Query 036787
Match_columns 85
No_of_seqs 126 out of 1090
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 05:29:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036787.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036787hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 1E-32 2.2E-37 200.9 8.0 85 1-85 1-91 (459)
2 PLN03212 Transcription repress 100.0 4.2E-32 9.2E-37 186.1 6.9 83 3-85 14-102 (249)
3 KOG0048 Transcription factor, 100.0 1.6E-29 3.5E-34 173.6 6.8 76 10-85 5-86 (238)
4 PF13921 Myb_DNA-bind_6: Myb-l 99.8 9.6E-20 2.1E-24 101.2 5.5 55 17-72 1-60 (60)
5 KOG0049 Transcription factor, 99.8 2.6E-19 5.6E-24 135.9 4.5 85 1-85 347-437 (939)
6 PF00249 Myb_DNA-binding: Myb- 99.6 2.1E-15 4.5E-20 80.6 3.1 42 14-55 1-48 (48)
7 KOG0049 Transcription factor, 99.6 3.9E-15 8.5E-20 113.4 5.4 79 7-85 246-385 (939)
8 COG5147 REB1 Myb superfamily p 99.5 3.6E-14 7.8E-19 106.2 3.2 76 9-84 15-95 (512)
9 KOG0050 mRNA splicing protein 99.4 6.3E-14 1.4E-18 104.5 2.8 73 12-84 5-82 (617)
10 KOG0051 RNA polymerase I termi 99.4 1.4E-12 3E-17 99.0 6.0 64 13-77 383-452 (607)
11 PLN03212 Transcription repress 99.3 1.8E-13 3.9E-18 94.5 0.3 54 4-58 68-126 (249)
12 PLN03091 hypothetical protein; 99.3 7.2E-13 1.6E-17 97.5 1.7 54 3-57 56-114 (459)
13 smart00717 SANT SANT SWI3, AD 99.3 5.4E-12 1.2E-16 65.8 4.1 43 14-56 1-48 (49)
14 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 5.3E-11 1.2E-15 61.1 3.7 40 16-55 1-45 (45)
15 KOG0048 Transcription factor, 99.0 4.4E-10 9.6E-15 77.4 3.8 53 4-57 52-109 (238)
16 COG5147 REB1 Myb superfamily p 98.6 2.6E-08 5.7E-13 75.0 2.0 66 12-78 289-360 (512)
17 KOG0457 Histone acetyltransfer 98.2 2.5E-06 5.5E-11 63.1 4.8 53 11-63 69-127 (438)
18 PF00249 Myb_DNA-binding: Myb- 98.1 2.7E-06 5.9E-11 45.0 2.4 24 61-84 1-25 (48)
19 TIGR01557 myb_SHAQKYF myb-like 98.1 9.4E-06 2E-10 44.8 4.3 42 14-55 3-54 (57)
20 KOG0050 mRNA splicing protein 97.9 5.6E-06 1.2E-10 62.6 2.0 49 7-56 52-104 (617)
21 PF13921 Myb_DNA-bind_6: Myb-l 97.9 5.6E-06 1.2E-10 45.4 1.1 21 64-84 1-21 (60)
22 smart00717 SANT SANT SWI3, AD 97.7 3.5E-05 7.6E-10 39.4 2.8 24 61-84 1-25 (49)
23 KOG0051 RNA polymerase I termi 97.5 0.00016 3.5E-09 55.7 4.6 66 12-77 434-531 (607)
24 cd00167 SANT 'SWI3, ADA2, N-Co 97.4 0.00014 2.9E-09 36.6 2.6 22 63-84 1-23 (45)
25 PF08914 Myb_DNA-bind_2: Rap1 97.4 8.8E-05 1.9E-09 42.0 1.4 45 14-58 2-60 (65)
26 PF13837 Myb_DNA-bind_4: Myb/S 97.3 0.00023 5.1E-09 41.4 2.4 41 15-55 2-64 (90)
27 COG5259 RSC8 RSC chromatin rem 97.0 0.00045 9.8E-09 52.0 2.5 41 13-54 278-323 (531)
28 TIGR02894 DNA_bind_RsfA transc 97.0 0.00056 1.2E-08 45.0 2.4 45 12-56 2-56 (161)
29 KOG1279 Chromatin remodeling f 97.0 0.00081 1.8E-08 51.1 3.3 43 11-54 250-297 (506)
30 PF13325 MCRS_N: N-terminal re 96.8 0.0025 5.5E-08 43.3 4.2 60 16-77 1-89 (199)
31 PRK13923 putative spore coat p 96.6 0.0016 3.4E-08 43.2 2.4 45 12-56 3-57 (170)
32 PF13873 Myb_DNA-bind_5: Myb/S 96.6 0.0016 3.5E-08 37.2 2.0 42 14-55 2-69 (78)
33 COG5114 Histone acetyltransfer 96.1 0.0046 1E-07 45.0 2.6 45 12-56 61-110 (432)
34 TIGR01557 myb_SHAQKYF myb-like 94.9 0.047 1E-06 30.0 3.4 24 61-84 3-27 (57)
35 PF09111 SLIDE: SLIDE; InterP 94.9 0.045 9.8E-07 34.3 3.5 31 11-41 46-79 (118)
36 PF08914 Myb_DNA-bind_2: Rap1 93.7 0.07 1.5E-06 30.1 2.3 19 61-79 2-20 (65)
37 PF12776 Myb_DNA-bind_3: Myb/S 92.2 0.35 7.6E-06 28.1 4.1 39 16-54 1-61 (96)
38 KOG4282 Transcription factor G 92.2 0.18 3.8E-06 36.3 3.3 41 15-55 55-113 (345)
39 PF11626 Rap1_C: TRF2-interact 92.0 0.19 4.2E-06 29.5 2.7 16 10-25 43-58 (87)
40 PF09111 SLIDE: SLIDE; InterP 91.6 0.28 6.1E-06 30.7 3.3 24 58-81 46-69 (118)
41 KOG1279 Chromatin remodeling f 90.4 0.16 3.5E-06 38.9 1.7 24 61-84 253-276 (506)
42 PF09420 Nop16: Ribosome bioge 88.2 0.78 1.7E-05 29.9 3.4 42 12-54 112-162 (164)
43 KOG0457 Histone acetyltransfer 87.9 0.44 9.5E-06 35.9 2.3 27 58-84 69-96 (438)
44 COG5259 RSC8 RSC chromatin rem 87.2 0.32 6.9E-06 37.1 1.3 26 60-85 278-303 (531)
45 PF13873 Myb_DNA-bind_5: Myb/S 85.8 1.2 2.6E-05 25.1 2.9 20 61-80 2-21 (78)
46 PF13404 HTH_AsnC-type: AsnC-t 84.1 1.2 2.6E-05 22.7 2.2 34 20-53 3-40 (42)
47 KOG2656 DNA methyltransferase 83.3 1.8 4E-05 32.5 3.6 44 11-55 127-181 (445)
48 COG5118 BDP1 Transcription ini 81.6 1.7 3.7E-05 32.6 2.9 59 13-72 364-435 (507)
49 PRK11179 DNA-binding transcrip 81.3 2 4.4E-05 27.4 3.0 41 19-59 8-52 (153)
50 PRK11169 leucine-responsive tr 78.8 2.2 4.8E-05 27.6 2.5 41 19-59 13-57 (164)
51 PF13325 MCRS_N: N-terminal re 75.4 3.5 7.7E-05 28.1 2.9 43 12-54 71-125 (199)
52 PLN03142 Probable chromatin-re 75.1 4.7 0.0001 33.6 4.0 43 13-55 925-984 (1033)
53 PLN03142 Probable chromatin-re 73.4 4.9 0.00011 33.6 3.7 26 58-83 923-949 (1033)
54 KOG0384 Chromodomain-helicase 69.5 2.3 5.1E-05 36.1 1.1 29 13-41 1132-1160(1373)
55 PF01388 ARID: ARID/BRIGHT DNA 65.7 3.3 7.2E-05 23.9 1.0 33 24-56 40-89 (92)
56 KOG4167 Predicted DNA-binding 63.0 8.4 0.00018 31.3 2.9 39 14-53 619-662 (907)
57 KOG4468 Polycomb-group transcr 61.6 9.5 0.00021 30.4 3.0 42 14-56 88-144 (782)
58 PF07555 NAGidase: beta-N-acet 56.2 15 0.00033 26.5 3.1 19 16-34 11-29 (306)
59 PF04504 DUF573: Protein of un 55.1 43 0.00094 20.0 5.5 64 15-79 5-95 (98)
60 smart00344 HTH_ASNC helix_turn 53.9 21 0.00045 20.9 3.1 39 20-58 3-45 (108)
61 smart00501 BRIGHT BRIGHT, ARID 52.2 9.4 0.0002 22.2 1.3 34 24-57 36-86 (93)
62 KOG2656 DNA methyltransferase 52.0 17 0.00038 27.4 2.9 32 48-83 121-152 (445)
63 PF00674 DUP: DUP family; Int 51.8 29 0.00063 20.9 3.5 36 23-58 44-102 (108)
64 PRK13923 putative spore coat p 51.2 12 0.00026 24.9 1.8 22 59-80 3-24 (170)
65 COG1168 MalY Bifunctional PLP- 48.5 26 0.00057 26.3 3.3 25 9-33 166-191 (388)
66 PF09197 Rap1-DNA-bind: Rap1, 45.4 23 0.00049 21.8 2.3 17 16-32 1-17 (105)
67 PF08281 Sigma70_r4_2: Sigma-7 45.3 21 0.00045 18.3 1.9 35 19-54 12-50 (54)
68 COG4604 CeuD ABC-type enteroch 43.0 49 0.0011 23.3 3.8 72 1-81 98-187 (252)
69 COG1522 Lrp Transcriptional re 42.7 27 0.0006 21.6 2.5 40 20-59 8-51 (154)
70 PF10440 WIYLD: Ubiquitin-bind 40.6 20 0.00043 20.2 1.4 17 24-41 31-47 (65)
71 PF09846 DUF2073: Uncharacteri 39.9 29 0.00063 21.3 2.1 18 14-31 26-43 (104)
72 PF10892 DUF2688: Protein of u 39.2 30 0.00066 19.0 1.9 16 14-29 42-57 (60)
73 KOG1194 Predicted DNA-binding 36.5 43 0.00093 26.0 2.9 39 13-52 186-229 (534)
74 KOG2009 Transcription initiati 33.5 79 0.0017 25.1 4.0 44 9-53 404-452 (584)
75 smart00595 MADF subfamily of S 33.4 17 0.00037 20.6 0.4 18 37-54 30-51 (89)
76 PF02954 HTH_8: Bacterial regu 32.7 54 0.0012 16.2 2.2 21 21-42 6-26 (42)
77 PRK10137 alpha-glucosidase; Pr 29.2 58 0.0013 26.7 2.8 39 45-83 283-321 (786)
78 PF09019 EcoRII-C: EcoRII C te 28.9 12 0.00026 24.8 -0.9 15 43-57 94-108 (164)
79 PF14237 DUF4339: Domain of un 28.0 58 0.0013 16.3 1.8 18 57-74 7-24 (45)
80 KOG3200 Uncharacterized conser 27.7 42 0.00092 22.9 1.5 25 17-41 21-45 (224)
81 cd08319 Death_RAIDD Death doma 27.5 28 0.00061 20.3 0.6 20 22-42 2-21 (83)
82 PF15603 Imm45: Immunity prote 27.0 1.2E+02 0.0025 17.8 3.2 24 56-79 48-71 (82)
83 PF09356 Phage_BR0599: Phage c 25.5 39 0.00085 19.4 1.0 15 42-56 55-69 (80)
84 PF10545 MADF_DNA_bdg: Alcohol 24.7 28 0.0006 19.1 0.2 13 43-55 41-53 (85)
85 PF11216 DUF3012: Protein of u 24.4 43 0.00094 16.2 0.8 14 11-24 12-25 (32)
86 PF04545 Sigma70_r4: Sigma-70, 24.4 92 0.002 15.5 2.2 35 20-55 7-45 (50)
87 KOG4329 DNA-binding protein [G 24.1 1.1E+02 0.0024 23.2 3.2 39 14-53 277-321 (445)
88 PF05546 She9_MDM33: She9 / Md 23.5 88 0.0019 21.6 2.5 20 13-32 82-101 (207)
89 PF09105 SelB-wing_1: Elongati 23.3 58 0.0013 17.5 1.3 41 22-80 4-45 (61)
90 KOG1194 Predicted DNA-binding 23.0 53 0.0012 25.5 1.5 25 59-83 185-209 (534)
91 PF11784 DUF3320: Protein of u 22.6 1.1E+02 0.0023 16.0 2.3 10 40-49 42-51 (52)
92 PF00605 IRF: Interferon regul 22.0 1.4E+02 0.0031 18.2 3.1 44 12-56 37-82 (109)
93 PRK03692 putative UDP-N-acetyl 21.7 1.2E+02 0.0027 21.0 3.0 23 59-81 136-158 (243)
94 COG2992 Bax Uncharacterized Fl 21.7 67 0.0015 22.7 1.7 26 59-84 93-118 (262)
95 TIGR01210 conserved hypothetic 21.1 1.5E+02 0.0033 21.1 3.4 47 11-57 257-305 (313)
96 smart00348 IRF interferon regu 20.7 2.1E+02 0.0046 17.4 4.1 43 14-57 37-81 (107)
97 KOG4771 Nucleolar protein (NOP 20.7 1.1E+02 0.0025 20.7 2.5 39 15-54 154-201 (210)
98 PF08870 DUF1832: Domain of un 20.4 86 0.0019 19.3 1.8 25 18-42 5-29 (113)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=99.98 E-value=1e-32 Score=200.89 Aligned_cols=85 Identities=47% Similarity=0.882 Sum_probs=82.9
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc------cchhHHHHHHhhhhcCCCCCCCCCHHHHHHHHH
Q 036787 1 MVRAPPYDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP------KSGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIK 74 (85)
Q Consensus 1 ~~r~~~~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia------r~~~qcr~rw~~~L~~~~~~~~wt~eEd~~L~~ 74 (85)
|||++||++.++++|+||+|||++|+.+|.+||.++|..|| |+++|||+||.++|+|.+++++||+|||.+|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999998 699999999999999999999999999999999
Q ss_pred HHHHhCCCCCC
Q 036787 75 TRQQHGNKIMK 85 (85)
Q Consensus 75 ~~~~~g~~W~k 85 (85)
++..||++|++
T Consensus 81 L~k~~GnKWsk 91 (459)
T PLN03091 81 LHAVLGNRWSQ 91 (459)
T ss_pred HHHHhCcchHH
Confidence 99999999964
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.97 E-value=4.2e-32 Score=186.11 Aligned_cols=83 Identities=47% Similarity=0.884 Sum_probs=79.9
Q ss_pred CCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc------cchhHHHHHHhhhhcCCCCCCCCCHHHHHHHHHHH
Q 036787 3 RAPPYDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP------KSGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIKTR 76 (85)
Q Consensus 3 r~~~~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia------r~~~qcr~rw~~~L~~~~~~~~wt~eEd~~L~~~~ 76 (85)
+.|||.++++++++||+|||++|+.+|++||..+|..|| |+++|||+||.++|+|.+++++||+|||.+|++++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 679999999999999999999999999999988999997 69999999999999999999999999999999999
Q ss_pred HHhCCCCCC
Q 036787 77 QQHGNKIMK 85 (85)
Q Consensus 77 ~~~g~~W~k 85 (85)
..||++|++
T Consensus 94 ~~~GnKWs~ 102 (249)
T PLN03212 94 RLLGNRWSL 102 (249)
T ss_pred HhccccHHH
Confidence 999999963
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.96 E-value=1.6e-29 Score=173.63 Aligned_cols=76 Identities=49% Similarity=0.834 Sum_probs=71.9
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCCccccc------cchhHHHHHHhhhhcCCCCCCCCCHHHHHHHHHHHHHhCCCC
Q 036787 10 RGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP------KSGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIKTRQQHGNKI 83 (85)
Q Consensus 10 ~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia------r~~~qcr~rw~~~L~~~~~~~~wt~eEd~~L~~~~~~~g~~W 83 (85)
+.+.||+||+|||++|+.+|..||.++|..|| |++++||.||.|||+|+++++.||+|||.+|++++..+||+|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 33558999999999999999999999999999 599999999999999999999999999999999999999999
Q ss_pred CC
Q 036787 84 MK 85 (85)
Q Consensus 84 ~k 85 (85)
++
T Consensus 85 s~ 86 (238)
T KOG0048|consen 85 SL 86 (238)
T ss_pred HH
Confidence 73
No 4
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.80 E-value=9.6e-20 Score=101.24 Aligned_cols=55 Identities=45% Similarity=0.939 Sum_probs=49.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhcCCCCCCCCCHHHHHHH
Q 036787 17 WSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYTKEEEDTI 72 (85)
Q Consensus 17 Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~~~~~~~~wt~eEd~~L 72 (85)
||+|||++|+.+|..|| .+|..|| ||+.||+.||.++|.|.+++++||++||+.|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 6999998 7999999999999999999999999999987
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.77 E-value=2.6e-19 Score=135.86 Aligned_cols=85 Identities=26% Similarity=0.465 Sum_probs=79.9
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhcCCCCCCCCCHHHHHHHHHH
Q 036787 1 MVRAPPYDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIKT 75 (85)
Q Consensus 1 ~~r~~~~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~~~~~~~~wt~eEd~~L~~~ 75 (85)
++|+...+.|++++|+||++||.+|+.+|.+||...|..|- |+..|||+||.|.|+...+.+.||-.||.+|+.+
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~ 426 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYA 426 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHH
Confidence 47889999999999999999999999999999999998885 8999999999999999999999999999999999
Q ss_pred HHHhCC-CCCC
Q 036787 76 RQQHGN-KIMK 85 (85)
Q Consensus 76 ~~~~g~-~W~k 85 (85)
|.+||. +|+|
T Consensus 427 V~~YG~g~Wak 437 (939)
T KOG0049|consen 427 VKVYGKGNWAK 437 (939)
T ss_pred HHHHccchHHH
Confidence 999996 5864
No 6
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.57 E-value=2.1e-15 Score=80.62 Aligned_cols=42 Identities=43% Similarity=0.918 Sum_probs=37.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccc------cchhHHHHHHhhhh
Q 036787 14 KGAWSKEEDDKLGAYILKYGHWNWAQLP------KSGKSCRLRWMNYL 55 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~g~~~W~~Ia------r~~~qcr~rw~~~L 55 (85)
|++||+|||++|+++|.+||.++|..|| ||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 6899999999999999999976699998 69999999999885
No 7
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.56 E-value=3.9e-15 Score=113.42 Aligned_cols=79 Identities=28% Similarity=0.433 Sum_probs=66.9
Q ss_pred CCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc------cchhHHHH-------------------------------
Q 036787 7 YDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP------KSGKSCRL------------------------------- 49 (85)
Q Consensus 7 ~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia------r~~~qcr~------------------------------- 49 (85)
+++|.++|..||+|||+.|..+...++..+|..|| |+..||.+
T Consensus 246 ~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~ 325 (939)
T KOG0049|consen 246 ELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSI 325 (939)
T ss_pred hcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhc
Confidence 56788888888888888888888888877888887 46666655
Q ss_pred -----------------------HHhhhhcCCCCCCCCCHHHHHHHHHHHHHhCCC-CCC
Q 036787 50 -----------------------RWMNYLRPDIKHGNYTKEEEDTIIKTRQQHGNK-IMK 85 (85)
Q Consensus 50 -----------------------rw~~~L~~~~~~~~wt~eEd~~L~~~~~~~g~~-W~k 85 (85)
||...|+|.+++|+||.+||.+|+.+|.+||.+ |.|
T Consensus 326 nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k 385 (939)
T KOG0049|consen 326 NSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAK 385 (939)
T ss_pred cCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhh
Confidence 888889999999999999999999999999986 754
No 8
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.46 E-value=3.6e-14 Score=106.19 Aligned_cols=76 Identities=32% Similarity=0.654 Sum_probs=72.2
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhcCCCCCCCCCHHHHHHHHHHHHHhCCCC
Q 036787 9 GRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIKTRQQHGNKI 83 (85)
Q Consensus 9 ~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~~~~~~~~wt~eEd~~L~~~~~~~g~~W 83 (85)
..+++.|.|+..||+.|..+|..+|+++|..|| ++++||+.||.++++|.+++.+|+.+||.+|+.+..++|++|
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~w 94 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchh
Confidence 346789999999999999999999999999998 599999999999999999999999999999999999999999
Q ss_pred C
Q 036787 84 M 84 (85)
Q Consensus 84 ~ 84 (85)
+
T Consensus 95 s 95 (512)
T COG5147 95 S 95 (512)
T ss_pred h
Confidence 5
No 9
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.43 E-value=6.3e-14 Score=104.46 Aligned_cols=73 Identities=29% Similarity=0.746 Sum_probs=69.8
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhcCCCCCCCCCHHHHHHHHHHHHHhCCCCC
Q 036787 12 MKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIKTRQQHGNKIM 84 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~~~~~~~~wt~eEd~~L~~~~~~~g~~W~ 84 (85)
++.|.|+.-||+.|...|.+||.+.|+.|+ ++++||+.||..+|+|.|++..||.+||..|+.++..+...|.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 578899999999999999999999999999 3999999999999999999999999999999999999999984
No 10
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.35 E-value=1.4e-12 Score=98.97 Aligned_cols=64 Identities=30% Similarity=0.729 Sum_probs=60.6
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccc----cchhHHHHHHhhhhcCC--CCCCCCCHHHHHHHHHHHH
Q 036787 13 KKGAWSKEEDDKLGAYILKYGHWNWAQLP----KSGKSCRLRWMNYLRPD--IKHGNYTKEEEDTIIKTRQ 77 (85)
Q Consensus 13 ~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia----r~~~qcr~rw~~~L~~~--~~~~~wt~eEd~~L~~~~~ 77 (85)
.+|.||++|++.|..+|.++| +.|..|+ |.|..|++||+++..+. .+++.||.+|.+.|+++|+
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lgr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~ 452 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALGRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVN 452 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHH
Confidence 899999999999999999999 7999997 79999999999999876 4889999999999999997
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.34 E-value=1.8e-13 Score=94.47 Aligned_cols=54 Identities=19% Similarity=0.334 Sum_probs=48.6
Q ss_pred CCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhcCC
Q 036787 4 APPYDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPD 58 (85)
Q Consensus 4 ~~~~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~~~ 58 (85)
+-.+++|.+++++||+|||++|+.++..+| +.|..|| ||..+|++||..+|...
T Consensus 68 W~N~L~P~I~kgpWT~EED~lLlel~~~~G-nKWs~IAk~LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 68 WMNYLRPSVKRGGITSDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred HHHhhchhcccCCCChHHHHHHHHHHHhcc-ccHHHHHhhcCCCCHHHHHHHHHHHHhHH
Confidence 345678999999999999999999999999 6999999 79999999999988654
No 12
>PLN03091 hypothetical protein; Provisional
Probab=99.30 E-value=7.2e-13 Score=97.46 Aligned_cols=54 Identities=20% Similarity=0.425 Sum_probs=48.1
Q ss_pred CCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhcC
Q 036787 3 RAPPYDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRP 57 (85)
Q Consensus 3 r~~~~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~~ 57 (85)
|+-.+++|.+++|+||+|||++|+.++..+| .+|..|| |++.+|++||..+|..
T Consensus 56 RW~NyLdP~IkKgpWT~EED~lLLeL~k~~G-nKWskIAk~LPGRTDnqIKNRWnslLKK 114 (459)
T PLN03091 56 RWINYLRPDLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (459)
T ss_pred HHHhccCCcccCCCCCHHHHHHHHHHHHHhC-cchHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence 3345788999999999999999999999999 6999999 7999999999987643
No 13
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.28 E-value=5.4e-12 Score=65.81 Aligned_cols=43 Identities=42% Similarity=0.958 Sum_probs=39.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhc
Q 036787 14 KGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLR 56 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~ 56 (85)
+++||++||.+|+.++..||..+|..|| ||+.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 4789999999999999999977999998 699999999998764
No 14
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.15 E-value=5.3e-11 Score=61.12 Aligned_cols=40 Identities=43% Similarity=0.914 Sum_probs=36.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhh
Q 036787 16 AWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYL 55 (85)
Q Consensus 16 ~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L 55 (85)
+||++||..|+.++..+|..+|..|| |++.+|+.+|.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 59999999999999999977999998 69999999998763
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.98 E-value=4.4e-10 Score=77.38 Aligned_cols=53 Identities=21% Similarity=0.416 Sum_probs=48.2
Q ss_pred CCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhcC
Q 036787 4 APPYDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRP 57 (85)
Q Consensus 4 ~~~~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~~ 57 (85)
.--+++|.+++|.||+|||.+|+.++..+| +.|+.|| ||.+.++..|..+|..
T Consensus 52 W~NyLrP~ikrg~fT~eEe~~Ii~lH~~~G-NrWs~IA~~LPGRTDNeIKN~Wnt~lkk 109 (238)
T KOG0048|consen 52 WTNYLRPDLKRGNFSDEEEDLIIKLHALLG-NRWSLIAGRLPGRTDNEVKNHWNTHLKK 109 (238)
T ss_pred hhcccCCCccCCCCCHHHHHHHHHHHHHHC-cHHHHHHhhCCCcCHHHHHHHHHHHHHH
Confidence 345789999999999999999999999999 7999999 6999999999888754
No 16
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.56 E-value=2.6e-08 Score=75.02 Aligned_cols=66 Identities=27% Similarity=0.687 Sum_probs=60.0
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccc----cchhHHHHHHhhhhcC--CCCCCCCCHHHHHHHHHHHHH
Q 036787 12 MKKGAWSKEEDDKLGAYILKYGHWNWAQLP----KSGKSCRLRWMNYLRP--DIKHGNYTKEEEDTIIKTRQQ 78 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia----r~~~qcr~rw~~~L~~--~~~~~~wt~eEd~~L~~~~~~ 78 (85)
-.+|.||++|++.|..++..+| ..|..|+ |-+..|++||+++..+ .+++++||.+|+.+|...+..
T Consensus 289 ~~~~~wt~e~~~eL~~~~~~~~-~~w~~ig~~~~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e 360 (512)
T COG5147 289 EQRGKWTKEEEQELAKLVVEHG-GSWTEIGKLLGRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNE 360 (512)
T ss_pred hhhccCcccccccccccccccc-chhhHhhhhhccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHH
Confidence 4589999999999999999999 6999998 5999999999999887 678899999999999988864
No 17
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.20 E-value=2.5e-06 Score=63.07 Aligned_cols=53 Identities=19% Similarity=0.391 Sum_probs=44.2
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhh-cCCCCCCC
Q 036787 11 GMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYL-RPDIKHGN 63 (85)
Q Consensus 11 ~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L-~~~~~~~~ 63 (85)
.+-...||.+|+-+|+++++.||.|||..|| |+..+|+++|.+++ +..+..-+
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~s~~~~~~ 127 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVNSPIFPLP 127 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhcCcccccc
Confidence 4567789999999999999999999999999 59999999999965 43333333
No 18
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=98.09 E-value=2.7e-06 Score=44.96 Aligned_cols=24 Identities=21% Similarity=0.524 Sum_probs=20.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-CC
Q 036787 61 HGNYTKEEEDTIIKTRQQHGNK-IM 84 (85)
Q Consensus 61 ~~~wt~eEd~~L~~~~~~~g~~-W~ 84 (85)
+++||++||.+|++++.+||.. |.
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~ 25 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWK 25 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHH
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHH
Confidence 5799999999999999999998 84
No 19
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.07 E-value=9.4e-06 Score=44.85 Aligned_cols=42 Identities=14% Similarity=0.358 Sum_probs=37.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCc---cccc------c-chhHHHHHHhhhh
Q 036787 14 KGAWSKEEDDKLGAYILKYGHWNW---AQLP------K-SGKSCRLRWMNYL 55 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~g~~~W---~~Ia------r-~~~qcr~rw~~~L 55 (85)
+-.||+||..+++.+++.+|.++| ..|+ + |..||+.+.+.|.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 457999999999999999997799 8775 4 8999999998875
No 20
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.91 E-value=5.6e-06 Score=62.64 Aligned_cols=49 Identities=27% Similarity=0.506 Sum_probs=44.6
Q ss_pred CCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc----cchhHHHHHHhhhhc
Q 036787 7 YDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP----KSGKSCRLRWMNYLR 56 (85)
Q Consensus 7 ~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia----r~~~qcr~rw~~~L~ 56 (85)
..+|.|++.-||.|||++|+.+..... ..|..|+ |++.||-+||.+.|+
T Consensus 52 ~ldp~i~~tews~eederlLhlakl~p-~qwrtIa~i~gr~~~qc~eRy~~ll~ 104 (617)
T KOG0050|consen 52 WLDPAIKKTEWSREEDERLLHLAKLEP-TQWRTIADIMGRTSQQCLERYNNLLD 104 (617)
T ss_pred HhCHHHhhhhhhhhHHHHHHHHHHhcC-CccchHHHHhhhhHHHHHHHHHHHHH
Confidence 457889999999999999999999998 5999998 899999999999873
No 21
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=97.87 E-value=5.6e-06 Score=45.39 Aligned_cols=21 Identities=29% Similarity=0.526 Sum_probs=18.2
Q ss_pred CCHHHHHHHHHHHHHhCCCCC
Q 036787 64 YTKEEEDTIIKTRQQHGNKIM 84 (85)
Q Consensus 64 wt~eEd~~L~~~~~~~g~~W~ 84 (85)
||++||.+|+++|..||++|+
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~ 21 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWK 21 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HH
T ss_pred CCHHHHHHHHHHHHHHCcCHH
Confidence 999999999999999999995
No 22
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=97.73 E-value=3.5e-05 Score=39.44 Aligned_cols=24 Identities=29% Similarity=0.558 Sum_probs=21.8
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CCCC
Q 036787 61 HGNYTKEEEDTIIKTRQQHG-NKIM 84 (85)
Q Consensus 61 ~~~wt~eEd~~L~~~~~~~g-~~W~ 84 (85)
+++||++||.+|+.++..|| ++|.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~ 25 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWE 25 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHH
Confidence 36899999999999999999 8884
No 23
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.51 E-value=0.00016 Score=55.71 Aligned_cols=66 Identities=24% Similarity=0.506 Sum_probs=50.4
Q ss_pred CCcCCCCHHHHHHHHHHHH-------Hh------------------CCCCccccc-----cchhHHHHHHhhhh-cCCCC
Q 036787 12 MKKGAWSKEEDDKLGAYIL-------KY------------------GHWNWAQLP-----KSGKSCRLRWMNYL-RPDIK 60 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~-------~~------------------g~~~W~~Ia-----r~~~qcr~rw~~~L-~~~~~ 60 (85)
.++|+||.||.+.|+++|+ ++ ...+|..|+ |+..|||..|...+ .|..+
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 6899999999999999996 22 224799998 79999999999976 56667
Q ss_pred CCCCCH-HHHHHHHHHHH
Q 036787 61 HGNYTK-EEEDTIIKTRQ 77 (85)
Q Consensus 61 ~~~wt~-eEd~~L~~~~~ 77 (85)
...|.. .+..-|++-..
T Consensus 514 ~~~~~~~~~~v~l~ErL~ 531 (607)
T KOG0051|consen 514 KRQESKGSDMVWLLERLS 531 (607)
T ss_pred cccccccchhHHHHHHHH
Confidence 777776 34455554443
No 24
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=97.45 E-value=0.00014 Score=36.65 Aligned_cols=22 Identities=23% Similarity=0.483 Sum_probs=20.4
Q ss_pred CCCHHHHHHHHHHHHHhC-CCCC
Q 036787 63 NYTKEEEDTIIKTRQQHG-NKIM 84 (85)
Q Consensus 63 ~wt~eEd~~L~~~~~~~g-~~W~ 84 (85)
+||++||..|+.++..|| .+|.
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~ 23 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWE 23 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHH
Confidence 699999999999999999 7884
No 25
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=97.38 E-value=8.8e-05 Score=41.97 Aligned_cols=45 Identities=24% Similarity=0.435 Sum_probs=28.0
Q ss_pred cCCCCHHHHHHHHHHHHHhC--------CCCcccccc------chhHHHHHHhhhhcCC
Q 036787 14 KGAWSKEEDDKLGAYILKYG--------HWNWAQLPK------SGKSCRLRWMNYLRPD 58 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~g--------~~~W~~Iar------~~~qcr~rw~~~L~~~ 58 (85)
+.+||.+||+.|+..|..+. ..-|.+++. |-.+-|+||..+|.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 45899999999999997652 113766663 6778899999998764
No 26
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.27 E-value=0.00023 Score=41.45 Aligned_cols=41 Identities=22% Similarity=0.513 Sum_probs=30.0
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--C---C--Cccccc---------cchhHHHHHHhhhh
Q 036787 15 GAWSKEEDDKLGAYILK--Y----G--H---W--NWAQLP---------KSGKSCRLRWMNYL 55 (85)
Q Consensus 15 g~Wt~eED~~L~~~v~~--~----g--~---~--~W~~Ia---------r~~~qcr~rw~~~L 55 (85)
..||.+|...|+.++.. + + . + -|..|| ||+.||+.+|.+..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 57999999999999877 2 1 0 1 499998 59999999999865
No 27
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.03 E-value=0.00045 Score=51.97 Aligned_cols=41 Identities=24% Similarity=0.535 Sum_probs=37.6
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCcccccc-----chhHHHHHHhhh
Q 036787 13 KKGAWSKEEDDKLGAYILKYGHWNWAQLPK-----SGKSCRLRWMNY 54 (85)
Q Consensus 13 ~kg~Wt~eED~~L~~~v~~~g~~~W~~Iar-----~~~qcr~rw~~~ 54 (85)
....||.+|-.+|++.++.|| .+|.+||+ +..||-.+|.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 566999999999999999999 59999994 999999999874
No 28
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.00 E-value=0.00056 Score=44.96 Aligned_cols=45 Identities=29% Similarity=0.710 Sum_probs=35.1
Q ss_pred CCcCCCCHHHHHHHHHHHHHh---CCC---Ccccc----ccchhHHHHHHhhhhc
Q 036787 12 MKKGAWSKEEDDKLGAYILKY---GHW---NWAQL----PKSGKSCRLRWMNYLR 56 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~~~---g~~---~W~~I----ar~~~qcr~rw~~~L~ 56 (85)
.+...||.|||.+|...|-.| |.- -+..+ +||+..|.-||+.++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALNRTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHcccHHHhcchHHHHHH
Confidence 356689999999999999988 311 23333 4899999999999885
No 29
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.96 E-value=0.00081 Score=51.15 Aligned_cols=43 Identities=26% Similarity=0.533 Sum_probs=38.7
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhh
Q 036787 11 GMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNY 54 (85)
Q Consensus 11 ~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~ 54 (85)
.-.+..||.+|+.+|+..|+.|| .+|.+|| ||..||-.+|.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccCCCCHHHHHHHHHhc
Confidence 34578899999999999999999 5999999 6999999999874
No 30
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.76 E-value=0.0025 Score=43.25 Aligned_cols=60 Identities=22% Similarity=0.338 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCc------ccccc--chhHHHHHHhhhh-cCCC--------------------CCCCCCH
Q 036787 16 AWSKEEDDKLGAYILKYGHWNW------AQLPK--SGKSCRLRWMNYL-RPDI--------------------KHGNYTK 66 (85)
Q Consensus 16 ~Wt~eED~~L~~~v~~~g~~~W------~~Iar--~~~qcr~rw~~~L-~~~~--------------------~~~~wt~ 66 (85)
+|++++|-.|+.+|..-. +- .++|+ |-..+.+||+..| +|.+ .+.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 599999999999997643 22 33444 8899999999876 3321 2358999
Q ss_pred HHHHHHHHHHH
Q 036787 67 EEEDTIIKTRQ 77 (85)
Q Consensus 67 eEd~~L~~~~~ 77 (85)
+|+++|.....
T Consensus 79 ~EE~lL~~v~s 89 (199)
T PF13325_consen 79 EEEQLLGTVAS 89 (199)
T ss_pred HHHHHHHhhhh
Confidence 99999988654
No 31
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.62 E-value=0.0016 Score=43.23 Aligned_cols=45 Identities=27% Similarity=0.570 Sum_probs=34.1
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCcccc----------ccchhHHHHHHhhhhc
Q 036787 12 MKKGAWSKEEDDKLGAYILKYGHWNWAQL----------PKSGKSCRLRWMNYLR 56 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~~~g~~~W~~I----------ar~~~qcr~rw~~~L~ 56 (85)
.+...||.|||.+|...|-.|+...=.++ .|++.+|..||+.++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHH
Confidence 46778999999999988888853322222 2799999999977664
No 32
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.58 E-value=0.0016 Score=37.20 Aligned_cols=42 Identities=26% Similarity=0.441 Sum_probs=33.7
Q ss_pred cCCCCHHHHHHHHHHHHHh-----CC-----------CCccccc----------cchhHHHHHHhhhh
Q 036787 14 KGAWSKEEDDKLGAYILKY-----GH-----------WNWAQLP----------KSGKSCRLRWMNYL 55 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~-----g~-----------~~W~~Ia----------r~~~qcr~rw~~~L 55 (85)
+..||++|...|+.+|..| +. .-|..|+ |+..|++..|.+..
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 5689999999999999987 20 1377776 58999999998865
No 33
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.12 E-value=0.0046 Score=44.97 Aligned_cols=45 Identities=13% Similarity=0.382 Sum_probs=40.0
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhhhc
Q 036787 12 MKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLR 56 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~L~ 56 (85)
|---.|+.+|+-+|++..+..|-+||..|| |+...|+++|..++.
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 344569999999999999999999999998 699999999999765
No 34
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=94.94 E-value=0.047 Score=29.96 Aligned_cols=24 Identities=17% Similarity=0.264 Sum_probs=21.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-CCC
Q 036787 61 HGNYTKEEEDTIIKTRQQHGN-KIM 84 (85)
Q Consensus 61 ~~~wt~eEd~~L~~~~~~~g~-~W~ 84 (85)
+-.||+||....++++..+|. .|+
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a 27 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWA 27 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCccc
Confidence 568999999999999999997 783
No 35
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=94.85 E-value=0.045 Score=34.29 Aligned_cols=31 Identities=39% Similarity=0.594 Sum_probs=25.7
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCC---CCccccc
Q 036787 11 GMKKGAWSKEEDDKLGAYILKYGH---WNWAQLP 41 (85)
Q Consensus 11 ~~~kg~Wt~eED~~L~~~v~~~g~---~~W~~Ia 41 (85)
+-++..||.+||.-|+-++..||- +.|..|-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik 79 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIK 79 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHH
Confidence 566789999999999999999998 7888875
No 36
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=93.65 E-value=0.07 Score=30.05 Aligned_cols=19 Identities=11% Similarity=0.410 Sum_probs=12.8
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q 036787 61 HGNYTKEEEDTIIKTRQQH 79 (85)
Q Consensus 61 ~~~wt~eEd~~L~~~~~~~ 79 (85)
+.+||.+||+.|+..|..+
T Consensus 2 R~~fT~edD~~l~~~v~~~ 20 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKEN 20 (65)
T ss_dssp -----HHHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHh
Confidence 5689999999999999765
No 37
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.22 E-value=0.35 Score=28.14 Aligned_cols=39 Identities=15% Similarity=0.445 Sum_probs=28.1
Q ss_pred CCCHHHHHHHHHHHHHh-------CCCC-----cccccc----------chhHHHHHHhhh
Q 036787 16 AWSKEEDDKLGAYILKY-------GHWN-----WAQLPK----------SGKSCRLRWMNY 54 (85)
Q Consensus 16 ~Wt~eED~~L~~~v~~~-------g~~~-----W~~Iar----------~~~qcr~rw~~~ 54 (85)
.||+++++.|++++... +.+. |..|+. +..||+.||...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 59999999999988654 1223 555542 888999988665
No 38
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.19 E-value=0.18 Score=36.32 Aligned_cols=41 Identities=24% Similarity=0.323 Sum_probs=33.5
Q ss_pred CCCCHHHHHHHHHHHHHh---------CCCCccccc---------cchhHHHHHHhhhh
Q 036787 15 GAWSKEEDDKLGAYILKY---------GHWNWAQLP---------KSGKSCRLRWMNYL 55 (85)
Q Consensus 15 g~Wt~eED~~L~~~v~~~---------g~~~W~~Ia---------r~~~qcr~rw~~~L 55 (85)
..|+.+|-..|+.+.... ....|..|| ||+.||+.+|.+..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 679999999999988643 113599998 49999999999875
No 39
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=91.99 E-value=0.19 Score=29.52 Aligned_cols=16 Identities=31% Similarity=0.671 Sum_probs=9.3
Q ss_pred CCCCcCCCCHHHHHHH
Q 036787 10 RGMKKGAWSKEEDDKL 25 (85)
Q Consensus 10 ~~~~kg~Wt~eED~~L 25 (85)
|.-..|-||+++|+.|
T Consensus 43 P~n~~GiWT~eDD~~L 58 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEML 58 (87)
T ss_dssp -TT-TT---HHHHHHH
T ss_pred CCCCCCCcCHHHHHHH
Confidence 3345889999999999
No 40
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=91.56 E-value=0.28 Score=30.69 Aligned_cols=24 Identities=21% Similarity=0.288 Sum_probs=19.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC
Q 036787 58 DIKHGNYTKEEEDTIIKTRQQHGN 81 (85)
Q Consensus 58 ~~~~~~wt~eEd~~L~~~~~~~g~ 81 (85)
..+...+|++||..|+-++.+||=
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~ 69 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGY 69 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTT
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCC
Confidence 556789999999999999999995
No 41
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=90.43 E-value=0.16 Score=38.89 Aligned_cols=24 Identities=17% Similarity=0.270 Sum_probs=22.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCC
Q 036787 61 HGNYTKEEEDTIIKTRQQHGNKIM 84 (85)
Q Consensus 61 ~~~wt~eEd~~L~~~~~~~g~~W~ 84 (85)
...||++|+.+|++.+..||-.|.
T Consensus 253 ~~~WT~qE~lLLLE~ie~y~ddW~ 276 (506)
T KOG1279|consen 253 RPNWTEQETLLLLEAIEMYGDDWN 276 (506)
T ss_pred CCCccHHHHHHHHHHHHHhcccHH
Confidence 468999999999999999999994
No 42
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=88.16 E-value=0.78 Score=29.93 Aligned_cols=42 Identities=19% Similarity=0.207 Sum_probs=34.3
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCcccccc---------chhHHHHHHhhh
Q 036787 12 MKKGAWSKEEDDKLGAYILKYGHWNWAQLPK---------SGKSCRLRWMNY 54 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~~~g~~~W~~Iar---------~~~qcr~rw~~~ 54 (85)
.+..+-|+.|-.-|..||++|| .+...++| |+.||+.+...+
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhG-dDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHG-DDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHC-ccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 3455788999999999999999 69999995 777887776655
No 43
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=87.87 E-value=0.44 Score=35.88 Aligned_cols=27 Identities=19% Similarity=0.288 Sum_probs=23.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CCCC
Q 036787 58 DIKHGNYTKEEEDTIIKTRQQHG-NKIM 84 (85)
Q Consensus 58 ~~~~~~wt~eEd~~L~~~~~~~g-~~W~ 84 (85)
.+-...||.+|+.+|++++..|| ++|.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~ 96 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQ 96 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHH
Confidence 45567899999999999999999 6773
No 44
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=87.22 E-value=0.32 Score=37.13 Aligned_cols=26 Identities=15% Similarity=0.268 Sum_probs=22.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCC
Q 036787 60 KHGNYTKEEEDTIIKTRQQHGNKIMK 85 (85)
Q Consensus 60 ~~~~wt~eEd~~L~~~~~~~g~~W~k 85 (85)
...+||.+|..+|++.++.||..|.|
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~k 303 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDK 303 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHH
Confidence 34599999999999999999999953
No 45
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=85.75 E-value=1.2 Score=25.10 Aligned_cols=20 Identities=20% Similarity=0.551 Sum_probs=17.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC
Q 036787 61 HGNYTKEEEDTIIKTRQQHG 80 (85)
Q Consensus 61 ~~~wt~eEd~~L~~~~~~~g 80 (85)
...||.+|...|++++.+|.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~ 21 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHK 21 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhH
Confidence 46799999999999998863
No 46
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=84.11 E-value=1.2 Score=22.70 Aligned_cols=34 Identities=26% Similarity=0.325 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHhCCCCcccccc----chhHHHHHHhh
Q 036787 20 EEDDKLGAYILKYGHWNWAQLPK----SGKSCRLRWMN 53 (85)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Iar----~~~qcr~rw~~ 53 (85)
+=|..|+.+....+...+..||+ |+..|..|...
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELGLSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHH
Confidence 34788999999999889999996 99999998764
No 47
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=83.27 E-value=1.8 Score=32.46 Aligned_cols=44 Identities=18% Similarity=0.359 Sum_probs=37.0
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----------cchhHHHHHHhhhh
Q 036787 11 GMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----------KSGKSCRLRWMNYL 55 (85)
Q Consensus 11 ~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----------r~~~qcr~rw~~~L 55 (85)
++.-..||.+|-+.|.+++..|. -.|..|+ ||-...++||..+.
T Consensus 127 ~l~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 45567899999999999999998 5888887 58889999998753
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=81.56 E-value=1.7 Score=32.64 Aligned_cols=59 Identities=15% Similarity=0.369 Sum_probs=45.5
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhhh--hcC-----CC-CCCCCCHHHHHHH
Q 036787 13 KKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMNY--LRP-----DI-KHGNYTKEEEDTI 72 (85)
Q Consensus 13 ~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~~--L~~-----~~-~~~~wt~eEd~~L 72 (85)
.--+||.+|-++.+++....| .++..|| |+.+|++..|.+- .+| .+ .+.|+..+|-..+
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wG-tdF~LIs~lfP~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~ 435 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWG-TDFSLISSLFPNRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKL 435 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhc-chHHHHHHhcCchhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhH
Confidence 345799999999999999999 5999999 7999999998773 233 22 2467777776543
No 49
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=81.34 E-value=2 Score=27.38 Aligned_cols=41 Identities=17% Similarity=0.187 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHhCCCCcccccc----chhHHHHHHhhhhcCCC
Q 036787 19 KEEDDKLGAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRPDI 59 (85)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Iar----~~~qcr~rw~~~L~~~~ 59 (85)
.+-|.+|+.+.+..|.-.|..||+ |+..|+.|+....+.++
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCC
Confidence 357899999999999889999996 99999999998876543
No 50
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=78.80 E-value=2.2 Score=27.56 Aligned_cols=41 Identities=22% Similarity=0.194 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHhCCCCcccccc----chhHHHHHHhhhhcCCC
Q 036787 19 KEEDDKLGAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRPDI 59 (85)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Iar----~~~qcr~rw~~~L~~~~ 59 (85)
.+-|.+|+.+.+..|.-.|..||+ |+..|+.|+....+.++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCC
Confidence 567899999999999889999996 99999999999876654
No 51
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=75.40 E-value=3.5 Score=28.09 Aligned_cols=43 Identities=26% Similarity=0.352 Sum_probs=31.3
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCC--Ccccc----------ccchhHHHHHHhhh
Q 036787 12 MKKGAWSKEEDDKLGAYILKYGHW--NWAQL----------PKSGKSCRLRWMNY 54 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~~~g~~--~W~~I----------ar~~~qcr~rw~~~ 54 (85)
-.+-+||.+|+++|........+. .+.+| +||+++...+|+..
T Consensus 71 q~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 71 QSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred cccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 367899999999999876543211 23333 48999999999973
No 52
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=75.05 E-value=4.7 Score=33.65 Aligned_cols=43 Identities=21% Similarity=0.296 Sum_probs=34.4
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccc-----------------cchhHHHHHHhhhh
Q 036787 13 KKGAWSKEEDDKLGAYILKYGHWNWAQLP-----------------KSGKSCRLRWMNYL 55 (85)
Q Consensus 13 ~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----------------r~~~qcr~rw~~~L 55 (85)
++..+|.|||..|+-.+.+||-++|..|- ||+..+..|=...|
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 44569999999999999999988898883 57777777755544
No 53
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=73.43 E-value=4.9 Score=33.58 Aligned_cols=26 Identities=15% Similarity=0.166 Sum_probs=21.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CCC
Q 036787 58 DIKHGNYTKEEEDTIIKTRQQHG-NKI 83 (85)
Q Consensus 58 ~~~~~~wt~eEd~~L~~~~~~~g-~~W 83 (85)
..+...+|++||..|+-++.+|| .+|
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~ 949 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNW 949 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchH
Confidence 33456799999999999999999 345
No 54
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=69.53 E-value=2.3 Score=36.09 Aligned_cols=29 Identities=28% Similarity=0.444 Sum_probs=26.4
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccc
Q 036787 13 KKGAWSKEEDDKLGAYILKYGHWNWAQLP 41 (85)
Q Consensus 13 ~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia 41 (85)
.-.-|..++|..|+--|-+||.++|.+|-
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhc
Confidence 45569999999999999999999999986
No 55
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=65.69 E-value=3.3 Score=23.94 Aligned_cols=33 Identities=24% Similarity=0.491 Sum_probs=21.1
Q ss_pred HHHHHHHHhCC-------CCcccccc----------chhHHHHHHhhhhc
Q 036787 24 KLGAYILKYGH-------WNWAQLPK----------SGKSCRLRWMNYLR 56 (85)
Q Consensus 24 ~L~~~v~~~g~-------~~W~~Iar----------~~~qcr~rw~~~L~ 56 (85)
.|..+|...|. +.|..|++ ++.+++..|..+|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 46666666652 35888874 23567777777764
No 56
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=63.00 E-value=8.4 Score=31.33 Aligned_cols=39 Identities=13% Similarity=0.307 Sum_probs=34.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhh
Q 036787 14 KGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMN 53 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~ 53 (85)
...||+.|-.+.-+++..|. .++..|+ +|-+||-+.|..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhccccHHHHHHHHHH
Confidence 45799999999999999998 6888887 599999998865
No 57
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=61.59 E-value=9.5 Score=30.41 Aligned_cols=42 Identities=19% Similarity=0.418 Sum_probs=35.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccc---------------cchhHHHHHHhhhhc
Q 036787 14 KGAWSKEEDDKLGAYILKYGHWNWAQLP---------------KSGKSCRLRWMNYLR 56 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~g~~~W~~Ia---------------r~~~qcr~rw~~~L~ 56 (85)
|..||..|..-..+++.++| .++..|- ++-.|.|..|+..+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 66899999999999999999 6998882 288899999888654
No 58
>PF07555 NAGidase: beta-N-acetylglucosaminidase ; InterPro: IPR011496 This family consists of both eukaryotic and prokaryotic hyaluronidases. Human Q9HAR0 from SWISSPROT is expressed during meningioma []. Clostridium perfringens, P26831 from SWISSPROT, is involved in pathogenesis and is likely to act on connectivity tissue during gas gangrene []. It catalyses the random hydrolysis of 1->4-linkages between N-acetyl-beta-D-glucosamine and D-glucuronate residues in hyaluronate.; PDB: 2WB5_B 2V5C_B 2VUR_A 2V5D_A 2YDS_A 2CBI_A 2XPK_A 2CBJ_B 2J62_A 2X0Y_A ....
Probab=56.18 E-value=15 Score=26.46 Aligned_cols=19 Identities=26% Similarity=0.532 Sum_probs=13.8
Q ss_pred CCCHHHHHHHHHHHHHhCC
Q 036787 16 AWSKEEDDKLGAYILKYGH 34 (85)
Q Consensus 16 ~Wt~eED~~L~~~v~~~g~ 34 (85)
|||.|+-.-|++....++-
T Consensus 11 PWs~e~R~~l~~f~~~~km 29 (306)
T PF07555_consen 11 PWSHEDRLDLIRFLGRYKM 29 (306)
T ss_dssp ---HHHHHHHHHHHHHTT-
T ss_pred CCCHHHHHHHHHHHHHcCC
Confidence 9999999999999988863
No 59
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=55.11 E-value=43 Score=19.97 Aligned_cols=64 Identities=16% Similarity=0.361 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHHHh----CCC---Cccccc---c-------chhH-------HHHHHhhhhcCCCCCC---CCCHH
Q 036787 15 GAWSKEEDDKLGAYILKY----GHW---NWAQLP---K-------SGKS-------CRLRWMNYLRPDIKHG---NYTKE 67 (85)
Q Consensus 15 g~Wt~eED~~L~~~v~~~----g~~---~W~~Ia---r-------~~~q-------cr~rw~~~L~~~~~~~---~wt~e 67 (85)
-.||++++-.|++.+-.| |.. ++..+- + +..| .+.||.+.... .+.| +++..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~~ 83 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSKP 83 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCCH
Confidence 369999999998877666 532 232221 1 3344 45566666543 2223 78999
Q ss_pred HHHHHHHHHHHh
Q 036787 68 EEDTIIKTRQQH 79 (85)
Q Consensus 68 Ed~~L~~~~~~~ 79 (85)
-|..+++|....
T Consensus 84 hd~~~f~Lsk~I 95 (98)
T PF04504_consen 84 HDRRLFELSKKI 95 (98)
T ss_pred hHHHHHHHHHHH
Confidence 999999987653
No 60
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=53.94 E-value=21 Score=20.90 Aligned_cols=39 Identities=23% Similarity=0.130 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhCCCCcccccc----chhHHHHHHhhhhcCC
Q 036787 20 EEDDKLGAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRPD 58 (85)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Iar----~~~qcr~rw~~~L~~~ 58 (85)
+.|..|+.++...+.-.+..||+ ++..|+.+.....+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence 56888999999888779999996 8888988888776544
No 61
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=52.21 E-value=9.4 Score=22.22 Aligned_cols=34 Identities=24% Similarity=0.511 Sum_probs=22.5
Q ss_pred HHHHHHHHhCC-------CCcccccc----------chhHHHHHHhhhhcC
Q 036787 24 KLGAYILKYGH-------WNWAQLPK----------SGKSCRLRWMNYLRP 57 (85)
Q Consensus 24 ~L~~~v~~~g~-------~~W~~Iar----------~~~qcr~rw~~~L~~ 57 (85)
.|..+|...|. ..|..|++ .+.+.+..|.++|.|
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 56677776652 46888884 245667777777754
No 62
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=52.01 E-value=17 Score=27.44 Aligned_cols=32 Identities=16% Similarity=0.273 Sum_probs=24.8
Q ss_pred HHHHhhhhcCCCCCCCCCHHHHHHHHHHHHHhCCCC
Q 036787 48 RLRWMNYLRPDIKHGNYTKEEEDTIIKTRQQHGNKI 83 (85)
Q Consensus 48 r~rw~~~L~~~~~~~~wt~eEd~~L~~~~~~~g~~W 83 (85)
.+-|.+||+ ...||.+|..-|+.+...|.=+|
T Consensus 121 ~eEYe~~l~----dn~WskeETD~LF~lck~fDLRf 152 (445)
T KOG2656|consen 121 DEEYEAHLN----DNSWSKEETDYLFDLCKRFDLRF 152 (445)
T ss_pred hHHHHHhhc----cccccHHHHHHHHHHHHhcCeeE
Confidence 445666664 37899999999999999886444
No 63
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=51.80 E-value=29 Score=20.88 Aligned_cols=36 Identities=17% Similarity=0.256 Sum_probs=24.4
Q ss_pred HHHHHHHHHhCC----CCcccccc-------------------chhHHHHHHhhhhcCC
Q 036787 23 DKLGAYILKYGH----WNWAQLPK-------------------SGKSCRLRWMNYLRPD 58 (85)
Q Consensus 23 ~~L~~~v~~~g~----~~W~~Iar-------------------~~~qcr~rw~~~L~~~ 58 (85)
.+|++-|-...+ ..|..||+ .+++|..-|++++.+.
T Consensus 44 ~kfl~eIi~~~P~~d~~~Wd~IA~~mN~yly~~~~w~t~~~FyDG~~C~~~Fr~~v~~p 102 (108)
T PF00674_consen 44 MKFLKEIIEVKPGVDMKKWDIIASRMNQYLYEEGLWNTPYFFYDGKDCYRFFRRLVLKP 102 (108)
T ss_pred HHHHHHHHhcCCCCCcccHHHHHHHHHHHHHhCCCCCCcCcccCcHHHHHHHHHHhccc
Confidence 344444444433 38999993 8999999999976543
No 64
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=51.25 E-value=12 Score=24.94 Aligned_cols=22 Identities=14% Similarity=0.294 Sum_probs=17.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC
Q 036787 59 IKHGNYTKEEEDTIIKTRQQHG 80 (85)
Q Consensus 59 ~~~~~wt~eEd~~L~~~~~~~g 80 (85)
.+.+.||.++|.+|-+.|-.|+
T Consensus 3 ~rqdawt~e~d~llae~vl~~i 24 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHI 24 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHH
Confidence 3568899999999977776654
No 65
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=48.47 E-value=26 Score=26.30 Aligned_cols=25 Identities=32% Similarity=0.539 Sum_probs=20.3
Q ss_pred CCCCCcC-CCCHHHHHHHHHHHHHhC
Q 036787 9 GRGMKKG-AWSKEEDDKLGAYILKYG 33 (85)
Q Consensus 9 ~~~~~kg-~Wt~eED~~L~~~v~~~g 33 (85)
+|+-.-| -||.||=..|.+++.+||
T Consensus 166 nPHNP~Grvwt~eeL~~i~elc~kh~ 191 (388)
T COG1168 166 NPHNPTGRVWTKEELRKIAELCLRHG 191 (388)
T ss_pred CCCCCCCccccHHHHHHHHHHHHHcC
Confidence 4555544 499999999999999994
No 66
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=45.38 E-value=23 Score=21.79 Aligned_cols=17 Identities=24% Similarity=0.276 Sum_probs=12.2
Q ss_pred CCCHHHHHHHHHHHHHh
Q 036787 16 AWSKEEDDKLGAYILKY 32 (85)
Q Consensus 16 ~Wt~eED~~L~~~v~~~ 32 (85)
+||++||-.|-..|..+
T Consensus 1 kfTA~dDY~Lc~~i~~~ 17 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQ 17 (105)
T ss_dssp ---HHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHH
Confidence 58999999999888665
No 67
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=45.31 E-value=21 Score=18.26 Aligned_cols=35 Identities=14% Similarity=0.165 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHhCCCCcccccc----chhHHHHHHhhh
Q 036787 19 KEEDDKLGAYILKYGHWNWAQLPK----SGKSCRLRWMNY 54 (85)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Iar----~~~qcr~rw~~~ 54 (85)
++++..++.++...| -++.+||. |...++.+...-
T Consensus 12 ~~~~r~i~~l~~~~g-~s~~eIa~~l~~s~~~v~~~l~ra 50 (54)
T PF08281_consen 12 PERQREIFLLRYFQG-MSYAEIAEILGISESTVKRRLRRA 50 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHHHCTS-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHC-cCHHHHHHHHCcCHHHHHHHHHHH
Confidence 466677777777778 59999995 787777776654
No 68
>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=43.00 E-value=49 Score=23.26 Aligned_cols=72 Identities=15% Similarity=0.166 Sum_probs=40.7
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc-c-----chhHHHHHHhh-h---------hcCCCCCC--
Q 036787 1 MVRAPPYDGRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-K-----SGKSCRLRWMN-Y---------LRPDIKHG-- 62 (85)
Q Consensus 1 ~~r~~~~~~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-r-----~~~qcr~rw~~-~---------L~~~~~~~-- 62 (85)
+||+|++ +|+-|.|+...+-.+++...-. .+. | |+-|+..-|.- . |+..++.-
T Consensus 98 FGRfPYS------qGRlt~eD~~~I~~aieyl~L~---~l~dryLd~LSGGQrQRAfIAMVlaQdTdyvlLDEPLNNLDm 168 (252)
T COG4604 98 FGRFPYS------QGRLTKEDRRIINEAIEYLHLE---DLSDRYLDELSGGQRQRAFIAMVLAQDTDYVLLDEPLNNLDM 168 (252)
T ss_pred cCCCccc------CCCCchHHHHHHHHHHHHhccc---chHHHhHHhcccchhhhhhhheeeeccCcEEEecCcccccch
Confidence 6898885 7888888888777777665421 122 1 55555555543 1 22222221
Q ss_pred CCCHHHHHHHHHHHHHhCC
Q 036787 63 NYTKEEEDTIIKTRQQHGN 81 (85)
Q Consensus 63 ~wt~eEd~~L~~~~~~~g~ 81 (85)
.=+.+=-+.|..++.++|.
T Consensus 169 kHsv~iMk~Lrrla~el~K 187 (252)
T COG4604 169 KHSVQIMKILRRLADELGK 187 (252)
T ss_pred HHHHHHHHHHHHHHHHhCC
Confidence 1234455666677777764
No 69
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=42.71 E-value=27 Score=21.58 Aligned_cols=40 Identities=13% Similarity=0.091 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHhCCCCcccccc----chhHHHHHHhhhhcCCC
Q 036787 20 EEDDKLGAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRPDI 59 (85)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Iar----~~~qcr~rw~~~L~~~~ 59 (85)
+-|.+|+.+.+..+......||+ |+..|+.|-.+..+..+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCc
Confidence 56889999999998888888885 99999999888776543
No 70
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=40.55 E-value=20 Score=20.18 Aligned_cols=17 Identities=24% Similarity=0.434 Sum_probs=13.5
Q ss_pred HHHHHHHHhCCCCccccc
Q 036787 24 KLGAYILKYGHWNWAQLP 41 (85)
Q Consensus 24 ~L~~~v~~~g~~~W~~Ia 41 (85)
.|.+|++.|| ++|..|-
T Consensus 31 vl~~LL~lY~-~nW~lIE 47 (65)
T PF10440_consen 31 VLKNLLKLYD-GNWELIE 47 (65)
T ss_pred HHHHHHHHHc-CCchhhh
Confidence 4677888898 5799986
No 71
>PF09846 DUF2073: Uncharacterized protein conserved in archaea (DUF2073); InterPro: IPR012017 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=39.91 E-value=29 Score=21.34 Aligned_cols=18 Identities=22% Similarity=0.303 Sum_probs=14.7
Q ss_pred cCCCCHHHHHHHHHHHHH
Q 036787 14 KGAWSKEEDDKLGAYILK 31 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~ 31 (85)
-+-|||+|+..|+.....
T Consensus 26 E~GLtPeEe~~LIE~TM~ 43 (104)
T PF09846_consen 26 EEGLTPEEESKLIEMTMT 43 (104)
T ss_pred cCCCChHHHHHHHHHHHH
Confidence 456999999999987653
No 72
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=39.18 E-value=30 Score=19.02 Aligned_cols=16 Identities=19% Similarity=0.148 Sum_probs=12.1
Q ss_pred cCCCCHHHHHHHHHHH
Q 036787 14 KGAWSKEEDDKLGAYI 29 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v 29 (85)
..=-|||||..|.+..
T Consensus 42 ~~CitpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDCITPEEDREILEAT 57 (60)
T ss_pred hccCCHHHHHHHHHHH
Confidence 3446999999988764
No 73
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=36.49 E-value=43 Score=25.96 Aligned_cols=39 Identities=13% Similarity=0.171 Sum_probs=29.7
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHh
Q 036787 13 KKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWM 52 (85)
Q Consensus 13 ~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~ 52 (85)
....||.||--++-.++..|| .++..|- |+-..+...|.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP~rsLaSlvqyYy 229 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALPHRSLASLVQYYY 229 (534)
T ss_pred CcccchHHHHHHHHHHHHHhc-ccHHHHHHHccCccHHHHHHHHH
Confidence 356799999999999999999 6998885 45555555443
No 74
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=33.46 E-value=79 Score=25.09 Aligned_cols=44 Identities=9% Similarity=0.331 Sum_probs=38.1
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCccccc-----cchhHHHHHHhh
Q 036787 9 GRGMKKGAWSKEEDDKLGAYILKYGHWNWAQLP-----KSGKSCRLRWMN 53 (85)
Q Consensus 9 ~~~~~kg~Wt~eED~~L~~~v~~~g~~~W~~Ia-----r~~~qcr~rw~~ 53 (85)
.+....++||..|-++........| .+.+.|+ |+.+|++..|..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~g-s~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERG-SDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhc-ccccccccccccccHHHHHHHHhh
Confidence 4456688999999999999999999 5999998 799999988865
No 75
>smart00595 MADF subfamily of SANT domain.
Probab=33.43 E-value=17 Score=20.59 Aligned_cols=18 Identities=33% Similarity=0.997 Sum_probs=12.8
Q ss_pred cccccc----chhHHHHHHhhh
Q 036787 37 WAQLPK----SGKSCRLRWMNY 54 (85)
Q Consensus 37 W~~Iar----~~~qcr~rw~~~ 54 (85)
|..||. +..+|+.+|.+.
T Consensus 30 W~~Ia~~l~~~~~~~~~kw~~L 51 (89)
T smart00595 30 WEEIAEELGLSVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHCcCHHHHHHHHHHH
Confidence 666653 788888888765
No 76
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=32.75 E-value=54 Score=16.16 Aligned_cols=21 Identities=14% Similarity=0.203 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHhCCCCcccccc
Q 036787 21 EDDKLGAYILKYGHWNWAQLPK 42 (85)
Q Consensus 21 ED~~L~~~v~~~g~~~W~~Iar 42 (85)
|.+.|..++..++ ++-...|+
T Consensus 6 E~~~i~~aL~~~~-gn~~~aA~ 26 (42)
T PF02954_consen 6 EKQLIRQALERCG-GNVSKAAR 26 (42)
T ss_dssp HHHHHHHHHHHTT-T-HHHHHH
T ss_pred HHHHHHHHHHHhC-CCHHHHHH
Confidence 6778888888888 67777775
No 77
>PRK10137 alpha-glucosidase; Provisional
Probab=29.16 E-value=58 Score=26.73 Aligned_cols=39 Identities=18% Similarity=0.397 Sum_probs=31.5
Q ss_pred hHHHHHHhhhhcCCCCCCCCCHHHHHHHHHHHHHhCCCC
Q 036787 45 KSCRLRWMNYLRPDIKHGNYTKEEEDTIIKTRQQHGNKI 83 (85)
Q Consensus 45 ~qcr~rw~~~L~~~~~~~~wt~eEd~~L~~~~~~~g~~W 83 (85)
..-+.||.+||+..+....=+++.+.+..+++...-.+|
T Consensus 283 ~~~~~rw~~yl~~~l~~~~~~~~~~~l~~kA~~~L~~Nw 321 (786)
T PRK10137 283 TASQQRWEEYLKKGLTNPDATPEQTRVAVKAMETLNGNW 321 (786)
T ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhc
Confidence 344789999999888877778888888888888776666
No 78
>PF09019 EcoRII-C: EcoRII C terminal; InterPro: IPR015109 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the C-terminal catalytic domain of the type II restriction endonuclease EcoRII, which has a restriction endonuclease-like fold with a central five-stranded mixed beta-sheet surrounded on both sides by alpha-helices. EcoRII cleaves DNA specifically at single 5' CCWGG sites []. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system; PDB: 3HQG_A 1NA6_A 2GB7_C 2FQZ_A 3BM3_B.
Probab=28.93 E-value=12 Score=24.82 Aligned_cols=15 Identities=20% Similarity=0.432 Sum_probs=11.2
Q ss_pred chhHHHHHHhhhhcC
Q 036787 43 SGKSCRLRWMNYLRP 57 (85)
Q Consensus 43 ~~~qcr~rw~~~L~~ 57 (85)
.-..||+||+..|+.
T Consensus 94 aKTTlkdRWrQVl~E 108 (164)
T PF09019_consen 94 AKTTLKDRWRQVLNE 108 (164)
T ss_dssp EESS-TTGCGHHHHH
T ss_pred ecccHHHHHHHHHHH
Confidence 556799999999853
No 79
>PF14237 DUF4339: Domain of unknown function (DUF4339)
Probab=28.02 E-value=58 Score=16.26 Aligned_cols=18 Identities=22% Similarity=0.394 Sum_probs=13.5
Q ss_pred CCCCCCCCCHHHHHHHHH
Q 036787 57 PDIKHGNYTKEEEDTIIK 74 (85)
Q Consensus 57 ~~~~~~~wt~eEd~~L~~ 74 (85)
.....||+|.+|-..|+.
T Consensus 7 ~g~~~GP~s~~el~~l~~ 24 (45)
T PF14237_consen 7 NGQQQGPFSLEELRQLIS 24 (45)
T ss_pred CCeEECCcCHHHHHHHHH
Confidence 345679999999776654
No 80
>KOG3200 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.74 E-value=42 Score=22.88 Aligned_cols=25 Identities=20% Similarity=0.228 Sum_probs=20.1
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccc
Q 036787 17 WSKEEDDKLGAYILKYGHWNWAQLP 41 (85)
Q Consensus 17 Wt~eED~~L~~~v~~~g~~~W~~Ia 41 (85)
=|.||+.+++..++.-....|+.++
T Consensus 21 It~EEe~~~lshIe~ap~pkW~~L~ 45 (224)
T KOG3200|consen 21 ITEEEENLYLSHIENAPQPKWRVLA 45 (224)
T ss_pred cChHHHHHHHHHHhcCCCchhHHHH
Confidence 4778888888888877667899887
No 81
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=27.54 E-value=28 Score=20.26 Aligned_cols=20 Identities=25% Similarity=0.449 Sum_probs=16.8
Q ss_pred HHHHHHHHHHhCCCCcccccc
Q 036787 22 DDKLGAYILKYGHWNWAQLPK 42 (85)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Iar 42 (85)
|+.|..+...-| .+|..+||
T Consensus 2 ~~~L~~la~~LG-~~W~~Lar 21 (83)
T cd08319 2 DRELNQLAQRLG-PEWEQVLL 21 (83)
T ss_pred HHHHHHHHHHHh-hhHHHHHH
Confidence 567888888889 69999996
No 82
>PF15603 Imm45: Immunity protein 45
Probab=26.98 E-value=1.2e+02 Score=17.77 Aligned_cols=24 Identities=21% Similarity=0.264 Sum_probs=19.6
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHHh
Q 036787 56 RPDIKHGNYTKEEEDTIIKTRQQH 79 (85)
Q Consensus 56 ~~~~~~~~wt~eEd~~L~~~~~~~ 79 (85)
.|.-...|.|..|-+.|++++..+
T Consensus 48 e~P~e~~~it~~e~q~II~aI~~~ 71 (82)
T PF15603_consen 48 EPPHENEPITIAERQKIIEAIEKY 71 (82)
T ss_pred cCCCCCcccCHHHHHHHHHHHHHH
Confidence 445567799999999999999765
No 83
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=25.53 E-value=39 Score=19.43 Aligned_cols=15 Identities=33% Similarity=0.569 Sum_probs=13.5
Q ss_pred cchhHHHHHHhhhhc
Q 036787 42 KSGKSCRLRWMNYLR 56 (85)
Q Consensus 42 r~~~qcr~rw~~~L~ 56 (85)
++...|+.||.|.++
T Consensus 55 kt~~tC~~kF~N~~N 69 (80)
T PF09356_consen 55 KTFATCRAKFNNALN 69 (80)
T ss_pred CCHHHHHHHhCCccc
Confidence 599999999999886
No 84
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=24.66 E-value=28 Score=19.06 Aligned_cols=13 Identities=38% Similarity=0.797 Sum_probs=8.5
Q ss_pred chhHHHHHHhhhh
Q 036787 43 SGKSCRLRWMNYL 55 (85)
Q Consensus 43 ~~~qcr~rw~~~L 55 (85)
+..+|+.+|.+.-
T Consensus 41 ~~~~~~~~w~~Lr 53 (85)
T PF10545_consen 41 SVDDCKKRWKNLR 53 (85)
T ss_pred hHHHHHHHHHHHH
Confidence 4666777777653
No 85
>PF11216 DUF3012: Protein of unknown function (DUF3012); InterPro: IPR021379 This family of proteins with unknown function is restricted to Gammaproteobacteria.
Probab=24.42 E-value=43 Score=16.23 Aligned_cols=14 Identities=29% Similarity=0.629 Sum_probs=10.6
Q ss_pred CCCcCCCCHHHHHH
Q 036787 11 GMKKGAWSKEEDDK 24 (85)
Q Consensus 11 ~~~kg~Wt~eED~~ 24 (85)
...+|-||..|-.-
T Consensus 12 ~kpK~dWtanea~~ 25 (32)
T PF11216_consen 12 EKPKGDWTANEAAD 25 (32)
T ss_pred hCCcccCcHhHHHH
Confidence 45789999998653
No 86
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=24.40 E-value=92 Score=15.55 Aligned_cols=35 Identities=11% Similarity=0.063 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhCCCCcccccc----chhHHHHHHhhhh
Q 036787 20 EEDDKLGAYILKYGHWNWAQLPK----SGKSCRLRWMNYL 55 (85)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Iar----~~~qcr~rw~~~L 55 (85)
+++..++.++-..+ .++.+||. |...++.+....|
T Consensus 7 ~~er~vi~~~y~~~-~t~~eIa~~lg~s~~~V~~~~~~al 45 (50)
T PF04545_consen 7 PREREVIRLRYFEG-LTLEEIAERLGISRSTVRRILKRAL 45 (50)
T ss_dssp HHHHHHHHHHHTST--SHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCC-CCHHHHHHHHCCcHHHHHHHHHHHH
Confidence 44555555555444 58899985 6666666655443
No 87
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=24.08 E-value=1.1e+02 Score=23.23 Aligned_cols=39 Identities=18% Similarity=0.222 Sum_probs=31.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccc------cchhHHHHHHhh
Q 036787 14 KGAWSKEEDDKLGAYILKYGHWNWAQLP------KSGKSCRLRWMN 53 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~g~~~W~~Ia------r~~~qcr~rw~~ 53 (85)
-..||.+|-...-.-++.|| .++..|- |+-..|-..|.-
T Consensus 277 l~~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 277 LSGWSEEECRNFEEGLELYG-KDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred cccCCHHHHHHHHHHHHHhc-ccHHHHHhcccccchHHHHHHHHHH
Confidence 34699999999999999999 6999996 477777776643
No 88
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=23.46 E-value=88 Score=21.55 Aligned_cols=20 Identities=15% Similarity=0.360 Sum_probs=17.4
Q ss_pred CcCCCCHHHHHHHHHHHHHh
Q 036787 13 KKGAWSKEEDDKLGAYILKY 32 (85)
Q Consensus 13 ~kg~Wt~eED~~L~~~v~~~ 32 (85)
+|..|||.+.++...|+..-
T Consensus 82 RK~sWs~~DleRFT~Lyr~d 101 (207)
T PF05546_consen 82 RKHSWSPADLERFTELYRND 101 (207)
T ss_pred cccCCChHHHHHHHHHHHhh
Confidence 58899999999999998754
No 89
>PF09105 SelB-wing_1: Elongation factor SelB, winged helix ; InterPro: IPR015189 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 1". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; PDB: 2V9V_A 1LVA_A 2PLY_A.
Probab=23.32 E-value=58 Score=17.46 Aligned_cols=41 Identities=15% Similarity=0.320 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhCCC-CccccccchhHHHHHHhhhhcCCCCCCCCCHHHHHHHHHHHHHhC
Q 036787 22 DDKLGAYILKYGHW-NWAQLPKSGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIKTRQQHG 80 (85)
Q Consensus 22 D~~L~~~v~~~g~~-~W~~Iar~~~qcr~rw~~~L~~~~~~~~wt~eEd~~L~~~~~~~g 80 (85)
+.+|.+++++|..+ +|.+.|- +...+-+|..+|++.+..-|
T Consensus 4 ekilaqiiqehregldwqeaat------------------raslsleetrkllqsmaaag 45 (61)
T PF09105_consen 4 EKILAQIIQEHREGLDWQEAAT------------------RASLSLEETRKLLQSMAAAG 45 (61)
T ss_dssp HHHHHHHHHC-TT-EEHHHHHH------------------HHT--HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHccCcHHHHHH------------------HhhccHHHHHHHHHHHHhcC
Confidence 46777888877544 7776651 22345677777777766555
No 90
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=23.01 E-value=53 Score=25.45 Aligned_cols=25 Identities=16% Similarity=0.077 Sum_probs=21.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCC
Q 036787 59 IKHGNYTKEEEDTIIKTRQQHGNKI 83 (85)
Q Consensus 59 ~~~~~wt~eEd~~L~~~~~~~g~~W 83 (85)
-....||.||..++-+++..||...
T Consensus 185 ~~~d~WT~Ed~vlFe~aF~~~GK~F 209 (534)
T KOG1194|consen 185 EFPDEWTAEDIVLFEQAFQFFGKDF 209 (534)
T ss_pred CCcccchHHHHHHHHHHHHHhcccH
Confidence 3457899999999999999999764
No 91
>PF11784 DUF3320: Protein of unknown function (DUF3320); InterPro: IPR021754 This family is conserved in Proteobacteria and Chlorobi families. Many members are annotated as being putative DNA helicase-related proteins.
Probab=22.60 E-value=1.1e+02 Score=16.02 Aligned_cols=10 Identities=30% Similarity=0.518 Sum_probs=5.3
Q ss_pred cccchhHHHH
Q 036787 40 LPKSGKSCRL 49 (85)
Q Consensus 40 Iar~~~qcr~ 49 (85)
++|++..+++
T Consensus 42 ~~R~G~rI~~ 51 (52)
T PF11784_consen 42 LSRAGSRIRE 51 (52)
T ss_pred cccchHHHhc
Confidence 4456655554
No 92
>PF00605 IRF: Interferon regulatory factor transcription factor; InterPro: IPR001346 Viral infections induce the expression of type I interferons (IFN-alpha and IFN-beta) genes. The induction is due to the transcriptional activation of the IFN genes. Interferon regulatory factor I (IRF-1) is one of the transcription factors responsible for that activation. IRF-1 binds to an upstream regulatory cis element, known as the interferon consensus sequence (ICS), which is found in the promoters of type I IFN and IFN-inducible MHC class I genes. Interferon regulatory factor 2 (IRF-2) is a protein that also interacts with the ICS, but that does not function as an activator; rather, it suppresses the function of IRF-1 under certain circumstances []. These proteins share a highly conserved N-terminal domain of about 100 amino acid residues which is involved in DNA-binding and which contain five conserved tryptophans. This domain is known as a 'tryptophan pentad repeat' or a 'tryptophan cluster' and is also present in: Interferon consensus sequence binding protein (ICSBP) [], a transcription factor expressed predominantly in lymphoid tissues and induced by IFN-gamma that also binds to the ICS. Transcriptional regulator ISGF3 gamma subunit []. ISGF3 is responsible for the initial stimulation of interferon-alpha-responsive genes. It recognises and binds to the interferon-stimulated response element (ISRE) within the regulatory sequences of target genes. Interferon regulatory factor 3 (IRF-3). Interferon regulatory factor 4 (IRF-4) which binds to the interferon- stimulated response element (ISRE) of the MHC class I promoter. Interferon regulatory factor 5 (IRF-5). Interferon regulatory factor 6 (IRF-6). Interferon regulatory factor 7 (IRF-7). Gamma Herpesviruses vIRF-1, -2 and -3, proteins with homology to the cellular transcription factors of the IRF family []. Neither vIRF-1 nor vIRF-2 bind to DNA with the same specificity as cellular IRFs, indicating that if vIRFs are DNA-binding proteins, their binding has a pattern distinct from that of the cellular IRFs. Whether vIRF-3 can bind DNA with the same specificity as cellular IRFs is not known. The IRF tryptophan pentad repeat DNA-binding domain has an alpha/beta architecture comprising a cluster of three alpha-helices (alpha1-alpha3) flanked on one side by a mixed four-stranded beta-sheet (beta1-beta4). It forms a helix-turn-helix motif that binds to ISRE consensus sequences found in target promoters. Three of the tryptophan residues contact DNA by recognising a GAAA sequence []. This entry represents the IRF tryptophan pentad repeat DNA-binding domain.; GO: 0000975 regulatory region DNA binding; PDB: 2IRF_H 1IRF_A 1IRG_A 2DLL_A 3QU3_C 2PI0_D 2O6G_G 1T2K_A 2O61_A 3QU6_C ....
Probab=22.02 E-value=1.4e+02 Score=18.20 Aligned_cols=44 Identities=16% Similarity=0.148 Sum_probs=34.8
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCcccc-cc-chhHHHHHHhhhhc
Q 036787 12 MKKGAWSKEEDDKLGAYILKYGHWNWAQL-PK-SGKSCRLRWMNYLR 56 (85)
Q Consensus 12 ~~kg~Wt~eED~~L~~~v~~~g~~~W~~I-ar-~~~qcr~rw~~~L~ 56 (85)
..+.-|+.++|..|.++-..+. +.+..= .+ .+..++.+++..|+
T Consensus 37 ~~r~~~~~~~D~~iFkaWA~~~-Gk~~~g~~~~dp~~wKtnfRcALn 82 (109)
T PF00605_consen 37 AGRQDWDQEEDAKIFKAWAVHR-GKYRPGIDKPDPSTWKTNFRCALN 82 (109)
T ss_dssp TTSTTSSHCGGGHHHHHHHHHT-TSS-CTTCSSHHHHHHHHHHHHHH
T ss_pred CCCCCccccchHHHHHHHHHHh-cccCCCCCCCCHHHHHHHHHHHHh
Confidence 3466789999999999999997 677655 22 88889999998886
No 93
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=21.68 E-value=1.2e+02 Score=21.02 Aligned_cols=23 Identities=17% Similarity=0.421 Sum_probs=18.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC
Q 036787 59 IKHGNYTKEEEDTIIKTRQQHGN 81 (85)
Q Consensus 59 ~~~~~wt~eEd~~L~~~~~~~g~ 81 (85)
...+.|+++|++.+++.++..|.
T Consensus 136 ~~~Gyf~~~e~~~i~~~I~~s~~ 158 (243)
T PRK03692 136 SQDGYFTPEQRQALFERIHASGA 158 (243)
T ss_pred EeCCCCCHHHHHHHHHHHHhcCC
Confidence 34689999998889998887764
No 94
>COG2992 Bax Uncharacterized FlgJ-related protein [General function prediction only]
Probab=21.66 E-value=67 Score=22.66 Aligned_cols=26 Identities=8% Similarity=0.018 Sum_probs=21.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCC
Q 036787 59 IKHGNYTKEEEDTIIKTRQQHGNKIM 84 (85)
Q Consensus 59 ~~~~~wt~eEd~~L~~~~~~~g~~W~ 84 (85)
..++.||++|-..|-+++..|.-.|+
T Consensus 93 ~~k~~~s~~e~a~l~~lat~ykv~~~ 118 (262)
T COG2992 93 YQKEQLSPSERARLKDLATRYKVKWS 118 (262)
T ss_pred hhhccCCHHHHHHHHHHHHHHHhhhc
Confidence 44568999999999999999987775
No 95
>TIGR01210 conserved hypothetical protein TIGR01210. This family of exclusively archaeal proteins has no characterized close homologs. Several rounds of PSI-BLAST with a stringent cutoff of 1e-8 shows apparent similarity of the central region of this family to the central regions of the oxygen-independent coproporphyrinogen III dehydrogenase HemN and to other enzymes.
Probab=21.06 E-value=1.5e+02 Score=21.14 Aligned_cols=47 Identities=21% Similarity=0.388 Sum_probs=36.4
Q ss_pred CCCcCCCCH-HHHHHHHHHHHHhC-CCCccccccchhHHHHHHhhhhcC
Q 036787 11 GMKKGAWSK-EEDDKLGAYILKYG-HWNWAQLPKSGKSCRLRWMNYLRP 57 (85)
Q Consensus 11 ~~~kg~Wt~-eED~~L~~~v~~~g-~~~W~~Iar~~~qcr~rw~~~L~~ 57 (85)
+.++||.+= +=|..+.+++..|. .++...+.--.-.|++.|..+|..
T Consensus 257 ~~~rg~~nc~~c~~~~~~~~~~~~~~q~~~~~~~~~c~c~~~w~~~~~~ 305 (313)
T TIGR01210 257 GSDRGAHNCGKCDKRVKEAIRKFSLTQDISVLEEVECECIEEWKAYVEV 305 (313)
T ss_pred CCcCCCcCcchhhHHHHHHHHHhcccCCHHHHhccCCchHHHHHHHHhc
Confidence 456778874 56888888999886 457777766778899999999864
No 96
>smart00348 IRF interferon regulatory factor. interferon regulatory factor, also known as trytophan pentad repeat
Probab=20.74 E-value=2.1e+02 Score=17.36 Aligned_cols=43 Identities=14% Similarity=0.084 Sum_probs=33.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccc--chhHHHHHHhhhhcC
Q 036787 14 KGAWSKEEDDKLGAYILKYGHWNWAQLPK--SGKSCRLRWMNYLRP 57 (85)
Q Consensus 14 kg~Wt~eED~~L~~~v~~~g~~~W~~Iar--~~~qcr~rw~~~L~~ 57 (85)
+.-|..|+|..|..+...+. +.+..-.+ .+..++.+++..|+.
T Consensus 37 ~~~~~~e~D~~iFkaWa~~~-Gk~~~g~~~~d~~~wK~nfRcAln~ 81 (107)
T smart00348 37 RSGFDEERDAEIFKAYCVAR-GIYQPGGRSPDPKTWKARLRCALRK 81 (107)
T ss_pred cCCCCchhccHHHHHHHHHh-CCCCCCCCCCCHHHHHHHHHHHHhc
Confidence 44467899999999999887 67766533 668899999998864
No 97
>KOG4771 consensus Nucleolar protein (NOP16) involved in 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=20.65 E-value=1.1e+02 Score=20.72 Aligned_cols=39 Identities=15% Similarity=0.080 Sum_probs=26.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcccccc---------chhHHHHHHhhh
Q 036787 15 GAWSKEEDDKLGAYILKYGHWNWAQLPK---------SGKSCRLRWMNY 54 (85)
Q Consensus 15 g~Wt~eED~~L~~~v~~~g~~~W~~Iar---------~~~qcr~rw~~~ 54 (85)
-+=|+.|.+-|..||++|| .+...+.+ +....+.++..+
T Consensus 154 l~~s~rehewi~rL~~KhG-dD~e~M~~D~KLNs~q~s~~~Lk~l~~R~ 201 (210)
T KOG4771|consen 154 LTTSQREHEWIRRLVEKHG-DDIEGMYRDRKLNSMQHSVATLKKLCTRY 201 (210)
T ss_pred cchHHHHHHHHHHHHHHhc-hhHHHHHHhhhhhHHhhhHHHHHHHHHHH
Confidence 4556778888999999999 57766664 444455555443
No 98
>PF08870 DUF1832: Domain of unknown function (DUF1832); InterPro: IPR014969 This entry describes the DndE protein encoded by an operon associated with a sulphur-containing modification to DNA []. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndE is a putative carboxylase homologous to NCAIR synthetases.
Probab=20.40 E-value=86 Score=19.26 Aligned_cols=25 Identities=24% Similarity=0.347 Sum_probs=21.5
Q ss_pred CHHHHHHHHHHHHHhCCCCcccccc
Q 036787 18 SKEEDDKLGAYILKYGHWNWAQLPK 42 (85)
Q Consensus 18 t~eED~~L~~~v~~~g~~~W~~Iar 42 (85)
|++-++.|..+-...|..+|..++|
T Consensus 5 S~~~~~~L~~Lk~~tgi~~~Nil~R 29 (113)
T PF08870_consen 5 SKKAKEQLKKLKRRTGITPWNILCR 29 (113)
T ss_pred CHHHHHHHHHHHHhcCCCcccHHHH
Confidence 6777889999999999889988886
Done!