Query 025436
Match_columns 253
No_of_seqs 191 out of 914
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 05:48:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025436.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025436hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4173 Alpha-SNAP protein [In 100.0 1.4E-49 2.9E-54 345.8 1.0 205 20-235 40-253 (253)
2 KOG2462 C2H2-type Zn-finger pr 99.6 2.1E-16 4.6E-21 143.4 4.9 89 64-168 159-249 (279)
3 KOG2462 C2H2-type Zn-finger pr 99.2 3.9E-12 8.5E-17 115.8 2.6 84 56-154 177-264 (279)
4 KOG3623 Homeobox transcription 99.1 3.7E-11 8.1E-16 120.7 2.5 92 45-154 223-330 (1007)
5 KOG3576 Ovo and related transc 99.0 4.4E-11 9.5E-16 105.5 1.1 89 63-166 114-206 (267)
6 KOG3623 Homeobox transcription 99.0 6.9E-11 1.5E-15 118.8 0.6 78 62-154 890-971 (1007)
7 KOG3576 Ovo and related transc 98.9 3.8E-10 8.3E-15 99.6 2.1 95 60-160 139-239 (267)
8 KOG1074 Transcriptional repres 98.8 9.6E-10 2.1E-14 112.0 2.3 54 94-160 606-659 (958)
9 KOG3608 Zn finger proteins [Ge 98.7 6.5E-09 1.4E-13 98.0 1.3 102 60-167 201-324 (467)
10 KOG3608 Zn finger proteins [Ge 98.5 4.4E-08 9.4E-13 92.5 3.3 83 62-157 259-345 (467)
11 PHA00733 hypothetical protein 98.5 6.3E-08 1.4E-12 79.7 3.5 80 64-159 38-125 (128)
12 KOG1074 Transcriptional repres 98.4 8.1E-08 1.8E-12 98.2 1.9 88 59-158 598-692 (958)
13 PHA00733 hypothetical protein 98.2 1.1E-06 2.4E-11 72.3 4.3 56 60-117 67-123 (128)
14 PHA02768 hypothetical protein; 98.1 1.4E-06 3.1E-11 62.0 2.0 21 94-114 6-26 (55)
15 KOG3993 Transcription factor ( 98.1 1.2E-06 2.6E-11 84.3 1.1 94 62-160 263-383 (500)
16 PHA02768 hypothetical protein; 98.0 1.9E-06 4.1E-11 61.4 1.4 43 66-110 5-48 (55)
17 PLN03086 PRLI-interacting fact 97.9 2E-05 4.3E-10 79.0 6.0 85 64-167 451-546 (567)
18 PHA00732 hypothetical protein 97.8 1.6E-05 3.4E-10 60.5 3.1 45 66-115 1-46 (79)
19 PF05605 zf-Di19: Drought indu 97.7 3.6E-05 7.9E-10 54.0 3.5 53 93-158 2-54 (54)
20 COG5189 SFP1 Putative transcri 97.6 2.2E-05 4.7E-10 73.7 1.6 78 62-157 345-422 (423)
21 PF12756 zf-C2H2_2: C2H2 type 97.6 4.2E-05 9.1E-10 57.7 2.4 74 68-157 1-74 (100)
22 PF13465 zf-H2C2_2: Zinc-finge 97.6 3.7E-05 8E-10 46.4 1.5 26 108-145 1-26 (26)
23 PHA00732 hypothetical protein 97.4 9E-05 1.9E-09 56.4 2.3 44 94-154 2-45 (79)
24 PLN03086 PRLI-interacting fact 97.3 0.0002 4.4E-09 71.9 3.9 74 68-166 435-508 (567)
25 PHA00616 hypothetical protein 97.2 0.00016 3.5E-09 49.3 1.2 33 131-166 1-33 (44)
26 PF05605 zf-Di19: Drought indu 97.0 0.00047 1E-08 48.3 2.6 47 66-117 2-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.0 0.00021 4.7E-09 41.1 0.2 15 139-153 6-20 (23)
28 PF13894 zf-C2H2_4: C2H2-type 96.9 0.00041 9E-09 39.4 0.9 19 139-157 6-24 (24)
29 PF13894 zf-C2H2_4: C2H2-type 96.9 0.00079 1.7E-08 38.2 2.0 24 94-117 1-24 (24)
30 PHA00616 hypothetical protein 96.8 0.00042 9.1E-09 47.3 0.5 33 94-136 2-34 (44)
31 PF00096 zf-C2H2: Zinc finger, 96.7 0.00085 1.8E-08 38.6 1.3 22 94-115 1-22 (23)
32 COG5189 SFP1 Putative transcri 96.4 0.001 2.2E-08 62.6 0.8 25 93-117 349-375 (423)
33 PF13912 zf-C2H2_6: C2H2-type 95.9 0.0073 1.6E-07 35.9 2.5 23 66-90 1-23 (27)
34 KOG3993 Transcription factor ( 95.9 0.0027 5.9E-08 61.7 0.7 52 65-118 294-381 (500)
35 PF13465 zf-H2C2_2: Zinc-finge 95.9 0.0047 1E-07 37.1 1.4 19 60-80 8-26 (26)
36 PF13912 zf-C2H2_6: C2H2-type 95.4 0.0084 1.8E-07 35.7 1.4 24 131-156 1-24 (27)
37 smart00355 ZnF_C2H2 zinc finge 94.3 0.025 5.3E-07 32.0 1.4 21 94-114 1-21 (26)
38 PF09237 GAGA: GAGA factor; I 94.3 0.014 3.1E-07 41.2 0.3 28 129-158 22-49 (54)
39 PF12874 zf-met: Zinc-finger o 93.7 0.061 1.3E-06 31.3 2.3 22 67-90 1-22 (25)
40 smart00355 ZnF_C2H2 zinc finge 93.6 0.059 1.3E-06 30.4 2.1 24 132-158 1-24 (26)
41 PF12171 zf-C2H2_jaz: Zinc-fin 92.8 0.056 1.2E-06 32.4 1.2 21 94-114 2-22 (27)
42 KOG2231 Predicted E3 ubiquitin 92.7 0.058 1.3E-06 55.4 1.8 44 68-114 117-171 (669)
43 PF09237 GAGA: GAGA factor; I 92.0 0.11 2.3E-06 36.8 1.9 32 86-117 17-48 (54)
44 PF12874 zf-met: Zinc-finger o 92.0 0.093 2E-06 30.4 1.4 21 132-154 1-21 (25)
45 KOG1146 Homeobox protein [Gene 91.5 0.066 1.4E-06 58.3 0.6 80 74-155 442-540 (1406)
46 PF12171 zf-C2H2_jaz: Zinc-fin 91.2 0.13 2.7E-06 30.8 1.4 22 67-90 2-23 (27)
47 PF13909 zf-H2C2_5: C2H2-type 90.3 0.21 4.6E-06 28.8 1.8 23 132-157 1-23 (24)
48 COG5236 Uncharacterized conser 89.9 0.2 4.4E-06 48.1 2.3 92 65-167 150-252 (493)
49 PRK04860 hypothetical protein; 88.8 0.26 5.6E-06 42.2 1.9 39 92-146 118-156 (160)
50 PF13909 zf-H2C2_5: C2H2-type 87.1 0.34 7.4E-06 27.9 1.1 20 95-115 2-21 (24)
51 smart00451 ZnF_U1 U1-like zinc 85.4 0.69 1.5E-05 28.6 2.0 23 66-90 3-25 (35)
52 PF13913 zf-C2HC_2: zinc-finge 84.7 0.74 1.6E-05 27.4 1.8 21 131-154 2-22 (25)
53 COG5048 FOG: Zn-finger [Genera 84.4 0.55 1.2E-05 42.7 1.7 65 93-166 289-355 (467)
54 PF13913 zf-C2HC_2: zinc-finge 84.1 0.59 1.3E-05 27.9 1.2 19 95-114 4-22 (25)
55 smart00451 ZnF_U1 U1-like zinc 81.6 1.3 2.9E-05 27.3 2.2 23 131-155 3-25 (35)
56 KOG2893 Zn finger protein [Gen 81.5 0.44 9.6E-06 43.8 -0.1 46 69-117 13-58 (341)
57 PF09986 DUF2225: Uncharacteri 80.9 0.46 9.9E-06 42.2 -0.2 17 66-84 5-21 (214)
58 COG5048 FOG: Zn-finger [Genera 80.1 1.3 2.8E-05 40.3 2.4 57 94-160 34-90 (467)
59 COG4049 Uncharacterized protei 80.1 0.59 1.3E-05 33.8 0.2 32 61-94 12-43 (65)
60 KOG4124 Putative transcription 79.1 0.52 1.1E-05 45.3 -0.5 77 64-158 347-423 (442)
61 PF12756 zf-C2H2_2: C2H2 type 79.1 1.5 3.2E-05 32.6 2.1 23 66-90 50-72 (100)
62 COG5236 Uncharacterized conser 76.2 2.5 5.5E-05 40.8 3.1 30 130-159 274-307 (493)
63 KOG1146 Homeobox protein [Gene 75.2 0.84 1.8E-05 50.2 -0.3 88 64-158 1258-1353(1406)
64 KOG2893 Zn finger protein [Gen 74.5 1.4 3E-05 40.7 0.9 48 95-158 12-59 (341)
65 KOG2482 Predicted C2H2-type Zn 70.8 2.5 5.4E-05 40.7 1.7 88 66-155 195-356 (423)
66 KOG2482 Predicted C2H2-type Zn 66.2 10 0.00022 36.7 4.7 91 64-158 142-304 (423)
67 KOG2785 C2H2-type Zn-finger pr 61.3 6 0.00013 38.4 2.3 30 126-157 63-92 (390)
68 TIGR00373 conserved hypothetic 61.1 6.3 0.00014 33.4 2.2 35 62-104 105-139 (158)
69 PF02892 zf-BED: BED zinc fing 58.9 7.8 0.00017 25.3 2.0 28 128-157 13-44 (45)
70 PF12013 DUF3505: Protein of u 58.6 13 0.00028 29.2 3.4 27 132-158 81-109 (109)
71 PRK04860 hypothetical protein; 58.0 6.3 0.00014 33.7 1.7 35 66-106 119-156 (160)
72 KOG2231 Predicted E3 ubiquitin 57.6 19 0.0004 37.6 5.2 70 67-153 183-259 (669)
73 smart00531 TFIIE Transcription 57.1 7.6 0.00016 32.3 2.0 37 63-103 96-133 (147)
74 PRK06266 transcription initiat 54.1 9 0.00019 33.2 2.0 35 63-105 114-148 (178)
75 PF05443 ROS_MUCR: ROS/MUCR tr 51.9 7.9 0.00017 32.3 1.3 26 129-159 70-95 (132)
76 KOG2186 Cell growth-regulating 51.0 8.6 0.00019 35.6 1.5 43 67-113 4-48 (276)
77 KOG2593 Transcription initiati 49.0 8.6 0.00019 38.0 1.2 17 94-110 129-145 (436)
78 COG4049 Uncharacterized protei 48.7 7.2 0.00016 28.3 0.5 31 127-159 13-43 (65)
79 PF12013 DUF3505: Protein of u 45.9 16 0.00035 28.6 2.2 26 92-117 79-108 (109)
80 KOG2186 Cell growth-regulating 45.8 13 0.00028 34.5 1.8 61 94-169 4-68 (276)
81 TIGR02098 MJ0042_CXXC MJ0042 f 43.8 11 0.00023 24.0 0.7 33 67-103 3-35 (38)
82 PF09538 FYDLN_acid: Protein o 41.5 18 0.0004 29.0 1.8 30 94-146 10-39 (108)
83 COG1592 Rubrerythrin [Energy p 41.2 15 0.00033 31.8 1.4 14 126-141 144-157 (166)
84 COG4957 Predicted transcriptio 41.1 10 0.00022 32.1 0.3 23 131-158 76-98 (148)
85 smart00734 ZnF_Rad18 Rad18-lik 40.9 22 0.00047 21.3 1.7 19 132-153 2-20 (26)
86 PF09986 DUF2225: Uncharacteri 39.4 13 0.00029 32.9 0.8 52 92-146 4-61 (214)
87 PRK00464 nrdR transcriptional 39.3 7.9 0.00017 33.0 -0.6 18 132-151 29-46 (154)
88 TIGR00622 ssl1 transcription f 38.9 49 0.0011 26.9 3.9 79 65-160 14-107 (112)
89 PF14353 CpXC: CpXC protein 36.0 10 0.00022 30.5 -0.4 54 95-152 3-57 (128)
90 PF04959 ARS2: Arsenite-resist 35.6 23 0.0005 31.8 1.7 29 128-158 74-102 (214)
91 KOG4173 Alpha-SNAP protein [In 33.5 7.3 0.00016 35.2 -1.8 48 68-117 108-170 (253)
92 cd00350 rubredoxin_like Rubred 32.6 34 0.00074 21.4 1.7 8 95-102 3-10 (33)
93 KOG2295 C2H2 Zn-finger protein 32.5 27 0.00058 35.8 1.8 33 126-158 504-536 (648)
94 KOG2785 C2H2-type Zn-finger pr 31.6 34 0.00073 33.4 2.2 77 65-157 165-244 (390)
95 PRK09678 DNA-binding transcrip 31.6 22 0.00048 26.7 0.8 21 128-148 24-44 (72)
96 smart00614 ZnF_BED BED zinc fi 31.0 34 0.00073 23.1 1.6 27 130-158 17-48 (50)
97 cd00729 rubredoxin_SM Rubredox 29.8 30 0.00065 22.0 1.1 10 130-141 17-26 (34)
98 PF13717 zinc_ribbon_4: zinc-r 29.0 38 0.00082 21.7 1.5 10 94-103 26-35 (36)
99 PF04135 Nop10p: Nucleolar RNA 28.3 45 0.00097 23.6 1.8 24 7-30 19-42 (53)
100 PF04959 ARS2: Arsenite-resist 28.0 44 0.00095 30.0 2.2 26 63-90 74-99 (214)
101 PF09723 Zn-ribbon_8: Zinc rib 27.3 23 0.00049 23.4 0.2 29 67-101 6-34 (42)
102 KOG4124 Putative transcription 26.9 14 0.00029 35.9 -1.3 24 94-117 350-375 (442)
103 smart00834 CxxC_CXXC_SSSS Puta 26.4 26 0.00057 22.2 0.4 30 66-101 5-34 (41)
104 PF12907 zf-met2: Zinc-binding 25.8 24 0.00053 23.6 0.1 21 94-114 2-25 (40)
105 KOG3220 Similar to bacterial d 25.1 40 0.00086 30.6 1.4 52 9-63 39-90 (225)
106 PRK13130 H/ACA RNA-protein com 24.7 48 0.001 23.7 1.5 22 9-30 21-42 (56)
107 TIGR02605 CxxC_CxxC_SSSS putat 24.7 31 0.00067 23.3 0.5 29 67-101 6-34 (52)
108 PF04606 Ogr_Delta: Ogr/Delta- 24.6 27 0.00059 23.5 0.2 18 129-146 23-40 (47)
109 PF04780 DUF629: Protein of un 22.1 58 0.0013 32.6 2.0 28 130-159 56-83 (466)
110 PF13719 zinc_ribbon_5: zinc-r 21.9 38 0.00082 21.8 0.5 33 67-104 3-36 (37)
111 PF06220 zf-U1: U1 zinc finger 21.5 62 0.0013 21.1 1.4 23 130-154 2-26 (38)
112 PF04780 DUF629: Protein of un 21.5 64 0.0014 32.3 2.2 26 94-119 58-83 (466)
113 PF03145 Sina: Seven in absent 20.0 69 0.0015 27.6 1.9 30 129-159 42-73 (198)
No 1
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.4e-49 Score=345.84 Aligned_cols=205 Identities=33% Similarity=0.606 Sum_probs=178.6
Q ss_pred ccccCCCCCCccCCCchhHHHHHHHhhccchhHHhhhhccccCCCcceEecCCCCCcccCChhHHHhhHhCcCcccCCCC
Q 025436 20 RRCFRPDSPFFASGNIERELLAKQVALDFSEDEKYQLENMVTEDGRRVCCPIVGCNARMRSLEEFEDHYNARHTASCSVC 99 (253)
Q Consensus 20 ~~~~~~~~~ff~~g~~~r~~~~k~~~~~~~~~~~~~~~~~~h~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C 99 (253)
.+||||++|||++|||+||||+|||++|+++.+ +....+.|.|+++||.+.|.++.+++.||++.|+++|++|
T Consensus 40 pvrfp~~~pFf~~G~v~r~l~~~~V~~d~~d~~-------~~~~~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~sCs~C 112 (253)
T KOG4173|consen 40 PVRFPREHPFFEDGDVQRHLYLQDVIMDVADVP-------EKPRVPAFACQVAGCCQVFDALDDYEHHYHTLHGNSCSFC 112 (253)
T ss_pred cccCCCcCcchhcccHHHHHhHhhheeeccccc-------cccccccccccccchHHHHhhhhhHHHhhhhcccchhHHH
Confidence 467999999999999999999999999998875 3455678999999999999999999999999999999999
Q ss_pred CccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChhHHHhHHhhhcCCCCcccccccCCCcHHHHhhh
Q 025436 100 CRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYKSRQQHLVDKHKFPTSFEFFKKAHPSKKQRQKN 179 (253)
Q Consensus 100 ~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~~p~~f~f~~~~~~~~~~r~k~ 179 (253)
.+.||+.++|++||.||||+||++++.+|..||+|+||||+.+|+|+..|++|||+.|+||.+|+||++++ +|.+.
T Consensus 113 ~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk~Pa~frFdk~Kk----rr~~~ 188 (253)
T KOG4173|consen 113 KRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHKYPADFRFDKPKK----RRSPA 188 (253)
T ss_pred HHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhccCCcceeecCccc----ccChh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999743 33333
Q ss_pred HHHHHhh-h-cccCCCccccccccccccc------ccccCCCCCCCCC-eeeecCCCCCcccccc
Q 025436 180 QRKQALQ-K-KEASSSMEVEDETIDGLVS------AVSKLSTSDSTPS-SVSFGRRHTRGLTFVP 235 (253)
Q Consensus 180 ~~~~~~~-~-~~~~~~mev~~~~~~~~~~------~~~~~~~s~~~p~-~~~fG~~~~r~~~~~p 235 (253)
++.+... . |+.+++||++++.+++.+| +.+.+++|+..|+ +|.||++.+++++|||
T Consensus 189 ~~~~~~~~~~e~d~ea~e~~s~pv~~~~s~~G~~~~~s~~t~sd~~~~~~v~~~~~~~~a~~~i~ 253 (253)
T KOG4173|consen 189 SAEAPGDSGEESDGEAMEICSEPVAASPSPAGERRIYSHRTGSDQRSGKTVDRGQAMKEAITDIL 253 (253)
T ss_pred hhcCCCCcccchhhhHHhhcccchhccCCCcchhhhhhcccccccccCccHHHHHHhhhhhhccC
Confidence 3333222 2 5577788887765554444 4567778888888 9999999999999986
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.63 E-value=2.1e-16 Score=143.40 Aligned_cols=89 Identities=20% Similarity=0.459 Sum_probs=79.8
Q ss_pred CcceEecCCCCCcccCChhHHHhhHhCcCc--ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCC
Q 025436 64 GRRVCCPIVGCNARMRSLEEFEDHYNARHT--ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGL 141 (253)
Q Consensus 64 ~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~--~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~k 141 (253)
.+.++|.. |+|.|.+...|+.|+++ |+ +.|.+|||.|...++|+-||+ .|+|||||+|.+ |++
T Consensus 159 ~ka~~C~~--C~K~YvSmpALkMHirT-H~l~c~C~iCGKaFSRPWLLQGHiR----------THTGEKPF~C~h--C~k 223 (279)
T KOG2462|consen 159 KKAFSCKY--CGKVYVSMPALKMHIRT-HTLPCECGICGKAFSRPWLLQGHIR----------THTGEKPFSCPH--CGK 223 (279)
T ss_pred cccccCCC--CCceeeehHHHhhHhhc-cCCCcccccccccccchHHhhcccc----------cccCCCCccCCc--ccc
Confidence 46788977 99999999999999986 64 889999999999999999998 489999999977 999
Q ss_pred cCCChhHHHhHHhhhcCCCCccccccc
Q 025436 142 KFKNYKSRQQHLVDKHKFPTSFEFFKK 168 (253)
Q Consensus 142 kF~t~~~rk~Hl~~~H~~p~~f~f~~~ 168 (253)
.|+..++|+-||. +|..-|+|.|..=
T Consensus 224 AFADRSNLRAHmQ-THS~~K~~qC~~C 249 (279)
T KOG2462|consen 224 AFADRSNLRAHMQ-THSDVKKHQCPRC 249 (279)
T ss_pred hhcchHHHHHHHH-hhcCCccccCcch
Confidence 9999999999994 8999999999763
No 3
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.22 E-value=3.9e-12 Score=115.79 Aligned_cols=84 Identities=20% Similarity=0.351 Sum_probs=75.0
Q ss_pred hhccccCCCcceEecCCCCCcccCChhHHHhhHhCcCc----ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCc
Q 025436 56 LENMVTEDGRRVCCPIVGCNARMRSLEEFEDHYNARHT----ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPM 131 (253)
Q Consensus 56 ~~~~~h~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~----~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~ 131 (253)
|.-++.++.-++.|.+ |||.|+..+-|+-|+++ |+ |.|..|+|+|....+|..||++ |.+.+.
T Consensus 177 LkMHirTH~l~c~C~i--CGKaFSRPWLLQGHiRT-HTGEKPF~C~hC~kAFADRSNLRAHmQT----------HS~~K~ 243 (279)
T KOG2462|consen 177 LKMHIRTHTLPCECGI--CGKAFSRPWLLQGHIRT-HTGEKPFSCPHCGKAFADRSNLRAHMQT----------HSDVKK 243 (279)
T ss_pred HhhHhhccCCCccccc--ccccccchHHhhccccc-ccCCCCccCCcccchhcchHHHHHHHHh----------hcCCcc
Confidence 4445667778999998 99999999999999986 64 9999999999999999999985 677889
Q ss_pred eecCccccCCcCCChhHHHhHHh
Q 025436 132 YECLVEGCGLKFKNYKSRQQHLV 154 (253)
Q Consensus 132 y~C~vegC~kkF~t~~~rk~Hl~ 154 (253)
|+|.. |+|.|+..+.|.+|+-
T Consensus 244 ~qC~~--C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 244 HQCPR--CGKSFALKSYLNKHSE 264 (279)
T ss_pred ccCcc--hhhHHHHHHHHHHhhh
Confidence 99977 9999999999999984
No 4
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.08 E-value=3.7e-11 Score=120.70 Aligned_cols=92 Identities=20% Similarity=0.429 Sum_probs=75.9
Q ss_pred hhccchhHHhhhhccccCCCcceEecCCCCCcccCChhHHHhhHhCcC----------------cccCCCCCccCCCchh
Q 025436 45 ALDFSEDEKYQLENMVTEDGRRVCCPIVGCNARMRSLEEFEDHYNARH----------------TASCSVCCRVYPTSRL 108 (253)
Q Consensus 45 ~~~~~~~~~~~~~~~~h~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H----------------~~~Cs~C~ksF~s~~~ 108 (253)
+.++.++..+ .-...+..|.|.+ |..+|+....|++||.++. .|.|++|||+|.-+++
T Consensus 223 ltslkeHiky----rhekne~nfsC~l--CsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHH 296 (1007)
T KOG3623|consen 223 LTSLKEHIKY----RHEKNEPNFSCML--CSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHH 296 (1007)
T ss_pred HHHHHHHHHH----HHhhCCCCCcchh--hhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHH
Confidence 3455555543 2223456799999 9999999999999997421 2999999999999999
Q ss_pred hhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChhHHHhHHh
Q 025436 109 LSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYKSRQQHLV 154 (253)
Q Consensus 109 L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~ 154 (253)
|+.|++ +|.||+||.|+- |+|+|+.+.....||-
T Consensus 297 LKEHlR----------IHSGEKPfeCpn--CkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 297 LKEHLR----------IHSGEKPFECPN--CKKRFSHSGSYSSHMS 330 (1007)
T ss_pred HHhhhe----------eecCCCCcCCcc--cccccccCCccccccc
Confidence 999998 478999999966 9999999999999985
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.05 E-value=4.4e-11 Score=105.53 Aligned_cols=89 Identities=20% Similarity=0.451 Sum_probs=79.6
Q ss_pred CCcceEecCCCCCcccCChhHHHhhHhCcC----cccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccc
Q 025436 63 DGRRVCCPIVGCNARMRSLEEFEDHYNARH----TASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEG 138 (253)
Q Consensus 63 ~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H----~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~veg 138 (253)
+...|.|.+ |+|.|.-..-|.+|+.- | +|-|..|||.|...-.|++|+++ |+|.+||+|.+
T Consensus 114 d~d~ftCrv--CgK~F~lQRmlnrh~kc-h~~vkr~lct~cgkgfndtfdlkrh~rt----------htgvrpykc~~-- 178 (267)
T KOG3576|consen 114 DQDSFTCRV--CGKKFGLQRMLNRHLKC-HSDVKRHLCTFCGKGFNDTFDLKRHTRT----------HTGVRPYKCSL-- 178 (267)
T ss_pred CCCeeeeeh--hhhhhhHHHHHHHHhhh-ccHHHHHHHhhccCcccchhhhhhhhcc----------ccCccccchhh--
Confidence 345799999 99999999999999964 5 49999999999999999999974 78999999977
Q ss_pred cCCcCCChhHHHhHHhhhcCCCCccccc
Q 025436 139 CGLKFKNYKSRQQHLVDKHKFPTSFEFF 166 (253)
Q Consensus 139 C~kkF~t~~~rk~Hl~~~H~~p~~f~f~ 166 (253)
|++.|+..-.|..|+..+|+.+..|-+-
T Consensus 179 c~kaftqrcsleshl~kvhgv~~~yayk 206 (267)
T KOG3576|consen 179 CEKAFTQRCSLESHLKKVHGVQHQYAYK 206 (267)
T ss_pred hhHHHHhhccHHHHHHHHcCchHHHHHH
Confidence 9999999999999999999988877664
No 6
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.00 E-value=6.9e-11 Score=118.83 Aligned_cols=78 Identities=19% Similarity=0.448 Sum_probs=70.5
Q ss_pred CCCcceEecCCCCCcccCChhHHHhhHhCcCc----ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCcc
Q 025436 62 EDGRRVCCPIVGCNARMRSLEEFEDHYNARHT----ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVE 137 (253)
Q Consensus 62 ~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~----~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~ve 137 (253)
+.+..|.|.. |+|+|.....|.+|.- .|+ |.|.+|.|+|..+++|..|++ .|.||+||+|.-
T Consensus 890 te~gmyaCDq--CDK~FqKqSSLaRHKY-EHsGqRPyqC~iCkKAFKHKHHLtEHkR----------LHSGEKPfQCdK- 955 (1007)
T KOG3623|consen 890 TEDGMYACDQ--CDKAFQKQSSLARHKY-EHSGQRPYQCIICKKAFKHKHHLTEHKR----------LHSGEKPFQCDK- 955 (1007)
T ss_pred CccccchHHH--HHHHHHhhHHHHHhhh-hhcCCCCcccchhhHhhhhhhhhhhhhh----------hccCCCcchhhh-
Confidence 3456899999 9999999999999973 453 999999999999999999997 589999999977
Q ss_pred ccCCcCCChhHHHhHHh
Q 025436 138 GCGLKFKNYKSRQQHLV 154 (253)
Q Consensus 138 gC~kkF~t~~~rk~Hl~ 154 (253)
|+|+|+.+.....||-
T Consensus 956 -ClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 956 -CLKRFSHSGSYSQHMN 971 (1007)
T ss_pred -hhhhcccccchHhhhc
Confidence 9999999999999983
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.92 E-value=3.8e-10 Score=99.63 Aligned_cols=95 Identities=24% Similarity=0.480 Sum_probs=82.6
Q ss_pred ccCCCcceEecCCCCCcccCChhHHHhhHhCcCc----ccCCCCCccCCCchhhhhhhhhhcchh--hhhhhhcCCCcee
Q 025436 60 VTEDGRRVCCPIVGCNARMRSLEEFEDHYNARHT----ASCSVCCRVYPTSRLLSIHVSEAHDSF--FQAKVARGYPMYE 133 (253)
Q Consensus 60 ~h~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~----~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~--f~~~~h~gek~y~ 133 (253)
.|...+.+-|.. ||+.|....+|++|+++ |+ |.|+.|+|+|+....|+.|+...|... ++. ..++.++|.
T Consensus 139 ch~~vkr~lct~--cgkgfndtfdlkrh~rt-htgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yay-kerr~kl~v 214 (267)
T KOG3576|consen 139 CHSDVKRHLCTF--CGKGFNDTFDLKRHTRT-HTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAY-KERRAKLYV 214 (267)
T ss_pred hccHHHHHHHhh--ccCcccchhhhhhhhcc-ccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHH-HHhhhheee
Confidence 688889999988 99999999999999986 53 999999999999999999999998642 222 366789999
Q ss_pred cCccccCCcCCChhHHHhHHhhhcCCC
Q 025436 134 CLVEGCGLKFKNYKSRQQHLVDKHKFP 160 (253)
Q Consensus 134 C~vegC~kkF~t~~~rk~Hl~~~H~~p 160 (253)
| |+||..-......-.|+..+|-+.
T Consensus 215 c--edcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 215 C--EDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred e--cccCCCCCChhHHHHHHHhcCCCC
Confidence 9 889999999999999998877553
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.85 E-value=9.6e-10 Score=111.99 Aligned_cols=54 Identities=26% Similarity=0.567 Sum_probs=38.1
Q ss_pred ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChhHHHhHHhhhcCCC
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYKSRQQHLVDKHKFP 160 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~~p 160 (253)
+.|-+|.|+..-+..|+.|++ .|+||+||+|-| ||+.|+++.+||.||. +|+.-
T Consensus 606 NqCiiC~rVlSC~saLqmHyr----------tHtGERPFkCKi--CgRAFtTkGNLkaH~~-vHka~ 659 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYR----------THTGERPFKCKI--CGRAFTTKGNLKAHMS-VHKAK 659 (958)
T ss_pred cceeeeeecccchhhhhhhhh----------cccCcCcccccc--ccchhccccchhhccc-ccccC
Confidence 455555555555555555554 478888888877 8888888888888884 67643
No 9
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.66 E-value=6.5e-09 Score=97.96 Aligned_cols=102 Identities=19% Similarity=0.397 Sum_probs=66.8
Q ss_pred ccCCCcceEecCCCCCcccCChhHHHhhHhCc-----CcccCCCCCccCCCchhhhhhhhhhcchhh-----------h-
Q 025436 60 VTEDGRRVCCPIVGCNARMRSLEEFEDHYNAR-----HTASCSVCCRVYPTSRLLSIHVSEAHDSFF-----------Q- 122 (253)
Q Consensus 60 ~h~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~-----H~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f-----------~- 122 (253)
.|++++...|+. ||.-|++...|-.|++.. -.|.|..|.|.|.+..+|..|+..+=..+- +
T Consensus 201 ~Hs~eKvvACp~--Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ss 278 (467)
T KOG3608|consen 201 THSNEKVVACPH--CGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASS 278 (467)
T ss_pred hcCCCeEEecch--HHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHH
Confidence 467788888876 888888888888887532 137777777777777777777754222110 0
Q ss_pred ----h-hhhcCCCceecCccccCCcCCChhHHHhHHhhhcCCCCcccccc
Q 025436 123 ----A-KVARGYPMYECLVEGCGLKFKNYKSRQQHLVDKHKFPTSFEFFK 167 (253)
Q Consensus 123 ----~-~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~~p~~f~f~~ 167 (253)
+ -.|.+.+||+|.- |+++|.+-++|.+|+. .|. ..-|.|+-
T Consensus 279 L~~H~r~rHs~dkpfKCd~--Cd~~c~~esdL~kH~~-~HS-~~~y~C~h 324 (467)
T KOG3608|consen 279 LTTHIRYRHSKDKPFKCDE--CDTRCVRESDLAKHVQ-VHS-KTVYQCEH 324 (467)
T ss_pred HHHHHHhhhccCCCccccc--hhhhhccHHHHHHHHH-hcc-ccceecCC
Confidence 0 1355677888844 8888888888888875 666 44455554
No 10
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.54 E-value=4.4e-08 Score=92.49 Aligned_cols=83 Identities=23% Similarity=0.496 Sum_probs=48.9
Q ss_pred CCCcceEecCCCCCcccCChhHHHhhHhCcCc----ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCcc
Q 025436 62 EDGRRVCCPIVGCNARMRSLEEFEDHYNARHT----ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVE 137 (253)
Q Consensus 62 ~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~----~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~ve 137 (253)
....-|.|++ |+.+......|..|++..|. |.|+.|++.|.+...|..|+.. | . +.+|+|..+
T Consensus 259 rHvn~ykCpl--Cdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~-H---------S-~~~y~C~h~ 325 (467)
T KOG3608|consen 259 RHVNCYKCPL--CDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQV-H---------S-KTVYQCEHP 325 (467)
T ss_pred Hhhhcccccc--cccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHh-c---------c-ccceecCCC
Confidence 3445577766 77777777777777766553 7777777777777777777652 2 1 334444444
Q ss_pred ccCCcCCChhHHHhHHhhhc
Q 025436 138 GCGLKFKNYKSRQQHLVDKH 157 (253)
Q Consensus 138 gC~kkF~t~~~rk~Hl~~~H 157 (253)
+|..+|.+...+++|++.+|
T Consensus 326 ~C~~s~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 326 DCHYSVRTYTQMRRHFLEVH 345 (467)
T ss_pred CCcHHHHHHHHHHHHHHHhc
Confidence 44444444444444444444
No 11
>PHA00733 hypothetical protein
Probab=98.53 E-value=6.3e-08 Score=79.68 Aligned_cols=80 Identities=20% Similarity=0.405 Sum_probs=67.0
Q ss_pred CcceEecCCCCCcccCChhHHHhh--Hh---CcC---cccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecC
Q 025436 64 GRRVCCPIVGCNARMRSLEEFEDH--YN---ARH---TASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECL 135 (253)
Q Consensus 64 ~k~f~C~~~gC~k~F~s~~~L~~H--~~---~~H---~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~ 135 (253)
.+++.|.+ |.+.|.....|..| +. ..+ .|.|..|++.|.+...|..|++. + ..+|.|.
T Consensus 38 ~~~~~~~~--~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~----------h--~~~~~C~ 103 (128)
T PHA00733 38 QKRLIRAV--VKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRY----------T--EHSKVCP 103 (128)
T ss_pred hhhHHHHH--HhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhc----------C--CcCccCC
Confidence 47899998 99999998888887 21 112 49999999999999999999963 2 3469997
Q ss_pred ccccCCcCCChhHHHhHHhhhcCC
Q 025436 136 VEGCGLKFKNYKSRQQHLVDKHKF 159 (253)
Q Consensus 136 vegC~kkF~t~~~rk~Hl~~~H~~ 159 (253)
+ |++.|.....|++|+...|+.
T Consensus 104 ~--CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 104 V--CGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred C--CCCccCCHHHHHHHHHHhcCc
Confidence 7 999999999999999988874
No 12
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.42 E-value=8.1e-08 Score=98.23 Aligned_cols=88 Identities=26% Similarity=0.471 Sum_probs=72.8
Q ss_pred cccCCCcceEecCCCCCcccCChhHHHhhHhCcCc----ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceec
Q 025436 59 MVTEDGRRVCCPIVGCNARMRSLEEFEDHYNARHT----ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYEC 134 (253)
Q Consensus 59 ~~h~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~----~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C 134 (253)
.+.....|-+|-+ |-+..+....|+.||++ |+ |+|.+||++|.++-+|+.|+.. |.. .+.-.-.|+|
T Consensus 598 ~~~~~TdPNqCii--C~rVlSC~saLqmHyrt-HtGERPFkCKiCgRAFtTkGNLkaH~~v-Hka-----~p~~R~q~Sc 668 (958)
T KOG1074|consen 598 SENKRTDPNQCII--CLRVLSCPSALQMHYRT-HTGERPFKCKICGRAFTTKGNLKAHMSV-HKA-----KPPARVQFSC 668 (958)
T ss_pred cccccCCccceee--eeecccchhhhhhhhhc-ccCcCccccccccchhccccchhhcccc-ccc-----CccccccccC
Confidence 3444566889988 99999999999999986 64 9999999999999999999974 421 1222356999
Q ss_pred C---ccccCCcCCChhHHHhHHhhhcC
Q 025436 135 L---VEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 135 ~---vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
+ | |-++|++.-.+..|++ +|.
T Consensus 669 P~~~i--c~~kftn~V~lpQhIr-iH~ 692 (958)
T KOG1074|consen 669 PSTFI--CQKKFTNAVTLPQHIR-IHL 692 (958)
T ss_pred Cchhh--hcccccccccccceEE-eec
Confidence 9 8 9999999999999974 776
No 13
>PHA00733 hypothetical protein
Probab=98.24 E-value=1.1e-06 Score=72.28 Aligned_cols=56 Identities=21% Similarity=0.465 Sum_probs=49.9
Q ss_pred ccCCCcceEecCCCCCcccCChhHHHhhHhC-cCcccCCCCCccCCCchhhhhhhhhhc
Q 025436 60 VTEDGRRVCCPIVGCNARMRSLEEFEDHYNA-RHTASCSVCCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 60 ~h~~~k~f~C~~~gC~k~F~s~~~L~~H~~~-~H~~~Cs~C~ksF~s~~~L~~Hi~e~H 117 (253)
.+.+.+||.|.. |++.|.+...|..|++. .+.+.|.+|++.|.....|..|+.+.|
T Consensus 67 ~~~~~kPy~C~~--Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 67 TSKAVSPYVCPL--CLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred ccCCCCCccCCC--CCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHHHHHHHHHHhc
Confidence 445688999988 99999999999999974 357999999999999999999998766
No 14
>PHA02768 hypothetical protein; Provisional
Probab=98.11 E-value=1.4e-06 Score=62.00 Aligned_cols=21 Identities=19% Similarity=0.631 Sum_probs=10.8
Q ss_pred ccCCCCCccCCCchhhhhhhh
Q 025436 94 ASCSVCCRVYPTSRLLSIHVS 114 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~ 114 (253)
|.|+.||+.|.....|..|++
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r 26 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLR 26 (55)
T ss_pred cCcchhCCeeccHHHHHHHHH
Confidence 445555555555555555554
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.06 E-value=1.2e-06 Score=84.31 Aligned_cols=94 Identities=19% Similarity=0.391 Sum_probs=74.2
Q ss_pred CCCcceEecCCCCCcccCChhHHHhhH--hCcC-cccCCCCCccCCCchhhhhhhhhhcchhhhhh--------------
Q 025436 62 EDGRRVCCPIVGCNARMRSLEEFEDHY--NARH-TASCSVCCRVYPTSRLLSIHVSEAHDSFFQAK-------------- 124 (253)
Q Consensus 62 ~~~k~f~C~~~gC~k~F~s~~~L~~H~--~~~H-~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~-------------- 124 (253)
+....|.|.+ |...|.....|-+|. ++.| .|.|.+|+|.|.-..+|-.|.+ ||.+--.+.
T Consensus 263 n~iGdyiCqL--CK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRR-WHKPR~eaa~a~~~P~k~~~~~r 339 (500)
T KOG3993|consen 263 NVIGDYICQL--CKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRR-WHKPRPEAAKAGSPPPKQAVETR 339 (500)
T ss_pred ccHHHHHHHH--HHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhc-ccCCchhhhhcCCCChhhhhhhh
Confidence 3456799999 999999999999996 2345 4999999999999999999985 887621110
Q ss_pred ----h------hcCCCceecCccccCCcCCChhHHHhHHhhhcCCC
Q 025436 125 ----V------ARGYPMYECLVEGCGLKFKNYKSRQQHLVDKHKFP 160 (253)
Q Consensus 125 ----~------h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~~p 160 (253)
. +..+..|.|.+ |+++|.+...|+.|+..+|.-+
T Consensus 340 ae~~ea~rsg~dss~gi~~C~~--C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 340 AEVQEAERSGDDSSSGIFSCHT--CGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred hhhhhccccCCcccCceeecHH--hhhhhHHHHHHHHhHHhhhccc
Confidence 0 01234699977 9999999999999988777644
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.03 E-value=1.9e-06 Score=61.42 Aligned_cols=43 Identities=19% Similarity=0.286 Sum_probs=38.0
Q ss_pred ceEecCCCCCcccCChhHHHhhHhCcC-cccCCCCCccCCCchhhh
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNARH-TASCSVCCRVYPTSRLLS 110 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~~H-~~~Cs~C~ksF~s~~~L~ 110 (253)
-|.|+. ||+.|+...+|..|++++. .+.|..|++.|.+...|.
T Consensus 5 ~y~C~~--CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPI--CGEIYIKRKSMITHLRKHNTNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcch--hCCeeccHHHHHHHHHhcCCcccCCcccceecccceeE
Confidence 389988 9999999999999999855 699999999999877764
No 17
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.88 E-value=2e-05 Score=79.00 Aligned_cols=85 Identities=18% Similarity=0.311 Sum_probs=64.4
Q ss_pred CcceEecCCCCCcccCChhHHHhhHhCcCc-ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCc
Q 025436 64 GRRVCCPIVGCNARMRSLEEFEDHYNARHT-ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLK 142 (253)
Q Consensus 64 ~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~-~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kk 142 (253)
+..+.|+. |++.|. ..+|+.|+...|. +.|. ||+.+ ....|..|+. .|..++++.|.+ |++.
T Consensus 451 ~~H~~C~~--Cgk~f~-~s~LekH~~~~Hkpv~Cp-Cg~~~-~R~~L~~H~~----------thCp~Kpi~C~f--C~~~ 513 (567)
T PLN03086 451 KNHVHCEK--CGQAFQ-QGEMEKHMKVFHEPLQCP-CGVVL-EKEQMVQHQA----------STCPLRLITCRF--CGDM 513 (567)
T ss_pred ccCccCCC--CCCccc-hHHHHHHHHhcCCCccCC-CCCCc-chhHHHhhhh----------ccCCCCceeCCC--CCCc
Confidence 34567877 999995 6889999987664 8899 99765 5688889985 256788999977 9999
Q ss_pred CC----------ChhHHHhHHhhhcCCCCcccccc
Q 025436 143 FK----------NYKSRQQHLVDKHKFPTSFEFFK 167 (253)
Q Consensus 143 F~----------t~~~rk~Hl~~~H~~p~~f~f~~ 167 (253)
|. ....|..|.. .+ ..+++.|+.
T Consensus 514 v~~g~~~~d~~d~~s~Lt~HE~-~C-G~rt~~C~~ 546 (567)
T PLN03086 514 VQAGGSAMDVRDRLRGMSEHES-IC-GSRTAPCDS 546 (567)
T ss_pred cccCccccchhhhhhhHHHHHH-hc-CCcceEccc
Confidence 95 2457889985 33 567788864
No 18
>PHA00732 hypothetical protein
Probab=97.80 E-value=1.6e-05 Score=60.51 Aligned_cols=45 Identities=27% Similarity=0.543 Sum_probs=37.7
Q ss_pred ceEecCCCCCcccCChhHHHhhHhC-cCcccCCCCCccCCCchhhhhhhhh
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNA-RHTASCSVCCRVYPTSRLLSIHVSE 115 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~-~H~~~Cs~C~ksF~s~~~L~~Hi~e 115 (253)
||.|.. |++.|.+..+|+.|++. +..+.|+.|++.|. .|..|+..
T Consensus 1 py~C~~--Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPI--CGFTTVTLFALKQHARRNHTLTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCC--CCCccCCHHHHHHHhhcccCCCccCCCCCEeC---Chhhhhcc
Confidence 578977 99999999999999974 34589999999998 58888864
No 19
>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=97.72 E-value=3.6e-05 Score=53.95 Aligned_cols=53 Identities=19% Similarity=0.402 Sum_probs=39.5
Q ss_pred cccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChhHHHhHHhhhcC
Q 025436 93 TASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 93 ~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
+|.|+.|++ ..+...|..|+.+.|. ...+.+.|++ |...+. .++..||...|.
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~--------~~~~~v~CPi--C~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHR--------SESKNVVCPI--CSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCc--------CCCCCccCCC--chhhhh--hHHHHHHHHhcC
Confidence 478999999 5566788889887661 1234699988 998765 388999987763
No 20
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.62 E-value=2.2e-05 Score=73.68 Aligned_cols=78 Identities=24% Similarity=0.500 Sum_probs=54.6
Q ss_pred CCCcceEecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCC
Q 025436 62 EDGRRVCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGL 141 (253)
Q Consensus 62 ~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~k 141 (253)
.+.+||.|+++||+|++.+...|+-|+. |.+. .. +.-++. -.+-|+.|. -..+||.|.| |+|
T Consensus 345 ~d~KpykCpV~gC~K~YknqnGLKYH~l--hGH~-~~--~~~~~p------~p~~~~~F~-----~~~KPYrCev--C~K 406 (423)
T COG5189 345 KDGKPYKCPVEGCNKKYKNQNGLKYHML--HGHQ-NQ--KLHENP------SPEKMNIFS-----AKDKPYRCEV--CDK 406 (423)
T ss_pred ecCceecCCCCCchhhhccccchhhhhh--cccc-Cc--ccCCCC------Ccccccccc-----ccCCceeccc--cch
Confidence 3459999999999999999999999985 4321 10 111111 112234341 2468999977 999
Q ss_pred cCCChhHHHhHHhhhc
Q 025436 142 KFKNYKSRQQHLVDKH 157 (253)
Q Consensus 142 kF~t~~~rk~Hl~~~H 157 (253)
++++...||.|..--|
T Consensus 407 RYKNlNGLKYHr~Hsh 422 (423)
T COG5189 407 RYKNLNGLKYHRKHSH 422 (423)
T ss_pred hhccCccceecccccC
Confidence 9999999999976544
No 21
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.58 E-value=4.2e-05 Score=57.70 Aligned_cols=74 Identities=18% Similarity=0.356 Sum_probs=22.0
Q ss_pred EecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChh
Q 025436 68 CCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYK 147 (253)
Q Consensus 68 ~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~ 147 (253)
+|.+ |+..|.+...|..|+...|.+....... +.....|..++.. .-...+.|.+ |++.|.+..
T Consensus 1 ~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~~~-l~~~~~~~~~~~~-----------~~~~~~~C~~--C~~~f~s~~ 64 (100)
T PF12756_consen 1 QCLF--CDESFSSVDDLLQHMKKKHGFDIPDQKY-LVDPNRLLNYLRK-----------KVKESFRCPY--CNKTFRSRE 64 (100)
T ss_dssp --------------------------------------------------------------SSEEBSS--SS-EESSHH
T ss_pred Cccc--cccccccccccccccccccccccccccc-ccccccccccccc-----------ccCCCCCCCc--cCCCCcCHH
Confidence 4777 9999999999999998778765442222 2233333334432 1123699988 999999999
Q ss_pred HHHhHHhhhc
Q 025436 148 SRQQHLVDKH 157 (253)
Q Consensus 148 ~rk~Hl~~~H 157 (253)
.++.||..++
T Consensus 65 ~l~~Hm~~~~ 74 (100)
T PF12756_consen 65 ALQEHMRSKH 74 (100)
T ss_dssp HHHHHHHHTT
T ss_pred HHHHHHcCcc
Confidence 9999998653
No 22
>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=97.56 E-value=3.7e-05 Score=46.43 Aligned_cols=26 Identities=35% Similarity=0.639 Sum_probs=21.8
Q ss_pred hhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCC
Q 025436 108 LLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKN 145 (253)
Q Consensus 108 ~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t 145 (253)
.|..|++ .|+|++||.|.+ |+++|.+
T Consensus 1 ~l~~H~~----------~H~~~k~~~C~~--C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMR----------THTGEKPYKCPY--CGKSFSN 26 (26)
T ss_dssp HHHHHHH----------HHSSSSSEEESS--SSEEESS
T ss_pred CHHHHhh----------hcCCCCCCCCCC--CcCeeCc
Confidence 4788887 478999999977 9999974
No 23
>PHA00732 hypothetical protein
Probab=97.41 E-value=9e-05 Score=56.38 Aligned_cols=44 Identities=25% Similarity=0.499 Sum_probs=36.8
Q ss_pred ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChhHHHhHHh
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYKSRQQHLV 154 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~ 154 (253)
|.|..|++.|.+...|..|++.+| . ++.|.. ||+.|. .+..|+.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H---------~---~~~C~~--CgKsF~---~l~~H~~ 45 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNH---------T---LTKCPV--CNKSYR---RLNQHFY 45 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhccc---------C---CCccCC--CCCEeC---Chhhhhc
Confidence 789999999999999999997433 2 368966 999998 5788985
No 24
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.29 E-value=0.0002 Score=71.92 Aligned_cols=74 Identities=22% Similarity=0.447 Sum_probs=50.9
Q ss_pred EecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChh
Q 025436 68 CCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYK 147 (253)
Q Consensus 68 ~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~ 147 (253)
.|+..+|+..| ...+++.| +.|+.|++.|. ...|+.|+..+| .+|.|+ ||+.+ ...
T Consensus 435 ~Cp~~~Cg~v~-~r~el~~H------~~C~~Cgk~f~-~s~LekH~~~~H------------kpv~Cp---Cg~~~-~R~ 490 (567)
T PLN03086 435 VCPHDGCGIVL-RVEEAKNH------VHCEKCGQAFQ-QGEMEKHMKVFH------------EPLQCP---CGVVL-EKE 490 (567)
T ss_pred eCCccccccee-eccccccC------ccCCCCCCccc-hHHHHHHHHhcC------------CCccCC---CCCCc-chh
Confidence 45444565555 34444444 36999999996 577899987532 579995 99755 678
Q ss_pred HHHhHHhhhcCCCCccccc
Q 025436 148 SRQQHLVDKHKFPTSFEFF 166 (253)
Q Consensus 148 ~rk~Hl~~~H~~p~~f~f~ 166 (253)
.|..|+. .|.-.+++.|.
T Consensus 491 ~L~~H~~-thCp~Kpi~C~ 508 (567)
T PLN03086 491 QMVQHQA-STCPLRLITCR 508 (567)
T ss_pred HHHhhhh-ccCCCCceeCC
Confidence 9999974 67656666665
No 25
>PHA00616 hypothetical protein
Probab=97.17 E-value=0.00016 Score=49.32 Aligned_cols=33 Identities=36% Similarity=0.694 Sum_probs=22.3
Q ss_pred ceecCccccCCcCCChhHHHhHHhhhcCCCCccccc
Q 025436 131 MYECLVEGCGLKFKNYKSRQQHLVDKHKFPTSFEFF 166 (253)
Q Consensus 131 ~y~C~vegC~kkF~t~~~rk~Hl~~~H~~p~~f~f~ 166 (253)
||+|+. ||+.|..++++..|++.+|+ .++|.++
T Consensus 1 pYqC~~--CG~~F~~~s~l~~H~r~~hg-~~~~~~~ 33 (44)
T PHA00616 1 MYQCLR--CGGIFRKKKEVIEHLLSVHK-QNKLTLE 33 (44)
T ss_pred CCccch--hhHHHhhHHHHHHHHHHhcC-CCcccee
Confidence 577865 88888888888888765554 3554443
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=97.04 E-value=0.00047 Score=48.30 Aligned_cols=47 Identities=23% Similarity=0.508 Sum_probs=38.7
Q ss_pred ceEecCCCCCcccCChhHHHhhHhCcCc-----ccCCCCCccCCCchhhhhhhhhhc
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNARHT-----ASCSVCCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~~H~-----~~Cs~C~ksF~s~~~L~~Hi~e~H 117 (253)
.|.|++ |++ -.+..+|..|+...|. ++|++|...+.. .|..|+...|
T Consensus 2 ~f~CP~--C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~--~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPY--CGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVTD--NLIRHLNSQH 53 (54)
T ss_pred CcCCCC--CCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhhh--HHHHHHHHhc
Confidence 489999 999 5667899999987774 889999987553 8999998655
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=96.96 E-value=0.00021 Score=41.12 Aligned_cols=15 Identities=27% Similarity=0.724 Sum_probs=5.5
Q ss_pred cCCcCCChhHHHhHH
Q 025436 139 CGLKFKNYKSRQQHL 153 (253)
Q Consensus 139 C~kkF~t~~~rk~Hl 153 (253)
|++.|.+...|+.|+
T Consensus 6 C~~~f~~~~~l~~H~ 20 (23)
T PF00096_consen 6 CGKSFSSKSNLKRHM 20 (23)
T ss_dssp TTEEESSHHHHHHHH
T ss_pred CCCccCCHHHHHHHH
Confidence 333333333333333
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.87 E-value=0.00041 Score=39.40 Aligned_cols=19 Identities=32% Similarity=0.707 Sum_probs=8.3
Q ss_pred cCCcCCChhHHHhHHhhhc
Q 025436 139 CGLKFKNYKSRQQHLVDKH 157 (253)
Q Consensus 139 C~kkF~t~~~rk~Hl~~~H 157 (253)
|++.|.+...|+.|+..+|
T Consensus 6 C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 6 CGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp TS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCcHHHHHHHHHhhC
Confidence 4444444444444444443
No 29
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.85 E-value=0.00079 Score=38.20 Aligned_cols=24 Identities=21% Similarity=0.574 Sum_probs=20.0
Q ss_pred ccCCCCCccCCCchhhhhhhhhhc
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e~H 117 (253)
|.|++|++.|++...|..|+..+|
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 689999999999999999998754
No 30
>PHA00616 hypothetical protein
Probab=96.77 E-value=0.00042 Score=47.30 Aligned_cols=33 Identities=9% Similarity=0.149 Sum_probs=23.8
Q ss_pred ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCc
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLV 136 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~v 136 (253)
|.|..||+.|..+..|..|++. |.|++++.|..
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~----------~hg~~~~~~~~ 34 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLS----------VHKQNKLTLEY 34 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHH----------hcCCCccceeE
Confidence 6777777777777777777764 44677777753
No 31
>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=96.69 E-value=0.00085 Score=38.56 Aligned_cols=22 Identities=18% Similarity=0.569 Sum_probs=20.6
Q ss_pred ccCCCCCccCCCchhhhhhhhh
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSE 115 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e 115 (253)
|+|..|++.|+++..|..|++.
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 6899999999999999999974
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.42 E-value=0.001 Score=62.64 Aligned_cols=25 Identities=28% Similarity=0.582 Sum_probs=21.2
Q ss_pred cccCCC--CCccCCCchhhhhhhhhhc
Q 025436 93 TASCSV--CCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 93 ~~~Cs~--C~ksF~s~~~L~~Hi~e~H 117 (253)
.|.|.+ |.|.|.+..-|+.|+..=|
T Consensus 349 pykCpV~gC~K~YknqnGLKYH~lhGH 375 (423)
T COG5189 349 PYKCPVEGCNKKYKNQNGLKYHMLHGH 375 (423)
T ss_pred eecCCCCCchhhhccccchhhhhhccc
Confidence 499987 9999999999999987544
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=95.91 E-value=0.0073 Score=35.92 Aligned_cols=23 Identities=22% Similarity=0.491 Sum_probs=16.7
Q ss_pred ceEecCCCCCcccCChhHHHhhHhC
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNA 90 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~ 90 (253)
+|.|.. |++.|.+...|..|++.
T Consensus 1 ~~~C~~--C~~~F~~~~~l~~H~~~ 23 (27)
T PF13912_consen 1 PFECDE--CGKTFSSLSALREHKRS 23 (27)
T ss_dssp SEEETT--TTEEESSHHHHHHHHCT
T ss_pred CCCCCc--cCCccCChhHHHHHhHH
Confidence 467766 77777777777777754
No 34
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=95.88 E-value=0.0027 Score=61.67 Aligned_cols=52 Identities=17% Similarity=0.362 Sum_probs=44.7
Q ss_pred cceEecCCCCCcccCChhHHHhhHhCcC------------------------------------cccCCCCCccCCCchh
Q 025436 65 RRVCCPIVGCNARMRSLEEFEDHYNARH------------------------------------TASCSVCCRVYPTSRL 108 (253)
Q Consensus 65 k~f~C~~~gC~k~F~s~~~L~~H~~~~H------------------------------------~~~Cs~C~ksF~s~~~ 108 (253)
-.|+|+. |+|.|+...+|-.|.+-+. -|.|..|+|.|.++..
T Consensus 294 vEYrCPE--C~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAY 371 (500)
T KOG3993|consen 294 VEYRCPE--CDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAY 371 (500)
T ss_pred eeecCCc--ccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHH
Confidence 3799977 9999999999999975211 1889999999999999
Q ss_pred hhhhhhhhcc
Q 025436 109 LSIHVSEAHD 118 (253)
Q Consensus 109 L~~Hi~e~Hd 118 (253)
|+.|...+|.
T Consensus 372 LrKHqlthq~ 381 (500)
T KOG3993|consen 372 LRKHQLTHQR 381 (500)
T ss_pred HHHhHHhhhc
Confidence 9999888774
No 35
>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=95.86 E-value=0.0047 Score=37.14 Aligned_cols=19 Identities=16% Similarity=0.506 Sum_probs=17.1
Q ss_pred ccCCCcceEecCCCCCcccCC
Q 025436 60 VTEDGRRVCCPIVGCNARMRS 80 (253)
Q Consensus 60 ~h~~~k~f~C~~~gC~k~F~s 80 (253)
.|+|++||.|+. |+++|.+
T Consensus 8 ~H~~~k~~~C~~--C~k~F~~ 26 (26)
T PF13465_consen 8 THTGEKPYKCPY--CGKSFSN 26 (26)
T ss_dssp HHSSSSSEEESS--SSEEESS
T ss_pred hcCCCCCCCCCC--CcCeeCc
Confidence 589999999988 9999974
No 36
>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=95.44 E-value=0.0084 Score=35.65 Aligned_cols=24 Identities=25% Similarity=0.573 Sum_probs=15.7
Q ss_pred ceecCccccCCcCCChhHHHhHHhhh
Q 025436 131 MYECLVEGCGLKFKNYKSRQQHLVDK 156 (253)
Q Consensus 131 ~y~C~vegC~kkF~t~~~rk~Hl~~~ 156 (253)
+|.|.+ |++.|.+...+..|++.+
T Consensus 1 ~~~C~~--C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDE--CGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETT--TTEEESSHHHHHHHHCTT
T ss_pred CCCCCc--cCCccCChhHHHHHhHHh
Confidence 466755 777777777777776533
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.34 E-value=0.025 Score=32.04 Aligned_cols=21 Identities=24% Similarity=0.583 Sum_probs=14.2
Q ss_pred ccCCCCCccCCCchhhhhhhh
Q 025436 94 ASCSVCCRVYPTSRLLSIHVS 114 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~ 114 (253)
|.|..|++.|.+...|..|+.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 456677777777777777765
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=94.30 E-value=0.014 Score=41.21 Aligned_cols=28 Identities=21% Similarity=0.435 Sum_probs=11.9
Q ss_pred CCceecCccccCCcCCChhHHHhHHhhhcC
Q 025436 129 YPMYECLVEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 129 ek~y~C~vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
+.|-.|++ |+..+..+.+|++||...|.
T Consensus 22 ~~PatCP~--C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 22 EQPATCPI--CGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp S--EE-TT--T--EESSHHHHHHHHHHHTT
T ss_pred CCCCCCCc--chhhccchhhHHHHHHHHhc
Confidence 34455544 55555555555555544444
No 39
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=93.72 E-value=0.061 Score=31.25 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=15.4
Q ss_pred eEecCCCCCcccCChhHHHhhHhC
Q 025436 67 VCCPIVGCNARMRSLEEFEDHYNA 90 (253)
Q Consensus 67 f~C~~~gC~k~F~s~~~L~~H~~~ 90 (253)
|.|.+ |++.|.+...|+.|++.
T Consensus 1 ~~C~~--C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDI--CNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETT--TTEEESSHHHHHHHHTT
T ss_pred CCCCC--CCCCcCCHHHHHHHHCc
Confidence 56766 77777777777777753
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=93.61 E-value=0.059 Score=30.41 Aligned_cols=24 Identities=33% Similarity=0.739 Sum_probs=20.8
Q ss_pred eecCccccCCcCCChhHHHhHHhhhcC
Q 025436 132 YECLVEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 132 y~C~vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
|.|.. |++.|.+...+..|++ .|.
T Consensus 1 ~~C~~--C~~~f~~~~~l~~H~~-~H~ 24 (26)
T smart00355 1 YRCPE--CGKVFKSKSALKEHMR-THX 24 (26)
T ss_pred CCCCC--CcchhCCHHHHHHHHH-Hhc
Confidence 67966 9999999999999986 654
No 41
>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=92.80 E-value=0.056 Score=32.38 Aligned_cols=21 Identities=19% Similarity=0.534 Sum_probs=14.1
Q ss_pred ccCCCCCccCCCchhhhhhhh
Q 025436 94 ASCSVCCRVYPTSRLLSIHVS 114 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~ 114 (253)
|.|..|++.|.+...|+.|+.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 456667777777777766664
No 42
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.69 E-value=0.058 Score=55.42 Aligned_cols=44 Identities=23% Similarity=0.477 Sum_probs=27.9
Q ss_pred EecCCCCCcccCChhHHHhhHhCcCc-ccCCC----------CCccCCCchhhhhhhh
Q 025436 68 CCPIVGCNARMRSLEEFEDHYNARHT-ASCSV----------CCRVYPTSRLLSIHVS 114 (253)
Q Consensus 68 ~C~~~gC~k~F~s~~~L~~H~~~~H~-~~Cs~----------C~ksF~s~~~L~~Hi~ 114 (253)
.|.+ | ..|.++..|+.||...|. +-|.. |.|-|....++..++.
T Consensus 117 ~~~~--c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~ 171 (669)
T KOG2231|consen 117 ECLH--C-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMF 171 (669)
T ss_pred CCcc--c-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhc
Confidence 4655 6 677899999999976675 33433 4555555554444443
No 43
>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=91.99 E-value=0.11 Score=36.82 Aligned_cols=32 Identities=28% Similarity=0.504 Sum_probs=22.9
Q ss_pred hhHhCcCcccCCCCCccCCCchhhhhhhhhhc
Q 025436 86 DHYNARHTASCSVCCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 86 ~H~~~~H~~~Cs~C~ksF~s~~~L~~Hi~e~H 117 (253)
.|++..+...|++|+..+++..+|.+|+..+|
T Consensus 17 ~~~~S~~PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 17 SKSQSEQPATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp CCCTTS--EE-TTT--EESSHHHHHHHHHHHT
T ss_pred HhhccCCCCCCCcchhhccchhhHHHHHHHHh
Confidence 35556678999999999999999999997666
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=91.96 E-value=0.093 Score=30.43 Aligned_cols=21 Identities=33% Similarity=0.654 Sum_probs=14.0
Q ss_pred eecCccccCCcCCChhHHHhHHh
Q 025436 132 YECLVEGCGLKFKNYKSRQQHLV 154 (253)
Q Consensus 132 y~C~vegC~kkF~t~~~rk~Hl~ 154 (253)
|.|.+ |++.|.+...++.|+.
T Consensus 1 ~~C~~--C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDI--CNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETT--TTEEESSHHHHHHHHT
T ss_pred CCCCC--CCCCcCCHHHHHHHHC
Confidence 45655 7777777777777764
No 45
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=91.53 E-value=0.066 Score=58.34 Aligned_cols=80 Identities=24% Similarity=0.372 Sum_probs=62.0
Q ss_pred CCcccCChhHHHhhHhCcC----cccCCCCCccCCCchhhhhhhhhhc-ch------hhhh--hhhc------CCCceec
Q 025436 74 CNARMRSLEEFEDHYNARH----TASCSVCCRVYPTSRLLSIHVSEAH-DS------FFQA--KVAR------GYPMYEC 134 (253)
Q Consensus 74 C~k~F~s~~~L~~H~~~~H----~~~Cs~C~ksF~s~~~L~~Hi~e~H-d~------~f~~--~~h~------gek~y~C 134 (253)
|+-.|.+...++.|+...| +++|.+|+..|+....|..|+++.| ++ +++. +..+ +.++|.|
T Consensus 442 ~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C 521 (1406)
T KOG1146|consen 442 AEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPC 521 (1406)
T ss_pred hhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccc
Confidence 6667888888888876555 4999999999999999999999855 43 1222 1122 2368999
Q ss_pred CccccCCcCCChhHHHhHHhh
Q 025436 135 LVEGCGLKFKNYKSRQQHLVD 155 (253)
Q Consensus 135 ~vegC~kkF~t~~~rk~Hl~~ 155 (253)
.+ |...+++..+|-+||..
T Consensus 522 ~~--C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 522 RA--CNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ee--eeeeeecchHHHHHHHH
Confidence 77 99999999999999963
No 46
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=91.19 E-value=0.13 Score=30.83 Aligned_cols=22 Identities=18% Similarity=0.551 Sum_probs=20.2
Q ss_pred eEecCCCCCcccCChhHHHhhHhC
Q 025436 67 VCCPIVGCNARMRSLEEFEDHYNA 90 (253)
Q Consensus 67 f~C~~~gC~k~F~s~~~L~~H~~~ 90 (253)
|.|.+ |++.|.+...|+.|+++
T Consensus 2 ~~C~~--C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDA--CDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTT--TTBBBSSHHHHHCCTTS
T ss_pred CCccc--CCCCcCCHHHHHHHHcc
Confidence 68988 99999999999999975
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=90.28 E-value=0.21 Score=28.82 Aligned_cols=23 Identities=26% Similarity=0.586 Sum_probs=13.2
Q ss_pred eecCccccCCcCCChhHHHhHHhhhc
Q 025436 132 YECLVEGCGLKFKNYKSRQQHLVDKH 157 (253)
Q Consensus 132 y~C~vegC~kkF~t~~~rk~Hl~~~H 157 (253)
|+|.. |+-... ...++.|+..+|
T Consensus 1 y~C~~--C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPH--CSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SS--SS-EES-HHHHHHHHHHHH
T ss_pred CCCCC--CCCcCC-HHHHHHHHHhhC
Confidence 56655 666665 666667766555
No 48
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.92 E-value=0.2 Score=48.05 Aligned_cols=92 Identities=24% Similarity=0.408 Sum_probs=55.4
Q ss_pred cceEecCCCCCcccCChhHHHhhHhCcC-cccCCCCC---ccCCCc------hhhhhhhhhhcchhhhhhhhcCC-Ccee
Q 025436 65 RRVCCPIVGCNARMRSLEEFEDHYNARH-TASCSVCC---RVYPTS------RLLSIHVSEAHDSFFQAKVARGY-PMYE 133 (253)
Q Consensus 65 k~f~C~~~gC~k~F~s~~~L~~H~~~~H-~~~Cs~C~---ksF~s~------~~L~~Hi~e~Hd~~f~~~~h~ge-k~y~ 133 (253)
-.|.|+...|...-..+.+|+.|+...| .+.|..|- +.|+.. ..|..|... =+ ...|- .-=.
T Consensus 150 L~F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~-G~------~e~GFKGHP~ 222 (493)
T COG5236 150 LSFKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNG-GL------EEEGFKGHPL 222 (493)
T ss_pred HHhcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccC-Cc------cccCcCCCch
Confidence 3589999999999999999999998755 36676663 455543 233334321 00 01111 1125
Q ss_pred cCccccCCcCCChhHHHhHHhhhcCCCCcccccc
Q 025436 134 CLVEGCGLKFKNYKSRQQHLVDKHKFPTSFEFFK 167 (253)
Q Consensus 134 C~vegC~kkF~t~~~rk~Hl~~~H~~p~~f~f~~ 167 (253)
|-+ |...|.....|..|++..|. +=|-||+
T Consensus 223 C~F--C~~~FYdDDEL~~HcR~~HE--~ChICD~ 252 (493)
T COG5236 223 CIF--CKIYFYDDDELRRHCRLRHE--ACHICDM 252 (493)
T ss_pred hhh--ccceecChHHHHHHHHhhhh--hhhhhhc
Confidence 755 77777777777777776663 3344444
No 49
>PRK04860 hypothetical protein; Provisional
Probab=88.81 E-value=0.26 Score=42.22 Aligned_cols=39 Identities=26% Similarity=0.496 Sum_probs=31.4
Q ss_pred CcccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCCh
Q 025436 92 HTASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNY 146 (253)
Q Consensus 92 H~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~ 146 (253)
+.|.|. |+. ....+.+|.+ .++++++|.|.. |+..|.-.
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~r----------i~~g~~~YrC~~--C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNR----------VVRGEAVYRCRR--CGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHH----------HhcCCccEECCC--CCceeEEe
Confidence 569998 998 6777788886 478899999966 99988654
No 50
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=87.08 E-value=0.34 Score=27.92 Aligned_cols=20 Identities=20% Similarity=0.404 Sum_probs=8.4
Q ss_pred cCCCCCccCCCchhhhhhhhh
Q 025436 95 SCSVCCRVYPTSRLLSIHVSE 115 (253)
Q Consensus 95 ~Cs~C~ksF~s~~~L~~Hi~e 115 (253)
.|..|..+.. ...|..|+..
T Consensus 2 ~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 2 KCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp E-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCcCC-HHHHHHHHHh
Confidence 4444554444 4445555443
No 51
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=85.40 E-value=0.69 Score=28.64 Aligned_cols=23 Identities=22% Similarity=0.505 Sum_probs=16.4
Q ss_pred ceEecCCCCCcccCChhHHHhhHhC
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNA 90 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~ 90 (253)
+|.|.+ |++.|.+...++.|++.
T Consensus 3 ~~~C~~--C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKL--CNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccc--cCCccCCHHHHHHHHCh
Confidence 467777 77777777777777753
No 52
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=84.74 E-value=0.74 Score=27.45 Aligned_cols=21 Identities=33% Similarity=0.684 Sum_probs=15.1
Q ss_pred ceecCccccCCcCCChhHHHhHHh
Q 025436 131 MYECLVEGCGLKFKNYKSRQQHLV 154 (253)
Q Consensus 131 ~y~C~vegC~kkF~t~~~rk~Hl~ 154 (253)
+..|++ ||++| ....+..|+.
T Consensus 2 l~~C~~--CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 2 LVPCPI--CGRKF-NPDRLEKHEK 22 (25)
T ss_pred CCcCCC--CCCEE-CHHHHHHHHH
Confidence 356866 88888 6667777764
No 53
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=84.37 E-value=0.55 Score=42.67 Aligned_cols=65 Identities=17% Similarity=0.261 Sum_probs=51.9
Q ss_pred cccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCC--CceecCccccCCcCCChhHHHhHHhhhcCCCCccccc
Q 025436 93 TASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGY--PMYECLVEGCGLKFKNYKSRQQHLVDKHKFPTSFEFF 166 (253)
Q Consensus 93 ~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~ge--k~y~C~vegC~kkF~t~~~rk~Hl~~~H~~p~~f~f~ 166 (253)
.+.|..|...|.....|..|.+. ..|.++ +++.|++..|++.|.....+..|.. .|.....+.+.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~--------~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 355 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRS--------VNHSGESLKPFSCPYSLCGKLFSRNDALKRHIL-LHTSISPAKEK 355 (467)
T ss_pred CCCCccccCCccccccccccccc--------cccccccCCceeeeccCCCccccccccccCCcc-cccCCCccccc
Confidence 37899999999999999999974 025677 8999996679999999999999985 56555444443
No 54
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=84.07 E-value=0.59 Score=27.87 Aligned_cols=19 Identities=26% Similarity=0.662 Sum_probs=11.0
Q ss_pred cCCCCCccCCCchhhhhhhh
Q 025436 95 SCSVCCRVYPTSRLLSIHVS 114 (253)
Q Consensus 95 ~Cs~C~ksF~s~~~L~~Hi~ 114 (253)
.|..||+.| ....|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 466666666 5555555553
No 55
>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=81.63 E-value=1.3 Score=27.33 Aligned_cols=23 Identities=26% Similarity=0.559 Sum_probs=20.1
Q ss_pred ceecCccccCCcCCChhHHHhHHhh
Q 025436 131 MYECLVEGCGLKFKNYKSRQQHLVD 155 (253)
Q Consensus 131 ~y~C~vegC~kkF~t~~~rk~Hl~~ 155 (253)
+|.|.+ |++.|.+...++.|+..
T Consensus 3 ~~~C~~--C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKL--CNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccc--cCCccCCHHHHHHHHCh
Confidence 588977 99999999999999863
No 56
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=81.51 E-value=0.44 Score=43.78 Aligned_cols=46 Identities=26% Similarity=0.473 Sum_probs=26.4
Q ss_pred ecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCCCchhhhhhhhhhc
Q 025436 69 CPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 69 C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~s~~~L~~Hi~e~H 117 (253)
|-. |+..|..-.-|..|... .-|.|.+|.|..-+---|.+|.-..|
T Consensus 13 cwy--cnrefddekiliqhqka-khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 13 CWY--CNREFDDEKILIQHQKA-KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eee--cccccchhhhhhhhhhh-ccceeeeehhhhccCCCceeehhhhh
Confidence 544 66666666666666643 22666666666656555666654433
No 57
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=80.92 E-value=0.46 Score=42.24 Aligned_cols=17 Identities=18% Similarity=0.768 Sum_probs=8.0
Q ss_pred ceEecCCCCCcccCChhHH
Q 025436 66 RVCCPIVGCNARMRSLEEF 84 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L 84 (253)
.+.|++ |++.|.+..-.
T Consensus 5 ~~~CPv--C~~~F~~~~vr 21 (214)
T PF09986_consen 5 KITCPV--CGKEFKTKKVR 21 (214)
T ss_pred ceECCC--CCCeeeeeEEE
Confidence 345554 55555444333
No 58
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=80.09 E-value=1.3 Score=40.26 Aligned_cols=57 Identities=25% Similarity=0.470 Sum_probs=48.6
Q ss_pred ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChhHHHhHHhhhcCCC
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYKSRQQHLVDKHKFP 160 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~~p 160 (253)
+.|..|..+|.....+..|+. .+.+++++.|...+|...|.....+..|+..++...
T Consensus 34 ~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (467)
T COG5048 34 DSCPNCTDSFSRLEHLTRHIR----------SHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNP 90 (467)
T ss_pred hhcccccccccccchhhhhcc----------cccccCCccccccccccccCCcchhhhhcccccccc
Confidence 778888888888888888886 478899999999999999999999999987666543
No 59
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=80.06 E-value=0.59 Score=33.78 Aligned_cols=32 Identities=22% Similarity=0.453 Sum_probs=27.3
Q ss_pred cCCCcceEecCCCCCcccCChhHHHhhHhCcCcc
Q 025436 61 TEDGRRVCCPIVGCNARMRSLEEFEDHYNARHTA 94 (253)
Q Consensus 61 h~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~~ 94 (253)
..|+.-+.|+- |++.|....+|.+|.+..|.|
T Consensus 12 RDGE~~lrCPR--C~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 12 RDGEEFLRCPR--CGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred cCCceeeeCCc--hhHHHHHhHHHHHHhhHHhhh
Confidence 45778899977 999999999999999876754
No 60
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=79.12 E-value=0.52 Score=45.30 Aligned_cols=77 Identities=25% Similarity=0.501 Sum_probs=49.7
Q ss_pred CcceEecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcC
Q 025436 64 GRRVCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKF 143 (253)
Q Consensus 64 ~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF 143 (253)
.++|.|+++.|.+.+.....|+-|-+..| |+-- .-+++ ...-|..++ ...|+|.|+| |.++.
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h---~s~i--~~~s~------~~~ph~~~~-----~~nk~~r~~i--~~~~~ 408 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGH---CSPI--TTPTP------APIPHQGFV-----VENKPYRCEV--CSKRY 408 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCc---CCCC--CCCCC------CCCCcceee-----eccCcccChh--hhhhh
Confidence 47899999999999999999998876544 2211 11111 112232211 1257888877 88888
Q ss_pred CChhHHHhHHhhhcC
Q 025436 144 KNYKSRQQHLVDKHK 158 (253)
Q Consensus 144 ~t~~~rk~Hl~~~H~ 158 (253)
+....|+.|....|.
T Consensus 409 k~~~~l~~~~~~~~~ 423 (442)
T KOG4124|consen 409 KNLNGLKYHRTHSHL 423 (442)
T ss_pred ccCCCCCceeehhhh
Confidence 887777777655554
No 61
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=79.06 E-value=1.5 Score=32.61 Aligned_cols=23 Identities=35% Similarity=0.787 Sum_probs=14.0
Q ss_pred ceEecCCCCCcccCChhHHHhhHhC
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNA 90 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~ 90 (253)
.+.|.+ |++.|.+...|..|++.
T Consensus 50 ~~~C~~--C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 50 SFRCPY--CNKTFRSREALQEHMRS 72 (100)
T ss_dssp SEEBSS--SS-EESSHHHHHHHHHH
T ss_pred CCCCCc--cCCCCcCHHHHHHHHcC
Confidence 466666 66666666666666653
No 62
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=76.16 E-value=2.5 Score=40.82 Aligned_cols=30 Identities=27% Similarity=0.467 Sum_probs=23.0
Q ss_pred CceecCccccCC----cCCChhHHHhHHhhhcCC
Q 025436 130 PMYECLVEGCGL----KFKNYKSRQQHLVDKHKF 159 (253)
Q Consensus 130 k~y~C~vegC~k----kF~t~~~rk~Hl~~~H~~ 159 (253)
.-|.|.+..|-- .|..-..|..|+.+.|+.
T Consensus 274 ~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~ 307 (493)
T COG5236 274 AHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHKV 307 (493)
T ss_pred CceEEEEEEEecCcEEEeccHHHHHHHHHHHhhc
Confidence 458888888853 478888899999888863
No 63
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=75.23 E-value=0.84 Score=50.18 Aligned_cols=88 Identities=13% Similarity=0.170 Sum_probs=68.2
Q ss_pred CcceEecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCCCchhhhhhhhhhcchhhhh--------hhhcCCCceecC
Q 025436 64 GRRVCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYPTSRLLSIHVSEAHDSFFQA--------KVARGYPMYECL 135 (253)
Q Consensus 64 ~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~--------~~h~gek~y~C~ 135 (253)
...+.|.. |++.|.....+. |+-..|.|.|..|...|.....|-.|.+.. ..+++- +.+.....| |.
T Consensus 1258 sGe~~c~~--~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~~l~~~~~k~-~~~~~~~~~~~~~~l~~~d~~~~-c~ 1332 (1406)
T KOG1146|consen 1258 SGEGECGA--VDELLTPSFGIS-TLDVTHRYLCRQCKMAFDGEAPLTAHQRKF-CFAGRGSGGSMPPPLRVPDCTYH-CL 1332 (1406)
T ss_pred CCcchhhh--ccccccCcccee-ecccchhHHHHHHHhhhcchhHHHHHHHHH-HhccCccccCCCCcccCcccccc-ch
Confidence 34688988 999999999999 988889999999999999999999998321 001111 112223446 98
Q ss_pred ccccCCcCCChhHHHhHHhhhcC
Q 025436 136 VEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 136 vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
+ |..-|.....|..||+..|.
T Consensus 1333 ~--c~~~~~~~~alqihm~~~~~ 1353 (1406)
T KOG1146|consen 1333 A--CEVLLSGREALQIHMRSSAH 1353 (1406)
T ss_pred H--HHhhcchhHHHHHHHHHhhh
Confidence 8 99999999999999987664
No 64
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=74.49 E-value=1.4 Score=40.66 Aligned_cols=48 Identities=23% Similarity=0.441 Sum_probs=41.7
Q ss_pred cCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChhHHHhHHhhhcC
Q 025436 95 SCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 95 ~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
=|=.|.+.|-....|..|.. -+-|+|.| |-++..+--.|..|+..+|+
T Consensus 12 wcwycnrefddekiliqhqk--------------akhfkchi--chkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQK--------------AKHFKCHI--CHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred eeeecccccchhhhhhhhhh--------------hccceeee--ehhhhccCCCceeehhhhhh
Confidence 48889999999999988875 34599988 99999998899999999987
No 65
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=70.78 E-value=2.5 Score=40.68 Aligned_cols=88 Identities=24% Similarity=0.466 Sum_probs=66.0
Q ss_pred ceEecCCCCCcccCChhHHHhhHhC-cC----------------------------------------------------
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNA-RH---------------------------------------------------- 92 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~-~H---------------------------------------------------- 92 (253)
.+.|-. |.+.|.....|+.||+. .|
T Consensus 195 r~~CLy--CekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~e 272 (423)
T KOG2482|consen 195 RLRCLY--CEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNE 272 (423)
T ss_pred hheeee--eccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhc
Confidence 478988 99999999999999974 22
Q ss_pred ------cccCCCCCccCCCchhhhhhhhhhcch------------hhhh-hh--hcCCCceecCccccCCcCCChhHHHh
Q 025436 93 ------TASCSVCCRVYPTSRLLSIHVSEAHDS------------FFQA-KV--ARGYPMYECLVEGCGLKFKNYKSRQQ 151 (253)
Q Consensus 93 ------~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~------------~f~~-~~--h~gek~y~C~vegC~kkF~t~~~rk~ 151 (253)
.-+|-.|....-+...|-.||.+.|+- |++. ++ --+..+++|.--+|+.+|.....+..
T Consensus 273 d~a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~ 352 (423)
T KOG2482|consen 273 DDAEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLI 352 (423)
T ss_pred CCCCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhh
Confidence 037888999999999999999999974 1221 10 11123444444669999999999999
Q ss_pred HHhh
Q 025436 152 HLVD 155 (253)
Q Consensus 152 Hl~~ 155 (253)
||..
T Consensus 353 hm~e 356 (423)
T KOG2482|consen 353 HMVE 356 (423)
T ss_pred hccc
Confidence 9974
No 66
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=66.24 E-value=10 Score=36.69 Aligned_cols=91 Identities=20% Similarity=0.329 Sum_probs=63.9
Q ss_pred CcceEecCCCCCcccC-ChhHHHhhHhCcC-------------------------cccCCCCCccCCCchhhhhhhhh-h
Q 025436 64 GRRVCCPIVGCNARMR-SLEEFEDHYNARH-------------------------TASCSVCCRVYPTSRLLSIHVSE-A 116 (253)
Q Consensus 64 ~k~f~C~~~gC~k~F~-s~~~L~~H~~~~H-------------------------~~~Cs~C~ksF~s~~~L~~Hi~e-~ 116 (253)
....+|-+ |...+. ....+-.|+-..| ++.|-.|.+.|+.+..|.-||+. .
T Consensus 142 ~fslqClF--Cn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~ 219 (423)
T KOG2482|consen 142 IFSLQCLF--CNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKR 219 (423)
T ss_pred eeeeEEEE--ecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhcc
Confidence 35679988 987664 4445556643223 48999999999999999999985 3
Q ss_pred cch----------hhhh--------------------h-------------hhcCCCc--eecCccccCCcCCChhHHHh
Q 025436 117 HDS----------FFQA--------------------K-------------VARGYPM--YECLVEGCGLKFKNYKSRQQ 151 (253)
Q Consensus 117 Hd~----------~f~~--------------------~-------------~h~gek~--y~C~vegC~kkF~t~~~rk~ 151 (253)
|.. ||-+ . ...+..+ ..|.+ |....-+...+..
T Consensus 220 HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLf--C~~~~en~~~l~e 297 (423)
T KOG2482|consen 220 HRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLF--CTNFYENPVFLFE 297 (423)
T ss_pred CcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEe--eccchhhHHHHHH
Confidence 421 1100 0 0111223 59999 9999999999999
Q ss_pred HHhhhcC
Q 025436 152 HLVDKHK 158 (253)
Q Consensus 152 Hl~~~H~ 158 (253)
||..+|.
T Consensus 298 Hmk~vHe 304 (423)
T KOG2482|consen 298 HMKIVHE 304 (423)
T ss_pred HHHHHHH
Confidence 9999993
No 67
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=61.26 E-value=6 Score=38.44 Aligned_cols=30 Identities=23% Similarity=0.439 Sum_probs=24.8
Q ss_pred hcCCCceecCccccCCcCCChhHHHhHHhhhc
Q 025436 126 ARGYPMYECLVEGCGLKFKNYKSRQQHLVDKH 157 (253)
Q Consensus 126 h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H 157 (253)
..+..++.|.+ |.++|.+......|+...-
T Consensus 63 e~~~~~~~c~~--c~k~~~s~~a~~~hl~Sk~ 92 (390)
T KOG2785|consen 63 EEAESVVYCEA--CNKSFASPKAHENHLKSKK 92 (390)
T ss_pred hhcccceehHH--hhccccChhhHHHHHHHhh
Confidence 34456899977 9999999999999997543
No 68
>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=61.11 E-value=6.3 Score=33.43 Aligned_cols=35 Identities=20% Similarity=0.353 Sum_probs=28.2
Q ss_pred CCCcceEecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCC
Q 025436 62 EDGRRVCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYP 104 (253)
Q Consensus 62 ~~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~ 104 (253)
+...-|.|+. |+..|+....++ ..|.|+.||...-
T Consensus 105 ~~~~~Y~Cp~--c~~r~tf~eA~~------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 105 TNNMFFICPN--MCVRFTFNEAME------LNFTCPRCGAMLD 139 (158)
T ss_pred cCCCeEECCC--CCcEeeHHHHHH------cCCcCCCCCCEee
Confidence 3456799966 999999999986 3699999997643
No 69
>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=58.93 E-value=7.8 Score=25.33 Aligned_cols=28 Identities=29% Similarity=0.457 Sum_probs=18.9
Q ss_pred CCCceecCccccCCcCCCh----hHHHhHHhhhc
Q 025436 128 GYPMYECLVEGCGLKFKNY----KSRQQHLVDKH 157 (253)
Q Consensus 128 gek~y~C~vegC~kkF~t~----~~rk~Hl~~~H 157 (253)
+.....|.+ |++.+... +.|++||+..|
T Consensus 13 ~~~~a~C~~--C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 13 DKKKAKCKY--CGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp CSS-EEETT--TTEE-----SSTHHHHHHHHHTT
T ss_pred CcCeEEeCC--CCeEEeeCCCcHHHHHHhhhhhC
Confidence 456789988 99998774 88999997666
No 70
>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=58.65 E-value=13 Score=29.16 Aligned_cols=27 Identities=26% Similarity=0.534 Sum_probs=24.2
Q ss_pred eec--CccccCCcCCChhHHHhHHhhhcC
Q 025436 132 YEC--LVEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 132 y~C--~vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
|.| ..++|+....+...+++|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 445599999999999999999995
No 71
>PRK04860 hypothetical protein; Provisional
Probab=57.95 E-value=6.3 Score=33.73 Aligned_cols=35 Identities=14% Similarity=0.283 Sum_probs=27.2
Q ss_pred ceEecCCCCCcccCChhHHHhhHhCc---CcccCCCCCccCCCc
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNAR---HTASCSVCCRVYPTS 106 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~~---H~~~Cs~C~ksF~s~ 106 (253)
+|.|. |++ ....+..|.++. ..|.|..|+..|.-.
T Consensus 119 ~Y~C~---C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK---CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC---CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 79994 987 777888888653 239999999988643
No 72
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.56 E-value=19 Score=37.60 Aligned_cols=70 Identities=26% Similarity=0.428 Sum_probs=38.6
Q ss_pred eEecCCCCCcccCChhHHHhhHhCcCcccCCCC------CccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccC
Q 025436 67 VCCPIVGCNARMRSLEEFEDHYNARHTASCSVC------CRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCG 140 (253)
Q Consensus 67 f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C------~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~ 140 (253)
-.|.. |...|-...+|.+|++..| +.|-.| .--|..-..|..|-++.| |.|..+-|-
T Consensus 183 p~C~~--C~~~fld~~el~rH~~~~h-~~chfC~~~~~~neyy~~~~dLe~HfR~~H--------------flCE~~~C~ 245 (669)
T KOG2231|consen 183 PLCKF--CHERFLDDDELYRHLRFDH-EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH--------------FLCEEEFCR 245 (669)
T ss_pred ccchh--hhhhhccHHHHHHhhccce-eheeecCcccccchhcccchHHHHHhhhcC--------------ccccccccc
Confidence 35655 7777777777777776433 444444 233444555777766544 667555665
Q ss_pred Cc-CCChhHHHhHH
Q 025436 141 LK-FKNYKSRQQHL 153 (253)
Q Consensus 141 kk-F~t~~~rk~Hl 153 (253)
-+ |.....+..||
T Consensus 246 ~~~f~~~~~~ei~l 259 (669)
T KOG2231|consen 246 TKKFYVAFELEIEL 259 (669)
T ss_pred cceeeehhHHHHHH
Confidence 43 33333444444
No 73
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=57.14 E-value=7.6 Score=32.33 Aligned_cols=37 Identities=22% Similarity=0.413 Sum_probs=23.5
Q ss_pred CCcceEecCCCCCcccCChhHHHh-hHhCcCcccCCCCCccC
Q 025436 63 DGRRVCCPIVGCNARMRSLEEFED-HYNARHTASCSVCCRVY 103 (253)
Q Consensus 63 ~~k~f~C~~~gC~k~F~s~~~L~~-H~~~~H~~~Cs~C~ksF 103 (253)
....|.|+. |+..|.....+.. +. ...|.|+.||...
T Consensus 96 ~~~~Y~Cp~--C~~~y~~~ea~~~~d~--~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPN--CQSKYTFLEANQLLDM--DGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcC--CCCEeeHHHHHHhcCC--CCcEECCCCCCEE
Confidence 345688865 8888886665543 32 2337888887654
No 74
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=54.15 E-value=9 Score=33.22 Aligned_cols=35 Identities=23% Similarity=0.466 Sum_probs=27.2
Q ss_pred CCcceEecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCCC
Q 025436 63 DGRRVCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYPT 105 (253)
Q Consensus 63 ~~k~f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~s 105 (253)
...-|.|+. |+..|+....++ ..|.|+.||-...-
T Consensus 114 ~~~~Y~Cp~--C~~rytf~eA~~------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPN--CHIRFTFDEAME------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCC--CCcEEeHHHHhh------cCCcCCCCCCCCee
Confidence 346799966 999999888874 46999999976544
No 75
>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=51.92 E-value=7.9 Score=32.27 Aligned_cols=26 Identities=38% Similarity=0.700 Sum_probs=16.8
Q ss_pred CCceecCccccCCcCCChhHHHhHHhhhcCC
Q 025436 129 YPMYECLVEGCGLKFKNYKSRQQHLVDKHKF 159 (253)
Q Consensus 129 ek~y~C~vegC~kkF~t~~~rk~Hl~~~H~~ 159 (253)
..-..|++ ||+.|++- ++|+..+|+.
T Consensus 70 ~d~i~cle--cGk~~k~L---krHL~~~~gl 95 (132)
T PF05443_consen 70 PDYIICLE--CGKKFKTL---KRHLRTHHGL 95 (132)
T ss_dssp SS-EE-TB--T--EESBH---HHHHHHTT-S
T ss_pred cCeeEEcc--CCcccchH---HHHHHHccCC
Confidence 34589988 99999875 8999877664
No 76
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=51.05 E-value=8.6 Score=35.59 Aligned_cols=43 Identities=19% Similarity=0.467 Sum_probs=25.0
Q ss_pred eEecCCCCCcccCChhHHHhhHhCcCc--ccCCCCCccCCCchhhhhhh
Q 025436 67 VCCPIVGCNARMRSLEEFEDHYNARHT--ASCSVCCRVYPTSRLLSIHV 113 (253)
Q Consensus 67 f~C~~~gC~k~F~s~~~L~~H~~~~H~--~~Cs~C~ksF~s~~~L~~Hi 113 (253)
|.|.. ||.+-. ...++.||-+.+. |.|--|++.|-. ..+..|+
T Consensus 4 FtCnv--CgEsvK-Kp~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNV--CGESVK-KPQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhh--hhhhcc-ccchHHHHHhccCCeeEEeeccccccc-chhhhhh
Confidence 56666 666543 3445666654443 666667776666 5555564
No 77
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=49.04 E-value=8.6 Score=37.96 Aligned_cols=17 Identities=24% Similarity=0.536 Sum_probs=8.6
Q ss_pred ccCCCCCccCCCchhhh
Q 025436 94 ASCSVCCRVYPTSRLLS 110 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~ 110 (253)
|.|+.|++.|.+--.|.
T Consensus 129 Y~Cp~C~kkyt~Lea~~ 145 (436)
T KOG2593|consen 129 YVCPNCQKKYTSLEALQ 145 (436)
T ss_pred ccCCccccchhhhHHHH
Confidence 55555555555444333
No 78
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=48.70 E-value=7.2 Score=28.27 Aligned_cols=31 Identities=26% Similarity=0.596 Sum_probs=26.7
Q ss_pred cCCCceecCccccCCcCCChhHHHhHHhhhcCC
Q 025436 127 RGYPMYECLVEGCGLKFKNYKSRQQHLVDKHKF 159 (253)
Q Consensus 127 ~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~~ 159 (253)
-||.-+.|+- ||..|....+..+|+-..|.+
T Consensus 13 DGE~~lrCPR--C~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 13 DGEEFLRCPR--CGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred CCceeeeCCc--hhHHHHHhHHHHHHhhHHhhh
Confidence 3678899977 999999999999999777764
No 79
>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=45.95 E-value=16 Score=28.58 Aligned_cols=26 Identities=15% Similarity=0.369 Sum_probs=23.2
Q ss_pred CcccC----CCCCccCCCchhhhhhhhhhc
Q 025436 92 HTASC----SVCCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 92 H~~~C----s~C~ksF~s~~~L~~Hi~e~H 117 (253)
..|.| ..|+....+...+..|.+..|
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 45999 899999999999999998766
No 80
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=45.81 E-value=13 Score=34.49 Aligned_cols=61 Identities=23% Similarity=0.472 Sum_probs=43.3
Q ss_pred ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCChhHHHhHHhhhc---CC-CCcccccccC
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNYKSRQQHLVDKH---KF-PTSFEFFKKA 169 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H---~~-p~~f~f~~~~ 169 (253)
|.|..||-+-+.. .|+.|+..+| + .-|+| -+|++.|.. .+.+.|..=+- .| +.-|.+..+.
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCr----------n-~~fSC--IDC~k~F~~-~sYknH~kCITEaQKYg~~l~~~~~Ke 68 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCR----------N-AYFSC--IDCGKTFER-VSYKNHTKCITEAQKYGKKLYGYGKKE 68 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhcc----------C-CeeEE--eeccccccc-chhhhhhhhcchHHHhhhhhcCcccch
Confidence 7899999987765 4666998654 3 56999 559999999 77788874332 23 3556666544
No 81
>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=43.83 E-value=11 Score=24.00 Aligned_cols=33 Identities=21% Similarity=0.582 Sum_probs=15.0
Q ss_pred eEecCCCCCcccCChhHHHhhHhCcCcccCCCCCccC
Q 025436 67 VCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVY 103 (253)
Q Consensus 67 f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF 103 (253)
+.|+. |+..|.-..+...-- .-...|+.|+..|
T Consensus 3 ~~CP~--C~~~~~v~~~~~~~~--~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPN--CKTSFRVVDSQLGAN--GGKVRCGKCGHVW 35 (38)
T ss_pred EECCC--CCCEEEeCHHHcCCC--CCEEECCCCCCEE
Confidence 45644 666655444332111 0124566666554
No 82
>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=41.50 E-value=18 Score=29.04 Aligned_cols=30 Identities=20% Similarity=0.442 Sum_probs=21.1
Q ss_pred ccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccCCcCCCh
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCGLKFKNY 146 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~kkF~t~ 146 (253)
.+|..||+.|-- .+..|..|+. ||..|...
T Consensus 10 R~Cp~CG~kFYD---------------------Lnk~PivCP~--CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYD---------------------LNKDPIVCPK--CGTEFPPE 39 (108)
T ss_pred ccCCCCcchhcc---------------------CCCCCccCCC--CCCccCcc
Confidence 578888887742 1345788977 98888766
No 83
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=41.19 E-value=15 Score=31.76 Aligned_cols=14 Identities=29% Similarity=0.619 Sum_probs=11.2
Q ss_pred hcCCCceecCccccCC
Q 025436 126 ARGYPMYECLVEGCGL 141 (253)
Q Consensus 126 h~gek~y~C~vegC~k 141 (253)
+.|+.|-+||+ ||-
T Consensus 144 ~~ge~P~~CPi--Cga 157 (166)
T COG1592 144 HEGEAPEVCPI--CGA 157 (166)
T ss_pred ccCCCCCcCCC--CCC
Confidence 45689999998 983
No 84
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=41.08 E-value=10 Score=32.08 Aligned_cols=23 Identities=39% Similarity=0.508 Sum_probs=18.5
Q ss_pred ceecCccccCCcCCChhHHHhHHhhhcC
Q 025436 131 MYECLVEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 131 ~y~C~vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
-..|+. ||++|+ +||+||..+|.
T Consensus 76 ~IicLE--DGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 76 YIICLE--DGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred eEEEec--cCcchH---HHHHHHhcccC
Confidence 368977 999997 58999987665
No 85
>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=40.89 E-value=22 Score=21.34 Aligned_cols=19 Identities=26% Similarity=0.391 Sum_probs=14.3
Q ss_pred eecCccccCCcCCChhHHHhHH
Q 025436 132 YECLVEGCGLKFKNYKSRQQHL 153 (253)
Q Consensus 132 y~C~vegC~kkF~t~~~rk~Hl 153 (253)
..|++ |++.+ .......|+
T Consensus 2 v~CPi--C~~~v-~~~~in~HL 20 (26)
T smart00734 2 VQCPV--CFREV-PENLINSHL 20 (26)
T ss_pred CcCCC--CcCcc-cHHHHHHHH
Confidence 46888 98888 556777776
No 86
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=39.41 E-value=13 Score=32.93 Aligned_cols=52 Identities=23% Similarity=0.407 Sum_probs=34.3
Q ss_pred CcccCCCCCccCCCchhhhhhhhh-hcchhhhhhhhcCCCc-----eecCccccCCcCCCh
Q 025436 92 HTASCSVCCRVYPTSRLLSIHVSE-AHDSFFQAKVARGYPM-----YECLVEGCGLKFKNY 146 (253)
Q Consensus 92 H~~~Cs~C~ksF~s~~~L~~Hi~e-~Hd~~f~~~~h~gek~-----y~C~vegC~kkF~t~ 146 (253)
...+|++|++.|.++..+...++. ..|+-|.. ...+.-| ..|+. ||-.|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~-~Y~~vnP~~Y~V~vCP~--CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCP-RYKGVNPLFYEVWVCPH--CGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCcc-ccCCCCCeeeeEEECCC--CCCccccc
Confidence 357899999999999888877753 23332211 1223333 58977 99887755
No 87
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=39.28 E-value=7.9 Score=33.02 Aligned_cols=18 Identities=33% Similarity=0.886 Sum_probs=13.5
Q ss_pred eecCccccCCcCCChhHHHh
Q 025436 132 YECLVEGCGLKFKNYKSRQQ 151 (253)
Q Consensus 132 y~C~vegC~kkF~t~~~rk~ 151 (253)
|+|+- ||..|.+.....-
T Consensus 29 ~~c~~--c~~~f~~~e~~~~ 46 (154)
T PRK00464 29 RECLA--CGKRFTTFERVEL 46 (154)
T ss_pred eeccc--cCCcceEeEeccC
Confidence 88864 9999988866543
No 88
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=38.88 E-value=49 Score=26.94 Aligned_cols=79 Identities=23% Similarity=0.349 Sum_probs=55.7
Q ss_pred cceEecCCCCCcccCChhHHHhhHhCcC---cc------------cCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCC
Q 025436 65 RRVCCPIVGCNARMRSLEEFEDHYNARH---TA------------SCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGY 129 (253)
Q Consensus 65 k~f~C~~~gC~k~F~s~~~L~~H~~~~H---~~------------~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~ge 129 (253)
-|..|++ |+-..-+...|.+.|+-.- .| .|--|.+.|+.....+.= + -...
T Consensus 14 LP~~Cpi--CgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~--~----------~~~~ 79 (112)
T TIGR00622 14 LPVECPI--CGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD--E----------LKDS 79 (112)
T ss_pred CCCcCCc--CCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccccc--c----------cccc
Confidence 4678887 9999999999999884211 12 388999999876422200 0 1123
Q ss_pred CceecCccccCCcCCChhHHHhHHhhhcCCC
Q 025436 130 PMYECLVEGCGLKFKNYKSRQQHLVDKHKFP 160 (253)
Q Consensus 130 k~y~C~vegC~kkF~t~~~rk~Hl~~~H~~p 160 (253)
..|+|.. |...|-..=+.-.|.. .|.-|
T Consensus 80 ~~y~C~~--C~~~FC~dCD~fiHe~-Lh~CP 107 (112)
T TIGR00622 80 HRYVCAV--CKNVFCVDCDVFVHES-LHCCP 107 (112)
T ss_pred cceeCCC--CCCccccccchhhhhh-ccCCc
Confidence 4799966 9999999999999974 67543
No 89
>PF14353 CpXC: CpXC protein
Probab=36.03 E-value=10 Score=30.50 Aligned_cols=54 Identities=22% Similarity=0.418 Sum_probs=32.0
Q ss_pred cCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCC-CceecCccccCCcCCChhHHHhH
Q 025436 95 SCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGY-PMYECLVEGCGLKFKNYKSRQQH 152 (253)
Q Consensus 95 ~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~ge-k~y~C~vegC~kkF~t~~~rk~H 152 (253)
+|..|+..|.......+...+.-+ +... .-.|+ -.|.|+. ||..|.-...+..|
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~-l~e~-il~g~l~~~~CP~--Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPE-LKEK-ILDGSLFSFTCPS--CGHKFRLEYPLLYH 57 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHH-HHHH-HHcCCcCEEECCC--CCCceecCCCEEEE
Confidence 688888888877665555432111 1111 12332 4689966 99988776665544
No 90
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=35.65 E-value=23 Score=31.83 Aligned_cols=29 Identities=28% Similarity=0.590 Sum_probs=21.7
Q ss_pred CCCceecCccccCCcCCChhHHHhHHhhhcC
Q 025436 128 GYPMYECLVEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 128 gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
.+..|.|.+ |+|.|+-..--+.|+...|.
T Consensus 74 ~~~K~~C~l--c~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPL--CGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-S--SS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCC--CCcccCChHHHHHHHhhcCH
Confidence 345699988 99999999999999988885
No 91
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.52 E-value=7.3 Score=35.21 Aligned_cols=48 Identities=25% Similarity=0.459 Sum_probs=41.6
Q ss_pred EecCCCCCcccCChhHHHhhHhCcC-------------cccCCC--CCccCCCchhhhhhhhhhc
Q 025436 68 CCPIVGCNARMRSLEEFEDHYNARH-------------TASCSV--CCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 68 ~C~~~gC~k~F~s~~~L~~H~~~~H-------------~~~Cs~--C~ksF~s~~~L~~Hi~e~H 117 (253)
.|.+ |.+.|.+..-|..|+.-.| .|.|-+ |+-.|.|...-+.|+-..|
T Consensus 108 sCs~--C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 108 SCSF--CKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhHH--HHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 8988 9999999999999986545 289954 9999999999999987665
No 92
>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=32.58 E-value=34 Score=21.36 Aligned_cols=8 Identities=38% Similarity=1.045 Sum_probs=3.3
Q ss_pred cCCCCCcc
Q 025436 95 SCSVCCRV 102 (253)
Q Consensus 95 ~Cs~C~ks 102 (253)
+|.+||..
T Consensus 3 ~C~~CGy~ 10 (33)
T cd00350 3 VCPVCGYI 10 (33)
T ss_pred ECCCCCCE
Confidence 34444433
No 93
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=32.52 E-value=27 Score=35.81 Aligned_cols=33 Identities=30% Similarity=0.513 Sum_probs=28.6
Q ss_pred hcCCCceecCccccCCcCCChhHHHhHHhhhcC
Q 025436 126 ARGYPMYECLVEGCGLKFKNYKSRQQHLVDKHK 158 (253)
Q Consensus 126 h~gek~y~C~vegC~kkF~t~~~rk~Hl~~~H~ 158 (253)
...+..|-|++-||.|.|.-+.--..|+...|.
T Consensus 504 e~~kdKy~C~lsgc~KlF~gpEFvrKHi~~KH~ 536 (648)
T KOG2295|consen 504 ELDKDKYLCPLSGCAKLFKGPEFVRKHINKKHK 536 (648)
T ss_pred HhhcccccCCCcchHhhccCHHHHHHHHHHHHH
Confidence 445667999999999999999999999987775
No 94
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=31.61 E-value=34 Score=33.43 Aligned_cols=77 Identities=21% Similarity=0.300 Sum_probs=50.2
Q ss_pred cceEecCCCCCcccCChhHHHhhHhCcCcccCCCCCccCCCchhhhhhhhhhcchhhhhhhhcCCCceecCccccC---C
Q 025436 65 RRVCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCRVYPTSRLLSIHVSEAHDSFFQAKVARGYPMYECLVEGCG---L 141 (253)
Q Consensus 65 k~f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~ksF~s~~~L~~Hi~e~Hd~~f~~~~h~gek~y~C~vegC~---k 141 (253)
.|-.|-+ |++.|.+...-..||...|.|.=+ ....|.-=. +++.-+...-..-|-|++ |. +
T Consensus 165 ~Pt~CLf--C~~~~k~~e~~~~HM~~~HgffIP-------dreYL~D~~-----GLl~YLgeKV~~~~~CL~--CN~~~~ 228 (390)
T KOG2785|consen 165 IPTDCLF--CDKKSKSLEENLKHMFKEHGFFIP-------DREYLTDEK-----GLLKYLGEKVGIGFICLF--CNELGR 228 (390)
T ss_pred CCcceee--cCCCcccHHHHHHHHhhccCCcCC-------chHhhhchh-----HHHHHHHHHhccCceEEE--eccccC
Confidence 4568988 999999999999999888874411 111111000 111111111123478988 98 9
Q ss_pred cCCChhHHHhHHhhhc
Q 025436 142 KFKNYKSRQQHLVDKH 157 (253)
Q Consensus 142 kF~t~~~rk~Hl~~~H 157 (253)
.|.+-..-+.||...-
T Consensus 229 ~f~sleavr~HM~~K~ 244 (390)
T KOG2785|consen 229 PFSSLEAVRAHMRDKG 244 (390)
T ss_pred cccccHHHHHHHhhcc
Confidence 9999999999998864
No 95
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=31.60 E-value=22 Score=26.67 Aligned_cols=21 Identities=24% Similarity=0.449 Sum_probs=16.1
Q ss_pred CCCceecCccccCCcCCChhH
Q 025436 128 GYPMYECLVEGCGLKFKNYKS 148 (253)
Q Consensus 128 gek~y~C~vegC~kkF~t~~~ 148 (253)
.+.-++|.-.+||..|.+...
T Consensus 24 ~~~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 24 KERYHQCQNVNCSATFITYES 44 (72)
T ss_pred heeeeecCCCCCCCEEEEEEE
Confidence 356789986679999988754
No 96
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=31.05 E-value=34 Score=23.14 Aligned_cols=27 Identities=30% Similarity=0.534 Sum_probs=19.9
Q ss_pred CceecCccccCCcCCCh-----hHHHhHHhhhcC
Q 025436 130 PMYECLVEGCGLKFKNY-----KSRQQHLVDKHK 158 (253)
Q Consensus 130 k~y~C~vegC~kkF~t~-----~~rk~Hl~~~H~ 158 (253)
..=.|.. |++.++.. +.|.+|+...|.
T Consensus 17 ~~a~C~~--C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 17 QRAKCKY--CGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred eEEEecC--CCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 3457866 99988765 689999976553
No 97
>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=29.84 E-value=30 Score=21.97 Aligned_cols=10 Identities=30% Similarity=0.853 Sum_probs=8.0
Q ss_pred CceecCccccCC
Q 025436 130 PMYECLVEGCGL 141 (253)
Q Consensus 130 k~y~C~vegC~k 141 (253)
.|..|++ |+.
T Consensus 17 ~p~~CP~--Cg~ 26 (34)
T cd00729 17 APEKCPI--CGA 26 (34)
T ss_pred CCCcCcC--CCC
Confidence 5778988 886
No 98
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=29.03 E-value=38 Score=21.73 Aligned_cols=10 Identities=40% Similarity=1.016 Sum_probs=4.9
Q ss_pred ccCCCCCccC
Q 025436 94 ASCSVCCRVY 103 (253)
Q Consensus 94 ~~Cs~C~ksF 103 (253)
..|+.|+..|
T Consensus 26 v~C~~C~~~f 35 (36)
T PF13717_consen 26 VRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEe
Confidence 4455555444
No 99
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=28.25 E-value=45 Score=23.63 Aligned_cols=24 Identities=17% Similarity=0.119 Sum_probs=19.4
Q ss_pred cccCCCcccccccccccCCCCCCc
Q 025436 7 ANFESEFPHWASVRRCFRPDSPFF 30 (253)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~ff 30 (253)
+.+.-|-|-..+..-||+|||.|=
T Consensus 19 ~cp~cG~~T~~ahPaRFSPdDky~ 42 (53)
T PF04135_consen 19 KCPPCGGPTESAHPARFSPDDKYS 42 (53)
T ss_dssp BBTTTSSBSEESSSSSS-TTTTTC
T ss_pred ccCCCCCCCcCCcCCCCCCCCccH
Confidence 356779999999999999999873
No 100
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=27.98 E-value=44 Score=30.04 Aligned_cols=26 Identities=23% Similarity=0.484 Sum_probs=13.2
Q ss_pred CCcceEecCCCCCcccCChhHHHhhHhC
Q 025436 63 DGRRVCCPIVGCNARMRSLEEFEDHYNA 90 (253)
Q Consensus 63 ~~k~f~C~~~gC~k~F~s~~~L~~H~~~ 90 (253)
++..|.|.+ |+|.|....=...|+..
T Consensus 74 ~~~K~~C~l--c~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 74 DEDKWRCPL--CGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SSEEEEE-S--SS-EESSHHHHHHHHHH
T ss_pred cCCEECCCC--CCcccCChHHHHHHHhh
Confidence 334466655 66666665555555543
No 101
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=27.32 E-value=23 Score=23.40 Aligned_cols=29 Identities=17% Similarity=0.544 Sum_probs=15.6
Q ss_pred eEecCCCCCcccCChhHHHhhHhCcCcccCCCCCc
Q 025436 67 VCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCR 101 (253)
Q Consensus 67 f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~k 101 (253)
|.|.. ||..|.....+.. ...-.|..||.
T Consensus 6 y~C~~--Cg~~fe~~~~~~~----~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEE--CGHEFEVLQSISE----DDPVPCPECGS 34 (42)
T ss_pred EEeCC--CCCEEEEEEEcCC----CCCCcCCCCCC
Confidence 66654 6666655544333 12345666665
No 102
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=26.90 E-value=14 Score=35.94 Aligned_cols=24 Identities=29% Similarity=0.564 Sum_probs=20.0
Q ss_pred ccCCC--CCccCCCchhhhhhhhhhc
Q 025436 94 ASCSV--CCRVYPTSRLLSIHVSEAH 117 (253)
Q Consensus 94 ~~Cs~--C~ksF~s~~~L~~Hi~e~H 117 (253)
|.|.+ |++.+....-|++|...-|
T Consensus 350 ~~~~vp~~~~~~~n~ng~~~~~~~~h 375 (442)
T KOG4124|consen 350 YKCPVPNCDKAYKNQNGLKYHKLHGH 375 (442)
T ss_pred CCCCCCcchhhcccCcceeeccccCc
Confidence 88876 9999999999999987544
No 103
>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=26.43 E-value=26 Score=22.16 Aligned_cols=30 Identities=23% Similarity=0.542 Sum_probs=17.1
Q ss_pred ceEecCCCCCcccCChhHHHhhHhCcCcccCCCCCc
Q 025436 66 RVCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCR 101 (253)
Q Consensus 66 ~f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~k 101 (253)
.|.|.. ||..|.-...... .-.-.|..||.
T Consensus 5 ~y~C~~--Cg~~fe~~~~~~~----~~~~~CP~Cg~ 34 (41)
T smart00834 5 EYRCED--CGHTFEVLQKISD----DPLATCPECGG 34 (41)
T ss_pred EEEcCC--CCCEEEEEEecCC----CCCCCCCCCCC
Confidence 367755 7777764443322 12356777776
No 104
>PF12907 zf-met2: Zinc-binding
Probab=25.84 E-value=24 Score=23.56 Aligned_cols=21 Identities=19% Similarity=0.501 Sum_probs=9.9
Q ss_pred ccCCCCCccCC---Cchhhhhhhh
Q 025436 94 ASCSVCCRVYP---TSRLLSIHVS 114 (253)
Q Consensus 94 ~~Cs~C~ksF~---s~~~L~~Hi~ 114 (253)
++|.+|..+|. +...|..|..
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~e 25 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAE 25 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHH
Confidence 34555553332 2344555554
No 105
>KOG3220 consensus Similar to bacterial dephospho-CoA kinase [Coenzyme transport and metabolism]
Probab=25.09 E-value=40 Score=30.58 Aligned_cols=52 Identities=21% Similarity=0.384 Sum_probs=37.9
Q ss_pred cCCCcccccccccccCCCCCCccCCCchhHHHHHHHhhccchhHHhhhhccccCC
Q 025436 9 FESEFPHWASVRRCFRPDSPFFASGNIERELLAKQVALDFSEDEKYQLENMVTED 63 (253)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~ff~~g~~~r~~~~k~~~~~~~~~~~~~~~~~~h~~ 63 (253)
-+-|.|.|.+++.=|+ ++-..++|++.|+-+.+.+..+-+ .++.|+...|+-
T Consensus 39 v~PG~p~~~~ive~FG-~eiLl~~G~inR~~LG~~vF~~~~--~r~~Ln~IthP~ 90 (225)
T KOG3220|consen 39 VEPGTPAYRRIVEAFG-TEILLEDGEINRKVLGKRVFSDPK--KRQALNKITHPA 90 (225)
T ss_pred hcCCChHHHHHHHHhC-ceeeccCCcccHHHHhHHHhCCHH--HHHHHHhcccHH
Confidence 4569999999988887 444888999999999987655432 345555555543
No 106
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=24.71 E-value=48 Score=23.72 Aligned_cols=22 Identities=9% Similarity=-0.073 Sum_probs=19.1
Q ss_pred cCCCcccccccccccCCCCCCc
Q 025436 9 FESEFPHWASVRRCFRPDSPFF 30 (253)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~ff 30 (253)
+.-|-|...+..-||+|||+|=
T Consensus 21 P~CG~~t~~~~P~rfSp~D~y~ 42 (56)
T PRK13130 21 PVCGGKTKNPHPPRFSPEDKYG 42 (56)
T ss_pred cCCCCCCCCCCCCCCCCCCccH
Confidence 5568899999999999999983
No 107
>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=24.68 E-value=31 Score=23.27 Aligned_cols=29 Identities=28% Similarity=0.660 Sum_probs=14.1
Q ss_pred eEecCCCCCcccCChhHHHhhHhCcCcccCCCCCc
Q 025436 67 VCCPIVGCNARMRSLEEFEDHYNARHTASCSVCCR 101 (253)
Q Consensus 67 f~C~~~gC~k~F~s~~~L~~H~~~~H~~~Cs~C~k 101 (253)
|.|.. |+..|.-...+.. .-.-.|..||.
T Consensus 6 y~C~~--Cg~~fe~~~~~~~----~~~~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTA--CGHRFEVLQKMSD----DPLATCPECGG 34 (52)
T ss_pred EEeCC--CCCEeEEEEecCC----CCCCCCCCCCC
Confidence 66654 6666654422211 11234666664
No 108
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=24.57 E-value=27 Score=23.53 Aligned_cols=18 Identities=22% Similarity=0.420 Sum_probs=13.9
Q ss_pred CCceecCccccCCcCCCh
Q 025436 129 YPMYECLVEGCGLKFKNY 146 (253)
Q Consensus 129 ek~y~C~vegC~kkF~t~ 146 (253)
+.-|+|....||..|...
T Consensus 23 ~~Y~qC~N~~Cg~tfv~~ 40 (47)
T PF04606_consen 23 ELYCQCTNPECGHTFVAN 40 (47)
T ss_pred EEEEEECCCcCCCEEEEE
Confidence 456899888899888654
No 109
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=22.14 E-value=58 Score=32.62 Aligned_cols=28 Identities=25% Similarity=0.492 Sum_probs=24.6
Q ss_pred CceecCccccCCcCCChhHHHhHHhhhcCC
Q 025436 130 PMYECLVEGCGLKFKNYKSRQQHLVDKHKF 159 (253)
Q Consensus 130 k~y~C~vegC~kkF~t~~~rk~Hl~~~H~~ 159 (253)
+-..|++ |.++|.....++.|+...|..
T Consensus 56 rFWiCp~--CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 56 RFWICPR--CSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eEeeCCc--ccceeCCHHHHHHHHHHhhhh
Confidence 3569988 999999999999999988863
No 110
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=21.93 E-value=38 Score=21.77 Aligned_cols=33 Identities=24% Similarity=0.698 Sum_probs=17.5
Q ss_pred eEecCCCCCcccCChhH-HHhhHhCcCcccCCCCCccCC
Q 025436 67 VCCPIVGCNARMRSLEE-FEDHYNARHTASCSVCCRVYP 104 (253)
Q Consensus 67 f~C~~~gC~k~F~s~~~-L~~H~~~~H~~~Cs~C~ksF~ 104 (253)
..|+. |+..|.=..+ |...- -...|+.|+-.|.
T Consensus 3 i~CP~--C~~~f~v~~~~l~~~~---~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPN--CQTRFRVPDDKLPAGG---RKVRCPKCGHVFR 36 (37)
T ss_pred EECCC--CCceEEcCHHHcccCC---cEEECCCCCcEee
Confidence 45654 7777665544 22111 1366777776653
No 111
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=21.51 E-value=62 Score=21.10 Aligned_cols=23 Identities=30% Similarity=0.463 Sum_probs=11.6
Q ss_pred CceecCccccCCcCC--ChhHHHhHHh
Q 025436 130 PMYECLVEGCGLKFK--NYKSRQQHLV 154 (253)
Q Consensus 130 k~y~C~vegC~kkF~--t~~~rk~Hl~ 154 (253)
+.|-|.+ |+.-|+ +...|+.|..
T Consensus 2 ~ryyCdy--C~~~~~~d~~~~Rk~H~~ 26 (38)
T PF06220_consen 2 PRYYCDY--CKKYLTHDSPSIRKQHER 26 (38)
T ss_dssp -S-B-TT--T--B-S--SHHHHHHHT-
T ss_pred cCeeccc--ccceecCCChHHHHHhhc
Confidence 4588966 999994 3468888875
No 112
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=21.46 E-value=64 Score=32.34 Aligned_cols=26 Identities=15% Similarity=0.418 Sum_probs=22.3
Q ss_pred ccCCCCCccCCCchhhhhhhhhhcch
Q 025436 94 ASCSVCCRVYPTSRLLSIHVSEAHDS 119 (253)
Q Consensus 94 ~~Cs~C~ksF~s~~~L~~Hi~e~Hd~ 119 (253)
..|..|.+.|.....+..|+..-|-.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhh
Confidence 68999999999999999999877743
No 113
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=20.01 E-value=69 Score=27.55 Aligned_cols=30 Identities=33% Similarity=0.654 Sum_probs=19.0
Q ss_pred CCceecCc--cccCCcCCChhHHHhHHhhhcCC
Q 025436 129 YPMYECLV--EGCGLKFKNYKSRQQHLVDKHKF 159 (253)
Q Consensus 129 ek~y~C~v--egC~kkF~t~~~rk~Hl~~~H~~ 159 (253)
-+||.|++ .+|+..=. ...+..|+...|..
T Consensus 42 ~~p~~CP~~~~~C~~~G~-~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 42 FRPCSCPFPGSGCDWQGS-YKELLDHLRDKHSW 73 (198)
T ss_dssp TSEEE-SSSSTT---EEE-CCCHHHHHHHHTTT
T ss_pred CcCCcCCCCCCCccccCC-HHHHHHHHHHHCCC
Confidence 46888988 77765543 45788898888875
Done!