Query psy16225
Match_columns 290
No_of_seqs 341 out of 1637
Neff 6.5
Searched_HMMs 46136
Date Sat Aug 17 00:06:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16225.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16225hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 7.6E-22 1.6E-26 179.2 6.8 113 164-289 126-240 (279)
2 KOG2462|consensus 99.8 2.3E-19 4.9E-24 163.1 4.3 106 166-285 159-264 (279)
3 KOG3623|consensus 99.5 1.1E-14 2.4E-19 146.0 3.6 118 166-285 208-330 (1007)
4 KOG1074|consensus 99.4 7.7E-14 1.7E-18 141.9 5.0 52 235-288 606-657 (958)
5 KOG3576|consensus 99.4 1.5E-13 3.3E-18 120.5 4.6 121 156-288 105-236 (267)
6 KOG3608|consensus 99.3 3.4E-13 7.5E-18 126.4 1.2 115 162-289 201-317 (467)
7 KOG3623|consensus 99.3 3.6E-13 7.9E-18 135.2 0.8 81 194-285 891-971 (1007)
8 KOG1074|consensus 99.3 1.1E-12 2.3E-17 133.6 3.9 52 236-289 881-932 (958)
9 KOG3576|consensus 99.2 2.3E-12 5E-17 113.2 0.0 82 195-287 115-196 (267)
10 KOG3608|consensus 98.9 8.1E-10 1.8E-14 104.0 4.5 105 169-285 264-373 (467)
11 PHA00733 hypothetical protein 98.6 3E-08 6.4E-13 82.3 4.1 81 196-288 39-123 (128)
12 PLN03086 PRLI-interacting fact 98.6 6.1E-08 1.3E-12 97.6 6.3 99 168-285 453-561 (567)
13 PHA02768 hypothetical protein; 98.5 3.6E-08 7.9E-13 69.8 1.2 42 235-280 6-47 (55)
14 PHA00733 hypothetical protein 98.4 3.3E-07 7.2E-12 76.1 3.6 81 166-257 38-122 (128)
15 PLN03086 PRLI-interacting fact 98.2 3.5E-06 7.6E-11 85.1 6.9 102 169-287 408-537 (567)
16 PHA02768 hypothetical protein; 98.2 1.3E-06 2.8E-11 61.9 2.6 44 197-251 5-48 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.1 6.4E-07 1.4E-11 54.0 0.7 26 249-276 1-26 (26)
18 KOG3993|consensus 97.9 2.6E-06 5.6E-11 82.2 -0.2 113 166-288 265-380 (500)
19 KOG3993|consensus 97.7 4.2E-06 9.1E-11 80.8 -1.7 85 167-258 294-380 (500)
20 PHA00732 hypothetical protein 97.7 3.9E-05 8.5E-10 58.5 3.6 48 197-258 1-48 (79)
21 PHA00616 hypothetical protein 97.5 2.2E-05 4.8E-10 53.2 0.3 32 235-266 2-33 (44)
22 PHA00732 hypothetical protein 97.4 0.00012 2.6E-09 55.9 2.7 45 235-287 2-47 (79)
23 PHA00616 hypothetical protein 97.2 0.00014 3.1E-09 49.3 1.3 27 262-290 1-27 (44)
24 PF05605 zf-Di19: Drought indu 97.1 0.00064 1.4E-08 47.8 3.9 25 198-223 3-27 (54)
25 PF13465 zf-H2C2_2: Zinc-finge 97.1 0.00021 4.5E-09 42.9 0.9 24 184-208 2-25 (26)
26 PF05605 zf-Di19: Drought indu 97.1 0.00049 1.1E-08 48.4 3.0 51 168-221 2-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.0 0.0004 8.6E-09 40.0 1.5 23 263-287 1-23 (23)
28 PF12756 zf-C2H2_2: C2H2 type 96.9 0.00061 1.3E-08 52.3 2.2 73 199-287 1-73 (100)
29 PF00096 zf-C2H2: Zinc finger, 96.7 0.00074 1.6E-08 38.8 1.0 22 198-219 1-22 (23)
30 PF13894 zf-C2H2_4: C2H2-type 96.6 0.0012 2.5E-08 37.7 1.5 24 198-221 1-24 (24)
31 PF13912 zf-C2H2_6: C2H2-type 96.3 0.0021 4.5E-08 38.4 1.2 24 197-220 1-24 (27)
32 PF12756 zf-C2H2_2: C2H2 type 96.1 0.0019 4.2E-08 49.5 0.6 73 170-257 1-73 (100)
33 PF13912 zf-C2H2_6: C2H2-type 96.0 0.0036 7.9E-08 37.3 1.4 25 262-288 1-25 (27)
34 PF13894 zf-C2H2_4: C2H2-type 96.0 0.0051 1.1E-07 34.9 1.9 23 263-287 1-23 (24)
35 smart00355 ZnF_C2H2 zinc finge 95.6 0.013 2.8E-07 33.5 2.6 24 263-288 1-24 (26)
36 COG5189 SFP1 Putative transcri 95.3 0.0069 1.5E-07 57.2 1.1 71 195-285 347-419 (423)
37 smart00355 ZnF_C2H2 zinc finge 94.7 0.027 5.8E-07 32.1 2.2 22 198-219 1-22 (26)
38 PF09237 GAGA: GAGA factor; I 94.1 0.031 6.7E-07 39.1 1.7 32 192-223 19-50 (54)
39 COG5048 FOG: Zn-finger [Genera 94.1 0.026 5.5E-07 53.1 1.7 121 167-288 288-442 (467)
40 PRK04860 hypothetical protein; 94.1 0.019 4.1E-07 49.5 0.7 40 233-278 118-157 (160)
41 KOG2231|consensus 93.2 0.11 2.3E-06 53.9 4.5 107 169-286 100-234 (669)
42 COG5189 SFP1 Putative transcri 93.1 0.036 7.9E-07 52.4 0.9 69 166-255 347-419 (423)
43 PF12171 zf-C2H2_jaz: Zinc-fin 92.6 0.072 1.6E-06 31.8 1.4 22 198-219 2-23 (27)
44 PF09237 GAGA: GAGA factor; I 92.6 0.11 2.4E-06 36.4 2.5 30 258-289 20-49 (54)
45 PF12874 zf-met: Zinc-finger o 92.6 0.061 1.3E-06 31.3 1.0 22 198-219 1-22 (25)
46 PF12874 zf-met: Zinc-finger o 92.1 0.082 1.8E-06 30.7 1.2 23 263-287 1-23 (25)
47 KOG1146|consensus 91.8 0.084 1.8E-06 58.0 1.8 103 170-286 438-540 (1406)
48 COG5048 FOG: Zn-finger [Genera 91.3 0.077 1.7E-06 49.8 0.8 73 197-277 289-366 (467)
49 PF13909 zf-H2C2_5: C2H2-type 91.3 0.12 2.5E-06 29.9 1.2 23 198-221 1-23 (24)
50 KOG2893|consensus 90.4 0.058 1.3E-06 49.3 -0.9 41 237-283 13-53 (341)
51 PF12171 zf-C2H2_jaz: Zinc-fin 89.7 0.13 2.7E-06 30.8 0.5 21 263-285 2-22 (27)
52 KOG2893|consensus 89.1 0.16 3.6E-06 46.4 0.9 39 171-214 13-51 (341)
53 PF13909 zf-H2C2_5: C2H2-type 88.5 0.31 6.7E-06 28.0 1.5 22 263-287 1-22 (24)
54 smart00451 ZnF_U1 U1-like zinc 86.3 0.57 1.2E-05 29.2 1.9 23 197-219 3-25 (35)
55 PRK04860 hypothetical protein; 86.1 0.37 8.1E-06 41.5 1.3 36 168-208 119-154 (160)
56 PF13913 zf-C2HC_2: zinc-finge 84.8 0.93 2E-05 26.8 2.2 19 199-218 4-22 (25)
57 KOG2231|consensus 81.7 1.4 3.1E-05 45.9 3.6 93 182-285 163-260 (669)
58 PF13913 zf-C2HC_2: zinc-finge 80.0 1.7 3.6E-05 25.7 2.1 17 268-285 6-22 (25)
59 smart00451 ZnF_U1 U1-like zinc 77.1 2 4.4E-05 26.6 2.0 22 262-285 3-24 (35)
60 PF09986 DUF2225: Uncharacteri 75.7 0.94 2E-05 40.7 0.2 52 196-247 4-61 (214)
61 TIGR00622 ssl1 transcription f 74.2 10 0.00022 30.8 5.8 87 196-288 14-105 (112)
62 KOG1146|consensus 73.1 1.4 3E-05 48.9 0.7 49 165-218 1257-1305(1406)
63 KOG4173|consensus 73.0 0.79 1.7E-05 41.1 -1.0 51 167-221 78-130 (253)
64 PF09538 FYDLN_acid: Protein o 71.3 4 8.8E-05 32.9 2.8 34 165-210 6-39 (108)
65 COG5236 Uncharacterized conser 68.8 3.2 6.9E-05 40.1 2.0 70 198-284 221-301 (493)
66 KOG2186|consensus 68.6 2.7 5.8E-05 38.8 1.4 48 168-219 3-50 (276)
67 KOG4377|consensus 56.1 9 0.0002 37.8 2.6 119 165-288 268-427 (480)
68 cd00350 rubredoxin_like Rubred 56.0 7 0.00015 24.5 1.3 10 235-244 2-11 (33)
69 TIGR02300 FYDLN_acid conserved 54.7 11 0.00023 31.4 2.5 38 165-214 6-43 (129)
70 PF06524 NOA36: NOA36 protein; 51.7 6.8 0.00015 36.5 0.9 40 165-205 139-179 (314)
71 COG5236 Uncharacterized conser 50.1 7.2 0.00016 37.7 0.9 94 181-285 166-272 (493)
72 PRK00464 nrdR transcriptional 48.8 8.4 0.00018 33.0 1.0 13 235-247 29-41 (154)
73 PRK04023 DNA polymerase II lar 48.6 25 0.00055 38.6 4.7 11 167-177 625-635 (1121)
74 PF09538 FYDLN_acid: Protein o 47.3 14 0.00031 29.8 2.0 30 235-277 10-39 (108)
75 KOG2186|consensus 46.4 7.1 0.00015 36.1 0.2 46 198-255 4-49 (276)
76 PHA00626 hypothetical protein 45.8 13 0.00029 26.5 1.5 15 261-277 22-36 (59)
77 PF09986 DUF2225: Uncharacteri 45.4 9.8 0.00021 34.1 0.9 41 235-277 6-61 (214)
78 PRK09678 DNA-binding transcrip 44.0 13 0.00028 27.8 1.3 16 235-250 28-45 (72)
79 PRK06266 transcription initiat 42.6 10 0.00023 33.1 0.7 17 166-182 115-131 (178)
80 COG4049 Uncharacterized protei 42.4 11 0.00024 27.0 0.6 20 235-254 18-37 (65)
81 TIGR00373 conserved hypothetic 42.4 11 0.00023 32.3 0.7 16 198-213 110-125 (158)
82 smart00659 RPOLCX RNA polymera 41.1 16 0.00034 24.6 1.2 12 168-179 2-13 (44)
83 KOG2482|consensus 40.8 22 0.00048 34.4 2.5 52 235-286 280-356 (423)
84 smart00531 TFIIE Transcription 39.8 9.3 0.0002 32.1 -0.1 15 196-210 98-112 (147)
85 PF04959 ARS2: Arsenite-resist 39.3 12 0.00026 33.8 0.6 28 196-223 76-103 (214)
86 TIGR02098 MJ0042_CXXC MJ0042 f 38.9 20 0.00043 22.8 1.4 34 235-275 3-36 (38)
87 PF14353 CpXC: CpXC protein 38.8 15 0.00032 29.9 1.0 42 235-278 2-52 (128)
88 COG4049 Uncharacterized protei 38.7 13 0.00028 26.7 0.5 27 195-221 15-41 (65)
89 smart00614 ZnF_BED BED zinc fi 37.8 26 0.00055 23.8 1.9 21 268-288 22-48 (50)
90 PF09723 Zn-ribbon_8: Zinc rib 36.8 21 0.00045 23.6 1.2 12 169-180 6-17 (42)
91 PRK00398 rpoP DNA-directed RNA 36.1 20 0.00042 24.0 1.1 14 168-181 3-16 (46)
92 TIGR02605 CxxC_CxxC_SSSS putat 35.5 18 0.00039 24.6 0.8 11 235-245 6-16 (52)
93 PF13719 zinc_ribbon_5: zinc-r 35.1 27 0.0006 22.4 1.6 34 235-275 3-36 (37)
94 PF03604 DNA_RNApol_7kD: DNA d 34.0 35 0.00076 21.4 1.9 26 169-206 1-26 (32)
95 smart00734 ZnF_Rad18 Rad18-lik 33.4 38 0.00082 20.1 1.9 19 199-218 3-21 (26)
96 smart00834 CxxC_CXXC_SSSS Puta 32.5 23 0.0005 22.5 0.9 11 235-245 6-16 (41)
97 COG1592 Rubrerythrin [Energy p 32.4 29 0.00064 30.1 1.8 22 235-271 135-156 (166)
98 PF02892 zf-BED: BED zinc fing 32.4 32 0.00069 22.4 1.6 23 260-284 14-40 (45)
99 TIGR02300 FYDLN_acid conserved 31.7 36 0.00078 28.3 2.1 29 236-277 11-39 (129)
100 PF13717 zinc_ribbon_4: zinc-r 31.4 36 0.00079 21.7 1.7 33 235-274 3-35 (36)
101 PF05443 ROS_MUCR: ROS/MUCR tr 31.1 24 0.00053 29.4 1.1 23 262-289 72-94 (132)
102 COG1198 PriA Primosomal protei 30.0 33 0.00072 36.5 2.1 45 227-273 436-484 (730)
103 cd00729 rubredoxin_SM Rubredox 28.3 34 0.00074 21.6 1.2 10 235-244 3-12 (34)
104 COG2888 Predicted Zn-ribbon RN 28.2 31 0.00066 25.0 1.0 13 196-208 26-38 (61)
105 COG4530 Uncharacterized protei 26.8 54 0.0012 26.7 2.3 33 165-209 6-38 (129)
106 COG4957 Predicted transcriptio 26.0 36 0.00079 28.7 1.2 22 263-289 77-98 (148)
107 KOG1280|consensus 23.6 69 0.0015 31.1 2.7 30 195-224 77-106 (381)
108 PF05290 Baculo_IE-1: Baculovi 23.4 56 0.0012 27.5 1.9 13 236-248 123-135 (140)
109 PF05456 eIF_4EBP: Eukaryotic 23.4 33 0.00072 28.1 0.5 12 95-106 50-61 (116)
110 TIGR00373 conserved hypothetic 23.4 40 0.00086 28.8 1.0 30 235-275 110-139 (158)
111 PF12013 DUF3505: Protein of u 23.2 55 0.0012 25.8 1.8 23 168-190 80-106 (109)
112 COG1996 RPC10 DNA-directed RNA 22.9 36 0.00079 23.6 0.6 11 168-178 6-16 (49)
113 PRK06266 transcription initiat 22.5 40 0.00087 29.4 0.9 30 235-275 118-147 (178)
114 PF09845 DUF2072: Zn-ribbon co 21.8 61 0.0013 27.1 1.8 13 169-181 2-14 (131)
115 KOG2807|consensus 21.5 1.1E+02 0.0024 29.6 3.6 38 164-216 272-309 (378)
116 KOG4167|consensus 20.4 20 0.00044 37.9 -1.6 23 263-287 793-815 (907)
117 COG0068 HypF Hydrogenase matur 20.4 19 0.00041 38.0 -1.8 29 236-272 153-181 (750)
No 1
>KOG2462|consensus
Probab=99.85 E-value=7.6e-22 Score=179.21 Aligned_cols=113 Identities=32% Similarity=0.565 Sum_probs=101.8
Q ss_pred CCCCcccccccCccccccCchhhHHHHhcCCC--CCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCC
Q psy16225 164 STNAMQSAGTHGAFFRYMRQPIKQDMTCLWID--TPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNG 241 (290)
Q Consensus 164 s~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e--~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~Cg 241 (290)
.....|.|..||+.+.....|.+|...+...+ +.+.|+.|+|.|.++..|+.|+++ |.- + .+|.+||
T Consensus 126 ~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirT-H~l--~--------c~C~iCG 194 (279)
T KOG2462|consen 126 AKHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRT-HTL--P--------CECGICG 194 (279)
T ss_pred ccCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhc-cCC--C--------ccccccc
Confidence 35568999999999999999999998866554 779999999999999999999999 541 2 5899999
Q ss_pred CCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChHHHHHHhhhcCC
Q psy16225 242 RPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIHKRTHTE 289 (290)
Q Consensus 242 ksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H~rtHTG 289 (290)
|.|...+-|+.|+|+|+|||||.| +.|+|+|+..+||+.|++||++
T Consensus 195 KaFSRPWLLQGHiRTHTGEKPF~C--~hC~kAFADRSNLRAHmQTHS~ 240 (279)
T KOG2462|consen 195 KAFSRPWLLQGHIRTHTGEKPFSC--PHCGKAFADRSNLRAHMQTHSD 240 (279)
T ss_pred ccccchHHhhcccccccCCCCccC--CcccchhcchHHHHHHHHhhcC
Confidence 999999999999999999999999 7899999999999999999986
No 2
>KOG2462|consensus
Probab=99.76 E-value=2.3e-19 Score=163.13 Aligned_cols=106 Identities=27% Similarity=0.444 Sum_probs=99.6
Q ss_pred CCcccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCC
Q psy16225 166 NAMQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFK 245 (290)
Q Consensus 166 ~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~ 245 (290)
...+.|..|||.|.++-.|..|.++ |. .+++|.+|||.|.+.-.|+.|+|+ |+|+++ |.|..|+|.|.
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirT-H~--l~c~C~iCGKaFSRPWLLQGHiRT-HTGEKP--------F~C~hC~kAFA 226 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRT-HT--LPCECGICGKAFSRPWLLQGHIRT-HTGEKP--------FSCPHCGKAFA 226 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhc-cC--CCcccccccccccchHHhhccccc-ccCCCC--------ccCCcccchhc
Confidence 4578899999999999999999988 43 689999999999999999999999 888888 89999999999
Q ss_pred cchhhhchhhhcCCCCcccCCCCCCCCccCChHHHHHHhh
Q psy16225 246 AKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIHKR 285 (290)
Q Consensus 246 sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H~r 285 (290)
.+++|+.||++|.+.|+|+| ..|+|+|+..+.|.+|..
T Consensus 227 DRSNLRAHmQTHS~~K~~qC--~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 227 DRSNLRAHMQTHSDVKKHQC--PRCGKSFALKSYLNKHSE 264 (279)
T ss_pred chHHHHHHHHhhcCCccccC--cchhhHHHHHHHHHHhhh
Confidence 99999999999999999999 899999999999999975
No 3
>KOG3623|consensus
Probab=99.49 E-value=1.1e-14 Score=146.01 Aligned_cols=118 Identities=22% Similarity=0.362 Sum_probs=98.0
Q ss_pred CCcccccccCccccccCchhhHHHHhcC-CCCCCcCCccCcccCChHHHHHhhhhcccCCCcccc----cCccccCCCCC
Q psy16225 166 NAMQSAGTHGAFFRYMRQPIKQDMTCLW-IDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTT----HACFWDGCPRN 240 (290)
Q Consensus 166 ~~~~~C~~Cg~~F~~~~~l~~H~~~~h~-~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~----~~C~~~~C~~C 240 (290)
.....|..|.+.+....+|+.|.+.-|. .+..|.|..|..+|.....|.+|+.+|..+...... ..-..|+|.+|
T Consensus 208 sqlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtEC 287 (1007)
T KOG3623|consen 208 SQLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTEC 287 (1007)
T ss_pred hhhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhcccccccc
Confidence 3456799999999999999999875454 457899999999999999999999985433321111 11145899999
Q ss_pred CCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChHHHHHHhh
Q psy16225 241 GRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIHKR 285 (290)
Q Consensus 241 gksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H~r 285 (290)
+|.|+.|..|+.|+|+|.|||||.| +.|+|+|+.+..+..|+-
T Consensus 288 gKAFKfKHHLKEHlRIHSGEKPfeC--pnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 288 GKAFKFKHHLKEHLRIHSGEKPFEC--PNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred chhhhhHHHHHhhheeecCCCCcCC--cccccccccCCccccccc
Confidence 9999999999999999999999999 899999999999888863
No 4
>KOG1074|consensus
Probab=99.43 E-value=7.7e-14 Score=141.87 Aligned_cols=52 Identities=38% Similarity=0.695 Sum_probs=49.4
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChHHHHHHhhhcC
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIHKRTHT 288 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H~rtHT 288 (290)
.+|-+|-+...-++.|+.|.|+|+|||||+| ++||+.|.++.+|+.|+-+|.
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkC--KiCgRAFtTkGNLkaH~~vHk 657 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKC--KICGRAFTTKGNLKAHMSVHK 657 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCcccc--ccccchhccccchhhcccccc
Confidence 3799999999999999999999999999999 899999999999999998885
No 5
>KOG3576|consensus
Probab=99.41 E-value=1.5e-13 Score=120.52 Aligned_cols=121 Identities=22% Similarity=0.332 Sum_probs=103.2
Q ss_pred ccccCCCCCCCCcccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCcccc
Q psy16225 156 MDLNAAYPSTNAMQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWD 235 (290)
Q Consensus 156 ~~l~~~~ps~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~ 235 (290)
+...+...+.+..+.|..|+|.|...+-|.+|+ .||..-+.+.|..|||.|.+.-+|++|+++ |++..+ |
T Consensus 105 ~k~t~gsssd~d~ftCrvCgK~F~lQRmlnrh~-kch~~vkr~lct~cgkgfndtfdlkrh~rt-htgvrp--------y 174 (267)
T KOG3576|consen 105 PKSTIGSSSDQDSFTCRVCGKKFGLQRMLNRHL-KCHSDVKRHLCTFCGKGFNDTFDLKRHTRT-HTGVRP--------Y 174 (267)
T ss_pred CcccccCCCCCCeeeeehhhhhhhHHHHHHHHh-hhccHHHHHHHhhccCcccchhhhhhhhcc-ccCccc--------c
Confidence 334444555677899999999999999888875 568877999999999999999999999999 788777 8
Q ss_pred CCCCCCCCCCcchhhhchhh-hcC----------CCCcccCCCCCCCCccCChHHHHHHhhhcC
Q psy16225 236 GCPRNGRPFKAKYKLVNHIR-VHT----------GEKPFPCPFPTCGKVFARSENLKIHKRTHT 288 (290)
Q Consensus 236 ~C~~CgksF~sks~L~~H~r-vHt----------geKpf~C~~~~CgKsFs~~s~L~~H~rtHT 288 (290)
+|..|+|.|.....|..|.+ +|. .+|-|.| .+||.+-...+.+..|++.|.
T Consensus 175 kc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vc--edcg~t~~~~e~~~~h~~~~h 236 (267)
T KOG3576|consen 175 KCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVC--EDCGYTSERPEVYYLHLKLHH 236 (267)
T ss_pred chhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeee--cccCCCCCChhHHHHHHHhcC
Confidence 99999999999999999987 553 3567999 899999999999999988764
No 6
>KOG3608|consensus
Probab=99.32 E-value=3.4e-13 Score=126.36 Aligned_cols=115 Identities=23% Similarity=0.335 Sum_probs=99.0
Q ss_pred CCCCCCcccccccCccccccCchhhHHHHhcC-CCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCC
Q psy16225 162 YPSTNAMQSAGTHGAFFRYMRQPIKQDMTCLW-IDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRN 240 (290)
Q Consensus 162 ~ps~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~-~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~C 240 (290)
..+...+..|..||..|+.+..|..|.++.-. ...+|.|..|.|.|.++..|+.|++. |..- |+|+.|
T Consensus 201 ~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~r-Hvn~----------ykCplC 269 (467)
T KOG3608|consen 201 THSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVR-HVNC----------YKCPLC 269 (467)
T ss_pred hcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHH-hhhc----------cccccc
Confidence 34566678899999999999999999775322 23789999999999999999999988 5432 799999
Q ss_pred CCCCCcchhhhchhh-hcCCCCcccCCCCCCCCccCChHHHHHHhhhcCC
Q psy16225 241 GRPFKAKYKLVNHIR-VHTGEKPFPCPFPTCGKVFARSENLKIHKRTHTE 289 (290)
Q Consensus 241 gksF~sks~L~~H~r-vHtgeKpf~C~~~~CgKsFs~~s~L~~H~rtHTG 289 (290)
.-.....+.|.+|+| .|..+|||+| +.|.+.|.+.++|.+|..+|+.
T Consensus 270 dmtc~~~ssL~~H~r~rHs~dkpfKC--d~Cd~~c~~esdL~kH~~~HS~ 317 (467)
T KOG3608|consen 270 DMTCSSASSLTTHIRYRHSKDKPFKC--DECDTRCVRESDLAKHVQVHSK 317 (467)
T ss_pred ccCCCChHHHHHHHHhhhccCCCccc--cchhhhhccHHHHHHHHHhccc
Confidence 999999999999999 7889999999 8999999999999999999873
No 7
>KOG3623|consensus
Probab=99.31 E-value=3.6e-13 Score=135.24 Aligned_cols=81 Identities=32% Similarity=0.513 Sum_probs=75.8
Q ss_pred CCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCc
Q psy16225 194 IDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKV 273 (290)
Q Consensus 194 ~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKs 273 (290)
.+..|.|++|+|.|...+.|.+|.-. |.|.++ |+|.+|.|.|+.|..|..|+|.|.|||||+| +.|+|+
T Consensus 891 e~gmyaCDqCDK~FqKqSSLaRHKYE-HsGqRP--------yqC~iCkKAFKHKHHLtEHkRLHSGEKPfQC--dKClKR 959 (1007)
T KOG3623|consen 891 EDGMYACDQCDKAFQKQSSLARHKYE-HSGQRP--------YQCIICKKAFKHKHHLTEHKRLHSGEKPFQC--DKCLKR 959 (1007)
T ss_pred ccccchHHHHHHHHHhhHHHHHhhhh-hcCCCC--------cccchhhHhhhhhhhhhhhhhhccCCCcchh--hhhhhh
Confidence 34789999999999999999999875 888877 8999999999999999999999999999999 999999
Q ss_pred cCChHHHHHHhh
Q psy16225 274 FARSENLKIHKR 285 (290)
Q Consensus 274 Fs~~s~L~~H~r 285 (290)
|+.+..+.+||.
T Consensus 960 FSHSGSYSQHMN 971 (1007)
T KOG3623|consen 960 FSHSGSYSQHMN 971 (1007)
T ss_pred cccccchHhhhc
Confidence 999999999984
No 8
>KOG1074|consensus
Probab=99.30 E-value=1.1e-12 Score=133.64 Aligned_cols=52 Identities=40% Similarity=0.688 Sum_probs=49.4
Q ss_pred CCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChHHHHHHhhhcCC
Q psy16225 236 GCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIHKRTHTE 289 (290)
Q Consensus 236 ~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H~rtHTG 289 (290)
.|..|++.|...+.|..|+|+|+++|||.| ..|++.|....+|+.|+.+|..
T Consensus 881 ~C~vCgk~FsSSsALqiH~rTHtg~KPF~C--~fC~~aFttrgnLKvHMgtH~w 932 (958)
T KOG1074|consen 881 VCNVCGKQFSSSAALEIHMRTHTGPKPFFC--HFCEEAFTTRGNLKVHMGTHMW 932 (958)
T ss_pred hhccchhcccchHHHHHhhhcCCCCCCccc--hhhhhhhhhhhhhhhhhccccc
Confidence 699999999999999999999999999999 6699999999999999999864
No 9
>KOG3576|consensus
Probab=99.20 E-value=2.3e-12 Score=113.16 Aligned_cols=82 Identities=28% Similarity=0.547 Sum_probs=74.3
Q ss_pred CCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCcc
Q psy16225 195 DTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVF 274 (290)
Q Consensus 195 e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsF 274 (290)
...|.|.+|+|.|.-..-|.+|++- |...+. +-|..|||.|.....|++|+|+|+|.+||+| ..|+|.|
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kc-h~~vkr--------~lct~cgkgfndtfdlkrh~rthtgvrpykc--~~c~kaf 183 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKC-HSDVKR--------HLCTFCGKGFNDTFDLKRHTRTHTGVRPYKC--SLCEKAF 183 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhh-ccHHHH--------HHHhhccCcccchhhhhhhhccccCccccch--hhhhHHH
Confidence 3678999999999999999999998 655544 7899999999999999999999999999999 8899999
Q ss_pred CChHHHHHHhhhc
Q psy16225 275 ARSENLKIHKRTH 287 (290)
Q Consensus 275 s~~s~L~~H~rtH 287 (290)
.+.-.|..|++.-
T Consensus 184 tqrcsleshl~kv 196 (267)
T KOG3576|consen 184 TQRCSLESHLKKV 196 (267)
T ss_pred HhhccHHHHHHHH
Confidence 9999999998643
No 10
>KOG3608|consensus
Probab=98.92 E-value=8.1e-10 Score=103.97 Aligned_cols=105 Identities=15% Similarity=0.208 Sum_probs=52.5
Q ss_pred ccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCC--CCCCCCc
Q psy16225 169 QSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPR--NGRPFKA 246 (290)
Q Consensus 169 ~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~--CgksF~s 246 (290)
|.|+.|+.+....+.|.+|++..|..+++|+|+.|++.|.+.++|.+|..+ |.. .. |.|.. |..+|+.
T Consensus 264 ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~-HS~-~~--------y~C~h~~C~~s~r~ 333 (467)
T KOG3608|consen 264 YKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQV-HSK-TV--------YQCEHPDCHYSVRT 333 (467)
T ss_pred ccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHh-ccc-cc--------eecCCCCCcHHHHH
Confidence 334444444444444444444444445555555555555555555555554 331 11 34444 5555555
Q ss_pred chhhhchhh-hcCC--CCcccCCCCCCCCccCChHHHHHHhh
Q psy16225 247 KYKLVNHIR-VHTG--EKPFPCPFPTCGKVFARSENLKIHKR 285 (290)
Q Consensus 247 ks~L~~H~r-vHtg--eKpf~C~~~~CgKsFs~~s~L~~H~r 285 (290)
...+.+|++ +|.| +.+|.| -.|++.|.+-.+|..|++
T Consensus 334 ~~q~~~H~~evhEg~np~~Y~C--H~Cdr~ft~G~~L~~HL~ 373 (467)
T KOG3608|consen 334 YTQMRRHFLEVHEGNNPILYAC--HCCDRFFTSGKSLSAHLM 373 (467)
T ss_pred HHHHHHHHHHhccCCCCCceee--ecchhhhccchhHHHHHH
Confidence 555555555 3333 234566 446666666666666653
No 11
>PHA00733 hypothetical protein
Probab=98.62 E-value=3e-08 Score=82.32 Aligned_cols=81 Identities=23% Similarity=0.298 Sum_probs=60.3
Q ss_pred CCCcCCccCcccCChHHHHHh--hhh--cccCCCcccccCccccCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCC
Q psy16225 196 TPGPRKTCGKMFNNMHEIVTH--LTV--EHVGGPECTTHACFWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCG 271 (290)
Q Consensus 196 ~~~~C~~CgKsF~~~~~L~~H--~~~--~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~Cg 271 (290)
+++.|.+|.+.|.....|..+ ++. .+.+..+ +.|+.|++.|.....|..|+++| +++|.| ..|+
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kP--------y~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C--~~Cg 106 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSP--------YVCPLCLMPFSSSVSLKQHIRYT--EHSKVC--PVCG 106 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCC--------ccCCCCCCcCCCHHHHHHHHhcC--CcCccC--CCCC
Confidence 667888888888776666555 211 1112222 78999999999999999998876 457899 7899
Q ss_pred CccCChHHHHHHhhhcC
Q psy16225 272 KVFARSENLKIHKRTHT 288 (290)
Q Consensus 272 KsFs~~s~L~~H~rtHT 288 (290)
+.|.....|.+|++...
T Consensus 107 K~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 107 KEFRNTDSTLDHVCKKH 123 (128)
T ss_pred CccCCHHHHHHHHHHhc
Confidence 99999999999987654
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.60 E-value=6.1e-08 Score=97.62 Aligned_cols=99 Identities=19% Similarity=0.306 Sum_probs=73.4
Q ss_pred cccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCc-
Q psy16225 168 MQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKA- 246 (290)
Q Consensus 168 ~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~s- 246 (290)
-+.|..|++.|. ...+.+|..+|| .++.|. |++.+ .+..|..|+++ |...++ +.|..|++.|..
T Consensus 453 H~~C~~Cgk~f~-~s~LekH~~~~H---kpv~Cp-Cg~~~-~R~~L~~H~~t-hCp~Kp--------i~C~fC~~~v~~g 517 (567)
T PLN03086 453 HVHCEKCGQAFQ-QGEMEKHMKVFH---EPLQCP-CGVVL-EKEQMVQHQAS-TCPLRL--------ITCRFCGDMVQAG 517 (567)
T ss_pred CccCCCCCCccc-hHHHHHHHHhcC---CCccCC-CCCCc-chhHHHhhhhc-cCCCCc--------eeCCCCCCccccC
Confidence 457888888885 566888888875 678888 88755 56788888877 444444 688888888842
Q ss_pred ---------chhhhchhhhcCCCCcccCCCCCCCCccCChHHHHHHhh
Q psy16225 247 ---------KYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIHKR 285 (290)
Q Consensus 247 ---------ks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H~r 285 (290)
.+.|..|..+. |.+++.| ..||+.+... .+..|+.
T Consensus 518 ~~~~d~~d~~s~Lt~HE~~C-G~rt~~C--~~Cgk~Vrlr-dm~~H~~ 561 (567)
T PLN03086 518 GSAMDVRDRLRGMSEHESIC-GSRTAPC--DSCGRSVMLK-EMDIHQI 561 (567)
T ss_pred ccccchhhhhhhHHHHHHhc-CCcceEc--cccCCeeeeh-hHHHHHH
Confidence 34688888875 7888999 7898888755 4677754
No 13
>PHA02768 hypothetical protein; Provisional
Probab=98.50 E-value=3.6e-08 Score=69.80 Aligned_cols=42 Identities=19% Similarity=0.494 Sum_probs=26.0
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChHHH
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENL 280 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L 280 (290)
|+|++||+.|.....|..|+|+|+ ++|+| ..|+|.|.+.+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc--~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKL--SNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccC--Ccccceeccccee
Confidence 456666666666666666666666 45666 5666666655544
No 14
>PHA00733 hypothetical protein
Probab=98.35 E-value=3.3e-07 Score=76.05 Aligned_cols=81 Identities=11% Similarity=0.116 Sum_probs=64.1
Q ss_pred CCcccccccCccccccCchhhHH----HHhcCCCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCC
Q psy16225 166 NAMQSAGTHGAFFRYMRQPIKQD----MTCLWIDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNG 241 (290)
Q Consensus 166 ~~~~~C~~Cg~~F~~~~~l~~H~----~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~Cg 241 (290)
...+.|..|.+.|.....|..+. ...+..+++|.|+.|++.|.+...|..|++. +. .+ +.|..|+
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~-h~--~~--------~~C~~Cg 106 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRY-TE--HS--------KVCPVCG 106 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhc-CC--cC--------ccCCCCC
Confidence 44778999999998877665551 1222346899999999999999999999987 31 22 6999999
Q ss_pred CCCCcchhhhchhhhc
Q psy16225 242 RPFKAKYKLVNHIRVH 257 (290)
Q Consensus 242 ksF~sks~L~~H~rvH 257 (290)
+.|.....|.+|++..
T Consensus 107 K~F~~~~sL~~H~~~~ 122 (128)
T PHA00733 107 KEFRNTDSTLDHVCKK 122 (128)
T ss_pred CccCCHHHHHHHHHHh
Confidence 9999999999998744
No 15
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.17 E-value=3.5e-06 Score=85.10 Aligned_cols=102 Identities=20% Similarity=0.342 Sum_probs=77.4
Q ss_pred ccccccCccccccCchhhHHHHhcCC------------------CCCCcCCccCcccCChHHHHHhhhhcccCCCccccc
Q psy16225 169 QSAGTHGAFFRYMRQPIKQDMTCLWI------------------DTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTH 230 (290)
Q Consensus 169 ~~C~~Cg~~F~~~~~l~~H~~~~h~~------------------e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~ 230 (290)
..|..|..... .+.+..|+..|... ++.+.|+.|++.|. ...|..|++++| .+
T Consensus 408 V~C~NC~~~i~-l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~-~s~LekH~~~~H---kp---- 478 (567)
T PLN03086 408 VECRNCKHYIP-SRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQ-QGEMEKHMKVFH---EP---- 478 (567)
T ss_pred EECCCCCCccc-hhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccc-hHHHHHHHHhcC---CC----
Confidence 35888876653 34467777665321 24568999999996 688999999865 22
Q ss_pred CccccCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccC----------ChHHHHHHhhhc
Q psy16225 231 ACFWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFA----------RSENLKIHKRTH 287 (290)
Q Consensus 231 ~C~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs----------~~s~L~~H~rtH 287 (290)
+.|+ |++.+ .+..|..|+++|..+|++.| ..|++.|. ..+.|..|..++
T Consensus 479 ----v~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C--~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C 537 (567)
T PLN03086 479 ----LQCP-CGVVL-EKEQMVQHQASTCPLRLITC--RFCGDMVQAGGSAMDVRDRLRGMSEHESIC 537 (567)
T ss_pred ----ccCC-CCCCc-chhHHHhhhhccCCCCceeC--CCCCCccccCccccchhhhhhhHHHHHHhc
Confidence 6888 99765 66899999999999999999 55999995 245799998765
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.16 E-value=1.3e-06 Score=61.95 Aligned_cols=44 Identities=16% Similarity=0.181 Sum_probs=33.4
Q ss_pred CCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhh
Q psy16225 197 PGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLV 251 (290)
Q Consensus 197 ~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~ 251 (290)
-|+|+.|++.|.+...|.+|+++ |. ++ ++|..|++.|..++.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~-H~--k~--------~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRK-HN--TN--------LKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHh-cC--Cc--------ccCCcccceecccceeE
Confidence 47788888888888888888888 43 22 57888888888777665
No 17
>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=98.15 E-value=6.4e-07 Score=53.99 Aligned_cols=26 Identities=58% Similarity=1.232 Sum_probs=23.4
Q ss_pred hhhchhhhcCCCCcccCCCCCCCCccCC
Q psy16225 249 KLVNHIRVHTGEKPFPCPFPTCGKVFAR 276 (290)
Q Consensus 249 ~L~~H~rvHtgeKpf~C~~~~CgKsFs~ 276 (290)
+|.+|+++|+++|||+| +.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C--~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKC--PYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEE--SSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCC--CCCcCeeCc
Confidence 47899999999999999 889999974
No 18
>KOG3993|consensus
Probab=97.88 E-value=2.6e-06 Score=82.21 Aligned_cols=113 Identities=21% Similarity=0.314 Sum_probs=64.0
Q ss_pred CCcccccccCccccccCchhhHHHHhcCCC-CCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCC
Q psy16225 166 NAMQSAGTHGAFFRYMRQPIKQDMTCLWID-TPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPF 244 (290)
Q Consensus 166 ~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e-~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF 244 (290)
-..|+|..|-..|.+.-.|.+|+ |-.+- ..|+|.+|+|.|+...+|..|.|+ |.-.+..... .-+--.+.-
T Consensus 265 iGdyiCqLCK~kYeD~F~LAQHr--C~RIV~vEYrCPEC~KVFsCPANLASHRRW-HKPR~eaa~a-----~~~P~k~~~ 336 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALAQHR--CPRIVHVEYRCPECDKVFSCPANLASHRRW-HKPRPEAAKA-----GSPPPKQAV 336 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHhhcc--CCeeEEeeecCCcccccccCchhhhhhhcc-cCCchhhhhc-----CCCChhhhh
Confidence 34577888877777777777774 22222 467888888888888888888887 4322211000 000000000
Q ss_pred Ccchhhhchhhh--cCCCCcccCCCCCCCCccCChHHHHHHhhhcC
Q psy16225 245 KAKYKLVNHIRV--HTGEKPFPCPFPTCGKVFARSENLKIHKRTHT 288 (290)
Q Consensus 245 ~sks~L~~H~rv--HtgeKpf~C~~~~CgKsFs~~s~L~~H~rtHT 288 (290)
......+.-.|. ...+--|.| ..|+|.|.+...|++|+-+|.
T Consensus 337 ~~rae~~ea~rsg~dss~gi~~C--~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 337 ETRAEVQEAERSGDDSSSGIFSC--HTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred hhhhhhhhccccCCcccCceeec--HHhhhhhHHHHHHHHhHHhhh
Confidence 000111111110 011235999 789999999999999988774
No 19
>KOG3993|consensus
Probab=97.71 E-value=4.2e-06 Score=80.77 Aligned_cols=85 Identities=11% Similarity=0.027 Sum_probs=45.6
Q ss_pred CcccccccCccccccCchhhHHHHhcCCCCCCc--CCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCC
Q psy16225 167 AMQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGP--RKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPF 244 (290)
Q Consensus 167 ~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~--C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF 244 (290)
..|.|.+|+|.|....+|..|++-+......-. -+.=.+. .....+.+-... ++...+. ..|.|..|+|.|
T Consensus 294 vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~-~~~rae~~ea~r---sg~dss~---gi~~C~~C~KkF 366 (500)
T KOG3993|consen 294 VEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQA-VETRAEVQEAER---SGDDSSS---GIFSCHTCGKKF 366 (500)
T ss_pred eeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhh-hhhhhhhhhccc---cCCcccC---ceeecHHhhhhh
Confidence 478999999999999999999764322100000 0000000 111111111111 1111111 237888888888
Q ss_pred CcchhhhchhhhcC
Q psy16225 245 KAKYKLVNHIRVHT 258 (290)
Q Consensus 245 ~sks~L~~H~rvHt 258 (290)
.....|+.|+.+|.
T Consensus 367 rRqAYLrKHqlthq 380 (500)
T KOG3993|consen 367 RRQAYLRKHQLTHQ 380 (500)
T ss_pred HHHHHHHHhHHhhh
Confidence 88888888866553
No 20
>PHA00732 hypothetical protein
Probab=97.69 E-value=3.9e-05 Score=58.53 Aligned_cols=48 Identities=17% Similarity=0.292 Sum_probs=29.6
Q ss_pred CCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhhchhhhcC
Q psy16225 197 PGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLVNHIRVHT 258 (290)
Q Consensus 197 ~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~~H~rvHt 258 (290)
+|.|+.|++.|.+...|+.|++.+|.+ +.|+.|++.|. .+..|++...
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~-----------~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL-----------TKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC-----------CccCCCCCEeC---ChhhhhcccC
Confidence 356777777777777777777643321 35677777775 4556665443
No 21
>PHA00616 hypothetical protein
Probab=97.53 E-value=2.2e-05 Score=53.18 Aligned_cols=32 Identities=19% Similarity=0.344 Sum_probs=25.7
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCC
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCP 266 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~ 266 (290)
++|..||+.|..++.|..|++.|++++++.|.
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 67888888888888888888888888887773
No 22
>PHA00732 hypothetical protein
Probab=97.39 E-value=0.00012 Score=55.87 Aligned_cols=45 Identities=31% Similarity=0.510 Sum_probs=38.3
Q ss_pred cCCCCCCCCCCcchhhhchhhh-cCCCCcccCCCCCCCCccCChHHHHHHhhhc
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRV-HTGEKPFPCPFPTCGKVFARSENLKIHKRTH 287 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rv-HtgeKpf~C~~~~CgKsFs~~s~L~~H~rtH 287 (290)
+.|.+|++.|.....|..|++. |.+ +.| +.|++.|. .|..|.+++
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C--~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTL---TKC--PVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCC---Ccc--CCCCCEeC---Chhhhhccc
Confidence 6899999999999999999984 664 589 89999998 578887654
No 23
>PHA00616 hypothetical protein
Probab=97.22 E-value=0.00014 Score=49.25 Aligned_cols=27 Identities=19% Similarity=0.501 Sum_probs=25.4
Q ss_pred cccCCCCCCCCccCChHHHHHHhhhcCCC
Q psy16225 262 PFPCPFPTCGKVFARSENLKIHKRTHTEV 290 (290)
Q Consensus 262 pf~C~~~~CgKsFs~~s~L~~H~rtHTGE 290 (290)
||+| +.||+.|.+.++|.+|++.|+||
T Consensus 1 pYqC--~~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 1 MYQC--LRCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CCcc--chhhHHHhhHHHHHHHHHHhcCC
Confidence 6899 88999999999999999999986
No 24
>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=97.11 E-value=0.00064 Score=47.80 Aligned_cols=25 Identities=28% Similarity=0.238 Sum_probs=11.7
Q ss_pred CcCCccCcccCChHHHHHhhhhcccC
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTVEHVG 223 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~~H~g 223 (290)
|.|+.|++ ..+...|..|+...|..
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~ 27 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRS 27 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcC
Confidence 44555555 23344455555444443
No 25
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.08 E-value=0.00021 Score=42.94 Aligned_cols=24 Identities=25% Similarity=0.224 Sum_probs=14.9
Q ss_pred hhhHHHHhcCCCCCCcCCccCcccC
Q psy16225 184 PIKQDMTCLWIDTPGPRKTCGKMFN 208 (290)
Q Consensus 184 l~~H~~~~h~~e~~~~C~~CgKsF~ 208 (290)
|.+|+++ |.++++|.|++|++.|.
T Consensus 2 l~~H~~~-H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRT-HTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHH-HSSSSSEEESSSSEEES
T ss_pred HHHHhhh-cCCCCCCCCCCCcCeeC
Confidence 4556554 66666666666666664
No 26
>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=97.08 E-value=0.00049 Score=48.39 Aligned_cols=51 Identities=12% Similarity=0.104 Sum_probs=41.9
Q ss_pred cccccccCccccccCchhhHHHHhcCCC-CCCcCCccCcccCChHHHHHhhhhcc
Q psy16225 168 MQSAGTHGAFFRYMRQPIKQDMTCLWID-TPGPRKTCGKMFNNMHEIVTHLTVEH 221 (290)
Q Consensus 168 ~~~C~~Cg~~F~~~~~l~~H~~~~h~~e-~~~~C~~CgKsF~~~~~L~~H~~~~H 221 (290)
.|.|+.|++.| +...|..|....|..+ +.+.|++|.+.+. .+|.+|+...|
T Consensus 2 ~f~CP~C~~~~-~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKGF-SESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCcc-CHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 47899999954 5677999999888876 6799999998755 48999998765
No 27
>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=96.98 E-value=0.0004 Score=39.96 Aligned_cols=23 Identities=52% Similarity=1.089 Sum_probs=18.2
Q ss_pred ccCCCCCCCCccCChHHHHHHhhhc
Q psy16225 263 FPCPFPTCGKVFARSENLKIHKRTH 287 (290)
Q Consensus 263 f~C~~~~CgKsFs~~s~L~~H~rtH 287 (290)
|+| +.|++.|.+...|.+|++.|
T Consensus 1 y~C--~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKC--PICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEE--TTTTEEESSHHHHHHHHHHH
T ss_pred CCC--CCCCCccCCHHHHHHHHhHC
Confidence 567 67888888888888888765
No 28
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.88 E-value=0.00061 Score=52.32 Aligned_cols=73 Identities=23% Similarity=0.483 Sum_probs=16.9
Q ss_pred cCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChH
Q psy16225 199 PRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSE 278 (290)
Q Consensus 199 ~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s 278 (290)
+|..|+..|.+...|..|+...|.-... ....+.....+..+++.-. ...+.| ..|++.|....
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~-------------~~~~l~~~~~~~~~~~~~~-~~~~~C--~~C~~~f~s~~ 64 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP-------------DQKYLVDPNRLLNYLRKKV-KESFRC--PYCNKTFRSRE 64 (100)
T ss_dssp --------------------------------------------------------------SSEEB--SSSS-EESSHH
T ss_pred Cccccccccccccccccccccccccccc-------------ccccccccccccccccccc-CCCCCC--CccCCCCcCHH
Confidence 4777888888878888887665543221 0111112223333333211 125777 66777777777
Q ss_pred HHHHHhhhc
Q psy16225 279 NLKIHKRTH 287 (290)
Q Consensus 279 ~L~~H~rtH 287 (290)
.|..|++.+
T Consensus 65 ~l~~Hm~~~ 73 (100)
T PF12756_consen 65 ALQEHMRSK 73 (100)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHcCc
Confidence 777777653
No 29
>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=96.67 E-value=0.00074 Score=38.80 Aligned_cols=22 Identities=23% Similarity=0.418 Sum_probs=14.8
Q ss_pred CcCCccCcccCChHHHHHhhhh
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTV 219 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~ 219 (290)
|.|+.|++.|.+...|++|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566777777777777777665
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.60 E-value=0.0012 Score=37.65 Aligned_cols=24 Identities=29% Similarity=0.516 Sum_probs=15.0
Q ss_pred CcCCccCcccCChHHHHHhhhhcc
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTVEH 221 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~~H 221 (290)
|.|++|++.|.+...|..|++++|
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 457777777777777777776643
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.26 E-value=0.0021 Score=38.40 Aligned_cols=24 Identities=25% Similarity=0.501 Sum_probs=17.7
Q ss_pred CCcCCccCcccCChHHHHHhhhhc
Q psy16225 197 PGPRKTCGKMFNNMHEIVTHLTVE 220 (290)
Q Consensus 197 ~~~C~~CgKsF~~~~~L~~H~~~~ 220 (290)
+|+|+.|++.|.+...|..|++.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 467777777777777777777663
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.09 E-value=0.0019 Score=49.48 Aligned_cols=73 Identities=16% Similarity=0.201 Sum_probs=19.3
Q ss_pred cccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchh
Q psy16225 170 SAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYK 249 (290)
Q Consensus 170 ~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~ 249 (290)
.|..|+..|.+...++.|+...|....+ ..+.+.....+..+++. .... .+.|..|++.|.+...
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~-----~~~~l~~~~~~~~~~~~-~~~~---------~~~C~~C~~~f~s~~~ 65 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP-----DQKYLVDPNRLLNYLRK-KVKE---------SFRCPYCNKTFRSREA 65 (100)
T ss_dssp ------------------------------------------------------S---------SEEBSSSS-EESSHHH
T ss_pred Cccccccccccccccccccccccccccc-----ccccccccccccccccc-ccCC---------CCCCCccCCCCcCHHH
Confidence 3899999999999999999876754322 11122233334333332 1111 1689999999999999
Q ss_pred hhchhhhc
Q psy16225 250 LVNHIRVH 257 (290)
Q Consensus 250 L~~H~rvH 257 (290)
|..|++.+
T Consensus 66 l~~Hm~~~ 73 (100)
T PF12756_consen 66 LQEHMRSK 73 (100)
T ss_dssp HHHHHHHT
T ss_pred HHHHHcCc
Confidence 99999854
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.01 E-value=0.0036 Score=37.30 Aligned_cols=25 Identities=48% Similarity=1.022 Sum_probs=19.6
Q ss_pred cccCCCCCCCCccCChHHHHHHhhhcC
Q psy16225 262 PFPCPFPTCGKVFARSENLKIHKRTHT 288 (290)
Q Consensus 262 pf~C~~~~CgKsFs~~s~L~~H~rtHT 288 (290)
+|+| ..|++.|....+|..|++.|.
T Consensus 1 ~~~C--~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFEC--DECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEE--TTTTEEESSHHHHHHHHCTTT
T ss_pred CCCC--CccCCccCChhHHHHHhHHhc
Confidence 4778 778888888888888887764
No 34
>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=95.96 E-value=0.0051 Score=34.89 Aligned_cols=23 Identities=52% Similarity=1.094 Sum_probs=17.3
Q ss_pred ccCCCCCCCCccCChHHHHHHhhhc
Q psy16225 263 FPCPFPTCGKVFARSENLKIHKRTH 287 (290)
Q Consensus 263 f~C~~~~CgKsFs~~s~L~~H~rtH 287 (290)
|.| +.|++.|.+...|..|+++|
T Consensus 1 ~~C--~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQC--PICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE---SSTS-EESSHHHHHHHHHHH
T ss_pred CCC--cCCCCcCCcHHHHHHHHHhh
Confidence 578 67888888888888888775
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.57 E-value=0.013 Score=33.49 Aligned_cols=24 Identities=54% Similarity=1.013 Sum_probs=17.2
Q ss_pred ccCCCCCCCCccCChHHHHHHhhhcC
Q psy16225 263 FPCPFPTCGKVFARSENLKIHKRTHT 288 (290)
Q Consensus 263 f~C~~~~CgKsFs~~s~L~~H~rtHT 288 (290)
|+| ..|++.|.....|..|++.|.
T Consensus 1 ~~C--~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRC--PECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCC--CCCcchhCCHHHHHHHHHHhc
Confidence 456 667777777777777777664
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=95.31 E-value=0.0069 Score=57.17 Aligned_cols=71 Identities=23% Similarity=0.461 Sum_probs=47.4
Q ss_pred CCCCcCCc--cCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCC
Q psy16225 195 DTPGPRKT--CGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGK 272 (290)
Q Consensus 195 e~~~~C~~--CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgK 272 (290)
+++|+|++ |+|.|...-.|+-|+.--|...+..+. .-++--..| -...|||.| +.|+|
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~------p~p~~~~~F------------~~~~KPYrC--evC~K 406 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHEN------PSPEKMNIF------------SAKDKPYRC--EVCDK 406 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCC------CCccccccc------------cccCCceec--cccch
Confidence 48999987 999999999999998643322221000 001111122 345799999 67999
Q ss_pred ccCChHHHHHHhh
Q psy16225 273 VFARSENLKIHKR 285 (290)
Q Consensus 273 sFs~~s~L~~H~r 285 (290)
++.....|+-|..
T Consensus 407 RYKNlNGLKYHr~ 419 (423)
T COG5189 407 RYKNLNGLKYHRK 419 (423)
T ss_pred hhccCccceeccc
Confidence 9999999988853
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.71 E-value=0.027 Score=32.11 Aligned_cols=22 Identities=23% Similarity=0.483 Sum_probs=14.3
Q ss_pred CcCCccCcccCChHHHHHhhhh
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTV 219 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~ 219 (290)
|.|..|++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH
Confidence 3566666666666666666654
No 38
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=94.10 E-value=0.031 Score=39.08 Aligned_cols=32 Identities=19% Similarity=0.431 Sum_probs=19.9
Q ss_pred cCCCCCCcCCccCcccCChHHHHHhhhhcccC
Q psy16225 192 LWIDTPGPRKTCGKMFNNMHEIVTHLTVEHVG 223 (290)
Q Consensus 192 h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g 223 (290)
+..+.+..|++|+..+.+..+|++|+...|..
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 44457778888888888888888888775644
No 39
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.08 E-value=0.026 Score=53.11 Aligned_cols=121 Identities=23% Similarity=0.292 Sum_probs=85.6
Q ss_pred CcccccccCccccccCchhhHHHH-hcCCC--CCCcCC--ccCcccCChHHHHHhhhhcccCCCccccc--Cc-------
Q psy16225 167 AMQSAGTHGAFFRYMRQPIKQDMT-CLWID--TPGPRK--TCGKMFNNMHEIVTHLTVEHVGGPECTTH--AC------- 232 (290)
Q Consensus 167 ~~~~C~~Cg~~F~~~~~l~~H~~~-~h~~e--~~~~C~--~CgKsF~~~~~L~~H~~~~H~g~~~~~~~--~C------- 232 (290)
..+.|..|...|.....+.+|... -|.++ +++.|. .|++.|.+...+.+|... |.......+. .|
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILL-HTSISPAKEKLLNSSSKFSPL 366 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccc-ccCCCccccccccCccccccc
Confidence 468899999999999999999884 58888 899999 799999999999999887 4332211100 00
Q ss_pred ------------------cccCC--CCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChHHHHHHhhhcC
Q psy16225 233 ------------------FWDGC--PRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIHKRTHT 288 (290)
Q Consensus 233 ------------------~~~~C--~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H~rtHT 288 (290)
....| ..|-..+.....+..|...|...+.+.|.+..|.+.|.....+..|++.|+
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 442 (467)
T COG5048 367 LNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442 (467)
T ss_pred cCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccc
Confidence 00011 124566666667777777777666555555788888888888888877664
No 40
>PRK04860 hypothetical protein; Provisional
Probab=94.07 E-value=0.019 Score=49.48 Aligned_cols=40 Identities=25% Similarity=0.474 Sum_probs=33.8
Q ss_pred cccCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChH
Q psy16225 233 FWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSE 278 (290)
Q Consensus 233 ~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s 278 (290)
..|.|. |++ ....+.+|.++|+++++|.| ..|++.|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC--~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRC--RRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEEC--CCCCceeEEec
Confidence 458997 987 66778999999999999999 88999987543
No 41
>KOG2231|consensus
Probab=93.19 E-value=0.11 Score=53.92 Aligned_cols=107 Identities=17% Similarity=0.172 Sum_probs=52.4
Q ss_pred ccccccCcccc---------------ccCchhhHHHHhcCCCCCCcCCccC---------cccCChHHHHHhhhhcccCC
Q psy16225 169 QSAGTHGAFFR---------------YMRQPIKQDMTCLWIDTPGPRKTCG---------KMFNNMHEIVTHLTVEHVGG 224 (290)
Q Consensus 169 ~~C~~Cg~~F~---------------~~~~l~~H~~~~h~~e~~~~C~~Cg---------KsF~~~~~L~~H~~~~H~g~ 224 (290)
+.|..|+..|. ....|.+|+...| +.+.|.+|- ...-+..+|..|+..--.+.
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H---~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~ 176 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQH---KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDD 176 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhh---hhhccccccccceeeeeeeehehHHHHHHHHhcCCCcc
Confidence 56777777763 5566777775444 233333332 11123445666654422111
Q ss_pred CcccccCccccCCCCCCCCCCcchhhhchhhhcCCCCcccCCC----CCCCCccCChHHHHHHhhh
Q psy16225 225 PECTTHACFWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPF----PTCGKVFARSENLKIHKRT 286 (290)
Q Consensus 225 ~~~~~~~C~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~----~~CgKsFs~~s~L~~H~rt 286 (290)
..+. ....|..|...|.....|.+|++.+. |.|.| +.++..|..-..|..|-|.
T Consensus 177 ~s~r----Ghp~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~ 234 (669)
T KOG2231|consen 177 ESCR----GHPLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRK 234 (669)
T ss_pred cccc----CCccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhh
Confidence 1111 12356667777777767766666432 33322 1123445555566666543
No 42
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=93.13 E-value=0.036 Score=52.43 Aligned_cols=69 Identities=7% Similarity=-0.028 Sum_probs=43.4
Q ss_pred CCcccc--cccCccccccCchhhHHHHhcCCCCCCcCC--ccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCC
Q psy16225 166 NAMQSA--GTHGAFFRYMRQPIKQDMTCLWIDTPGPRK--TCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNG 241 (290)
Q Consensus 166 ~~~~~C--~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~--~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~Cg 241 (290)
...|.| ..|.|.|+....|+.|++--|...+..+-. +--..| ....++ |.|+.|+
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F-------------~~~~KP--------YrCevC~ 405 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIF-------------SAKDKP--------YRCEVCD 405 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccc-------------cccCCc--------eeccccc
Confidence 368999 579999999999999988655322221111 000111 122233 7788888
Q ss_pred CCCCcchhhhchhh
Q psy16225 242 RPFKAKYKLVNHIR 255 (290)
Q Consensus 242 ksF~sks~L~~H~r 255 (290)
|.+++...|+-|+.
T Consensus 406 KRYKNlNGLKYHr~ 419 (423)
T COG5189 406 KRYKNLNGLKYHRK 419 (423)
T ss_pred hhhccCccceeccc
Confidence 88888877877754
No 43
>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=92.59 E-value=0.072 Score=31.84 Aligned_cols=22 Identities=18% Similarity=0.363 Sum_probs=13.3
Q ss_pred CcCCccCcccCChHHHHHhhhh
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTV 219 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~ 219 (290)
|.|..|++.|.+...+..|++.
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 4566666666666666666543
No 44
>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=92.58 E-value=0.11 Score=36.37 Aligned_cols=30 Identities=37% Similarity=0.702 Sum_probs=19.1
Q ss_pred CCCCcccCCCCCCCCccCChHHHHHHhhhcCC
Q psy16225 258 TGEKPFPCPFPTCGKVFARSENLKIHKRTHTE 289 (290)
Q Consensus 258 tgeKpf~C~~~~CgKsFs~~s~L~~H~rtHTG 289 (290)
..++|-.| ++|+..+.+..+|++|+..+.+
T Consensus 20 ~S~~PatC--P~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 20 QSEQPATC--PICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp TTS--EE---TTT--EESSHHHHHHHHHHHTT
T ss_pred ccCCCCCC--CcchhhccchhhHHHHHHHHhc
Confidence 34677888 7888888888888888876543
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=92.55 E-value=0.061 Score=31.25 Aligned_cols=22 Identities=23% Similarity=0.318 Sum_probs=15.7
Q ss_pred CcCCccCcccCChHHHHHhhhh
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTV 219 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~ 219 (290)
|.|++|++.|.+...|..|++.
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 4577777777777777777654
No 46
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=92.09 E-value=0.082 Score=30.69 Aligned_cols=23 Identities=35% Similarity=0.777 Sum_probs=17.7
Q ss_pred ccCCCCCCCCccCChHHHHHHhhhc
Q psy16225 263 FPCPFPTCGKVFARSENLKIHKRTH 287 (290)
Q Consensus 263 f~C~~~~CgKsFs~~s~L~~H~rtH 287 (290)
|.| ..|++.|.....|+.|++.+
T Consensus 1 ~~C--~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYC--DICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEE--TTTTEEESSHHHHHHHHTTH
T ss_pred CCC--CCCCCCcCCHHHHHHHHCcC
Confidence 567 67888888888888887654
No 47
>KOG1146|consensus
Probab=91.84 E-value=0.084 Score=57.95 Aligned_cols=103 Identities=16% Similarity=0.193 Sum_probs=66.9
Q ss_pred cccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchh
Q psy16225 170 SAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYK 249 (290)
Q Consensus 170 ~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~ 249 (290)
.|..|+..+...+.+.-|...-+.-.+.+.|..|++.|.....|..|+|..|.+..- ..|.| +.....
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~---~~c~~---------gq~~~~ 505 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS---AYCKA---------GQNHPR 505 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch---hHhHh---------cccccc
Confidence 355666666666666666555455568899999999999999999999986644321 12221 111111
Q ss_pred hhchhhhcCCCCcccCCCCCCCCccCChHHHHHHhhh
Q psy16225 250 LVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIHKRT 286 (290)
Q Consensus 250 L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H~rt 286 (290)
+.+-.-.-.+.++|.| ..|...+..+.+|.+|++.
T Consensus 506 ~arg~~~~~~~~p~~C--~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 506 LARGEVYRCPGKPYPC--RACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccccccccCCCCcccc--eeeeeeeecchHHHHHHHH
Confidence 1110111234578999 7799999999999999863
No 48
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=91.30 E-value=0.077 Score=49.84 Aligned_cols=73 Identities=26% Similarity=0.402 Sum_probs=47.7
Q ss_pred CCcCCccCcccCChHHHHHhhhh-cccCC--CcccccCccccCCC--CCCCCCCcchhhhchhhhcCCCCcccCCCCCCC
Q psy16225 197 PGPRKTCGKMFNNMHEIVTHLTV-EHVGG--PECTTHACFWDGCP--RNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCG 271 (290)
Q Consensus 197 ~~~C~~CgKsF~~~~~L~~H~~~-~H~g~--~~~~~~~C~~~~C~--~CgksF~sks~L~~H~rvHtgeKpf~C~~~~Cg 271 (290)
++.|..|...|.....|.+|.+. .|.++ .+ +.|+ .|++.|.....+..|...|.+.+++.|....|.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~--------~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP--------FSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSS 360 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCc--------eeeeccCCCccccccccccCCcccccCCCccccccccCc
Confidence 56777777777777777777772 25554 33 4555 677777777777777777777776666555555
Q ss_pred CccCCh
Q psy16225 272 KVFARS 277 (290)
Q Consensus 272 KsFs~~ 277 (290)
+.+...
T Consensus 361 ~~~~~~ 366 (467)
T COG5048 361 SKFSPL 366 (467)
T ss_pred cccccc
Confidence 554433
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=91.26 E-value=0.12 Score=29.89 Aligned_cols=23 Identities=17% Similarity=0.206 Sum_probs=13.2
Q ss_pred CcCCccCcccCChHHHHHhhhhcc
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTVEH 221 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~~H 221 (290)
|.|+.|+.... ...|.+|++.+|
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 45666776665 666777766644
No 50
>KOG2893|consensus
Probab=90.42 E-value=0.058 Score=49.26 Aligned_cols=41 Identities=32% Similarity=0.570 Sum_probs=25.3
Q ss_pred CCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCChHHHHHH
Q psy16225 237 CPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARSENLKIH 283 (290)
Q Consensus 237 C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~s~L~~H 283 (290)
|.+|++-|.....|++|++ .|.|+| .+|.|...+--.|.+|
T Consensus 13 cwycnrefddekiliqhqk----akhfkc--hichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQK----AKHFKC--HICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhh----hcccee--eeehhhhccCCCceee
Confidence 6666777777766666665 345677 5576665555555554
No 51
>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=89.70 E-value=0.13 Score=30.75 Aligned_cols=21 Identities=38% Similarity=0.814 Sum_probs=11.7
Q ss_pred ccCCCCCCCCccCChHHHHHHhh
Q psy16225 263 FPCPFPTCGKVFARSENLKIHKR 285 (290)
Q Consensus 263 f~C~~~~CgKsFs~~s~L~~H~r 285 (290)
|.| ..|++.|.+...|..|++
T Consensus 2 ~~C--~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYC--DACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBB--TTTTBBBSSHHHHHCCTT
T ss_pred CCc--ccCCCCcCCHHHHHHHHc
Confidence 445 455666655555555554
No 52
>KOG2893|consensus
Probab=89.09 E-value=0.16 Score=46.36 Aligned_cols=39 Identities=10% Similarity=-0.036 Sum_probs=18.5
Q ss_pred ccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHH
Q psy16225 171 AGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIV 214 (290)
Q Consensus 171 C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~ 214 (290)
|=.|++.|.+.+.|++|.+. +-|+|.+|.|..-+-..|.
T Consensus 13 cwycnrefddekiliqhqka-----khfkchichkkl~sgpgls 51 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA-----KHFKCHICHKKLFSGPGLS 51 (341)
T ss_pred eeecccccchhhhhhhhhhh-----ccceeeeehhhhccCCCce
Confidence 44555555555555555443 3355555554433333333
No 53
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=88.48 E-value=0.31 Score=28.04 Aligned_cols=22 Identities=36% Similarity=0.792 Sum_probs=13.5
Q ss_pred ccCCCCCCCCccCChHHHHHHhhhc
Q psy16225 263 FPCPFPTCGKVFARSENLKIHKRTH 287 (290)
Q Consensus 263 f~C~~~~CgKsFs~~s~L~~H~rtH 287 (290)
|+| +.|..... ...|.+|++.|
T Consensus 1 y~C--~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKC--PHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE---SSSS-EES-HHHHHHHHHHH
T ss_pred CCC--CCCCCcCC-HHHHHHHHHhh
Confidence 566 56776666 66777777664
No 54
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=86.27 E-value=0.57 Score=29.18 Aligned_cols=23 Identities=22% Similarity=0.200 Sum_probs=16.9
Q ss_pred CCcCCccCcccCChHHHHHhhhh
Q psy16225 197 PGPRKTCGKMFNNMHEIVTHLTV 219 (290)
Q Consensus 197 ~~~C~~CgKsF~~~~~L~~H~~~ 219 (290)
+|.|++|++.|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46678888888877777777654
No 55
>PRK04860 hypothetical protein; Provisional
Probab=86.14 E-value=0.37 Score=41.53 Aligned_cols=36 Identities=6% Similarity=-0.010 Sum_probs=17.6
Q ss_pred cccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccC
Q psy16225 168 MQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFN 208 (290)
Q Consensus 168 ~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~ 208 (290)
.|.|. |+. ....+.+|.++ +.++++|.|..|++.|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri-~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRV-VRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHH-hcCCccEECCCCCceeE
Confidence 45555 554 23334444444 44455555555555543
No 56
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=84.77 E-value=0.93 Score=26.81 Aligned_cols=19 Identities=32% Similarity=0.651 Sum_probs=9.1
Q ss_pred cCCccCcccCChHHHHHhhh
Q psy16225 199 PRKTCGKMFNNMHEIVTHLT 218 (290)
Q Consensus 199 ~C~~CgKsF~~~~~L~~H~~ 218 (290)
+|..|++.| ....|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455555555 3344444543
No 57
>KOG2231|consensus
Probab=81.74 E-value=1.4 Score=45.86 Aligned_cols=93 Identities=23% Similarity=0.211 Sum_probs=53.4
Q ss_pred CchhhHHHHhcCCC----CCCcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhhchhhhc
Q psy16225 182 RQPIKQDMTCLWID----TPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLVNHIRVH 257 (290)
Q Consensus 182 ~~l~~H~~~~h~~e----~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~~H~rvH 257 (290)
.+|..|++.--..+ .-..|+.|.+.|....+|.+|++.+|.. |+.|.. -..++.-|..-..|..|-|.+
T Consensus 163 ~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~-----chfC~~--~~~~neyy~~~~dLe~HfR~~ 235 (669)
T KOG2231|consen 163 AELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDHEF-----CHFCDY--KTGQNEYYNDYDDLEEHFRKG 235 (669)
T ss_pred HHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccceeh-----eeecCc--ccccchhcccchHHHHHhhhc
Confidence 34566655422222 2257999999999999999999986622 111210 122345566667788887744
Q ss_pred CCCCcccCCCCCCC-CccCChHHHHHHhh
Q psy16225 258 TGEKPFPCPFPTCG-KVFARSENLKIHKR 285 (290)
Q Consensus 258 tgeKpf~C~~~~Cg-KsFs~~s~L~~H~r 285 (290)
-|.|....|- +.|...-.+.++++
T Consensus 236 ----HflCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 236 ----HFLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred ----CccccccccccceeeehhHHHHHHH
Confidence 3677533453 34444434444444
No 58
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=80.01 E-value=1.7 Score=25.72 Aligned_cols=17 Identities=35% Similarity=0.976 Sum_probs=9.8
Q ss_pred CCCCCccCChHHHHHHhh
Q psy16225 268 PTCGKVFARSENLKIHKR 285 (290)
Q Consensus 268 ~~CgKsFs~~s~L~~H~r 285 (290)
+.||+.| ....|.+|++
T Consensus 6 ~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 6 PICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CCCCCEE-CHHHHHHHHH
Confidence 5566666 4445666654
No 59
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=77.11 E-value=2 Score=26.56 Aligned_cols=22 Identities=23% Similarity=0.555 Sum_probs=16.8
Q ss_pred cccCCCCCCCCccCChHHHHHHhh
Q psy16225 262 PFPCPFPTCGKVFARSENLKIHKR 285 (290)
Q Consensus 262 pf~C~~~~CgKsFs~~s~L~~H~r 285 (290)
+|.| +.|++.|.....+..|++
T Consensus 3 ~~~C--~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYC--KLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEc--cccCCccCCHHHHHHHHC
Confidence 4668 678888888888888864
No 60
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=75.71 E-value=0.94 Score=40.69 Aligned_cols=52 Identities=17% Similarity=0.137 Sum_probs=26.6
Q ss_pred CCCcCCccCcccCChHHHHHhhhhcccCCCccccc------CccccCCCCCCCCCCcc
Q psy16225 196 TPGPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTH------ACFWDGCPRNGRPFKAK 247 (290)
Q Consensus 196 ~~~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~------~C~~~~C~~CgksF~sk 247 (290)
+...|++|++.|.++.-+....++.......+..+ .=....|+.||.++...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 55677777777776655544444322221110000 00124688888877655
No 61
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=74.24 E-value=10 Score=30.81 Aligned_cols=87 Identities=15% Similarity=0.156 Sum_probs=48.3
Q ss_pred CCCcCCccCcccCChHHHHHhhhhcccCC-Cccccc----CccccCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCC
Q psy16225 196 TPGPRKTCGKMFNNMHEIVTHLTVEHVGG-PECTTH----ACFWDGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTC 270 (290)
Q Consensus 196 ~~~~C~~CgKsF~~~~~L~~H~~~~H~g~-~~~~~~----~C~~~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~C 270 (290)
-|.+|+.|+-+......|.+-- ||.-- +++... .-....|--|.+.|........- .-.....|+| +.|
T Consensus 14 LP~~CpiCgLtLVss~HLARSy--HHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~--~~~~~~~y~C--~~C 87 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSY--HHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD--ELKDSHRYVC--AVC 87 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhh--hccCCCcccccccccccCCCCcccCcCCCCCCccccccc--ccccccceeC--CCC
Confidence 4667888888777777666531 22110 000000 00002377778888654321100 0122346889 889
Q ss_pred CCccCChHHHHHHhhhcC
Q psy16225 271 GKVFARSENLKIHKRTHT 288 (290)
Q Consensus 271 gKsFs~~s~L~~H~rtHT 288 (290)
.+.|-..-++.+|...|.
T Consensus 88 ~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 88 KNVFCVDCDVFVHESLHC 105 (112)
T ss_pred CCccccccchhhhhhccC
Confidence 999998888888877663
No 62
>KOG1146|consensus
Probab=73.06 E-value=1.4 Score=48.91 Aligned_cols=49 Identities=8% Similarity=0.050 Sum_probs=31.8
Q ss_pred CCCcccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhh
Q psy16225 165 TNAMQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLT 218 (290)
Q Consensus 165 ~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~ 218 (290)
.+..+.|..|.+.|+-.-.+. +.- ....|.|..|...|.....|..|.+
T Consensus 1257 ~sGe~~c~~~~~~~~~~~~~~-~l~----~~~~~~~~~~~~~~~~~~~l~~~~~ 1305 (1406)
T KOG1146|consen 1257 ASGEGECGAVDELLTPSFGIS-TLD----VTHRYLCRQCKMAFDGEAPLTAHQR 1305 (1406)
T ss_pred CCCcchhhhccccccCcccee-ecc----cchhHHHHHHHhhhcchhHHHHHHH
Confidence 345677888877776544333 322 2356778888888888888877764
No 63
>KOG4173|consensus
Probab=72.96 E-value=0.79 Score=41.09 Aligned_cols=51 Identities=14% Similarity=0.074 Sum_probs=37.0
Q ss_pred Cccccc--ccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhhhcc
Q psy16225 167 AMQSAG--THGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLTVEH 221 (290)
Q Consensus 167 ~~~~C~--~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~~H 221 (290)
..+.|. .|-..|........|..+-|. ..|..|.+.|.+...|..|+..-|
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~HI~E~H 130 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDAHILEWH 130 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhHHHHHHH
Confidence 356674 566777777766666655443 489999999999999999986544
No 64
>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=71.28 E-value=4 Score=32.91 Aligned_cols=34 Identities=24% Similarity=0.323 Sum_probs=23.1
Q ss_pred CCCcccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCCh
Q psy16225 165 TNAMQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNM 210 (290)
Q Consensus 165 ~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~ 210 (290)
.+....|..||+.|-.+. + .|..|+.||..|.-.
T Consensus 6 lGtKR~Cp~CG~kFYDLn---k---------~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 6 LGTKRTCPSCGAKFYDLN---K---------DPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCcccCCCCcchhccCC---C---------CCccCCCCCCccCcc
Confidence 344567888888884433 1 456788888888765
No 65
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=68.82 E-value=3.2 Score=40.07 Aligned_cols=70 Identities=27% Similarity=0.421 Sum_probs=42.1
Q ss_pred CcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCC-------CCCcchhhhchhhhcCCCCcccCCCCCC
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGR-------PFKAKYKLVNHIRVHTGEKPFPCPFPTC 270 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~Cgk-------sF~sks~L~~H~rvHtgeKpf~C~~~~C 270 (290)
..|..|.+.|-+-.+|.+|++..| ..|.+|.+ -|++-..|..|.+ .-.|.|.+..|
T Consensus 221 P~C~FC~~~FYdDDEL~~HcR~~H-------------E~ChICD~v~p~~~QYFK~Y~~Le~HF~----~~hy~ct~qtc 283 (493)
T COG5236 221 PLCIFCKIYFYDDDELRRHCRLRH-------------EACHICDMVGPIRYQYFKSYEDLEAHFR----NAHYCCTFQTC 283 (493)
T ss_pred chhhhccceecChHHHHHHHHhhh-------------hhhhhhhccCccchhhhhCHHHHHHHhh----cCceEEEEEEE
Confidence 357778888888888888887654 22333332 2555555666654 22366655445
Q ss_pred C----CccCChHHHHHHh
Q psy16225 271 G----KVFARSENLKIHK 284 (290)
Q Consensus 271 g----KsFs~~s~L~~H~ 284 (290)
- .+|.....|..|+
T Consensus 284 ~~~k~~vf~~~~el~~h~ 301 (493)
T COG5236 284 RVGKCYVFPYHTELLEHL 301 (493)
T ss_pred ecCcEEEeccHHHHHHHH
Confidence 2 3577777777775
No 66
>KOG2186|consensus
Probab=68.58 E-value=2.7 Score=38.84 Aligned_cols=48 Identities=17% Similarity=0.162 Sum_probs=38.6
Q ss_pred cccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHhhhh
Q psy16225 168 MQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTHLTV 219 (290)
Q Consensus 168 ~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H~~~ 219 (290)
.+.|..||....-.. +.+|+.+|+. .-|.|-.|++.|-+ ...+.|..-
T Consensus 3 ~FtCnvCgEsvKKp~-vekH~srCrn--~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQ-VEKHMSRCRN--AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred EEehhhhhhhccccc-hHHHHHhccC--CeeEEeeccccccc-chhhhhhhh
Confidence 478999998875554 7789999986 78899999999988 667777653
No 67
>KOG4377|consensus
Probab=56.08 E-value=9 Score=37.78 Aligned_cols=119 Identities=18% Similarity=0.153 Sum_probs=66.6
Q ss_pred CCCcccc--cccCccccccCchhhHHHHhcCCC-----------CCCcCC--ccCcccCChHHHHHhhhhcccCCCcccc
Q psy16225 165 TNAMQSA--GTHGAFFRYMRQPIKQDMTCLWID-----------TPGPRK--TCGKMFNNMHEIVTHLTVEHVGGPECTT 229 (290)
Q Consensus 165 ~~~~~~C--~~Cg~~F~~~~~l~~H~~~~h~~e-----------~~~~C~--~CgKsF~~~~~L~~H~~~~H~g~~~~~~ 229 (290)
....|.| +.|+..+-.+.+.++|...+...+ ..|-|- .|.| +.+++..|-.. |.+.. +..
T Consensus 268 ~rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nF-ht~~~-n~G 342 (480)
T KOG4377|consen 268 GREHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNF-HTDKR-NNG 342 (480)
T ss_pred cchhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCcc-ccccc-cCc
Confidence 4456777 678877766777788876644332 123443 5777 34455556555 33322 111
Q ss_pred cCccccCCCCCC--CCCCcchhhhchhhhcCCCC------------------------cccCCCCCCCCccCChHHHHHH
Q psy16225 230 HACFWDGCPRNG--RPFKAKYKLVNHIRVHTGEK------------------------PFPCPFPTCGKVFARSENLKIH 283 (290)
Q Consensus 230 ~~C~~~~C~~Cg--ksF~sks~L~~H~rvHtgeK------------------------pf~C~~~~CgKsFs~~s~L~~H 283 (290)
..-..|.|..|+ ..|+-...-..|.+-+.+++ -|.|.+..|+.++...+.+..|
T Consensus 343 frrthfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~sh 422 (480)
T KOG4377|consen 343 FRRTHFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASH 422 (480)
T ss_pred eecceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhh
Confidence 111347787777 44542222222333222221 1445557888889999999999
Q ss_pred hhhcC
Q psy16225 284 KRTHT 288 (290)
Q Consensus 284 ~rtHT 288 (290)
+|.|-
T Consensus 423 krkhe 427 (480)
T KOG4377|consen 423 KRKHE 427 (480)
T ss_pred hhhhh
Confidence 88774
No 68
>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=56.04 E-value=7 Score=24.46 Aligned_cols=10 Identities=30% Similarity=0.551 Sum_probs=5.8
Q ss_pred cCCCCCCCCC
Q psy16225 235 DGCPRNGRPF 244 (290)
Q Consensus 235 ~~C~~CgksF 244 (290)
+.|..||..+
T Consensus 2 ~~C~~CGy~y 11 (33)
T cd00350 2 YVCPVCGYIY 11 (33)
T ss_pred EECCCCCCEE
Confidence 4566666554
No 69
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=54.72 E-value=11 Score=31.38 Aligned_cols=38 Identities=13% Similarity=0.213 Sum_probs=25.4
Q ss_pred CCCcccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHH
Q psy16225 165 TNAMQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIV 214 (290)
Q Consensus 165 ~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~ 214 (290)
......|..||+.|-.+. + .|..|..||..|.....++
T Consensus 6 lGtKr~Cp~cg~kFYDLn---k---------~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 6 LGTKRICPNTGSKFYDLN---R---------RPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred hCccccCCCcCccccccC---C---------CCccCCCcCCccCcchhhc
Confidence 344667999998884433 1 5677888998886654443
No 70
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=51.71 E-value=6.8 Score=36.48 Aligned_cols=40 Identities=8% Similarity=0.212 Sum_probs=26.2
Q ss_pred CCCcccccccCccccccCchhhHHHHhcCCC-CCCcCCccCc
Q psy16225 165 TNAMQSAGTHGAFFRYMRQPIKQDMTCLWID-TPGPRKTCGK 205 (290)
Q Consensus 165 ~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e-~~~~C~~CgK 205 (290)
...+|.|..|..+.-.. ....|...|-..+ ..|+|..|++
T Consensus 139 GGrif~CsfC~~flCED-DQFEHQAsCQvLe~E~~KC~SCNr 179 (314)
T PF06524_consen 139 GGRIFKCSFCDNFLCED-DQFEHQASCQVLESETFKCQSCNR 179 (314)
T ss_pred CCeEEEeecCCCeeecc-chhhhhhhhhhhhccccccccccc
Confidence 44578888887755433 3456776666655 6777777775
No 71
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=50.13 E-value=7.2 Score=37.74 Aligned_cols=94 Identities=20% Similarity=0.107 Sum_probs=55.0
Q ss_pred cCchhhHHHHhcCCCCCCcCCccC---cccCC------hHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhh
Q psy16225 181 MRQPIKQDMTCLWIDTPGPRKTCG---KMFNN------MHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLV 251 (290)
Q Consensus 181 ~~~l~~H~~~~h~~e~~~~C~~Cg---KsF~~------~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~ 251 (290)
...|..|.+..| ..+.|.+|- +.|.. +..|..|...-..+ .+.-..-.|..|..-|-....|.
T Consensus 166 ~k~lk~H~K~~H---~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e-----~GFKGHP~C~FC~~~FYdDDEL~ 237 (493)
T COG5236 166 LKELKKHYKAQH---GFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEE-----EGFKGHPLCIFCKIYFYDDDELR 237 (493)
T ss_pred HHHHHHHHHhhc---CcEEhHhhhcCcccCccceeeeecccccccccCCccc-----cCcCCCchhhhccceecChHHHH
Confidence 446777776655 345566664 34433 34455555431111 11112347999999999999999
Q ss_pred chhhhcCCCCcccCCCCCCC----CccCChHHHHHHhh
Q psy16225 252 NHIRVHTGEKPFPCPFPTCG----KVFARSENLKIHKR 285 (290)
Q Consensus 252 ~H~rvHtgeKpf~C~~~~Cg----KsFs~~s~L~~H~r 285 (290)
+|+|.-. |+-|.| +.-+ ..|..-.+|..|-+
T Consensus 238 ~HcR~~H-E~ChIC--D~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 238 RHCRLRH-EACHIC--DMVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred HHHHhhh-hhhhhh--hccCccchhhhhCHHHHHHHhh
Confidence 9998322 444444 3222 23777788888865
No 72
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=48.81 E-value=8.4 Score=33.00 Aligned_cols=13 Identities=23% Similarity=0.475 Sum_probs=6.9
Q ss_pred cCCCCCCCCCCcc
Q psy16225 235 DGCPRNGRPFKAK 247 (290)
Q Consensus 235 ~~C~~CgksF~sk 247 (290)
++|+.||++|..-
T Consensus 29 ~~c~~c~~~f~~~ 41 (154)
T PRK00464 29 RECLACGKRFTTF 41 (154)
T ss_pred eeccccCCcceEe
Confidence 4555555555443
No 73
>PRK04023 DNA polymerase II large subunit; Validated
Probab=48.56 E-value=25 Score=38.57 Aligned_cols=11 Identities=9% Similarity=0.057 Sum_probs=8.4
Q ss_pred CcccccccCcc
Q psy16225 167 AMQSAGTHGAF 177 (290)
Q Consensus 167 ~~~~C~~Cg~~ 177 (290)
....|..||..
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 35579999986
No 74
>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=47.30 E-value=14 Score=29.76 Aligned_cols=30 Identities=37% Similarity=0.867 Sum_probs=18.8
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCCh
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARS 277 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~ 277 (290)
..|+.||+.|.- |+ ..|-.| +.||..|.-.
T Consensus 10 R~Cp~CG~kFYD---Ln--------k~PivC--P~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYD---LN--------KDPIVC--PKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhcc---CC--------CCCccC--CCCCCccCcc
Confidence 367777777732 22 246677 6688777654
No 75
>KOG2186|consensus
Probab=46.39 E-value=7.1 Score=36.13 Aligned_cols=46 Identities=17% Similarity=0.313 Sum_probs=26.1
Q ss_pred CcCCccCcccCChHHHHHhhhhcccCCCcccccCccccCCCCCCCCCCcchhhhchhh
Q psy16225 198 GPRKTCGKMFNNMHEIVTHLTVEHVGGPECTTHACFWDGCPRNGRPFKAKYKLVNHIR 255 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L~~H~~~~H~g~~~~~~~~C~~~~C~~CgksF~sks~L~~H~r 255 (290)
|.|..||.... +..+.+|+.+.+. .. |.|-.|++.|.. ..+..|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn--~~--------fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN--AY--------FSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC--Ce--------eEEeeccccccc-chhhhhhh
Confidence 56777776544 3445566665322 11 567777777766 44555654
No 76
>PHA00626 hypothetical protein
Probab=45.77 E-value=13 Score=26.51 Aligned_cols=15 Identities=20% Similarity=0.558 Sum_probs=9.8
Q ss_pred CcccCCCCCCCCccCCh
Q psy16225 261 KPFPCPFPTCGKVFARS 277 (290)
Q Consensus 261 Kpf~C~~~~CgKsFs~~ 277 (290)
..|+| +.||..|+..
T Consensus 22 nrYkC--kdCGY~ft~~ 36 (59)
T PHA00626 22 DDYVC--CDCGYNDSKD 36 (59)
T ss_pred cceEc--CCCCCeechh
Confidence 45777 7777777643
No 77
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=45.38 E-value=9.8 Score=34.14 Aligned_cols=41 Identities=37% Similarity=0.707 Sum_probs=29.2
Q ss_pred cCCCCCCCCCCcchhhhchhhh---cC-------CCCc-----ccCCCCCCCCccCCh
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRV---HT-------GEKP-----FPCPFPTCGKVFARS 277 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rv---Ht-------geKp-----f~C~~~~CgKsFs~~ 277 (290)
..|++|++.|..+.-.....|+ .. +..| ..| +.||.+|...
T Consensus 6 ~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vC--P~CgyA~~~~ 61 (214)
T PF09986_consen 6 ITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVC--PHCGYAAFEE 61 (214)
T ss_pred eECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEEC--CCCCCccccc
Confidence 6899999999998777666653 11 1223 469 8899987754
No 78
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=44.01 E-value=13 Score=27.82 Aligned_cols=16 Identities=13% Similarity=0.245 Sum_probs=8.9
Q ss_pred cCCC--CCCCCCCcchhh
Q psy16225 235 DGCP--RNGRPFKAKYKL 250 (290)
Q Consensus 235 ~~C~--~CgksF~sks~L 250 (290)
++|. +||..|.....+
T Consensus 28 ~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 28 HQCQNVNCSATFITYESV 45 (72)
T ss_pred eecCCCCCCCEEEEEEEE
Confidence 4555 666666554443
No 79
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=42.56 E-value=10 Score=33.07 Aligned_cols=17 Identities=12% Similarity=0.028 Sum_probs=8.8
Q ss_pred CCcccccccCccccccC
Q psy16225 166 NAMQSAGTHGAFFRYMR 182 (290)
Q Consensus 166 ~~~~~C~~Cg~~F~~~~ 182 (290)
+..|.|+.|+..|....
T Consensus 115 ~~~Y~Cp~C~~rytf~e 131 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDE 131 (178)
T ss_pred CCEEECCCCCcEEeHHH
Confidence 34555655655554443
No 80
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=42.43 E-value=11 Score=26.99 Aligned_cols=20 Identities=30% Similarity=0.713 Sum_probs=9.9
Q ss_pred cCCCCCCCCCCcchhhhchh
Q psy16225 235 DGCPRNGRPFKAKYKLVNHI 254 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~ 254 (290)
+.|+.|+..|.....+.+|.
T Consensus 18 lrCPRC~~~FR~~K~Y~RHV 37 (65)
T COG4049 18 LRCPRCGMVFRRRKDYIRHV 37 (65)
T ss_pred eeCCchhHHHHHhHHHHHHh
Confidence 34555555555544444444
No 81
>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=42.39 E-value=11 Score=32.26 Aligned_cols=16 Identities=6% Similarity=-0.232 Sum_probs=7.7
Q ss_pred CcCCccCcccCChHHH
Q psy16225 198 GPRKTCGKMFNNMHEI 213 (290)
Q Consensus 198 ~~C~~CgKsF~~~~~L 213 (290)
|.|+.|+..|+....+
T Consensus 110 Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 110 FICPNMCVRFTFNEAM 125 (158)
T ss_pred EECCCCCcEeeHHHHH
Confidence 4455555555444443
No 82
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=41.08 E-value=16 Score=24.62 Aligned_cols=12 Identities=17% Similarity=0.116 Sum_probs=6.9
Q ss_pred cccccccCcccc
Q psy16225 168 MQSAGTHGAFFR 179 (290)
Q Consensus 168 ~~~C~~Cg~~F~ 179 (290)
.|.|..||..|.
T Consensus 2 ~Y~C~~Cg~~~~ 13 (44)
T smart00659 2 IYICGECGRENE 13 (44)
T ss_pred EEECCCCCCEee
Confidence 355666666553
No 83
>KOG2482|consensus
Probab=40.84 E-value=22 Score=34.44 Aligned_cols=52 Identities=19% Similarity=0.223 Sum_probs=36.8
Q ss_pred cCCCCCCCCCCcchhhhchhh-hcCC------------------------CCcccCCCCCCCCccCChHHHHHHhhh
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIR-VHTG------------------------EKPFPCPFPTCGKVFARSENLKIHKRT 286 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~r-vHtg------------------------eKpf~C~~~~CgKsFs~~s~L~~H~rt 286 (290)
..|-.|.....+...|..||+ +|.= ...++|.+-.|.-.|-....|..|+.-
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e 356 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVE 356 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccc
Confidence 467888888887888888887 4530 012333337899999999999999753
No 84
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=39.78 E-value=9.3 Score=32.13 Aligned_cols=15 Identities=7% Similarity=0.115 Sum_probs=8.4
Q ss_pred CCCcCCccCcccCCh
Q psy16225 196 TPGPRKTCGKMFNNM 210 (290)
Q Consensus 196 ~~~~C~~CgKsF~~~ 210 (290)
.-|.|+.|++.|...
T Consensus 98 ~~Y~Cp~C~~~y~~~ 112 (147)
T smart00531 98 AYYKCPNCQSKYTFL 112 (147)
T ss_pred cEEECcCCCCEeeHH
Confidence 345666666666543
No 85
>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=39.31 E-value=12 Score=33.78 Aligned_cols=28 Identities=21% Similarity=0.323 Sum_probs=21.8
Q ss_pred CCCcCCccCcccCChHHHHHhhhhcccC
Q psy16225 196 TPGPRKTCGKMFNNMHEIVTHLTVEHVG 223 (290)
Q Consensus 196 ~~~~C~~CgKsF~~~~~L~~H~~~~H~g 223 (290)
..|.|..|+|.|.-..-+.+|+...|.+
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 4689999999999999999999887765
No 86
>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=38.89 E-value=20 Score=22.76 Aligned_cols=34 Identities=21% Similarity=0.465 Sum_probs=18.0
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccC
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFA 275 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs 275 (290)
..|+.|+..|.-..... ........| +.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~v~C--~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGKVRC--GKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCEEEC--CCCCCEEE
Confidence 46777777665443321 111124667 66777663
No 87
>PF14353 CpXC: CpXC protein
Probab=38.83 E-value=15 Score=29.88 Aligned_cols=42 Identities=26% Similarity=0.570 Sum_probs=22.7
Q ss_pred cCCCCCCCCCCcchhhhchh--------hhcCCC-CcccCCCCCCCCccCChH
Q psy16225 235 DGCPRNGRPFKAKYKLVNHI--------RVHTGE-KPFPCPFPTCGKVFARSE 278 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~--------rvHtge-Kpf~C~~~~CgKsFs~~s 278 (290)
..|+.|+..|.......... ++-.|+ ..|.| +.||+.|.-..
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~C--P~Cg~~~~~~~ 52 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTC--PSCGHKFRLEY 52 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEEC--CCCCCceecCC
Confidence 36888887776553322111 112222 24788 78988876443
No 88
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=38.72 E-value=13 Score=26.68 Aligned_cols=27 Identities=19% Similarity=0.406 Sum_probs=14.7
Q ss_pred CCCCcCCccCcccCChHHHHHhhhhcc
Q psy16225 195 DTPGPRKTCGKMFNNMHEIVTHLTVEH 221 (290)
Q Consensus 195 e~~~~C~~CgKsF~~~~~L~~H~~~~H 221 (290)
|.-+.|+-|+..|.......+|+...|
T Consensus 15 E~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 15 EEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred ceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 344556666666655555555554433
No 89
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=37.83 E-value=26 Score=23.80 Aligned_cols=21 Identities=48% Similarity=0.797 Sum_probs=11.3
Q ss_pred CCCCCccCCh-----HHHHHHhh-hcC
Q psy16225 268 PTCGKVFARS-----ENLKIHKR-THT 288 (290)
Q Consensus 268 ~~CgKsFs~~-----s~L~~H~r-tHT 288 (290)
..|++.+... ++|.+|++ +|.
T Consensus 22 ~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 22 KYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred cCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 4455555433 46666666 454
No 90
>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=36.81 E-value=21 Score=23.57 Aligned_cols=12 Identities=17% Similarity=0.130 Sum_probs=5.9
Q ss_pred ccccccCccccc
Q psy16225 169 QSAGTHGAFFRY 180 (290)
Q Consensus 169 ~~C~~Cg~~F~~ 180 (290)
|.|..||..|.-
T Consensus 6 y~C~~Cg~~fe~ 17 (42)
T PF09723_consen 6 YRCEECGHEFEV 17 (42)
T ss_pred EEeCCCCCEEEE
Confidence 445555555533
No 91
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=36.14 E-value=20 Score=23.97 Aligned_cols=14 Identities=7% Similarity=-0.104 Sum_probs=8.1
Q ss_pred cccccccCcccccc
Q psy16225 168 MQSAGTHGAFFRYM 181 (290)
Q Consensus 168 ~~~C~~Cg~~F~~~ 181 (290)
.|.|..||..|...
T Consensus 3 ~y~C~~CG~~~~~~ 16 (46)
T PRK00398 3 EYKCARCGREVELD 16 (46)
T ss_pred EEECCCCCCEEEEC
Confidence 45666666665443
No 92
>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=35.53 E-value=18 Score=24.57 Aligned_cols=11 Identities=27% Similarity=0.604 Sum_probs=5.6
Q ss_pred cCCCCCCCCCC
Q psy16225 235 DGCPRNGRPFK 245 (290)
Q Consensus 235 ~~C~~CgksF~ 245 (290)
|.|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 45555555443
No 93
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=35.10 E-value=27 Score=22.35 Aligned_cols=34 Identities=29% Similarity=0.701 Sum_probs=20.6
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccC
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFA 275 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs 275 (290)
..|+.|+..|.-.... +-.+.+..+| +.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~-----l~~~~~~vrC--~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK-----LPAGGRKVRC--PKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHH-----cccCCcEEEC--CCCCcEee
Confidence 3678888777655432 1233445778 77887764
No 94
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=33.97 E-value=35 Score=21.45 Aligned_cols=26 Identities=23% Similarity=0.282 Sum_probs=14.2
Q ss_pred ccccccCccccccCchhhHHHHhcCCCCCCcCCccCcc
Q psy16225 169 QSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKM 206 (290)
Q Consensus 169 ~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKs 206 (290)
|.|..||+.+.-.. ..+..|..||..
T Consensus 1 Y~C~~Cg~~~~~~~------------~~~irC~~CG~R 26 (32)
T PF03604_consen 1 YICGECGAEVELKP------------GDPIRCPECGHR 26 (32)
T ss_dssp EBESSSSSSE-BST------------SSTSSBSSSS-S
T ss_pred CCCCcCCCeeEcCC------------CCcEECCcCCCe
Confidence 56777777764111 134567777753
No 95
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=33.37 E-value=38 Score=20.09 Aligned_cols=19 Identities=21% Similarity=0.228 Sum_probs=11.0
Q ss_pred cCCccCcccCChHHHHHhhh
Q psy16225 199 PRKTCGKMFNNMHEIVTHLT 218 (290)
Q Consensus 199 ~C~~CgKsF~~~~~L~~H~~ 218 (290)
.|++|++.+ ....+.+|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466666666 4455555553
No 96
>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=32.48 E-value=23 Score=22.52 Aligned_cols=11 Identities=27% Similarity=0.625 Sum_probs=6.9
Q ss_pred cCCCCCCCCCC
Q psy16225 235 DGCPRNGRPFK 245 (290)
Q Consensus 235 ~~C~~CgksF~ 245 (290)
|.|..||+.|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 56666666654
No 97
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=32.39 E-value=29 Score=30.12 Aligned_cols=22 Identities=45% Similarity=0.906 Sum_probs=16.5
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCC
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCG 271 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~Cg 271 (290)
|.|++||..+ .|+-|-+| |.||
T Consensus 135 ~vC~vCGy~~-------------~ge~P~~C--PiCg 156 (166)
T COG1592 135 WVCPVCGYTH-------------EGEAPEVC--PICG 156 (166)
T ss_pred EEcCCCCCcc-------------cCCCCCcC--CCCC
Confidence 7888887554 45678888 7788
No 98
>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=32.37 E-value=32 Score=22.44 Aligned_cols=23 Identities=48% Similarity=0.700 Sum_probs=12.6
Q ss_pred CCcccCCCCCCCCccCCh----HHHHHHh
Q psy16225 260 EKPFPCPFPTCGKVFARS----ENLKIHK 284 (290)
Q Consensus 260 eKpf~C~~~~CgKsFs~~----s~L~~H~ 284 (290)
+...+| ..|++.+... ++|.+|+
T Consensus 14 ~~~a~C--~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 14 KKKAKC--KYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp SS-EEE--TTTTEE-----SSTHHHHHHH
T ss_pred cCeEEe--CCCCeEEeeCCCcHHHHHHhh
Confidence 444667 5587777653 6788887
No 99
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=31.72 E-value=36 Score=28.33 Aligned_cols=29 Identities=31% Similarity=0.603 Sum_probs=16.5
Q ss_pred CCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccCCh
Q psy16225 236 GCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFARS 277 (290)
Q Consensus 236 ~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs~~ 277 (290)
.|+.||+.|.- |. ..|-.| +.||..|...
T Consensus 11 ~Cp~cg~kFYD---Ln--------k~p~vc--P~cg~~~~~~ 39 (129)
T TIGR02300 11 ICPNTGSKFYD---LN--------RRPAVS--PYTGEQFPPE 39 (129)
T ss_pred cCCCcCccccc---cC--------CCCccC--CCcCCccCcc
Confidence 56777766632 21 245667 5677766544
No 100
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=31.38 E-value=36 Score=21.73 Aligned_cols=33 Identities=21% Similarity=0.560 Sum_probs=17.6
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCcc
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVF 274 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsF 274 (290)
..|+.|+..|.-..... -...+..+| +.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~i-----p~~g~~v~C--~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKI-----PPKGRKVRC--SKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHC-----CCCCcEEEC--CCCCCEe
Confidence 35677766665444321 122234667 6677665
No 101
>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=31.08 E-value=24 Score=29.45 Aligned_cols=23 Identities=48% Similarity=0.742 Sum_probs=12.9
Q ss_pred cccCCCCCCCCccCChHHHHHHhhhcCC
Q psy16225 262 PFPCPFPTCGKVFARSENLKIHKRTHTE 289 (290)
Q Consensus 262 pf~C~~~~CgKsFs~~s~L~~H~rtHTG 289 (290)
...| -+|||.|.. |++|+++|.|
T Consensus 72 ~i~c--lecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 72 YIIC--LECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp -EE---TBT--EESB---HHHHHHHTT-
T ss_pred eeEE--ccCCcccch---HHHHHHHccC
Confidence 3567 678888874 5788888754
No 102
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.05 E-value=33 Score=36.51 Aligned_cols=45 Identities=24% Similarity=0.486 Sum_probs=25.6
Q ss_pred ccccCccc-cCCCCCCCCCCcc---hhhhchhhhcCCCCcccCCCCCCCCc
Q psy16225 227 CTTHACFW-DGCPRNGRPFKAK---YKLVNHIRVHTGEKPFPCPFPTCGKV 273 (290)
Q Consensus 227 ~~~~~C~~-~~C~~CgksF~sk---s~L~~H~rvHtgeKpf~C~~~~CgKs 273 (290)
..|..|.| .+|+.|+..+... ..|.-|..-+....|..| +.||..
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~C--p~Cgs~ 484 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSC--PECGSE 484 (730)
T ss_pred eecccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCC--CCCCCC
Confidence 34556643 5677776543221 234444444445678889 889865
No 103
>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=28.25 E-value=34 Score=21.58 Aligned_cols=10 Identities=30% Similarity=0.298 Sum_probs=6.0
Q ss_pred cCCCCCCCCC
Q psy16225 235 DGCPRNGRPF 244 (290)
Q Consensus 235 ~~C~~CgksF 244 (290)
|.|..||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 4666666544
No 104
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=28.15 E-value=31 Score=24.99 Aligned_cols=13 Identities=23% Similarity=0.352 Sum_probs=7.4
Q ss_pred CCCcCCccCcccC
Q psy16225 196 TPGPRKTCGKMFN 208 (290)
Q Consensus 196 ~~~~C~~CgKsF~ 208 (290)
..|.|..||+.-.
T Consensus 26 v~F~CPnCGe~~I 38 (61)
T COG2888 26 VKFPCPNCGEVEI 38 (61)
T ss_pred eEeeCCCCCceee
Confidence 3466666765443
No 105
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.79 E-value=54 Score=26.72 Aligned_cols=33 Identities=15% Similarity=0.182 Sum_probs=23.0
Q ss_pred CCCcccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCC
Q psy16225 165 TNAMQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNN 209 (290)
Q Consensus 165 ~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~ 209 (290)
....-.|+.||++|-... + .|..|+.||++|..
T Consensus 6 LGtKridPetg~KFYDLN---r---------dPiVsPytG~s~P~ 38 (129)
T COG4530 6 LGTKRIDPETGKKFYDLN---R---------DPIVSPYTGKSYPR 38 (129)
T ss_pred ccccccCccccchhhccC---C---------CccccCcccccchH
Confidence 344567899999884432 1 56778999999953
No 106
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=26.04 E-value=36 Score=28.67 Aligned_cols=22 Identities=41% Similarity=0.519 Sum_probs=16.0
Q ss_pred ccCCCCCCCCccCChHHHHHHhhhcCC
Q psy16225 263 FPCPFPTCGKVFARSENLKIHKRTHTE 289 (290)
Q Consensus 263 f~C~~~~CgKsFs~~s~L~~H~rtHTG 289 (290)
..| -+|||.|. +|++|+.+|-|
T Consensus 77 Iic--LEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 77 IIC--LEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEE--eccCcchH---HHHHHHhcccC
Confidence 357 67888886 57888887754
No 107
>KOG1280|consensus
Probab=23.62 E-value=69 Score=31.12 Aligned_cols=30 Identities=20% Similarity=0.158 Sum_probs=20.3
Q ss_pred CCCCcCCccCcccCChHHHHHhhhhcccCC
Q psy16225 195 DTPGPRKTCGKMFNNMHEIVTHLTVEHVGG 224 (290)
Q Consensus 195 e~~~~C~~CgKsF~~~~~L~~H~~~~H~g~ 224 (290)
+..|.|.+|++.=-+...|..|+...|..-
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda 106 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEA 106 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCccc
Confidence 356777777777666777777776656443
No 108
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=23.45 E-value=56 Score=27.50 Aligned_cols=13 Identities=31% Similarity=0.529 Sum_probs=7.9
Q ss_pred CCCCCCCCCCcch
Q psy16225 236 GCPRNGRPFKAKY 248 (290)
Q Consensus 236 ~C~~CgksF~sks 248 (290)
.|+.|.-+|++..
T Consensus 123 vCPvCkTSFKss~ 135 (140)
T PF05290_consen 123 VCPVCKTSFKSSS 135 (140)
T ss_pred CCCcccccccccc
Confidence 5666666665543
No 109
>PF05456 eIF_4EBP: Eukaryotic translation initiation factor 4E binding protein (EIF4EBP); InterPro: IPR008606 This family consists of several eukaryotic translation initiation factor 4E binding proteins (EIF4EBP1, -2 and -3). Translation initiation in eukaryotes is mediated by the cap structure (m7GpppN, where N is any nucleotide) present at the 5' end of all cellular mRNAs, except organellar. The cap is recognised by eukaryotic initiation factor 4F (eIF4F), which consists of three polypeptides, including eIF4E, the cap-binding protein subunit. The interaction of the cap with eIF4E facilitates the binding of the ribosome to the mRNA. eIF4E activity is regulated in part by translational repressors, 4E-BP1, 4E-BP2 and 4E-BP3 which bind to it and prevent its assembly into eIF4F [].; GO: 0008190 eukaryotic initiation factor 4E binding, 0045947 negative regulation of translational initiation; PDB: 2JGB_B 2V8Y_F 1WKW_B 3HXG_C 3U7X_D 3M94_C 3M93_C 2V8X_B 3HXI_C 2V8W_B ....
Probab=23.36 E-value=33 Score=28.08 Aligned_cols=12 Identities=33% Similarity=0.689 Sum_probs=8.3
Q ss_pred CchhhhhhcccC
Q psy16225 95 YSRDYLLRRDDY 106 (290)
Q Consensus 95 ~~~~~~~~~~~~ 106 (290)
|.|+||+..|..
T Consensus 50 YdR~FLL~~RnS 61 (116)
T PF05456_consen 50 YDRKFLLECRNS 61 (116)
T ss_dssp --HHHHHCTCG-
T ss_pred EeHHHHHHhcCC
Confidence 799999988875
No 110
>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=23.36 E-value=40 Score=28.79 Aligned_cols=30 Identities=27% Similarity=0.564 Sum_probs=23.6
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccC
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFA 275 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs 275 (290)
|.|+.|+..|.....+. .-|.| +.||....
T Consensus 110 Y~Cp~c~~r~tf~eA~~---------~~F~C--p~Cg~~L~ 139 (158)
T TIGR00373 110 FICPNMCVRFTFNEAME---------LNFTC--PRCGAMLD 139 (158)
T ss_pred EECCCCCcEeeHHHHHH---------cCCcC--CCCCCEee
Confidence 89999998887776664 25999 89997644
No 111
>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=23.22 E-value=55 Score=25.76 Aligned_cols=23 Identities=13% Similarity=-0.113 Sum_probs=12.0
Q ss_pred cccc----cccCccccccCchhhHHHH
Q psy16225 168 MQSA----GTHGAFFRYMRQPIKQDMT 190 (290)
Q Consensus 168 ~~~C----~~Cg~~F~~~~~l~~H~~~ 190 (290)
.|.| ..|+...++++.+.+|...
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~ 106 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRK 106 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHH
Confidence 4555 5555555555555555443
No 112
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=22.94 E-value=36 Score=23.60 Aligned_cols=11 Identities=9% Similarity=-0.055 Sum_probs=7.2
Q ss_pred cccccccCccc
Q psy16225 168 MQSAGTHGAFF 178 (290)
Q Consensus 168 ~~~C~~Cg~~F 178 (290)
.|.|..||+.|
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 46666676666
No 113
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=22.54 E-value=40 Score=29.40 Aligned_cols=30 Identities=27% Similarity=0.564 Sum_probs=20.2
Q ss_pred cCCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCCccC
Q psy16225 235 DGCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGKVFA 275 (290)
Q Consensus 235 ~~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgKsFs 275 (290)
|.|+.|+..|.....+. .-|.| +.||....
T Consensus 118 Y~Cp~C~~rytf~eA~~---------~~F~C--p~Cg~~L~ 147 (178)
T PRK06266 118 FFCPNCHIRFTFDEAME---------YGFRC--PQCGEMLE 147 (178)
T ss_pred EECCCCCcEEeHHHHhh---------cCCcC--CCCCCCCe
Confidence 77888887776655442 25888 77886544
No 114
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=21.80 E-value=61 Score=27.11 Aligned_cols=13 Identities=15% Similarity=0.176 Sum_probs=6.9
Q ss_pred ccccccCcccccc
Q psy16225 169 QSAGTHGAFFRYM 181 (290)
Q Consensus 169 ~~C~~Cg~~F~~~ 181 (290)
+.|..||+.|.+-
T Consensus 2 H~Ct~Cg~~f~dg 14 (131)
T PF09845_consen 2 HQCTKCGRVFEDG 14 (131)
T ss_pred cccCcCCCCcCCC
Confidence 3455666665443
No 115
>KOG2807|consensus
Probab=21.51 E-value=1.1e+02 Score=29.57 Aligned_cols=38 Identities=8% Similarity=-0.046 Sum_probs=28.1
Q ss_pred CCCCcccccccCccccccCchhhHHHHhcCCCCCCcCCccCcccCChHHHHHh
Q psy16225 164 STNAMQSAGTHGAFFRYMRQPIKQDMTCLWIDTPGPRKTCGKMFNNMHEIVTH 216 (290)
Q Consensus 164 s~~~~~~C~~Cg~~F~~~~~l~~H~~~~h~~e~~~~C~~CgKsF~~~~~L~~H 216 (290)
.....|.|+.|....- .-|.+|+.|+-+......|.+-
T Consensus 272 ~~~~Gy~CP~CkakvC---------------sLP~eCpiC~ltLVss~hLARS 309 (378)
T KOG2807|consen 272 LSGGGYFCPQCKAKVC---------------SLPIECPICSLTLVSSPHLARS 309 (378)
T ss_pred cccCceeCCcccCeee---------------cCCccCCccceeEecchHHHHH
Confidence 4566899999976431 2567899999988888777653
No 116
>KOG4167|consensus
Probab=20.39 E-value=20 Score=37.88 Aligned_cols=23 Identities=48% Similarity=1.029 Sum_probs=0.0
Q ss_pred ccCCCCCCCCccCChHHHHHHhhhc
Q psy16225 263 FPCPFPTCGKVFARSENLKIHKRTH 287 (290)
Q Consensus 263 f~C~~~~CgKsFs~~s~L~~H~rtH 287 (290)
|.| .+|+|.|..-.+++.|+++|
T Consensus 793 FpC--reC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 793 FPC--RECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeh--HHHHHHHHHHhhhhHHHHHH
No 117
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=20.39 E-value=19 Score=38.01 Aligned_cols=29 Identities=31% Similarity=0.749 Sum_probs=16.2
Q ss_pred CCCCCCCCCCcchhhhchhhhcCCCCcccCCCCCCCC
Q psy16225 236 GCPRNGRPFKAKYKLVNHIRVHTGEKPFPCPFPTCGK 272 (290)
Q Consensus 236 ~C~~CgksF~sks~L~~H~rvHtgeKpf~C~~~~CgK 272 (290)
.|+.|.+.+....+-+-|. .+.-| +.||-
T Consensus 153 lC~~C~~EY~dP~nRRfHA------Qp~aC--p~CGP 181 (750)
T COG0068 153 LCPFCDKEYKDPLNRRFHA------QPIAC--PKCGP 181 (750)
T ss_pred CCHHHHHHhcCcccccccc------ccccC--cccCC
Confidence 5677766666555433332 35566 66764
Done!