Query 022076
Match_columns 303
No_of_seqs 224 out of 719
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 07:51:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022076.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022076hhsearch_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 5.5E-16 1.2E-20 115.2 6.1 50 64-113 1-56 (57)
2 PF00249 Myb_DNA-binding: Myb- 99.5 4.2E-14 9.1E-19 99.6 6.3 46 66-111 1-48 (48)
3 KOG0724 Zuotin and related mol 99.5 2E-15 4.3E-20 142.1 -3.2 242 48-299 34-301 (335)
4 smart00717 SANT SANT SWI3, AD 99.2 3.5E-11 7.5E-16 80.8 5.2 46 66-111 1-47 (49)
5 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 7.1E-11 1.5E-15 78.4 5.5 44 68-111 1-45 (45)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.0 3E-10 6.5E-15 82.4 4.8 42 69-110 1-42 (60)
7 COG5259 RSC8 RSC chromatin rem 99.0 5.8E-10 1.3E-14 111.7 5.2 72 12-107 246-320 (531)
8 KOG0457 Histone acetyltransfer 98.8 6.8E-09 1.5E-13 103.2 6.8 52 63-114 69-121 (438)
9 PLN03212 Transcription repress 98.7 2.7E-08 5.9E-13 93.1 5.7 52 63-114 22-75 (249)
10 KOG1279 Chromatin remodeling f 98.6 2.8E-08 6E-13 100.9 4.9 47 61-107 248-294 (506)
11 PLN03212 Transcription repress 98.6 1.9E-07 4E-12 87.6 9.7 54 63-116 75-128 (249)
12 PLN03091 hypothetical protein; 98.6 5.4E-08 1.2E-12 97.3 5.1 53 60-112 8-62 (459)
13 PLN03091 hypothetical protein; 98.5 3.3E-07 7.1E-12 91.8 7.2 54 63-116 64-117 (459)
14 KOG0048 Transcription factor, 98.3 1.5E-06 3.2E-11 79.7 6.8 51 63-113 59-109 (238)
15 COG5114 Histone acetyltransfer 98.2 4.1E-06 9E-11 81.7 8.1 49 65-113 62-111 (432)
16 KOG0048 Transcription factor, 98.2 1.8E-06 4E-11 79.1 4.4 51 66-116 9-61 (238)
17 KOG0049 Transcription factor, 97.6 0.00011 2.3E-09 77.2 6.1 54 64-117 358-412 (939)
18 PLN03162 golden-2 like transcr 97.2 0.00061 1.3E-08 68.0 6.4 56 62-117 233-293 (526)
19 KOG4468 Polycomb-group transcr 96.7 0.0038 8.2E-08 65.4 7.3 70 55-124 75-156 (782)
20 PF13837 Myb_DNA-bind_4: Myb/S 96.6 0.0043 9.4E-08 47.5 5.0 52 66-117 1-70 (90)
21 KOG0051 RNA polymerase I termi 96.5 0.0033 7.1E-08 65.7 4.7 57 57-114 374-431 (607)
22 KOG4329 DNA-binding protein [G 96.2 0.038 8.2E-07 55.4 10.2 42 66-107 277-319 (445)
23 KOG0051 RNA polymerase I termi 95.5 0.015 3.3E-07 60.9 4.6 52 64-115 434-511 (607)
24 KOG0050 mRNA splicing protein 95.5 0.016 3.5E-07 60.0 4.7 53 62-114 3-56 (617)
25 KOG0049 Transcription factor, 95.4 0.021 4.6E-07 60.7 5.2 44 65-108 411-455 (939)
26 KOG0724 Zuotin and related mol 95.3 0.011 2.4E-07 56.2 2.5 72 63-141 161-239 (335)
27 KOG3841 TEF-1 and related tran 94.1 0.26 5.7E-06 49.7 8.9 53 64-116 74-147 (455)
28 PLN03142 Probable chromatin-re 94.1 0.095 2.1E-06 58.1 6.3 49 67-115 825-874 (1033)
29 COG5118 BDP1 Transcription ini 94.1 0.095 2.1E-06 52.9 5.7 41 66-106 365-405 (507)
30 KOG3554 Histone deacetylase co 93.8 0.053 1.2E-06 55.9 3.4 43 65-107 284-327 (693)
31 KOG4167 Predicted DNA-binding 93.7 0.11 2.5E-06 55.8 5.7 44 65-108 618-661 (907)
32 KOG1194 Predicted DNA-binding 93.5 0.15 3.3E-06 52.4 6.0 43 65-107 186-228 (534)
33 PF13873 Myb_DNA-bind_5: Myb/S 93.3 0.39 8.5E-06 36.3 6.7 50 67-116 3-74 (78)
34 PF09111 SLIDE: SLIDE; InterP 92.1 0.57 1.2E-05 39.8 6.7 58 59-116 42-115 (118)
35 COG5147 REB1 Myb superfamily p 91.8 0.11 2.4E-06 53.7 2.6 58 58-115 12-70 (512)
36 smart00426 TEA TEA domain. 91.4 0.19 4.2E-06 39.4 2.9 43 66-108 3-66 (68)
37 COG5147 REB1 Myb superfamily p 90.4 0.37 8E-06 50.0 4.7 54 63-116 69-122 (512)
38 KOG0050 mRNA splicing protein 90.2 0.3 6.5E-06 50.9 3.9 49 64-113 57-105 (617)
39 PF12776 Myb_DNA-bind_3: Myb/S 87.5 2 4.4E-05 33.2 6.0 45 68-112 1-63 (96)
40 KOG4282 Transcription factor G 86.3 5.8 0.00013 38.1 9.7 52 66-117 54-119 (345)
41 PF01285 TEA: TEA/ATTS domain 85.1 0.99 2.1E-05 45.8 4.0 48 63-110 46-112 (431)
42 PF08914 Myb_DNA-bind_2: Rap1 82.7 2.1 4.5E-05 32.9 4.0 48 66-113 2-59 (65)
43 TIGR02894 DNA_bind_RsfA transc 81.6 3 6.6E-05 37.6 5.2 48 66-114 4-58 (161)
44 PF06461 DUF1086: Domain of Un 75.8 7.5 0.00016 34.6 5.8 50 68-117 40-92 (145)
45 PF11035 SnAPC_2_like: Small n 75.6 8.7 0.00019 38.3 6.7 51 66-116 21-75 (344)
46 PF13404 HTH_AsnC-type: AsnC-t 73.5 13 0.00028 26.0 5.4 37 72-109 3-40 (42)
47 PF01388 ARID: ARID/BRIGHT DNA 72.6 9.6 0.00021 29.6 5.2 38 76-113 40-90 (92)
48 PRK13923 putative spore coat p 72.0 5.4 0.00012 36.2 4.1 48 65-112 4-57 (170)
49 PF04504 DUF573: Protein of un 71.9 16 0.00036 29.8 6.5 43 65-107 3-58 (98)
50 KOG1194 Predicted DNA-binding 71.5 8.5 0.00018 40.1 5.8 59 57-115 360-418 (534)
51 PF08281 Sigma70_r4_2: Sigma-7 68.4 20 0.00043 25.0 5.6 40 72-112 13-52 (54)
52 KOG2009 Transcription initiati 67.6 5.1 0.00011 42.5 3.4 50 65-117 408-457 (584)
53 smart00501 BRIGHT BRIGHT, ARID 67.4 17 0.00037 28.6 5.6 40 77-116 37-89 (93)
54 KOG0385 Chromatin remodeling c 66.8 10 0.00022 41.9 5.5 61 57-118 786-847 (971)
55 PF10141 ssDNA-exonuc_C: Singl 63.4 8.4 0.00018 34.6 3.5 46 240-285 90-138 (195)
56 PF02954 HTH_8: Bacterial regu 62.8 19 0.00042 24.6 4.5 26 72-97 5-30 (42)
57 PLN03142 Probable chromatin-re 61.4 22 0.00047 40.2 6.9 53 65-117 925-990 (1033)
58 PRK11179 DNA-binding transcrip 56.8 22 0.00048 30.3 4.8 43 71-118 8-51 (153)
59 PF09420 Nop16: Ribosome bioge 54.1 26 0.00055 30.8 4.9 46 65-110 113-162 (164)
60 KOG0487 Transcription factor A 53.3 9.6 0.00021 37.5 2.3 61 51-118 233-294 (308)
61 cd08311 Death_p75NR Death doma 52.8 18 0.00039 28.5 3.3 34 71-106 2-35 (77)
62 TIGR02937 sigma70-ECF RNA poly 52.5 50 0.0011 25.7 5.9 47 68-116 110-156 (158)
63 PRK11169 leucine-responsive tr 52.3 32 0.0007 29.7 5.2 43 71-118 13-56 (164)
64 KOG2656 DNA methyltransferase 51.1 15 0.00033 37.6 3.3 51 66-116 130-186 (445)
65 smart00344 HTH_ASNC helix_turn 48.4 42 0.00091 26.3 4.9 38 71-109 2-40 (108)
66 cd02336 ZZ_RSC8 Zinc finger, Z 47.2 10 0.00022 27.3 1.1 17 11-30 21-38 (45)
67 cd08780 Death_TRADD Death Doma 46.4 34 0.00075 28.3 4.1 24 70-96 1-24 (90)
68 PF04545 Sigma70_r4: Sigma-70, 45.5 99 0.0021 21.3 6.1 43 71-115 7-49 (50)
69 smart00595 MADF subfamily of S 45.1 39 0.00084 25.7 4.1 23 87-110 29-51 (89)
70 PF13325 MCRS_N: N-terminal re 44.2 41 0.00089 31.3 4.8 46 65-110 72-125 (199)
71 cd06171 Sigma70_r4 Sigma70, re 42.1 93 0.002 20.0 5.4 43 68-112 10-52 (55)
72 KOG1878 Nuclear receptor coreg 41.7 13 0.00028 43.5 1.3 48 72-119 360-407 (1672)
73 PHA00442 host recBCD nuclease 40.5 17 0.00037 27.8 1.4 33 62-94 8-49 (59)
74 PRK01905 DNA-binding protein F 38.3 90 0.0019 24.1 5.2 35 70-105 35-69 (77)
75 PRK00430 fis global DNA-bindin 37.3 87 0.0019 25.5 5.2 26 72-97 55-80 (95)
76 PF12451 VPS11_C: Vacuolar pro 36.5 31 0.00068 25.0 2.2 28 70-97 17-44 (49)
77 PF11626 Rap1_C: TRF2-interact 35.7 22 0.00048 28.1 1.5 16 65-80 46-61 (87)
78 PF10545 MADF_DNA_bdg: Alcohol 31.7 81 0.0018 23.1 3.9 27 87-113 28-55 (85)
79 PRK11924 RNA polymerase sigma 31.1 1.6E+02 0.0035 24.2 6.0 32 84-116 140-171 (179)
80 PF13384 HTH_23: Homeodomain-l 30.8 86 0.0019 21.3 3.7 39 70-110 3-41 (50)
81 PF10440 WIYLD: Ubiquitin-bind 30.8 31 0.00068 26.9 1.5 19 75-93 30-48 (65)
82 cd08306 Death_FADD Fas-associa 28.5 1E+02 0.0022 24.4 4.1 29 76-105 4-32 (86)
83 cd08317 Death_ank Death domain 28.5 87 0.0019 24.3 3.7 23 75-97 5-27 (84)
84 cd08777 Death_RIP1 Death Domai 28.3 1.1E+02 0.0023 24.4 4.2 23 82-105 10-32 (86)
85 cd08319 Death_RAIDD Death doma 27.7 1E+02 0.0022 24.7 4.0 22 76-97 4-25 (83)
86 PF10561 UPF0565: Uncharacteri 26.6 52 0.0011 32.4 2.6 30 57-86 272-301 (303)
87 COG3604 FhlA Transcriptional r 26.1 75 0.0016 33.8 3.7 42 70-112 504-545 (550)
88 KOG1019 Retinoblastoma pathway 25.3 41 0.00089 37.3 1.8 50 56-105 34-84 (837)
89 KOG4771 Nucleolar protein (NOP 25.2 1.4E+02 0.003 27.9 4.9 49 67-115 154-202 (210)
90 cd08318 Death_NMPP84 Death dom 24.9 1.2E+02 0.0026 23.9 3.9 17 81-97 14-30 (86)
91 PF07750 GcrA: GcrA cell cycle 24.5 1.1E+02 0.0023 27.2 4.0 39 68-107 2-40 (162)
92 smart00005 DEATH DEATH domain, 24.3 71 0.0015 24.1 2.5 23 75-97 6-29 (88)
93 PF00191 Annexin: Annexin; In 23.7 99 0.0022 22.2 3.1 41 75-115 4-44 (66)
94 PRK09643 RNA polymerase sigma 23.1 2.7E+02 0.0059 24.1 6.2 31 84-115 149-179 (192)
95 PRK09652 RNA polymerase sigma 22.9 3E+02 0.0064 22.7 6.2 31 84-115 143-173 (182)
96 PF08074 CHDCT2: CHDCT2 (NUC03 22.9 51 0.0011 30.2 1.7 28 66-93 3-31 (173)
97 PF06628 Catalase-rel: Catalas 22.3 3.1E+02 0.0067 20.7 5.6 39 68-116 19-57 (68)
98 TIGR02985 Sig70_bacteroi1 RNA 21.4 3.6E+02 0.0079 21.6 6.3 31 84-115 128-158 (161)
99 PF07476 MAAL_C: Methylasparta 20.5 79 0.0017 30.5 2.4 43 249-291 75-132 (248)
100 cd08803 Death_ank3 Death domai 20.5 1E+02 0.0022 24.6 2.7 23 75-97 5-27 (84)
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=99.62 E-value=5.5e-16 Score=115.22 Aligned_cols=50 Identities=48% Similarity=0.716 Sum_probs=46.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCc-hH---HHHHHHhC-CC-CHHHHHHHHHHHHHH
Q 022076 64 KSRESWTEPEHDKFLEALQLFDR-DW---KKIEAFIG-SK-TVIQIRSHAQKYFLK 113 (303)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yGr-dW---kkIA~~Vg-TR-T~~QIrSHaQKYf~k 113 (303)
|.+..||+|||.+||+||+.||+ +| ++|+++++ ++ |..||+||+||||++
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 99998776 67 999999999999986
No 2
>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=99.50 E-value=4.2e-14 Score=99.57 Aligned_cols=46 Identities=41% Similarity=0.708 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHcCch-HHHHHHHhC-CCCHHHHHHHHHHHH
Q 022076 66 RESWTEPEHDKFLEALQLFDRD-WKKIEAFIG-SKTVIQIRSHAQKYF 111 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrd-WkkIA~~Vg-TRT~~QIrSHaQKYf 111 (303)
++.||+||+++|++||++||.+ |+.||++|+ +||..||++||++|.
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 4789999999999999999987 999999999 999999999999883
No 3
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=2e-15 Score=142.06 Aligned_cols=242 Identities=22% Similarity=0.175 Sum_probs=160.1
Q ss_pred cCCCCCCCCCCCcccccCCCC-CCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhhc-C---CCCC
Q 022076 48 TSEDPSKKIRKPYTITKSRES-WTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN-G---TAEH 122 (303)
Q Consensus 48 ~~e~~~kk~rkPyt~tk~r~~-WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~-g---~~~~ 122 (303)
..++..++++|+|++...+.+ ||.+||..|.++|..|++.|.+|-++++.++..|+++|+|+||-++.+. + ....
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 346667899999999998655 9999999999999999889999999999999999999999999998874 1 2234
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCccccccCCCCC-CCCCCCCccccCCCCCcccccccccCC-CCCCCCCCcccCCCCCC
Q 022076 123 LPPPRPKRKAAHPYPQKASKNAPMLSQVSGSFQS-SSAQLEPGHFLRPDSSSMLMIPMASAA-TSWTNNVQTVSLSPASK 200 (303)
Q Consensus 123 iP~prpKRks~h~~p~~~~~~~~~~~q~~~~~qs-~~~~~~~g~~~~~d~ss~~~~~~~~~~-~sw~~~~~~~~~~~~~~ 200 (303)
+|++++++++.|+|+.+...+.... +. ..++ ...+. +++....+..+..++..+... ..|... ...-.+
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 8999999999999999987653321 11 1111 11222 333333333333332222211 111110 000000
Q ss_pred CCc--ccCC-----cccCCCCCCcccccCccccCCCccccCCCCCCCCcCCCChHHHhh--hhhccc-----C----CCc
Q 022076 201 GPE--VANN-----RSNSTDSTPKARVSGELTDQGGELTDQGNNSHPLRVLPDFAQVYT--FIGSVF-----D----PNA 262 (303)
Q Consensus 201 g~~--~~~~-----~~s~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~PdFaqVY~--FigsvF-----d----p~~ 262 (303)
+.. ...+ +....++-....... .........+.....+.++.++++.+++. |.++++ + |..
T Consensus 185 ~~~~~~~~~~~~~r~~~~~~s~a~~~~~~-~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 263 (335)
T KOG0724|consen 185 IDWRKISQNVEKERTPEQVASHAQEKAFE-KALARQKSGEEEKRRKSIEDITTASEAEDRKKEDEAAKEAKKKPRDTPSL 263 (335)
T ss_pred ccceechhhhhhhhcchhhhhhhhhhhhH-HHHHHHhhhccccccchhhhhhccchhhhhhcchhhhhhhhccccccccc
Confidence 000 0111 111111111000000 00001123444556677889999999988 999999 7 888
Q ss_pred hhHHHHhhcCCcchHHHHHHHHH-HHhhhcCCCcchhh
Q 022076 263 SDHVQKLKKMDPIDVETVLLLMR-NLSINLTSPDFEDH 299 (303)
Q Consensus 263 ~~hlq~Lk~Mdpi~~eTvLllmr-NLs~NL~sp~fe~~ 299 (303)
.+|.+.++.|++++.++.++.|. |+..+|+++.|+++
T Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 301 (335)
T KOG0724|consen 264 KSRNKRLKSFDGIAEESSETEDSLELVAALSAPMEEPQ 301 (335)
T ss_pred cchhhhcccCCccCCCchhHHHhHHHHHhhhccccccH
Confidence 99999999999999999999999 89999999999986
No 4
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.19 E-value=3.5e-11 Score=80.78 Aligned_cols=46 Identities=24% Similarity=0.523 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHHHcC-chHHHHHHHhCCCCHHHHHHHHHHHH
Q 022076 66 RESWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYF 111 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QIrSHaQKYf 111 (303)
+..||.+|+.+|+.+++.|| .+|..|+.++++||..||+.||.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 46899999999999999999 89999999999999999999988664
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=99.15 E-value=7.1e-11 Score=78.39 Aligned_cols=44 Identities=30% Similarity=0.567 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHcC-chHHHHHHHhCCCCHHHHHHHHHHHH
Q 022076 68 SWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYF 111 (303)
Q Consensus 68 ~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QIrSHaQKYf 111 (303)
.||.||+.+|+.+++.|| .+|..|++.+++||..||+.||++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999987763
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.03 E-value=3e-10 Score=82.41 Aligned_cols=42 Identities=33% Similarity=0.653 Sum_probs=37.3
Q ss_pred CCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHH
Q 022076 69 WTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKY 110 (303)
Q Consensus 69 WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKY 110 (303)
||.||+++|+++++.||.+|++||+++|.||..||+.||.++
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 999999999999999999999999999999999999998764
No 7
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.96 E-value=5.8e-10 Score=111.69 Aligned_cols=72 Identities=31% Similarity=0.477 Sum_probs=57.4
Q ss_pred cc-cCCCCCCCCCCCCCCCCCCchhHHhhhcCCcccccCCCCCCCCCCCccccc--CCCCCCHHHHHHHHHHHHHcCchH
Q 022076 12 FY-LDPNGMALPGLGPFASSATTPTAAAAAAGTSTVSTSEDPSKKIRKPYTITK--SRESWTEPEHDKFLEALQLFDRDW 88 (303)
Q Consensus 12 ~~-~~p~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~kk~rkPyt~tk--~r~~WT~EEh~lFLeaLe~yGrdW 88 (303)
+| +|++|+- +| +|++.. .+.|+. +-++.- ....||.+|..++||||+.||.||
T Consensus 246 ~~n~C~~C~~-qg--~f~s~~----------------~ssDf~-----~v~~~~~~~dk~WS~qE~~LLLEGIe~ygDdW 301 (531)
T COG5259 246 KYNSCSECYD-QG--RFPSEF----------------TSSDFK-----PVTISLLIRDKNWSRQELLLLLEGIEMYGDDW 301 (531)
T ss_pred hcccchHHHh-cC--cCCCcc----------------ccccch-----hhhhhcccccccccHHHHHHHHHHHHHhhhhH
Confidence 56 7999998 77 888752 223432 223322 245899999999999999999999
Q ss_pred HHHHHHhCCCCHHHHHHHH
Q 022076 89 KKIEAFIGSKTVIQIRSHA 107 (303)
Q Consensus 89 kkIA~~VgTRT~~QIrSHa 107 (303)
.+||.|||+||.+||.-|.
T Consensus 302 ~kVA~HVgtKt~EqCIl~F 320 (531)
T COG5259 302 DKVARHVGTKTKEQCILHF 320 (531)
T ss_pred HHHHHHhCCCCHHHHHHHH
Confidence 9999999999999999974
No 8
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.81 E-value=6.8e-09 Score=103.15 Aligned_cols=52 Identities=31% Similarity=0.498 Sum_probs=47.9
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcC-chHHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 022076 63 TKSRESWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYFLKV 114 (303)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QIrSHaQKYf~kl 114 (303)
......||.+|+.+||+|++.|| ++|+.||+|||+||.++|+.|+.|+|..-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~s 121 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVNS 121 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhcC
Confidence 34478999999999999999999 69999999999999999999999998764
No 9
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.67 E-value=2.7e-08 Score=93.13 Aligned_cols=52 Identities=15% Similarity=0.269 Sum_probs=46.7
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhC-CCCHHHHHHHHHHHHHHH
Q 022076 63 TKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIG-SKTVIQIRSHAQKYFLKV 114 (303)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~Vg-TRT~~QIrSHaQKYf~kl 114 (303)
...++.||.||++++++++++||. +|+.||+.++ .||..|||.+|.+|+.--
T Consensus 22 glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~ 75 (249)
T PLN03212 22 GMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPS 75 (249)
T ss_pred CCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchh
Confidence 345889999999999999999995 9999999886 899999999999997553
No 10
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=98.63 E-value=2.8e-08 Score=100.88 Aligned_cols=47 Identities=30% Similarity=0.535 Sum_probs=43.1
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHH
Q 022076 61 TITKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHA 107 (303)
Q Consensus 61 t~tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHa 107 (303)
.....+..||++|..++|+||+.||.||.+|+.|||+||..||..|.
T Consensus 248 ~~~~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kF 294 (506)
T KOG1279|consen 248 IGESARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKF 294 (506)
T ss_pred ccccCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHH
Confidence 34456889999999999999999999999999999999999999974
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.62 E-value=1.9e-07 Score=87.62 Aligned_cols=54 Identities=22% Similarity=0.226 Sum_probs=49.1
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 022076 63 TKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k 116 (303)
..+++.||.||++++++.++.||..|.+||.+|++||..|||+||..++.+..+
T Consensus 75 ~I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~ 128 (249)
T PLN03212 75 SVKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLL 128 (249)
T ss_pred hcccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHH
Confidence 447899999999999999999999999999999999999999999888776543
No 12
>PLN03091 hypothetical protein; Provisional
Probab=98.58 E-value=5.4e-08 Score=97.32 Aligned_cols=53 Identities=17% Similarity=0.373 Sum_probs=47.1
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhC-CCCHHHHHHHHHHHHH
Q 022076 60 YTITKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIG-SKTVIQIRSHAQKYFL 112 (303)
Q Consensus 60 yt~tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~Vg-TRT~~QIrSHaQKYf~ 112 (303)
|++...++.||.||+++|+++|++||. +|++|++.++ +||..|||.||.+|+.
T Consensus 8 ~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLd 62 (459)
T PLN03091 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLR 62 (459)
T ss_pred cCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccC
Confidence 445556789999999999999999996 8999999887 8999999999998764
No 13
>PLN03091 hypothetical protein; Provisional
Probab=98.46 E-value=3.3e-07 Score=91.81 Aligned_cols=54 Identities=17% Similarity=0.307 Sum_probs=48.7
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 022076 63 TKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k 116 (303)
..+++.||.||++++|+.+++||.+|.+||.+|++||..|||.||...++|..+
T Consensus 64 ~IkKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 64 DLKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred cccCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 346889999999999999999999999999999999999999999887766433
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.29 E-value=1.5e-06 Score=79.71 Aligned_cols=51 Identities=18% Similarity=0.339 Sum_probs=46.6
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 022076 63 TKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (303)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~k 113 (303)
...++.||+||+++++++-.+||.+|..||.++++||..+|++||.-..+|
T Consensus 59 ~ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~Wnt~lkk 109 (238)
T KOG0048|consen 59 DLKRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHWNTHLKK 109 (238)
T ss_pred CccCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHHHHHHHH
Confidence 446899999999999999999999999999999999999999999766544
No 15
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.21 E-value=4.1e-06 Score=81.70 Aligned_cols=49 Identities=29% Similarity=0.582 Sum_probs=46.2
Q ss_pred CCCCCCHHHHHHHHHHHHHcC-chHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yG-rdWkkIA~~VgTRT~~QIrSHaQKYf~k 113 (303)
..+.|+.+|+.+|+++++-.| ++|..||+|||+|+.++||+|+-||+..
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~e 111 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYDE 111 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHhh
Confidence 468999999999999999999 5999999999999999999999999874
No 16
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.16 E-value=1.8e-06 Score=79.08 Aligned_cols=51 Identities=16% Similarity=0.285 Sum_probs=46.8
Q ss_pred CCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhC-CCCHHHHHHHHHHHHHHHhh
Q 022076 66 RESWTEPEHDKFLEALQLFDR-DWKKIEAFIG-SKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~Vg-TRT~~QIrSHaQKYf~kl~k 116 (303)
+++||.||++++.+.|++||. +|..|++..| .|+..+||-+|-+|+.--.|
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ik 61 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLK 61 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCcc
Confidence 699999999999999999996 8999999999 99999999999999765333
No 17
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.58 E-value=0.00011 Score=77.23 Aligned_cols=54 Identities=19% Similarity=0.338 Sum_probs=48.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhc
Q 022076 64 KSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN 117 (303)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~ 117 (303)
...++||.+|+.+++.|+++||. ||-+|-+.|++|+..|||.+|.+.+..-.|.
T Consensus 358 ikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~ 412 (939)
T KOG0049|consen 358 VKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKV 412 (939)
T ss_pred ccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhcc
Confidence 36799999999999999999995 9999999999999999999988876665543
No 18
>PLN03162 golden-2 like transcription factor; Provisional
Probab=97.24 E-value=0.00061 Score=68.01 Aligned_cols=56 Identities=27% Similarity=0.344 Sum_probs=47.7
Q ss_pred cccCCCCCCHHHHHHHHHHHHHcCc---hHHHHHHHhC--CCCHHHHHHHHHHHHHHHhhc
Q 022076 62 ITKSRESWTEPEHDKFLEALQLFDR---DWKKIEAFIG--SKTVIQIRSHAQKYFLKVQKN 117 (303)
Q Consensus 62 ~tk~r~~WT~EEh~lFLeaLe~yGr---dWkkIA~~Vg--TRT~~QIrSHaQKYf~kl~k~ 117 (303)
..|.|-.||.|=|++|++||++.|- --|+|=++++ .=|..+|+||.|||+..+++.
T Consensus 233 ~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 233 KKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 3456889999999999999999993 5788887765 678999999999999887643
No 19
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=96.74 E-value=0.0038 Score=65.40 Aligned_cols=70 Identities=26% Similarity=0.412 Sum_probs=52.6
Q ss_pred CCCCCccccc--CCCCCCHHHHHHHHHHHHHcCchHHHH----------HHHhCCCCHHHHHHHHHHHHHHHhhcCCCCC
Q 022076 55 KIRKPYTITK--SRESWTEPEHDKFLEALQLFDRDWKKI----------EAFIGSKTVIQIRSHAQKYFLKVQKNGTAEH 122 (303)
Q Consensus 55 k~rkPyt~tk--~r~~WT~EEh~lFLeaLe~yGrdWkkI----------A~~VgTRT~~QIrSHaQKYf~kl~k~g~~~~ 122 (303)
-++++.+.-+ .+..||..|+.-|..||++||+|+.+| -.-+-.||-.|||.||-+...++.|.-.+..
T Consensus 75 ~~k~~qk~Lkt~~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~F~~~ 154 (782)
T KOG4468|consen 75 PAKKPQKQLKTWAKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLLFGPD 154 (782)
T ss_pred ccccchhhcccccccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhhcccc
Confidence 3455555522 377999999999999999999999999 2345578999999998777777777533333
Q ss_pred CC
Q 022076 123 LP 124 (303)
Q Consensus 123 iP 124 (303)
|+
T Consensus 155 l~ 156 (782)
T KOG4468|consen 155 LS 156 (782)
T ss_pred cC
Confidence 43
No 20
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.58 E-value=0.0043 Score=47.51 Aligned_cols=52 Identities=29% Similarity=0.439 Sum_probs=37.3
Q ss_pred CCCCCHHHHHHHHHHHHH------cC--c------hHHHHHHHhC----CCCHHHHHHHHHHHHHHHhhc
Q 022076 66 RESWTEPEHDKFLEALQL------FD--R------DWKKIEAFIG----SKTVIQIRSHAQKYFLKVQKN 117 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~------yG--r------dWkkIA~~Vg----TRT~~QIrSHaQKYf~kl~k~ 117 (303)
|..||++|...||+.+.. |+ . -|+.||+.+. .||+.||+..+.+...+..+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~ 70 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKI 70 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 468999999999999877 32 1 5999997763 699999999998877776654
No 21
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=96.45 E-value=0.0033 Score=65.69 Aligned_cols=57 Identities=25% Similarity=0.472 Sum_probs=50.2
Q ss_pred CCCccccc-CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 022076 57 RKPYTITK-SRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKV 114 (303)
Q Consensus 57 rkPyt~tk-~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl 114 (303)
|.-|++-. .++.||+||++.+...+.++|.+|+.|++.+| |.+.-||.||..|...-
T Consensus 374 rR~y~~FE~~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~lg-r~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 374 RRAYTPFENKRGKWTPEEEEELKKLVVEHGNDWKEIGKALG-RMPMDCRDRWRQYVKCG 431 (607)
T ss_pred HhcCCccccccCCCCcchHHHHHHHHHHhcccHHHHHHHHc-cCcHHHHHHHHHhhccc
Confidence 45667777 89999999999999999999999999999998 58999999999885543
No 22
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=96.19 E-value=0.038 Score=55.38 Aligned_cols=42 Identities=24% Similarity=0.465 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHHHHHcCchHHHHH-HHhCCCCHHHHHHHH
Q 022076 66 RESWTEPEHDKFLEALQLFDRDWKKIE-AFIGSKTVIQIRSHA 107 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrdWkkIA-~~VgTRT~~QIrSHa 107 (303)
-..|+++|=..|.+||+.||||+..|. .-|.||+.-+|..+|
T Consensus 277 l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyY 319 (445)
T KOG4329|consen 277 LSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYY 319 (445)
T ss_pred cccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHH
Confidence 458999999999999999999999997 789999999998864
No 23
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=95.52 E-value=0.015 Score=60.87 Aligned_cols=52 Identities=21% Similarity=0.450 Sum_probs=44.0
Q ss_pred cCCCCCCHHHHHHHHHHHH-------Hc-------C-----------c-hHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 64 KSRESWTEPEHDKFLEALQ-------LF-------D-----------R-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe-------~y-------G-----------r-dWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
.+++.||.||++++|..++ .| | . .|..|++.+|||+..|||.||.+...+-.
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 4689999999999999995 44 1 1 69999999999999999999988766544
No 24
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=95.52 E-value=0.016 Score=59.96 Aligned_cols=53 Identities=17% Similarity=0.418 Sum_probs=48.0
Q ss_pred cccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 022076 62 ITKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKV 114 (303)
Q Consensus 62 ~tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQKYf~kl 114 (303)
+-+.++.|+..|++.+-.++.+||+ .|.+|+..+..+|..||+.+|.+|..-.
T Consensus 3 i~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~ 56 (617)
T KOG0050|consen 3 IEIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPA 56 (617)
T ss_pred eEEecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHH
Confidence 3456889999999999999999998 8999999999999999999999887653
No 25
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.44 E-value=0.021 Score=60.67 Aligned_cols=44 Identities=27% Similarity=0.545 Sum_probs=39.5
Q ss_pred CCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQ 108 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQ 108 (303)
+.+.||-.|+++++++|++||. .|-+||.++|.||..|.+++-.
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 4689999999999999999997 9999999999999988766543
No 26
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=95.29 E-value=0.011 Score=56.17 Aligned_cols=72 Identities=26% Similarity=0.333 Sum_probs=59.6
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCc-hHHHHH-HHhCCCCHHHHHHHHH-----HHHHHHhhcCCCCCCCCCCCCCCCCCC
Q 022076 63 TKSRESWTEPEHDKFLEALQLFDR-DWKKIE-AFIGSKTVIQIRSHAQ-----KYFLKVQKNGTAEHLPPPRPKRKAAHP 135 (303)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA-~~VgTRT~~QIrSHaQ-----KYf~kl~k~g~~~~iP~prpKRks~h~ 135 (303)
.+.+..|+..++.+++.++..+|+ +|.+|+ .++..|++.|+.+|+| +|+.+....+. ...|+++|+
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~~-------~~~~~s~~~ 233 (335)
T KOG0724|consen 161 RRKGTPVTERERKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAFEKALARQKSGEE-------EKRRKSIED 233 (335)
T ss_pred hhccchhHHHHHHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhcc-------ccccchhhh
Confidence 345789999999999999999998 999998 6778999999999999 89888755432 455778888
Q ss_pred CCcccC
Q 022076 136 YPQKAS 141 (303)
Q Consensus 136 ~p~~~~ 141 (303)
++....
T Consensus 234 ~~~~~~ 239 (335)
T KOG0724|consen 234 ITTASE 239 (335)
T ss_pred hhccch
Confidence 776654
No 27
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=94.13 E-value=0.26 Score=49.68 Aligned_cols=53 Identities=25% Similarity=0.387 Sum_probs=42.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHcC---c-------------hHHHHHHHhC-----CCCHHHHHHHHHHHHHHHhh
Q 022076 64 KSRESWTEPEHDKFLEALQLFD---R-------------DWKKIEAFIG-----SKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yG---r-------------dWkkIA~~Vg-----TRT~~QIrSHaQKYf~kl~k 116 (303)
...+.|+++=++.|+|||..|- | +=.-||.||+ |||..||-||-|-.-++..+
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~r 147 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLR 147 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHH
Confidence 3568999999999999998873 1 3467899885 89999999999976555444
No 28
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.12 E-value=0.095 Score=58.13 Aligned_cols=49 Identities=20% Similarity=0.453 Sum_probs=44.5
Q ss_pred CCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 67 ESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 67 ~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
..|+..+=..|+.|.++||| |...||..|.+||..+|+.+++-|+.+..
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 47999999999999999998 99999999999999999999888776643
No 29
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=94.07 E-value=0.095 Score=52.90 Aligned_cols=41 Identities=24% Similarity=0.526 Sum_probs=39.2
Q ss_pred CCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHH
Q 022076 66 RESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSH 106 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSH 106 (303)
..+||.+|-++|..||..+|-|+.-|+..+++|...||+.-
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaK 405 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAK 405 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHH
Confidence 47999999999999999999999999999999999999983
No 30
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=93.80 E-value=0.053 Score=55.92 Aligned_cols=43 Identities=28% Similarity=0.509 Sum_probs=38.7
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHH-HHhCCCCHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLFDRDWKKIE-AFIGSKTVIQIRSHA 107 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA-~~VgTRT~~QIrSHa 107 (303)
.-+.|+..|-.+|.+||++||+|+..|- +|++=|+...|..+|
T Consensus 284 emEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 284 EMEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hhhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHH
Confidence 4579999999999999999999999997 899989888887765
No 31
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=93.66 E-value=0.11 Score=55.80 Aligned_cols=44 Identities=27% Similarity=0.391 Sum_probs=41.1
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQ 108 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQ 108 (303)
....||..|..+|-.||-.|-+|+-.|+..|.+||+.||-.+|=
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred CcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHH
Confidence 45799999999999999999999999999999999999998764
No 32
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=93.51 E-value=0.15 Score=52.36 Aligned_cols=43 Identities=21% Similarity=0.410 Sum_probs=39.6
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHA 107 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHa 107 (303)
....||.||-.+|-.+++.||+++++|-..++.|+...++-+|
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyY 228 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYY 228 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHH
Confidence 3478999999999999999999999999999999998888765
No 33
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.33 E-value=0.39 Score=36.31 Aligned_cols=50 Identities=18% Similarity=0.410 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHHHc-----C------------chHHHHHHHh-----CCCCHHHHHHHHHHHHHHHhh
Q 022076 67 ESWTEPEHDKFLEALQLF-----D------------RDWKKIEAFI-----GSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 67 ~~WT~EEh~lFLeaLe~y-----G------------rdWkkIA~~V-----gTRT~~QIrSHaQKYf~kl~k 116 (303)
..||.+|...|++.|++| | +-|..|+..+ +.||..|++..|+++.....+
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 3 1599999655 369999999999998777654
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=92.05 E-value=0.57 Score=39.76 Aligned_cols=58 Identities=21% Similarity=0.418 Sum_probs=44.1
Q ss_pred CcccccCCCCCCHHHHHHHHHHHHHcCc----hHHHHHH------------HhCCCCHHHHHHHHHHHHHHHhh
Q 022076 59 PYTITKSRESWTEPEHDKFLEALQLFDR----DWKKIEA------------FIGSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 59 Pyt~tk~r~~WT~EEh~lFLeaLe~yGr----dWkkIA~------------~VgTRT~~QIrSHaQKYf~kl~k 116 (303)
.|..+..+..||++|+.-+|-.+.+||- .|.+|-+ |+.+||+.+|..|+.-...-+.|
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 3665667899999999999999999996 8999964 35699999999999855444443
No 35
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=91.79 E-value=0.11 Score=53.70 Aligned_cols=58 Identities=16% Similarity=0.251 Sum_probs=48.9
Q ss_pred CCcccccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 58 KPYTITKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 58 kPyt~tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
|.+.+....+.|+..|+..++-+++.||. .|.+||..+..||..||+.|+..|.....
T Consensus 12 ~~~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~l 70 (512)
T COG5147 12 KLMQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQL 70 (512)
T ss_pred ccccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhc
Confidence 44444556789999999999999999996 89999988888999999999977765543
No 36
>smart00426 TEA TEA domain.
Probab=91.43 E-value=0.19 Score=39.38 Aligned_cols=43 Identities=28% Similarity=0.464 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHcCc--hH--------------HHHHHHhC-----CCCHHHHHHHHH
Q 022076 66 RESWTEPEHDKFLEALQLFDR--DW--------------KKIEAFIG-----SKTVIQIRSHAQ 108 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGr--dW--------------kkIA~~Vg-----TRT~~QIrSHaQ 108 (303)
...|.++=+..|++||+.|-. .+ .-|++|+- .||..||-||-|
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 468999999999999999853 12 23555553 588999999876
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=90.39 E-value=0.37 Score=50.02 Aligned_cols=54 Identities=13% Similarity=0.343 Sum_probs=48.0
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 022076 63 TKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k 116 (303)
...+..|+.||+..++..-..+|-.|..|+.+++.||..||-.+|.+-+....+
T Consensus 69 ~lk~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 69 QLKKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hcccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 346789999999999999999999999999999999999999988877666544
No 38
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=90.22 E-value=0.3 Score=50.94 Aligned_cols=49 Identities=18% Similarity=0.411 Sum_probs=43.9
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 022076 64 KSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLK 113 (303)
Q Consensus 64 k~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~k 113 (303)
.++..|+.||++++|.+.+.+..-|..|+..|| ||..||-.|+++.+-.
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 357899999999999999999999999999997 7999999999886443
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=87.48 E-value=2 Score=33.16 Aligned_cols=45 Identities=22% Similarity=0.299 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHHHHHc---C----------chHHHHHHHh----C-CCCHHHHHHHHHHHHH
Q 022076 68 SWTEPEHDKFLEALQLF---D----------RDWKKIEAFI----G-SKTVIQIRSHAQKYFL 112 (303)
Q Consensus 68 ~WT~EEh~lFLeaLe~y---G----------rdWkkIA~~V----g-TRT~~QIrSHaQKYf~ 112 (303)
.||++++..||+.+... | ..|+.|++.+ | ..|..||++|+...-.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 59999999999999544 1 1599998544 3 4689999999876533
No 40
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=86.34 E-value=5.8 Score=38.13 Aligned_cols=52 Identities=19% Similarity=0.362 Sum_probs=41.3
Q ss_pred CCCCCHHHHHHHHHHHHHcC----------chHHHHHH---HhC-CCCHHHHHHHHHHHHHHHhhc
Q 022076 66 RESWTEPEHDKFLEALQLFD----------RDWKKIEA---FIG-SKTVIQIRSHAQKYFLKVQKN 117 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yG----------rdWkkIA~---~Vg-TRT~~QIrSHaQKYf~kl~k~ 117 (303)
...|+.+|...||++..... ..|..|++ ..| -||+.||+..+.+...+.++.
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 48999999999999985442 26999996 233 599999999998877776654
No 41
>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=85.11 E-value=0.99 Score=45.85 Aligned_cols=48 Identities=25% Similarity=0.383 Sum_probs=32.8
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCc--------------hHHHHHHHhC-----CCCHHHHHHHHHHH
Q 022076 63 TKSRESWTEPEHDKFLEALQLFDR--------------DWKKIEAFIG-----SKTVIQIRSHAQKY 110 (303)
Q Consensus 63 tk~r~~WT~EEh~lFLeaLe~yGr--------------dWkkIA~~Vg-----TRT~~QIrSHaQKY 110 (303)
....+.|+++=+..|++||+.|-. +=+-|++||. .||..||-||.|-.
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 2245777774 69999999999966
No 42
>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=82.74 E-value=2.1 Score=32.87 Aligned_cols=48 Identities=21% Similarity=0.269 Sum_probs=30.1
Q ss_pred CCCCCHHHHHHHHHHHHHcC---------chHHHHHHHhC-CCCHHHHHHHHHHHHHH
Q 022076 66 RESWTEPEHDKFLEALQLFD---------RDWKKIEAFIG-SKTVIQIRSHAQKYFLK 113 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yG---------rdWkkIA~~Vg-TRT~~QIrSHaQKYf~k 113 (303)
|..+|.||+..+++-|..+. +=|+++++.-. ..|-.-.|.||-|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~ 59 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRG 59 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT--
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Confidence 56789999999999996553 14999996555 78888899987665443
No 43
>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=81.62 E-value=3 Score=37.58 Aligned_cols=48 Identities=15% Similarity=0.248 Sum_probs=38.7
Q ss_pred CCCCCHHHHHHHHHHHHHc---Cc----hHHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 022076 66 RESWTEPEHDKFLEALQLF---DR----DWKKIEAFIGSKTVIQIRSHAQKYFLKV 114 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~y---Gr----dWkkIA~~VgTRT~~QIrSHaQKYf~kl 114 (303)
...||.||+.++-+.+-+| |+ -+..+++-+ +||..-|.-+|..|..+.
T Consensus 4 QDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkq 58 (161)
T TIGR02894 4 QDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQ 58 (161)
T ss_pred ccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHH
Confidence 4689999999999999888 42 566666555 589999999999987753
No 44
>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=75.79 E-value=7.5 Score=34.57 Aligned_cols=50 Identities=18% Similarity=0.350 Sum_probs=44.6
Q ss_pred CCCHHHHHHHHHHHHHcCc---hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhc
Q 022076 68 SWTEPEHDKFLEALQLFDR---DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN 117 (303)
Q Consensus 68 ~WT~EEh~lFLeaLe~yGr---dWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~ 117 (303)
-++..+...||.+|-+||- +|+-+-..+..||..+|+.|+--|+.++.-.
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 5788999999999999995 8999999999999999999998888777643
No 45
>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=75.65 E-value=8.7 Score=38.25 Aligned_cols=51 Identities=20% Similarity=0.313 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHHHc-Cc---hHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 022076 66 RESWTEPEHDKFLEALQLF-DR---DWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~y-Gr---dWkkIA~~VgTRT~~QIrSHaQKYf~kl~k 116 (303)
...||..|...+|.+|+-- |. |-..|++.|.+|+..||+.+.|+.-.++.+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvar 75 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVAR 75 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHH
Confidence 5699999999999999866 43 777889999999999999988877555443
No 46
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=73.47 E-value=13 Score=25.97 Aligned_cols=37 Identities=19% Similarity=0.266 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHH
Q 022076 72 PEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQK 109 (303)
Q Consensus 72 EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQK 109 (303)
+=+.++|..|+.-|+ .|.+|++.+|- |...|..+.++
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 457889999999998 89999999997 78888887664
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=72.57 E-value=9.6 Score=29.59 Aligned_cols=38 Identities=26% Similarity=0.540 Sum_probs=27.1
Q ss_pred HHHHHHHHcC--------chHHHHHHHhCCCC-----HHHHHHHHHHHHHH
Q 022076 76 KFLEALQLFD--------RDWKKIEAFIGSKT-----VIQIRSHAQKYFLK 113 (303)
Q Consensus 76 lFLeaLe~yG--------rdWkkIA~~VgTRT-----~~QIrSHaQKYf~k 113 (303)
+|-.++..+| ++|..|++.+|--. ..+++.||++|+..
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 4445555665 37999999887422 47899999999764
No 48
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=72.04 E-value=5.4 Score=36.20 Aligned_cols=48 Identities=15% Similarity=0.204 Sum_probs=35.9
Q ss_pred CCCCCCHHHHHHHHHHHHHcCc-hHHHHHH--HhC---CCCHHHHHHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLFDR-DWKKIEA--FIG---SKTVIQIRSHAQKYFL 112 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~--~Vg---TRT~~QIrSHaQKYf~ 112 (303)
....||.||+.++-+.+-.|++ +=.+++. .+| .||..+|.-+|..+..
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 3578999999999999999986 4444442 223 5899999999965544
No 49
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=71.87 E-value=16 Score=29.76 Aligned_cols=43 Identities=19% Similarity=0.320 Sum_probs=31.6
Q ss_pred CCCCCCHHHHHHHHHHHHHc----Cc----hHHHHHHHhCCC-----CHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLF----DR----DWKKIEAFIGSK-----TVIQIRSHA 107 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~y----Gr----dWkkIA~~VgTR-----T~~QIrSHa 107 (303)
....||+|++..+|+||-.| |. ||...-++|... |..|+..-.
T Consensus 3 ~qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~Ki 58 (98)
T PF04504_consen 3 FQRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKI 58 (98)
T ss_pred CcCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHH
Confidence 35679999999999999888 63 787777776533 556654433
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=71.48 E-value=8.5 Score=40.05 Aligned_cols=59 Identities=3% Similarity=0.028 Sum_probs=49.6
Q ss_pred CCCcccccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 57 RKPYTITKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 57 rkPyt~tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
+-|..+-+-..+|+.+|-.+.+.+|++||++..-|+-.||.++..|++...-.|-.+..
T Consensus 360 kipes~c~~n~~~~T~~~la~v~~I~~~~~~~~pl~wrik~t~cmee~e~l~~~~Rr~m 418 (534)
T KOG1194|consen 360 KIPESTCRMNRCFDTPAALALIDNIKRKHHMCVPLVWRVKQTKCMEENEILNEEARRQM 418 (534)
T ss_pred CCCchhhhhccccCcHHHHHHHHHHHHhccCcchhhhHhcCcchhhHHHHHHHHHHHHH
Confidence 34444444458999999999999999999999999999999999999998887766654
No 51
>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=68.35 E-value=20 Score=24.98 Aligned_cols=40 Identities=5% Similarity=0.103 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHH
Q 022076 72 PEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFL 112 (303)
Q Consensus 72 EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~ 112 (303)
+++...+...-..|..|++||+.+| .|...|+.|.++=..
T Consensus 13 ~~~r~i~~l~~~~g~s~~eIa~~l~-~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 13 ERQREIFLLRYFQGMSYAEIAEILG-ISESTVKRRLRRARK 52 (54)
T ss_dssp HHHHHHHHHHHTS---HHHHHHHCT-S-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCcCHHHHHHHHC-cCHHHHHHHHHHHHh
Confidence 3444555555667889999999998 589999988765433
No 52
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=67.57 E-value=5.1 Score=42.45 Aligned_cols=50 Identities=22% Similarity=0.393 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhhc
Q 022076 65 SRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN 117 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~ 117 (303)
....|+.+|-++|-.++..+|-+..-|+.....|+..|||. ||-++-.+.
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~---K~~~eE~r~ 457 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKA---KFKKEEKRN 457 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHH---HHhhhhhcc
Confidence 35899999999999999999999999999999999999997 665555443
No 53
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=67.35 E-value=17 Score=28.60 Aligned_cols=40 Identities=23% Similarity=0.476 Sum_probs=29.6
Q ss_pred HHHHHHHcCc--------hHHHHHHHhCCC-----CHHHHHHHHHHHHHHHhh
Q 022076 77 FLEALQLFDR--------DWKKIEAFIGSK-----TVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 77 FLeaLe~yGr--------dWkkIA~~VgTR-----T~~QIrSHaQKYf~kl~k 116 (303)
+-.++.++|+ .|++|++.+|-. ...+++.||++|+....+
T Consensus 37 Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE~ 89 (93)
T smart00501 37 LYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPFER 89 (93)
T ss_pred HHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHHHH
Confidence 3445666662 799999888743 368899999999877654
No 54
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=66.81 E-value=10 Score=41.91 Aligned_cols=61 Identities=18% Similarity=0.378 Sum_probs=52.4
Q ss_pred CCCcccccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcC
Q 022076 57 RKPYTITKSRESWTEPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 118 (303)
Q Consensus 57 rkPyt~tk~r~~WT~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~g 118 (303)
+|+.-.+..-..||..+-..|+.|.++||+ |-..|+.-|-. |+++|..++.-||.++.+..
T Consensus 786 ~k~~ll~~gft~w~k~df~~fi~a~eKygr~di~~ia~~~e~-~~eev~~y~rvfwer~~el~ 847 (971)
T KOG0385|consen 786 EKEELLSQGFTNWTKRDFNQFIKANEKYGRDDIENIAAEVEG-TPEEVGEYARVFWERLEELS 847 (971)
T ss_pred hhhhhhhccccchhhhhHHHHHHHhhccCcchhhhhHHhhcC-CHHHHHHHHHHHHHHHHHhh
Confidence 455555656678999999999999999998 89999988776 99999999999999888753
No 55
>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=63.41 E-value=8.4 Score=34.57 Aligned_cols=46 Identities=20% Similarity=0.390 Sum_probs=34.1
Q ss_pred CCcCCCC---hHHHhhhhhcccCCCchhHHHHhhcCCcchHHHHHHHHH
Q 022076 240 PLRVLPD---FAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMR 285 (303)
Q Consensus 240 ~l~~~Pd---FaqVY~FigsvFdp~~~~hlq~Lk~Mdpi~~eTvLllmr 285 (303)
.+..+|+ |+++|+||-..=.-+...|++.|-.-=-|+.+++.++++
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 999999998852223467888886666688888877765
No 56
>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=62.81 E-value=19 Score=24.63 Aligned_cols=26 Identities=19% Similarity=0.194 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHcCchHHHHHHHhCC
Q 022076 72 PEHDKFLEALQLFDRDWKKIEAFIGS 97 (303)
Q Consensus 72 EEh~lFLeaLe~yGrdWkkIA~~VgT 97 (303)
-|...+.++|+.+|.+..+.|+.+|-
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 47889999999999999999999995
No 57
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=61.35 E-value=22 Score=40.15 Aligned_cols=53 Identities=15% Similarity=0.330 Sum_probs=43.7
Q ss_pred CCCCCCHHHHHHHHHHHHHcC-chHHHHHH------------HhCCCCHHHHHHHHHHHHHHHhhc
Q 022076 65 SRESWTEPEHDKFLEALQLFD-RDWKKIEA------------FIGSKTVIQIRSHAQKYFLKVQKN 117 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yG-rdWkkIA~------------~VgTRT~~QIrSHaQKYf~kl~k~ 117 (303)
++..||+||+..+|-.+.+|| .+|.+|-. |+.+||+.+|..++.-....+.|.
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~~e 990 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIEKE 990 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHHHH
Confidence 456799999999999999999 58999943 356999999999998666666554
No 58
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=56.79 E-value=22 Score=30.32 Aligned_cols=43 Identities=21% Similarity=0.284 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcC
Q 022076 71 EPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 118 (303)
Q Consensus 71 ~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~g 118 (303)
++.+.++|++|++-|+ .|.+||+-+|- |...|+.+.+ ++...|
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lgl-S~~tV~~Ri~----rL~~~G 51 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFGV-SPGTIHVRVE----KMKQAG 51 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHCc-CHHHHHHHHH----HHHHCC
Confidence 4678999999999998 99999999986 7888888755 444444
No 59
>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=54.07 E-value=26 Score=30.77 Aligned_cols=46 Identities=20% Similarity=0.191 Sum_probs=36.6
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhC----CCCHHHHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLFDRDWKKIEAFIG----SKTVIQIRSHAQKY 110 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~Vg----TRT~~QIrSHaQKY 110 (303)
....=|..|...+...|++||.|++.++.-.. -.|+.||+....+|
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 44566788888888888999999999994333 47999999887776
No 60
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=53.34 E-value=9.6 Score=37.53 Aligned_cols=61 Identities=21% Similarity=0.217 Sum_probs=38.6
Q ss_pred CCCCCCCCCcccccCCCCCCHHHHHHHH-HHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcC
Q 022076 51 DPSKKIRKPYTITKSRESWTEPEHDKFL-EALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 118 (303)
Q Consensus 51 ~~~kk~rkPyt~tk~r~~WT~EEh~lFL-eaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~g 118 (303)
..++|.|+|||.-. |.|=++-|| ..+--=.|+|+ |++.+.- |..||+.-+|+-..|.+|..
T Consensus 233 ~~~RKKRcPYTK~Q-----tlELEkEFlfN~YitkeKR~E-lSr~lNL-TeRQVKIWFQNRRMK~KK~~ 294 (308)
T KOG0487|consen 233 RRGRKKRCPYTKHQ-----TLELEKEFLFNMYITKEKRLE-LSRTLNL-TERQVKIWFQNRRMKEKKVN 294 (308)
T ss_pred cccccccCCchHHH-----HHHHHHHHHHHHHHhHHHHHH-HHHhccc-chhheeeeehhhhhHHhhhh
Confidence 45567788887321 233333332 22222245666 9988764 89999999998888888764
No 61
>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=52.77 E-value=18 Score=28.51 Aligned_cols=34 Identities=26% Similarity=0.409 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHH
Q 022076 71 EPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSH 106 (303)
Q Consensus 71 ~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSH 106 (303)
.||-+++|..= ..|+||+..|..+|- +..+|+..
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~LG~-~~~~I~~i 35 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGELGY-EDEAIDTF 35 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHcCC-CHHHHHHH
Confidence 57778888521 678999999999996 35555543
No 62
>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=52.53 E-value=50 Score=25.65 Aligned_cols=47 Identities=17% Similarity=0.253 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 022076 68 SWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 68 ~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k 116 (303)
..++.|...|... -..|..++.||+.+|. +...|+.+.++-+.++.+
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 4555555554322 2347799999999997 888888888777777653
No 63
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=52.35 E-value=32 Score=29.72 Aligned_cols=43 Identities=14% Similarity=0.222 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcC
Q 022076 71 EPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 118 (303)
Q Consensus 71 ~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~g 118 (303)
++-+.++|.+|++-|| .|.+||+-||- +...|+.+.+ ++.+.|
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 6778999999999998 99999999986 7778888755 445444
No 64
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=51.07 E-value=15 Score=37.57 Aligned_cols=51 Identities=22% Similarity=0.307 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHcCchHHHHHHH-----hCC-CCHHHHHHHHHHHHHHHhh
Q 022076 66 RESWTEPEHDKFLEALQLFDRDWKKIEAF-----IGS-KTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGrdWkkIA~~-----VgT-RT~~QIrSHaQKYf~kl~k 116 (303)
...||.||.+-+.+..+.|+-+|--|++- .+. ||.++.+.++=....++-+
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 45799999999999999999988888832 554 9999999987555555544
No 65
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=48.38 E-value=42 Score=26.33 Aligned_cols=38 Identities=18% Similarity=0.270 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHH
Q 022076 71 EPEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQK 109 (303)
Q Consensus 71 ~EEh~lFLeaLe~yGr-dWkkIA~~VgTRT~~QIrSHaQK 109 (303)
++.+.++|+.|+..|+ .|+.|++.+|- +...|+.+.++
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 3578899999999987 99999999986 77888876543
No 66
>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=47.16 E-value=10 Score=27.26 Aligned_cols=17 Identities=35% Similarity=0.509 Sum_probs=14.1
Q ss_pred Ccc-cCCCCCCCCCCCCCCCC
Q 022076 11 GFY-LDPNGMALPGLGPFASS 30 (303)
Q Consensus 11 ~~~-~~p~~~~~~g~~~~~~~ 30 (303)
.+| |||.||. +| ++++.
T Consensus 21 ~~~dLC~~CF~-~G--~f~~~ 38 (45)
T cd02336 21 KKYDLCPSCYQ-EG--RFPSN 38 (45)
T ss_pred CccccChHHHh-Cc--CCCCC
Confidence 368 9999999 88 88875
No 67
>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=46.37 E-value=34 Score=28.32 Aligned_cols=24 Identities=17% Similarity=0.466 Sum_probs=17.6
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhC
Q 022076 70 TEPEHDKFLEALQLFDRDWKKIEAFIG 96 (303)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~Vg 96 (303)
|.++.+.|-+ ..|++||+++..+|
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 68
>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=45.51 E-value=99 Score=21.29 Aligned_cols=43 Identities=12% Similarity=0.123 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 71 EPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 71 ~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
++|.+.|..-+ ..|..++.||+.+|- |...|+.+-.+=+.++.
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 34444333333 445699999999986 78888887766666654
No 69
>smart00595 MADF subfamily of SANT domain.
Probab=45.08 E-value=39 Score=25.74 Aligned_cols=23 Identities=17% Similarity=0.416 Sum_probs=20.4
Q ss_pred hHHHHHHHhCCCCHHHHHHHHHHH
Q 022076 87 DWKKIEAFIGSKTVIQIRSHAQKY 110 (303)
Q Consensus 87 dWkkIA~~VgTRT~~QIrSHaQKY 110 (303)
-|..|++-++. |.++|+.++.+.
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 69999999998 999999988764
No 70
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=44.22 E-value=41 Score=31.27 Aligned_cols=46 Identities=13% Similarity=0.190 Sum_probs=36.7
Q ss_pred CCCCCCHHHHHHHHHHHHHcC---chHHHHH-----HHhCCCCHHHHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEALQLFD---RDWKKIE-----AFIGSKTVIQIRSHAQKY 110 (303)
Q Consensus 65 ~r~~WT~EEh~lFLeaLe~yG---rdWkkIA-----~~VgTRT~~QIrSHaQKY 110 (303)
.+..||.+|+++|...-.... ..|++|= .|-.+||+.+...||+-.
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 578999999999999766654 2788883 466789999999999843
No 71
>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=42.13 E-value=93 Score=19.99 Aligned_cols=43 Identities=12% Similarity=0.132 Sum_probs=27.5
Q ss_pred CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHH
Q 022076 68 SWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFL 112 (303)
Q Consensus 68 ~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~ 112 (303)
.+++++ ..++..+-..|..++.|++.+|- +..+|+.+-++...
T Consensus 10 ~l~~~~-~~~~~~~~~~~~~~~~ia~~~~~-s~~~i~~~~~~~~~ 52 (55)
T cd06171 10 KLPERE-REVILLRFGEGLSYEEIAEILGI-SRSTVRQRLHRALK 52 (55)
T ss_pred hCCHHH-HHHHHHHHhcCCCHHHHHHHHCc-CHHHHHHHHHHHHH
Confidence 355554 44445554567799999988884 66777766554433
No 72
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=41.69 E-value=13 Score=43.47 Aligned_cols=48 Identities=21% Similarity=0.200 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcCC
Q 022076 72 PEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGT 119 (303)
Q Consensus 72 EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k~g~ 119 (303)
||-+.--.||-.+||+|.+|.-.|+++|..||...+-||-.+++.++.
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 455577778888999999999999999999999988888777776654
No 73
>PHA00442 host recBCD nuclease inhibitor
Probab=40.49 E-value=17 Score=27.83 Aligned_cols=33 Identities=24% Similarity=0.582 Sum_probs=26.2
Q ss_pred cccCCCCC--------CHHHHHHHHHHHHHcCc-hHHHHHHH
Q 022076 62 ITKSRESW--------TEPEHDKFLEALQLFDR-DWKKIEAF 94 (303)
Q Consensus 62 ~tk~r~~W--------T~EEh~lFLeaLe~yGr-dWkkIA~~ 94 (303)
.+.-|..| +-|.+..||++|+..|- +|..+.+.
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 44557788 56778899999999996 89988754
No 74
>PRK01905 DNA-binding protein Fis; Provisional
Probab=38.28 E-value=90 Score=24.08 Aligned_cols=35 Identities=9% Similarity=0.078 Sum_probs=27.4
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHH
Q 022076 70 TEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRS 105 (303)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrS 105 (303)
..-|...+.++|+.+|.++.+.|+.+|- +...++.
T Consensus 35 ~~~E~~~i~~aL~~~~gn~s~aAr~LGI-srstL~r 69 (77)
T PRK01905 35 SCVEKPLLEVVMEQAGGNQSLAAEYLGI-NRNTLRK 69 (77)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHCC-CHHHHHH
Confidence 4557888999999999999999999985 3333433
No 75
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=37.26 E-value=87 Score=25.46 Aligned_cols=26 Identities=12% Similarity=0.077 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHcCchHHHHHHHhCC
Q 022076 72 PEHDKFLEALQLFDRDWKKIEAFIGS 97 (303)
Q Consensus 72 EEh~lFLeaLe~yGrdWkkIA~~VgT 97 (303)
-|...|.++|+.+|.++.+.|+.+|-
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~LGI 80 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALMLGI 80 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHhCC
Confidence 57788999999999999999999995
No 76
>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=36.51 E-value=31 Score=24.98 Aligned_cols=28 Identities=21% Similarity=0.498 Sum_probs=24.0
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhCC
Q 022076 70 TEPEHDKFLEALQLFDRDWKKIEAFIGS 97 (303)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~VgT 97 (303)
..+.|++|...|+.-...++-|++|+|-
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 77
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=35.69 E-value=22 Score=28.07 Aligned_cols=16 Identities=13% Similarity=0.329 Sum_probs=8.9
Q ss_pred CCCCCCHHHHHHHHHH
Q 022076 65 SRESWTEPEHDKFLEA 80 (303)
Q Consensus 65 ~r~~WT~EEh~lFLea 80 (303)
-.+.||.|+++.++.+
T Consensus 46 ~~GiWT~eDD~~L~~~ 61 (87)
T PF11626_consen 46 MPGIWTPEDDEMLRSG 61 (87)
T ss_dssp -TT---HHHHHHHTS-
T ss_pred CCCCcCHHHHHHHHcC
Confidence 4689999999988443
No 78
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=31.71 E-value=81 Score=23.08 Aligned_cols=27 Identities=15% Similarity=0.259 Sum_probs=21.2
Q ss_pred hHHHHHHHhCC-CCHHHHHHHHHHHHHH
Q 022076 87 DWKKIEAFIGS-KTVIQIRSHAQKYFLK 113 (303)
Q Consensus 87 dWkkIA~~VgT-RT~~QIrSHaQKYf~k 113 (303)
-|..|+..++. -+..+|+.++++....
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 69999998885 4688899998875443
No 79
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=31.12 E-value=1.6e+02 Score=24.17 Aligned_cols=32 Identities=13% Similarity=0.230 Sum_probs=23.4
Q ss_pred cCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 022076 84 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 84 yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k 116 (303)
.|..++.||+.+|. |...|+.+..+-..++.+
T Consensus 140 ~~~~~~eIA~~lgi-s~~tv~~~~~ra~~~lr~ 171 (179)
T PRK11924 140 EGLSYREIAEILGV-PVGTVKSRLRRARQLLRE 171 (179)
T ss_pred cCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHHH
Confidence 46689999999885 577777776666666554
No 80
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=30.83 E-value=86 Score=21.34 Aligned_cols=39 Identities=13% Similarity=0.272 Sum_probs=19.9
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHH
Q 022076 70 TEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKY 110 (303)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKY 110 (303)
+.++....+..+.. |...++||+.+|- +...|....+.|
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 555665543333
No 81
>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=30.81 E-value=31 Score=26.89 Aligned_cols=19 Identities=32% Similarity=0.677 Sum_probs=15.2
Q ss_pred HHHHHHHHHcCchHHHHHH
Q 022076 75 DKFLEALQLFDRDWKKIEA 93 (303)
Q Consensus 75 ~lFLeaLe~yGrdWkkIA~ 93 (303)
.-+.+.|+.||++|.-|++
T Consensus 30 ~vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 30 PVLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHHcCCchhhhc
Confidence 3456778999999999984
No 82
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. 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),
Probab=28.54 E-value=1e+02 Score=24.39 Aligned_cols=29 Identities=28% Similarity=0.462 Sum_probs=20.5
Q ss_pred HHHHHHHHcCchHHHHHHHhCCCCHHHHHH
Q 022076 76 KFLEALQLFDRDWKKIEAFIGSKTVIQIRS 105 (303)
Q Consensus 76 lFLeaLe~yGrdWkkIA~~VgTRT~~QIrS 105 (303)
.|-.--+..|++|++++..+|- |..+|..
T Consensus 4 ~f~~i~~~lG~~Wk~laR~LGl-se~~Id~ 32 (86)
T cd08306 4 AFDVICENVGRDWRKLARKLGL-SETKIES 32 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHcCC-CHHHHHH
Confidence 3445557779999999999984 4444443
No 83
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. 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-associati
Probab=28.53 E-value=87 Score=24.33 Aligned_cols=23 Identities=17% Similarity=0.473 Sum_probs=18.1
Q ss_pred HHHHHHHHHcCchHHHHHHHhCC
Q 022076 75 DKFLEALQLFDRDWKKIEAFIGS 97 (303)
Q Consensus 75 ~lFLeaLe~yGrdWkkIA~~VgT 97 (303)
..|..--+..|++|+++|..+|-
T Consensus 5 ~~l~~ia~~lG~dW~~LAr~Lg~ 27 (84)
T cd08317 5 IRLADISNLLGSDWPQLARELGV 27 (84)
T ss_pred chHHHHHHHHhhHHHHHHHHcCC
Confidence 34555567779999999999984
No 84
>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=28.27 E-value=1.1e+02 Score=24.44 Aligned_cols=23 Identities=22% Similarity=0.447 Sum_probs=17.5
Q ss_pred HHcCchHHHHHHHhCCCCHHHHHH
Q 022076 82 QLFDRDWKKIEAFIGSKTVIQIRS 105 (303)
Q Consensus 82 e~yGrdWkkIA~~VgTRT~~QIrS 105 (303)
+..|++|+.++..+|- +..+|..
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 85
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=27.72 E-value=1e+02 Score=24.69 Aligned_cols=22 Identities=14% Similarity=0.345 Sum_probs=17.5
Q ss_pred HHHHHHHHcCchHHHHHHHhCC
Q 022076 76 KFLEALQLFDRDWKKIEAFIGS 97 (303)
Q Consensus 76 lFLeaLe~yGrdWkkIA~~VgT 97 (303)
.+..--+..|++|++++.++|-
T Consensus 4 ~L~~la~~LG~~W~~Lar~Lgl 25 (83)
T cd08319 4 ELNQLAQRLGPEWEQVLLDLGL 25 (83)
T ss_pred HHHHHHHHHhhhHHHHHHHcCC
Confidence 3445557789999999999995
No 86
>PF10561 UPF0565: Uncharacterised protein family UPF0565; InterPro: IPR018881 This family of proteins has no known function.
Probab=26.64 E-value=52 Score=32.37 Aligned_cols=30 Identities=23% Similarity=0.575 Sum_probs=26.8
Q ss_pred CCCcccccCCCCCCHHHHHHHHHHHHHcCc
Q 022076 57 RKPYTITKSRESWTEPEHDKFLEALQLFDR 86 (303)
Q Consensus 57 rkPyt~tk~r~~WT~EEh~lFLeaLe~yGr 86 (303)
-.||-..-..++|=..|+..|++.|+.+|-
T Consensus 272 ~TPyQv~D~~RpwI~~E~~~F~~~L~~~~~ 301 (303)
T PF10561_consen 272 VTPYQVSDPMRPWIGKEEKKFVKLLKKLGA 301 (303)
T ss_pred cCcccccCCCCcHHHHHHHHHHHHHHHhCC
Confidence 467888888999999999999999999984
No 87
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=26.13 E-value=75 Score=33.80 Aligned_cols=42 Identities=17% Similarity=0.215 Sum_probs=35.6
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHH
Q 022076 70 TEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFL 112 (303)
Q Consensus 70 T~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~ 112 (303)
-+.|.+++.++|++-|..|.+-|+.+|. ++.|+-+.+++|=+
T Consensus 504 ~~~eR~~I~~aL~~~~~~~a~AAr~LGl-~~~~L~~~~kRlGI 545 (550)
T COG3604 504 EEFERQLIIAALEETNGNWAGAARRLGL-TRRTLLYRMKRLGI 545 (550)
T ss_pred HHHHHHHHHHHHHHhCCcHHHHHHHhCC-CHHHHHHHHHHcCC
Confidence 3778899999999999999998899987 78888887776633
No 88
>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=25.27 E-value=41 Score=37.30 Aligned_cols=50 Identities=22% Similarity=0.400 Sum_probs=40.6
Q ss_pred CCCCcccccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhC-CCCHHHHHH
Q 022076 56 IRKPYTITKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIG-SKTVIQIRS 105 (303)
Q Consensus 56 ~rkPyt~tk~r~~WT~EEh~lFLeaLe~yGrdWkkIA~~Vg-TRT~~QIrS 105 (303)
-|++..--+-.-.|+..|-.+|+++..++|++|++.+..+. +|...++.-
T Consensus 34 qR~~~~~d~l~pq~s~~~~e~~~k~~~k~~~~~r~~~~~~~~~R~s~~vel 84 (837)
T KOG1019|consen 34 QRKRKLADKLSPQWSKLELERFYKAYRKRGREWRKSPAAVRSTRSSNMVEL 84 (837)
T ss_pred CCCcccccccCcchhHhhhhhhhhcccccccccccccccccchhhhhHHHH
Confidence 35566655567799999999999999999999999996664 588777754
No 89
>KOG4771 consensus Nucleolar protein (NOP16) involved in 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=25.16 E-value=1.4e+02 Score=27.91 Aligned_cols=49 Identities=8% Similarity=0.018 Sum_probs=33.6
Q ss_pred CCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 67 ESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 67 ~~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
..=++.||+.+-..+++||.|.+.+..-+.--+-.|--+-..+.+.+.+
T Consensus 154 l~~s~rehewi~rL~~KhGdD~e~M~~D~KLNs~q~s~~~Lk~l~~R~K 202 (210)
T KOG4771|consen 154 LTTSQREHEWIRRLVEKHGDDIEGMYRDRKLNSMQHSVATLKKLCTRYK 202 (210)
T ss_pred cchHHHHHHHHHHHHHHhchhHHHHHHhhhhhHHhhhHHHHHHHHHHHh
Confidence 3556889999999999999999999866554444444444444444443
No 90
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. 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 signaling complexes.
Probab=24.85 E-value=1.2e+02 Score=23.93 Aligned_cols=17 Identities=18% Similarity=0.505 Sum_probs=14.9
Q ss_pred HHHcCchHHHHHHHhCC
Q 022076 81 LQLFDRDWKKIEAFIGS 97 (303)
Q Consensus 81 Le~yGrdWkkIA~~VgT 97 (303)
-+..|.+|++++..+|-
T Consensus 14 a~~iG~~Wk~Lar~LGl 30 (86)
T cd08318 14 ANKLGEDWKTLAPHLEM 30 (86)
T ss_pred HHHHhhhHHHHHHHcCC
Confidence 37779999999999996
No 91
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=24.51 E-value=1.1e+02 Score=27.24 Aligned_cols=39 Identities=18% Similarity=0.241 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHH
Q 022076 68 SWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHA 107 (303)
Q Consensus 68 ~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHa 107 (303)
.||+|+.+++.+ |-.-|.--.+|++-+|..|...|.-.+
T Consensus 2 ~Wtde~~~~L~~-lw~~G~SasqIA~~lg~vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRK-LWAEGLSASQIARQLGGVSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHH-HHHcCCCHHHHHHHhCCcchhhhhhhh
Confidence 599998886554 446688899999999955555555543
No 92
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=24.27 E-value=71 Score=24.13 Aligned_cols=23 Identities=22% Similarity=0.560 Sum_probs=17.5
Q ss_pred HHHHHHHHH-cCchHHHHHHHhCC
Q 022076 75 DKFLEALQL-FDRDWKKIEAFIGS 97 (303)
Q Consensus 75 ~lFLeaLe~-yGrdWkkIA~~VgT 97 (303)
..|..-++. .|++|++++..+|-
T Consensus 6 ~~~~~l~~~~~g~~W~~la~~Lg~ 29 (88)
T smart00005 6 EKLAKLLDHPLGLDWRELARKLGL 29 (88)
T ss_pred HHHHHHHcCccchHHHHHHHHcCC
Confidence 344455555 79999999999996
No 93
>PF00191 Annexin: Annexin; InterPro: IPR018502 The annexins (or lipocortins) are a family of proteins that bind to phospholipids in a calcium-dependent manner []. They are distributed ubiquitously in different tissues and cell types of higher and lower eukaryotes, including mammals, fish, birds, Drosophila melanogaster (Fruit fly), Xenopus laevis (African clawed frog), Caenorhabditis elegans , Dictyostelium discoideum (Slime mold) and Neurospora crassa [, ]. Annexins are absent from yeasts and prokaryotes []. The plant annexins are somewhat distinct from those found in other taxa []. Most eukaryotic species have 1-20 annexin (ANX) genes. All annexins share a core domain made up of four similar repeats, each approximately 70 amino acids long []. Each individual annexin repeat (sometimes referred to as endonexin folds) is folded into five alpha-helices, and in turn are wound into a right-handed super-helix; they usually contain a characteristic 'type 2' motif for binding calcium ions with the sequence 'GxGT-[38 residues]-D/E'. Animal and fungal annexins also have variable amino-terminal domains. The core domains of most vertebrate annexins have been analysed by X-ray crystallography, revealing conservation of their secondary and tertiary structures despite only 45-55% amino-acid identity among individual members. The four repeats pack into a structure that resembles a flattened disc, with a slightly convex surface on which the Ca 2+ -binding loops are located and a concave surface at which the amino and carboxyl termini come into close apposition. Annexins are traditionally thought of as calcium-dependent phospholipid-binding proteins, but recent work suggests a more complex set of functions. The famiy has been linked with inhibition of phospholipase activity, exocytosis and endoctyosis, signal transduction, organisation of the extracellular matrix, resistance to reactive oxygen species and DNA replication [].; GO: 0005509 calcium ion binding, 0005544 calcium-dependent phospholipid binding; PDB: 1N44_A 1BC1_A 2IE6_A 2H0M_A 1A8B_A 2H0K_A 1BCW_A 1BCZ_A 1N42_A 1BC0_A ....
Probab=23.72 E-value=99 Score=22.17 Aligned_cols=41 Identities=20% Similarity=0.217 Sum_probs=32.4
Q ss_pred HHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 75 DKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 75 ~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
+++-+|++..|.|=..|-+.+.+|+..|++.=.+.|.....
T Consensus 4 ~~l~~a~~~~g~de~~li~Il~~rs~~ql~~i~~~Y~~~~g 44 (66)
T PF00191_consen 4 ELLHAALKGWGTDEDVLIEILCTRSPAQLRAIKQAYKKKYG 44 (66)
T ss_dssp HHHHHHHSSSSSTHHHHHHHHHHSTHHHHHHHHHHHHHHHS
T ss_pred HHHHHHccCCCCChhHhhhHHhhhcccccceeehhhhhhhH
Confidence 36778888889876667778889999999988887765543
No 94
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=23.05 E-value=2.7e+02 Score=24.10 Aligned_cols=31 Identities=6% Similarity=0.045 Sum_probs=21.8
Q ss_pred cCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 84 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 84 yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
.|..+++||+.+|. +...|++|...=..++.
T Consensus 149 ~g~s~~EIA~~lg~-s~~tV~~rl~rar~~Lr 179 (192)
T PRK09643 149 QGYSVADAARMLGV-AEGTVKSRCARGRARLA 179 (192)
T ss_pred cCCCHHHHHHHHCc-CHHHHHHHHHHHHHHHH
Confidence 46689999988885 67788887654444443
No 95
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=22.93 E-value=3e+02 Score=22.65 Aligned_cols=31 Identities=13% Similarity=0.201 Sum_probs=20.9
Q ss_pred cCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 84 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 84 yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
.|..++.||+.+|- +...|+.+.+.-..++.
T Consensus 143 ~~~s~~eIA~~lgi-s~~tV~~~l~ra~~~Lr 173 (182)
T PRK09652 143 EGLSYEEIAEIMGC-PIGTVRSRIFRAREALR 173 (182)
T ss_pred cCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHH
Confidence 46699999999985 66666666544444443
No 96
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=22.91 E-value=51 Score=30.19 Aligned_cols=28 Identities=18% Similarity=0.395 Sum_probs=24.9
Q ss_pred CCCCCHHHHHHHHHHHHHcCc-hHHHHHH
Q 022076 66 RESWTEPEHDKFLEALQLFDR-DWKKIEA 93 (303)
Q Consensus 66 r~~WT~EEh~lFLeaLe~yGr-dWkkIA~ 93 (303)
.+-|-.+-+..||.|+..||- +|+.|.+
T Consensus 3 ~~iw~r~hdywll~gi~~hgy~rwqdi~n 31 (173)
T PF08074_consen 3 YEIWHRRHDYWLLAGIVKHGYGRWQDIQN 31 (173)
T ss_pred hhhhhhhhhHHHHhHHhhccchhHHHHhc
Confidence 467999999999999999996 9999973
No 97
>PF06628 Catalase-rel: Catalase-related immune-responsive; InterPro: IPR010582 Catalases (1.11.1.6 from EC) are antioxidant enzymes that catalyse the conversion of hydrogen peroxide to water and molecular oxygen, serving to protect cells from its toxic effects []. Hydrogen peroxide is produced as a consequence of oxidative cellular metabolism and can be converted to the highly reactive hydroxyl radical via transition metals, this radical being able to damage a wide variety of molecules within a cell, leading to oxidative stress and cell death. Catalases act to neutralise hydrogen peroxide toxicity, and are produced by all aerobic organisms ranging from bacteria to man. Most catalases are mono-functional, haem-containing enzymes, although there are also bifunctional haem-containing peroxidase/catalases (IPR000763 from INTERPRO) that are closely related to plant peroxidases, and non-haem, manganese-containing catalases (IPR007760 from INTERPRO) that are found in bacteria []. This entry represents a small conserved region within catalase enzymes that carries the immune-responsive amphipathic octa-peptide that is recognised by T cells [].; PDB: 2CAH_A 1NM0_A 1H7K_A 1E93_A 1H6N_A 3HB6_A 2CAG_A 1M85_A 1MQF_A 1A4E_C ....
Probab=22.29 E-value=3.1e+02 Score=20.69 Aligned_cols=39 Identities=21% Similarity=0.427 Sum_probs=30.1
Q ss_pred CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 022076 68 SWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 116 (303)
Q Consensus 68 ~WT~EEh~lFLeaLe~yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~k 116 (303)
.++++|.+.|++ .|+.+++.=+..+|+..+-.||.++..
T Consensus 19 ~l~~~er~~lv~----------nia~~l~~v~~~~i~~r~l~~f~~vd~ 57 (68)
T PF06628_consen 19 VLSDEERERLVE----------NIAGHLSGVSDEEIQERVLAYFYKVDP 57 (68)
T ss_dssp HSSHHHHHHHHH----------HHHHHHTTSSHHHHHHHHHHHHHHH-H
T ss_pred HCCHHHHHHHHH----------HHHHHHccCChhhHHHHHHHHHHHhCH
Confidence 568888888874 577788776777799999999988754
No 98
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=21.44 E-value=3.6e+02 Score=21.56 Aligned_cols=31 Identities=19% Similarity=0.333 Sum_probs=22.8
Q ss_pred cCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 022076 84 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 115 (303)
Q Consensus 84 yGrdWkkIA~~VgTRT~~QIrSHaQKYf~kl~ 115 (303)
.|..+++||+.+|- +...|+++...-..++.
T Consensus 128 ~~~~~~eIA~~lgi-s~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 128 EGKSYKEIAEELGI-SVKTVEYHISKALKELR 158 (161)
T ss_pred cCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHH
Confidence 36689999988885 78888887765555554
No 99
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=20.53 E-value=79 Score=30.49 Aligned_cols=43 Identities=30% Similarity=0.446 Sum_probs=30.4
Q ss_pred HHhhhhhcccCCCc---hhHHHHhhc------------CCcchHHHHHHHHHHHhhhc
Q 022076 249 QVYTFIGSVFDPNA---SDHVQKLKK------------MDPIDVETVLLLMRNLSINL 291 (303)
Q Consensus 249 qVY~FigsvFdp~~---~~hlq~Lk~------------Mdpi~~eTvLllmrNLs~NL 291 (303)
-||.-||.+||.+. ..++.+|.+ ||--++|.-...|+.|.--|
T Consensus 75 DVYGtiG~~f~~d~~~~adYl~~l~~aA~P~~L~iEgP~d~g~r~~QI~~l~~Lr~~L 132 (248)
T PF07476_consen 75 DVYGTIGLAFDNDPDRMADYLAELEEAAAPFKLRIEGPMDAGSREAQIEALAELREEL 132 (248)
T ss_dssp E-TTHHHHHTTT-HHHHHHHHHHHHHHHTTS-EEEE-SB--SSHHHHHHHHHHHHHHH
T ss_pred EccchHHHHhCCCHHHHHHHHHHHHHhcCCCeeeeeCCcCCCChHHHHHHHHHHHHHH
Confidence 59999999999985 557887765 66667777777888877655
No 100
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=20.51 E-value=1e+02 Score=24.65 Aligned_cols=23 Identities=4% Similarity=0.134 Sum_probs=17.7
Q ss_pred HHHHHHHHHcCchHHHHHHHhCC
Q 022076 75 DKFLEALQLFDRDWKKIEAFIGS 97 (303)
Q Consensus 75 ~lFLeaLe~yGrdWkkIA~~VgT 97 (303)
..+..--...|.||+++|..+|-
T Consensus 5 ~~l~~ia~~LG~dW~~LA~eLg~ 27 (84)
T cd08803 5 IRMAIVADHLGLSWTELARELNF 27 (84)
T ss_pred HHHHHHHHHhhccHHHHHHHcCC
Confidence 34444557789999999999985
Done!