~H~~~Hk 172 (236)
-.|+.||..|+. ...-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 468888887764 445567776663
No 91
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.89 E-value=9 Score=37.68 Aligned_cols=25 Identities=40% Similarity=0.761 Sum_probs=17.2
Q ss_pred eeccccccccc---------------Cchhhhhhhh-ccCC
Q 044109 89 FSCNYCQRKFY---------------SSQALGGHQN-AHKR 113 (236)
Q Consensus 89 f~C~~C~k~F~---------------~~~~L~~H~r-~Htg 113 (236)
+.|..|.+.|. ....|+.|++ .|..
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~~ 140 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHKL 140 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhhh
Confidence 46777777663 7788999984 4553
No 92
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.69 E-value=14 Score=24.80 Aligned_cols=44 Identities=11% Similarity=0.068 Sum_probs=25.2
Q ss_pred hhhccCCCCCCccCcCCCCCccCCCCcccCCcc-cccccccCCCCCCCCCcCCC
Q 044109 107 HQNAHKRERTLAKRGQRIGTYTAASPFAFGQPY-LHQNHYSSISSLPLHGAAYN 159 (236)
Q Consensus 107 H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~-~~H~r~hkp~~C~~Cgk~F~ 159 (236)
|.-++.+.+++.|. .-+- .|.++. ..-+.-..--.||.|++.|.
T Consensus 15 ~~~I~~~~~~l~C~--g~~~-------p~~HPrV~L~mg~~gev~CPYC~t~y~ 59 (62)
T COG4391 15 HETIEIGDLPLMCP--GPEP-------PNDHPRVFLDMGDEGEVVCPYCSTRYR 59 (62)
T ss_pred ceEEEeCCeeEEcC--CCCC-------CCCCCEEEEEcCCCCcEecCccccEEE
Confidence 66778888888888 4443 344441 00000004456999988774
No 93
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=43.50 E-value=14 Score=29.98 Aligned_cols=24 Identities=17% Similarity=0.148 Sum_probs=17.8
Q ss_pred CCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCc
Q 044109 116 TLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGA 156 (236)
Q Consensus 116 p~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk 156 (236)
-|.|+ .||. .+.. --|-.||+||-
T Consensus 134 ~~vC~--vCGy-------~~~g--------e~P~~CPiCga 157 (166)
T COG1592 134 VWVCP--VCGY-------THEG--------EAPEVCPICGA 157 (166)
T ss_pred EEEcC--CCCC-------cccC--------CCCCcCCCCCC
Confidence 59999 9998 2211 26889999994
No 94
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=43.10 E-value=12 Score=29.83 Aligned_cols=35 Identities=17% Similarity=0.489 Sum_probs=27.0
Q ss_pred CCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 85 EQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 85 gekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
..-+|.|. |+..|.+ ..+|-.+-.|+ .|.|. .|+-
T Consensus 114 ~~~~Y~C~-C~q~~l~---~RRhn~~~~g~-~YrC~--~C~g 148 (156)
T COG3091 114 TTYPYRCQ-CQQHYLR---IRRHNTVRRGE-VYRCG--KCGG 148 (156)
T ss_pred cceeEEee-cCCccch---hhhcccccccc-eEEec--cCCc
Confidence 45689999 9988665 35566666777 89999 9976
No 95
>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=43.06 E-value=16 Score=29.28 Aligned_cols=20 Identities=20% Similarity=0.338 Sum_probs=11.4
Q ss_pred CceeecccccccccCchhhh
Q 044109 86 QRVFSCNYCQRKFYSSQALG 105 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~~L~ 105 (236)
..-|.|+.|+.+|+...++.
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~ 126 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME 126 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH
Confidence 34456666666666655553
No 96
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=42.93 E-value=3.9 Score=40.36 Aligned_cols=25 Identities=16% Similarity=0.135 Sum_probs=22.6
Q ss_pred CCCCCCCCCcCCCChhhhHHHhhhc
Q 044109 147 SISSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 147 kp~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
-.|.|.+|+|+|..-..+..||++|
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHH
Confidence 5689999999999888889999999
No 97
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=42.40 E-value=18 Score=32.83 Aligned_cols=56 Identities=14% Similarity=0.047 Sum_probs=36.6
Q ss_pred CCCCCccCcCCCCCccCCCCcccCCcc---cccccccCCCCCCCCCcCCCChhhhHHHhh
Q 044109 113 RERTLAKRGQRIGTYTAASPFAFGQPY---LHQNHYSSISSLPLHGAAYNRSLGIQVHSM 169 (236)
Q Consensus 113 gekp~~C~~~~C~k~~~~~~~~f~~~~---~~H~r~hkp~~C~~Cgk~F~~~~~L~~H~~ 169 (236)
.|+++.|..+.|.++...+...-.... ..-.++.+||+|+ |++++..+..|+.|..
T Consensus 175 EE~~~S~~vp~~~~~~~~~Ns~~~~S~~~~~T~~t~~~p~k~~-~~~~~~T~~~l~~HS~ 233 (442)
T KOG4124|consen 175 EEYRVSVVVPAAAAAAAAANSSDMSSDEASSTAETTGTPKKMP-ESLVMDTSSPLSDHSM 233 (442)
T ss_pred ccccccccCchhhhhhhccccccccccccccccccccCCccCc-ccccccccchhhhccc
Confidence 478999987788874333322222221 2222333999997 8999999999999954
No 98
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=42.19 E-value=15 Score=33.25 Aligned_cols=29 Identities=28% Similarity=0.634 Sum_probs=24.4
Q ss_pred eeecccccccccCchhhhhhhhc--cCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNA--HKRERT 116 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~--Htgekp 116 (236)
.+.|-+|.|.|..+..|+.|||. |.+-.|
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinP 225 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINP 225 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCC
Confidence 47999999999999999999974 665444
No 99
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=41.20 E-value=16 Score=20.16 Aligned_cols=10 Identities=20% Similarity=0.341 Sum_probs=8.1
Q ss_pred CCCCCCcCCC
Q 044109 150 SLPLHGAAYN 159 (236)
Q Consensus 150 ~C~~Cgk~F~ 159 (236)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5899998885
No 100
>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=40.81 E-value=8.7 Score=32.48 Aligned_cols=31 Identities=16% Similarity=0.400 Sum_probs=22.8
Q ss_pred CCCceeecccccccccCchhhhhhhhccCCC
Q 044109 84 SEQRVFSCNYCQRKFYSSQALGGHQNAHKRE 114 (236)
Q Consensus 84 tgekpf~C~~C~k~F~~~~~L~~H~r~Htge 114 (236)
..+..|.|..|+|.|.-..-...|+..-..|
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 3556799999999999999999998753333
No 101
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=39.48 E-value=21 Score=22.26 Aligned_cols=26 Identities=19% Similarity=0.415 Sum_probs=17.1
Q ss_pred eeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 88 VFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 88 pf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
.|.|..||..|... ..-+..|+ .||.
T Consensus 2 ~Y~C~~Cg~~~~~~-----------~~~~irC~--~CG~ 27 (44)
T smart00659 2 IYICGECGRENEIK-----------SKDVVRCR--ECGY 27 (44)
T ss_pred EEECCCCCCEeecC-----------CCCceECC--CCCc
Confidence 37788888777643 22456777 7775
No 102
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=39.40 E-value=11 Score=30.21 Aligned_cols=9 Identities=22% Similarity=0.796 Sum_probs=5.3
Q ss_pred ecccccccc
Q 044109 90 SCNYCQRKF 98 (236)
Q Consensus 90 ~C~~C~k~F 98 (236)
+|++||-.+
T Consensus 2 ~cp~c~~~~ 10 (154)
T PRK00464 2 RCPFCGHPD 10 (154)
T ss_pred cCCCCCCCC
Confidence 566666544
No 103
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=38.26 E-value=15 Score=22.19 Aligned_cols=14 Identities=29% Similarity=0.695 Sum_probs=11.8
Q ss_pred eeecccccccccCc
Q 044109 88 VFSCNYCQRKFYSS 101 (236)
Q Consensus 88 pf~C~~C~k~F~~~ 101 (236)
||.|..|++.|=..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 89999999988654
No 104
>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=36.83 E-value=26 Score=27.11 Aligned_cols=30 Identities=13% Similarity=0.148 Sum_probs=20.3
Q ss_pred CccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCcCCCCh
Q 044109 117 LAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGAAYNRS 161 (236)
Q Consensus 117 ~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk~F~~~ 161 (236)
..|. .||+ .|-... ..|-.||.||..|...
T Consensus 10 r~Cp--~cg~-------kFYDLn------k~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICP--NTGS-------KFYDLN------RRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCC--CcCc-------cccccC------CCCccCCCcCCccCcc
Confidence 4688 8998 342221 1678899999987654
No 105
>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=35.53 E-value=21 Score=20.14 Aligned_cols=20 Identities=30% Similarity=0.768 Sum_probs=12.3
Q ss_pred eecccccccccCchhhhhhhh
Q 044109 89 FSCNYCQRKFYSSQALGGHQN 109 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r 109 (236)
|.|-.|++.| .....+.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 6788999999 4445566644
No 106
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=35.18 E-value=19 Score=22.28 Aligned_cols=13 Identities=23% Similarity=0.626 Sum_probs=7.9
Q ss_pred eeecccccccccC
Q 044109 88 VFSCNYCQRKFYS 100 (236)
Q Consensus 88 pf~C~~C~k~F~~ 100 (236)
.|.|..||..|..
T Consensus 3 ~y~C~~CG~~~~~ 15 (46)
T PRK00398 3 EYKCARCGREVEL 15 (46)
T ss_pred EEECCCCCCEEEE
Confidence 4666666665544
No 107
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=34.75 E-value=22 Score=22.83 Aligned_cols=28 Identities=18% Similarity=0.386 Sum_probs=17.7
Q ss_pred ceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 87 RVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 87 kpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
..|.|..||+.|... .......|+ .||.
T Consensus 5 ~~Y~C~~Cg~~~~~~----------~~~~~irCp--~Cg~ 32 (49)
T COG1996 5 MEYKCARCGREVELD----------QETRGIRCP--YCGS 32 (49)
T ss_pred EEEEhhhcCCeeehh----------hccCceeCC--CCCc
Confidence 568888888887221 123456777 7775
No 108
>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=34.63 E-value=19 Score=22.03 Aligned_cols=13 Identities=23% Similarity=0.812 Sum_probs=10.8
Q ss_pred ceeeccccccccc
Q 044109 87 RVFSCNYCQRKFY 99 (236)
Q Consensus 87 kpf~C~~C~k~F~ 99 (236)
++-.|.||+..|.
T Consensus 28 ~~~~CpYCg~~yv 40 (40)
T PF10276_consen 28 GPVVCPYCGTRYV 40 (40)
T ss_dssp CEEEETTTTEEEE
T ss_pred CeEECCCCCCEEC
Confidence 4789999999873
No 109
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=34.04 E-value=16 Score=36.48 Aligned_cols=57 Identities=16% Similarity=0.298 Sum_probs=38.9
Q ss_pred ecccccccccCchhhhhhhhccCCCCCCc-cCcCCCCCccCCCCcccCCccccccccc-CCCCCCCCCcCC
Q 044109 90 SCNYCQRKFYSSQALGGHQNAHKRERTLA-KRGQRIGTYTAASPFAFGQPYLHQNHYS-SISSLPLHGAAY 158 (236)
Q Consensus 90 ~C~~C~k~F~~~~~L~~H~r~Htgekp~~-C~~~~C~k~~~~~~~~f~~~~~~H~r~h-kp~~C~~Cgk~F 158 (236)
.|+.||-.|+-...|--- |.+|.-+.|. |. .|-+ -+..+. ..|+| .+-.|+.||-..
T Consensus 92 nCt~CGPr~~i~~~lpyd-r~~t~m~~f~~C~--~C~~-------ey~~p~--~rr~h~~~~~C~~Cgp~l 150 (711)
T TIGR00143 92 SCTHCGPRFTIIEALPYD-RENTSMADFPLCP--DCAK-------EYKDPL--DRRFHAQPIACPRCGPQL 150 (711)
T ss_pred cccCCCCCeEEeecCCCC-CCCcCCCCCcCCH--HHHH-------HhcCCc--cccCCCCCccCCCCCcEE
Confidence 589999999887776543 3455555554 88 8877 454442 34566 778899999654
No 110
>PRK05580 primosome assembly protein PriA; Validated
Probab=32.57 E-value=29 Score=34.43 Aligned_cols=49 Identities=16% Similarity=0.200 Sum_probs=28.1
Q ss_pred eecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCcC
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGAA 157 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk~ 157 (236)
..|..||..+... +....+..|...+...|. .||. . ...|..||.||..
T Consensus 382 ~~C~~Cg~~~~C~-~C~~~l~~h~~~~~l~Ch--~Cg~-------~----------~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 382 LLCRDCGWVAECP-HCDASLTLHRFQRRLRCH--HCGY-------Q----------EPIPKACPECGST 430 (679)
T ss_pred eEhhhCcCccCCC-CCCCceeEECCCCeEECC--CCcC-------C----------CCCCCCCCCCcCC
Confidence 3566676554332 122233445556667788 8877 1 1146679999875
No 111
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=32.21 E-value=24 Score=27.13 Aligned_cols=28 Identities=29% Similarity=0.444 Sum_probs=24.3
Q ss_pred CCCCceeecccccccccCchhhhhhhhc
Q 044109 83 PSEQRVFSCNYCQRKFYSSQALGGHQNA 110 (236)
Q Consensus 83 htgekpf~C~~C~k~F~~~~~L~~H~r~ 110 (236)
-.|--.|-|-.|.|-|....+|..|.++
T Consensus 52 lPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 52 LPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 3466789999999999999999999764
No 112
>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=31.56 E-value=26 Score=25.91 Aligned_cols=26 Identities=15% Similarity=0.269 Sum_probs=22.6
Q ss_pred eeec----ccccccccCchhhhhhhhccCC
Q 044109 88 VFSC----NYCQRKFYSSQALGGHQNAHKR 113 (236)
Q Consensus 88 pf~C----~~C~k~F~~~~~L~~H~r~Htg 113 (236)
-|.| ..|+..+.+...+..|.+.+.|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 4899 9999999999999999887653
No 113
>PRK04023 DNA polymerase II large subunit; Validated
Probab=31.44 E-value=35 Score=35.34 Aligned_cols=11 Identities=18% Similarity=0.516 Sum_probs=8.2
Q ss_pred ceeeccccccc
Q 044109 87 RVFSCNYCQRK 97 (236)
Q Consensus 87 kpf~C~~C~k~ 97 (236)
....|+.||+.
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 34689999876
No 114
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=30.78 E-value=25 Score=33.99 Aligned_cols=28 Identities=21% Similarity=0.426 Sum_probs=24.0
Q ss_pred CceeecccccccccCchhhhhhhhccCC
Q 044109 86 QRVFSCNYCQRKFYSSQALGGHQNAHKR 113 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~~L~~H~r~Htg 113 (236)
.+|-.|..||.+|........||..|-.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhh
Confidence 4678999999999999998888877753
No 115
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=30.45 E-value=11 Score=33.09 Aligned_cols=33 Identities=24% Similarity=0.270 Sum_probs=13.9
Q ss_pred eecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
-.|++||.. ...+.|..-.. .|.|-..|. .|+.
T Consensus 173 g~CPvCGs~-P~~s~l~~~~~--~G~R~L~Cs--~C~t 205 (290)
T PF04216_consen 173 GYCPVCGSP-PVLSVLRGGER--EGKRYLHCS--LCGT 205 (290)
T ss_dssp SS-TTT----EEEEEEE--------EEEEEET--TT--
T ss_pred CcCCCCCCc-CceEEEecCCC--CccEEEEcC--CCCC
Confidence 479999953 33333333222 366777888 8886
No 116
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=29.23 E-value=18 Score=31.27 Aligned_cols=34 Identities=18% Similarity=0.389 Sum_probs=23.7
Q ss_pred eecccccccccCchhhhhhhhccCCCCCCccCcCCCCC
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGT 126 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k 126 (236)
|.|..||....-. .|-+|+-.-++ .-|.|- .|++
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCI--DC~k 37 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCI--DCGK 37 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEe--eccc
Confidence 7888898766544 46678765555 567777 7777
No 117
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=29.05 E-value=32 Score=33.32 Aligned_cols=25 Identities=24% Similarity=0.179 Sum_probs=22.8
Q ss_pred CCCCCCCCCcCCCChhhhHHHhhhc
Q 044109 147 SISSLPLHGAAYNRSLGIQVHSMIH 171 (236)
Q Consensus 147 kp~~C~~Cgk~F~~~~~L~~H~~~H 171 (236)
+|..|..||.+|........|+-+|
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred CcchhcccccccccchhhhhHhhhh
Confidence 6789999999999999988888888
No 118
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=28.95 E-value=29 Score=32.29 Aligned_cols=19 Identities=37% Similarity=0.691 Sum_probs=10.4
Q ss_pred CceeecccccccccCchhh
Q 044109 86 QRVFSCNYCQRKFYSSQAL 104 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~~L 104 (236)
..-|.|+.|.++|....+|
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~ 144 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEAL 144 (436)
T ss_pred cccccCCccccchhhhHHH
Confidence 3445666666666554444
No 119
>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=28.88 E-value=21 Score=21.87 Aligned_cols=15 Identities=27% Similarity=0.689 Sum_probs=9.8
Q ss_pred ceeecccccccccCc
Q 044109 87 RVFSCNYCQRKFYSS 101 (236)
Q Consensus 87 kpf~C~~C~k~F~~~ 101 (236)
-||.|..|++.|=..
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 589999999988654
No 120
>PF12907 zf-met2: Zinc-binding
Probab=28.87 E-value=14 Score=22.65 Aligned_cols=31 Identities=23% Similarity=0.493 Sum_probs=21.0
Q ss_pred eecccccccccCc---hhhhhhh-hccCCCCCCcc
Q 044109 89 FSCNYCQRKFYSS---QALGGHQ-NAHKRERTLAK 119 (236)
Q Consensus 89 f~C~~C~k~F~~~---~~L~~H~-r~Htgekp~~C 119 (236)
+.|.+|...|... ..|..|- +-|....+-.|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 5799999776554 5699995 46776544444
No 121
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=28.79 E-value=42 Score=24.47 Aligned_cols=27 Identities=19% Similarity=0.202 Sum_probs=15.2
Q ss_pred CCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCC
Q 044109 115 RTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHG 155 (236)
Q Consensus 115 kp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cg 155 (236)
+|-.|+ .||. .|..- ++.+|-.||.|-
T Consensus 57 ~Pa~Ck--kCGf-------ef~~~-----~ik~pSRCP~CK 83 (97)
T COG3357 57 RPARCK--KCGF-------EFRDD-----KIKKPSRCPKCK 83 (97)
T ss_pred cChhhc--ccCc-------ccccc-----ccCCcccCCcch
Confidence 566777 7776 44331 122566677774
No 122
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=27.59 E-value=27 Score=31.72 Aligned_cols=22 Identities=14% Similarity=0.194 Sum_probs=16.1
Q ss_pred CCCCCCCCCcCCCChhhhHHHh
Q 044109 147 SISSLPLHGAAYNRSLGIQVHS 168 (236)
Q Consensus 147 kp~~C~~Cgk~F~~~~~L~~H~ 168 (236)
|+|.|++|.+++.--.+|+.|.
T Consensus 397 k~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 397 KPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred CcccChhhhhhhccCCCCCcee
Confidence 8899999988776655565553
No 123
>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=26.78 E-value=27 Score=29.52 Aligned_cols=23 Identities=17% Similarity=0.215 Sum_probs=15.4
Q ss_pred CCCCCCCCCcCCCChhhhHHHhh
Q 044109 147 SISSLPLHGAAYNRSLGIQVHSM 169 (236)
Q Consensus 147 kp~~C~~Cgk~F~~~~~L~~H~~ 169 (236)
..|.|++|+|.|.-..-+..|+.
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~ 98 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIF 98 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHH
T ss_pred CEECCCCCCcccCChHHHHHHHh
Confidence 34778888888887777777764
No 124
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.54 E-value=5.7 Score=33.35 Aligned_cols=76 Identities=12% Similarity=0.099 Sum_probs=43.9
Q ss_pred ceeeccc--ccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCccccccc-cc------------CCCCC
Q 044109 87 RVFSCNY--CQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNH-YS------------SISSL 151 (236)
Q Consensus 87 kpf~C~~--C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r-~h------------kp~~C 151 (236)
+.|.|.+ |-+.|........|.++-.+. .|. .|.+.|++.. .|..|.. .| -+|+|
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs--~C~r~~Pt~h-----LLd~HI~E~HDs~Fqa~veRG~dMy~C 147 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCS--FCKRAFPTGH-----LLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc---hhH--HHHHhCCchh-----hhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 4566765 666777776666666543332 566 6766322221 1222221 11 46788
Q ss_pred C--CCCcCCCChhhhHHHh-hhcC
Q 044109 152 P--LHGAAYNRSLGIQVHS-MIHK 172 (236)
Q Consensus 152 ~--~Cgk~F~~~~~L~~H~-~~Hk 172 (236)
- .|+-.|...-.-+.|+ +.||
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHHhcc
Confidence 4 4888888887778885 5675
No 125
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=26.41 E-value=33 Score=34.59 Aligned_cols=31 Identities=29% Similarity=0.276 Sum_probs=20.2
Q ss_pred eecccccccccCchhhhhhhhccCCCCCCccCcCCCCCcc
Q 044109 89 FSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYT 128 (236)
Q Consensus 89 f~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~ 128 (236)
-.|..|++.|.....+. +-|.+.|+ .||..|
T Consensus 461 dtC~~C~kkFfSlsK~L-------~~RKHHCR--kCGrVF 491 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPL-------GTRAHHCR--SCGIRL 491 (1374)
T ss_pred CcccCcCCccccccccc-------cccccccc--CCcccc
Confidence 46999999997652211 23456688 888733
No 126
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=26.38 E-value=32 Score=22.09 Aligned_cols=17 Identities=18% Similarity=0.630 Sum_probs=10.6
Q ss_pred CceeecccccccccCch
Q 044109 86 QRVFSCNYCQRKFYSSQ 102 (236)
Q Consensus 86 ekpf~C~~C~k~F~~~~ 102 (236)
++.+.|..||..|.-..
T Consensus 2 Dk~l~C~dCg~~FvfTa 18 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTA 18 (49)
T ss_pred CeeEEcccCCCeEEEeh
Confidence 35667777777665543
No 127
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=25.51 E-value=23 Score=22.79 Aligned_cols=11 Identities=27% Similarity=0.540 Sum_probs=5.7
Q ss_pred CCCCCCcCCCC
Q 044109 150 SLPLHGAAYNR 160 (236)
Q Consensus 150 ~C~~Cgk~F~~ 160 (236)
.||+|++.|..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999998863
No 128
>PF02748 PyrI_C: Aspartate carbamoyltransferase regulatory chain, metal binding domain; InterPro: IPR020542 Aspartate carbamoyltransferase (aspartate transcarbamylase, ATCase) 2.1.3.2 from EC is an allosteric enzyme that plays a central role in the regulation of the pyrimidine pathway in bacteria. The holoenzyme is a dodecamer composed of six catalytic chains, each with an active site, and six regulatory chains lacking catalytic activity []. The catalytic subunits exist as a dimer of catalytic trimers, (c3)2, while the regulatory subunits exist as a trimer of regulatory dimers, (r2)3, therefore the complete holoenzyme can be represented as (c3)2(r2)3. The association of the catalytic subunits c3 with the regulatory subunits r2 is responsible for the establishment of positive co-operativity between catalytic sites for the binding of aspartate and it dictates the pattern of allosteric response toward nucleotide effectors. ATCase from Escherichia coli is the most extensively studied allosteric enzyme []. The crystal structure of the T-state, the T-state with CTP bound, the R-state with N-phosphonacetyl-L-aspartate (PALA) bound, and the R-state with phosphonoacetamide plus malonate bound have been used in interpreting kinetic and mutational studies. A high-resolution structure of E. coli ATCase in the presence of PALA (a bisubstrate analog) allows a detailed description of the binding at the active site of the enzyme and allows a detailed model of the tetrahedral intermediate to be constructed. The entire regulatory chain has been traced showing that the N-terminal regions of the regulatory chains R1 and R6 are located in close proximity to each other and to the regulatory site. This portion of the molecule may be involved in the observed asymmetry between the regulatory binding sites as well as in the heterotropic response of the enzyme []. The C-terminal domain of the regulatory chains have a rubredoxin-like zinc-bound fold. ATCase from Enterobacter agglomerans (Erwinia herbicola) (Pantoea agglomerans) differs from the other investigated enterobacterial ATCases by its absence of homotropic co-operativity toward the substrate aspartate and its lack of response to ATP which is an allosteric effector (activator) of this family of enzymes. Nevertheless, the E. herbicola ATCase has the same quaternary structure, two trimers of catalytic chains with three dimers of regulatory chains, (c3)2(r2)3, as other enterobacterial ATCases and shows extensive primary structure conservation []. This entry represents the C-terminal domain.; PDB: 2YWW_B 1SKU_D 1Q95_L 8ATC_B 3AT1_D 1RAI_D 4E2F_D 1NBE_B 6AT1_B 2FZC_D ....
Probab=25.23 E-value=37 Score=21.94 Aligned_cols=18 Identities=28% Similarity=0.669 Sum_probs=12.3
Q ss_pred CCCCceeecccccccccC
Q 044109 83 PSEQRVFSCNYCQRKFYS 100 (236)
Q Consensus 83 htgekpf~C~~C~k~F~~ 100 (236)
..+...|+|.||++.|..
T Consensus 30 ~~~~~~~rC~YCe~~~~~ 47 (52)
T PF02748_consen 30 DKEPIKLRCHYCERIITE 47 (52)
T ss_dssp ETTTCEEEETTT--EEEH
T ss_pred eCCCCEEEeeCCCCEecc
Confidence 346678999999998754
No 129
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=23.32 E-value=44 Score=29.01 Aligned_cols=22 Identities=18% Similarity=0.226 Sum_probs=13.1
Q ss_pred CCCCCCCCCcCCCChhhhHHHhh
Q 044109 147 SISSLPLHGAAYNRSLGIQVHSM 169 (236)
Q Consensus 147 kp~~C~~Cgk~F~~~~~L~~H~~ 169 (236)
.-|.|-.||+.|.+ .....|..
T Consensus 28 ~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 28 AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred CeeEEeeccccccc-chhhhhhh
Confidence 55666667776655 44555543
No 130
>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=23.22 E-value=52 Score=19.21 Aligned_cols=15 Identities=20% Similarity=0.634 Sum_probs=9.5
Q ss_pred eecccccccccCchh
Q 044109 89 FSCNYCQRKFYSSQA 103 (236)
Q Consensus 89 f~C~~C~k~F~~~~~ 103 (236)
++|+.|+..|.-...
T Consensus 3 ~~CP~C~~~~~v~~~ 17 (38)
T TIGR02098 3 IQCPNCKTSFRVVDS 17 (38)
T ss_pred EECCCCCCEEEeCHH
Confidence 467777776665544
No 131
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=22.91 E-value=34 Score=20.71 Aligned_cols=12 Identities=8% Similarity=0.047 Sum_probs=7.6
Q ss_pred CCCCCCCCCcCC
Q 044109 147 SISSLPLHGAAY 158 (236)
Q Consensus 147 kp~~C~~Cgk~F 158 (236)
.-|.|..||..+
T Consensus 27 ~fy~C~~C~~~w 38 (40)
T smart00440 27 VFYVCTKCGHRW 38 (40)
T ss_pred EEEEeCCCCCEe
Confidence 456777777654
No 132
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=22.65 E-value=41 Score=24.47 Aligned_cols=36 Identities=11% Similarity=0.171 Sum_probs=18.3
Q ss_pred CCCCCCCCCcCCCChhhhHHHhhhcCCCCCCCCCCCCCCCCCCCCC
Q 044109 147 SISSLPLHGAAYNRSLGIQVHSMIHKPSHTSTSHGNGNIYGHNNWS 192 (236)
Q Consensus 147 kp~~C~~Cgk~F~~~~~L~~H~~~HkP~~~~~~~~~g~~~~~~~~~ 192 (236)
..|.||.||+.-..+ ....++.|..||..|.-+.|.
T Consensus 35 a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~AGGAy~ 70 (90)
T PTZ00255 35 AKYFCPFCGKHAVKR----------QAVGIWRCKGCKKTVAGGAWT 70 (90)
T ss_pred CCccCCCCCCCceee----------eeeEEEEcCCCCCEEeCCccc
Confidence 566666666531111 122445555666666555554
No 133
>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=22.42 E-value=37 Score=21.02 Aligned_cols=13 Identities=15% Similarity=0.330 Sum_probs=10.5
Q ss_pred CCCCCCcCCCChh
Q 044109 150 SLPLHGAAYNRSL 162 (236)
Q Consensus 150 ~C~~Cgk~F~~~~ 162 (236)
.|+.||+.|+..-
T Consensus 10 ~C~~C~rpf~WRK 22 (42)
T PF10013_consen 10 ICPVCGRPFTWRK 22 (42)
T ss_pred cCcccCCcchHHH
Confidence 4999999998653
No 134
>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=22.41 E-value=84 Score=18.17 Aligned_cols=10 Identities=20% Similarity=0.790 Sum_probs=4.3
Q ss_pred eecccccccc
Q 044109 89 FSCNYCQRKF 98 (236)
Q Consensus 89 f~C~~C~k~F 98 (236)
|.|..|+..+
T Consensus 1 Y~C~~Cg~~~ 10 (32)
T PF03604_consen 1 YICGECGAEV 10 (32)
T ss_dssp EBESSSSSSE
T ss_pred CCCCcCCCee
Confidence 3444444443
No 135
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.85 E-value=63 Score=24.98 Aligned_cols=14 Identities=7% Similarity=0.059 Sum_probs=9.0
Q ss_pred CCCCCCCCCcCCCC
Q 044109 147 SISSLPLHGAAYNR 160 (236)
Q Consensus 147 kp~~C~~Cgk~F~~ 160 (236)
.-|.|+.|++.|+.
T Consensus 52 qRyrC~~C~~tf~~ 65 (129)
T COG3677 52 QRYKCKSCGSTFTV 65 (129)
T ss_pred cccccCCcCcceee
Confidence 44667777776654
No 136
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=21.84 E-value=38 Score=23.52 Aligned_cols=16 Identities=6% Similarity=-0.124 Sum_probs=10.1
Q ss_pred CCCCCC--CCCcCCCChh
Q 044109 147 SISSLP--LHGAAYNRSL 162 (236)
Q Consensus 147 kp~~C~--~Cgk~F~~~~ 162 (236)
.-+.|. .||.+|....
T Consensus 26 ~Y~qC~N~eCg~tF~t~e 43 (72)
T PRK09678 26 RYHQCQNVNCSATFITYE 43 (72)
T ss_pred eeeecCCCCCCCEEEEEE
Confidence 445676 7887776543
No 137
>PLN02294 cytochrome c oxidase subunit Vb
Probab=21.44 E-value=37 Score=27.63 Aligned_cols=13 Identities=8% Similarity=0.125 Sum_probs=11.2
Q ss_pred CCCCCCCCCcCCC
Q 044109 147 SISSLPLHGAAYN 159 (236)
Q Consensus 147 kp~~C~~Cgk~F~ 159 (236)
+|+.|++||..|.
T Consensus 140 kp~RCpeCG~~fk 152 (174)
T PLN02294 140 KSFECPVCTQYFE 152 (174)
T ss_pred CceeCCCCCCEEE
Confidence 8889999998775
No 138
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=21.02 E-value=90 Score=27.10 Aligned_cols=62 Identities=15% Similarity=0.249 Sum_probs=33.2
Q ss_pred CCCCCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCcCCCC
Q 044109 82 HPSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGAAYNR 160 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk~F~~ 160 (236)
+....+.|.|..|...... |+-.....-.|+ .|.+ .|.-.-..-+--.--|.|+.|+..|.-
T Consensus 106 ip~~drqFaC~~Cd~~WwR--------rvp~rKeVSRCr--~C~~-------rYDPVP~dkmwG~aef~C~~C~h~F~G 167 (278)
T PF15135_consen 106 IPSVDRQFACSSCDHMWWR--------RVPQRKEVSRCR--KCRK-------RYDPVPCDKMWGIAEFHCPKCRHNFRG 167 (278)
T ss_pred ccccceeeeccccchHHHh--------ccCccccccccc--cccc-------ccCCCccccccceeeeecccccccchh
Confidence 4556689999999653322 222233344677 8877 222110000000045789999988864
No 139
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=20.95 E-value=63 Score=28.94 Aligned_cols=51 Identities=10% Similarity=0.023 Sum_probs=30.6
Q ss_pred CCceeecccccccccCchhhhhhhhccCCCCCCccCcCCCCCccCCCCcccCCcccccccccCCCCCCCCCc
Q 044109 85 EQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKRGQRIGTYTAASPFAFGQPYLHQNHYSSISSLPLHGA 156 (236)
Q Consensus 85 gekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~~~~C~k~~~~~~~~f~~~~~~H~r~hkp~~C~~Cgk 156 (236)
++..-.|++||..= ..+.+ +.....|.|-..|. .|+. ...| ..-.|+.||.
T Consensus 184 ~~~~~~CPvCGs~P-~~s~v--~~~~~~G~RyL~Cs--lC~t-----eW~~-----------~R~~C~~Cg~ 234 (309)
T PRK03564 184 GEQRQFCPVCGSMP-VSSVV--QIGTTQGLRYLHCN--LCES-----EWHV-----------VRVKCSNCEQ 234 (309)
T ss_pred ccCCCCCCCCCCcc-hhhee--eccCCCCceEEEcC--CCCC-----cccc-----------cCccCCCCCC
Confidence 34455799999542 22211 22335677888899 9987 1111 3446999995
No 140
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=20.84 E-value=49 Score=25.78 Aligned_cols=14 Identities=7% Similarity=0.116 Sum_probs=9.8
Q ss_pred CCCCCCCCcCCCCh
Q 044109 148 ISSLPLHGAAYNRS 161 (236)
Q Consensus 148 p~~C~~Cgk~F~~~ 161 (236)
|+.|..||+.|...
T Consensus 1 PH~Ct~Cg~~f~dg 14 (131)
T PF09845_consen 1 PHQCTKCGRVFEDG 14 (131)
T ss_pred CcccCcCCCCcCCC
Confidence 56777888877643
No 141
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.53 E-value=55 Score=24.73 Aligned_cols=11 Identities=27% Similarity=0.338 Sum_probs=7.0
Q ss_pred ecccccccccC
Q 044109 90 SCNYCQRKFYS 100 (236)
Q Consensus 90 ~C~~C~k~F~~ 100 (236)
.|+.||++|..
T Consensus 11 idPetg~KFYD 21 (129)
T COG4530 11 IDPETGKKFYD 21 (129)
T ss_pred cCccccchhhc
Confidence 46667776654
No 142
>KOG2461 consensus Transcription factor BLIMP-1/PRDI-BF1, contains C2H2-type Zn-finger and SET domains [Transcription]
Probab=20.06 E-value=3.6e+02 Score=25.01 Aligned_cols=39 Identities=8% Similarity=-0.183 Sum_probs=22.3
Q ss_pred CCCCCceeecccccccccCchhhhhhhhccCCCCCCccC
Q 044109 82 HPSEQRVFSCNYCQRKFYSSQALGGHQNAHKRERTLAKR 120 (236)
Q Consensus 82 ~htgekpf~C~~C~k~F~~~~~L~~H~r~Htgekp~~C~ 120 (236)
.+++..+..+.++.+.+.....+..|...+.++.++.+.
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 363 (396)
T KOG2461|consen 325 PATVSVWTGETIPVRTPAGQLIYTQSHSMEVAEPTDMAP 363 (396)
T ss_pred cccccccCcCcccccccccccchhhhhhcccCCCCcccc
Confidence 344555555555555555555566666666666655554
Done!