Query 027872
Match_columns 217
No_of_seqs 226 out of 2362
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 02:44:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027872.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027872hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.8 2.6E-22 5.6E-27 158.9 0.9 84 8-103 160-243 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.8 2E-20 4.3E-25 148.3 5.3 84 2-96 182-265 (279)
3 KOG3623 Homeobox transcription 99.7 1E-17 2.2E-22 147.1 0.1 87 5-102 890-976 (1007)
4 KOG3576 Ovo and related transc 99.6 3.9E-17 8.5E-22 124.0 0.6 88 6-102 114-201 (267)
5 KOG1074 Transcriptional repres 99.6 6.6E-17 1.4E-21 144.0 0.1 49 47-97 608-656 (958)
6 KOG3576 Ovo and related transc 99.4 5.5E-14 1.2E-18 107.0 -0.4 92 1-101 137-239 (267)
7 KOG3623 Homeobox transcription 99.4 2.2E-13 4.7E-18 120.3 2.1 80 8-96 239-331 (1007)
8 KOG1074 Transcriptional repres 99.2 3.8E-12 8.2E-17 114.1 1.2 88 9-105 605-699 (958)
9 PHA00733 hypothetical protein 99.0 6.9E-11 1.5E-15 86.1 1.3 82 7-99 38-124 (128)
10 PHA02768 hypothetical protein; 99.0 1.7E-10 3.7E-15 70.2 1.8 42 10-90 6-47 (55)
11 KOG3608 Zn finger proteins [Ge 98.9 1.3E-10 2.8E-15 95.5 -1.3 94 2-100 200-317 (467)
12 KOG3608 Zn finger proteins [Ge 98.8 3.1E-09 6.7E-14 87.5 2.8 98 3-108 286-386 (467)
13 PF13465 zf-H2C2_2: Zinc-finge 98.8 7E-10 1.5E-14 57.9 -1.2 24 61-86 3-26 (26)
14 PLN03086 PRLI-interacting fact 98.6 7E-08 1.5E-12 85.6 4.9 79 4-96 448-536 (567)
15 KOG3993 Transcription factor ( 98.5 2.5E-07 5.5E-12 78.0 5.6 90 9-105 295-387 (500)
16 PHA00616 hypothetical protein 98.5 6.5E-08 1.4E-12 56.2 1.5 32 9-42 1-32 (44)
17 PLN03086 PRLI-interacting fact 98.4 1.4E-07 3E-12 83.7 3.3 79 8-99 477-565 (567)
18 COG5189 SFP1 Putative transcri 98.3 3.6E-07 7.9E-12 74.4 2.6 72 7-95 347-419 (423)
19 PF13465 zf-H2C2_2: Zinc-finge 98.3 4.4E-07 9.6E-12 47.2 2.0 25 26-55 1-25 (26)
20 PHA00732 hypothetical protein 98.3 5.4E-07 1.2E-11 59.9 2.5 24 9-34 1-25 (79)
21 PHA00733 hypothetical protein 98.2 4E-07 8.8E-12 66.3 1.4 56 4-68 68-123 (128)
22 PF05605 zf-Di19: Drought indu 98.1 4.4E-06 9.6E-11 51.4 4.5 53 9-99 2-54 (54)
23 PF00096 zf-C2H2: Zinc finger, 97.9 6.9E-06 1.5E-10 41.2 2.2 23 10-34 1-23 (23)
24 PHA02768 hypothetical protein; 97.9 8.5E-06 1.9E-10 49.7 2.9 25 72-98 5-29 (55)
25 PHA00616 hypothetical protein 97.9 4.4E-06 9.6E-11 48.5 1.5 27 72-100 1-27 (44)
26 PF00096 zf-C2H2: Zinc finger, 97.9 8.2E-06 1.8E-10 40.9 2.3 22 73-96 1-22 (23)
27 PF13894 zf-C2H2_4: C2H2-type 97.8 2.3E-05 4.9E-10 39.4 2.6 24 73-98 1-24 (24)
28 PF13912 zf-C2H2_6: C2H2-type 97.7 2.8E-05 6.1E-10 40.6 2.0 26 72-99 1-26 (27)
29 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00016 3.5E-09 36.1 2.5 23 10-34 1-23 (24)
30 PF13912 zf-C2H2_6: C2H2-type 97.3 0.00013 2.8E-09 38.0 1.7 25 9-35 1-25 (27)
31 PF12756 zf-C2H2_2: C2H2 type 97.3 0.00022 4.8E-09 49.1 2.8 73 11-97 1-73 (100)
32 PF09237 GAGA: GAGA factor; I 97.2 0.00042 9.1E-09 41.3 3.1 33 5-39 20-52 (54)
33 PF06524 NOA36: NOA36 protein; 97.1 0.00091 2E-08 53.5 5.3 26 69-96 206-231 (314)
34 PF09237 GAGA: GAGA factor; I 96.9 0.0012 2.7E-08 39.3 3.1 31 68-100 20-50 (54)
35 smart00355 ZnF_C2H2 zinc finge 96.8 0.0014 2.9E-08 33.1 2.4 22 73-96 1-22 (26)
36 PF13909 zf-H2C2_5: C2H2-type 96.8 0.0012 2.6E-08 33.3 2.0 24 73-99 1-24 (24)
37 COG5048 FOG: Zn-finger [Genera 96.7 0.00078 1.7E-08 58.0 2.1 95 3-97 313-441 (467)
38 smart00355 ZnF_C2H2 zinc finge 96.7 0.0012 2.6E-08 33.3 2.0 24 10-35 1-24 (26)
39 PHA00732 hypothetical protein 96.7 0.0011 2.3E-08 44.0 2.1 45 39-96 1-46 (79)
40 KOG3993 Transcription factor ( 96.6 0.0015 3.2E-08 55.8 2.8 92 8-103 355-487 (500)
41 PF12874 zf-met: Zinc-finger o 96.2 0.0038 8.2E-08 31.6 1.9 22 73-96 1-22 (25)
42 COG5048 FOG: Zn-finger [Genera 95.9 0.0057 1.2E-07 52.7 2.5 75 8-87 288-366 (467)
43 PF12874 zf-met: Zinc-finger o 95.7 0.008 1.7E-07 30.3 1.8 23 10-34 1-23 (25)
44 PRK04860 hypothetical protein; 95.4 0.0042 9.1E-08 47.0 -0.1 33 50-87 124-156 (160)
45 PF13909 zf-H2C2_5: C2H2-type 95.3 0.02 4.3E-07 28.6 2.4 23 10-35 1-23 (24)
46 PF06524 NOA36: NOA36 protein; 94.9 0.081 1.8E-06 42.6 5.9 17 71-90 170-186 (314)
47 PF12171 zf-C2H2_jaz: Zinc-fin 94.6 0.0091 2E-07 30.9 -0.1 22 73-96 2-23 (27)
48 COG5189 SFP1 Putative transcri 94.5 0.032 7E-07 46.2 2.9 27 69-95 346-372 (423)
49 KOG4173 Alpha-SNAP protein [In 94.4 0.0058 1.3E-07 47.3 -1.5 87 8-102 78-174 (253)
50 PF12171 zf-C2H2_jaz: Zinc-fin 94.1 0.018 3.9E-07 29.8 0.4 23 10-34 2-24 (27)
51 PF13913 zf-C2HC_2: zinc-finge 93.6 0.066 1.4E-06 27.2 2.0 21 73-96 3-23 (25)
52 KOG1146 Homeobox protein [Gene 93.6 0.061 1.3E-06 52.3 3.2 81 3-96 459-540 (1406)
53 PF09538 FYDLN_acid: Protein o 93.2 0.16 3.4E-06 35.8 4.0 17 69-87 23-39 (108)
54 smart00451 ZnF_U1 U1-like zinc 93.0 0.086 1.9E-06 28.7 2.0 23 72-96 3-25 (35)
55 PF13913 zf-C2HC_2: zinc-finge 92.5 0.12 2.6E-06 26.3 1.9 21 10-33 3-23 (25)
56 KOG1832 HIV-1 Vpr-binding prot 92.5 0.083 1.8E-06 49.7 2.3 9 80-88 1305-1313(1516)
57 KOG2785 C2H2-type Zn-finger pr 91.4 0.24 5.1E-06 42.2 3.6 79 10-96 4-90 (390)
58 KOG4124 Putative transcription 91.3 0.048 1E-06 45.7 -0.6 72 7-94 347-418 (442)
59 smart00451 ZnF_U1 U1-like zinc 90.6 0.23 5.1E-06 26.9 2.0 24 9-34 3-26 (35)
60 PF05605 zf-Di19: Drought indu 90.3 0.36 7.8E-06 29.3 2.9 28 72-102 2-29 (54)
61 PF02892 zf-BED: BED zinc fing 88.4 0.38 8.2E-06 27.9 1.9 28 69-98 13-44 (45)
62 KOG4377 Zn-finger protein [Gen 88.3 0.67 1.5E-05 39.9 4.0 83 9-97 313-426 (480)
63 COG5236 Uncharacterized conser 87.6 1.3 2.9E-05 37.3 5.2 84 11-102 222-309 (493)
64 PF12756 zf-C2H2_2: C2H2 type 86.7 0.62 1.3E-05 31.5 2.5 24 9-34 50-73 (100)
65 KOG1146 Homeobox protein [Gene 86.5 0.46 1E-05 46.5 2.2 73 7-100 1282-1354(1406)
66 KOG1834 Calsyntenin [Extracell 85.4 0.54 1.2E-05 42.9 2.0 30 163-192 876-905 (952)
67 KOG2893 Zn finger protein [Gen 84.4 0.25 5.4E-06 39.4 -0.5 24 7-33 9-32 (341)
68 smart00614 ZnF_BED BED zinc fi 83.3 1 2.3E-05 26.8 2.1 25 73-99 19-48 (50)
69 PRK04860 hypothetical protein; 83.2 0.87 1.9E-05 34.4 2.0 29 23-56 127-155 (160)
70 COG4049 Uncharacterized protei 82.9 0.79 1.7E-05 27.9 1.3 33 68-102 13-45 (65)
71 KOG2231 Predicted E3 ubiquitin 79.9 0.73 1.6E-05 42.4 0.7 49 48-100 186-238 (669)
72 PF12013 DUF3505: Protein of u 77.9 2 4.4E-05 30.0 2.4 25 73-99 81-109 (109)
73 KOG2482 Predicted C2H2-type Zn 77.1 3 6.4E-05 35.3 3.4 90 9-102 195-307 (423)
74 PF05443 ROS_MUCR: ROS/MUCR tr 75.3 1.8 3.9E-05 31.6 1.5 25 71-100 71-95 (132)
75 COG4049 Uncharacterized protei 74.9 1.9 4.2E-05 26.3 1.3 31 3-35 11-41 (65)
76 PF05443 ROS_MUCR: ROS/MUCR tr 73.0 2.1 4.5E-05 31.3 1.3 25 10-39 73-97 (132)
77 PF09986 DUF2225: Uncharacteri 69.9 1.8 3.9E-05 34.4 0.5 24 7-32 3-26 (214)
78 KOG2071 mRNA cleavage and poly 68.8 4.2 9.2E-05 36.8 2.6 28 7-36 416-443 (579)
79 COG5236 Uncharacterized conser 66.1 8.2 0.00018 32.8 3.6 87 10-98 152-244 (493)
80 TIGR02300 FYDLN_acid conserved 65.3 5.1 0.00011 28.9 2.0 21 69-91 23-43 (129)
81 PF04959 ARS2: Arsenite-resist 65.2 5.2 0.00011 31.8 2.2 32 69-102 74-105 (214)
82 KOG2231 Predicted E3 ubiquitin 64.3 4.6 0.0001 37.4 2.0 75 11-95 184-260 (669)
83 smart00734 ZnF_Rad18 Rad18-lik 63.2 6.8 0.00015 19.9 1.7 19 74-95 3-21 (26)
84 COG4530 Uncharacterized protei 62.6 7.2 0.00016 27.3 2.3 21 69-92 23-43 (129)
85 PF03145 Sina: Seven in absent 61.1 14 0.0003 28.8 4.0 58 9-102 14-75 (198)
86 COG4957 Predicted transcriptio 60.7 4.5 9.7E-05 29.5 1.0 25 10-39 77-101 (148)
87 PF07800 DUF1644: Protein of u 60.1 28 0.0006 26.3 5.1 41 64-105 99-139 (162)
88 PF11789 zf-Nse: Zinc-finger o 58.2 8.9 0.00019 23.6 2.0 11 71-81 47-57 (57)
89 PF04959 ARS2: Arsenite-resist 56.7 8.2 0.00018 30.6 2.0 28 6-35 74-101 (214)
90 COG4957 Predicted transcriptio 54.6 7.3 0.00016 28.4 1.3 22 73-99 77-98 (148)
91 KOG4167 Predicted DNA-binding 52.4 4.2 9E-05 37.8 -0.3 27 72-100 792-818 (907)
92 PF15269 zf-C2H2_7: Zinc-finge 51.5 11 0.00024 21.9 1.4 22 73-96 21-42 (54)
93 KOG4124 Putative transcription 51.3 11 0.00023 32.1 1.9 37 63-102 204-240 (442)
94 PF12907 zf-met2: Zinc-binding 48.8 4.7 0.0001 22.9 -0.4 27 73-101 2-31 (40)
95 KOG2312 Predicted transcriptio 47.7 11 0.00024 34.9 1.6 28 9-36 643-670 (847)
96 TIGR02098 MJ0042_CXXC MJ0042 f 47.0 16 0.00036 20.0 1.7 15 10-26 3-17 (38)
97 KOG1824 TATA-binding protein-i 45.6 11 0.00023 36.5 1.2 7 204-210 336-342 (1233)
98 PF02176 zf-TRAF: TRAF-type zi 44.0 24 0.00051 21.4 2.3 25 8-34 8-33 (60)
99 KOG2186 Cell growth-regulating 43.8 18 0.00039 29.4 2.0 23 10-35 4-26 (276)
100 KOG3540 Beta amyloid precursor 43.7 14 0.00029 32.9 1.5 7 70-76 114-120 (615)
101 PF10276 zf-CHCC: Zinc-finger 42.0 12 0.00026 21.2 0.7 12 8-21 28-39 (40)
102 PF13719 zinc_ribbon_5: zinc-r 41.8 23 0.0005 19.5 1.8 13 71-85 24-36 (37)
103 TIGR00622 ssl1 transcription f 41.2 85 0.0018 22.2 4.9 83 8-96 14-103 (112)
104 KOG0127 Nucleolar protein fibr 40.1 16 0.00035 33.0 1.4 6 80-85 158-163 (678)
105 PF04780 DUF629: Protein of un 39.0 25 0.00055 31.3 2.4 32 71-104 56-87 (466)
106 PF13717 zinc_ribbon_4: zinc-r 38.2 26 0.00056 19.2 1.6 13 71-85 24-36 (36)
107 PRK00464 nrdR transcriptional 37.9 19 0.00041 27.0 1.3 17 72-90 28-44 (154)
108 KOG2295 C2H2 Zn-finger protein 37.6 25 0.00054 31.9 2.1 33 69-101 506-538 (648)
109 KOG0127 Nucleolar protein fibr 37.3 19 0.00041 32.6 1.4 6 71-76 125-130 (678)
110 PF10571 UPF0547: Uncharacteri 36.9 19 0.0004 18.3 0.8 10 11-22 16-25 (26)
111 KOG2482 Predicted C2H2-type Zn 36.9 26 0.00056 29.8 2.1 23 72-96 195-217 (423)
112 KOG0978 E3 ubiquitin ligase in 36.8 2.8 6E-05 39.0 -3.9 22 70-93 676-697 (698)
113 KOG3064 RNA-binding nuclear pr 36.6 19 0.00041 29.3 1.2 16 80-95 108-123 (303)
114 COG5137 Histone chaperone invo 34.2 21 0.00045 28.4 1.0 7 80-86 102-108 (279)
115 smart00154 ZnF_AN1 AN1-like Zi 33.9 22 0.00048 19.9 0.9 14 72-87 12-25 (39)
116 KOG4167 Predicted DNA-binding 33.1 89 0.0019 29.6 4.9 35 5-39 169-203 (907)
117 KOG1819 FYVE finger-containing 32.0 99 0.0021 27.9 4.9 16 163-178 413-428 (990)
118 cd00350 rubredoxin_like Rubred 30.2 40 0.00086 18.0 1.5 11 70-82 15-25 (33)
119 KOG3408 U1-like Zn-finger-cont 29.4 36 0.00078 24.4 1.5 26 69-96 54-79 (129)
120 smart00531 TFIIE Transcription 29.0 62 0.0013 23.9 2.8 16 7-24 97-112 (147)
121 COG1592 Rubrerythrin [Energy p 29.0 36 0.00077 25.9 1.5 20 48-82 138-157 (166)
122 PRK00398 rpoP DNA-directed RNA 28.6 46 0.00099 19.1 1.7 12 72-85 21-32 (46)
123 PF01428 zf-AN1: AN1-like Zinc 27.1 24 0.00052 20.1 0.3 15 71-87 12-26 (43)
124 PHA00458 single-stranded DNA-b 26.6 47 0.001 26.5 1.8 16 165-180 175-190 (233)
125 PF07754 DUF1610: Domain of un 26.1 33 0.00071 17.2 0.6 10 71-82 15-24 (24)
126 KOG2071 mRNA cleavage and poly 26.1 40 0.00087 30.8 1.6 32 70-103 416-447 (579)
127 PF01363 FYVE: FYVE zinc finge 25.7 46 0.001 20.8 1.4 25 47-85 12-36 (69)
128 smart00834 CxxC_CXXC_SSSS Puta 25.1 35 0.00077 18.7 0.7 14 72-87 5-18 (41)
129 cd00729 rubredoxin_SM Rubredox 25.0 51 0.0011 17.8 1.3 10 71-82 17-26 (34)
130 PHA00626 hypothetical protein 24.9 39 0.00084 20.7 0.9 16 70-87 21-36 (59)
131 KOG3408 U1-like Zn-finger-cont 24.8 45 0.00098 23.9 1.3 25 8-34 56-80 (129)
132 PRK09678 DNA-binding transcrip 24.5 44 0.00096 21.6 1.2 22 68-89 23-44 (72)
133 COG5151 SSL1 RNA polymerase II 23.8 1.5E+02 0.0032 25.1 4.3 78 15-96 326-410 (421)
134 PF08790 zf-LYAR: LYAR-type C2 23.4 24 0.00053 18.3 -0.2 21 10-33 1-21 (28)
135 PF08209 Sgf11: Sgf11 (transcr 23.2 83 0.0018 17.0 1.9 22 72-96 4-25 (33)
136 KOG1813 Predicted E3 ubiquitin 22.3 93 0.002 26.0 2.8 15 7-23 239-253 (313)
137 KOG2893 Zn finger protein [Gen 21.7 23 0.00049 28.6 -0.7 29 4-34 29-58 (341)
138 KOG1280 Uncharacterized conser 21.5 97 0.0021 26.5 2.9 29 7-37 77-105 (381)
139 PF07975 C1_4: TFIIH C1-like d 20.9 24 0.00052 21.2 -0.6 25 8-34 20-44 (51)
140 cd00924 Cyt_c_Oxidase_Vb Cytoc 20.6 49 0.0011 22.8 0.8 19 64-85 72-90 (97)
141 PF09723 Zn-ribbon_8: Zinc rib 20.6 48 0.001 18.8 0.7 13 73-87 6-18 (42)
142 KOG1842 FYVE finger-containing 20.5 60 0.0013 28.7 1.5 31 71-103 14-44 (505)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.84 E-value=2.6e-22 Score=158.94 Aligned_cols=84 Identities=26% Similarity=0.452 Sum_probs=44.0
Q ss_pred CceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccccccccCh
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHE 87 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~ 87 (217)
+-+.|. .|+|.|..-..|+.|+|+|+ -|++| .+|+|.|.+...|+.|+|+|||||||.|.. |+|+|+-+
T Consensus 160 ka~~C~--~C~K~YvSmpALkMHirTH~--l~c~C-----~iCGKaFSRPWLLQGHiRTHTGEKPF~C~h--C~kAFADR 228 (279)
T KOG2462|consen 160 KAFSCK--YCGKVYVSMPALKMHIRTHT--LPCEC-----GICGKAFSRPWLLQGHIRTHTGEKPFSCPH--CGKAFADR 228 (279)
T ss_pred ccccCC--CCCceeeehHHHhhHhhccC--CCccc-----ccccccccchHHhhcccccccCCCCccCCc--ccchhcch
Confidence 334552 35555555555555555554 33444 555555555555555555555555555555 55555555
Q ss_pred HHHHHHHHhhCCCCCC
Q 027872 88 YKLKLHLKREHPGHMS 103 (217)
Q Consensus 88 ~~L~~H~~~~h~~~~~ 103 (217)
+||+.||++ |.+.++
T Consensus 229 SNLRAHmQT-HS~~K~ 243 (279)
T KOG2462|consen 229 SNLRAHMQT-HSDVKK 243 (279)
T ss_pred HHHHHHHHh-hcCCcc
Confidence 555555555 444443
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.81 E-value=2e-20 Score=148.30 Aligned_cols=84 Identities=20% Similarity=0.331 Sum_probs=79.6
Q ss_pred cccCCCCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCccccc
Q 027872 2 KTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCE 81 (217)
Q Consensus 2 r~Htgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~ 81 (217)
|+|+ -|++| ++|||+|.+...|+.|+|+|||+|||.| ..|+|.|..+++|+.||++|++.|+|+|+. |+
T Consensus 182 rTH~--l~c~C--~iCGKaFSRPWLLQGHiRTHTGEKPF~C-----~hC~kAFADRSNLRAHmQTHS~~K~~qC~~--C~ 250 (279)
T KOG2462|consen 182 RTHT--LPCEC--GICGKAFSRPWLLQGHIRTHTGEKPFSC-----PHCGKAFADRSNLRAHMQTHSDVKKHQCPR--CG 250 (279)
T ss_pred hccC--CCccc--ccccccccchHHhhcccccccCCCCccC-----CcccchhcchHHHHHHHHhhcCCccccCcc--hh
Confidence 5565 78999 5899999999999999999999999999 899999999999999999999999999998 99
Q ss_pred ccccChHHHHHHHHh
Q 027872 82 KAYIHEYKLKLHLKR 96 (217)
Q Consensus 82 k~F~~~~~L~~H~~~ 96 (217)
|+|++.+.|.+|...
T Consensus 251 KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 251 KSFALKSYLNKHSES 265 (279)
T ss_pred hHHHHHHHHHHhhhh
Confidence 999999999999865
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.66 E-value=1e-17 Score=147.08 Aligned_cols=87 Identities=18% Similarity=0.317 Sum_probs=80.5
Q ss_pred CCCCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccccccc
Q 027872 5 SQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAY 84 (217)
Q Consensus 5 tgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F 84 (217)
+.+-+|.| +.|.|+|...+.|.+|...|+|.+||+| .+|.|.|+.+++|..|+|.|+|+|||.|.. |+|+|
T Consensus 890 te~gmyaC--DqCDK~FqKqSSLaRHKYEHsGqRPyqC-----~iCkKAFKHKHHLtEHkRLHSGEKPfQCdK--ClKRF 960 (1007)
T KOG3623|consen 890 TEDGMYAC--DQCDKAFQKQSSLARHKYEHSGQRPYQC-----IICKKAFKHKHHLTEHKRLHSGEKPFQCDK--CLKRF 960 (1007)
T ss_pred CccccchH--HHHHHHHHhhHHHHHhhhhhcCCCCccc-----chhhHhhhhhhhhhhhhhhccCCCcchhhh--hhhhc
Confidence 34568999 6899999999999999999999999999 999999999999999999999999999998 99999
Q ss_pred cChHHHHHHHHhhCCCCC
Q 027872 85 IHEYKLKLHLKREHPGHM 102 (217)
Q Consensus 85 ~~~~~L~~H~~~~h~~~~ 102 (217)
+++....+||. |....
T Consensus 961 SHSGSYSQHMN--HRYSY 976 (1007)
T KOG3623|consen 961 SHSGSYSQHMN--HRYSY 976 (1007)
T ss_pred ccccchHhhhc--cchhc
Confidence 99999999983 55443
No 4
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.63 E-value=3.9e-17 Score=124.05 Aligned_cols=88 Identities=24% Similarity=0.420 Sum_probs=81.7
Q ss_pred CCCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCccccccccc
Q 027872 6 QENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYI 85 (217)
Q Consensus 6 gekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~ 85 (217)
+.-.|.|. +|+|.|....-|.+|++.|...|.|-| ..|+|.|+....|++|+|+|+|.+||+|.. |+|+|+
T Consensus 114 d~d~ftCr--vCgK~F~lQRmlnrh~kch~~vkr~lc-----t~cgkgfndtfdlkrh~rthtgvrpykc~~--c~kaft 184 (267)
T KOG3576|consen 114 DQDSFTCR--VCGKKFGLQRMLNRHLKCHSDVKRHLC-----TFCGKGFNDTFDLKRHTRTHTGVRPYKCSL--CEKAFT 184 (267)
T ss_pred CCCeeeee--hhhhhhhHHHHHHHHhhhccHHHHHHH-----hhccCcccchhhhhhhhccccCccccchhh--hhHHHH
Confidence 34569995 799999999999999999999999999 999999999999999999999999999988 999999
Q ss_pred ChHHHHHHHHhhCCCCC
Q 027872 86 HEYKLKLHLKREHPGHM 102 (217)
Q Consensus 86 ~~~~L~~H~~~~h~~~~ 102 (217)
++..|..|++..|+...
T Consensus 185 qrcsleshl~kvhgv~~ 201 (267)
T KOG3576|consen 185 QRCSLESHLKKVHGVQH 201 (267)
T ss_pred hhccHHHHHHHHcCchH
Confidence 99999999998887644
No 5
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.61 E-value=6.6e-17 Score=144.03 Aligned_cols=49 Identities=24% Similarity=0.470 Sum_probs=42.7
Q ss_pred CCCCCCcccCCCCcccccccCCCCCCeecCcccccccccChHHHHHHHHhh
Q 027872 47 ATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLHLKRE 97 (217)
Q Consensus 47 ~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~~~L~~H~~~~ 97 (217)
|-+|.+.+.-.+.|+.|+|+|+|||||+|++ ||++|+.+.+|+.||-+|
T Consensus 608 CiiC~rVlSC~saLqmHyrtHtGERPFkCKi--CgRAFtTkGNLkaH~~vH 656 (958)
T KOG1074|consen 608 CIICLRVLSCPSALQMHYRTHTGERPFKCKI--CGRAFTTKGNLKAHMSVH 656 (958)
T ss_pred eeeeeecccchhhhhhhhhcccCcCcccccc--ccchhccccchhhccccc
Confidence 3556666667778888999999999999999 999999999999999774
No 6
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.37 E-value=5.5e-14 Score=107.01 Aligned_cols=92 Identities=24% Similarity=0.388 Sum_probs=81.3
Q ss_pred CcccCCCCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccc-cCC----------C
Q 027872 1 MKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYG-SAS----------S 69 (217)
Q Consensus 1 ~r~Htgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~-~H~----------~ 69 (217)
|+-|+.-|.|-|+| |||.|.....|++|+|+|||.+||+| .+|+|.|.++-.|..|++ +|. .
T Consensus 137 ~kch~~vkr~lct~--cgkgfndtfdlkrh~rthtgvrpykc-----~~c~kaftqrcsleshl~kvhgv~~~yaykerr 209 (267)
T KOG3576|consen 137 LKCHSDVKRHLCTF--CGKGFNDTFDLKRHTRTHTGVRPYKC-----SLCEKAFTQRCSLESHLKKVHGVQHQYAYKERR 209 (267)
T ss_pred hhhccHHHHHHHhh--ccCcccchhhhhhhhccccCccccch-----hhhhHHHHhhccHHHHHHHHcCchHHHHHHHhh
Confidence 45688889999975 99999999999999999999999999 999999999999999965 442 2
Q ss_pred CCCeecCcccccccccChHHHHHHHHhhCCCC
Q 027872 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPGH 101 (217)
Q Consensus 70 ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~ 101 (217)
.|-|+|.. ||.+-.+...+..|++.||+..
T Consensus 210 ~kl~vced--cg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 210 AKLYVCED--CGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred hheeeecc--cCCCCCChhHHHHHHHhcCCCC
Confidence 46799977 9999999999999999988764
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.36 E-value=2.2e-13 Score=120.28 Aligned_cols=80 Identities=21% Similarity=0.338 Sum_probs=72.1
Q ss_pred CceecCCCCCCccccChhhHHHHHHhhcCC-------------CCcccCCcCCCCCCCcccCCCCcccccccCCCCCCee
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIASHHEK-------------NAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYA 74 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~~H~~~-------------kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~ 74 (217)
-.|.| ..|.++|..+..|.+|+.+|..- +.|+| .-|+|.|+-+++|+.|+|||+|+|||.
T Consensus 239 ~nfsC--~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKC-----tECgKAFKfKHHLKEHlRIHSGEKPfe 311 (1007)
T KOG3623|consen 239 PNFSC--MLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKC-----TECGKAFKFKHHLKEHLRIHSGEKPFE 311 (1007)
T ss_pred CCCcc--hhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccc-----cccchhhhhHHHHHhhheeecCCCCcC
Confidence 34889 58999999999999999999642 44666 999999999999999999999999999
Q ss_pred cCcccccccccChHHHHHHHHh
Q 027872 75 CPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 75 C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
|+. |+|+|+++..+..||-.
T Consensus 312 Cpn--CkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 312 CPN--CKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred Ccc--cccccccCCcccccccc
Confidence 998 99999999999999853
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.20 E-value=3.8e-12 Score=114.11 Aligned_cols=88 Identities=17% Similarity=0.274 Sum_probs=78.4
Q ss_pred ceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCC----CCeecC---ccccc
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSE----RPYACP---YEGCE 81 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~e----kp~~C~---~~~C~ 81 (217)
|-+| .+|-+....++.|+-|.|+|+|+|||+| .+|++.|.++.+|+.||-+|-.. -+|.|+ + |.
T Consensus 605 PNqC--iiC~rVlSC~saLqmHyrtHtGERPFkC-----KiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~i--c~ 675 (958)
T KOG1074|consen 605 PNQC--IICLRVLSCPSALQMHYRTHTGERPFKC-----KICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFI--CQ 675 (958)
T ss_pred ccce--eeeeecccchhhhhhhhhcccCcCcccc-----ccccchhccccchhhcccccccCccccccccCCchhh--hc
Confidence 6789 5899999999999999999999999999 99999999999999999999654 357899 9 99
Q ss_pred ccccChHHHHHHHHhhCCCCCCcc
Q 027872 82 KAYIHEYKLKLHLKREHPGHMSDE 105 (217)
Q Consensus 82 k~F~~~~~L~~H~~~~h~~~~~~~ 105 (217)
+.|...-.|.+|+++|-++..+..
T Consensus 676 ~kftn~V~lpQhIriH~~~~~s~g 699 (958)
T KOG1074|consen 676 KKFTNAVTLPQHIRIHLGGQISNG 699 (958)
T ss_pred ccccccccccceEEeecCCCCCCC
Confidence 999999999999998554555443
No 9
>PHA00733 hypothetical protein
Probab=99.03 E-value=6.9e-11 Score=86.06 Aligned_cols=82 Identities=12% Similarity=0.058 Sum_probs=69.3
Q ss_pred CCceecCCCCCCccccChhhHHHH--HH---hhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCccccc
Q 027872 7 ENYHICPYPDCGKRYAHEYKLKNH--IA---SHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCE 81 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~~~L~~H--~~---~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~ 81 (217)
.+++.| .+|.+.|.....|..| ++ .+.+.+||.| ..|++.|.+...|..|++.| ..+|.|.. |+
T Consensus 38 ~~~~~~--~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C-----~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~--Cg 106 (128)
T PHA00733 38 QKRLIR--AVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVC-----PLCLMPFSSSVSLKQHIRYT--EHSKVCPV--CG 106 (128)
T ss_pred hhhHHH--HHHhhhccChhhhcchHHHHhhcccCCCCCccC-----CCCCCcCCCHHHHHHHHhcC--CcCccCCC--CC
Confidence 567899 5799999988777766 22 2335789999 99999999999999999987 46899999 99
Q ss_pred ccccChHHHHHHHHhhCC
Q 027872 82 KAYIHEYKLKLHLKREHP 99 (217)
Q Consensus 82 k~F~~~~~L~~H~~~~h~ 99 (217)
+.|.....|..|+...|.
T Consensus 107 K~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 107 KEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CccCCHHHHHHHHHHhcC
Confidence 999999999999988775
No 10
>PHA02768 hypothetical protein; Provisional
Probab=98.99 E-value=1.7e-10 Score=70.25 Aligned_cols=42 Identities=19% Similarity=0.471 Sum_probs=35.6
Q ss_pred eecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccccccccChHH
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYK 89 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~~~ 89 (217)
|.| +.|||.|.+.++|..|+++|+ +||+|.. |++.|.+.+.
T Consensus 6 y~C--~~CGK~Fs~~~~L~~H~r~H~-----------------------------------k~~kc~~--C~k~f~~~s~ 46 (55)
T PHA02768 6 YEC--PICGEIYIKRKSMITHLRKHN-----------------------------------TNLKLSN--CKRISLRTGE 46 (55)
T ss_pred cCc--chhCCeeccHHHHHHHHHhcC-----------------------------------CcccCCc--ccceecccce
Confidence 789 689999999999999999994 5777766 8888887766
Q ss_pred H
Q 027872 90 L 90 (217)
Q Consensus 90 L 90 (217)
|
T Consensus 47 l 47 (55)
T PHA02768 47 Y 47 (55)
T ss_pred e
Confidence 5
No 11
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.91 E-value=1.3e-10 Score=95.49 Aligned_cols=94 Identities=21% Similarity=0.403 Sum_probs=69.7
Q ss_pred cccCCCCceecCCCCCCccccChhhHHHHHHhhc--CCCCcccC---------------------CcCCCCCCCcccCCC
Q 027872 2 KTHSQENYHICPYPDCGKRYAHEYKLKNHIASHH--EKNAAVEV---------------------PRYATPPERITKTPK 58 (217)
Q Consensus 2 r~Htgekp~~C~~~~C~k~F~~~~~L~~H~~~H~--~~kp~~c~---------------------~~~~~~~~~~~~~~~ 58 (217)
|+|+++|.-.| +.||..|.++..|..|+|.-+ ...+|.|. ...|.+|.......+
T Consensus 200 r~Hs~eKvvAC--p~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~s 277 (467)
T KOG3608|consen 200 RTHSNEKVVAC--PHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSAS 277 (467)
T ss_pred HhcCCCeEEec--chHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChH
Confidence 67777887778 468777777777777766544 35566652 334466666666777
Q ss_pred Ccccccc-cCCCCCCeecCcccccccccChHHHHHHHHhhCCC
Q 027872 59 PPAGVYG-SASSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100 (217)
Q Consensus 59 ~l~~H~~-~H~~ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~ 100 (217)
.|.+|++ .|+..|||+|.- |.+.|.+-+.|.+|..+ |..
T Consensus 278 sL~~H~r~rHs~dkpfKCd~--Cd~~c~~esdL~kH~~~-HS~ 317 (467)
T KOG3608|consen 278 SLTTHIRYRHSKDKPFKCDE--CDTRCVRESDLAKHVQV-HSK 317 (467)
T ss_pred HHHHHHHhhhccCCCccccc--hhhhhccHHHHHHHHHh-ccc
Confidence 7788854 688899999988 99999999999999986 543
No 12
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.78 E-value=3.1e-09 Score=87.45 Aligned_cols=98 Identities=19% Similarity=0.314 Sum_probs=68.5
Q ss_pred ccCCCCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCC-C--CCCeecCccc
Q 027872 3 THSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSAS-S--ERPYACPYEG 79 (217)
Q Consensus 3 ~Htgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~-~--ekp~~C~~~~ 79 (217)
.|+..|||+| +.|.+.|.+.+.|.+|..+|+ +-.|.|.+. .|.-.|++...+.+|++-|. | .-+|.|..
T Consensus 286 rHs~dkpfKC--d~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~---~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~-- 357 (467)
T KOG3608|consen 286 RHSKDKPFKC--DECDTRCVRESDLAKHVQVHS-KTVYQCEHP---DCHYSVRTYTQMRRHFLEVHEGNNPILYACHC-- 357 (467)
T ss_pred hhccCCCccc--cchhhhhccHHHHHHHHHhcc-ccceecCCC---CCcHHHHHHHHHHHHHHHhccCCCCCceeeec--
Confidence 4677777887 577777777777877777777 556666332 24445566666777766443 4 34688888
Q ss_pred ccccccChHHHHHHHHhhCCCCCCccccc
Q 027872 80 CEKAYIHEYKLKLHLKREHPGHMSDENAE 108 (217)
Q Consensus 80 C~k~F~~~~~L~~H~~~~h~~~~~~~~~~ 108 (217)
|++.|++-.+|.+|++..|.-..|..-..
T Consensus 358 Cdr~ft~G~~L~~HL~kkH~f~~PsGh~R 386 (467)
T KOG3608|consen 358 CDRFFTSGKSLSAHLMKKHGFRLPSGHKR 386 (467)
T ss_pred chhhhccchhHHHHHHHhhcccCCCCCCc
Confidence 89999888889899888787777655433
No 13
>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=98.75 E-value=7e-10 Score=57.87 Aligned_cols=24 Identities=33% Similarity=0.909 Sum_probs=17.9
Q ss_pred ccccccCCCCCCeecCcccccccccC
Q 027872 61 AGVYGSASSERPYACPYEGCEKAYIH 86 (217)
Q Consensus 61 ~~H~~~H~~ekp~~C~~~~C~k~F~~ 86 (217)
.+|+++|+++|||.|++ |+++|.+
T Consensus 3 ~~H~~~H~~~k~~~C~~--C~k~F~~ 26 (26)
T PF13465_consen 3 RRHMRTHTGEKPYKCPY--CGKSFSN 26 (26)
T ss_dssp HHHHHHHSSSSSEEESS--SSEEESS
T ss_pred HHHhhhcCCCCCCCCCC--CcCeeCc
Confidence 34444447889999988 9999974
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.56 E-value=7e-08 Score=85.60 Aligned_cols=79 Identities=14% Similarity=0.248 Sum_probs=65.7
Q ss_pred cCCCCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCccccccc
Q 027872 4 HSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKA 83 (217)
Q Consensus 4 Htgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~ 83 (217)
...++.+.|. .|++.|. ...|..|+++|+ +|+.| . |++.+ .+..|..|+.+|...+|+.|.+ |++.
T Consensus 448 ~el~~H~~C~--~Cgk~f~-~s~LekH~~~~H--kpv~C-----p-Cg~~~-~R~~L~~H~~thCp~Kpi~C~f--C~~~ 513 (567)
T PLN03086 448 EEAKNHVHCE--KCGQAFQ-QGEMEKHMKVFH--EPLQC-----P-CGVVL-EKEQMVQHQASTCPLRLITCRF--CGDM 513 (567)
T ss_pred cccccCccCC--CCCCccc-hHHHHHHHHhcC--CCccC-----C-CCCCc-chhHHHhhhhccCCCCceeCCC--CCCc
Confidence 3456778994 6999996 678999999985 88999 4 87644 6689999999999999999999 9999
Q ss_pred cc----------ChHHHHHHHHh
Q 027872 84 YI----------HEYKLKLHLKR 96 (217)
Q Consensus 84 F~----------~~~~L~~H~~~ 96 (217)
|. +.+.|..|..+
T Consensus 514 v~~g~~~~d~~d~~s~Lt~HE~~ 536 (567)
T PLN03086 514 VQAGGSAMDVRDRLRGMSEHESI 536 (567)
T ss_pred cccCccccchhhhhhhHHHHHHh
Confidence 95 24589999876
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.47 E-value=2.5e-07 Score=77.96 Aligned_cols=90 Identities=19% Similarity=0.300 Sum_probs=55.4
Q ss_pred ceecCCCCCCccccChhhHHHHHHhhcCCCCccc-CCcCCCCCCCcccCCCCcccccc--cCCCCCCeecCccccccccc
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVE-VPRYATPPERITKTPKPPAGVYG--SASSERPYACPYEGCEKAYI 85 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c-~~~~~~~~~~~~~~~~~l~~H~~--~H~~ekp~~C~~~~C~k~F~ 85 (217)
-|+| ++|+|.|+-..||..|.|+|.....-.. ...... +...+....+.-.+ .-..+.-|.|.+ |+|.|.
T Consensus 295 EYrC--PEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k---~~~~~rae~~ea~rsg~dss~gi~~C~~--C~KkFr 367 (500)
T KOG3993|consen 295 EYRC--PECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPK---QAVETRAEVQEAERSGDDSSSGIFSCHT--CGKKFR 367 (500)
T ss_pred eecC--CcccccccCchhhhhhhcccCCchhhhhcCCCChh---hhhhhhhhhhhccccCCcccCceeecHH--hhhhhH
Confidence 3899 6999999999999999999954322210 000000 00000000000000 001234799999 999999
Q ss_pred ChHHHHHHHHhhCCCCCCcc
Q 027872 86 HEYKLKLHLKREHPGHMSDE 105 (217)
Q Consensus 86 ~~~~L~~H~~~~h~~~~~~~ 105 (217)
+...|++|+.+||.......
T Consensus 368 RqAYLrKHqlthq~~~~~k~ 387 (500)
T KOG3993|consen 368 RQAYLRKHQLTHQRAPLAKE 387 (500)
T ss_pred HHHHHHHhHHhhhccccchh
Confidence 99999999999887776654
No 16
>PHA00616 hypothetical protein
Probab=98.47 E-value=6.5e-08 Score=56.16 Aligned_cols=32 Identities=22% Similarity=0.429 Sum_probs=29.4
Q ss_pred ceecCCCCCCccccChhhHHHHHHhhcCCCCccc
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVE 42 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c 42 (217)
||+| +.||+.|..++.|..|++.|++++|+.|
T Consensus 1 pYqC--~~CG~~F~~~s~l~~H~r~~hg~~~~~~ 32 (44)
T PHA00616 1 MYQC--LRCGGIFRKKKEVIEHLLSVHKQNKLTL 32 (44)
T ss_pred CCcc--chhhHHHhhHHHHHHHHHHhcCCCccce
Confidence 7999 6899999999999999999988888766
No 17
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.43 E-value=1.4e-07 Score=83.73 Aligned_cols=79 Identities=15% Similarity=0.244 Sum_probs=65.7
Q ss_pred CceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccC----------CCCcccccccCCCCCCeecCc
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKT----------PKPPAGVYGSASSERPYACPY 77 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~----------~~~l~~H~~~H~~ekp~~C~~ 77 (217)
+||.| + ||+.| .+..|..|+.+|.+.+|+.| .+|++.|.. ...|..|..++ |.+++.|..
T Consensus 477 kpv~C--p-Cg~~~-~R~~L~~H~~thCp~Kpi~C-----~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~ 546 (567)
T PLN03086 477 EPLQC--P-CGVVL-EKEQMVQHQASTCPLRLITC-----RFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDS 546 (567)
T ss_pred CCccC--C-CCCCc-chhHHHhhhhccCCCCceeC-----CCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccc
Confidence 89999 6 99866 56899999999999999999 668887742 34688898886 999999988
Q ss_pred ccccccccChHHHHHHHHhhCC
Q 027872 78 EGCEKAYIHEYKLKLHLKREHP 99 (217)
Q Consensus 78 ~~C~k~F~~~~~L~~H~~~~h~ 99 (217)
||+.|..+ .|..|+...|.
T Consensus 547 --Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 547 --CGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred --cCCeeeeh-hHHHHHHHhhc
Confidence 99998865 67788876664
No 18
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=98.30 E-value=3.6e-07 Score=74.44 Aligned_cols=72 Identities=28% Similarity=0.536 Sum_probs=50.5
Q ss_pred CCceecCCCCCCccccChhhHHHHHHhhc-CCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCccccccccc
Q 027872 7 ENYHICPYPDCGKRYAHEYKLKNHIASHH-EKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYI 85 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~~~L~~H~~~H~-~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~ 85 (217)
+|||+|+.+.|.|.|+....|+-|+..-+ ..+-..- ....-...| -...|||.|.+ |+|+|.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~---p~p~~~~~F------------~~~~KPYrCev--C~KRYK 409 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHEN---PSPEKMNIF------------SAKDKPYRCEV--CDKRYK 409 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCC---CCccccccc------------cccCCceeccc--cchhhc
Confidence 59999999999999999999999976321 1111000 001111112 24679999999 999999
Q ss_pred ChHHHHHHHH
Q 027872 86 HEYKLKLHLK 95 (217)
Q Consensus 86 ~~~~L~~H~~ 95 (217)
..-.|+-|++
T Consensus 410 NlNGLKYHr~ 419 (423)
T COG5189 410 NLNGLKYHRK 419 (423)
T ss_pred cCccceeccc
Confidence 9999998863
No 19
>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=98.29 E-value=4.4e-07 Score=47.16 Aligned_cols=25 Identities=12% Similarity=0.127 Sum_probs=16.9
Q ss_pred hHHHHHHhhcCCCCcccCCcCCCCCCCccc
Q 027872 26 KLKNHIASHHEKNAAVEVPRYATPPERITK 55 (217)
Q Consensus 26 ~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~ 55 (217)
+|.+|+++|++++||.| ..|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C-----~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKC-----PYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEE-----SSSSEEES
T ss_pred CHHHHhhhcCCCCCCCC-----CCCcCeeC
Confidence 46677777777777777 66666654
No 20
>PHA00732 hypothetical protein
Probab=98.27 E-value=5.4e-07 Score=59.87 Aligned_cols=24 Identities=33% Similarity=0.634 Sum_probs=21.4
Q ss_pred ceecCCCCCCccccChhhHHHHHHh-h
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIAS-H 34 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~-H 34 (217)
||.| +.|++.|.+...|+.|++. |
T Consensus 1 py~C--~~Cgk~F~s~s~Lk~H~r~~H 25 (79)
T PHA00732 1 MFKC--PICGFTTVTLFALKQHARRNH 25 (79)
T ss_pred CccC--CCCCCccCCHHHHHHHhhccc
Confidence 6899 5899999999999999985 5
No 21
>PHA00733 hypothetical protein
Probab=98.24 E-value=4e-07 Score=66.30 Aligned_cols=56 Identities=14% Similarity=0.180 Sum_probs=48.0
Q ss_pred cCCCCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCC
Q 027872 4 HSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSAS 68 (217)
Q Consensus 4 Htgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~ 68 (217)
+.+.+||.| +.|++.|.+...|..|++.| ..+|.| ..|++.|.....|.+|+....
T Consensus 68 ~~~~kPy~C--~~Cgk~Fss~s~L~~H~r~h--~~~~~C-----~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 68 SKAVSPYVC--PLCLMPFSSSVSLKQHIRYT--EHSKVC-----PVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred cCCCCCccC--CCCCCcCCCHHHHHHHHhcC--CcCccC-----CCCCCccCCHHHHHHHHHHhc
Confidence 445899999 58999999999999999987 357888 999999999999998876543
No 22
>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=98.15 E-value=4.4e-06 Score=51.44 Aligned_cols=53 Identities=34% Similarity=0.720 Sum_probs=39.8
Q ss_pred ceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccccccccChH
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEY 88 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~~ 88 (217)
.|.|+| |++.|. ...|..|+...+. ...+.+.|++ |...+. .
T Consensus 2 ~f~CP~--C~~~~~-~~~L~~H~~~~H~-------------------------------~~~~~v~CPi--C~~~~~--~ 43 (54)
T PF05605_consen 2 SFTCPY--CGKGFS-ESSLVEHCEDEHR-------------------------------SESKNVVCPI--CSSRVT--D 43 (54)
T ss_pred CcCCCC--CCCccC-HHHHHHHHHhHCc-------------------------------CCCCCccCCC--chhhhh--h
Confidence 489965 999555 6789999776531 2346799999 998765 4
Q ss_pred HHHHHHHhhCC
Q 027872 89 KLKLHLKREHP 99 (217)
Q Consensus 89 ~L~~H~~~~h~ 99 (217)
+|.+|+..+|.
T Consensus 44 ~l~~Hl~~~H~ 54 (54)
T PF05605_consen 44 NLIRHLNSQHR 54 (54)
T ss_pred HHHHHHHHhcC
Confidence 99999998773
No 23
>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=97.94 E-value=6.9e-06 Score=41.20 Aligned_cols=23 Identities=39% Similarity=0.860 Sum_probs=21.2
Q ss_pred eecCCCCCCccccChhhHHHHHHhh
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASH 34 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H 34 (217)
|+| +.|++.|.+...|..|++.|
T Consensus 1 y~C--~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKC--PICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEE--TTTTEEESSHHHHHHHHHHH
T ss_pred CCC--CCCCCccCCHHHHHHHHhHC
Confidence 789 58999999999999999986
No 24
>PHA02768 hypothetical protein; Provisional
Probab=97.94 E-value=8.5e-06 Score=49.73 Aligned_cols=25 Identities=32% Similarity=0.838 Sum_probs=23.0
Q ss_pred CeecCcccccccccChHHHHHHHHhhC
Q 027872 72 PYACPYEGCEKAYIHEYKLKLHLKREH 98 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L~~H~~~~h 98 (217)
-|.|+. ||+.|++.++|..||++|+
T Consensus 5 ~y~C~~--CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 5 GYECPI--CGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred ccCcch--hCCeeccHHHHHHHHHhcC
Confidence 379998 9999999999999999966
No 25
>PHA00616 hypothetical protein
Probab=97.94 E-value=4.4e-06 Score=48.53 Aligned_cols=27 Identities=22% Similarity=0.397 Sum_probs=24.5
Q ss_pred CeecCcccccccccChHHHHHHHHhhCCC
Q 027872 72 PYACPYEGCEKAYIHEYKLKLHLKREHPG 100 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L~~H~~~~h~~ 100 (217)
||+|.. ||+.|.+.+.|.+|+++||+.
T Consensus 1 pYqC~~--CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 1 MYQCLR--CGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CCccch--hhHHHhhHHHHHHHHHHhcCC
Confidence 789988 999999999999999986655
No 26
>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=97.93 E-value=8.2e-06 Score=40.93 Aligned_cols=22 Identities=41% Similarity=0.987 Sum_probs=20.9
Q ss_pred eecCcccccccccChHHHHHHHHh
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
|.|+. |++.|.++..|.+|+++
T Consensus 1 y~C~~--C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPI--CGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETT--TTEEESSHHHHHHHHHH
T ss_pred CCCCC--CCCccCCHHHHHHHHhH
Confidence 78998 99999999999999987
No 27
>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=97.79 E-value=2.3e-05 Score=39.38 Aligned_cols=24 Identities=29% Similarity=0.890 Sum_probs=20.6
Q ss_pred eecCcccccccccChHHHHHHHHhhC
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKREH 98 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~~h 98 (217)
|.|++ |++.|.....|..|++++|
T Consensus 1 ~~C~~--C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPI--CGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SS--TS-EESSHHHHHHHHHHHS
T ss_pred CCCcC--CCCcCCcHHHHHHHHHhhC
Confidence 78999 9999999999999999876
No 28
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.68 E-value=2.8e-05 Score=40.56 Aligned_cols=26 Identities=23% Similarity=0.553 Sum_probs=23.6
Q ss_pred CeecCcccccccccChHHHHHHHHhhCC
Q 027872 72 PYACPYEGCEKAYIHEYKLKLHLKREHP 99 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L~~H~~~~h~ 99 (217)
||.|.. |++.|.....|..|++.|+.
T Consensus 1 ~~~C~~--C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDE--CGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETT--TTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCc--cCCccCChhHHHHHhHHhcC
Confidence 689998 99999999999999988654
No 29
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.40 E-value=0.00016 Score=36.12 Aligned_cols=23 Identities=35% Similarity=0.898 Sum_probs=19.3
Q ss_pred eecCCCCCCccccChhhHHHHHHhh
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASH 34 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H 34 (217)
|.| +.|++.|.+...|+.|+++|
T Consensus 1 ~~C--~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQC--PICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE---SSTS-EESSHHHHHHHHHHH
T ss_pred CCC--cCCCCcCCcHHHHHHHHHhh
Confidence 789 57999999999999999987
No 30
>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=97.33 E-value=0.00013 Score=37.95 Aligned_cols=25 Identities=32% Similarity=0.632 Sum_probs=23.0
Q ss_pred ceecCCCCCCccccChhhHHHHHHhhc
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASHH 35 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H~ 35 (217)
||.| ..|++.|.....|..|++.|.
T Consensus 1 ~~~C--~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFEC--DECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEE--TTTTEEESSHHHHHHHHCTTT
T ss_pred CCCC--CccCCccCChhHHHHHhHHhc
Confidence 6999 589999999999999999884
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.27 E-value=0.00022 Score=49.08 Aligned_cols=73 Identities=18% Similarity=0.440 Sum_probs=21.8
Q ss_pred ecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccccccccChHHH
Q 027872 11 ICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKL 90 (217)
Q Consensus 11 ~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~~~L 90 (217)
.|. .|+..|.....|..|+...++...-. ...+.....+..+.+. .-...+.|.+ |++.|.....|
T Consensus 1 ~C~--~C~~~f~~~~~l~~H~~~~H~~~~~~---------~~~l~~~~~~~~~~~~-~~~~~~~C~~--C~~~f~s~~~l 66 (100)
T PF12756_consen 1 QCL--FCDESFSSVDDLLQHMKKKHGFDIPD---------QKYLVDPNRLLNYLRK-KVKESFRCPY--CNKTFRSREAL 66 (100)
T ss_dssp ------------------------------------------------------------SSEEBSS--SS-EESSHHHH
T ss_pred Ccc--cccccccccccccccccccccccccc---------cccccccccccccccc-ccCCCCCCCc--cCCCCcCHHHH
Confidence 484 69999999999999987555421110 0011111111112111 1123799999 99999999999
Q ss_pred HHHHHhh
Q 027872 91 KLHLKRE 97 (217)
Q Consensus 91 ~~H~~~~ 97 (217)
..||+.+
T Consensus 67 ~~Hm~~~ 73 (100)
T PF12756_consen 67 QEHMRSK 73 (100)
T ss_dssp HHHHHHT
T ss_pred HHHHcCc
Confidence 9999864
No 32
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.22 E-value=0.00042 Score=41.27 Aligned_cols=33 Identities=27% Similarity=0.519 Sum_probs=23.3
Q ss_pred CCCCceecCCCCCCccccChhhHHHHHHhhcCCCC
Q 027872 5 SQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNA 39 (217)
Q Consensus 5 tgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp 39 (217)
..+.|..| |+|+..+.+..+|++|+..+++.||
T Consensus 20 ~S~~PatC--P~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATC--PICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE---TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCC--CcchhhccchhhHHHHHHHHhcccC
Confidence 34679999 6999999999999999988876665
No 33
>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=97.14 E-value=0.00091 Score=53.45 Aligned_cols=26 Identities=19% Similarity=0.483 Sum_probs=16.4
Q ss_pred CCCCeecCcccccccccChHHHHHHHHh
Q 027872 69 SERPYACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
..+|+.|+. ||.-......|..-.|+
T Consensus 206 k~k~~PCPK--Cg~et~eTkdLSmStR~ 231 (314)
T PF06524_consen 206 KGKPIPCPK--CGYETQETKDLSMSTRS 231 (314)
T ss_pred cCCCCCCCC--CCCcccccccceeeeec
Confidence 346777877 87766666666554444
No 34
>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=96.91 E-value=0.0012 Score=39.31 Aligned_cols=31 Identities=32% Similarity=0.585 Sum_probs=22.7
Q ss_pred CCCCCeecCcccccccccChHHHHHHHHhhCCC
Q 027872 68 SSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100 (217)
Q Consensus 68 ~~ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~ 100 (217)
..++|-.|++ |+..+.+..+|++|+.++|..
T Consensus 20 ~S~~PatCP~--C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 20 QSEQPATCPI--CGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp TTS--EE-TT--T--EESSHHHHHHHHHHHTTT
T ss_pred ccCCCCCCCc--chhhccchhhHHHHHHHHhcc
Confidence 3578999999 999999999999999987754
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.78 E-value=0.0014 Score=33.10 Aligned_cols=22 Identities=36% Similarity=0.833 Sum_probs=20.2
Q ss_pred eecCcccccccccChHHHHHHHHh
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
|.|.. |+++|.....|..|++.
T Consensus 1 ~~C~~--C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPE--CGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCC--CcchhCCHHHHHHHHHH
Confidence 57988 99999999999999985
No 36
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.76 E-value=0.0012 Score=33.26 Aligned_cols=24 Identities=50% Similarity=0.948 Sum_probs=19.5
Q ss_pred eecCcccccccccChHHHHHHHHhhCC
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKREHP 99 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~~h~ 99 (217)
|+|+. |..... ...|.+|++++|+
T Consensus 1 y~C~~--C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPH--CSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SS--SS-EES-HHHHHHHHHHHHS
T ss_pred CCCCC--CCCcCC-HHHHHHHHHhhCc
Confidence 78988 999888 8899999999874
No 37
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.75 E-value=0.00078 Score=58.04 Aligned_cols=95 Identities=31% Similarity=0.391 Sum_probs=69.3
Q ss_pred ccCCC--CceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCC--------------------------------C
Q 027872 3 THSQE--NYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYA--------------------------------T 48 (217)
Q Consensus 3 ~Htge--kp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~--------------------------------~ 48 (217)
.|+++ +|+.|+|..|++.|.+...|..|..+|++.+++.+....+ .
T Consensus 313 ~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 392 (467)
T COG5048 313 NHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSN 392 (467)
T ss_pred ccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccCCCCccchhhccCccCCcccccccc
Confidence 68898 9999954469999999999999999999888775421111 2
Q ss_pred CCCCcccCCCCcccccccCCCCCCeecCcccccccccChHHHHHHHHhh
Q 027872 49 PPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLHLKRE 97 (217)
Q Consensus 49 ~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~~~L~~H~~~~ 97 (217)
.|...+.....+..|...|...+++.|...+|.+.|.+...|..|++.+
T Consensus 393 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 441 (467)
T COG5048 393 SCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIH 441 (467)
T ss_pred chhhhhccccccccccccccccCCcCCCCCcchhhccCccccccccccc
Confidence 2334455566666677777777766665556888999888888888763
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.75 E-value=0.0012 Score=33.34 Aligned_cols=24 Identities=38% Similarity=0.869 Sum_probs=21.3
Q ss_pred eecCCCCCCccccChhhHHHHHHhhc
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASHH 35 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H~ 35 (217)
|.| +.|++.|.....|..|++.|.
T Consensus 1 ~~C--~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRC--PECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCC--CCCcchhCCHHHHHHHHHHhc
Confidence 578 579999999999999999874
No 39
>PHA00732 hypothetical protein
Probab=96.71 E-value=0.0011 Score=44.05 Aligned_cols=45 Identities=20% Similarity=0.141 Sum_probs=36.7
Q ss_pred CcccCCcCCCCCCCcccCCCCccccccc-CCCCCCeecCcccccccccChHHHHHHHHh
Q 027872 39 AAVEVPRYATPPERITKTPKPPAGVYGS-ASSERPYACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 39 p~~c~~~~~~~~~~~~~~~~~l~~H~~~-H~~ekp~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
||.| ..|++.|.+...|..|++. |. ++.|+. |+++|. .|..|+++
T Consensus 1 py~C-----~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~--CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKC-----PICGFTTVTLFALKQHARRNHT---LTKCPV--CNKSYR---RLNQHFYS 46 (79)
T ss_pred CccC-----CCCCCccCCHHHHHHHhhcccC---CCccCC--CCCEeC---Chhhhhcc
Confidence 4566 8899999999999999884 64 589988 999998 58888754
No 40
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=96.63 E-value=0.0015 Score=55.78 Aligned_cols=92 Identities=17% Similarity=0.421 Sum_probs=65.0
Q ss_pred CceecCCCCCCccccChhhHHHHHHhhcCC---C---C--cc----cC-----------------------------CcC
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIASHHEK---N---A--AV----EV-----------------------------PRY 46 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~~H~~~---k---p--~~----c~-----------------------------~~~ 46 (217)
-.|.|. +|+|.|.+...|+.|+.+|... + + +. -. ...
T Consensus 355 gi~~C~--~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~ 432 (500)
T KOG3993|consen 355 GIFSCH--TCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELEL 432 (500)
T ss_pred ceeecH--HhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccC
Confidence 379994 7999999999999999988642 1 1 10 00 111
Q ss_pred CCCCCCcccCCCCcccccccCCCCCCeecCcccccccccChHHHHHHHHhhCCCCCC
Q 027872 47 ATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLHLKREHPGHMS 103 (217)
Q Consensus 47 ~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~~ 103 (217)
+.+++-.+.++...-.+.+.-..+.-|.|.+ |--+|..+.+|.+|+...|..+..
T Consensus 433 pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky--~~atfyss~~ltrhin~~Hpse~r 487 (500)
T KOG3993|consen 433 PPYDGSPPSSSGSSGGYGRLGIAEQGFTCKY--CPATFYSSPGLTRHINKCHPSELR 487 (500)
T ss_pred CCCCCCCcccCCCCCccccccchhhcccccc--chHhhhcCcchHhHhhhcChHHhh
Confidence 2334444455555555665556677799999 999999999999999888876553
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.20 E-value=0.0038 Score=31.59 Aligned_cols=22 Identities=32% Similarity=0.798 Sum_probs=20.3
Q ss_pred eecCcccccccccChHHHHHHHHh
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
|.|.+ |++.|.....|..|++.
T Consensus 1 ~~C~~--C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDI--CNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETT--TTEEESSHHHHHHHHTT
T ss_pred CCCCC--CCCCcCCHHHHHHHHCc
Confidence 67998 99999999999999975
No 42
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.86 E-value=0.0057 Score=52.66 Aligned_cols=75 Identities=8% Similarity=-0.016 Sum_probs=50.2
Q ss_pred CceecCCCCCCccccChhhHHHHHH--hhcCC--CCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCccccccc
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIA--SHHEK--NAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKA 83 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~--~H~~~--kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~ 83 (217)
.++.| ..|...|.....|.+|.+ .|+++ +|+.|.+. .|.+.|.+...+.+|..+|++.+++.|....|.+.
T Consensus 288 ~~~~~--~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (467)
T COG5048 288 LPIKS--KQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYS---LCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSK 362 (467)
T ss_pred cCCCC--ccccCCccccccccccccccccccccCCceeeecc---CCCccccccccccCCcccccCCCccccccccCccc
Confidence 35666 357777777777777777 67777 77777333 67777777777777777777777777665445555
Q ss_pred ccCh
Q 027872 84 YIHE 87 (217)
Q Consensus 84 F~~~ 87 (217)
+...
T Consensus 363 ~~~~ 366 (467)
T COG5048 363 FSPL 366 (467)
T ss_pred cccc
Confidence 5443
No 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.72 E-value=0.008 Score=30.34 Aligned_cols=23 Identities=30% Similarity=0.693 Sum_probs=20.8
Q ss_pred eecCCCCCCccccChhhHHHHHHhh
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASH 34 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H 34 (217)
|.| .+|.+.|.....|+.|++.+
T Consensus 1 ~~C--~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYC--DICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEE--TTTTEEESSHHHHHHHHTTH
T ss_pred CCC--CCCCCCcCCHHHHHHHHCcC
Confidence 679 58999999999999999876
No 44
>PRK04860 hypothetical protein; Provisional
Probab=95.36 E-value=0.0042 Score=46.95 Aligned_cols=33 Identities=12% Similarity=0.223 Sum_probs=24.8
Q ss_pred CCCcccCCCCcccccccCCCCCCeecCcccccccccCh
Q 027872 50 PERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHE 87 (217)
Q Consensus 50 ~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~ 87 (217)
|+. ....+.+|.++|+++++|.|.. |++.|...
T Consensus 124 C~~---~~~~~rrH~ri~~g~~~YrC~~--C~~~l~~~ 156 (160)
T PRK04860 124 CQE---HQLTVRRHNRVVRGEAVYRCRR--CGETLVFK 156 (160)
T ss_pred CCC---eeCHHHHHHHHhcCCccEECCC--CCceeEEe
Confidence 555 4455677888888889999987 98887643
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.33 E-value=0.02 Score=28.63 Aligned_cols=23 Identities=35% Similarity=0.751 Sum_probs=18.2
Q ss_pred eecCCCCCCccccChhhHHHHHHhhc
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASHH 35 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H~ 35 (217)
|+| +.|..... ...|..|++.|.
T Consensus 1 y~C--~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKC--PHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE---SSSS-EES-HHHHHHHHHHHH
T ss_pred CCC--CCCCCcCC-HHHHHHHHHhhC
Confidence 789 47999998 999999999874
No 46
>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=94.90 E-value=0.081 Score=42.60 Aligned_cols=17 Identities=18% Similarity=0.452 Sum_probs=9.1
Q ss_pred CCeecCcccccccccChHHH
Q 027872 71 RPYACPYEGCEKAYIHEYKL 90 (217)
Q Consensus 71 kp~~C~~~~C~k~F~~~~~L 90 (217)
-.|+|.. |++ +.+.+-|
T Consensus 170 E~~KC~S--CNr-lGq~sCL 186 (314)
T PF06524_consen 170 ETFKCQS--CNR-LGQYSCL 186 (314)
T ss_pred ccccccc--ccc-ccchhhh
Confidence 4567765 665 3444444
No 47
>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=94.58 E-value=0.0091 Score=30.90 Aligned_cols=22 Identities=36% Similarity=0.771 Sum_probs=19.8
Q ss_pred eecCcccccccccChHHHHHHHHh
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
|.|.. |++.|.....|..|+++
T Consensus 2 ~~C~~--C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDA--CDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTT--TTBBBSSHHHHHCCTTS
T ss_pred CCccc--CCCCcCCHHHHHHHHcc
Confidence 67988 99999999999999874
No 48
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=94.53 E-value=0.032 Score=46.15 Aligned_cols=27 Identities=44% Similarity=0.997 Sum_probs=25.2
Q ss_pred CCCCeecCcccccccccChHHHHHHHH
Q 027872 69 SERPYACPYEGCEKAYIHEYKLKLHLK 95 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~~~~L~~H~~ 95 (217)
++|||+|++.||.|+|...-.|+-|+.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhh
Confidence 469999999999999999999999985
No 49
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.42 E-value=0.0058 Score=47.33 Aligned_cols=87 Identities=17% Similarity=0.216 Sum_probs=66.7
Q ss_pred CceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccc----------cCCCCCCeecCc
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYG----------SASSERPYACPY 77 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~----------~H~~ekp~~C~~ 77 (217)
+.+.|+...|...|........|-.+-++ ..|+.|.+.|.+...|..|.. +-.|.-.|.|-+
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~--------~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~Clv 149 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG--------NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLV 149 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc--------chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHH
Confidence 34778877888999988877777654433 345888999998888887754 224566899999
Q ss_pred ccccccccChHHHHHHHHhhCCCCC
Q 027872 78 EGCEKAYIHEYKLKLHLKREHPGHM 102 (217)
Q Consensus 78 ~~C~k~F~~~~~L~~H~~~~h~~~~ 102 (217)
+||+..|.+....+.|+-..|....
T Consensus 150 EgCt~KFkT~r~RkdH~I~~Hk~Pa 174 (253)
T KOG4173|consen 150 EGCTEKFKTSRDRKDHMIRMHKYPA 174 (253)
T ss_pred HhhhhhhhhhhhhhhHHHHhccCCc
Confidence 9999999999999999977676543
No 50
>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=94.13 E-value=0.018 Score=29.77 Aligned_cols=23 Identities=35% Similarity=0.742 Sum_probs=19.8
Q ss_pred eecCCCCCCccccChhhHHHHHHhh
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASH 34 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H 34 (217)
|.| ..|++.|.....|..|+++.
T Consensus 2 ~~C--~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYC--DACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBB--TTTTBBBSSHHHHHCCTTSH
T ss_pred CCc--ccCCCCcCCHHHHHHHHccC
Confidence 679 57999999999999998754
No 51
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.62 E-value=0.066 Score=27.20 Aligned_cols=21 Identities=29% Similarity=0.689 Sum_probs=17.4
Q ss_pred eecCcccccccccChHHHHHHHHh
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
..|++ ||+.| ....|.+|+++
T Consensus 3 ~~C~~--CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPI--CGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCC--CCCEE-CHHHHHHHHHh
Confidence 46988 99999 57889999864
No 52
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.60 E-value=0.061 Score=52.30 Aligned_cols=81 Identities=25% Similarity=0.348 Sum_probs=52.3
Q ss_pred ccCCCCceecCCCCCCccccChhhHHHHHHhhcCCCC-cccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCccccc
Q 027872 3 THSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNA-AVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCE 81 (217)
Q Consensus 3 ~Htgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp-~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~ 81 (217)
.|+-.|-|+| +.|+..|.....|-.|+|.-+.+.. -.|. .....+.. .+-..--.+.+||.|.. |.
T Consensus 459 L~S~~kt~~c--pkc~~~yk~a~~L~vhmRskhp~~~~~~c~-~gq~~~~~--------arg~~~~~~~~p~~C~~--C~ 525 (1406)
T KOG1146|consen 459 LHSFFKTLKC--PKCNWHYKLAQTLGVHMRSKHPESQSAYCK-AGQNHPRL--------ARGEVYRCPGKPYPCRA--CN 525 (1406)
T ss_pred eecccccccC--CccchhhhhHHHhhhcccccccccchhHhH-hccccccc--------cccccccCCCCccccee--ee
Confidence 3555688999 6899999999999999997332111 1110 00011110 00000113568999998 99
Q ss_pred ccccChHHHHHHHHh
Q 027872 82 KAYIHEYKLKLHLKR 96 (217)
Q Consensus 82 k~F~~~~~L~~H~~~ 96 (217)
..|+...+|.+||+.
T Consensus 526 ~stttng~LsihlqS 540 (1406)
T KOG1146|consen 526 YSTTTNGNLSIHLQS 540 (1406)
T ss_pred eeeecchHHHHHHHH
Confidence 999999999999974
No 53
>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=93.21 E-value=0.16 Score=35.83 Aligned_cols=17 Identities=29% Similarity=0.815 Sum_probs=13.4
Q ss_pred CCCCeecCcccccccccCh
Q 027872 69 SERPYACPYEGCEKAYIHE 87 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~~ 87 (217)
+..|-.|+. ||..|...
T Consensus 23 nk~PivCP~--CG~~~~~~ 39 (108)
T PF09538_consen 23 NKDPIVCPK--CGTEFPPE 39 (108)
T ss_pred CCCCccCCC--CCCccCcc
Confidence 457888988 99888755
No 54
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=92.96 E-value=0.086 Score=28.73 Aligned_cols=23 Identities=26% Similarity=0.658 Sum_probs=20.7
Q ss_pred CeecCcccccccccChHHHHHHHHh
Q 027872 72 PYACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
+|-|.+ |++.|.....+..|++.
T Consensus 3 ~~~C~~--C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKL--CNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccc--cCCccCCHHHHHHHHCh
Confidence 688999 99999999999999864
No 55
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.50 E-value=0.12 Score=26.25 Aligned_cols=21 Identities=29% Similarity=0.746 Sum_probs=16.8
Q ss_pred eecCCCCCCccccChhhHHHHHHh
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIAS 33 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~ 33 (217)
..| +.||+.| ....|..|+++
T Consensus 3 ~~C--~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPC--PICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcC--CCCCCEE-CHHHHHHHHHh
Confidence 468 5799999 46779999875
No 56
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=92.47 E-value=0.083 Score=49.65 Aligned_cols=9 Identities=11% Similarity=0.313 Sum_probs=3.9
Q ss_pred ccccccChH
Q 027872 80 CEKAYIHEY 88 (217)
Q Consensus 80 C~k~F~~~~ 88 (217)
|.-+|+...
T Consensus 1305 c~VtFNstG 1313 (1516)
T KOG1832|consen 1305 CAVTFNSTG 1313 (1516)
T ss_pred eEEEeccCc
Confidence 444444433
No 57
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=91.36 E-value=0.24 Score=42.17 Aligned_cols=79 Identities=16% Similarity=0.254 Sum_probs=44.1
Q ss_pred eecCCCCCCccccChhhHHHHHHh--hc---CCCCcccCCcCCCCCCCcccCCCCcccc---cccCCCCCCeecCccccc
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIAS--HH---EKNAAVEVPRYATPPERITKTPKPPAGV---YGSASSERPYACPYEGCE 81 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~--H~---~~kp~~c~~~~~~~~~~~~~~~~~l~~H---~~~H~~ekp~~C~~~~C~ 81 (217)
|.| ..|...|......+.|.++ |. ..+...-. .+.--.|........- ...-.+.-++.|.+ |.
T Consensus 4 ftC--~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lP----PItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~--c~ 75 (390)
T KOG2785|consen 4 FTC--NTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLP----PITAEEFNEKVLSDDSEKEENLEEAESVVYCEA--CN 75 (390)
T ss_pred cee--eceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCC----CcCHHHHhHHHhhhhhhhhhhhhhcccceehHH--hh
Confidence 789 5899999998888888773 32 11111000 0000001000000000 00013456899999 99
Q ss_pred ccccChHHHHHHHHh
Q 027872 82 KAYIHEYKLKLHLKR 96 (217)
Q Consensus 82 k~F~~~~~L~~H~~~ 96 (217)
|.|........|++.
T Consensus 76 k~~~s~~a~~~hl~S 90 (390)
T KOG2785|consen 76 KSFASPKAHENHLKS 90 (390)
T ss_pred ccccChhhHHHHHHH
Confidence 999999999999875
No 58
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=91.29 E-value=0.048 Score=45.68 Aligned_cols=72 Identities=32% Similarity=0.562 Sum_probs=46.6
Q ss_pred CCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccccccccC
Q 027872 7 ENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIH 86 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~ 86 (217)
.+||+|.+|.|.+.+.....|+.|..+-+ |...-.......-|.-.....|||.|++ |.+++.-
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h--------------~s~i~~~s~~~~ph~~~~~~nk~~r~~i--~~~~~k~ 410 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGH--------------CSPITTPTPAPIPHQGFVVENKPYRCEV--CSKRYKN 410 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCc--------------CCCCCCCCCCCCCcceeeeccCcccChh--hhhhhcc
Confidence 58999999999999999888888754221 1111111112222333334579999999 9998877
Q ss_pred hHHHHHHH
Q 027872 87 EYKLKLHL 94 (217)
Q Consensus 87 ~~~L~~H~ 94 (217)
-..|+-|.
T Consensus 411 ~~~l~~~~ 418 (442)
T KOG4124|consen 411 LNGLKYHR 418 (442)
T ss_pred CCCCCcee
Confidence 66665553
No 59
>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=90.56 E-value=0.23 Score=26.94 Aligned_cols=24 Identities=17% Similarity=0.463 Sum_probs=20.5
Q ss_pred ceecCCCCCCccccChhhHHHHHHhh
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASH 34 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H 34 (217)
+|.| ..|++.|.....|..|++..
T Consensus 3 ~~~C--~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYC--KLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEc--cccCCccCCHHHHHHHHChH
Confidence 6889 57999999999999997754
No 60
>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=90.32 E-value=0.36 Score=29.32 Aligned_cols=28 Identities=36% Similarity=0.750 Sum_probs=22.7
Q ss_pred CeecCcccccccccChHHHHHHHHhhCCCCC
Q 027872 72 PYACPYEGCEKAYIHEYKLKLHLKREHPGHM 102 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~ 102 (217)
.|.|++ |++. .....|..|....|....
T Consensus 2 ~f~CP~--C~~~-~~~~~L~~H~~~~H~~~~ 29 (54)
T PF05605_consen 2 SFTCPY--CGKG-FSESSLVEHCEDEHRSES 29 (54)
T ss_pred CcCCCC--CCCc-cCHHHHHHHHHhHCcCCC
Confidence 489999 9995 456789999998887754
No 61
>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=88.35 E-value=0.38 Score=27.86 Aligned_cols=28 Identities=36% Similarity=0.664 Sum_probs=19.2
Q ss_pred CCCCeecCcccccccccC----hHHHHHHHHhhC
Q 027872 69 SERPYACPYEGCEKAYIH----EYKLKLHLKREH 98 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~----~~~L~~H~~~~h 98 (217)
+..-..|.+ |++.|.. .++|.+|++..|
T Consensus 13 ~~~~a~C~~--C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 13 DKKKAKCKY--CGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp CSS-EEETT--TTEE-----SSTHHHHHHHHHTT
T ss_pred CcCeEEeCC--CCeEEeeCCCcHHHHHHhhhhhC
Confidence 456679999 9999876 488999996655
No 62
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=88.35 E-value=0.67 Score=39.86 Aligned_cols=83 Identities=18% Similarity=0.169 Sum_probs=50.6
Q ss_pred ceecCCCCCCccccChhhHHHHHHhhcCCCC-------cccCCcCCCCCCCcccCCCCcccccccCCCCC----------
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASHHEKNA-------AVEVPRYATPPERITKTPKPPAGVYGSASSER---------- 71 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp-------~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ek---------- 71 (217)
.|.|.|.+|.| .-+++..|-..|+...- |.|.... |...|.-..+-..|.+-+.++.
T Consensus 313 syhC~~~~C~k---sTsdV~~h~nFht~~~n~GfrrthfhC~r~g---CTdtfK~~khk~yh~kdda~~~dGfkkf~k~e 386 (480)
T KOG4377|consen 313 SYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRRTHFHCQRIG---CTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDE 386 (480)
T ss_pred cchhhhcccCc---ccccccccCccccccccCceecceeEEeccC---CccccccccccccccCcchhhhhhhhhhhccc
Confidence 37788888988 44566677777753221 2343222 3344444444444554443321
Q ss_pred --------------CeecCcccccccccChHHHHHHHHhh
Q 027872 72 --------------PYACPYEGCEKAYIHEYKLKLHLKRE 97 (217)
Q Consensus 72 --------------p~~C~~~~C~k~F~~~~~L~~H~~~~ 97 (217)
-|-|.+.||+.+|...+.+..|.|.|
T Consensus 387 ~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkrkh 426 (480)
T KOG4377|consen 387 NCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKRKH 426 (480)
T ss_pred cCCccCcccccceeeeeecccCCceEEEehhhhhhhhhhh
Confidence 13466689999999999999998874
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=87.58 E-value=1.3 Score=37.31 Aligned_cols=84 Identities=17% Similarity=0.257 Sum_probs=52.7
Q ss_pred ecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccc--c--ccccC
Q 027872 11 ICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGC--E--KAYIH 86 (217)
Q Consensus 11 ~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C--~--k~F~~ 86 (217)
.|. .|.+.|.....|..|+|.-+ ++.|.|...- ......|..-..|.+|.+ .--|.|.+..| | ..|..
T Consensus 222 ~C~--FC~~~FYdDDEL~~HcR~~H-E~ChICD~v~-p~~~QYFK~Y~~Le~HF~----~~hy~ct~qtc~~~k~~vf~~ 293 (493)
T COG5236 222 LCI--FCKIYFYDDDELRRHCRLRH-EACHICDMVG-PIRYQYFKSYEDLEAHFR----NAHYCCTFQTCRVGKCYVFPY 293 (493)
T ss_pred hhh--hccceecChHHHHHHHHhhh-hhhhhhhccC-ccchhhhhCHHHHHHHhh----cCceEEEEEEEecCcEEEecc
Confidence 485 49999999999999988543 4444442222 222234555455555543 23477766445 3 35788
Q ss_pred hHHHHHHHHhhCCCCC
Q 027872 87 EYKLKLHLKREHPGHM 102 (217)
Q Consensus 87 ~~~L~~H~~~~h~~~~ 102 (217)
...|..|+...|+...
T Consensus 294 ~~el~~h~~~~h~~~~ 309 (493)
T COG5236 294 HTELLEHLTRFHKVNA 309 (493)
T ss_pred HHHHHHHHHHHhhccc
Confidence 8889999987776544
No 64
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=86.72 E-value=0.62 Score=31.48 Aligned_cols=24 Identities=29% Similarity=0.632 Sum_probs=20.9
Q ss_pred ceecCCCCCCccccChhhHHHHHHhh
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASH 34 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H 34 (217)
.+.|. .|++.|.....|..|++.+
T Consensus 50 ~~~C~--~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCP--YCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBS--SSS-EESSHHHHHHHHHHT
T ss_pred CCCCC--ccCCCCcCHHHHHHHHcCc
Confidence 69995 6999999999999999976
No 65
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=86.48 E-value=0.46 Score=46.54 Aligned_cols=73 Identities=14% Similarity=0.156 Sum_probs=54.3
Q ss_pred CCceecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccccccccC
Q 027872 7 ENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIH 86 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~ 86 (217)
..+|.|. .|.-.|.....|..|.+.- -+.++....+.-|+..|..-++| |.+ |...|..
T Consensus 1282 ~~~~~~~--~~~~~~~~~~~l~~~~~k~----------------~~~~~~~~~~~~~~l~~~d~~~~-c~~--c~~~~~~ 1340 (1406)
T KOG1146|consen 1282 THRYLCR--QCKMAFDGEAPLTAHQRKF----------------CFAGRGSGGSMPPPLRVPDCTYH-CLA--CEVLLSG 1340 (1406)
T ss_pred chhHHHH--HHHhhhcchhHHHHHHHHH----------------HhccCccccCCCCcccCcccccc-chH--HHhhcch
Confidence 3567774 6888888888777776221 23345555666777888888899 999 9999999
Q ss_pred hHHHHHHHHhhCCC
Q 027872 87 EYKLKLHLKREHPG 100 (217)
Q Consensus 87 ~~~L~~H~~~~h~~ 100 (217)
...|..||+..+..
T Consensus 1341 ~~alqihm~~~~~~ 1354 (1406)
T KOG1146|consen 1341 REALQIHMRSSAHR 1354 (1406)
T ss_pred hHHHHHHHHHhhhc
Confidence 99999999974433
No 66
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=85.42 E-value=0.54 Score=42.90 Aligned_cols=30 Identities=27% Similarity=0.369 Sum_probs=12.2
Q ss_pred CCcccccccCCCCCcccccccccccchhcc
Q 027872 163 PATLNVVRKQQWTPKEEVYEEEDSEETEED 192 (217)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~eed~ee~eed 192 (217)
...|.+.|-..+...+..+++.++|++||.
T Consensus 876 altItVNPme~~e~~gs~ee~~e~EeeeE~ 905 (952)
T KOG1834|consen 876 ALTITVNPMEDYEKGGSIEEESEEEEEEET 905 (952)
T ss_pred cceEEecchHhcccCCcccccccccccccc
Confidence 344455543333333333333333333333
No 67
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=84.37 E-value=0.25 Score=39.42 Aligned_cols=24 Identities=25% Similarity=0.569 Sum_probs=17.3
Q ss_pred CCceecCCCCCCccccChhhHHHHHHh
Q 027872 7 ENYHICPYPDCGKRYAHEYKLKNHIAS 33 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~~~L~~H~~~ 33 (217)
.||| |-| |++.|....-|..|++.
T Consensus 9 ~kpw-cwy--cnrefddekiliqhqka 32 (341)
T KOG2893|consen 9 DKPW-CWY--CNREFDDEKILIQHQKA 32 (341)
T ss_pred CCce-eee--cccccchhhhhhhhhhh
Confidence 3555 444 99999988888887663
No 68
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=83.31 E-value=1 Score=26.78 Aligned_cols=25 Identities=40% Similarity=0.856 Sum_probs=19.5
Q ss_pred eecCcccccccccCh-----HHHHHHHHhhCC
Q 027872 73 YACPYEGCEKAYIHE-----YKLKLHLKREHP 99 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~-----~~L~~H~~~~h~ 99 (217)
-.|.+ |++.+... ++|.+|++..|+
T Consensus 19 a~C~~--C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKY--CGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecC--CCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 47988 99988765 699999985454
No 69
>PRK04860 hypothetical protein; Provisional
Probab=83.16 E-value=0.87 Score=34.44 Aligned_cols=29 Identities=7% Similarity=-0.050 Sum_probs=24.6
Q ss_pred ChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccC
Q 027872 23 HEYKLKNHIASHHEKNAAVEVPRYATPPERITKT 56 (217)
Q Consensus 23 ~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~ 56 (217)
....+++|.++|++.++|.| ..|+..|..
T Consensus 127 ~~~~~rrH~ri~~g~~~YrC-----~~C~~~l~~ 155 (160)
T PRK04860 127 HQLTVRRHNRVVRGEAVYRC-----RRCGETLVF 155 (160)
T ss_pred eeCHHHHHHHHhcCCccEEC-----CCCCceeEE
Confidence 67789999999999999999 777776643
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=82.87 E-value=0.79 Score=27.93 Aligned_cols=33 Identities=18% Similarity=0.369 Sum_probs=28.1
Q ss_pred CCCCCeecCcccccccccChHHHHHHHHhhCCCCC
Q 027872 68 SSERPYACPYEGCEKAYIHEYKLKLHLKREHPGHM 102 (217)
Q Consensus 68 ~~ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~ 102 (217)
.|+--+.|+- |+..|..+....+|....|..-.
T Consensus 13 DGE~~lrCPR--C~~~FR~~K~Y~RHVNKaH~~~~ 45 (65)
T COG4049 13 DGEEFLRCPR--CGMVFRRRKDYIRHVNKAHGWLF 45 (65)
T ss_pred CCceeeeCCc--hhHHHHHhHHHHHHhhHHhhhhh
Confidence 5788899988 99999999999999987776533
No 71
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.94 E-value=0.73 Score=42.42 Aligned_cols=49 Identities=12% Similarity=0.019 Sum_probs=26.5
Q ss_pred CCCCCcccCCCCcccccccCCCCCCeecCc----ccccccccChHHHHHHHHhhCCC
Q 027872 48 TPPERITKTPKPPAGVYGSASSERPYACPY----EGCEKAYIHEYKLKLHLKREHPG 100 (217)
Q Consensus 48 ~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~----~~C~k~F~~~~~L~~H~~~~h~~ 100 (217)
..|...|.....|.+|++.+. |.|.+ .+++.-|.....|..|.+..|.-
T Consensus 186 ~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~Hfl 238 (669)
T KOG2231|consen 186 KFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHFL 238 (669)
T ss_pred hhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcCcc
Confidence 344444544455555554432 44544 11244566777788887775543
No 72
>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=77.94 E-value=2 Score=30.05 Aligned_cols=25 Identities=28% Similarity=0.650 Sum_probs=22.6
Q ss_pred eec----CcccccccccChHHHHHHHHhhCC
Q 027872 73 YAC----PYEGCEKAYIHEYKLKLHLKREHP 99 (217)
Q Consensus 73 ~~C----~~~~C~k~F~~~~~L~~H~~~~h~ 99 (217)
|.| .. |+..+.....+++|++.+|+
T Consensus 81 ~~C~~~~~~--C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPH--CGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCC--CCcEeccHHHHHHHHHHhcC
Confidence 889 66 99999999999999998774
No 73
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=77.05 E-value=3 Score=35.26 Aligned_cols=90 Identities=20% Similarity=0.293 Sum_probs=50.1
Q ss_pred ceecCCCCCCccccChhhHHHHHHh--hcCCCCccc----C--CcCCCCCCCcccCCCCcccccc-cC------------
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIAS--HHEKNAAVE----V--PRYATPPERITKTPKPPAGVYG-SA------------ 67 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~--H~~~kp~~c----~--~~~~~~~~~~~~~~~~l~~H~~-~H------------ 67 (217)
.+.|-| |.|.|..+..|+.|||. |..-.|-.- . -.+..+-......+..+.+-.. .+
T Consensus 195 r~~CLy--CekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~e 272 (423)
T KOG2482|consen 195 RLRCLY--CEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNE 272 (423)
T ss_pred hheeee--eccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhc
Confidence 367876 99999999999999984 333223110 0 0000111111111111110000 00
Q ss_pred CCCCC--eecCcccccccccChHHHHHHHHhhCCCCC
Q 027872 68 SSERP--YACPYEGCEKAYIHEYKLKLHLKREHPGHM 102 (217)
Q Consensus 68 ~~ekp--~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~ 102 (217)
.+.-+ .+|-+ |....-....|..||++.|.-..
T Consensus 273 d~a~a~~v~CLf--C~~~~en~~~l~eHmk~vHe~Dl 307 (423)
T KOG2482|consen 273 DDAEALSVVCLF--CTNFYENPVFLFEHMKIVHEFDL 307 (423)
T ss_pred CCCCccceEEEe--eccchhhHHHHHHHHHHHHHhhH
Confidence 01122 58988 99988889999999998886644
No 74
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=75.34 E-value=1.8 Score=31.63 Aligned_cols=25 Identities=32% Similarity=0.482 Sum_probs=15.8
Q ss_pred CCeecCcccccccccChHHHHHHHHhhCCC
Q 027872 71 RPYACPYEGCEKAYIHEYKLKLHLKREHPG 100 (217)
Q Consensus 71 kp~~C~~~~C~k~F~~~~~L~~H~~~~h~~ 100 (217)
.-..|-. |||.|. .|++|++.||+-
T Consensus 71 d~i~cle--cGk~~k---~LkrHL~~~~gl 95 (132)
T PF05443_consen 71 DYIICLE--CGKKFK---TLKRHLRTHHGL 95 (132)
T ss_dssp S-EE-TB--T--EES---BHHHHHHHTT-S
T ss_pred CeeEEcc--CCcccc---hHHHHHHHccCC
Confidence 3467988 999998 569999986544
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=74.86 E-value=1.9 Score=26.27 Aligned_cols=31 Identities=23% Similarity=0.593 Sum_probs=25.4
Q ss_pred ccCCCCceecCCCCCCccccChhhHHHHHHhhc
Q 027872 3 THSQENYHICPYPDCGKRYAHEYKLKNHIASHH 35 (217)
Q Consensus 3 ~Htgekp~~C~~~~C~k~F~~~~~L~~H~~~H~ 35 (217)
+..|+--+.| |.||+.|...-...+|...-+
T Consensus 11 ~RDGE~~lrC--PRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 11 DRDGEEFLRC--PRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred ccCCceeeeC--CchhHHHHHhHHHHHHhhHHh
Confidence 3457788999 689999999999999976543
No 76
>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=72.97 E-value=2.1 Score=31.31 Aligned_cols=25 Identities=40% Similarity=0.922 Sum_probs=16.5
Q ss_pred eecCCCCCCccccChhhHHHHHHhhcCCCC
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNA 39 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp 39 (217)
-.| =+|||.|.. |++|++.|+|-.|
T Consensus 73 i~c--lecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 73 IIC--LECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp EE---TBT--EESB---HHHHHHHTT-S-H
T ss_pred eEE--ccCCcccch---HHHHHHHccCCCH
Confidence 468 489999997 7999999987655
No 77
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=69.95 E-value=1.8 Score=34.38 Aligned_cols=24 Identities=25% Similarity=0.564 Sum_probs=17.3
Q ss_pred CCceecCCCCCCccccChhhHHHHHH
Q 027872 7 ENYHICPYPDCGKRYAHEYKLKNHIA 32 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~~~L~~H~~ 32 (217)
+|...| |.|++.|.++.-+....|
T Consensus 3 ~k~~~C--PvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITC--PVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceEC--CCCCCeeeeeEEEcCCce
Confidence 467899 579999998765554444
No 78
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=68.76 E-value=4.2 Score=36.82 Aligned_cols=28 Identities=21% Similarity=0.596 Sum_probs=22.8
Q ss_pred CCceecCCCCCCccccChhhHHHHHHhhcC
Q 027872 7 ENYHICPYPDCGKRYAHEYKLKNHIASHHE 36 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~~~L~~H~~~H~~ 36 (217)
.+|.+|. .||.+|........||..|-.
T Consensus 416 ~~pnqC~--~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 416 DSPNQCK--SCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred CCcchhc--ccccccccchhhhhHhhhhhh
Confidence 4678995 699999999888888777753
No 79
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=66.10 E-value=8.2 Score=32.77 Aligned_cols=87 Identities=17% Similarity=0.273 Sum_probs=43.3
Q ss_pred eecCCCCCCccccChhhHHHHHHhhcCCCCc-ccCCcCCCC-CCCcccCCCCcccccccCCCCCCe----ecCccccccc
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNAA-VEVPRYATP-PERITKTPKPPAGVYGSASSERPY----ACPYEGCEKA 83 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~-~c~~~~~~~-~~~~~~~~~~l~~H~~~H~~ekp~----~C~~~~C~k~ 83 (217)
|.|+-..|..+......|+.|.+.-++..-. .|......+ |....-++..|..|...-..+.-| .|-+ |.+.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~F--C~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIF--CKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhh--ccce
Confidence 5676555666666666788887765542111 121111111 111122334455554333222122 4655 7777
Q ss_pred ccChHHHHHHHHhhC
Q 027872 84 YIHEYKLKLHLKREH 98 (217)
Q Consensus 84 F~~~~~L~~H~~~~h 98 (217)
|-.-.-|.+|+|..|
T Consensus 230 FYdDDEL~~HcR~~H 244 (493)
T COG5236 230 FYDDDELRRHCRLRH 244 (493)
T ss_pred ecChHHHHHHHHhhh
Confidence 777777777776544
No 80
>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=65.26 E-value=5.1 Score=28.90 Aligned_cols=21 Identities=33% Similarity=0.569 Sum_probs=16.0
Q ss_pred CCCCeecCcccccccccChHHHH
Q 027872 69 SERPYACPYEGCEKAYIHEYKLK 91 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~~~~L~ 91 (217)
+..|..|++ ||..|.....++
T Consensus 23 nk~p~vcP~--cg~~~~~~~~~~ 43 (129)
T TIGR02300 23 NRRPAVSPY--TGEQFPPEEALK 43 (129)
T ss_pred CCCCccCCC--cCCccCcchhhc
Confidence 458899999 999987664443
No 81
>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=65.21 E-value=5.2 Score=31.78 Aligned_cols=32 Identities=25% Similarity=0.605 Sum_probs=24.5
Q ss_pred CCCCeecCcccccccccChHHHHHHHHhhCCCCC
Q 027872 69 SERPYACPYEGCEKAYIHEYKLKLHLKREHPGHM 102 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~ 102 (217)
.+.-|.|+. |+|.|.-..-..+|+...|+...
T Consensus 74 ~~~K~~C~l--c~KlFkg~eFV~KHI~nKH~e~v 105 (214)
T PF04959_consen 74 DEDKWRCPL--CGKLFKGPEFVRKHIFNKHPEKV 105 (214)
T ss_dssp SSEEEEE-S--SS-EESSHHHHHHHHHHH-HHHH
T ss_pred cCCEECCCC--CCcccCChHHHHHHHhhcCHHHH
Confidence 445699998 99999999999999998887644
No 82
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.28 E-value=4.6 Score=37.35 Aligned_cols=75 Identities=19% Similarity=0.339 Sum_probs=45.6
Q ss_pred ecCCCCCCccccChhhHHHHHHhhcCCCCcccCCcC-CCCCCCcccCCCCcccccccCCCCCCeecCcccc-cccccChH
Q 027872 11 ICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRY-ATPPERITKTPKPPAGVYGSASSERPYACPYEGC-EKAYIHEY 88 (217)
Q Consensus 11 ~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~-~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C-~k~F~~~~ 88 (217)
.|. .|...|-....|.+|++.++ |.|.++. ...++-.|.....|..|.+.+. |.|....| .+.|....
T Consensus 184 ~C~--~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE~~~C~~~~f~~~~ 253 (669)
T KOG2231|consen 184 LCK--FCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCEEEFCRTKKFYVAF 253 (669)
T ss_pred cch--hhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC----ccccccccccceeeehh
Confidence 364 48888888888888888664 3443322 2334455666677777765443 67753335 35566665
Q ss_pred HHHHHHH
Q 027872 89 KLKLHLK 95 (217)
Q Consensus 89 ~L~~H~~ 95 (217)
.+..|++
T Consensus 254 ~~ei~lk 260 (669)
T KOG2231|consen 254 ELEIELK 260 (669)
T ss_pred HHHHHHH
Confidence 6666665
No 83
>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=63.20 E-value=6.8 Score=19.91 Aligned_cols=19 Identities=32% Similarity=0.667 Sum_probs=15.7
Q ss_pred ecCcccccccccChHHHHHHHH
Q 027872 74 ACPYEGCEKAYIHEYKLKLHLK 95 (217)
Q Consensus 74 ~C~~~~C~k~F~~~~~L~~H~~ 95 (217)
.|++ |++.+ ....+..|+.
T Consensus 3 ~CPi--C~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPV--CFREV-PENLINSHLD 21 (26)
T ss_pred cCCC--CcCcc-cHHHHHHHHH
Confidence 6999 99998 6678888875
No 84
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.60 E-value=7.2 Score=27.33 Aligned_cols=21 Identities=24% Similarity=0.477 Sum_probs=16.4
Q ss_pred CCCCeecCcccccccccChHHHHH
Q 027872 69 SERPYACPYEGCEKAYIHEYKLKL 92 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~~~~L~~ 92 (217)
...|..|++ ||++| ..+.|..
T Consensus 23 NrdPiVsPy--tG~s~-P~s~fe~ 43 (129)
T COG4530 23 NRDPIVSPY--TGKSY-PRSYFEE 43 (129)
T ss_pred CCCccccCc--ccccc-hHHHHHh
Confidence 458999999 99999 5666644
No 85
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=61.12 E-value=14 Score=28.77 Aligned_cols=58 Identities=22% Similarity=0.446 Sum_probs=32.8
Q ss_pred ceecCC--CCCCccccChhhHHHHHHhhcCCCCcccCCcCCCCCCCcccCCCCcccccccCCCCCCeecCc--ccccccc
Q 027872 9 YHICPY--PDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSERPYACPY--EGCEKAY 84 (217)
Q Consensus 9 p~~C~~--~~C~k~F~~~~~L~~H~~~H~~~kp~~c~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~--~~C~k~F 84 (217)
.+.|+| ..|...|.. ..+..|.... .-+||.|+. .+|+..-
T Consensus 14 ~~pC~~~~~GC~~~~~~-~~~~~HE~~C----------------------------------~~~p~~CP~~~~~C~~~G 58 (198)
T PF03145_consen 14 KFPCKNAKYGCTETFPY-SEKREHEEEC----------------------------------PFRPCSCPFPGSGCDWQG 58 (198)
T ss_dssp -EE-CCGGGT---EE-G-GGHHHHHHT-----------------------------------TTSEEE-SSSSTT---EE
T ss_pred eecCCCCCCCCcccccc-cChhhHhccC----------------------------------CCcCCcCCCCCCCccccC
Confidence 467875 368888664 4566777654 348899988 6787655
Q ss_pred cChHHHHHHHHhhCCCCC
Q 027872 85 IHEYKLKLHLKREHPGHM 102 (217)
Q Consensus 85 ~~~~~L~~H~~~~h~~~~ 102 (217)
. ...|..|+...|....
T Consensus 59 ~-~~~l~~Hl~~~H~~~~ 75 (198)
T PF03145_consen 59 S-YKELLDHLRDKHSWNV 75 (198)
T ss_dssp E-CCCHHHHHHHHTTTSE
T ss_pred C-HHHHHHHHHHHCCCcc
Confidence 3 4588999998887754
No 86
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=60.68 E-value=4.5 Score=29.47 Aligned_cols=25 Identities=32% Similarity=0.635 Sum_probs=20.3
Q ss_pred eecCCCCCCccccChhhHHHHHHhhcCCCC
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNA 39 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp 39 (217)
-.| -+|||.|.+ |++|+.+|.+-.|
T Consensus 77 Iic--LEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 77 IIC--LEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEE--eccCcchHH---HHHHHhcccCCCH
Confidence 357 489999985 9999999987655
No 87
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=60.11 E-value=28 Score=26.26 Aligned_cols=41 Identities=22% Similarity=0.339 Sum_probs=29.4
Q ss_pred cccCCCCCCeecCcccccccccChHHHHHHHHhhCCCCCCcc
Q 027872 64 YGSASSERPYACPYEGCEKAYIHEYKLKLHLKREHPGHMSDE 105 (217)
Q Consensus 64 ~~~H~~ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~~~~ 105 (217)
.|.+...|+-.|..++|... ..-..|++|.|..|+...|..
T Consensus 99 AR~~LN~K~RsC~~e~C~F~-GtY~eLrKHar~~HP~~rP~~ 139 (162)
T PF07800_consen 99 ARRFLNAKKRSCSQESCSFS-GTYSELRKHARSEHPSARPSE 139 (162)
T ss_pred HHHHhccCCccCcccccccc-cCHHHHHHHHHhhCCCCCCcc
Confidence 44555678888887778543 345689999999898877643
No 88
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=58.24 E-value=8.9 Score=23.56 Aligned_cols=11 Identities=36% Similarity=1.020 Sum_probs=5.6
Q ss_pred CCeecCccccc
Q 027872 71 RPYACPYEGCE 81 (217)
Q Consensus 71 kp~~C~~~~C~ 81 (217)
+...|++.||.
T Consensus 47 ~~~~CPv~GC~ 57 (57)
T PF11789_consen 47 GSKRCPVAGCN 57 (57)
T ss_dssp S-EE-SCCC-S
T ss_pred CCCCCCCCCCC
Confidence 56788887773
No 89
>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=56.74 E-value=8.2 Score=30.64 Aligned_cols=28 Identities=32% Similarity=0.630 Sum_probs=21.6
Q ss_pred CCCceecCCCCCCccccChhhHHHHHHhhc
Q 027872 6 QENYHICPYPDCGKRYAHEYKLKNHIASHH 35 (217)
Q Consensus 6 gekp~~C~~~~C~k~F~~~~~L~~H~~~H~ 35 (217)
.+..|.| +.|+|.|.-...++.||..-+
T Consensus 74 ~~~K~~C--~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 74 DEDKWRC--PLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSEEEEE---SSS-EESSHHHHHHHHHHH-
T ss_pred cCCEECC--CCCCcccCChHHHHHHHhhcC
Confidence 4557999 589999999999999988554
No 90
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=54.61 E-value=7.3 Score=28.40 Aligned_cols=22 Identities=27% Similarity=0.280 Sum_probs=18.0
Q ss_pred eecCcccccccccChHHHHHHHHhhCC
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKREHP 99 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~~h~ 99 (217)
..|-. |||.|. +|++|+.+||+
T Consensus 77 IicLE--DGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 77 IICLE--DGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEEec--cCcchH---HHHHHHhcccC
Confidence 47877 999997 89999988654
No 91
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=52.36 E-value=4.2 Score=37.82 Aligned_cols=27 Identities=19% Similarity=0.442 Sum_probs=23.3
Q ss_pred CeecCcccccccccChHHHHHHHHhhCCC
Q 027872 72 PYACPYEGCEKAYIHEYKLKLHLKREHPG 100 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L~~H~~~~h~~ 100 (217)
-|-|.. |+|.|-.-.++..||++|...
T Consensus 792 iFpCre--C~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 792 IFPCRE--CGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred eeehHH--HHHHHHHHhhhhHHHHHHHHH
Confidence 489998 999999999999999986443
No 92
>PF15269 zf-C2H2_7: Zinc-finger
Probab=51.52 E-value=11 Score=21.90 Aligned_cols=22 Identities=27% Similarity=0.404 Sum_probs=18.4
Q ss_pred eecCcccccccccChHHHHHHHHh
Q 027872 73 YACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
|+|-. |..+..-+++|-.||+.
T Consensus 21 ykcfq--cpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQ--CPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeec--CCcccchHHHHHHHHHH
Confidence 57766 88788889999999986
No 93
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=51.32 E-value=11 Score=32.09 Aligned_cols=37 Identities=14% Similarity=0.038 Sum_probs=26.8
Q ss_pred ccccCCCCCCeecCcccccccccChHHHHHHHHhhCCCCC
Q 027872 63 VYGSASSERPYACPYEGCEKAYIHEYKLKLHLKREHPGHM 102 (217)
Q Consensus 63 H~~~H~~ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~ 102 (217)
|+..-+-.+||+|+ |++.+..+..|+-|--..|.+..
T Consensus 204 ~~T~~t~~~p~k~~---~~~~~~T~~~l~~HS~N~~~~~S 240 (442)
T KOG4124|consen 204 SSTAETTGTPKKMP---ESLVMDTSSPLSDHSMNIDVGES 240 (442)
T ss_pred ccccccccCCccCc---ccccccccchhhhccccCCCCcc
Confidence 33334566899998 99999999999888544454433
No 94
>PF12907 zf-met2: Zinc-binding
Probab=48.81 E-value=4.7 Score=22.94 Aligned_cols=27 Identities=30% Similarity=0.730 Sum_probs=20.8
Q ss_pred eecCcccccccccC---hHHHHHHHHhhCCCC
Q 027872 73 YACPYEGCEKAYIH---EYKLKLHLKREHPGH 101 (217)
Q Consensus 73 ~~C~~~~C~k~F~~---~~~L~~H~~~~h~~~ 101 (217)
+.|.+ |-.+|.. ...|..|....|+..
T Consensus 2 i~C~i--C~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKI--CRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHH--hhHHHHhcCCHHHHHHHHHccCCCC
Confidence 57999 9977754 466999998777764
No 95
>KOG2312 consensus Predicted transcriptional regulator, contains ARID domain [Transcription]
Probab=47.70 E-value=11 Score=34.89 Aligned_cols=28 Identities=21% Similarity=0.516 Sum_probs=23.4
Q ss_pred ceecCCCCCCccccChhhHHHHHHhhcC
Q 027872 9 YHICPYPDCGKRYAHEYKLKNHIASHHE 36 (217)
Q Consensus 9 p~~C~~~~C~k~F~~~~~L~~H~~~H~~ 36 (217)
-|.|.|..|.+.|...+.|..|.-.-++
T Consensus 643 ~~mc~w~~c~~~~~tPs~vl~h~~~eh~ 670 (847)
T KOG2312|consen 643 NFMCLWQSCKKWFQTPSQVLYHAATEHG 670 (847)
T ss_pred ceeecccccchhhcCcchhheecchhhc
Confidence 4889999999999999999998775544
No 96
>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=46.98 E-value=16 Score=19.96 Aligned_cols=15 Identities=20% Similarity=0.565 Sum_probs=10.0
Q ss_pred eecCCCCCCccccChhh
Q 027872 10 HICPYPDCGKRYAHEYK 26 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~ 26 (217)
+.| |.|+..|.-...
T Consensus 3 ~~C--P~C~~~~~v~~~ 17 (38)
T TIGR02098 3 IQC--PNCKTSFRVVDS 17 (38)
T ss_pred EEC--CCCCCEEEeCHH
Confidence 467 578887776544
No 97
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=45.63 E-value=11 Score=36.46 Aligned_cols=7 Identities=29% Similarity=0.691 Sum_probs=2.8
Q ss_pred CCCCCCC
Q 027872 204 ENNEDDD 210 (217)
Q Consensus 204 ~~~eddd 210 (217)
++|.|||
T Consensus 336 deYsDDe 342 (1233)
T KOG1824|consen 336 DEYSDDE 342 (1233)
T ss_pred ccccccc
Confidence 3344443
No 98
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=44.03 E-value=24 Score=21.35 Aligned_cols=25 Identities=20% Similarity=0.472 Sum_probs=13.8
Q ss_pred CceecCCCCCC-ccccChhhHHHHHHhh
Q 027872 8 NYHICPYPDCG-KRYAHEYKLKNHIASH 34 (217)
Q Consensus 8 kp~~C~~~~C~-k~F~~~~~L~~H~~~H 34 (217)
++-.|++ .|+ ..+. +..|..|+...
T Consensus 8 ~~v~C~~-~cc~~~i~-r~~l~~H~~~~ 33 (60)
T PF02176_consen 8 RPVPCPN-GCCNEMIP-RKELDDHLENE 33 (60)
T ss_dssp SEEE-TT---S-BEEE-CCCHHHHHHTT
T ss_pred CEeeCCC-CCccccee-HHHHHHHHHcc
Confidence 4567863 354 4455 56788888754
No 99
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=43.76 E-value=18 Score=29.39 Aligned_cols=23 Identities=17% Similarity=0.533 Sum_probs=15.5
Q ss_pred eecCCCCCCccccChhhHHHHHHhhc
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIASHH 35 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~H~ 35 (217)
|.| ..||-+.. +..|-+|+-..+
T Consensus 4 FtC--nvCgEsvK-Kp~vekH~srCr 26 (276)
T KOG2186|consen 4 FTC--NVCGESVK-KPQVEKHMSRCR 26 (276)
T ss_pred Eeh--hhhhhhcc-ccchHHHHHhcc
Confidence 678 57887776 455777766553
No 100
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=43.68 E-value=14 Score=32.90 Aligned_cols=7 Identities=57% Similarity=1.274 Sum_probs=3.8
Q ss_pred CCCeecC
Q 027872 70 ERPYACP 76 (217)
Q Consensus 70 ekp~~C~ 76 (217)
.+||.|-
T Consensus 114 Vrp~~Cl 120 (615)
T KOG3540|consen 114 VRPYRCL 120 (615)
T ss_pred cccceee
Confidence 4566653
No 101
>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=42.05 E-value=12 Score=21.22 Aligned_cols=12 Identities=58% Similarity=1.553 Sum_probs=9.8
Q ss_pred CceecCCCCCCccc
Q 027872 8 NYHICPYPDCGKRY 21 (217)
Q Consensus 8 kp~~C~~~~C~k~F 21 (217)
++-.|+| ||..|
T Consensus 28 ~~~~CpY--Cg~~y 39 (40)
T PF10276_consen 28 GPVVCPY--CGTRY 39 (40)
T ss_dssp CEEEETT--TTEEE
T ss_pred CeEECCC--CCCEE
Confidence 4789976 99887
No 102
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=41.81 E-value=23 Score=19.50 Aligned_cols=13 Identities=31% Similarity=0.858 Sum_probs=9.1
Q ss_pred CCeecCccccccccc
Q 027872 71 RPYACPYEGCEKAYI 85 (217)
Q Consensus 71 kp~~C~~~~C~k~F~ 85 (217)
+..+|+. |+..|.
T Consensus 24 ~~vrC~~--C~~~f~ 36 (37)
T PF13719_consen 24 RKVRCPK--CGHVFR 36 (37)
T ss_pred cEEECCC--CCcEee
Confidence 4567877 887774
No 103
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=41.18 E-value=85 Score=22.23 Aligned_cols=83 Identities=16% Similarity=0.275 Sum_probs=51.0
Q ss_pred CceecCCCCCCccccChhhHHHHHHhhcCCCCcccC-------CcCCCCCCCcccCCCCcccccccCCCCCCeecCcccc
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEV-------PRYATPPERITKTPKPPAGVYGSASSERPYACPYEGC 80 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp~~c~-------~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C 80 (217)
-|-.| ++||-..-....|.+....--.-++|.-. ...+-.|++.|....... ...-+....|.|+. |
T Consensus 14 LP~~C--piCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~--C 87 (112)
T TIGR00622 14 LPVEC--PICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP--FDELKDSHRYVCAV--C 87 (112)
T ss_pred CCCcC--CcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccc--ccccccccceeCCC--C
Confidence 46788 58999998888888752211234445211 123567777775432110 00012345799998 9
Q ss_pred cccccChHHHHHHHHh
Q 027872 81 EKAYIHEYKLKLHLKR 96 (217)
Q Consensus 81 ~k~F~~~~~L~~H~~~ 96 (217)
...|--.-.+-.|...
T Consensus 88 ~~~FC~dCD~fiHe~L 103 (112)
T TIGR00622 88 KNVFCVDCDVFVHESL 103 (112)
T ss_pred CCccccccchhhhhhc
Confidence 9999988888888765
No 104
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=40.14 E-value=16 Score=33.01 Aligned_cols=6 Identities=33% Similarity=0.999 Sum_probs=2.7
Q ss_pred cccccc
Q 027872 80 CEKAYI 85 (217)
Q Consensus 80 C~k~F~ 85 (217)
||.+|.
T Consensus 158 cGFaFV 163 (678)
T KOG0127|consen 158 CGFAFV 163 (678)
T ss_pred cceEEE
Confidence 444443
No 105
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=39.02 E-value=25 Score=31.30 Aligned_cols=32 Identities=28% Similarity=0.640 Sum_probs=27.3
Q ss_pred CCeecCcccccccccChHHHHHHHHhhCCCCCCc
Q 027872 71 RPYACPYEGCEKAYIHEYKLKLHLKREHPGHMSD 104 (217)
Q Consensus 71 kp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~~~ 104 (217)
+-+.|+. |.+.|.....|..|+...|.+...+
T Consensus 56 rFWiCp~--CskkF~d~~~~~~H~~~eH~~~l~P 87 (466)
T PF04780_consen 56 RFWICPR--CSKKFSDAESCLSHMEQEHPAGLKP 87 (466)
T ss_pred eEeeCCc--ccceeCCHHHHHHHHHHhhhhhcCh
Confidence 3478998 9999999999999999888887643
No 106
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=38.16 E-value=26 Score=19.23 Aligned_cols=13 Identities=23% Similarity=0.761 Sum_probs=9.0
Q ss_pred CCeecCccccccccc
Q 027872 71 RPYACPYEGCEKAYI 85 (217)
Q Consensus 71 kp~~C~~~~C~k~F~ 85 (217)
+..+|+. |+..|.
T Consensus 24 ~~v~C~~--C~~~f~ 36 (36)
T PF13717_consen 24 RKVRCSK--CGHVFF 36 (36)
T ss_pred cEEECCC--CCCEeC
Confidence 4567877 887773
No 107
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=37.93 E-value=19 Score=27.03 Aligned_cols=17 Identities=18% Similarity=0.387 Sum_probs=11.6
Q ss_pred CeecCcccccccccChHHH
Q 027872 72 PYACPYEGCEKAYIHEYKL 90 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L 90 (217)
-|+|+. ||++|+.--.+
T Consensus 28 ~~~c~~--c~~~f~~~e~~ 44 (154)
T PRK00464 28 RRECLA--CGKRFTTFERV 44 (154)
T ss_pred eeeccc--cCCcceEeEec
Confidence 378876 88888765433
No 108
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=37.57 E-value=25 Score=31.88 Aligned_cols=33 Identities=24% Similarity=0.646 Sum_probs=27.6
Q ss_pred CCCCeecCcccccccccChHHHHHHHHhhCCCC
Q 027872 69 SERPYACPYEGCEKAYIHEYKLKLHLKREHPGH 101 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~ 101 (217)
+.-.|.|+..||.|.|.-.--.++|+...|...
T Consensus 506 ~kdKy~C~lsgc~KlF~gpEFvrKHi~~KH~d~ 538 (648)
T KOG2295|consen 506 DKDKYLCPLSGCAKLFKGPEFVRKHINKKHKDK 538 (648)
T ss_pred hcccccCCCcchHhhccCHHHHHHHHHHHHHHH
Confidence 345699999999999999989999998877663
No 109
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=37.26 E-value=19 Score=32.62 Aligned_cols=6 Identities=33% Similarity=1.165 Sum_probs=3.3
Q ss_pred CCeecC
Q 027872 71 RPYACP 76 (217)
Q Consensus 71 kp~~C~ 76 (217)
-||+|.
T Consensus 125 LPf~~k 130 (678)
T KOG0127|consen 125 LPFKCK 130 (678)
T ss_pred CCcccC
Confidence 456654
No 110
>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=36.87 E-value=19 Score=18.33 Aligned_cols=10 Identities=40% Similarity=1.374 Sum_probs=7.8
Q ss_pred ecCCCCCCcccc
Q 027872 11 ICPYPDCGKRYA 22 (217)
Q Consensus 11 ~C~~~~C~k~F~ 22 (217)
.| ++||..|.
T Consensus 16 ~C--p~CG~~F~ 25 (26)
T PF10571_consen 16 FC--PHCGYDFE 25 (26)
T ss_pred cC--CCCCCCCc
Confidence 57 57999885
No 111
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=36.85 E-value=26 Score=29.82 Aligned_cols=23 Identities=35% Similarity=0.791 Sum_probs=21.0
Q ss_pred CeecCcccccccccChHHHHHHHHh
Q 027872 72 PYACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
.+.|-+ |.|.|..+..|+.|||.
T Consensus 195 r~~CLy--CekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLY--CEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeee--eccccCCcHHHHHHHHh
Confidence 468988 99999999999999985
No 112
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=36.82 E-value=2.8 Score=38.95 Aligned_cols=22 Identities=27% Similarity=0.597 Sum_probs=17.5
Q ss_pred CCCeecCcccccccccChHHHHHH
Q 027872 70 ERPYACPYEGCEKAYIHEYKLKLH 93 (217)
Q Consensus 70 ekp~~C~~~~C~k~F~~~~~L~~H 93 (217)
-|.-+||. |+.+|+....++.|
T Consensus 676 tRqRKCP~--Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 676 TRQRKCPK--CNAAFGANDVHRIH 697 (698)
T ss_pred HhcCCCCC--CCCCCCcccccccC
Confidence 35568988 99999988877665
No 113
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=36.63 E-value=19 Score=29.33 Aligned_cols=16 Identities=6% Similarity=0.360 Sum_probs=8.7
Q ss_pred ccccccChHHHHHHHH
Q 027872 80 CEKAYIHEYKLKLHLK 95 (217)
Q Consensus 80 C~k~F~~~~~L~~H~~ 95 (217)
|-..|+.-.....-|+
T Consensus 108 cKQRltklTQylir~r 123 (303)
T KOG3064|consen 108 CKQRLTKLTQYLIRMR 123 (303)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5556766555444444
No 114
>COG5137 Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]
Probab=34.23 E-value=21 Score=28.36 Aligned_cols=7 Identities=0% Similarity=0.320 Sum_probs=3.0
Q ss_pred ccccccC
Q 027872 80 CEKAYIH 86 (217)
Q Consensus 80 C~k~F~~ 86 (217)
=|+.|.|
T Consensus 102 ~g~eFvR 108 (279)
T COG5137 102 KGQEFVR 108 (279)
T ss_pred cCceeEE
Confidence 3444443
No 115
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=33.86 E-value=22 Score=19.93 Aligned_cols=14 Identities=21% Similarity=0.667 Sum_probs=11.8
Q ss_pred CeecCcccccccccCh
Q 027872 72 PYACPYEGCEKAYIHE 87 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~ 87 (217)
||+|.. |++.|-..
T Consensus 12 ~f~C~~--C~~~FC~~ 25 (39)
T smart00154 12 GFKCRH--CGNLFCGE 25 (39)
T ss_pred CeECCc--cCCccccc
Confidence 899998 99999643
No 116
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=33.07 E-value=89 Score=29.57 Aligned_cols=35 Identities=9% Similarity=0.061 Sum_probs=27.1
Q ss_pred CCCCceecCCCCCCccccChhhHHHHHHhhcCCCC
Q 027872 5 SQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNA 39 (217)
Q Consensus 5 tgekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~kp 39 (217)
--.+|++|....|+..|..++.+--|+++|...++
T Consensus 169 a~~~p~~cs~a~~~~s~p~s~h~~phqytp~~~rt 203 (907)
T KOG4167|consen 169 AMMQPLQCSQAQQMHSQPPSYHRDPHQYTPEQART 203 (907)
T ss_pred ccCCchhhhhhhhhccCCccccCCccccccccccc
Confidence 34678888777888888888888889998855444
No 117
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=32.04 E-value=99 Score=27.90 Aligned_cols=16 Identities=13% Similarity=-0.035 Sum_probs=6.6
Q ss_pred CCcccccccCCCCCcc
Q 027872 163 PATLNVVRKQQWTPKE 178 (217)
Q Consensus 163 ~~~~~~~~~~~~~~~~ 178 (217)
.+..+..+...|..++
T Consensus 413 aatsstnppad~~dgd 428 (990)
T KOG1819|consen 413 AATSSTNPPADNEDGD 428 (990)
T ss_pred ccccCCCCccccccCc
Confidence 3333334344444443
No 118
>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=30.15 E-value=40 Score=17.96 Aligned_cols=11 Identities=45% Similarity=1.304 Sum_probs=8.6
Q ss_pred CCCeecCcccccc
Q 027872 70 ERPYACPYEGCEK 82 (217)
Q Consensus 70 ekp~~C~~~~C~k 82 (217)
..|+.|++ ||.
T Consensus 15 ~~~~~CP~--Cg~ 25 (33)
T cd00350 15 EAPWVCPV--CGA 25 (33)
T ss_pred cCCCcCcC--CCC
Confidence 37889988 975
No 119
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=29.44 E-value=36 Score=24.40 Aligned_cols=26 Identities=27% Similarity=0.557 Sum_probs=22.0
Q ss_pred CCCCeecCcccccccccChHHHHHHHHh
Q 027872 69 SERPYACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 69 ~ekp~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
|-..|-|-. |.+-|.....|..|.++
T Consensus 54 G~GqfyCi~--CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIE--CARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhh--hhhhhcchHHHHHHHhc
Confidence 334588987 99999999999999875
No 120
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=29.04 E-value=62 Score=23.89 Aligned_cols=16 Identities=31% Similarity=0.920 Sum_probs=10.5
Q ss_pred CCceecCCCCCCccccCh
Q 027872 7 ENYHICPYPDCGKRYAHE 24 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~ 24 (217)
..-|.| |.|++.|...
T Consensus 97 ~~~Y~C--p~C~~~y~~~ 112 (147)
T smart00531 97 NAYYKC--PNCQSKYTFL 112 (147)
T ss_pred CcEEEC--cCCCCEeeHH
Confidence 345778 5688777743
No 121
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=28.98 E-value=36 Score=25.92 Aligned_cols=20 Identities=25% Similarity=0.476 Sum_probs=16.0
Q ss_pred CCCCCcccCCCCcccccccCCCCCCeecCcccccc
Q 027872 48 TPPERITKTPKPPAGVYGSASSERPYACPYEGCEK 82 (217)
Q Consensus 48 ~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k 82 (217)
.+|+.. |.|+-|-+|++ ||-
T Consensus 138 ~vCGy~-------------~~ge~P~~CPi--Cga 157 (166)
T COG1592 138 PVCGYT-------------HEGEAPEVCPI--CGA 157 (166)
T ss_pred CCCCCc-------------ccCCCCCcCCC--CCC
Confidence 888764 36789999999 983
No 122
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=28.59 E-value=46 Score=19.13 Aligned_cols=12 Identities=33% Similarity=0.935 Sum_probs=8.7
Q ss_pred CeecCccccccccc
Q 027872 72 PYACPYEGCEKAYI 85 (217)
Q Consensus 72 p~~C~~~~C~k~F~ 85 (217)
.+.|+. ||..+.
T Consensus 21 ~~~Cp~--CG~~~~ 32 (46)
T PRK00398 21 GVRCPY--CGYRIL 32 (46)
T ss_pred ceECCC--CCCeEE
Confidence 678888 886554
No 123
>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=27.11 E-value=24 Score=20.10 Aligned_cols=15 Identities=27% Similarity=0.824 Sum_probs=9.8
Q ss_pred CCeecCcccccccccCh
Q 027872 71 RPYACPYEGCEKAYIHE 87 (217)
Q Consensus 71 kp~~C~~~~C~k~F~~~ 87 (217)
-||.|.. |++.|-..
T Consensus 12 ~~~~C~~--C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKH--CGKSFCLK 26 (43)
T ss_dssp SHEE-TT--TS-EE-TT
T ss_pred CCeECCC--CCcccCcc
Confidence 6899998 99999643
No 124
>PHA00458 single-stranded DNA-binding protein
Probab=26.64 E-value=47 Score=26.48 Aligned_cols=16 Identities=13% Similarity=0.123 Sum_probs=8.3
Q ss_pred cccccccCCCCCcccc
Q 027872 165 TLNVVRKQQWTPKEEV 180 (217)
Q Consensus 165 ~~~~~~~~~~~~~~~~ 180 (217)
++.++....|.+++++
T Consensus 175 sv~vieL~ef~ggg~d 190 (233)
T PHA00458 175 SVMLVELAEFGGGGED 190 (233)
T ss_pred eEEEEEEEEecCCCcc
Confidence 3444556677444443
No 125
>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=26.14 E-value=33 Score=17.15 Aligned_cols=10 Identities=40% Similarity=1.202 Sum_probs=8.1
Q ss_pred CCeecCcccccc
Q 027872 71 RPYACPYEGCEK 82 (217)
Q Consensus 71 kp~~C~~~~C~k 82 (217)
-+|.|+. ||+
T Consensus 15 v~f~CPn--CG~ 24 (24)
T PF07754_consen 15 VPFPCPN--CGF 24 (24)
T ss_pred ceEeCCC--CCC
Confidence 5799988 984
No 126
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=26.08 E-value=40 Score=30.78 Aligned_cols=32 Identities=16% Similarity=0.301 Sum_probs=25.5
Q ss_pred CCCeecCcccccccccChHHHHHHHHhhCCCCCC
Q 027872 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPGHMS 103 (217)
Q Consensus 70 ekp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~~ 103 (217)
.+|.+|.. ||.+|........||..|-..+..
T Consensus 416 ~~pnqC~~--CG~R~~~~ee~sk~md~H~dwh~r 447 (579)
T KOG2071|consen 416 DSPNQCKS--CGLRFDDSEERSKHMDIHDDWHRR 447 (579)
T ss_pred CCcchhcc--cccccccchhhhhHhhhhhhhhhh
Confidence 46789988 999999999988888776555443
No 127
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=25.66 E-value=46 Score=20.76 Aligned_cols=25 Identities=12% Similarity=0.129 Sum_probs=10.4
Q ss_pred CCCCCCcccCCCCcccccccCCCCCCeecCccccccccc
Q 027872 47 ATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYI 85 (217)
Q Consensus 47 ~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~ 85 (217)
+.+|++.|.. -.+.+.|.. ||..|-
T Consensus 12 C~~C~~~F~~------------~~rrhhCr~--CG~~vC 36 (69)
T PF01363_consen 12 CMICGKKFSL------------FRRRHHCRN--CGRVVC 36 (69)
T ss_dssp -TTT--B-BS------------SS-EEE-TT--T--EEE
T ss_pred CcCcCCcCCC------------ceeeEccCC--CCCEEC
Confidence 3566776632 246677877 887775
No 128
>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=25.07 E-value=35 Score=18.73 Aligned_cols=14 Identities=21% Similarity=0.581 Sum_probs=10.8
Q ss_pred CeecCcccccccccCh
Q 027872 72 PYACPYEGCEKAYIHE 87 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~ 87 (217)
-|+|.. ||+.|...
T Consensus 5 ~y~C~~--Cg~~fe~~ 18 (41)
T smart00834 5 EYRCED--CGHTFEVL 18 (41)
T ss_pred EEEcCC--CCCEEEEE
Confidence 378988 99988743
No 129
>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=24.96 E-value=51 Score=17.79 Aligned_cols=10 Identities=40% Similarity=1.085 Sum_probs=7.9
Q ss_pred CCeecCcccccc
Q 027872 71 RPYACPYEGCEK 82 (217)
Q Consensus 71 kp~~C~~~~C~k 82 (217)
.|..|++ ||.
T Consensus 17 ~p~~CP~--Cg~ 26 (34)
T cd00729 17 APEKCPI--CGA 26 (34)
T ss_pred CCCcCcC--CCC
Confidence 5788988 875
No 130
>PHA00626 hypothetical protein
Probab=24.90 E-value=39 Score=20.73 Aligned_cols=16 Identities=19% Similarity=0.412 Sum_probs=12.9
Q ss_pred CCCeecCcccccccccCh
Q 027872 70 ERPYACPYEGCEKAYIHE 87 (217)
Q Consensus 70 ekp~~C~~~~C~k~F~~~ 87 (217)
...|+|+. ||..|+..
T Consensus 21 snrYkCkd--CGY~ft~~ 36 (59)
T PHA00626 21 SDDYVCCD--CGYNDSKD 36 (59)
T ss_pred CcceEcCC--CCCeechh
Confidence 36799998 99999843
No 131
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=24.77 E-value=45 Score=23.90 Aligned_cols=25 Identities=20% Similarity=0.547 Sum_probs=21.1
Q ss_pred CceecCCCCCCccccChhhHHHHHHhh
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIASH 34 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~~H 34 (217)
-.|-| -.|.+-|.....|..|.++-
T Consensus 56 GqfyC--i~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 56 GQFYC--IECARYFIDAKALKTHFKTK 80 (129)
T ss_pred ceeeh--hhhhhhhcchHHHHHHHhcc
Confidence 45788 58999999999999998854
No 132
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=24.51 E-value=44 Score=21.62 Aligned_cols=22 Identities=23% Similarity=0.428 Sum_probs=15.3
Q ss_pred CCCCCeecCcccccccccChHH
Q 027872 68 SSERPYACPYEGCEKAYIHEYK 89 (217)
Q Consensus 68 ~~ekp~~C~~~~C~k~F~~~~~ 89 (217)
+.++-+.|....||.+|...-.
T Consensus 23 ~~~~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 23 TKERYHQCQNVNCSATFITYES 44 (72)
T ss_pred hheeeeecCCCCCCCEEEEEEE
Confidence 3457789983349999986533
No 133
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=23.82 E-value=1.5e+02 Score=25.10 Aligned_cols=78 Identities=14% Similarity=0.183 Sum_probs=41.3
Q ss_pred CCCCccccChhhHHHHHHhhcCCCCccc-------CCcCCCCCCCcccCCCCcccccccCCCCCCeecCcccccccccCh
Q 027872 15 PDCGKRYAHEYKLKNHIASHHEKNAAVE-------VPRYATPPERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHE 87 (217)
Q Consensus 15 ~~C~k~F~~~~~L~~H~~~H~~~kp~~c-------~~~~~~~~~~~~~~~~~l~~H~~~H~~ekp~~C~~~~C~k~F~~~ 87 (217)
|.|.-..-...+|.+-...--.-|||.- ....|..|+-.|.-...... -.-+....|.|.. |-..|-.-
T Consensus 326 P~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~--~~~~ss~rY~Ce~--CK~~FC~d 401 (421)
T COG5151 326 PICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPF--DESTSSGRYQCEL--CKSTFCSD 401 (421)
T ss_pred cchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCCCcc--cccccccceechh--hhhhhhhh
Confidence 4565555444455443222223455521 12224566665543211110 0112345799987 99999988
Q ss_pred HHHHHHHHh
Q 027872 88 YKLKLHLKR 96 (217)
Q Consensus 88 ~~L~~H~~~ 96 (217)
...-.|-..
T Consensus 402 CdvfiHe~L 410 (421)
T COG5151 402 CDVFIHETL 410 (421)
T ss_pred hHHHHHHHH
Confidence 888888765
No 134
>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=23.42 E-value=24 Score=18.34 Aligned_cols=21 Identities=29% Similarity=0.612 Sum_probs=11.8
Q ss_pred eecCCCCCCccccChhhHHHHHHh
Q 027872 10 HICPYPDCGKRYAHEYKLKNHIAS 33 (217)
Q Consensus 10 ~~C~~~~C~k~F~~~~~L~~H~~~ 33 (217)
|.| -.|++.|. ....+.|...
T Consensus 1 ~sC--iDC~~~F~-~~~y~~Ht~C 21 (28)
T PF08790_consen 1 FSC--IDCSKDFD-GDSYKSHTSC 21 (28)
T ss_dssp EEE--TTTTEEEE-GGGTTT----
T ss_pred Cee--ecCCCCcC-cCCcCCCCcc
Confidence 567 57999995 4555566443
No 135
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=23.24 E-value=83 Score=16.99 Aligned_cols=22 Identities=23% Similarity=0.596 Sum_probs=15.4
Q ss_pred CeecCcccccccccChHHHHHHHHh
Q 027872 72 PYACPYEGCEKAYIHEYKLKLHLKR 96 (217)
Q Consensus 72 p~~C~~~~C~k~F~~~~~L~~H~~~ 96 (217)
-|.|+. |++.+. .+.+..|+..
T Consensus 4 ~~~C~n--C~R~v~-a~RfA~HLek 25 (33)
T PF08209_consen 4 YVECPN--CGRPVA-ASRFAPHLEK 25 (33)
T ss_dssp EEE-TT--TSSEEE-GGGHHHHHHH
T ss_pred eEECCC--CcCCcc-hhhhHHHHHH
Confidence 478988 998776 5577788764
No 136
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.30 E-value=93 Score=26.02 Aligned_cols=15 Identities=20% Similarity=0.184 Sum_probs=10.5
Q ss_pred CCceecCCCCCCccccC
Q 027872 7 ENYHICPYPDCGKRYAH 23 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~ 23 (217)
.-||.| .+|.+.|..
T Consensus 239 ~~Pf~c--~icr~~f~~ 253 (313)
T KOG1813|consen 239 LLPFKC--FICRKYFYR 253 (313)
T ss_pred cCCccc--ccccccccc
Confidence 347888 478887765
No 137
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=21.74 E-value=23 Score=28.58 Aligned_cols=29 Identities=24% Similarity=0.390 Sum_probs=19.7
Q ss_pred cCCCCceecCCCCCCccccChhhHHHH-HHhh
Q 027872 4 HSQENYHICPYPDCGKRYAHEYKLKNH-IASH 34 (217)
Q Consensus 4 Htgekp~~C~~~~C~k~F~~~~~L~~H-~~~H 34 (217)
|..-|-|+| .+|.|.+.+-..|..| +++|
T Consensus 29 hqkakhfkc--hichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 29 HQKAKHFKC--HICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred hhhhcccee--eeehhhhccCCCceeehhhhh
Confidence 455567888 4787777667777777 5555
No 138
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=21.54 E-value=97 Score=26.51 Aligned_cols=29 Identities=31% Similarity=0.631 Sum_probs=19.6
Q ss_pred CCceecCCCCCCccccChhhHHHHHHhhcCC
Q 027872 7 ENYHICPYPDCGKRYAHEYKLKNHIASHHEK 37 (217)
Q Consensus 7 ekp~~C~~~~C~k~F~~~~~L~~H~~~H~~~ 37 (217)
...|.|+| |++.=.+...|..|...-+.+
T Consensus 77 ~qSftCPy--C~~~Gfte~~f~~Hv~s~Hpd 105 (381)
T KOG1280|consen 77 PQSFTCPY--CGIMGFTERQFGTHVLSQHPE 105 (381)
T ss_pred cccccCCc--ccccccchhHHHHHhhhcCcc
Confidence 44688865 887766777788886544433
No 139
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=20.88 E-value=24 Score=21.20 Aligned_cols=25 Identities=20% Similarity=0.474 Sum_probs=15.3
Q ss_pred CceecCCCCCCccccChhhHHHHHHhh
Q 027872 8 NYHICPYPDCGKRYAHEYKLKNHIASH 34 (217)
Q Consensus 8 kp~~C~~~~C~k~F~~~~~L~~H~~~H 34 (217)
..|+| +.|+..|-..-.+-.|...|
T Consensus 20 ~~y~C--~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 20 SRYRC--PKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EEE----TTTT--B-HHHHHTTTTTS-
T ss_pred CeEEC--CCCCCccccCcChhhhcccc
Confidence 56999 68999999888887777776
No 140
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=20.63 E-value=49 Score=22.77 Aligned_cols=19 Identities=21% Similarity=0.572 Sum_probs=14.9
Q ss_pred cccCCCCCCeecCccccccccc
Q 027872 64 YGSASSERPYACPYEGCEKAYI 85 (217)
Q Consensus 64 ~~~H~~ekp~~C~~~~C~k~F~ 85 (217)
+..+.| +|+.|.. ||.-|.
T Consensus 72 ~~l~~g-~~~rC~e--CG~~fk 90 (97)
T cd00924 72 MWLEKG-KPKRCPE--CGHVFK 90 (97)
T ss_pred EEEeCC-CceeCCC--CCcEEE
Confidence 445566 8999988 999886
No 141
>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=20.60 E-value=48 Score=18.76 Aligned_cols=13 Identities=23% Similarity=0.626 Sum_probs=10.7
Q ss_pred eecCcccccccccCh
Q 027872 73 YACPYEGCEKAYIHE 87 (217)
Q Consensus 73 ~~C~~~~C~k~F~~~ 87 (217)
|.|.. ||..|...
T Consensus 6 y~C~~--Cg~~fe~~ 18 (42)
T PF09723_consen 6 YRCEE--CGHEFEVL 18 (42)
T ss_pred EEeCC--CCCEEEEE
Confidence 88987 99999754
No 142
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=20.52 E-value=60 Score=28.73 Aligned_cols=31 Identities=26% Similarity=0.354 Sum_probs=27.7
Q ss_pred CCeecCcccccccccChHHHHHHHHhhCCCCCC
Q 027872 71 RPYACPYEGCEKAYIHEYKLKLHLKREHPGHMS 103 (217)
Q Consensus 71 kp~~C~~~~C~k~F~~~~~L~~H~~~~h~~~~~ 103 (217)
.-|.|++ |.+-|..-..|..|.-.-|.++-.
T Consensus 14 egflCPi--C~~dl~~~~~L~~H~d~eH~~ed~ 44 (505)
T KOG1842|consen 14 EGFLCPI--CLLDLPNLSALNDHLDVEHFEEDE 44 (505)
T ss_pred hcccCch--HhhhhhhHHHHHHHHhhhccccch
Confidence 5699999 999999999999999988888664
Done!