Query 020389
Match_columns 327
No_of_seqs 224 out of 702
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 09:21:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020389.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020389hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01557 myb_SHAQKYF myb-like 99.6 8.1E-16 1.8E-20 115.4 6.0 50 64-113 1-56 (57)
2 KOG0724 Zuotin and related mol 99.5 2.1E-15 4.6E-20 143.0 -2.6 251 48-309 34-310 (335)
3 PF00249 Myb_DNA-binding: Myb- 99.5 1.3E-13 2.9E-18 97.9 6.0 45 66-110 1-47 (48)
4 smart00717 SANT SANT SWI3, AD 99.1 1.4E-10 3.1E-15 78.4 5.8 46 66-111 1-47 (49)
5 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.6E-10 3.4E-15 77.3 5.4 43 68-110 1-44 (45)
6 COG5259 RSC8 RSC chromatin rem 99.0 2.5E-10 5.4E-15 115.3 4.9 72 12-107 246-320 (531)
7 KOG0457 Histone acetyltransfer 99.0 8.8E-10 1.9E-14 110.3 6.1 65 50-114 50-121 (438)
8 PF13921 Myb_DNA-bind_6: Myb-l 98.9 1.2E-09 2.5E-14 80.0 4.7 42 69-110 1-42 (60)
9 KOG1279 Chromatin remodeling f 98.7 1.2E-08 2.5E-13 104.5 4.9 69 14-107 226-294 (506)
10 PLN03212 Transcription repress 98.5 2.4E-07 5.2E-12 87.7 6.8 63 50-112 7-73 (249)
11 PLN03212 Transcription repress 98.5 5.2E-07 1.1E-11 85.5 9.0 53 63-115 75-127 (249)
12 COG5114 Histone acetyltransfer 98.4 1E-06 2.2E-11 86.7 7.8 58 56-113 47-111 (432)
13 PLN03091 hypothetical protein; 98.4 3.9E-07 8.3E-12 92.1 5.0 52 60-111 8-61 (459)
14 PLN03091 hypothetical protein; 98.3 1E-06 2.2E-11 89.2 7.2 53 62-114 63-115 (459)
15 KOG0048 Transcription factor, 98.2 3.1E-06 6.6E-11 78.3 6.6 52 62-113 58-109 (238)
16 KOG0048 Transcription factor, 97.6 7.1E-05 1.5E-09 69.3 4.5 47 66-112 9-57 (238)
17 KOG0049 Transcription factor, 97.3 0.00039 8.5E-09 73.8 6.1 54 63-116 357-411 (939)
18 PLN03162 golden-2 like transcr 96.9 0.0032 6.9E-08 63.6 7.8 54 63-116 234-292 (526)
19 KOG4329 DNA-binding protein [G 96.8 0.0082 1.8E-07 60.6 9.8 46 66-114 277-323 (445)
20 KOG4468 Polycomb-group transcr 96.7 0.0038 8.2E-08 66.0 6.6 60 66-125 88-157 (782)
21 PF13837 Myb_DNA-bind_4: Myb/S 96.0 0.011 2.4E-07 45.6 4.4 51 66-116 1-69 (90)
22 KOG0051 RNA polymerase I termi 95.6 0.016 3.5E-07 61.3 5.0 55 59-114 376-431 (607)
23 KOG0724 Zuotin and related mol 95.2 0.012 2.6E-07 56.4 2.5 71 64-141 162-239 (335)
24 KOG0049 Transcription factor, 95.2 0.029 6.3E-07 60.2 5.3 44 65-108 411-455 (939)
25 KOG0051 RNA polymerase I termi 94.8 0.031 6.7E-07 59.2 4.4 50 64-113 434-509 (607)
26 PLN03142 Probable chromatin-re 94.6 0.058 1.3E-06 60.3 6.0 49 67-115 825-874 (1033)
27 KOG3554 Histone deacetylase co 94.2 0.04 8.6E-07 57.4 3.4 43 65-107 284-327 (693)
28 KOG0050 mRNA splicing protein 94.1 0.053 1.2E-06 56.8 4.1 52 62-113 3-55 (617)
29 COG5118 BDP1 Transcription ini 93.7 0.11 2.4E-06 52.9 5.5 42 65-106 364-405 (507)
30 KOG4167 Predicted DNA-binding 93.7 0.1 2.2E-06 56.6 5.4 45 65-109 618-662 (907)
31 KOG1194 Predicted DNA-binding 93.6 0.14 3E-06 53.1 6.0 42 66-107 187-228 (534)
32 KOG3841 TEF-1 and related tran 93.6 0.35 7.5E-06 49.3 8.6 54 64-117 74-148 (455)
33 PF13873 Myb_DNA-bind_5: Myb/S 91.6 0.71 1.5E-05 35.3 6.2 50 67-116 3-74 (78)
34 PF09111 SLIDE: SLIDE; InterP 91.3 0.64 1.4E-05 39.9 6.3 58 59-116 42-115 (118)
35 smart00426 TEA TEA domain. 88.2 0.52 1.1E-05 37.4 3.1 43 66-108 3-66 (68)
36 COG5147 REB1 Myb superfamily p 86.9 0.39 8.5E-06 50.3 2.2 57 57-113 11-68 (512)
37 COG5147 REB1 Myb superfamily p 86.6 0.97 2.1E-05 47.5 4.9 55 62-116 68-122 (512)
38 KOG0050 mRNA splicing protein 84.9 0.95 2.1E-05 47.9 3.8 49 64-113 57-105 (617)
39 PF12776 Myb_DNA-bind_3: Myb/S 83.0 3.3 7.2E-05 32.3 5.3 43 68-110 1-61 (96)
40 PF01285 TEA: TEA/ATTS domain 81.5 1.5 3.2E-05 45.1 3.6 48 63-110 46-112 (431)
41 KOG4282 Transcription factor G 78.2 6.2 0.00013 38.3 6.6 52 66-117 54-119 (345)
42 PF06461 DUF1086: Domain of Un 73.4 9.1 0.0002 34.4 5.7 50 68-117 40-92 (145)
43 KOG0385 Chromatin remodeling c 71.7 4.8 0.0001 44.8 4.3 62 56-118 785-847 (971)
44 PF11035 SnAPC_2_like: Small n 71.7 10 0.00022 38.2 6.2 49 66-114 21-73 (344)
45 PF04504 DUF573: Protein of un 69.2 17 0.00038 29.9 6.2 51 66-116 4-71 (98)
46 KOG1194 Predicted DNA-binding 67.8 9.5 0.00021 40.1 5.3 52 64-115 367-418 (534)
47 PF01388 ARID: ARID/BRIGHT DNA 67.2 13 0.00029 29.1 5.0 39 75-113 39-90 (92)
48 KOG2009 Transcription initiati 65.2 6.8 0.00015 42.0 3.7 49 65-116 408-456 (584)
49 PF08281 Sigma70_r4_2: Sigma-7 63.2 25 0.00054 24.7 5.3 39 72-111 13-51 (54)
50 PF13404 HTH_AsnC-type: AsnC-t 61.5 27 0.00059 24.6 5.1 37 72-109 3-40 (42)
51 PF10141 ssDNA-exonuc_C: Singl 60.7 9.6 0.00021 34.6 3.4 46 240-285 90-138 (195)
52 PF08914 Myb_DNA-bind_2: Rap1 59.9 15 0.00033 28.5 4.0 46 66-111 2-57 (65)
53 smart00501 BRIGHT BRIGHT, ARID 59.1 27 0.00059 27.7 5.4 41 76-116 36-89 (93)
54 PRK13923 putative spore coat p 56.8 14 0.00031 33.9 3.8 48 65-112 4-57 (170)
55 cd02336 ZZ_RSC8 Zinc finger, Z 56.3 5.9 0.00013 28.8 1.1 17 11-30 21-38 (45)
56 TIGR02894 DNA_bind_RsfA transc 53.4 19 0.00041 33.0 4.0 47 66-113 4-57 (161)
57 PLN03142 Probable chromatin-re 53.1 31 0.00068 39.3 6.5 54 64-117 924-990 (1033)
58 PF02954 HTH_8: Bacterial regu 52.8 31 0.00067 23.9 4.2 26 72-97 5-30 (42)
59 KOG2656 DNA methyltransferase 49.7 19 0.0004 37.4 3.7 51 66-116 130-186 (445)
60 TIGR02937 sigma70-ECF RNA poly 45.0 68 0.0015 25.1 5.6 47 68-116 110-156 (158)
61 PRK11179 DNA-binding transcrip 45.0 42 0.00092 28.9 4.8 43 71-118 8-51 (153)
62 PF10561 UPF0565: Uncharacteri 44.7 18 0.0004 35.8 2.7 32 55-86 270-301 (303)
63 PF09420 Nop16: Ribosome bioge 43.8 49 0.0011 29.3 5.0 46 65-110 113-162 (164)
64 smart00344 HTH_ASNC helix_turn 41.0 58 0.0012 25.8 4.6 38 71-109 2-40 (108)
65 PHA00442 host recBCD nuclease 39.4 16 0.00035 28.3 1.1 33 62-94 8-49 (59)
66 KOG1878 Nuclear receptor coreg 39.3 11 0.00023 44.4 0.3 48 72-119 360-407 (1672)
67 PRK11169 leucine-responsive tr 39.2 61 0.0013 28.3 4.9 43 71-118 13-56 (164)
68 cd06171 Sigma70_r4 Sigma70, re 38.5 1.1E+02 0.0024 19.8 5.1 43 68-112 10-52 (55)
69 PF04545 Sigma70_r4: Sigma-70, 38.5 1.3E+02 0.0028 21.0 5.6 43 71-115 7-49 (50)
70 KOG0487 Transcription factor A 38.3 19 0.0004 35.9 1.7 32 85-118 263-294 (308)
71 cd08780 Death_TRADD Death Doma 37.5 47 0.001 27.9 3.7 24 70-96 1-24 (90)
72 cd08311 Death_p75NR Death doma 36.0 41 0.00089 26.8 3.0 33 71-105 2-34 (77)
73 KOG1019 Retinoblastoma pathway 34.8 24 0.00053 39.4 2.1 51 55-105 33-84 (837)
74 PF12451 VPS11_C: Vacuolar pro 34.3 33 0.00072 25.1 2.1 28 70-97 17-44 (49)
75 PF13384 HTH_23: Homeodomain-l 29.9 79 0.0017 21.8 3.4 39 70-110 3-41 (50)
76 PRK00430 fis global DNA-bindin 29.6 1.3E+02 0.0027 24.8 5.0 26 72-97 55-80 (95)
77 PRK01905 DNA-binding protein F 29.4 1.4E+02 0.003 23.3 5.0 28 70-97 35-62 (77)
78 PF10440 WIYLD: Ubiquitin-bind 29.2 36 0.00077 26.9 1.6 18 76-93 31-48 (65)
79 PF11035 SnAPC_2_like: Small n 27.9 91 0.002 31.7 4.5 55 246-306 211-266 (344)
80 smart00595 MADF subfamily of S 27.9 94 0.002 23.9 3.8 23 87-110 29-51 (89)
81 PRK11924 RNA polymerase sigma 24.7 2.2E+02 0.0048 23.6 5.7 32 84-116 140-171 (179)
82 PF12181 MogR_DNAbind: DNA bin 24.1 1.8E+02 0.0039 26.4 5.2 64 65-131 59-134 (148)
83 PF13325 MCRS_N: N-terminal re 23.6 1.4E+02 0.003 28.2 4.6 46 65-110 72-125 (199)
84 COG3604 FhlA Transcriptional r 23.1 85 0.0018 33.8 3.5 46 67-113 501-546 (550)
85 cd08777 Death_RIP1 Death Domai 21.7 1.5E+02 0.0032 23.9 3.9 23 82-105 10-32 (86)
86 TIGR03238 dnd_assoc_3 dnd syst 21.6 1.2E+02 0.0025 32.4 4.2 52 257-308 243-296 (504)
No 1
>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=99.61 E-value=8.1e-16 Score=115.40 Aligned_cols=50 Identities=48% Similarity=0.716 Sum_probs=46.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCc-ch---HhHHhhcC-CC-CHHHHHHHHHHHHHH
Q 020389 64 KSRESWTEPEHDKFLEALQLFDR-DW---KKIEAFIG-SK-TVIQIRSHAQKYFLK 113 (327)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yGr-dW---kkIA~~Vg-TR-T~~QVrSHAQKYf~k 113 (327)
|.|..||+|||.+||+||+.||+ +| ++|+++++ ++ |..||+||+||||++
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 46789999999999999999998 99 99998765 67 999999999999986
No 2
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.48 E-value=2.1e-15 Score=142.97 Aligned_cols=251 Identities=22% Similarity=0.172 Sum_probs=164.3
Q ss_pred cCCCCCCCCCCCcccccCCCC-CCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHHhhc-C---CCCC
Q 020389 48 TSEDPSKKIRKPYTITKSRES-WTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN-G---TAEH 122 (327)
Q Consensus 48 ~~ed~~kk~rkPyt~tk~r~~-WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~k~-g---~~~~ 122 (327)
..++..++++++|.+...+.+ ||.+||..|.++|..|++.|+.|-++++.++..|++.|+|+||-++.+. + ....
T Consensus 34 ~~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~~~~~~~~~~~ 113 (335)
T KOG0724|consen 34 WTEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGKSDTSLAEVEE 113 (335)
T ss_pred hHHHHHHHHHHHHHHHhccccccchhhhhHHHhcCccccccchhHHhhhhhHHHHhhhhccCCCccccCccccccccccc
Confidence 446777999999999997655 9999999999999999889999999999999999999999999999874 2 2234
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCccccccCcccC-CCCcCCCCcccCCCCcccccccccccC-CCCCCCCCcccCCCCCC
Q 020389 123 LPPPRPKRKAAHPYPQKASKNAPMLSQVSGSFQS-SSAQLEPGHFLRPDSSSMLMIPMASAA-TSWTNNVQTVSLSPASK 200 (327)
Q Consensus 123 iP~pr~KRks~H~~p~~~~~~~~~~~q~~~~~qs-s~~~~~pg~~~~~dsss~~~~~~~~~~-~sw~~~~~~~~~~~~~~ 200 (327)
+|++++++++.|+|+.+...+.... +. ..++ ...+. +++....+.....++..+... ..|... ...-.+
T Consensus 114 ~~~~~~~~k~~~~y~~~~~~~~~~~-~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~ 184 (335)
T KOG0724|consen 114 FYNFWPKFKSWRQYPQKDEPDEEDS-EN--RSQSRYSGGT-QRGKSNAEELRRKGTPVTERERKLVLLA-----LKKDGK 184 (335)
T ss_pred cCCccccccccccCCCCCCcccccc-cc--hhhhhhcccc-cccccchhhhhhccchhHHHHHHHHHhh-----hccccc
Confidence 8999999999999999987543221 11 0111 11122 333333232222222211111 111110 000000
Q ss_pred CC--cccCCC-----CCCCCCCCcccccCccccCCCCcccCCCCCCCCcCCCChHHHhh--hhhccc-----C----CCc
Q 020389 201 GP--EVANNR-----SNSTDSTPKARVSGELTDQGGELTDQGNNSHPLRVLPDFAQVYT--FIGSVF-----D----PNA 262 (327)
Q Consensus 201 g~--~~~~n~-----~s~~~s~~~~~~~~~~~~~~g~~~~~~~~~~~l~~~PdFaqVY~--FigsvF-----d----p~~ 262 (327)
+. -...++ .....+-....... .-.......+.....+.++.++++.+++. |.++++ + |..
T Consensus 185 ~~~~~~~~~~~~~r~~~~~~s~a~~~~~~-~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 263 (335)
T KOG0724|consen 185 IDWRKISQNVEKERTPEQVASHAQEKAFE-KALARQKSGEEEKRRKSIEDITTASEAEDRKKEDEAAKEAKKKPRDTPSL 263 (335)
T ss_pred ccceechhhhhhhhcchhhhhhhhhhhhH-HHHHHHhhhccccccchhhhhhccchhhhhhcchhhhhhhhccccccccc
Confidence 00 001111 11111100000000 00000123344555667889999999988 999999 7 888
Q ss_pred hhHHHHhhcCCchhHHHHHHHHH-HHhhhcCCcchHHHHHHHhhcCCC
Q 020389 263 SDHVQKLKKMDPIDVETVLLLMR-NLSINLTSPDFEDHRRLLSSYEID 309 (327)
Q Consensus 263 ~~hlq~Lk~Mdpi~~eTvLllmr-NLs~NL~sp~fe~~~~lls~y~~~ 309 (327)
.+|.+.++.|++++.++.++.|. |+..+|+++.|++++.+++. ...
T Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 310 (335)
T KOG0724|consen 264 KSRNKRLKSFDGIAEESSETEDSLELVAALSAPMEEPQWELKAA-AGS 310 (335)
T ss_pred cchhhhcccCCccCCCchhHHHhHHHHHhhhccccccHHHHHhh-ccc
Confidence 99999999999999999999999 89999999999999776666 544
No 3
>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=99.45 E-value=1.3e-13 Score=97.90 Aligned_cols=45 Identities=42% Similarity=0.709 Sum_probs=41.3
Q ss_pred CCCCCHHHHHHHHHHHHHcCcc-hHhHHhhcC-CCCHHHHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLFDRD-WKKIEAFIG-SKTVIQIRSHAQKY 110 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrd-WkkIA~~Vg-TRT~~QVrSHAQKY 110 (327)
++.||+||+++|++||++||.+ |+.||.+|+ +||..||++|+++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhh
Confidence 4789999999999999999987 999999999 99999999999987
No 4
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.12 E-value=1.4e-10 Score=78.40 Aligned_cols=46 Identities=24% Similarity=0.523 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHHcC-cchHhHHhhcCCCCHHHHHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYF 111 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QVrSHAQKYf 111 (327)
+..||.+|+.+|+.+++.|| .+|..|+.++++||..||+.++.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 36899999999999999999 89999999999999999999987654
No 5
>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=99.10 E-value=1.6e-10 Score=77.33 Aligned_cols=43 Identities=30% Similarity=0.564 Sum_probs=41.0
Q ss_pred CCCHHHHHHHHHHHHHcC-cchHhHHhhcCCCCHHHHHHHHHHH
Q 020389 68 SWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKY 110 (327)
Q Consensus 68 ~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QVrSHAQKY 110 (327)
.||.+|+.+|+.+++.|| .+|..|++++++||..||+.|++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 599999999999999999 8999999999999999999998765
No 6
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=99.01 E-value=2.5e-10 Score=115.27 Aligned_cols=72 Identities=31% Similarity=0.471 Sum_probs=58.3
Q ss_pred cc-cCCCCCCCCCCCCCCCCCCchhHHhhhcCCcccccCCCCCCCCCCCccccc--CCCCCCHHHHHHHHHHHHHcCcch
Q 020389 12 FY-LDPNGMALPGLGPFASSATTPTAAAAAAGTSTVSTSEDPSKKIRKPYTITK--SRESWTEPEHDKFLEALQLFDRDW 88 (327)
Q Consensus 12 ~y-l~p~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~ed~~kk~rkPyt~tk--~r~~WT~EEh~lFLeaLe~yGrdW 88 (327)
+| +|++|+-+ | +|++.. .+.|+. +-++.. ....||.+|..++||||+.||.||
T Consensus 246 ~~n~C~~C~~q-g--~f~s~~----------------~ssDf~-----~v~~~~~~~dk~WS~qE~~LLLEGIe~ygDdW 301 (531)
T COG5259 246 KYNSCSECYDQ-G--RFPSEF----------------TSSDFK-----PVTISLLIRDKNWSRQELLLLLEGIEMYGDDW 301 (531)
T ss_pred hcccchHHHhc-C--cCCCcc----------------ccccch-----hhhhhcccccccccHHHHHHHHHHHHHhhhhH
Confidence 56 79999999 7 888762 234443 333332 245999999999999999999999
Q ss_pred HhHHhhcCCCCHHHHHHHH
Q 020389 89 KKIEAFIGSKTVIQIRSHA 107 (327)
Q Consensus 89 kkIA~~VgTRT~~QVrSHA 107 (327)
.+||.|||+||++||.-|+
T Consensus 302 ~kVA~HVgtKt~EqCIl~F 320 (531)
T COG5259 302 DKVARHVGTKTKEQCILHF 320 (531)
T ss_pred HHHHHHhCCCCHHHHHHHH
Confidence 9999999999999999984
No 7
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.95 E-value=8.8e-10 Score=110.33 Aligned_cols=65 Identities=31% Similarity=0.534 Sum_probs=56.6
Q ss_pred CCCCCCCCCCcccccC------CCCCCHHHHHHHHHHHHHcC-cchHhHHhhcCCCCHHHHHHHHHHHHHHH
Q 020389 50 EDPSKKIRKPYTITKS------RESWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYFLKV 114 (327)
Q Consensus 50 ed~~kk~rkPyt~tk~------r~~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QVrSHAQKYf~kl 114 (327)
|-...+..+||.+-.. ...||.+|+.+||+|++.|| .+|+.||+|||+||.++|+.|+.|+|..-
T Consensus 50 E~~~H~~~H~Yrim~~~s~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~s 121 (438)
T KOG0457|consen 50 ETGKHQNDHPYRIMDTNSFPILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVNS 121 (438)
T ss_pred ccCCCCCCCCceeecCCCCCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhcC
Confidence 4445567788877654 67999999999999999999 69999999999999999999999998764
No 8
>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=98.93 E-value=1.2e-09 Score=80.02 Aligned_cols=42 Identities=33% Similarity=0.653 Sum_probs=37.0
Q ss_pred CCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHH
Q 020389 69 WTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKY 110 (327)
Q Consensus 69 WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKY 110 (327)
||+||+++++++++.||.+|++||+++|.||+.||+.|+.++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~ 42 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNH 42 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHT
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHH
Confidence 999999999999999999999999999999999999998763
No 9
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=98.71 E-value=1.2e-08 Score=104.49 Aligned_cols=69 Identities=28% Similarity=0.422 Sum_probs=56.6
Q ss_pred cCCCCCCCCCCCCCCCCCCchhHHhhhcCCcccccCCCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHHcCcchHhHHh
Q 020389 14 LDPNGMALPGLGPFASSATTPTAAAAAAGTSTVSTSEDPSKKIRKPYTITKSRESWTEPEHDKFLEALQLFDRDWKKIEA 93 (327)
Q Consensus 14 l~p~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~ed~~kk~rkPyt~tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~ 93 (327)
+|..|+-+ | +++.. +...|+ +..-...+..||++|..++||||++||.||.+|+.
T Consensus 226 ~c~~c~~~-g--~~~~~----------------~~~~Df------~~~~~~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~ 280 (506)
T KOG1279|consen 226 LCADCYDQ-G--EFPSE----------------FKKSDF------KVIGESARPNWTEQETLLLLEAIEMYGDDWNKVAD 280 (506)
T ss_pred hhHHHHhc-C--CccCc----------------cccccc------hhccccCCCCccHHHHHHHHHHHHHhcccHHHHHh
Confidence 88888888 6 66653 223444 33445568899999999999999999999999999
Q ss_pred hcCCCCHHHHHHHH
Q 020389 94 FIGSKTVIQIRSHA 107 (327)
Q Consensus 94 ~VgTRT~~QVrSHA 107 (327)
|||+||..||..|.
T Consensus 281 hVg~ks~eqCI~kF 294 (506)
T KOG1279|consen 281 HVGTKSQEQCILKF 294 (506)
T ss_pred ccCCCCHHHHHHHH
Confidence 99999999999983
No 10
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.49 E-value=2.4e-07 Score=87.70 Aligned_cols=63 Identities=17% Similarity=0.312 Sum_probs=52.1
Q ss_pred CCCCCCCCCCccc--ccCCCCCCHHHHHHHHHHHHHcCc-chHhHHhhcC-CCCHHHHHHHHHHHHH
Q 020389 50 EDPSKKIRKPYTI--TKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIG-SKTVIQIRSHAQKYFL 112 (327)
Q Consensus 50 ed~~kk~rkPyt~--tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~Vg-TRT~~QVrSHAQKYf~ 112 (327)
.+++.+.+.|+.. ...+++||.||++++++++++||. +|+.||..++ .||..|||.+|.+|+.
T Consensus 7 ~~~~~~~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 7 KKPVSKKTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred CCCCCCCCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhc
Confidence 4555555555544 345889999999999999999995 9999999886 8999999999998863
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.49 E-value=5.2e-07 Score=85.47 Aligned_cols=53 Identities=23% Similarity=0.244 Sum_probs=48.5
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHHh
Q 020389 63 TKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (327)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~ 115 (327)
..+++.||.||++++++.+..||..|..||.+|++||..||+.||..++.+..
T Consensus 75 ~I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l 127 (249)
T PLN03212 75 SVKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKL 127 (249)
T ss_pred hcccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHH
Confidence 45689999999999999999999999999999999999999999988776643
No 12
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.37 E-value=1e-06 Score=86.71 Aligned_cols=58 Identities=28% Similarity=0.512 Sum_probs=51.1
Q ss_pred CCCCcccc------cCCCCCCHHHHHHHHHHHHHcC-cchHhHHhhcCCCCHHHHHHHHHHHHHH
Q 020389 56 IRKPYTIT------KSRESWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (327)
Q Consensus 56 ~rkPyt~t------k~r~~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QVrSHAQKYf~k 113 (327)
.-++|.+. +..+.|+..|+.+|+++++-.| .+|..||.|||+|+.++|++|+-||+..
T Consensus 47 pyH~YRiietnsypI~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~e 111 (432)
T COG5114 47 PYHGYRIIETNSYPIGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYDE 111 (432)
T ss_pred CCCCeeEeeccCccccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHhh
Confidence 45566654 3478999999999999999999 5999999999999999999999999874
No 13
>PLN03091 hypothetical protein; Provisional
Probab=98.36 E-value=3.9e-07 Score=92.14 Aligned_cols=52 Identities=17% Similarity=0.394 Sum_probs=46.2
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHcCc-chHhHHhhcC-CCCHHHHHHHHHHHH
Q 020389 60 YTITKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIG-SKTVIQIRSHAQKYF 111 (327)
Q Consensus 60 yt~tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~Vg-TRT~~QVrSHAQKYf 111 (327)
|+....++.||.||+++++++|++||. +|+.||..++ +||..|||.+|.+|+
T Consensus 8 ~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyL 61 (459)
T PLN03091 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYL 61 (459)
T ss_pred cCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhcc
Confidence 444556889999999999999999996 9999999887 899999999998765
No 14
>PLN03091 hypothetical protein; Provisional
Probab=98.33 E-value=1e-06 Score=89.22 Aligned_cols=53 Identities=17% Similarity=0.289 Sum_probs=48.3
Q ss_pred cccCCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHH
Q 020389 62 ITKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKV 114 (327)
Q Consensus 62 ~tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl 114 (327)
+..+++.||.||++++++.+++||..|.+||.+|++||..|||.||...++|.
T Consensus 63 P~IkKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 63 PDLKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred CcccCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence 34568999999999999999999999999999999999999999998776664
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.19 E-value=3.1e-06 Score=78.31 Aligned_cols=52 Identities=17% Similarity=0.316 Sum_probs=47.3
Q ss_pred cccCCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHH
Q 020389 62 ITKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (327)
Q Consensus 62 ~tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~k 113 (327)
+..+++.||+||+++++++..+||.+|..||.++++||..+|+.|+.-..+|
T Consensus 58 P~ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~Wnt~lkk 109 (238)
T KOG0048|consen 58 PDLKRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHWNTHLKK 109 (238)
T ss_pred CCccCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHHHHHHHH
Confidence 4567999999999999999999999999999999999999999999666544
No 16
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.59 E-value=7.1e-05 Score=69.34 Aligned_cols=47 Identities=15% Similarity=0.323 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHcCc-chHhHHhhcC-CCCHHHHHHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLFDR-DWKKIEAFIG-SKTVIQIRSHAQKYFL 112 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~Vg-TRT~~QVrSHAQKYf~ 112 (327)
+++||.||+.++.+-|++||. +|..|+...| .|+..+||-+|-+|+.
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLr 57 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLR 57 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccC
Confidence 699999999999999999995 8999999999 9999999999988853
No 17
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.29 E-value=0.00039 Score=73.84 Aligned_cols=54 Identities=19% Similarity=0.381 Sum_probs=47.3
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcC-cchHhHHhhcCCCCHHHHHHHHHHHHHHHhh
Q 020389 63 TKSRESWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QVrSHAQKYf~kl~k 116 (327)
..+.++||++|+.+++.|+++|| ++|-+|-+.|++|+..|||.+|-+.+..-.|
T Consensus 357 sikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K 411 (939)
T KOG0049|consen 357 SVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAK 411 (939)
T ss_pred cccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhc
Confidence 45689999999999999999999 5999999999999999999998776554433
No 18
>PLN03162 golden-2 like transcription factor; Provisional
Probab=96.88 E-value=0.0032 Score=63.61 Aligned_cols=54 Identities=28% Similarity=0.388 Sum_probs=45.9
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCc---chHhHHhhcC--CCCHHHHHHHHHHHHHHHhh
Q 020389 63 TKSRESWTEPEHDKFLEALQLFDR---DWKKIEAFIG--SKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGr---dWkkIA~~Vg--TRT~~QVrSHAQKYf~kl~k 116 (327)
.|.|-.||.|=|++|++||++.|- -=|+|-++++ .=|..+|+||-|||...+++
T Consensus 234 KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~ 292 (526)
T PLN03162 234 KKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRH 292 (526)
T ss_pred CCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhccc
Confidence 356889999999999999999993 6677876554 67999999999999988764
No 19
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=96.79 E-value=0.0082 Score=60.56 Aligned_cols=46 Identities=26% Similarity=0.525 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHcCcchHhHH-hhcCCCCHHHHHHHHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLFDRDWKKIE-AFIGSKTVIQIRSHAQKYFLKV 114 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrdWkkIA-~~VgTRT~~QVrSHAQKYf~kl 114 (327)
-..|+++|-+.|.+||+.||||+..|- .-|.||++-+|..+ ||++.
T Consensus 277 l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVey---YYlWK 323 (445)
T KOG4329|consen 277 LSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEY---YYLWK 323 (445)
T ss_pred cccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHH---HHHhh
Confidence 558999999999999999999999998 78999999999886 45554
No 20
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=96.65 E-value=0.0038 Score=66.02 Aligned_cols=60 Identities=25% Similarity=0.403 Sum_probs=48.8
Q ss_pred CCCCCHHHHHHHHHHHHHcCcchHhH----------HhhcCCCCHHHHHHHHHHHHHHHhhcCCCCCCCC
Q 020389 66 RESWTEPEHDKFLEALQLFDRDWKKI----------EAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLPP 125 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrdWkkI----------A~~VgTRT~~QVrSHAQKYf~kl~k~g~~~~iP~ 125 (327)
+..||..|..-|..||++||+|+.+| -.-+-.||..|||.||-+...++.+.-.+..|+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~F~~~l~~ 157 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLLFGPDLSL 157 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhhcccccCc
Confidence 77999999999999999999999999 3445678999999998877777777543433443
No 21
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.97 E-value=0.011 Score=45.62 Aligned_cols=51 Identities=29% Similarity=0.490 Sum_probs=35.9
Q ss_pred CCCCCHHHHHHHHHHHHH------cC--------cchHhHHhhcC----CCCHHHHHHHHHHHHHHHhh
Q 020389 66 RESWTEPEHDKFLEALQL------FD--------RDWKKIEAFIG----SKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~------yG--------rdWkkIA~~Vg----TRT~~QVrSHAQKYf~kl~k 116 (327)
|..||++|...||+.+.. |+ .-|+.||+.+. .||+.||+..+.+...+-.+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 468999999999999876 32 16999997654 69999999998876666544
No 22
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=95.58 E-value=0.016 Score=61.28 Aligned_cols=55 Identities=24% Similarity=0.444 Sum_probs=47.9
Q ss_pred Cccccc-CCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHH
Q 020389 59 PYTITK-SRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKV 114 (327)
Q Consensus 59 Pyt~tk-~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl 114 (327)
-|++-. .++.||+||.+.+.....++|.+|+.|+..+| |.+.-||.|+..|...-
T Consensus 376 ~y~~FE~~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~lg-r~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 376 AYTPFENKRGKWTPEEEEELKKLVVEHGNDWKEIGKALG-RMPMDCRDRWRQYVKCG 431 (607)
T ss_pred cCCccccccCCCCcchHHHHHHHHHHhcccHHHHHHHHc-cCcHHHHHHHHHhhccc
Confidence 455555 89999999999999999999999999999998 58999999998885543
No 23
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=95.22 E-value=0.012 Score=56.44 Aligned_cols=71 Identities=27% Similarity=0.337 Sum_probs=59.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCc-chHhHH-hhcCCCCHHHHHHHHH-----HHHHHHhhcCCCCCCCCCCCCCCCCCCC
Q 020389 64 KSRESWTEPEHDKFLEALQLFDR-DWKKIE-AFIGSKTVIQIRSHAQ-----KYFLKVQKNGTAEHLPPPRPKRKAAHPY 136 (327)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yGr-dWkkIA-~~VgTRT~~QVrSHAQ-----KYf~kl~k~g~~~~iP~pr~KRks~H~~ 136 (327)
+.+..|+..+|.+|+.++..+|+ +|.+|+ .++..|++.|+.+|+| +|+.+....+ ....|+++|++
T Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~-------~~~~~~s~~~~ 234 (335)
T KOG0724|consen 162 RKGTPVTERERKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAFEKALARQKSGE-------EEKRRKSIEDI 234 (335)
T ss_pred hccchhHHHHHHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhc-------cccccchhhhh
Confidence 45789999999999999999998 999999 6888999999999999 8888875443 24557788887
Q ss_pred CcccC
Q 020389 137 PQKAS 141 (327)
Q Consensus 137 p~~~~ 141 (327)
+....
T Consensus 235 ~~~~~ 239 (335)
T KOG0724|consen 235 TTASE 239 (335)
T ss_pred hccch
Confidence 76554
No 24
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.16 E-value=0.029 Score=60.22 Aligned_cols=44 Identities=27% Similarity=0.545 Sum_probs=39.4
Q ss_pred CCCCCCHHHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHH
Q 020389 65 SRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQ 108 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQ 108 (327)
+.++||-.|++++++++++||. .|-+||.++|.||..|.++.-.
T Consensus 411 K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~ 455 (939)
T KOG0049|consen 411 KVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRL 455 (939)
T ss_pred ccCceeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHH
Confidence 4679999999999999999997 9999999999999988766543
No 25
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=94.84 E-value=0.031 Score=59.22 Aligned_cols=50 Identities=24% Similarity=0.509 Sum_probs=42.9
Q ss_pred cCCCCCCHHHHHHHHHHHH-------Hc------------------Cc-chHhHHhhcCCCCHHHHHHHHHHHHHH
Q 020389 64 KSRESWTEPEHDKFLEALQ-------LF------------------DR-DWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (327)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe-------~y------------------Gr-dWkkIA~~VgTRT~~QVrSHAQKYf~k 113 (327)
..++.||.||.+++|..++ .| .. .|..|++.+|||+..|||.|+++...+
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~ 509 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTS 509 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhh
Confidence 4689999999999999995 44 11 799999999999999999998877555
No 26
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.56 E-value=0.058 Score=60.27 Aligned_cols=49 Identities=20% Similarity=0.453 Sum_probs=44.5
Q ss_pred CCCCHHHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHHHHHHHHh
Q 020389 67 ESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (327)
Q Consensus 67 ~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQKYf~kl~ 115 (327)
..|+..+-..|+.|.++||| +...||..|.+||+.+|+.|++.|+.+..
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~~~ 874 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWERYK 874 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHhhh
Confidence 36999999999999999998 99999999999999999999988776643
No 27
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=94.19 E-value=0.04 Score=57.35 Aligned_cols=43 Identities=28% Similarity=0.509 Sum_probs=39.0
Q ss_pred CCCCCCHHHHHHHHHHHHHcCcchHhHH-hhcCCCCHHHHHHHH
Q 020389 65 SRESWTEPEHDKFLEALQLFDRDWKKIE-AFIGSKTVIQIRSHA 107 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA-~~VgTRT~~QVrSHA 107 (327)
.-+.|+..|-.+|.|||++||+|+..|- +|++=|+..-|..++
T Consensus 284 emEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 284 EMEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hhhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHH
Confidence 4569999999999999999999999997 899999988888765
No 28
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=94.09 E-value=0.053 Score=56.82 Aligned_cols=52 Identities=17% Similarity=0.426 Sum_probs=47.1
Q ss_pred cccCCCCCCHHHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHHHHHHH
Q 020389 62 ITKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (327)
Q Consensus 62 ~tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQKYf~k 113 (327)
+-+.++.|+..|++.+--|+.+||+ .|.+|+..+..||+.||+..|.+|..-
T Consensus 3 i~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp 55 (617)
T KOG0050|consen 3 IEIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDP 55 (617)
T ss_pred eEEecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCH
Confidence 3467899999999999999999997 999999999999999999999887544
No 29
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=93.75 E-value=0.11 Score=52.93 Aligned_cols=42 Identities=24% Similarity=0.517 Sum_probs=39.6
Q ss_pred CCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHH
Q 020389 65 SRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSH 106 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSH 106 (327)
...+||.+|.++|..||..+|-|+.-|+..+++|...||+.-
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaK 405 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAK 405 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHH
Confidence 457999999999999999999999999999999999999983
No 30
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=93.67 E-value=0.1 Score=56.64 Aligned_cols=45 Identities=27% Similarity=0.383 Sum_probs=41.4
Q ss_pred CCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHH
Q 020389 65 SRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQK 109 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQK 109 (327)
....||..|.++|-.||-.|.||+-.|+..|.+||+.||-.+|=.
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred CcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 356999999999999999999999999999999999999988643
No 31
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=93.61 E-value=0.14 Score=53.15 Aligned_cols=42 Identities=21% Similarity=0.441 Sum_probs=39.1
Q ss_pred CCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHA 107 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHA 107 (327)
-..||.||..+|-.|++.||+++++|-..++.|+...++-+|
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyY 228 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYY 228 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHH
Confidence 379999999999999999999999999999999998888765
No 32
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=93.57 E-value=0.35 Score=49.35 Aligned_cols=54 Identities=22% Similarity=0.373 Sum_probs=43.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHcC-------------c---chHhHHhhcC-----CCCHHHHHHHHHHHHHHHhhc
Q 020389 64 KSRESWTEPEHDKFLEALQLFD-------------R---DWKKIEAFIG-----SKTVIQIRSHAQKYFLKVQKN 117 (327)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yG-------------r---dWkkIA~~Vg-----TRT~~QVrSHAQKYf~kl~k~ 117 (327)
...+.|+.+=++.|+|||..|- + +=.-||.||+ |||..||.+|-|-+-.++.+.
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence 4578999999999999998873 1 3367898887 899999999999765555443
No 33
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=91.57 E-value=0.71 Score=35.25 Aligned_cols=50 Identities=18% Similarity=0.410 Sum_probs=41.1
Q ss_pred CCCCHHHHHHHHHHHHHc-----C------------cchHhHHhhc-----CCCCHHHHHHHHHHHHHHHhh
Q 020389 67 ESWTEPEHDKFLEALQLF-----D------------RDWKKIEAFI-----GSKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 67 ~~WT~EEh~lFLeaLe~y-----G------------rdWkkIA~~V-----gTRT~~QVrSHAQKYf~kl~k 116 (327)
..||.+|...|++.++.| | +-|..|+..+ +.||..|++..++++-..+++
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 579999999999999887 2 2899998433 379999999999988777654
No 34
>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=91.31 E-value=0.64 Score=39.87 Aligned_cols=58 Identities=21% Similarity=0.418 Sum_probs=45.2
Q ss_pred CcccccCCCCCCHHHHHHHHHHHHHcCc----chHhHHh------------hcCCCCHHHHHHHHHHHHHHHhh
Q 020389 59 PYTITKSRESWTEPEHDKFLEALQLFDR----DWKKIEA------------FIGSKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 59 Pyt~tk~r~~WT~EEh~lFLeaLe~yGr----dWkkIA~------------~VgTRT~~QVrSHAQKYf~kl~k 116 (327)
.|.++..+..||++|+.-+|-.+.+||- .|.+|-+ |+.+||+.+|..++.-...-+.|
T Consensus 42 ~y~~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 42 NYPPNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp SSTSTSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred ccCCCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 4666777899999999999999999996 9999953 46699999999999866555554
No 35
>smart00426 TEA TEA domain.
Probab=88.25 E-value=0.52 Score=37.44 Aligned_cols=43 Identities=28% Similarity=0.464 Sum_probs=31.4
Q ss_pred CCCCCHHHHHHHHHHHHHcCc--ch--------------HhHHhhcC-----CCCHHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLFDR--DW--------------KKIEAFIG-----SKTVIQIRSHAQ 108 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGr--dW--------------kkIA~~Vg-----TRT~~QVrSHAQ 108 (327)
...|.++=+..|++||+.|-. .+ .-|++|+- .||..||-||-|
T Consensus 3 ~~vWp~~lE~Af~~aL~~~~~~g~~kik~~~r~k~~gRNelIs~YI~~~tGk~Rt~KQVsShIQ 66 (68)
T smart00426 3 EGVWSPDIEQAFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQ 66 (68)
T ss_pred CCcCcHHHHHHHHHHHHHcCccCcccchhhhcCcccchhHHHHHHHHHHhCCccchhhhcchhe
Confidence 468999999999999999863 22 12444443 478888888866
No 36
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=86.94 E-value=0.39 Score=50.31 Aligned_cols=57 Identities=16% Similarity=0.259 Sum_probs=48.2
Q ss_pred CCCcccccCCCCCCHHHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHHHHHHH
Q 020389 57 RKPYTITKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (327)
Q Consensus 57 rkPyt~tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQKYf~k 113 (327)
.|++......+.|+..|+..++-+++.||- .|.+||..+..||..||+.|+..|...
T Consensus 11 ~~~~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp 68 (512)
T COG5147 11 IKLMQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNP 68 (512)
T ss_pred cccccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhch
Confidence 344566667889999999999999999995 999999888889999999998666444
No 37
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=86.59 E-value=0.97 Score=47.46 Aligned_cols=55 Identities=13% Similarity=0.322 Sum_probs=47.7
Q ss_pred cccCCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHHhh
Q 020389 62 ITKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 62 ~tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~k 116 (327)
+......|+.||...++..-..+|-.|..|+.+++.||..||-..|.+-+....+
T Consensus 68 p~lk~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 68 PQLKKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhcccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 3456889999999999999999999999999999999999999887766555443
No 38
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=84.89 E-value=0.95 Score=47.86 Aligned_cols=49 Identities=18% Similarity=0.411 Sum_probs=43.9
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHH
Q 020389 64 KSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (327)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~k 113 (327)
++...|+.||++++|.+...+..-|..|+..|| ||..||-.++++.+..
T Consensus 57 i~~tews~eederlLhlakl~p~qwrtIa~i~g-r~~~qc~eRy~~ll~~ 105 (617)
T KOG0050|consen 57 IKKTEWSREEDERLLHLAKLEPTQWRTIADIMG-RTSQQCLERYNNLLDV 105 (617)
T ss_pred HhhhhhhhhHHHHHHHHHHhcCCccchHHHHhh-hhHHHHHHHHHHHHHH
Confidence 457899999999999999999999999999987 7999999999876443
No 39
>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=82.96 E-value=3.3 Score=32.27 Aligned_cols=43 Identities=23% Similarity=0.354 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHHHHc---C----------cchHhHHhhc----C-CCCHHHHHHHHHHH
Q 020389 68 SWTEPEHDKFLEALQLF---D----------RDWKKIEAFI----G-SKTVIQIRSHAQKY 110 (327)
Q Consensus 68 ~WT~EEh~lFLeaLe~y---G----------rdWkkIA~~V----g-TRT~~QVrSHAQKY 110 (327)
.||+++++.||+.+... | ..|+.|++.+ | ..|..||++|+...
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 59999999999999443 1 1699998433 3 46899999998754
No 40
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=81.53 E-value=1.5 Score=45.06 Aligned_cols=48 Identities=25% Similarity=0.383 Sum_probs=32.7
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCc--------------chHhHHhhcC-----CCCHHHHHHHHHHH
Q 020389 63 TKSRESWTEPEHDKFLEALQLFDR--------------DWKKIEAFIG-----SKTVIQIRSHAQKY 110 (327)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGr--------------dWkkIA~~Vg-----TRT~~QVrSHAQKY 110 (327)
.+..+.|+++=+..|+|||+.|-. +=+-|++||. .||..||.+|.|-.
T Consensus 46 ~~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 46 GDGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GGGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 346789999999999999998841 2245777775 69999999999966
No 41
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=78.24 E-value=6.2 Score=38.31 Aligned_cols=52 Identities=19% Similarity=0.362 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHcC----------cchHhHHh---hcC-CCCHHHHHHHHHHHHHHHhhc
Q 020389 66 RESWTEPEHDKFLEALQLFD----------RDWKKIEA---FIG-SKTVIQIRSHAQKYFLKVQKN 117 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yG----------rdWkkIA~---~Vg-TRT~~QVrSHAQKYf~kl~k~ 117 (327)
...|+.+|...||++..... ..|..||+ ..| -||+.||+.-+.+..++.++.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~ 119 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKE 119 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Confidence 48999999999999985432 27999995 334 699999999988766655543
No 42
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=73.45 E-value=9.1 Score=34.45 Aligned_cols=50 Identities=18% Similarity=0.350 Sum_probs=44.8
Q ss_pred CCCHHHHHHHHHHHHHcCc---chHhHHhhcCCCCHHHHHHHHHHHHHHHhhc
Q 020389 68 SWTEPEHDKFLEALQLFDR---DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN 117 (327)
Q Consensus 68 ~WT~EEh~lFLeaLe~yGr---dWkkIA~~VgTRT~~QVrSHAQKYf~kl~k~ 117 (327)
-++..+...||.++-+||- +|+-.-..+..||..+|+.|+--|..+|...
T Consensus 40 GFn~rQR~~Fln~vMR~G~~~f~~~w~~~~Lr~Ks~~ei~aY~~LFm~HL~E~ 92 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRYGMGAFDWKWFVPRLRGKSEKEIRAYGSLFMRHLCEP 92 (145)
T ss_pred ccCHHHHHHHHHHHHHHCcCcccchHHhhhhccccHHHHHHHHHHHHHHhcCC
Confidence 5789999999999999995 9999999999999999999998888888643
No 43
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=71.68 E-value=4.8 Score=44.80 Aligned_cols=62 Identities=18% Similarity=0.357 Sum_probs=52.4
Q ss_pred CCCCcccccCCCCCCHHHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHHHHHHHHhhcC
Q 020389 56 IRKPYTITKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 118 (327)
Q Consensus 56 ~rkPyt~tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQKYf~kl~k~g 118 (327)
..|+.-.+..-..||+.+-..|+.|-++||+ |-..|+.-|-+ |+++|..++.-||.++++..
T Consensus 785 ~~k~~ll~~gft~w~k~df~~fi~a~eKygr~di~~ia~~~e~-~~eev~~y~rvfwer~~el~ 847 (971)
T KOG0385|consen 785 EEKEELLSQGFTNWTKRDFNQFIKANEKYGRDDIENIAAEVEG-TPEEVGEYARVFWERLEELS 847 (971)
T ss_pred hhhhhhhhccccchhhhhHHHHHHHhhccCcchhhhhHHhhcC-CHHHHHHHHHHHHHHHHHhh
Confidence 3445555555678999999999999999998 99999987777 99999999999999987753
No 44
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=71.65 E-value=10 Score=38.18 Aligned_cols=49 Identities=20% Similarity=0.309 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHHHc-Cc---chHhHHhhcCCCCHHHHHHHHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLF-DR---DWKKIEAFIGSKTVIQIRSHAQKYFLKV 114 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~y-Gr---dWkkIA~~VgTRT~~QVrSHAQKYf~kl 114 (327)
...||..|.+.+|.+|+-- |. |-..|+..|.+|+..||+..-|+.-.++
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rv 73 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRV 73 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHH
Confidence 5699999999999999765 43 6777888999999999999888765444
No 45
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=69.21 E-value=17 Score=29.94 Aligned_cols=51 Identities=24% Similarity=0.380 Sum_probs=35.2
Q ss_pred CCCCCHHHHHHHHHHHHHc----Cc----chHhHHhhcCCC-----CHHHHHHHH----HHHHHHHhh
Q 020389 66 RESWTEPEHDKFLEALQLF----DR----DWKKIEAFIGSK-----TVIQIRSHA----QKYFLKVQK 116 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~y----Gr----dWkkIA~~VgTR-----T~~QVrSHA----QKYf~kl~k 116 (327)
...||++++..+|+||-.| |. ||...-++|... |..|+..-. +||...+.+
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k 71 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK 71 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh
Confidence 4679999999999999888 63 888777777643 555654433 344444444
No 46
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=67.78 E-value=9.5 Score=40.12 Aligned_cols=52 Identities=2% Similarity=-0.006 Sum_probs=46.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHHh
Q 020389 64 KSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (327)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~ 115 (327)
+....|+.+|-.+.+.+|++||++..-|+-.||.++..|++...-.|-.+..
T Consensus 367 ~~n~~~~T~~~la~v~~I~~~~~~~~pl~wrik~t~cmee~e~l~~~~Rr~m 418 (534)
T KOG1194|consen 367 RMNRCFDTPAALALIDNIKRKHHMCVPLVWRVKQTKCMEENEILNEEARRQM 418 (534)
T ss_pred hhccccCcHHHHHHHHHHHHhccCcchhhhHhcCcchhhHHHHHHHHHHHHH
Confidence 4468999999999999999999999999999999999999998877765543
No 47
>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=67.18 E-value=13 Score=29.06 Aligned_cols=39 Identities=26% Similarity=0.502 Sum_probs=27.4
Q ss_pred HHHHHHHHHcC--------cchHhHHhhcCCCC-----HHHHHHHHHHHHHH
Q 020389 75 DKFLEALQLFD--------RDWKKIEAFIGSKT-----VIQIRSHAQKYFLK 113 (327)
Q Consensus 75 ~lFLeaLe~yG--------rdWkkIA~~VgTRT-----~~QVrSHAQKYf~k 113 (327)
-+|-.++..+| +.|..|++-+|--. ..+++.|+++|+..
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 34445555665 38999998887322 37899999999764
No 48
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=65.18 E-value=6.8 Score=41.99 Aligned_cols=49 Identities=20% Similarity=0.375 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHHhh
Q 020389 65 SRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~k 116 (327)
....|+.+|..+|..++..+|-+..-|+...+.|+..|||- ||-++-.+
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~---K~~~eE~r 456 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKA---KFKKEEKR 456 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHH---HHhhhhhc
Confidence 36899999999999999999999999999999999999997 55555433
No 49
>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=63.15 E-value=25 Score=24.73 Aligned_cols=39 Identities=5% Similarity=0.123 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHH
Q 020389 72 PEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYF 111 (327)
Q Consensus 72 EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf 111 (327)
++....+...-..|..|++||+.+| .|...|+.|.++=.
T Consensus 13 ~~~r~i~~l~~~~g~s~~eIa~~l~-~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 13 ERQREIFLLRYFQGMSYAEIAEILG-ISESTVKRRLRRAR 51 (54)
T ss_dssp HHHHHHHHHHHTS---HHHHHHHCT-S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCcCHHHHHHHHC-cCHHHHHHHHHHHH
Confidence 3444455555667789999999998 58999998865443
No 50
>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=61.50 E-value=27 Score=24.63 Aligned_cols=37 Identities=19% Similarity=0.266 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHHH
Q 020389 72 PEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQK 109 (327)
Q Consensus 72 EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQK 109 (327)
+=+.++|..|+.-|+ .|..||+.||- |...|..+.++
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lgl-S~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELGL-SESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHTS--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHCc-CHHHHHHHHHH
Confidence 446789999999997 99999999997 78888776554
No 51
>PF10141 ssDNA-exonuc_C: Single-strand DNA-specific exonuclease, C terminal domain; InterPro: IPR018779 This entry represents a domain found at the C terminus of a set of single-stranded DNA-specific exonucleases, including RecJ. Its function has not, as yet, been determined.
Probab=60.71 E-value=9.6 Score=34.57 Aligned_cols=46 Identities=20% Similarity=0.390 Sum_probs=33.8
Q ss_pred CCcCCCC---hHHHhhhhhcccCCCchhHHHHhhcCCchhHHHHHHHHH
Q 020389 240 PLRVLPD---FAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMR 285 (327)
Q Consensus 240 ~l~~~Pd---FaqVY~FigsvFdp~~~~hlq~Lk~Mdpi~~eTvLllmr 285 (327)
.+..+|+ |+++|+||-..=.-+...|++.|-.-=-|+.+++.++++
T Consensus 90 y~~~~P~Re~F~~~Y~~l~~~~~~~l~~~~~~La~~l~i~~~~l~fml~ 138 (195)
T PF10141_consen 90 YFEGMPTREQFKKLYKFLKQHPNFDLKEQLQALAKYLGISPDTLKFMLK 138 (195)
T ss_pred hhcCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHCcCHHHHHHHHH
Confidence 4567886 999999998852223467888886666688888777765
No 52
>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=59.95 E-value=15 Score=28.45 Aligned_cols=46 Identities=22% Similarity=0.304 Sum_probs=29.4
Q ss_pred CCCCCHHHHHHHHHHHHHcC---------cchHhHHhhcC-CCCHHHHHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLFD---------RDWKKIEAFIG-SKTVIQIRSHAQKYF 111 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yG---------rdWkkIA~~Vg-TRT~~QVrSHAQKYf 111 (327)
|.++|.+|+..++.-|..+. +-|+.+++.-. ..|-.-.|.|+.|.+
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L 57 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHL 57 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 56789999999999996553 27999996545 788888888865543
No 53
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=59.11 E-value=27 Score=27.74 Aligned_cols=41 Identities=22% Similarity=0.516 Sum_probs=29.6
Q ss_pred HHHHHHHHcC--------cchHhHHhhcCCC-----CHHHHHHHHHHHHHHHhh
Q 020389 76 KFLEALQLFD--------RDWKKIEAFIGSK-----TVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 76 lFLeaLe~yG--------rdWkkIA~~VgTR-----T~~QVrSHAQKYf~kl~k 116 (327)
++-.++..+| +.|..|++-+|-. ...+++.|+++|....++
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE~ 89 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPFER 89 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHHHH
Confidence 3444566666 3899999888743 367899999999776543
No 54
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=56.78 E-value=14 Score=33.92 Aligned_cols=48 Identities=13% Similarity=0.187 Sum_probs=35.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcCc-chHhHH--hhcC---CCCHHHHHHHHHHHHH
Q 020389 65 SRESWTEPEHDKFLEALQLFDR-DWKKIE--AFIG---SKTVIQIRSHAQKYFL 112 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGr-dWkkIA--~~Vg---TRT~~QVrSHAQKYf~ 112 (327)
....||.||+.++-+.+-.|++ .=.+++ +.+| .||..+|..+|..+..
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vr 57 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVR 57 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHH
Confidence 3578999999999999988886 444454 2333 6899999999955443
No 55
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=56.30 E-value=5.9 Score=28.82 Aligned_cols=17 Identities=35% Similarity=0.464 Sum_probs=14.4
Q ss_pred Ccc-cCCCCCCCCCCCCCCCC
Q 020389 11 GFY-LDPNGMALPGLGPFASS 30 (327)
Q Consensus 11 ~~y-l~p~~~~~~g~~~~~~~ 30 (327)
.+| |||.||.+ | +||++
T Consensus 21 ~~~dLC~~CF~~-G--~f~~~ 38 (45)
T cd02336 21 KKYDLCPSCYQE-G--RFPSN 38 (45)
T ss_pred CccccChHHHhC-c--CCCCC
Confidence 358 99999999 7 88875
No 56
>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=53.43 E-value=19 Score=32.97 Aligned_cols=47 Identities=17% Similarity=0.271 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHHHHHHHHcCc-------chHhHHhhcCCCCHHHHHHHHHHHHHH
Q 020389 66 RESWTEPEHDKFLEALQLFDR-------DWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGr-------dWkkIA~~VgTRT~~QVrSHAQKYf~k 113 (327)
...||.||+.++-+.+-+|=| .+..|+.-+ +||.--|.-+|..|..+
T Consensus 4 QDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 4 QDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHH
Confidence 468999999999999988843 555555544 58999999999988765
No 57
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=53.12 E-value=31 Score=39.34 Aligned_cols=54 Identities=13% Similarity=0.292 Sum_probs=44.9
Q ss_pred cCCCCCCHHHHHHHHHHHHHcC-cchHhHH------------hhcCCCCHHHHHHHHHHHHHHHhhc
Q 020389 64 KSRESWTEPEHDKFLEALQLFD-RDWKKIE------------AFIGSKTVIQIRSHAQKYFLKVQKN 117 (327)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yG-rdWkkIA------------~~VgTRT~~QVrSHAQKYf~kl~k~ 117 (327)
.++..||+||++.+|-.+.+|| .+|.+|- -|+.+||+.+|..++.-....+.|.
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~~e 990 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIEKE 990 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHHHH
Confidence 3466799999999999999999 4899993 2566999999999998777777664
No 58
>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=52.85 E-value=31 Score=23.89 Aligned_cols=26 Identities=19% Similarity=0.194 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHcCcchHhHHhhcCC
Q 020389 72 PEHDKFLEALQLFDRDWKKIEAFIGS 97 (327)
Q Consensus 72 EEh~lFLeaLe~yGrdWkkIA~~VgT 97 (327)
-|...+.++|+.++.+..+.|+.+|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~Lgi 30 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLLGI 30 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHHTS
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHCC
Confidence 47889999999999999999999994
No 59
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=49.70 E-value=19 Score=37.38 Aligned_cols=51 Identities=24% Similarity=0.373 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHHHcCcchHhHH-hh----cC-CCCHHHHHHHHHHHHHHHhh
Q 020389 66 RESWTEPEHDKFLEALQLFDRDWKKIE-AF----IG-SKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrdWkkIA-~~----Vg-TRT~~QVrSHAQKYf~kl~k 116 (327)
...||.+|.+-+.+..+.|+-+|--|+ +| .+ +||.+..+.++=-...++-+
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~k 186 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLK 186 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHH
Confidence 467999999999999999999999998 43 55 49999999976444445443
No 60
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=45.02 E-value=68 Score=25.12 Aligned_cols=47 Identities=17% Similarity=0.253 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHHhh
Q 020389 68 SWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 68 ~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~k 116 (327)
..++.|...|..- -..|..++.||+.+|. |...|+.+.++-..++++
T Consensus 110 ~L~~~~~~ii~~~-~~~g~s~~eIA~~l~~-s~~~v~~~~~~~~~kl~~ 156 (158)
T TIGR02937 110 KLPEREREVLVLR-YLEGLSYKEIAEILGI-SVGTVKRRLKRARKKLRE 156 (158)
T ss_pred hCCHHHHHHHhhH-HhcCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHHh
Confidence 4555565555322 2357899999999987 888888888777777653
No 61
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=45.01 E-value=42 Score=28.91 Aligned_cols=43 Identities=21% Similarity=0.249 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHHHHHHHHhhcC
Q 020389 71 EPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 118 (327)
Q Consensus 71 ~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQKYf~kl~k~g 118 (327)
++.+.++|++|+.-|| .|..||+-+|- |...|+.+. .++...|
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lgl-S~~tV~~Ri----~rL~~~G 51 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFGV-SPGTIHVRV----EKMKQAG 51 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHCc-CHHHHHHHH----HHHHHCC
Confidence 4678899999999998 99999999986 788888864 4455544
No 62
>PF10561 UPF0565: Uncharacterised protein family UPF0565; InterPro: IPR018881 This family of proteins has no known function.
Probab=44.70 E-value=18 Score=35.83 Aligned_cols=32 Identities=22% Similarity=0.499 Sum_probs=28.8
Q ss_pred CCCCCcccccCCCCCCHHHHHHHHHHHHHcCc
Q 020389 55 KIRKPYTITKSRESWTEPEHDKFLEALQLFDR 86 (327)
Q Consensus 55 k~rkPyt~tk~r~~WT~EEh~lFLeaLe~yGr 86 (327)
-.-.||......++|=.+|+..|++.|+.+|-
T Consensus 270 vH~TPyQv~D~~RpwI~~E~~~F~~~L~~~~~ 301 (303)
T PF10561_consen 270 VHVTPYQVSDPMRPWIGKEEKKFVKLLKKLGA 301 (303)
T ss_pred EecCcccccCCCCcHHHHHHHHHHHHHHHhCC
Confidence 34569999999999999999999999999984
No 63
>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=43.84 E-value=49 Score=29.34 Aligned_cols=46 Identities=20% Similarity=0.186 Sum_probs=36.2
Q ss_pred CCCCCCHHHHHHHHHHHHHcCcchHhHHhh----cCCCCHHHHHHHHHHH
Q 020389 65 SRESWTEPEHDKFLEALQLFDRDWKKIEAF----IGSKTVIQIRSHAQKY 110 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~----VgTRT~~QVrSHAQKY 110 (327)
....=|..|..-+...|++||.|++.++.= .--.|+.||+.-..+|
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 345667888888888889999999999943 3357999999877666
No 64
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=40.98 E-value=58 Score=25.82 Aligned_cols=38 Identities=18% Similarity=0.270 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHHH
Q 020389 71 EPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQK 109 (327)
Q Consensus 71 ~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQK 109 (327)
++.+.++|.+|+..|+ .|..|++.+|- +...|+.+.++
T Consensus 2 d~~D~~il~~L~~~~~~~~~~la~~l~~-s~~tv~~~l~~ 40 (108)
T smart00344 2 DEIDRKILEELQKDARISLAELAKKVGL-SPSTVHNRVKR 40 (108)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHHHHCc-CHHHHHHHHHH
Confidence 3567899999999987 99999999986 77888886543
No 65
>PHA00442 host recBCD nuclease inhibitor
Probab=39.38 E-value=16 Score=28.31 Aligned_cols=33 Identities=24% Similarity=0.582 Sum_probs=25.9
Q ss_pred cccCCCCC--------CHHHHHHHHHHHHHcCc-chHhHHhh
Q 020389 62 ITKSRESW--------TEPEHDKFLEALQLFDR-DWKKIEAF 94 (327)
Q Consensus 62 ~tk~r~~W--------T~EEh~lFLeaLe~yGr-dWkkIA~~ 94 (327)
.+..|+.| +-|....||++|+..|- +|..+.+.
T Consensus 8 VtitRd~wnd~q~yidsLek~~~~L~~Lea~GVDNW~Gy~eA 49 (59)
T PHA00442 8 VTITRDAWNDMQGYIDSLEKDNEFLKALRACGVDNWDGYMDA 49 (59)
T ss_pred eeecHHHHHHHHHHHHHHHHhhHHHHHHHHcCCcchhhHHHH
Confidence 34557778 55778899999999995 99988754
No 66
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=39.27 E-value=11 Score=44.42 Aligned_cols=48 Identities=21% Similarity=0.200 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHHhhcCC
Q 020389 72 PEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGT 119 (327)
Q Consensus 72 EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~k~g~ 119 (327)
||-+.--.||-.+||+|.+|+..|+++|..||...+-||-.+++.++.
T Consensus 360 ee~ev~k~Glveh~R~~aai~p~vvt~tes~c~na~a~~~~r~N~d~~ 407 (1672)
T KOG1878|consen 360 EEMEVAKSGLVEHGREWAAILPKVVTKTESQCKNAYAKYKNRHNLDEP 407 (1672)
T ss_pred hhhhhhhccchhhhhhHHHhcCccceecccchhhHHHhhhhhhcchhh
Confidence 455677788888999999999999999999999877777777665543
No 67
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=39.22 E-value=61 Score=28.33 Aligned_cols=43 Identities=14% Similarity=0.222 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHcCc-chHhHHhhcCCCCHHHHHHHHHHHHHHHhhcC
Q 020389 71 EPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 118 (327)
Q Consensus 71 ~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QVrSHAQKYf~kl~k~g 118 (327)
++-+.++|.+|+.-|| .|..||+-||- +...|+.+.+ ++.+.|
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lgl-S~~tv~~Ri~----rL~~~G 56 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVGL-SPTPCLERVR----RLERQG 56 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHCc-CHHHHHHHHH----HHHHCC
Confidence 6678899999999998 99999999995 7777877644 455544
No 68
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=38.53 E-value=1.1e+02 Score=19.85 Aligned_cols=43 Identities=12% Similarity=0.132 Sum_probs=27.6
Q ss_pred CCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHH
Q 020389 68 SWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFL 112 (327)
Q Consensus 68 ~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~ 112 (327)
.+++++ ..+++.+-.-|..++.||+.+|- +..+|..+-++...
T Consensus 10 ~l~~~~-~~~~~~~~~~~~~~~~ia~~~~~-s~~~i~~~~~~~~~ 52 (55)
T cd06171 10 KLPERE-REVILLRFGEGLSYEEIAEILGI-SRSTVRQRLHRALK 52 (55)
T ss_pred hCCHHH-HHHHHHHHhcCCCHHHHHHHHCc-CHHHHHHHHHHHHH
Confidence 455554 44445555567899999988874 66777766554433
No 69
>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=38.51 E-value=1.3e+02 Score=20.96 Aligned_cols=43 Identities=12% Similarity=0.123 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHHHh
Q 020389 71 EPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (327)
Q Consensus 71 ~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~ 115 (327)
++|...|..-+ .-|..++.||+.+|- |...|+.+-.+=+.++.
T Consensus 7 ~~er~vi~~~y-~~~~t~~eIa~~lg~-s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 7 PREREVIRLRY-FEGLTLEEIAERLGI-SRSTVRRILKRALKKLR 49 (50)
T ss_dssp HHHHHHHHHHH-TST-SHHHHHHHHTS-CHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHh-cCCCCHHHHHHHHCC-cHHHHHHHHHHHHHHhc
Confidence 34444333332 335699999999986 88888887776666664
No 70
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=38.26 E-value=19 Score=35.95 Aligned_cols=32 Identities=16% Similarity=0.150 Sum_probs=25.6
Q ss_pred CcchHhHHhhcCCCCHHHHHHHHHHHHHHHhhcC
Q 020389 85 DRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 118 (327)
Q Consensus 85 GrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~k~g 118 (327)
.|+|+ |++.+- =|..||+.-+|+-.+|.+|..
T Consensus 263 eKR~E-lSr~lN-LTeRQVKIWFQNRRMK~KK~~ 294 (308)
T KOG0487|consen 263 EKRLE-LSRTLN-LTERQVKIWFQNRRMKEKKVN 294 (308)
T ss_pred HHHHH-HHHhcc-cchhheeeeehhhhhHHhhhh
Confidence 45776 887765 389999999999888887764
No 71
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. 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 (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into s
Probab=37.52 E-value=47 Score=27.86 Aligned_cols=24 Identities=17% Similarity=0.466 Sum_probs=17.5
Q ss_pred CHHHHHHHHHHHHHcCcchHhHHhhcC
Q 020389 70 TEPEHDKFLEALQLFDRDWKKIEAFIG 96 (327)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~Vg 96 (327)
|.++...|-+ ..|++|++++..+|
T Consensus 1 ~~~~~q~~~~---nvGr~WK~laR~Lg 24 (90)
T cd08780 1 TPADQQHFAK---SVGKKWKPVGRSLQ 24 (90)
T ss_pred CHHHHHHHHH---HHhHHHHHHHHHHc
Confidence 3455555554 45899999999999
No 72
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. 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 (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=35.95 E-value=41 Score=26.77 Aligned_cols=33 Identities=27% Similarity=0.422 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHH
Q 020389 71 EPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRS 105 (327)
Q Consensus 71 ~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrS 105 (327)
.||-+++|..= .-|+||+..|+.+|- +...|+.
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~LG~-~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGELGY-EDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHcCC-CHHHHHH
Confidence 47777777521 568999999999996 3555554
No 73
>KOG1019 consensus Retinoblastoma pathway protein LIN-9/chromatin-associated protein Aly [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=34.82 E-value=24 Score=39.36 Aligned_cols=51 Identities=22% Similarity=0.388 Sum_probs=42.1
Q ss_pred CCCCCcccccCCCCCCHHHHHHHHHHHHHcCcchHhHHhhcC-CCCHHHHHH
Q 020389 55 KIRKPYTITKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIG-SKTVIQIRS 105 (327)
Q Consensus 55 k~rkPyt~tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~Vg-TRT~~QVrS 105 (327)
+.|++..-.+-.-.|+..|-.+|+++..++++.|+..+..+. +|...+|.-
T Consensus 33 ~qR~~~~~d~l~pq~s~~~~e~~~k~~~k~~~~~r~~~~~~~~~R~s~~vel 84 (837)
T KOG1019|consen 33 PQRKRKLADKLSPQWSKLELERFYKAYRKRGREWRKSPAAVRSTRSSNMVEL 84 (837)
T ss_pred CCCCcccccccCcchhHhhhhhhhhcccccccccccccccccchhhhhHHHH
Confidence 456666666668899999999999999999999999997665 488888755
No 74
>PF12451 VPS11_C: Vacuolar protein sorting protein 11 C terminal; InterPro: IPR024763 Vps 11 is one of the evolutionarily conserved class C vacuolar protein sorting genes (c-vps: vps11, vps16, vps18, and vps33), whose products physically associate to form the c-vps protein complex required for vesicle docking and fusion. This entry represents the C-terminal domain of vps11.
Probab=34.32 E-value=33 Score=25.14 Aligned_cols=28 Identities=21% Similarity=0.498 Sum_probs=24.1
Q ss_pred CHHHHHHHHHHHHHcCcchHhHHhhcCC
Q 020389 70 TEPEHDKFLEALQLFDRDWKKIEAFIGS 97 (327)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~VgT 97 (327)
..+.|++|...|+.-...++-||+|+|-
T Consensus 17 ~~~~~d~F~~~L~~s~D~F~vIaeyfGr 44 (49)
T PF12451_consen 17 SADQHDLFFKQLEESEDRFSVIAEYFGR 44 (49)
T ss_pred HhhcHHHHHHHHHhCCCCchhHHHHHcc
Confidence 3567999999998888899999999983
No 75
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=29.90 E-value=79 Score=21.79 Aligned_cols=39 Identities=13% Similarity=0.272 Sum_probs=20.6
Q ss_pred CHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHH
Q 020389 70 TEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKY 110 (327)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKY 110 (327)
+.++....+..+.. |...++||+.+|- +...|....+.|
T Consensus 3 ~~~~R~~ii~l~~~-G~s~~~ia~~lgv-s~~Tv~~w~kr~ 41 (50)
T PF13384_consen 3 SEERRAQIIRLLRE-GWSIREIAKRLGV-SRSTVYRWIKRY 41 (50)
T ss_dssp -------HHHHHHH-T--HHHHHHHHTS--HHHHHHHHT--
T ss_pred chhHHHHHHHHHHC-CCCHHHHHHHHCc-CHHHHHHHHHHc
Confidence 45566677777777 9999999999984 666666644444
No 76
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=29.55 E-value=1.3e+02 Score=24.81 Aligned_cols=26 Identities=12% Similarity=0.077 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHcCcchHhHHhhcCC
Q 020389 72 PEHDKFLEALQLFDRDWKKIEAFIGS 97 (327)
Q Consensus 72 EEh~lFLeaLe~yGrdWkkIA~~VgT 97 (327)
-|...|.++|+.+|.++.+.|+.+|-
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~LGI 80 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALMLGI 80 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHhCC
Confidence 57888999999999999999999995
No 77
>PRK01905 DNA-binding protein Fis; Provisional
Probab=29.37 E-value=1.4e+02 Score=23.32 Aligned_cols=28 Identities=7% Similarity=0.057 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHHHHcCcchHhHHhhcCC
Q 020389 70 TEPEHDKFLEALQLFDRDWKKIEAFIGS 97 (327)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~VgT 97 (327)
.+-|...+.++|+.+|.++.+.|+.+|-
T Consensus 35 ~~~E~~~i~~aL~~~~gn~s~aAr~LGI 62 (77)
T PRK01905 35 SCVEKPLLEVVMEQAGGNQSLAAEYLGI 62 (77)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHCC
Confidence 4568888999999999999999999984
No 78
>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=29.17 E-value=36 Score=26.89 Aligned_cols=18 Identities=33% Similarity=0.728 Sum_probs=14.8
Q ss_pred HHHHHHHHcCcchHhHHh
Q 020389 76 KFLEALQLFDRDWKKIEA 93 (327)
Q Consensus 76 lFLeaLe~yGrdWkkIA~ 93 (327)
-+.+.|+.||++|.-|.+
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 456678999999999984
No 79
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=27.93 E-value=91 Score=31.69 Aligned_cols=55 Identities=18% Similarity=0.401 Sum_probs=38.6
Q ss_pred ChHHHhhhhhcccCCCchhHHHHhhcCCchhHHHHHHHHHHHhhhcCCcchHH-HHHHHhhc
Q 020389 246 DFAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFED-HRRLLSSY 306 (327)
Q Consensus 246 dFaqVY~FigsvFdp~~~~hlq~Lk~Mdpi~~eTvLllmrNLs~NL~sp~fe~-~~~lls~y 306 (327)
||-++|+||.++..+...- ++++...--||-|+--|=--|.-=++.. +.-|+..|
T Consensus 211 DFEKIYKYLSsisr~~~~p------eLSa~ESAVvLDLLMSLPEEL~~LpC~~L~~Hm~~~Y 266 (344)
T PF11035_consen 211 DFEKIYKYLSSISRSGHGP------ELSAAESAVVLDLLMSLPEELPHLPCTALVEHMMQTY 266 (344)
T ss_pred eHHHHHHHHHHhccCCCCc------ccChHHHHHHHHHHHhCHHhhccCChHHHHHHHHHHH
Confidence 9999999999999887554 4455556667777777766666666665 33444455
No 80
>smart00595 MADF subfamily of SANT domain.
Probab=27.90 E-value=94 Score=23.86 Aligned_cols=23 Identities=17% Similarity=0.416 Sum_probs=20.0
Q ss_pred chHhHHhhcCCCCHHHHHHHHHHH
Q 020389 87 DWKKIEAFIGSKTVIQIRSHAQKY 110 (327)
Q Consensus 87 dWkkIA~~VgTRT~~QVrSHAQKY 110 (327)
.|..|+.-++. |.++|+.++...
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 89999999988 999999888653
No 81
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=24.70 E-value=2.2e+02 Score=23.60 Aligned_cols=32 Identities=13% Similarity=0.230 Sum_probs=23.9
Q ss_pred cCcchHhHHhhcCCCCHHHHHHHHHHHHHHHhh
Q 020389 84 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (327)
Q Consensus 84 yGrdWkkIA~~VgTRT~~QVrSHAQKYf~kl~k 116 (327)
.|..++.||+.+|. |...|+.+-.+-..++.+
T Consensus 140 ~~~~~~eIA~~lgi-s~~tv~~~~~ra~~~lr~ 171 (179)
T PRK11924 140 EGLSYREIAEILGV-PVGTVKSRLRRARQLLRE 171 (179)
T ss_pred cCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHHH
Confidence 46799999998885 677788776666666644
No 82
>PF12181 MogR_DNAbind: DNA binding domain of the motility gene repressor (MogR); InterPro: IPR021009 This domain family is found in bacteria, and is approximately 150 amino acids in length. MogR is involved in the transcriptional repressor of flagellar motility genes, such as flaA, during extracellular growth at 37 degrees Celsius and during intracellular infection. It binds directly to gene promoter region and probably prevents RNA polymerase binding. At low temperatures, MogR repression activity is modulated by the DegU response regulator in an unknown mechanism. MogR is required for full virulence []. MogR binds AT rich flagellar gene promoter regions upstream of the flagellar gene. These regions follow the pattern 5'-TTTTNNNNNAAAA-3'. This domain is the DNA binding domain of MogR []. ; PDB: 3FDQ_B.
Probab=24.07 E-value=1.8e+02 Score=26.36 Aligned_cols=64 Identities=23% Similarity=0.335 Sum_probs=35.0
Q ss_pred CCCCCCHHHHHHHHHHHH---HcCcchHhHHhhcC-------CCCHHHHHHHHHHHHHHHhhcCCCCCCCC--CCCCCC
Q 020389 65 SRESWTEPEHDKFLEALQ---LFDRDWKKIEAFIG-------SKTVIQIRSHAQKYFLKVQKNGTAEHLPP--PRPKRK 131 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe---~yGrdWkkIA~~Vg-------TRT~~QVrSHAQKYf~kl~k~g~~~~iP~--pr~KRk 131 (327)
+.-.|=.-|-+++-+.++ .+|-+--.|+++|. -||+.|..+- |++-.+.....++||. |.||||
T Consensus 59 S~isWLKsELELLy~~YQf~q~h~lni~diSk~~Skn~L~lFpKTeSQLQNT---YYKLKk~~i~fEnI~K~KPGRKrK 134 (148)
T PF12181_consen 59 SNISWLKSELELLYACYQFCQRHGLNILDISKMLSKNDLNLFPKTESQLQNT---YYKLKKEEIPFENIKKNKPGRKRK 134 (148)
T ss_dssp SSEEE-HHHHHHHHHHHHHHHHTT--HHHHHHHHSTTTT-SSSS-HHHHHHH---HHHHHTTSS-SS-EE----S----
T ss_pred hhhHHHHHHHHHHHHHHHHHHHcCCccccHHHHhhhhhhccCCCCHHHHHHH---HHHHHhhhcchhhccccCCCcccc
Confidence 345799999998887774 55667777887765 6899998764 3433333445566665 455555
No 83
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=23.64 E-value=1.4e+02 Score=28.23 Aligned_cols=46 Identities=13% Similarity=0.190 Sum_probs=36.6
Q ss_pred CCCCCCHHHHHHHHHHHHHcC---cchHhHH-----hhcCCCCHHHHHHHHHHH
Q 020389 65 SRESWTEPEHDKFLEALQLFD---RDWKKIE-----AFIGSKTVIQIRSHAQKY 110 (327)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yG---rdWkkIA-----~~VgTRT~~QVrSHAQKY 110 (327)
.+..||.+|++++........ ..|++|= .|-.+||+.+...||+-.
T Consensus 72 ~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 72 SKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred ccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 578999999999988765554 3777773 477799999999999843
No 84
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=23.15 E-value=85 Score=33.76 Aligned_cols=46 Identities=20% Similarity=0.229 Sum_probs=37.6
Q ss_pred CCCCHHHHHHHHHHHHHcCcchHhHHhhcCCCCHHHHHHHHHHHHHH
Q 020389 67 ESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (327)
Q Consensus 67 ~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QVrSHAQKYf~k 113 (327)
..--+.|.+++.++|++-|..|.+-|+.+|. |+.|+-..+++|=++
T Consensus 501 ~~~~~~eR~~I~~aL~~~~~~~a~AAr~LGl-~~~~L~~~~kRlGI~ 546 (550)
T COG3604 501 EATEEFERQLIIAALEETNGNWAGAARRLGL-TRRTLLYRMKRLGIK 546 (550)
T ss_pred hhhHHHHHHHHHHHHHHhCCcHHHHHHHhCC-CHHHHHHHHHHcCCC
Confidence 3334788899999999999999998899997 788998877766443
No 85
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=21.74 E-value=1.5e+02 Score=23.95 Aligned_cols=23 Identities=22% Similarity=0.447 Sum_probs=17.3
Q ss_pred HHcCcchHhHHhhcCCCCHHHHHH
Q 020389 82 QLFDRDWKKIEAFIGSKTVIQIRS 105 (327)
Q Consensus 82 e~yGrdWkkIA~~VgTRT~~QVrS 105 (327)
+..|++|+.++..+|- +..+|..
T Consensus 10 ~~lG~~Wk~lar~LG~-s~~eI~~ 32 (86)
T cd08777 10 ENLGKKWKRCARKLGF-TESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHcCC-CHHHHHH
Confidence 6679999999999995 4444444
No 86
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=21.59 E-value=1.2e+02 Score=32.44 Aligned_cols=52 Identities=23% Similarity=0.492 Sum_probs=41.0
Q ss_pred ccCCCchhHHHHhhcCCchhHHH--HHHHHHHHhhhcCCcchHHHHHHHhhcCC
Q 020389 257 VFDPNASDHVQKLKKMDPIDVET--VLLLMRNLSINLTSPDFEDHRRLLSSYEI 308 (327)
Q Consensus 257 vFdp~~~~hlq~Lk~Mdpi~~eT--vLllmrNLs~NL~sp~fe~~~~lls~y~~ 308 (327)
+|-++.+.=+.+|.+|||++.-| +=-+.=+++.||-.|.|.+-...|..|..
T Consensus 243 lf~~~~s~L~~~i~~~DP~~~r~~~iD~fIl~~~l~i~d~~~~~f~~~l~~~g~ 296 (504)
T TIGR03238 243 LFSKERSELLKFLHELDPVHRRTSKIDQFIIDLSLNLPDQEFNEFKTVLNRLGC 296 (504)
T ss_pred CCCccccHHHHHhhhcCchhhcchhHhHHHHHhhccCCchhHHHHHHHHHhccc
Confidence 34457788999999999999865 33455566999999999998888888653
Done!