Query psy17779
Match_columns 141
No_of_seqs 110 out of 1736
Neff 10.4
Searched_HMMs 46136
Date Fri Aug 16 22:47:29 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17779.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17779hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 2.1E-25 4.5E-30 148.9 3.5 123 9-137 127-254 (279)
2 KOG2462|consensus 99.9 3.8E-22 8.3E-27 133.4 3.8 106 11-118 160-265 (279)
3 KOG1074|consensus 99.5 3.6E-15 7.7E-20 112.6 3.4 71 67-139 606-681 (958)
4 KOG3576|consensus 99.5 2.2E-15 4.7E-20 97.2 1.6 96 35-132 114-220 (267)
5 KOG3623|consensus 99.5 7E-15 1.5E-19 109.8 2.5 83 33-117 889-971 (1007)
6 KOG3623|consensus 99.4 1.5E-13 3.3E-18 102.8 5.0 110 7-118 208-331 (1007)
7 KOG3576|consensus 99.4 1.2E-13 2.5E-18 89.3 3.5 115 9-125 114-241 (267)
8 KOG3608|consensus 99.4 1.7E-12 3.8E-17 90.2 8.4 127 8-139 233-365 (467)
9 KOG3608|consensus 99.3 8.3E-12 1.8E-16 86.9 5.7 96 37-138 236-333 (467)
10 KOG1074|consensus 99.0 1.5E-10 3.2E-15 88.2 1.0 85 35-121 602-693 (958)
11 PHA00733 hypothetical protein 98.9 1.4E-09 3.1E-14 67.0 4.4 84 34-121 36-124 (128)
12 PHA00733 hypothetical protein 98.7 3.9E-08 8.5E-13 60.7 6.2 79 11-93 39-124 (128)
13 PLN03086 PRLI-interacting fact 98.7 5.4E-08 1.2E-12 72.9 7.1 91 37-137 452-552 (567)
14 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.3E-08 2.9E-13 45.2 2.3 25 83-107 1-25 (26)
15 PHA02768 hypothetical protein; 98.7 1.5E-08 3.3E-13 52.5 2.1 37 73-111 10-46 (55)
16 PHA02768 hypothetical protein; 98.7 1.5E-08 3.2E-13 52.6 2.1 42 39-84 6-47 (55)
17 PLN03086 PRLI-interacting fact 98.5 2.5E-07 5.5E-12 69.4 5.3 102 11-119 452-563 (567)
18 PHA00616 hypothetical protein 98.4 2.6E-07 5.7E-12 45.7 2.0 33 38-70 1-33 (44)
19 PHA00616 hypothetical protein 98.3 2.9E-07 6.2E-12 45.5 1.5 33 96-128 1-33 (44)
20 PF13465 zf-H2C2_2: Zinc-finge 98.2 1.2E-06 2.5E-11 38.8 2.1 26 111-138 1-26 (26)
21 PF00096 zf-C2H2: Zinc finger, 97.9 7.3E-06 1.6E-10 35.0 1.7 23 39-61 1-23 (23)
22 PHA00732 hypothetical protein 97.8 2E-05 4.4E-10 44.4 3.0 47 38-92 1-48 (79)
23 PF00096 zf-C2H2: Zinc finger, 97.8 1.6E-05 3.4E-10 33.9 1.9 23 97-119 1-23 (23)
24 PHA00732 hypothetical protein 97.8 2.8E-05 6E-10 43.9 2.8 46 66-119 1-47 (79)
25 KOG3993|consensus 97.8 8.4E-06 1.8E-10 58.7 0.7 112 10-121 265-381 (500)
26 PF13912 zf-C2H2_6: C2H2-type 97.7 3E-05 6.6E-10 34.4 1.8 26 96-121 1-26 (27)
27 PF12756 zf-C2H2_2: C2H2 type 97.7 4.5E-05 9.7E-10 44.7 3.0 74 40-120 1-74 (100)
28 PF05605 zf-Di19: Drought indu 97.6 0.00021 4.5E-09 37.4 4.6 48 39-91 3-52 (54)
29 PF13894 zf-C2H2_4: C2H2-type 97.6 7.4E-05 1.6E-09 31.9 2.1 23 39-61 1-23 (24)
30 PF13894 zf-C2H2_4: C2H2-type 97.5 8.7E-05 1.9E-09 31.6 2.3 24 97-120 1-24 (24)
31 PF13912 zf-C2H2_6: C2H2-type 97.4 7.1E-05 1.5E-09 33.2 1.3 25 38-62 1-25 (27)
32 COG5189 SFP1 Putative transcri 97.4 5.5E-05 1.2E-09 52.8 1.0 53 65-117 348-419 (423)
33 PF05605 zf-Di19: Drought indu 97.3 0.0012 2.5E-08 34.5 4.8 51 66-121 2-54 (54)
34 PF09237 GAGA: GAGA factor; I 97.1 0.00066 1.4E-08 34.5 2.9 35 91-125 19-53 (54)
35 smart00355 ZnF_C2H2 zinc finge 96.9 0.0012 2.5E-08 28.4 2.4 24 39-62 1-24 (26)
36 smart00355 ZnF_C2H2 zinc finge 96.9 0.0011 2.3E-08 28.5 2.2 24 97-120 1-24 (26)
37 PF09237 GAGA: GAGA factor; I 96.9 0.0012 2.6E-08 33.6 2.4 31 35-65 21-51 (54)
38 PF12874 zf-met: Zinc-finger o 96.6 0.0015 3.2E-08 28.2 1.5 23 97-119 1-23 (25)
39 PF13909 zf-H2C2_5: C2H2-type 96.3 0.0033 7.2E-08 26.8 1.6 23 97-120 1-23 (24)
40 PF12874 zf-met: Zinc-finger o 96.2 0.0028 6.1E-08 27.3 1.2 22 39-60 1-22 (25)
41 KOG3993|consensus 96.1 0.0027 5.7E-08 46.3 1.3 85 36-120 354-482 (500)
42 PF13909 zf-H2C2_5: C2H2-type 95.9 0.0059 1.3E-07 26.0 1.6 23 39-62 1-23 (24)
43 COG5189 SFP1 Putative transcri 95.8 0.0031 6.8E-08 44.3 0.6 52 36-89 347-419 (423)
44 PF12171 zf-C2H2_jaz: Zinc-fin 95.7 0.0035 7.5E-08 27.7 0.3 22 97-118 2-23 (27)
45 PRK04860 hypothetical protein; 94.7 0.026 5.7E-07 36.2 2.2 35 96-136 119-153 (160)
46 PRK04860 hypothetical protein; 94.5 0.031 6.8E-07 35.9 2.2 38 66-109 119-156 (160)
47 PF13913 zf-C2HC_2: zinc-finge 93.9 0.058 1.3E-06 23.3 1.8 20 98-118 4-23 (25)
48 smart00451 ZnF_U1 U1-like zinc 93.2 0.085 1.8E-06 24.4 1.9 23 96-118 3-25 (35)
49 PF12756 zf-C2H2_2: C2H2 type 91.5 0.24 5.3E-06 28.5 2.8 72 15-91 2-73 (100)
50 COG5048 FOG: Zn-finger [Genera 88.0 0.19 4.1E-06 36.7 0.5 60 73-132 294-359 (467)
51 KOG1146|consensus 86.5 0.18 3.9E-06 42.2 -0.4 77 39-122 1261-1354(1406)
52 KOG4173|consensus 85.1 0.38 8.3E-06 32.1 0.7 78 36-118 77-168 (253)
53 KOG2231|consensus 84.7 2.8 6.1E-05 33.2 5.2 65 50-120 161-236 (669)
54 KOG4173|consensus 82.2 0.92 2E-05 30.3 1.6 55 39-93 107-171 (253)
55 KOG2893|consensus 81.1 0.65 1.4E-05 31.8 0.6 42 40-87 12-53 (341)
56 COG4049 Uncharacterized protei 80.1 1.1 2.3E-05 23.4 1.0 26 93-118 14-39 (65)
57 KOG2186|consensus 80.0 1.4 3.1E-05 30.4 1.9 38 13-50 4-41 (276)
58 KOG2893|consensus 79.6 0.65 1.4E-05 31.8 0.2 39 73-115 15-53 (341)
59 COG5048 FOG: Zn-finger [Genera 79.5 0.45 9.8E-06 34.7 -0.6 65 37-101 288-356 (467)
60 KOG1146|consensus 74.9 1.3 2.9E-05 37.4 0.8 24 95-118 517-540 (1406)
61 PF05443 ROS_MUCR: ROS/MUCR tr 74.0 2.1 4.6E-05 26.7 1.3 28 94-124 70-97 (132)
62 smart00734 ZnF_Rad18 Rad18-lik 70.3 4.4 9.6E-05 17.5 1.6 19 40-59 3-21 (26)
63 KOG2785|consensus 70.0 7.6 0.00016 28.6 3.5 79 38-118 3-90 (390)
64 smart00614 ZnF_BED BED zinc fi 67.9 5.2 0.00011 20.2 1.8 24 96-119 18-47 (50)
65 PF12013 DUF3505: Protein of u 67.8 5.3 0.00012 23.8 2.1 25 97-121 81-109 (109)
66 PF02892 zf-BED: BED zinc fing 62.9 7.8 0.00017 18.8 1.9 25 93-117 13-41 (45)
67 smart00531 TFIIE Transcription 62.2 17 0.00036 23.0 3.7 38 35-78 96-133 (147)
68 KOG2186|consensus 61.9 4.7 0.0001 28.0 1.2 49 39-92 4-52 (276)
69 KOG2785|consensus 61.7 28 0.00061 25.8 5.1 77 35-118 163-242 (390)
70 PF13719 zinc_ribbon_5: zinc-r 61.5 7.1 0.00015 18.4 1.5 11 96-106 25-35 (37)
71 KOG4167|consensus 61.2 2 4.4E-05 34.2 -0.7 27 36-62 790-816 (907)
72 PF12013 DUF3505: Protein of u 61.1 8 0.00017 23.0 2.0 18 73-90 89-106 (109)
73 cd00350 rubredoxin_like Rubred 60.7 6.6 0.00014 17.9 1.3 10 39-48 2-11 (33)
74 COG4957 Predicted transcriptio 60.7 4.6 0.0001 25.2 0.9 25 97-124 77-101 (148)
75 TIGR00622 ssl1 transcription f 60.6 14 0.0003 22.4 2.9 80 37-120 14-105 (112)
76 PF12907 zf-met2: Zinc-binding 56.9 10 0.00023 18.3 1.6 32 97-128 2-36 (40)
77 KOG2482|consensus 56.7 7.1 0.00015 28.4 1.4 24 37-60 194-217 (423)
78 KOG3408|consensus 55.1 9.5 0.00021 23.4 1.6 28 33-60 52-79 (129)
79 TIGR00373 conserved hypothetic 54.5 25 0.00054 22.6 3.6 33 35-78 106-138 (158)
80 KOG2231|consensus 53.5 18 0.0004 28.9 3.3 82 40-126 184-273 (669)
81 PF07754 DUF1610: Domain of un 53.3 5.5 0.00012 17.0 0.3 10 37-46 15-24 (24)
82 PF13717 zinc_ribbon_4: zinc-r 51.3 14 0.00031 17.3 1.6 10 97-106 26-35 (36)
83 PRK06266 transcription initiat 50.2 27 0.00059 22.9 3.3 33 35-78 114-146 (178)
84 KOG3408|consensus 49.3 14 0.00029 22.7 1.6 24 95-118 56-79 (129)
85 PF05290 Baculo_IE-1: Baculovi 46.3 24 0.00052 22.1 2.4 58 35-111 77-136 (140)
86 PF04959 ARS2: Arsenite-resist 44.8 10 0.00022 25.7 0.7 25 66-92 77-101 (214)
87 PF10571 UPF0547: Uncharacteri 43.4 12 0.00025 16.2 0.6 10 40-49 16-25 (26)
88 PF09889 DUF2116: Uncharacteri 42.6 48 0.001 17.5 2.9 26 2-28 9-34 (59)
89 TIGR02098 MJ0042_CXXC MJ0042 f 41.8 19 0.00042 16.7 1.3 8 97-104 26-33 (38)
90 PF04959 ARS2: Arsenite-resist 41.2 19 0.00041 24.5 1.6 30 35-64 74-103 (214)
91 PF08790 zf-LYAR: LYAR-type C2 39.7 8 0.00017 17.2 -0.3 9 98-106 2-10 (28)
92 COG5236 Uncharacterized conser 39.2 46 0.001 24.5 3.2 46 41-89 223-272 (493)
93 KOG1280|consensus 38.7 31 0.00067 25.3 2.3 39 37-75 78-116 (381)
94 COG4068 Uncharacterized protei 38.7 63 0.0014 17.1 3.3 26 2-28 14-39 (64)
95 smart00834 CxxC_CXXC_SSSS Puta 37.2 13 0.00028 17.5 0.2 14 39-52 6-19 (41)
96 KOG2482|consensus 36.6 46 0.001 24.5 2.9 23 96-118 195-217 (423)
97 PF11494 Ta0938: Ta0938; Inte 36.6 21 0.00044 21.0 1.0 39 95-140 13-51 (105)
98 PF09538 FYDLN_acid: Protein o 36.4 18 0.00038 21.8 0.8 29 40-81 11-39 (108)
99 KOG4167|consensus 35.2 11 0.00024 30.3 -0.3 25 96-120 792-816 (907)
100 PF13878 zf-C2H2_3: zinc-finge 33.9 49 0.0011 15.9 2.0 24 97-120 14-39 (41)
101 PF09723 Zn-ribbon_8: Zinc rib 33.7 15 0.00033 17.8 0.1 14 39-52 6-19 (42)
102 COG2888 Predicted Zn-ribbon RN 32.2 38 0.00082 18.0 1.5 9 95-103 49-57 (61)
103 COG5112 UFD2 U1-like Zn-finger 31.9 63 0.0014 19.4 2.5 27 33-59 50-76 (126)
104 PF10013 DUF2256: Uncharacteri 31.1 22 0.00049 17.4 0.5 13 98-110 10-22 (42)
105 PF15269 zf-C2H2_7: Zinc-finge 30.7 49 0.0011 16.4 1.7 21 39-59 21-41 (54)
106 smart00154 ZnF_AN1 AN1-like Zi 30.3 27 0.00059 16.6 0.7 13 96-108 12-24 (39)
107 COG1592 Rubrerythrin [Energy p 30.0 93 0.002 20.3 3.3 10 38-47 134-143 (166)
108 PHA00626 hypothetical protein 29.5 23 0.0005 18.6 0.4 16 37-52 22-37 (59)
109 COG5236 Uncharacterized conser 28.5 1.2E+02 0.0027 22.4 4.0 44 73-117 225-272 (493)
110 KOG2593|consensus 26.3 84 0.0018 23.9 2.9 41 32-77 122-162 (436)
111 TIGR02605 CxxC_CxxC_SSSS putat 25.9 26 0.00055 17.6 0.2 13 39-51 6-18 (52)
112 smart00659 RPOLCX RNA polymera 24.7 49 0.0011 16.3 1.1 11 39-49 3-13 (44)
113 PF10276 zf-CHCC: Zinc-finger 24.6 33 0.00071 16.6 0.4 12 37-48 28-39 (40)
114 KOG1994|consensus 23.8 45 0.00097 23.0 1.1 23 94-116 237-259 (268)
115 PF01428 zf-AN1: AN1-like Zinc 23.8 29 0.00063 16.8 0.2 14 95-108 12-25 (43)
116 KOG0717|consensus 23.7 50 0.0011 25.3 1.4 22 97-118 293-314 (508)
117 PLN02294 cytochrome c oxidase 22.9 42 0.00092 22.0 0.8 15 35-49 138-152 (174)
118 PF13821 DUF4187: Domain of un 22.5 43 0.00093 17.4 0.7 23 35-57 24-46 (55)
119 cd00924 Cyt_c_Oxidase_Vb Cytoc 21.7 45 0.00098 19.6 0.7 14 36-49 77-90 (97)
120 PF09845 DUF2072: Zn-ribbon co 21.6 41 0.00089 21.0 0.5 15 96-110 1-15 (131)
121 cd00729 rubredoxin_SM Rubredox 21.3 50 0.0011 15.1 0.7 13 96-108 2-14 (34)
122 COG4391 Uncharacterized protei 20.9 15 0.00032 19.6 -1.3 44 88-137 16-59 (62)
123 PF09986 DUF2225: Uncharacteri 20.7 40 0.00086 22.9 0.4 19 37-55 4-22 (214)
124 COG3364 Zn-ribbon containing p 20.6 49 0.0011 19.7 0.7 16 95-110 1-16 (112)
125 PLN03238 probable histone acet 20.1 1.3E+02 0.0028 21.6 2.7 27 94-120 46-72 (290)
No 1
>KOG2462|consensus
Probab=99.91 E-value=2.1e-25 Score=148.95 Aligned_cols=123 Identities=29% Similarity=0.543 Sum_probs=107.3
Q ss_pred CCCchhhHHHHHHHHhhHHHHHhh-----cCCCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHh
Q psy17779 9 SLDPYWSNLALEYFKSHEQSMKAK-----NQRPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEE 83 (141)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~ 83 (141)
..+.+.|..|++.+.+...+-.++ ....+.+.|++|++.|.+...|+.|+++|. .+..|. +||+.|...+-
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~--iCGKaFSRPWL 202 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECG--ICGKAFSRPWL 202 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccc--cccccccchHH
Confidence 356788889999888765443322 234677999999999999999999999998 567787 99999999999
Q ss_pred HHHHHHHhCCCCCeeCccchhccCChHHHHHHHHhhCCCCCccccccccccccc
Q psy17779 84 LTRHKRIHSGLRPYPCTHCGKKFGRKDHLKKHLRTHFPQPRYVSCYPYMYGGYT 137 (141)
Q Consensus 84 l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~~ 137 (141)
|+.|++.|+|||||.|..|+++|...++|+.|+++|.+.|+|.|- -|.++|+
T Consensus 203 LQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~--~C~KsFs 254 (279)
T KOG2462|consen 203 LQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCP--RCGKSFA 254 (279)
T ss_pred hhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCc--chhhHHH
Confidence 999999999999999999999999999999999999999999877 8888884
No 2
>KOG2462|consensus
Probab=99.85 E-value=3.8e-22 Score=133.41 Aligned_cols=106 Identities=32% Similarity=0.609 Sum_probs=98.7
Q ss_pred CchhhHHHHHHHHhhHHHHHhhcCCCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHH
Q psy17779 11 DPYWSNLALEYFKSHEQSMKAKNQRPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRI 90 (141)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~ 90 (141)
-.+.|..|.+.|.+-.++..+.....-+++|.+||+.|.....|+.|+++|+|++||.|. .|++.|.+.++|..||+.
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~--hC~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCP--HCGKAFADRSNLRAHMQT 237 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCC--cccchhcchHHHHHHHHh
Confidence 467889999999988888777766667899999999999999999999999999999998 899999999999999999
Q ss_pred hCCCCCeeCccchhccCChHHHHHHHHh
Q psy17779 91 HSGLRPYPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 91 h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
|.+.|+|.|..|++.|...+.|..|...
T Consensus 238 HS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 238 HSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred hcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999999999999999999875
No 3
>KOG1074|consensus
Probab=99.54 E-value=3.6e-15 Score=112.56 Aligned_cols=71 Identities=30% Similarity=0.599 Sum_probs=57.0
Q ss_pred ccccCCccCcccCChHhHHHHHHHhCCCCCeeCccchhccCChHHHHHHHHhhCCCCCccccc--c---ccccccccc
Q psy17779 67 YKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRKDHLKKHLRTHFPQPRYVSCY--P---YMYGGYTSV 139 (141)
Q Consensus 67 ~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~--~---~~~~~~~~~ 139 (141)
-.|. +|.+...=.+.|+.|.+.|+||+||+|++|+++|....+|+.|+.+|....++--+- + -|-+.|+.+
T Consensus 606 NqCi--iC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~ 681 (958)
T KOG1074|consen 606 NQCI--ICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNA 681 (958)
T ss_pred ccee--eeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccc
Confidence 3465 798888889999999999999999999999999999999999999987654433221 2 455666554
No 4
>KOG3576|consensus
Probab=99.53 E-value=2.2e-15 Score=97.24 Aligned_cols=96 Identities=31% Similarity=0.622 Sum_probs=80.7
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhCCCCCeeCccchhccCChHHHHH
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRKDHLKK 114 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~ 114 (141)
+...|.|..|++.|.-...|.+|++-|...+.+.|- .||+.|.+.-+|++|++.|+|.+||+|..|+++|.+.-.|..
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct--~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsles 191 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCT--FCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLES 191 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHh--hccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHH
Confidence 345588999999999999999999988888888887 799999999999999999999999999999999999999998
Q ss_pred HHHhhC-----------CCCCcccccccc
Q psy17779 115 HLRTHF-----------PQPRYVSCYPYM 132 (141)
Q Consensus 115 H~~~h~-----------~~~~~~~~~~~~ 132 (141)
|.+.-+ ++|-|+|.++++
T Consensus 192 hl~kvhgv~~~yaykerr~kl~vcedcg~ 220 (267)
T KOG3576|consen 192 HLKKVHGVQHQYAYKERRAKLYVCEDCGY 220 (267)
T ss_pred HHHHHcCchHHHHHHHhhhheeeecccCC
Confidence 876533 356777775544
No 5
>KOG3623|consensus
Probab=99.50 E-value=7e-15 Score=109.77 Aligned_cols=83 Identities=35% Similarity=0.809 Sum_probs=78.5
Q ss_pred cCCCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhCCCCCeeCccchhccCChHHH
Q psy17779 33 NQRPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRKDHL 112 (141)
Q Consensus 33 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l 112 (141)
+.....|.|-.|++.|-..++|.+|.-.|.|.+||.|. +|.+.|...-.|..|++.|.|||||.|.+|+++|+..+.+
T Consensus 889 kte~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~--iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSY 966 (1007)
T KOG3623|consen 889 KTEDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCI--ICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSY 966 (1007)
T ss_pred cCccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccc--hhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccch
Confidence 34456799999999999999999999999999999998 9999999999999999999999999999999999999999
Q ss_pred HHHHH
Q psy17779 113 KKHLR 117 (141)
Q Consensus 113 ~~H~~ 117 (141)
.+|+.
T Consensus 967 SQHMN 971 (1007)
T KOG3623|consen 967 SQHMN 971 (1007)
T ss_pred Hhhhc
Confidence 99986
No 6
>KOG3623|consensus
Probab=99.43 E-value=1.5e-13 Score=102.80 Aligned_cols=110 Identities=28% Similarity=0.655 Sum_probs=75.9
Q ss_pred CCCCCchhhHHHHHHHHhhHHHHHhhcCC-CCccccCcchhccCChHHHHHHHHHhCCC-------------CCccccCC
Q psy17779 7 GGSLDPYWSNLALEYFKSHEQSMKAKNQR-PKKFNCPHCNVAFSNNGQLKGHIRIHTGE-------------RPYKCDAE 72 (141)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~C~~C~~~f~~~~~l~~h~~~h~~~-------------~~~~c~~~ 72 (141)
.+-....+|..--+.+.+.++++..++.. +..|.|..|..+|.....|.+|+..|... +-|+|.
T Consensus 208 sqlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCt-- 285 (1007)
T KOG3623|consen 208 SQLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCT-- 285 (1007)
T ss_pred hhhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhcccccc--
Confidence 33444555665556666666666555443 34477888888888888888887766432 236775
Q ss_pred ccCcccCChHhHHHHHHHhCCCCCeeCccchhccCChHHHHHHHHh
Q psy17779 73 NCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 73 ~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
.|++.|...-.|+.|+++|.|||||.|..|+++|+..+.+..|+..
T Consensus 286 ECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 286 ECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred ccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 7888888888888888888888888888888888877777777643
No 7
>KOG3576|consensus
Probab=99.42 E-value=1.2e-13 Score=89.35 Aligned_cols=115 Identities=30% Similarity=0.524 Sum_probs=99.3
Q ss_pred CCCchhhHHHHHHHHhhHHHHHhh--cCCCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHH
Q psy17779 9 SLDPYWSNLALEYFKSHEQSMKAK--NQRPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTR 86 (141)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~ 86 (141)
..+.+.|.+|++.|.....+-.++ +...+.|.|..||+.|..--.|++|+++|++.+||.|. .|++.|...-+|..
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~--~c~kaftqrcsles 191 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCS--LCEKAFTQRCSLES 191 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchh--hhhHHHHhhccHHH
Confidence 356889999999998776665555 45678899999999999999999999999999999998 99999999999999
Q ss_pred HHHHhCC-----------CCCeeCccchhccCChHHHHHHHHhhCCCCCc
Q psy17779 87 HKRIHSG-----------LRPYPCTHCGKKFGRKDHLKKHLRTHFPQPRY 125 (141)
Q Consensus 87 h~~~h~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 125 (141)
|++.-+| ++.|.|..||..-..+..+..|+..|+...|.
T Consensus 192 hl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spa 241 (267)
T KOG3576|consen 192 HLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPA 241 (267)
T ss_pred HHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHH
Confidence 9875444 46799999999999999999999998765554
No 8
>KOG3608|consensus
Probab=99.40 E-value=1.7e-12 Score=90.19 Aligned_cols=127 Identities=22% Similarity=0.477 Sum_probs=108.3
Q ss_pred CCCCchhhHHHHHHHHhhHHHHHhhcCCCCccccCcchhccCChHHHHHHHHH-hCCCCCccccCCccCcccCChHhHHH
Q psy17779 8 GSLDPYWSNLALEYFKSHEQSMKAKNQRPKKFNCPHCNVAFSNNGQLKGHIRI-HTGERPYKCDAENCGKSFTRNEELTR 86 (141)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~-h~~~~~~~c~~~~C~~~~~~~~~l~~ 86 (141)
.+.++|.|..|.+.|.+.+.+..++...+..|+|+.|+-+....++|..|++. |...+||+|+ .|+..+...++|.+
T Consensus 233 l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd--~Cd~~c~~esdL~k 310 (467)
T KOG3608|consen 233 LNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCD--ECDTRCVRESDLAK 310 (467)
T ss_pred hcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhccCCCcccc--chhhhhccHHHHHH
Confidence 35668999999999999999999998888889999999999999999999984 7788999998 89999999999999
Q ss_pred HHHHhCCCCCeeCcc--chhccCChHHHHHHHHhhC-CC--CCccccccccccccccc
Q psy17779 87 HKRIHSGLRPYPCTH--CGKKFGRKDHLKKHLRTHF-PQ--PRYVSCYPYMYGGYTSV 139 (141)
Q Consensus 87 h~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~~--~~~~~~~~~~~~~~~~~ 139 (141)
|...|. +..|.|.. |...+.+...+.+|.+.++ |. .+|.|= .|++.|++|
T Consensus 311 H~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH--~Cdr~ft~G 365 (467)
T KOG3608|consen 311 HVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACH--CCDRFFTSG 365 (467)
T ss_pred HHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeee--cchhhhccc
Confidence 999887 55689987 8888888888999987754 33 455544 788888876
No 9
>KOG3608|consensus
Probab=99.27 E-value=8.3e-12 Score=86.85 Aligned_cols=96 Identities=29% Similarity=0.571 Sum_probs=71.0
Q ss_pred CccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHH-HhCCCCCeeCccchhccCChHHHHHH
Q psy17779 37 KKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKR-IHSGLRPYPCTHCGKKFGRKDHLKKH 115 (141)
Q Consensus 37 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~-~h~~~~~~~C~~C~~~f~~~~~l~~H 115 (141)
.+|.|..|.+.|..+-.|..|++.|-. .|+|+ .|+.+....++|..|++ .|..+|||+|..|++.|.+.++|..|
T Consensus 236 n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCp--lCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH 311 (467)
T KOG3608|consen 236 NSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCP--LCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKH 311 (467)
T ss_pred CchHHHHHHHHHhHHHHHHHHHHHhhh--ccccc--ccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHH
Confidence 345566666666666666666655543 46776 89988899999999987 57788999999999999999999999
Q ss_pred HHhhCCCCCccccc-ccccccccc
Q psy17779 116 LRTHFPQPRYVSCY-PYMYGGYTS 138 (141)
Q Consensus 116 ~~~h~~~~~~~~~~-~~~~~~~~~ 138 (141)
..+|. ++-+.|+ +-|..+++|
T Consensus 312 ~~~HS--~~~y~C~h~~C~~s~r~ 333 (467)
T KOG3608|consen 312 VQVHS--KTVYQCEHPDCHYSVRT 333 (467)
T ss_pred HHhcc--ccceecCCCCCcHHHHH
Confidence 99887 4545553 556655543
No 10
>KOG1074|consensus
Probab=98.96 E-value=1.5e-10 Score=88.16 Aligned_cols=85 Identities=36% Similarity=0.715 Sum_probs=77.0
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhCCCC----CeeCc---cchhccC
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHSGLR----PYPCT---HCGKKFG 107 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~----~~~C~---~C~~~f~ 107 (141)
...+.+|..|-+...-.+.|+.|+++|+|++||+|. +|++.|....+|+.|+..|.... ++.|. +|-+.|.
T Consensus 602 ~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCK--iCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kft 679 (958)
T KOG1074|consen 602 RTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCK--ICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFT 679 (958)
T ss_pred cCCccceeeeeecccchhhhhhhhhcccCcCccccc--cccchhccccchhhcccccccCccccccccCCchhhhccccc
Confidence 346688999999999999999999999999999998 99999999999999999887653 47888 8999999
Q ss_pred ChHHHHHHHHhhCC
Q psy17779 108 RKDHLKKHLRTHFP 121 (141)
Q Consensus 108 ~~~~l~~H~~~h~~ 121 (141)
..-.|.+|+++|.+
T Consensus 680 n~V~lpQhIriH~~ 693 (958)
T KOG1074|consen 680 NAVTLPQHIRIHLG 693 (958)
T ss_pred ccccccceEEeecC
Confidence 99999999999983
No 11
>PHA00733 hypothetical protein
Probab=98.94 E-value=1.4e-09 Score=67.03 Aligned_cols=84 Identities=21% Similarity=0.360 Sum_probs=68.2
Q ss_pred CCCCccccCcchhccCChHHHHHH--HH---HhCCCCCccccCCccCcccCChHhHHHHHHHhCCCCCeeCccchhccCC
Q psy17779 34 QRPKKFNCPHCNVAFSNNGQLKGH--IR---IHTGERPYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGR 108 (141)
Q Consensus 34 ~~~~~~~C~~C~~~f~~~~~l~~h--~~---~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~ 108 (141)
...+++.|..|...|.....|..+ .+ .+.+.++|.|. .|++.|.....|..|++.+ +.++.|..|++.|..
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~--~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~ 111 (128)
T PHA00733 36 PEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCP--LCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRN 111 (128)
T ss_pred hhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCC--CCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCC
Confidence 345678899999888877766655 21 23457789997 8999999999999999876 457999999999999
Q ss_pred hHHHHHHHHhhCC
Q psy17779 109 KDHLKKHLRTHFP 121 (141)
Q Consensus 109 ~~~l~~H~~~h~~ 121 (141)
...|..|++..++
T Consensus 112 ~~sL~~H~~~~h~ 124 (128)
T PHA00733 112 TDSTLDHVCKKHN 124 (128)
T ss_pred HHHHHHHHHHhcC
Confidence 9999999987653
No 12
>PHA00733 hypothetical protein
Probab=98.75 E-value=3.9e-08 Score=60.68 Aligned_cols=79 Identities=22% Similarity=0.382 Sum_probs=60.9
Q ss_pred CchhhHHHHHHHHhhHHHHHh-------hcCCCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHh
Q psy17779 11 DPYWSNLALEYFKSHEQSMKA-------KNQRPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEE 83 (141)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~ 83 (141)
....|.++...+.+-..+... ...+.++|.|..|++.|.+...|..|++.+ ..++.|. .|++.|.....
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~--~CgK~F~~~~s 114 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCP--VCGKEFRNTDS 114 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCC--CCCCccCCHHH
Confidence 356777877766544333222 234578899999999999999999999876 3468897 99999999999
Q ss_pred HHHHHHHhCC
Q psy17779 84 LTRHKRIHSG 93 (141)
Q Consensus 84 l~~h~~~h~~ 93 (141)
|..|+...++
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 9999886554
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.71 E-value=5.4e-08 Score=72.92 Aligned_cols=91 Identities=20% Similarity=0.476 Sum_probs=72.9
Q ss_pred CccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhCCCCCeeCccchhccCC--------
Q psy17779 37 KKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGR-------- 108 (141)
Q Consensus 37 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~-------- 108 (141)
+.+.|..|++.|. ...|..|+..++ .++.|+ |+..+ ....|..|+..|..++++.|..|+..+..
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp---Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~ 524 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP---CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVR 524 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcC--CCccCC---CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchh
Confidence 4467999999996 677999999875 688884 98654 66889999999999999999999998852
Q ss_pred --hHHHHHHHHhhCCCCCccccccccccccc
Q psy17779 109 --KDHLKKHLRTHFPQPRYVSCYPYMYGGYT 137 (141)
Q Consensus 109 --~~~l~~H~~~h~~~~~~~~~~~~~~~~~~ 137 (141)
.+.|..|...+ |.+++.| .-|.+.+.
T Consensus 525 d~~s~Lt~HE~~C-G~rt~~C--~~Cgk~Vr 552 (567)
T PLN03086 525 DRLRGMSEHESIC-GSRTAPC--DSCGRSVM 552 (567)
T ss_pred hhhhhHHHHHHhc-CCcceEc--cccCCeee
Confidence 35789999986 8888876 46666553
No 14
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.70 E-value=1.3e-08 Score=45.18 Aligned_cols=25 Identities=52% Similarity=1.133 Sum_probs=19.1
Q ss_pred hHHHHHHHhCCCCCeeCccchhccC
Q psy17779 83 ELTRHKRIHSGLRPYPCTHCGKKFG 107 (141)
Q Consensus 83 ~l~~h~~~h~~~~~~~C~~C~~~f~ 107 (141)
+|..|++.|++++||.|..|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 3667788888888888888887775
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.66 E-value=1.5e-08 Score=52.53 Aligned_cols=37 Identities=19% Similarity=0.430 Sum_probs=18.5
Q ss_pred ccCcccCChHhHHHHHHHhCCCCCeeCccchhccCChHH
Q psy17779 73 NCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRKDH 111 (141)
Q Consensus 73 ~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~ 111 (141)
.||+.|...+.|..|++.|+ ++++|..|++.|.+.+.
T Consensus 10 ~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~ 46 (55)
T PHA02768 10 ICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGE 46 (55)
T ss_pred hhCCeeccHHHHHHHHHhcC--CcccCCcccceecccce
Confidence 45555555555555555544 34455555555544433
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.66 E-value=1.5e-08 Score=52.60 Aligned_cols=42 Identities=26% Similarity=0.581 Sum_probs=35.1
Q ss_pred cccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhH
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEEL 84 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l 84 (141)
|.|+.||+.|.....|..|++.|+ +++.|. .|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~--~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLS--NCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCC--cccceeccccee
Confidence 789999999999999999999988 577786 888888766554
No 17
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.48 E-value=2.5e-07 Score=69.40 Aligned_cols=102 Identities=22% Similarity=0.392 Sum_probs=76.4
Q ss_pred CchhhHHHHHHHHhhHHHHHhhcCCCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCC----------
Q psy17779 11 DPYWSNLALEYFKSHEQSMKAKNQRPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTR---------- 80 (141)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~---------- 80 (141)
..|.|..|++.|... .+..+...-.+++.|+ |+..+ ....|..|+..|...+++.|. .|+..+..
T Consensus 452 ~H~~C~~Cgk~f~~s-~LekH~~~~Hkpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~--fC~~~v~~g~~~~d~~d~ 526 (567)
T PLN03086 452 NHVHCEKCGQAFQQG-EMEKHMKVFHEPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCR--FCGDMVQAGGSAMDVRDR 526 (567)
T ss_pred cCccCCCCCCccchH-HHHHHHHhcCCCccCC-CCCCc-chhHHHhhhhccCCCCceeCC--CCCCccccCccccchhhh
Confidence 356788888877533 3333333224789999 99765 568899999999999999998 89988842
Q ss_pred hHhHHHHHHHhCCCCCeeCccchhccCChHHHHHHHHhh
Q psy17779 81 NEELTRHKRIHSGLRPYPCTHCGKKFGRKDHLKKHLRTH 119 (141)
Q Consensus 81 ~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 119 (141)
...|..|.... +.+++.|..|++.+... ++..|+-..
T Consensus 527 ~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~~ 563 (567)
T PLN03086 527 LRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIAV 563 (567)
T ss_pred hhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHHh
Confidence 34788998875 88999999999877665 567776553
No 18
>PHA00616 hypothetical protein
Probab=98.37 E-value=2.6e-07 Score=45.68 Aligned_cols=33 Identities=12% Similarity=0.345 Sum_probs=26.7
Q ss_pred ccccCcchhccCChHHHHHHHHHhCCCCCcccc
Q psy17779 38 KFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCD 70 (141)
Q Consensus 38 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~ 70 (141)
||+|+.||+.|.....|..|++.|++++++.+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 578888888888888888888888888777664
No 19
>PHA00616 hypothetical protein
Probab=98.32 E-value=2.9e-07 Score=45.55 Aligned_cols=33 Identities=27% Similarity=0.512 Sum_probs=26.2
Q ss_pred CeeCccchhccCChHHHHHHHHhhCCCCCcccc
Q psy17779 96 PYPCTHCGKKFGRKDHLKKHLRTHFPQPRYVSC 128 (141)
Q Consensus 96 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~ 128 (141)
||.|..||..|...+.|..|++.|++++++-+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 577888888888888888888888888777654
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.21 E-value=1.2e-06 Score=38.83 Aligned_cols=26 Identities=27% Similarity=0.536 Sum_probs=22.6
Q ss_pred HHHHHHHhhCCCCCcccccccccccccc
Q psy17779 111 HLKKHLRTHFPQPRYVSCYPYMYGGYTS 138 (141)
Q Consensus 111 ~l~~H~~~h~~~~~~~~~~~~~~~~~~~ 138 (141)
+|..|+++|++++||.|. .|.++|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~--~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCP--YCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEES--SSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCC--CCcCeeCc
Confidence 478999999999999987 88888864
No 21
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.92 E-value=7.3e-06 Score=35.03 Aligned_cols=23 Identities=43% Similarity=1.001 Sum_probs=18.1
Q ss_pred cccCcchhccCChHHHHHHHHHh
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRIH 61 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~h 61 (141)
|.|+.|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 56888888888888888887753
No 22
>PHA00732 hypothetical protein
Probab=97.83 E-value=2e-05 Score=44.44 Aligned_cols=47 Identities=36% Similarity=0.564 Sum_probs=34.9
Q ss_pred ccccCcchhccCChHHHHHHHHH-hCCCCCccccCCccCcccCChHhHHHHHHHhC
Q psy17779 38 KFNCPHCNVAFSNNGQLKGHIRI-HTGERPYKCDAENCGKSFTRNEELTRHKRIHS 92 (141)
Q Consensus 38 ~~~C~~C~~~f~~~~~l~~h~~~-h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~ 92 (141)
||.|..|++.|.+...|..|++. |.+ +.|+ .|++.|. .+..|.+.+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~--~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCP--VCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccC--CCCCEeC---ChhhhhcccC
Confidence 47899999999999999999874 543 4676 8988886 4666765443
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=97.82 E-value=1.6e-05 Score=33.94 Aligned_cols=23 Identities=52% Similarity=1.148 Sum_probs=17.3
Q ss_pred eeCccchhccCChHHHHHHHHhh
Q psy17779 97 YPCTHCGKKFGRKDHLKKHLRTH 119 (141)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~h 119 (141)
|.|..|++.|.....|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 56777888888888888887764
No 24
>PHA00732 hypothetical protein
Probab=97.76 E-value=2.8e-05 Score=43.90 Aligned_cols=46 Identities=30% Similarity=0.608 Sum_probs=37.0
Q ss_pred CccccCCccCcccCChHhHHHHHHH-hCCCCCeeCccchhccCChHHHHHHHHhh
Q psy17779 66 PYKCDAENCGKSFTRNEELTRHKRI-HSGLRPYPCTHCGKKFGRKDHLKKHLRTH 119 (141)
Q Consensus 66 ~~~c~~~~C~~~~~~~~~l~~h~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 119 (141)
||.|. .|++.|.....|..|++. |.+ +.|..|++.|.+ +..|..+.
T Consensus 1 py~C~--~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~~---l~~H~~~~ 47 (79)
T PHA00732 1 MFKCP--ICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYRR---LNQHFYSQ 47 (79)
T ss_pred CccCC--CCCCccCCHHHHHHHhhcccCC---CccCCCCCEeCC---hhhhhccc
Confidence 46787 899999999999999984 543 589999999984 67777543
No 25
>KOG3993|consensus
Probab=97.75 E-value=8.4e-06 Score=58.69 Aligned_cols=112 Identities=25% Similarity=0.425 Sum_probs=56.2
Q ss_pred CCchhhHHHHHHHHhhHHHHHhhcC--CCCccccCcchhccCChHHHHHHHHHhCCCCC-ccccCCccCcccCChHhHHH
Q psy17779 10 LDPYWSNLALEYFKSHEQSMKAKNQ--RPKKFNCPHCNVAFSNNGQLKGHIRIHTGERP-YKCDAENCGKSFTRNEELTR 86 (141)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~-~~c~~~~C~~~~~~~~~l~~ 86 (141)
++.+.|-+|++.|..-=.+..+.=. ...-|+|++|++.|+-..+|..|.+=|....- -.-.-+.-..........+.
T Consensus 265 iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~e 344 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQE 344 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhh
Confidence 4556666666666543333222211 11226777777777777777776654321100 00000000000111111111
Q ss_pred HHHH--hCCCCCeeCccchhccCChHHHHHHHHhhCC
Q psy17779 87 HKRI--HSGLRPYPCTHCGKKFGRKDHLKKHLRTHFP 121 (141)
Q Consensus 87 h~~~--h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 121 (141)
-.+. ...+-.|.|..|++.|.....|+.|+-+|..
T Consensus 345 a~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 345 AERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred ccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 0110 1223469999999999999999999888763
No 26
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.68 E-value=3e-05 Score=34.44 Aligned_cols=26 Identities=38% Similarity=0.947 Sum_probs=21.8
Q ss_pred CeeCccchhccCChHHHHHHHHhhCC
Q psy17779 96 PYPCTHCGKKFGRKDHLKKHLRTHFP 121 (141)
Q Consensus 96 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 121 (141)
||.|..|+..|....+|..|++.|.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 57888999999999999999887753
No 27
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.68 E-value=4.5e-05 Score=44.72 Aligned_cols=74 Identities=23% Similarity=0.467 Sum_probs=22.1
Q ss_pred ccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhCCCCCeeCccchhccCChHHHHHHHHhh
Q psy17779 40 NCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRKDHLKKHLRTH 119 (141)
Q Consensus 40 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 119 (141)
+|..|+..|.+...|..|+...++...-. ...+.....+..+.+.... ..+.|..|+..|.....|..|++.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~------~~~l~~~~~~~~~~~~~~~-~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPD------QKYLVDPNRLLNYLRKKVK-ESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Ccccccccccccccccccccccccccccc------ccccccccccccccccccC-CCCCCCccCCCCcCHHHHHHHHcCc
Confidence 48899999999999999997655432111 1112223333333332222 2699999999999999999999975
Q ss_pred C
Q psy17779 120 F 120 (141)
Q Consensus 120 ~ 120 (141)
.
T Consensus 74 ~ 74 (100)
T PF12756_consen 74 H 74 (100)
T ss_dssp T
T ss_pred c
Confidence 3
No 28
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.61 E-value=0.00021 Score=37.36 Aligned_cols=48 Identities=29% Similarity=0.546 Sum_probs=27.4
Q ss_pred cccCcchhccCChHHHHHHHHH-hCCC-CCccccCCccCcccCChHhHHHHHHHh
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRI-HTGE-RPYKCDAENCGKSFTRNEELTRHKRIH 91 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~-h~~~-~~~~c~~~~C~~~~~~~~~l~~h~~~h 91 (141)
|.|++|++ ..+...|..|... |..+ +.+.|+ +|...+. .+|..|+..+
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CP--iC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCP--ICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCC--Cchhhhh--hHHHHHHHHh
Confidence 67777777 4455667777654 3332 345665 6765432 3566666544
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=97.55 E-value=7.4e-05 Score=31.87 Aligned_cols=23 Identities=39% Similarity=1.025 Sum_probs=15.7
Q ss_pred cccCcchhccCChHHHHHHHHHh
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRIH 61 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~h 61 (141)
|.|+.|+..|.+...|..|+..+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 46777888888888888877665
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.55 E-value=8.7e-05 Score=31.65 Aligned_cols=24 Identities=46% Similarity=1.050 Sum_probs=16.2
Q ss_pred eeCccchhccCChHHHHHHHHhhC
Q psy17779 97 YPCTHCGKKFGRKDHLKKHLRTHF 120 (141)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~h~ 120 (141)
|.|..|+..|.....|..|++.|+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 567778888888888887777653
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.44 E-value=7.1e-05 Score=33.20 Aligned_cols=25 Identities=36% Similarity=0.731 Sum_probs=18.9
Q ss_pred ccccCcchhccCChHHHHHHHHHhC
Q psy17779 38 KFNCPHCNVAFSNNGQLKGHIRIHT 62 (141)
Q Consensus 38 ~~~C~~C~~~f~~~~~l~~h~~~h~ 62 (141)
+|.|..|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4678888888888888888876654
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.41 E-value=5.5e-05 Score=52.81 Aligned_cols=53 Identities=32% Similarity=0.706 Sum_probs=39.5
Q ss_pred CCccccCCccCcccCChHhHHHHHHHhC-------------------CCCCeeCccchhccCChHHHHHHHH
Q psy17779 65 RPYKCDAENCGKSFTRNEELTRHKRIHS-------------------GLRPYPCTHCGKKFGRKDHLKKHLR 117 (141)
Q Consensus 65 ~~~~c~~~~C~~~~~~~~~l~~h~~~h~-------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 117 (141)
+||+|+.+.|.+.+.+...|+.|+.-.+ ..|||.|.+|++.++....|+-|+.
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 6677776677777777777776655322 2489999999999999999987765
No 33
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.26 E-value=0.0012 Score=34.47 Aligned_cols=51 Identities=25% Similarity=0.537 Sum_probs=38.5
Q ss_pred CccccCCccCcccCChHhHHHHHHH-hCCC-CCeeCccchhccCChHHHHHHHHhhCC
Q psy17779 66 PYKCDAENCGKSFTRNEELTRHKRI-HSGL-RPYPCTHCGKKFGRKDHLKKHLRTHFP 121 (141)
Q Consensus 66 ~~~c~~~~C~~~~~~~~~l~~h~~~-h~~~-~~~~C~~C~~~f~~~~~l~~H~~~h~~ 121 (141)
.|.|+ .|++ ..+...|..|... |..+ +.+.|.+|...+. .+|.+|+..+++
T Consensus 2 ~f~CP--~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCP--YCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCC--CCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 46787 8999 5667789999764 5543 5699999997655 488999988653
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=97.14 E-value=0.00066 Score=34.49 Aligned_cols=35 Identities=20% Similarity=0.424 Sum_probs=23.0
Q ss_pred hCCCCCeeCccchhccCChHHHHHHHHhhCCCCCc
Q psy17779 91 HSGLRPYPCTHCGKKFGRKDHLKKHLRTHFPQPRY 125 (141)
Q Consensus 91 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 125 (141)
+..+.|-.|.+|+..+.+..+|++|+.+.++.||-
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~~ 53 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKPG 53 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTTS--
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcccCC
Confidence 34567888888988888888999998888887763
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.92 E-value=0.0012 Score=28.40 Aligned_cols=24 Identities=38% Similarity=0.910 Sum_probs=16.7
Q ss_pred cccCcchhccCChHHHHHHHHHhC
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRIHT 62 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~h~ 62 (141)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 457777777777777777776543
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.90 E-value=0.0011 Score=28.50 Aligned_cols=24 Identities=54% Similarity=1.079 Sum_probs=16.7
Q ss_pred eeCccchhccCChHHHHHHHHhhC
Q psy17779 97 YPCTHCGKKFGRKDHLKKHLRTHF 120 (141)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~h~ 120 (141)
+.|..|++.|...+.|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 356777777777777777777553
No 37
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.86 E-value=0.0012 Score=33.56 Aligned_cols=31 Identities=19% Similarity=0.510 Sum_probs=15.2
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCCC
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGER 65 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~ 65 (141)
.+.|..|++|+..+.+..+|++|+...++.+
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 3445566666666666666666665555443
No 38
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.62 E-value=0.0015 Score=28.21 Aligned_cols=23 Identities=35% Similarity=0.897 Sum_probs=17.9
Q ss_pred eeCccchhccCChHHHHHHHHhh
Q psy17779 97 YPCTHCGKKFGRKDHLKKHLRTH 119 (141)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~h 119 (141)
|.|..|+..|.....|..|.+.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 56788888888888888887754
No 39
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.27 E-value=0.0033 Score=26.84 Aligned_cols=23 Identities=43% Similarity=0.957 Sum_probs=14.8
Q ss_pred eeCccchhccCChHHHHHHHHhhC
Q psy17779 97 YPCTHCGKKFGRKDHLKKHLRTHF 120 (141)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~h~ 120 (141)
|.|..|+.... ...|..|++.++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 56777777776 777777777654
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.20 E-value=0.0028 Score=27.29 Aligned_cols=22 Identities=41% Similarity=0.877 Sum_probs=14.7
Q ss_pred cccCcchhccCChHHHHHHHHH
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRI 60 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~ 60 (141)
|.|..|+..|.+...+..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566777777777777777653
No 41
>KOG3993|consensus
Probab=96.11 E-value=0.0027 Score=46.27 Aligned_cols=85 Identities=16% Similarity=0.277 Sum_probs=55.1
Q ss_pred CCccccCcchhccCChHHHHHHHHHhCCCCC--------c---------ccc---------------------------C
Q psy17779 36 PKKFNCPHCNVAFSNNGQLKGHIRIHTGERP--------Y---------KCD---------------------------A 71 (141)
Q Consensus 36 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~--------~---------~c~---------------------------~ 71 (141)
...|.|.+|++.|.....|+.|+.+|..... + .+. .
T Consensus 354 ~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~p 433 (500)
T KOG3993|consen 354 SGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELP 433 (500)
T ss_pred CceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCC
Confidence 3469999999999999999999876643100 0 000 0
Q ss_pred CccCcccCChHhHHHHHHHhCCCCCeeCccchhccCChHHHHHHHHhhC
Q psy17779 72 ENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRKDHLKKHLRTHF 120 (141)
Q Consensus 72 ~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 120 (141)
+.++..+.++..-..+.+....+..|.|+.|...|.....|.+|+...|
T Consensus 434 p~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~H 482 (500)
T KOG3993|consen 434 PYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCH 482 (500)
T ss_pred CCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcC
Confidence 1333333333333333333444556889999999999999999988743
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.94 E-value=0.0059 Score=26.03 Aligned_cols=23 Identities=39% Similarity=0.960 Sum_probs=13.6
Q ss_pred cccCcchhccCChHHHHHHHHHhC
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRIHT 62 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~h~ 62 (141)
|.|+.|+.... ...|..|++.++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 45777776666 667777776543
No 43
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=95.83 E-value=0.0031 Score=44.34 Aligned_cols=52 Identities=33% Similarity=0.800 Sum_probs=43.0
Q ss_pred CCccccCc--chhccCChHHHHHHHHH-h------C------------CCCCccccCCccCcccCChHhHHHHHH
Q psy17779 36 PKKFNCPH--CNVAFSNNGQLKGHIRI-H------T------------GERPYKCDAENCGKSFTRNEELTRHKR 89 (141)
Q Consensus 36 ~~~~~C~~--C~~~f~~~~~l~~h~~~-h------~------------~~~~~~c~~~~C~~~~~~~~~l~~h~~ 89 (141)
++||+|++ |.+.+.....|+-|+.. | . ..+||.|. .|++.+.+...|+.|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCe--vC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCE--VCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceecc--ccchhhccCccceeccc
Confidence 59999998 99999999999999752 2 1 12789998 89999999999988854
No 44
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.68 E-value=0.0035 Score=27.67 Aligned_cols=22 Identities=32% Similarity=0.892 Sum_probs=16.7
Q ss_pred eeCccchhccCChHHHHHHHHh
Q psy17779 97 YPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
|.|..|++.|.+...|..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 5677888888888887777664
No 45
>PRK04860 hypothetical protein; Provisional
Probab=94.71 E-value=0.026 Score=36.25 Aligned_cols=35 Identities=20% Similarity=0.371 Sum_probs=21.1
Q ss_pred CeeCccchhccCChHHHHHHHHhhCCCCCcccccccccccc
Q psy17779 96 PYPCTHCGKKFGRKDHLKKHLRTHFPQPRYVSCYPYMYGGY 136 (141)
Q Consensus 96 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~ 136 (141)
+|.|. |+. ....+..|.++|.++++|.|. .|.+.|
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~--~C~~~l 153 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCR--RCGETL 153 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECC--CCCcee
Confidence 46665 664 444556667777666666665 455444
No 46
>PRK04860 hypothetical protein; Provisional
Probab=94.51 E-value=0.031 Score=35.93 Aligned_cols=38 Identities=34% Similarity=0.855 Sum_probs=31.2
Q ss_pred CccccCCccCcccCChHhHHHHHHHhCCCCCeeCccchhccCCh
Q psy17779 66 PYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRK 109 (141)
Q Consensus 66 ~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~ 109 (141)
+|.| .|+. ....+..|.++|.++++|.|..|+..|...
T Consensus 119 ~Y~C---~C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRC---KCQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEc---CCCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 5778 3765 556788999999999999999999887654
No 47
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.88 E-value=0.058 Score=23.30 Aligned_cols=20 Identities=50% Similarity=1.110 Sum_probs=11.5
Q ss_pred eCccchhccCChHHHHHHHHh
Q psy17779 98 PCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 98 ~C~~C~~~f~~~~~l~~H~~~ 118 (141)
.|..|++.| ....|..|+.+
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHh
Confidence 566666666 44455566543
No 48
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.20 E-value=0.085 Score=24.44 Aligned_cols=23 Identities=22% Similarity=0.543 Sum_probs=18.6
Q ss_pred CeeCccchhccCChHHHHHHHHh
Q psy17779 96 PYPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 96 ~~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
+|.|..|+..|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47888888888888888888765
No 49
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=91.54 E-value=0.24 Score=28.55 Aligned_cols=72 Identities=21% Similarity=0.416 Sum_probs=18.0
Q ss_pred hHHHHHHHHhhHHHHHhhcCCCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHh
Q psy17779 15 SNLALEYFKSHEQSMKAKNQRPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIH 91 (141)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h 91 (141)
|.+|...|.+...+..++...-. +..+. ...+.....+..+.... ....+.|. .|+..|.+...|..|++.+
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~-~~~~~-~~~l~~~~~~~~~~~~~-~~~~~~C~--~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHG-FDIPD-QKYLVDPNRLLNYLRKK-VKESFRCP--YCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp --------------------------------------------------SSEEBS--SSS-EESSHHHHHHHHHHT
T ss_pred ccccccccccccccccccccccc-ccccc-ccccccccccccccccc-cCCCCCCC--ccCCCCcCHHHHHHHHcCc
Confidence 56677777766666555532211 11111 11111222222222211 11256776 7888888888888888754
No 50
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=87.98 E-value=0.19 Score=36.69 Aligned_cols=60 Identities=40% Similarity=0.680 Sum_probs=41.7
Q ss_pred ccCcccCChHhHHHHHH--HhCCC--CCeeCc--cchhccCChHHHHHHHHhhCCCCCcccccccc
Q psy17779 73 NCGKSFTRNEELTRHKR--IHSGL--RPYPCT--HCGKKFGRKDHLKKHLRTHFPQPRYVSCYPYM 132 (141)
Q Consensus 73 ~C~~~~~~~~~l~~h~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~ 132 (141)
.|...|.....+..|.+ .|.++ +++.|. .|+..|.+...+..|...|.+.++.......+
T Consensus 294 ~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 (467)
T COG5048 294 QCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNS 359 (467)
T ss_pred cccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccC
Confidence 56667777777777777 67777 777777 57777777777777777777666655544333
No 51
>KOG1146|consensus
Probab=86.48 E-value=0.18 Score=42.15 Aligned_cols=77 Identities=18% Similarity=0.368 Sum_probs=46.4
Q ss_pred cccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhC-----------------CCCCeeCcc
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHS-----------------GLRPYPCTH 101 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~-----------------~~~~~~C~~ 101 (141)
+.|..|.+.+...-.+. |+ ....+|.|. .|...|.....+..|.+.-. .-.+| |..
T Consensus 1261 ~~c~~~~~~~~~~~~~~-~l---~~~~~~~~~--~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~~-c~~ 1333 (1406)
T KOG1146|consen 1261 GECGAVDELLTPSFGIS-TL---DVTHRYLCR--QCKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTYH-CLA 1333 (1406)
T ss_pred chhhhccccccCcccee-ec---ccchhHHHH--HHHhhhcchhHHHHHHHHHHhccCccccCCCCcccCcccccc-chH
Confidence 45666666655544433 32 222345554 56666666666666653221 12345 999
Q ss_pred chhccCChHHHHHHHHhhCCC
Q psy17779 102 CGKKFGRKDHLKKHLRTHFPQ 122 (141)
Q Consensus 102 C~~~f~~~~~l~~H~~~h~~~ 122 (141)
|...|+...+|..|+++-.++
T Consensus 1334 c~~~~~~~~alqihm~~~~~~ 1354 (1406)
T KOG1146|consen 1334 CEVLLSGREALQIHMRSSAHR 1354 (1406)
T ss_pred HHhhcchhHHHHHHHHHhhhc
Confidence 999999999999998874433
No 52
>KOG4173|consensus
Probab=85.11 E-value=0.38 Score=32.08 Aligned_cols=78 Identities=24% Similarity=0.484 Sum_probs=43.7
Q ss_pred CCccccCc--chhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhC----------CCCCeeCcc--
Q psy17779 36 PKKFNCPH--CNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHS----------GLRPYPCTH-- 101 (141)
Q Consensus 36 ~~~~~C~~--C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~----------~~~~~~C~~-- 101 (141)
...+.|+. |...|........|..+.++. .|. .|.+.|.+.--|..|+.-++ |.-.|.|-+
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs--~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEg 151 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCS--FCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEG 151 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcccc---hhH--HHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHh
Confidence 34456665 556666666555555433322 354 67777776666666654322 222366644
Q ss_pred chhccCChHHHHHHHHh
Q psy17779 102 CGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 102 C~~~f~~~~~l~~H~~~ 118 (141)
|+..|.+..+-..|+-.
T Consensus 152 Ct~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 152 CTEKFKTSRDRKDHMIR 168 (253)
T ss_pred hhhhhhhhhhhhhHHHH
Confidence 66667777666666654
No 53
>KOG2231|consensus
Probab=84.67 E-value=2.8 Score=33.18 Aligned_cols=65 Identities=25% Similarity=0.500 Sum_probs=40.1
Q ss_pred ChHHHHHHHHHhCC-CC----CccccCCccCcccCChHhHHHHHHHhCCCCCeeCccc------hhccCChHHHHHHHHh
Q psy17779 50 NNGQLKGHIRIHTG-ER----PYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHC------GKKFGRKDHLKKHLRT 118 (141)
Q Consensus 50 ~~~~l~~h~~~h~~-~~----~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~ 118 (141)
+...|..|+..-.. ++ ...|. .|...|.....+..|++.++ +.|..| +..|....+|..|.+.
T Consensus 161 t~~el~~h~~~gd~d~~s~rGhp~C~--~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~ 234 (669)
T KOG2231|consen 161 TRAELNLHLMFGDPDDESCRGHPLCK--FCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRK 234 (669)
T ss_pred hHHHHHHHHhcCCCccccccCCccch--hhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhh
Confidence 34456666653211 11 12454 78888888888888887543 445555 3456777788888776
Q ss_pred hC
Q psy17779 119 HF 120 (141)
Q Consensus 119 h~ 120 (141)
+|
T Consensus 235 ~H 236 (669)
T KOG2231|consen 235 GH 236 (669)
T ss_pred cC
Confidence 54
No 54
>KOG4173|consensus
Probab=82.22 E-value=0.92 Score=30.35 Aligned_cols=55 Identities=25% Similarity=0.497 Sum_probs=38.3
Q ss_pred cccCcchhccCChHHHHHHHHH----------hCCCCCccccCCccCcccCChHhHHHHHHHhCC
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRI----------HTGERPYKCDAENCGKSFTRNEELTRHKRIHSG 93 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~----------h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~~ 93 (141)
..|..|.+.|++...|..|+.. ..|...|.|-...|+..|.....-..|+-..+.
T Consensus 107 ~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 107 NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 3688888888888888777642 234445777767788888777777777665543
No 55
>KOG2893|consensus
Probab=81.05 E-value=0.65 Score=31.77 Aligned_cols=42 Identities=29% Similarity=0.546 Sum_probs=23.8
Q ss_pred ccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHH
Q psy17779 40 NCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRH 87 (141)
Q Consensus 40 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h 87 (141)
.|.+|.+.|...--|.+|++. +.|+|- +|-+.+.+...|..|
T Consensus 12 wcwycnrefddekiliqhqka----khfkch--ichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCH--ICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceee--eehhhhccCCCceee
Confidence 466666666666666666543 345565 566555444445544
No 56
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=80.05 E-value=1.1 Score=23.37 Aligned_cols=26 Identities=27% Similarity=0.639 Sum_probs=14.2
Q ss_pred CCCCeeCccchhccCChHHHHHHHHh
Q psy17779 93 GLRPYPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 93 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
||.-+.|..|+..|...-++.+|...
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 34445555566556555555555544
No 57
>KOG2186|consensus
Probab=79.98 E-value=1.4 Score=30.37 Aligned_cols=38 Identities=21% Similarity=0.362 Sum_probs=16.0
Q ss_pred hhhHHHHHHHHhhHHHHHhhcCCCCccccCcchhccCC
Q psy17779 13 YWSNLALEYFKSHEQSMKAKNQRPKKFNCPHCNVAFSN 50 (141)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~ 50 (141)
|-|++|++....-........-....|.|..|++.|-.
T Consensus 4 FtCnvCgEsvKKp~vekH~srCrn~~fSCIDC~k~F~~ 41 (276)
T KOG2186|consen 4 FTCNVCGESVKKPQVEKHMSRCRNAYFSCIDCGKTFER 41 (276)
T ss_pred EehhhhhhhccccchHHHHHhccCCeeEEeeccccccc
Confidence 44555555444433332212122234555555555554
No 58
>KOG2893|consensus
Probab=79.58 E-value=0.65 Score=31.76 Aligned_cols=39 Identities=26% Similarity=0.568 Sum_probs=29.6
Q ss_pred ccCcccCChHhHHHHHHHhCCCCCeeCccchhccCChHHHHHH
Q psy17779 73 NCGKSFTRNEELTRHKRIHSGLRPYPCTHCGKKFGRKDHLKKH 115 (141)
Q Consensus 73 ~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H 115 (141)
.|.+.|..+..|..|++ .|.|+|.+|.+..-....|..|
T Consensus 15 ycnrefddekiliqhqk----akhfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 15 YCNREFDDEKILIQHQK----AKHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred ecccccchhhhhhhhhh----hccceeeeehhhhccCCCceee
Confidence 78899999999998877 5679999997644444445444
No 59
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=79.49 E-value=0.45 Score=34.71 Aligned_cols=65 Identities=35% Similarity=0.746 Sum_probs=52.6
Q ss_pred CccccCcchhccCChHHHHHHHH--HhCCC--CCccccCCccCcccCChHhHHHHHHHhCCCCCeeCcc
Q psy17779 37 KKFNCPHCNVAFSNNGQLKGHIR--IHTGE--RPYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTH 101 (141)
Q Consensus 37 ~~~~C~~C~~~f~~~~~l~~h~~--~h~~~--~~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~ 101 (141)
.++.|..|...|.....+..|.. .|.++ +++.|....|+..|.....+..|...|.+..++.+..
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKL 356 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcccccc
Confidence 46788889999999999999998 78888 8888864458889999988888988888876655543
No 60
>KOG1146|consensus
Probab=74.90 E-value=1.3 Score=37.44 Aligned_cols=24 Identities=33% Similarity=0.829 Sum_probs=20.9
Q ss_pred CCeeCccchhccCChHHHHHHHHh
Q psy17779 95 RPYPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 95 ~~~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
++|.|..|...+.....|..|+..
T Consensus 517 ~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 517 KPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred CcccceeeeeeeecchHHHHHHHH
Confidence 579999999999998899888764
No 61
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=73.95 E-value=2.1 Score=26.68 Aligned_cols=28 Identities=43% Similarity=0.651 Sum_probs=16.9
Q ss_pred CCCeeCccchhccCChHHHHHHHHhhCCCCC
Q psy17779 94 LRPYPCTHCGKKFGRKDHLKKHLRTHFPQPR 124 (141)
Q Consensus 94 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 124 (141)
+....|-.||+.|... .+|++.|+|..|
T Consensus 70 ~d~i~clecGk~~k~L---krHL~~~~gltp 97 (132)
T PF05443_consen 70 PDYIICLECGKKFKTL---KRHLRTHHGLTP 97 (132)
T ss_dssp SS-EE-TBT--EESBH---HHHHHHTT-S-H
T ss_pred cCeeEEccCCcccchH---HHHHHHccCCCH
Confidence 3457888999988874 789998877643
No 62
>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=70.31 E-value=4.4 Score=17.50 Aligned_cols=19 Identities=21% Similarity=0.625 Sum_probs=12.2
Q ss_pred ccCcchhccCChHHHHHHHH
Q psy17779 40 NCPHCNVAFSNNGQLKGHIR 59 (141)
Q Consensus 40 ~C~~C~~~f~~~~~l~~h~~ 59 (141)
.|+.|++.+ ....+..|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 477777777 4455666654
No 63
>KOG2785|consensus
Probab=70.02 E-value=7.6 Score=28.59 Aligned_cols=79 Identities=19% Similarity=0.401 Sum_probs=48.1
Q ss_pred ccccCcchhccCChHHHHHHHHHhCCCC-----CccccCCccCcccCChHhHHHHH--H--HhCCCCCeeCccchhccCC
Q psy17779 38 KFNCPHCNVAFSNNGQLKGHIRIHTGER-----PYKCDAENCGKSFTRNEELTRHK--R--IHSGLRPYPCTHCGKKFGR 108 (141)
Q Consensus 38 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~-----~~~c~~~~C~~~~~~~~~l~~h~--~--~h~~~~~~~C~~C~~~f~~ 108 (141)
.|.|..|...|......+.|+++-+..- ...-+ ++--..|... .+..-. . .-.++.++.|..|.+.|..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lP-PItaE~F~~k-~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s 80 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLP-PITAEEFNEK-VLSDDSEKEENLEEAESVVYCEACNKSFAS 80 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCC-CcCHHHHhHH-HhhhhhhhhhhhhhcccceehHHhhccccC
Confidence 3789999999999988888887643211 11111 1111222222 111111 1 1335568999999999999
Q ss_pred hHHHHHHHHh
Q psy17779 109 KDHLKKHLRT 118 (141)
Q Consensus 109 ~~~l~~H~~~ 118 (141)
+.+...|+..
T Consensus 81 ~~a~~~hl~S 90 (390)
T KOG2785|consen 81 PKAHENHLKS 90 (390)
T ss_pred hhhHHHHHHH
Confidence 9999888765
No 64
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=67.89 E-value=5.2 Score=20.16 Aligned_cols=24 Identities=46% Similarity=0.962 Sum_probs=16.4
Q ss_pred CeeCccchhccCCh-----HHHHHHHH-hh
Q psy17779 96 PYPCTHCGKKFGRK-----DHLKKHLR-TH 119 (141)
Q Consensus 96 ~~~C~~C~~~f~~~-----~~l~~H~~-~h 119 (141)
...|..|++.++.. +.|.+|++ .|
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 35777787766544 57888887 44
No 65
>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=67.80 E-value=5.3 Score=23.76 Aligned_cols=25 Identities=36% Similarity=0.745 Sum_probs=22.5
Q ss_pred eeC----ccchhccCChHHHHHHHHhhCC
Q psy17779 97 YPC----THCGKKFGRKDHLKKHLRTHFP 121 (141)
Q Consensus 97 ~~C----~~C~~~f~~~~~l~~H~~~h~~ 121 (141)
|.| ..|+........+..|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 8899999999999999998764
No 66
>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=62.94 E-value=7.8 Score=18.79 Aligned_cols=25 Identities=32% Similarity=0.651 Sum_probs=14.7
Q ss_pred CCCCeeCccchhccCC----hHHHHHHHH
Q psy17779 93 GLRPYPCTHCGKKFGR----KDHLKKHLR 117 (141)
Q Consensus 93 ~~~~~~C~~C~~~f~~----~~~l~~H~~ 117 (141)
+.....|..|+..+.. .+.|..|++
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 3445778888877655 467788874
No 67
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=62.18 E-value=17 Score=23.02 Aligned_cols=38 Identities=16% Similarity=0.571 Sum_probs=22.5
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCccc
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSF 78 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~ 78 (141)
....|.|+.|+..|.....+..- .. ...|.|+ .|+...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~---d~-~~~f~Cp--~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLL---DM-DGTFTCP--RCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhc---CC-CCcEECC--CCCCEE
Confidence 34558888888887765543220 11 2337786 788654
No 68
>KOG2186|consensus
Probab=61.91 E-value=4.7 Score=27.98 Aligned_cols=49 Identities=22% Similarity=0.575 Sum_probs=36.0
Q ss_pred cccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhC
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHS 92 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~ 92 (141)
|.|..||....-.. +.+|+.+-++ ..|.|. .|+..|.. .++..|..--+
T Consensus 4 FtCnvCgEsvKKp~-vekH~srCrn-~~fSCI--DC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 4 FTCNVCGESVKKPQ-VEKHMSRCRN-AYFSCI--DCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred Eehhhhhhhccccc-hHHHHHhccC-CeeEEe--eccccccc-chhhhhhhhcc
Confidence 77888998876554 6668877776 577887 89998887 46777766443
No 69
>KOG2785|consensus
Probab=61.70 E-value=28 Score=25.79 Aligned_cols=77 Identities=16% Similarity=0.258 Sum_probs=50.9
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCChHhHHHHHHHhCCCCCeeCccch---hccCChHH
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCG---KKFGRKDH 111 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~---~~f~~~~~ 111 (141)
...|-.|..|++.+.+...-..||..+++.. .- .- ........|..-+....+ .-+.|..|+ +.|....+
T Consensus 163 e~~Pt~CLfC~~~~k~~e~~~~HM~~~Hgff--IP---dr-eYL~D~~GLl~YLgeKV~-~~~~CL~CN~~~~~f~slea 235 (390)
T KOG2785|consen 163 ELIPTDCLFCDKKSKSLEENLKHMFKEHGFF--IP---DR-EYLTDEKGLLKYLGEKVG-IGFICLFCNELGRPFSSLEA 235 (390)
T ss_pred ccCCcceeecCCCcccHHHHHHHHhhccCCc--CC---ch-HhhhchhHHHHHHHHHhc-cCceEEEeccccCcccccHH
Confidence 3445678899999999998899998777632 11 11 112333334444333322 247888888 89999999
Q ss_pred HHHHHHh
Q psy17779 112 LKKHLRT 118 (141)
Q Consensus 112 l~~H~~~ 118 (141)
.+.|+..
T Consensus 236 vr~HM~~ 242 (390)
T KOG2785|consen 236 VRAHMRD 242 (390)
T ss_pred HHHHHhh
Confidence 9999875
No 70
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=61.45 E-value=7.1 Score=18.37 Aligned_cols=11 Identities=36% Similarity=1.017 Sum_probs=5.9
Q ss_pred CeeCccchhcc
Q psy17779 96 PYPCTHCGKKF 106 (141)
Q Consensus 96 ~~~C~~C~~~f 106 (141)
...|..|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 35565555444
No 71
>KOG4167|consensus
Probab=61.23 E-value=2 Score=34.20 Aligned_cols=27 Identities=22% Similarity=0.508 Sum_probs=23.2
Q ss_pred CCccccCcchhccCChHHHHHHHHHhC
Q psy17779 36 PKKFNCPHCNVAFSNNGQLKGHIRIHT 62 (141)
Q Consensus 36 ~~~~~C~~C~~~f~~~~~l~~h~~~h~ 62 (141)
...|.|.+|++.|...-++..||++|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 345899999999999988999998875
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=61.07 E-value=8 Score=22.99 Aligned_cols=18 Identities=22% Similarity=0.466 Sum_probs=8.5
Q ss_pred ccCcccCChHhHHHHHHH
Q psy17779 73 NCGKSFTRNEELTRHKRI 90 (141)
Q Consensus 73 ~C~~~~~~~~~l~~h~~~ 90 (141)
.|+....+...+..|++.
T Consensus 89 ~C~y~~~~~~~m~~H~~~ 106 (109)
T PF12013_consen 89 HCGYITRSKKTMRKHWRK 106 (109)
T ss_pred CCCcEeccHHHHHHHHHH
Confidence 444444444444444443
No 73
>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=60.74 E-value=6.6 Score=17.92 Aligned_cols=10 Identities=30% Similarity=1.168 Sum_probs=4.7
Q ss_pred cccCcchhcc
Q psy17779 39 FNCPHCNVAF 48 (141)
Q Consensus 39 ~~C~~C~~~f 48 (141)
+.|..||..+
T Consensus 2 ~~C~~CGy~y 11 (33)
T cd00350 2 YVCPVCGYIY 11 (33)
T ss_pred EECCCCCCEE
Confidence 3455555443
No 74
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=60.65 E-value=4.6 Score=25.17 Aligned_cols=25 Identities=44% Similarity=0.695 Sum_probs=17.4
Q ss_pred eeCccchhccCChHHHHHHHHhhCCCCC
Q psy17779 97 YPCTHCGKKFGRKDHLKKHLRTHFPQPR 124 (141)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 124 (141)
+.|..+|+.|+. |.+|..+|.+..|
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCCH
Confidence 667777777664 6777777776654
No 75
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=60.60 E-value=14 Score=22.41 Aligned_cols=80 Identities=16% Similarity=0.274 Sum_probs=45.6
Q ss_pred CccccCcchhccCChHHHHHHHHHhCCCCCc------------cccCCccCcccCChHhHHHHHHHhCCCCCeeCccchh
Q psy17779 37 KKFNCPHCNVAFSNNGQLKGHIRIHTGERPY------------KCDAENCGKSFTRNEELTRHKRIHSGLRPYPCTHCGK 104 (141)
Q Consensus 37 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~------------~c~~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~ 104 (141)
-|-.|+.|+-..-+...|.+...-.-...+| .|- .|...|........ ..-.....|.|..|..
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~--~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~ 89 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCF--GCQGPFPKPPVSPF--DELKDSHRYVCAVCKN 89 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCccc--CcCCCCCCcccccc--cccccccceeCCCCCC
Confidence 4567888888877777766543211011111 254 67666654321110 0012234588999999
Q ss_pred ccCChHHHHHHHHhhC
Q psy17779 105 KFGRKDHLKKHLRTHF 120 (141)
Q Consensus 105 ~f~~~~~l~~H~~~h~ 120 (141)
.|-..-+.-.|...|.
T Consensus 90 ~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 90 VFCVDCDVFVHESLHC 105 (112)
T ss_pred ccccccchhhhhhccC
Confidence 8888777777777664
No 76
>PF12907 zf-met2: Zinc-binding
Probab=56.91 E-value=10 Score=18.33 Aligned_cols=32 Identities=25% Similarity=0.663 Sum_probs=18.9
Q ss_pred eeCccchhcc---CChHHHHHHHHhhCCCCCcccc
Q psy17779 97 YPCTHCGKKF---GRKDHLKKHLRTHFPQPRYVSC 128 (141)
Q Consensus 97 ~~C~~C~~~f---~~~~~l~~H~~~h~~~~~~~~~ 128 (141)
+.|.+|--.| .....|..|...-+...++..|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 4677776433 4556677787754444545555
No 77
>KOG2482|consensus
Probab=56.67 E-value=7.1 Score=28.41 Aligned_cols=24 Identities=29% Similarity=0.706 Sum_probs=21.3
Q ss_pred CccccCcchhccCChHHHHHHHHH
Q psy17779 37 KKFNCPHCNVAFSNNGQLKGHIRI 60 (141)
Q Consensus 37 ~~~~C~~C~~~f~~~~~l~~h~~~ 60 (141)
..+.|.+|.+.|+.+..|+.||+.
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHh
Confidence 447899999999999999999973
No 78
>KOG3408|consensus
Probab=55.14 E-value=9.5 Score=23.36 Aligned_cols=28 Identities=25% Similarity=0.447 Sum_probs=22.9
Q ss_pred cCCCCccccCcchhccCChHHHHHHHHH
Q psy17779 33 NQRPKKFNCPHCNVAFSNNGQLKGHIRI 60 (141)
Q Consensus 33 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~ 60 (141)
..|...|.|.+|.+.|.....|+.|.++
T Consensus 52 lPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 52 LPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 3455668899999999999999998764
No 79
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=54.52 E-value=25 Score=22.60 Aligned_cols=33 Identities=27% Similarity=0.637 Sum_probs=23.4
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCccc
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSF 78 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~ 78 (141)
...-|.|+.|+..|+....+. ..|.|+ .||...
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp--~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME---------LNFTCP--RCGAML 138 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH---------cCCcCC--CCCCEe
Confidence 345588888888888877764 257786 788653
No 80
>KOG2231|consensus
Probab=53.48 E-value=18 Score=28.88 Aligned_cols=82 Identities=26% Similarity=0.457 Sum_probs=47.2
Q ss_pred ccCcchhccCChHHHHHHHHHhCCCCCcccc-CCccCcccCChHhHHHHHHHhCCCCCeeCc--cch-hcc----CChHH
Q psy17779 40 NCPHCNVAFSNNGQLKGHIRIHTGERPYKCD-AENCGKSFTRNEELTRHKRIHSGLRPYPCT--HCG-KKF----GRKDH 111 (141)
Q Consensus 40 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~-~~~C~~~~~~~~~l~~h~~~h~~~~~~~C~--~C~-~~f----~~~~~ 111 (141)
.|..|...|.....|..|++.++..-. .|+ ...+...|.....|..|.+.+ .|.|. .|. ..| .....
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h~~ch-fC~~~~~~neyy~~~~dLe~HfR~~----HflCE~~~C~~~~f~~~~~~ei~ 258 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDHEFCH-FCDYKTGQNEYYNDYDDLEEHFRKG----HFLCEEEFCRTKKFYVAFELEIE 258 (669)
T ss_pred cchhhhhhhccHHHHHHhhccceehee-ecCcccccchhcccchHHHHHhhhc----CccccccccccceeeehhHHHHH
Confidence 488899999999999999876543211 221 113445677778888887754 35555 342 223 33344
Q ss_pred HHHHHHhhCCCCCcc
Q psy17779 112 LKKHLRTHFPQPRYV 126 (141)
Q Consensus 112 l~~H~~~h~~~~~~~ 126 (141)
|..|.+.+..|+.|.
T Consensus 259 lk~~~~~~~~e~~~~ 273 (669)
T KOG2231|consen 259 LKAHNRFIQHEKCYI 273 (669)
T ss_pred HHhhccccchheecc
Confidence 444444333444444
No 81
>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=53.34 E-value=5.5 Score=16.97 Aligned_cols=10 Identities=40% Similarity=1.202 Sum_probs=7.5
Q ss_pred CccccCcchh
Q psy17779 37 KKFNCPHCNV 46 (141)
Q Consensus 37 ~~~~C~~C~~ 46 (141)
-.|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 3488999874
No 82
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=51.26 E-value=14 Score=17.25 Aligned_cols=10 Identities=40% Similarity=1.185 Sum_probs=4.9
Q ss_pred eeCccchhcc
Q psy17779 97 YPCTHCGKKF 106 (141)
Q Consensus 97 ~~C~~C~~~f 106 (141)
..|..|+..|
T Consensus 26 v~C~~C~~~f 35 (36)
T PF13717_consen 26 VRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEe
Confidence 4555555433
No 83
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=50.17 E-value=27 Score=22.93 Aligned_cols=33 Identities=24% Similarity=0.813 Sum_probs=23.7
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCccc
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSF 78 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~ 78 (141)
...-|.|+.|+..|+....+. ..|.|+ .||...
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp--~Cg~~L 146 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME---------YGFRCP--QCGEML 146 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh---------cCCcCC--CCCCCC
Confidence 345588999998888877652 267887 888654
No 84
>KOG3408|consensus
Probab=49.32 E-value=14 Score=22.72 Aligned_cols=24 Identities=29% Similarity=0.649 Sum_probs=20.0
Q ss_pred CCeeCccchhccCChHHHHHHHHh
Q psy17779 95 RPYPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 95 ~~~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
-.|.|..|.+-|.....|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 348888899999999999888775
No 85
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=46.34 E-value=24 Score=22.08 Aligned_cols=58 Identities=26% Similarity=0.566 Sum_probs=30.9
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCCh--HhHHHHHHHhCCCCCeeCccchhccCChHH
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRN--EELTRHKRIHSGLRPYPCTHCGKKFGRKDH 111 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~--~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~ 111 (141)
..+.|+|..|..+.....-| +|-.| ||...... ..|+.|-. - .=.|..|..+|+.++.
T Consensus 77 d~~lYeCnIC~etS~ee~FL----------KPneC----CgY~iCn~Cya~LWK~~~----~-ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 77 DPKLYECNICKETSAEERFL----------KPNEC----CGYSICNACYANLWKFCN----L-YPVCPVCKTSFKSSSS 136 (140)
T ss_pred CCCceeccCcccccchhhcC----------Ccccc----cchHHHHHHHHHHHHHcc----c-CCCCCccccccccccc
Confidence 34779999998775544322 23333 55433322 23332222 1 2267888888876643
No 86
>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=44.79 E-value=10 Score=25.73 Aligned_cols=25 Identities=28% Similarity=0.543 Sum_probs=13.0
Q ss_pred CccccCCccCcccCChHhHHHHHHHhC
Q psy17779 66 PYKCDAENCGKSFTRNEELTRHKRIHS 92 (141)
Q Consensus 66 ~~~c~~~~C~~~~~~~~~l~~h~~~h~ 92 (141)
-|.|. .|++.|.....+..|+..-+
T Consensus 77 K~~C~--lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 77 KWRCP--LCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp EEEE---SSS-EESSHHHHHHHHHHH-
T ss_pred EECCC--CCCcccCChHHHHHHHhhcC
Confidence 35554 56666666666666655433
No 87
>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=43.43 E-value=12 Score=16.23 Aligned_cols=10 Identities=50% Similarity=1.321 Sum_probs=7.3
Q ss_pred ccCcchhccC
Q psy17779 40 NCPHCNVAFS 49 (141)
Q Consensus 40 ~C~~C~~~f~ 49 (141)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 4888887774
No 88
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=42.63 E-value=48 Score=17.55 Aligned_cols=26 Identities=19% Similarity=0.466 Sum_probs=18.6
Q ss_pred CCCCCCCCCCchhhHHHHHHHHhhHHH
Q psy17779 2 CGLPLGGSLDPYWSNLALEYFKSHEQS 28 (141)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 28 (141)
||.|++. ...|.+..|.+.+......
T Consensus 9 CG~~Ip~-~~~fCS~~C~~~~~k~qk~ 34 (59)
T PF09889_consen 9 CGKPIPP-DESFCSPKCREEYRKRQKR 34 (59)
T ss_pred CCCcCCc-chhhhCHHHHHHHHHHHHH
Confidence 8888884 3567777888877766544
No 89
>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=41.77 E-value=19 Score=16.67 Aligned_cols=8 Identities=38% Similarity=1.153 Sum_probs=3.5
Q ss_pred eeCccchh
Q psy17779 97 YPCTHCGK 104 (141)
Q Consensus 97 ~~C~~C~~ 104 (141)
+.|..|+.
T Consensus 26 v~C~~C~~ 33 (38)
T TIGR02098 26 VRCGKCGH 33 (38)
T ss_pred EECCCCCC
Confidence 34444443
No 90
>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=41.19 E-value=19 Score=24.49 Aligned_cols=30 Identities=27% Similarity=0.511 Sum_probs=22.2
Q ss_pred CCCccccCcchhccCChHHHHHHHHHhCCC
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGHIRIHTGE 64 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~ 64 (141)
.+..|.|+.|++.|.-..-...|+...+.+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 344589999999999999999999865543
No 91
>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=39.73 E-value=8 Score=17.16 Aligned_cols=9 Identities=44% Similarity=1.269 Sum_probs=4.4
Q ss_pred eCccchhcc
Q psy17779 98 PCTHCGKKF 106 (141)
Q Consensus 98 ~C~~C~~~f 106 (141)
.|..|+..|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 344455555
No 92
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=39.18 E-value=46 Score=24.52 Aligned_cols=46 Identities=30% Similarity=0.621 Sum_probs=23.2
Q ss_pred cCcchhccCChHHHHHHHHHhCCCCCccccCCccC----cccCChHhHHHHHH
Q psy17779 41 CPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCG----KSFTRNEELTRHKR 89 (141)
Q Consensus 41 C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~----~~~~~~~~l~~h~~ 89 (141)
|..|...|-....|..|++..+. +-+.|. ..+ ..|.+...|..|.+
T Consensus 223 C~FC~~~FYdDDEL~~HcR~~HE-~ChICD--~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 223 CIFCKIYFYDDDELRRHCRLRHE-ACHICD--MVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred hhhccceecChHHHHHHHHhhhh-hhhhhh--ccCccchhhhhCHHHHHHHhh
Confidence 66666666666666666654332 122232 111 23555566666654
No 93
>KOG1280|consensus
Probab=38.69 E-value=31 Score=25.29 Aligned_cols=39 Identities=21% Similarity=0.398 Sum_probs=24.0
Q ss_pred CccccCcchhccCChHHHHHHHHHhCCCCCccccCCccC
Q psy17779 37 KKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCG 75 (141)
Q Consensus 37 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~ 75 (141)
..|.|++|++.=.+...|..|....+.+-+..+.++.|.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 358888888877777778888764443333333333443
No 94
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=38.69 E-value=63 Score=17.09 Aligned_cols=26 Identities=15% Similarity=0.240 Sum_probs=18.2
Q ss_pred CCCCCCCCCCchhhHHHHHHHHhhHHH
Q psy17779 2 CGLPLGGSLDPYWSNLALEYFKSHEQS 28 (141)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 28 (141)
||.+++ .-+...++.|++.+..+...
T Consensus 14 Cg~aIp-~de~~CSe~C~eil~ker~R 39 (64)
T COG4068 14 CGKAIP-PDEQVCSEECGEILNKERKR 39 (64)
T ss_pred cCCcCC-CccchHHHHHHHHHHHHHHH
Confidence 677766 55677888888887766443
No 95
>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=37.16 E-value=13 Score=17.46 Aligned_cols=14 Identities=21% Similarity=0.674 Sum_probs=9.8
Q ss_pred cccCcchhccCChH
Q psy17779 39 FNCPHCNVAFSNNG 52 (141)
Q Consensus 39 ~~C~~C~~~f~~~~ 52 (141)
|.|..||..|....
T Consensus 6 y~C~~Cg~~fe~~~ 19 (41)
T smart00834 6 YRCEDCGHTFEVLQ 19 (41)
T ss_pred EEcCCCCCEEEEEE
Confidence 67888888766443
No 96
>KOG2482|consensus
Probab=36.60 E-value=46 Score=24.47 Aligned_cols=23 Identities=39% Similarity=0.736 Sum_probs=20.7
Q ss_pred CeeCccchhccCChHHHHHHHHh
Q psy17779 96 PYPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 96 ~~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
.+.|..|.+.|.....|..|+|.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 37899999999999999999986
No 97
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=36.57 E-value=21 Score=20.98 Aligned_cols=39 Identities=15% Similarity=0.403 Sum_probs=15.1
Q ss_pred CCeeCccchhccCChHHHHHHHHhhCCCCCcccccccccccccccc
Q psy17779 95 RPYPCTHCGKKFGRKDHLKKHLRTHFPQPRYVSCYPYMYGGYTSVI 140 (141)
Q Consensus 95 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~~~~~ 140 (141)
+--.|..|+...... -.--.|++.|+|| .-|.+-|...+
T Consensus 13 ke~~CalCG~tWg~~------y~Ev~G~rLfFCC-d~ca~EF~nmi 51 (105)
T PF11494_consen 13 KEMGCALCGATWGDY------YEEVDGERLFFCC-DDCAKEFKNMI 51 (105)
T ss_dssp GGGS-SS---S---S------S-B-TT--BSSS---SSSS-TTS-T
T ss_pred ccccccccCCcHHHH------HHhhcCCEEEEEc-HHHHHHHHHHH
Confidence 344677777644321 2224688999999 66778776543
No 98
>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=36.42 E-value=18 Score=21.77 Aligned_cols=29 Identities=31% Similarity=0.910 Sum_probs=16.6
Q ss_pred ccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcccCCh
Q psy17779 40 NCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKSFTRN 81 (141)
Q Consensus 40 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~~~~~ 81 (141)
.|+.||..|--... .|..|+ .||..|...
T Consensus 11 ~Cp~CG~kFYDLnk-----------~PivCP--~CG~~~~~~ 39 (108)
T PF09538_consen 11 TCPSCGAKFYDLNK-----------DPIVCP--KCGTEFPPE 39 (108)
T ss_pred cCCCCcchhccCCC-----------CCccCC--CCCCccCcc
Confidence 57777766654321 355665 677666544
No 99
>KOG4167|consensus
Probab=35.17 E-value=11 Score=30.32 Aligned_cols=25 Identities=36% Similarity=0.788 Sum_probs=22.2
Q ss_pred CeeCccchhccCChHHHHHHHHhhC
Q psy17779 96 PYPCTHCGKKFGRKDHLKKHLRTHF 120 (141)
Q Consensus 96 ~~~C~~C~~~f~~~~~l~~H~~~h~ 120 (141)
.|.|+.|++.|.-.-.+..|+++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4899999999988888899999885
No 100
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=33.87 E-value=49 Score=15.90 Aligned_cols=24 Identities=25% Similarity=0.506 Sum_probs=15.7
Q ss_pred eeCccchhccC--ChHHHHHHHHhhC
Q psy17779 97 YPCTHCGKKFG--RKDHLKKHLRTHF 120 (141)
Q Consensus 97 ~~C~~C~~~f~--~~~~l~~H~~~h~ 120 (141)
..|..|+-.|. .+.+-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 57888886664 4556667776663
No 101
>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=33.71 E-value=15 Score=17.76 Aligned_cols=14 Identities=21% Similarity=0.660 Sum_probs=10.0
Q ss_pred cccCcchhccCChH
Q psy17779 39 FNCPHCNVAFSNNG 52 (141)
Q Consensus 39 ~~C~~C~~~f~~~~ 52 (141)
|.|..||..|....
T Consensus 6 y~C~~Cg~~fe~~~ 19 (42)
T PF09723_consen 6 YRCEECGHEFEVLQ 19 (42)
T ss_pred EEeCCCCCEEEEEE
Confidence 67888887776544
No 102
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=32.18 E-value=38 Score=18.00 Aligned_cols=9 Identities=56% Similarity=1.667 Sum_probs=6.4
Q ss_pred CCeeCccch
Q psy17779 95 RPYPCTHCG 103 (141)
Q Consensus 95 ~~~~C~~C~ 103 (141)
.+|.|..||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 467777776
No 103
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=31.91 E-value=63 Score=19.36 Aligned_cols=27 Identities=19% Similarity=0.278 Sum_probs=21.2
Q ss_pred cCCCCccccCcchhccCChHHHHHHHH
Q psy17779 33 NQRPKKFNCPHCNVAFSNNGQLKGHIR 59 (141)
Q Consensus 33 ~~~~~~~~C~~C~~~f~~~~~l~~h~~ 59 (141)
..|...+.|.+|.+.|.+.-.|..|.+
T Consensus 50 lPGlGqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 50 LPGLGQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred CCCCceeeeehhHHHHHHHHHHHHHhc
Confidence 345556889999999999888888865
No 104
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=31.08 E-value=22 Score=17.38 Aligned_cols=13 Identities=31% Similarity=0.889 Sum_probs=6.3
Q ss_pred eCccchhccCChH
Q psy17779 98 PCTHCGKKFGRKD 110 (141)
Q Consensus 98 ~C~~C~~~f~~~~ 110 (141)
.|..|++.|+..-
T Consensus 10 ~C~~C~rpf~WRK 22 (42)
T PF10013_consen 10 ICPVCGRPFTWRK 22 (42)
T ss_pred cCcccCCcchHHH
Confidence 3455555555443
No 105
>PF15269 zf-C2H2_7: Zinc-finger
Probab=30.68 E-value=49 Score=16.43 Aligned_cols=21 Identities=19% Similarity=0.664 Sum_probs=14.3
Q ss_pred cccCcchhccCChHHHHHHHH
Q psy17779 39 FNCPHCNVAFSNNGQLKGHIR 59 (141)
Q Consensus 39 ~~C~~C~~~f~~~~~l~~h~~ 59 (141)
|+|-.|..+...++.|-.||+
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 566667777666777776765
No 106
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=30.26 E-value=27 Score=16.63 Aligned_cols=13 Identities=38% Similarity=1.050 Sum_probs=10.4
Q ss_pred CeeCccchhccCC
Q psy17779 96 PYPCTHCGKKFGR 108 (141)
Q Consensus 96 ~~~C~~C~~~f~~ 108 (141)
|+.|..|+..|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 7899999887754
No 107
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=29.95 E-value=93 Score=20.34 Aligned_cols=10 Identities=30% Similarity=0.939 Sum_probs=5.2
Q ss_pred ccccCcchhc
Q psy17779 38 KFNCPHCNVA 47 (141)
Q Consensus 38 ~~~C~~C~~~ 47 (141)
.+.|++||..
T Consensus 134 ~~vC~vCGy~ 143 (166)
T COG1592 134 VWVCPVCGYT 143 (166)
T ss_pred EEEcCCCCCc
Confidence 4555555543
No 108
>PHA00626 hypothetical protein
Probab=29.51 E-value=23 Score=18.56 Aligned_cols=16 Identities=19% Similarity=0.509 Sum_probs=12.6
Q ss_pred CccccCcchhccCChH
Q psy17779 37 KKFNCPHCNVAFSNNG 52 (141)
Q Consensus 37 ~~~~C~~C~~~f~~~~ 52 (141)
..|.|+.|+..|....
T Consensus 22 nrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 22 DDYVCCDCGYNDSKDA 37 (59)
T ss_pred cceEcCCCCCeechhh
Confidence 4599999999887654
No 109
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=28.46 E-value=1.2e+02 Score=22.42 Aligned_cols=44 Identities=30% Similarity=0.480 Sum_probs=26.1
Q ss_pred ccCcccCChHhHHHHHHHhCCCCCeeCccchh----ccCChHHHHHHHH
Q psy17779 73 NCGKSFTRNEELTRHKRIHSGLRPYPCTHCGK----KFGRKDHLKKHLR 117 (141)
Q Consensus 73 ~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~----~f~~~~~l~~H~~ 117 (141)
.|...|-+...|..|++..+ |+=++|..-++ .|.....|.+|.+
T Consensus 225 FC~~~FYdDDEL~~HcR~~H-E~ChICD~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 225 FCKIYFYDDDELRRHCRLRH-EACHICDMVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred hccceecChHHHHHHHHhhh-hhhhhhhccCccchhhhhCHHHHHHHhh
Confidence 67777777888888877433 22244443222 3556666666665
No 110
>KOG2593|consensus
Probab=26.30 E-value=84 Score=23.88 Aligned_cols=41 Identities=20% Similarity=0.611 Sum_probs=26.1
Q ss_pred hcCCCCccccCcchhccCChHHHHHHHHHhCCCCCccccCCccCcc
Q psy17779 32 KNQRPKKFNCPHCNVAFSNNGQLKGHIRIHTGERPYKCDAENCGKS 77 (141)
Q Consensus 32 ~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~~~C~~~ 77 (141)
......-|.|+.|.+.|.+...++.- --....|.|. .|+..
T Consensus 122 d~t~~~~Y~Cp~C~kkyt~Lea~~L~---~~~~~~F~C~--~C~ge 162 (436)
T KOG2593|consen 122 DDTNVAGYVCPNCQKKYTSLEALQLL---DNETGEFHCE--NCGGE 162 (436)
T ss_pred hccccccccCCccccchhhhHHHHhh---cccCceEEEe--cCCCc
Confidence 34455669999999999887765432 1112356776 67653
No 111
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=25.92 E-value=26 Score=17.57 Aligned_cols=13 Identities=23% Similarity=0.705 Sum_probs=9.6
Q ss_pred cccCcchhccCCh
Q psy17779 39 FNCPHCNVAFSNN 51 (141)
Q Consensus 39 ~~C~~C~~~f~~~ 51 (141)
|.|..|+..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (52)
T TIGR02605 6 YRCTACGHRFEVL 18 (52)
T ss_pred EEeCCCCCEeEEE
Confidence 6788888877654
No 112
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=24.69 E-value=49 Score=16.28 Aligned_cols=11 Identities=18% Similarity=0.594 Sum_probs=5.5
Q ss_pred cccCcchhccC
Q psy17779 39 FNCPHCNVAFS 49 (141)
Q Consensus 39 ~~C~~C~~~f~ 49 (141)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 45555555443
No 113
>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=24.58 E-value=33 Score=16.59 Aligned_cols=12 Identities=25% Similarity=0.819 Sum_probs=8.8
Q ss_pred CccccCcchhcc
Q psy17779 37 KKFNCPHCNVAF 48 (141)
Q Consensus 37 ~~~~C~~C~~~f 48 (141)
++-.|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 356788888765
No 114
>KOG1994|consensus
Probab=23.82 E-value=45 Score=22.99 Aligned_cols=23 Identities=30% Similarity=0.665 Sum_probs=19.8
Q ss_pred CCCeeCccchhccCChHHHHHHH
Q psy17779 94 LRPYPCTHCGKKFGRKDHLKKHL 116 (141)
Q Consensus 94 ~~~~~C~~C~~~f~~~~~l~~H~ 116 (141)
...|.|-+||-.|....+|..|-
T Consensus 237 ~eh~YC~fCG~~y~~~edl~ehC 259 (268)
T KOG1994|consen 237 SEHYYCFFCGIKYKDEEDLYEHC 259 (268)
T ss_pred ccceEEEEeccccCCHHHHHHhC
Confidence 34699999999999999998774
No 115
>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=23.76 E-value=29 Score=16.79 Aligned_cols=14 Identities=50% Similarity=1.229 Sum_probs=8.5
Q ss_pred CCeeCccchhccCC
Q psy17779 95 RPYPCTHCGKKFGR 108 (141)
Q Consensus 95 ~~~~C~~C~~~f~~ 108 (141)
.|+.|..|+..|=.
T Consensus 12 ~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 12 LPFKCKHCGKSFCL 25 (43)
T ss_dssp SHEE-TTTS-EE-T
T ss_pred CCeECCCCCcccCc
Confidence 47899999888754
No 116
>KOG0717|consensus
Probab=23.69 E-value=50 Score=25.34 Aligned_cols=22 Identities=32% Similarity=0.655 Sum_probs=19.8
Q ss_pred eeCccchhccCChHHHHHHHHh
Q psy17779 97 YPCTHCGKKFGRKDHLKKHLRT 118 (141)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (141)
+.|.+|++.|.+...+..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999765
No 117
>PLN02294 cytochrome c oxidase subunit Vb
Probab=22.86 E-value=42 Score=21.97 Aligned_cols=15 Identities=40% Similarity=0.997 Sum_probs=10.8
Q ss_pred CCCccccCcchhccC
Q psy17779 35 RPKKFNCPHCNVAFS 49 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~ 49 (141)
+.++..|++||..|.
T Consensus 138 kGkp~RCpeCG~~fk 152 (174)
T PLN02294 138 KGKSFECPVCTQYFE 152 (174)
T ss_pred CCCceeCCCCCCEEE
Confidence 346778888887764
No 118
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=22.45 E-value=43 Score=17.39 Aligned_cols=23 Identities=17% Similarity=0.495 Sum_probs=17.6
Q ss_pred CCCccccCcchhccCChHHHHHH
Q psy17779 35 RPKKFNCPHCNVAFSNNGQLKGH 57 (141)
Q Consensus 35 ~~~~~~C~~C~~~f~~~~~l~~h 57 (141)
+...+-|-+||..|.+...|..+
T Consensus 24 R~~~~YC~~Cg~~Y~d~~dL~~~ 46 (55)
T PF13821_consen 24 REEHNYCFWCGTKYDDEEDLERN 46 (55)
T ss_pred HhhCceeeeeCCccCCHHHHHhC
Confidence 34446799999999999887644
No 119
>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=21.65 E-value=45 Score=19.63 Aligned_cols=14 Identities=36% Similarity=0.823 Sum_probs=10.2
Q ss_pred CCccccCcchhccC
Q psy17779 36 PKKFNCPHCNVAFS 49 (141)
Q Consensus 36 ~~~~~C~~C~~~f~ 49 (141)
.++..|..||..|.
T Consensus 77 g~~~rC~eCG~~fk 90 (97)
T cd00924 77 GKPKRCPECGHVFK 90 (97)
T ss_pred CCceeCCCCCcEEE
Confidence 36788888887664
No 120
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=21.56 E-value=41 Score=20.99 Aligned_cols=15 Identities=40% Similarity=0.981 Sum_probs=10.8
Q ss_pred CeeCccchhccCChH
Q psy17779 96 PYPCTHCGKKFGRKD 110 (141)
Q Consensus 96 ~~~C~~C~~~f~~~~ 110 (141)
|+.|..|++.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 467888888887655
No 121
>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=21.26 E-value=50 Score=15.13 Aligned_cols=13 Identities=23% Similarity=0.567 Sum_probs=9.3
Q ss_pred CeeCccchhccCC
Q psy17779 96 PYPCTHCGKKFGR 108 (141)
Q Consensus 96 ~~~C~~C~~~f~~ 108 (141)
.|.|..||..+..
T Consensus 2 ~~~C~~CG~i~~g 14 (34)
T cd00729 2 VWVCPVCGYIHEG 14 (34)
T ss_pred eEECCCCCCEeEC
Confidence 4789999876543
No 122
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.87 E-value=15 Score=19.63 Aligned_cols=44 Identities=20% Similarity=0.289 Sum_probs=21.5
Q ss_pred HHHhCCCCCeeCccchhccCChHHHHHHHHhhCCCCCccccccccccccc
Q psy17779 88 KRIHSGLRPYPCTHCGKKFGRKDHLKKHLRTHFPQPRYVSCYPYMYGGYT 137 (141)
Q Consensus 88 ~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~~ 137 (141)
...+.+..++.|..-+..|..+.-+. --++.-.+-| +.|.++|+
T Consensus 16 ~~I~~~~~~l~C~g~~~p~~HPrV~L-----~mg~~gev~C-PYC~t~y~ 59 (62)
T COG4391 16 ETIEIGDLPLMCPGPEPPNDHPRVFL-----DMGDEGEVVC-PYCSTRYR 59 (62)
T ss_pred eEEEeCCeeEEcCCCCCCCCCCEEEE-----EcCCCCcEec-CccccEEE
Confidence 33445556666665444433332111 1255555556 66666664
No 123
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=20.70 E-value=40 Score=22.85 Aligned_cols=19 Identities=32% Similarity=0.683 Sum_probs=14.4
Q ss_pred CccccCcchhccCChHHHH
Q psy17779 37 KKFNCPHCNVAFSNNGQLK 55 (141)
Q Consensus 37 ~~~~C~~C~~~f~~~~~l~ 55 (141)
+...||.|++.|....-..
T Consensus 4 k~~~CPvC~~~F~~~~vrs 22 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRS 22 (214)
T ss_pred CceECCCCCCeeeeeEEEc
Confidence 4478999999998875433
No 124
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=20.57 E-value=49 Score=19.70 Aligned_cols=16 Identities=38% Similarity=0.872 Sum_probs=12.7
Q ss_pred CCeeCccchhccCChH
Q psy17779 95 RPYPCTHCGKKFGRKD 110 (141)
Q Consensus 95 ~~~~C~~C~~~f~~~~ 110 (141)
+|..|..||..|...+
T Consensus 1 MpH~CtrCG~vf~~g~ 16 (112)
T COG3364 1 MPHQCTRCGEVFDDGS 16 (112)
T ss_pred CCceeccccccccccc
Confidence 4678999999998743
No 125
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=20.10 E-value=1.3e+02 Score=21.64 Aligned_cols=27 Identities=30% Similarity=0.455 Sum_probs=21.1
Q ss_pred CCCeeCccchhccCChHHHHHHHHhhC
Q psy17779 94 LRPYPCTHCGKKFGRKDHLKKHLRTHF 120 (141)
Q Consensus 94 ~~~~~C~~C~~~f~~~~~l~~H~~~h~ 120 (141)
...|.|..|-+-|.....|.+|+....
T Consensus 46 ~~lyiCe~Clky~~~~~~l~~H~~~C~ 72 (290)
T PLN03238 46 TKLYICEYCLKYMRKKKSLLRHLAKCD 72 (290)
T ss_pred CeEEEcCCCcchhCCHHHHHHHHHhCC
Confidence 456888888888888888888877544
Done!