Query 032677
Match_columns 136
No_of_seqs 149 out of 675
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 04:32:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032677.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032677hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 99.5 8.9E-14 1.9E-18 111.2 8.2 74 20-135 24-98 (249)
2 PF00249 Myb_DNA-binding: Myb- 99.4 2.4E-13 5.1E-18 83.2 5.6 46 22-70 2-48 (48)
3 PLN03091 hypothetical protein; 99.4 8.9E-13 1.9E-17 112.6 7.9 73 21-135 14-87 (459)
4 PF13921 Myb_DNA-bind_6: Myb-l 99.3 6.2E-12 1.3E-16 79.7 6.7 43 24-70 1-43 (60)
5 KOG0048 Transcription factor, 99.3 1.1E-11 2.4E-16 98.6 6.9 72 21-134 9-81 (238)
6 smart00717 SANT SANT SWI3, AD 99.2 3.1E-11 6.7E-16 71.6 5.8 46 22-70 2-47 (49)
7 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.1E-10 2.3E-15 68.3 5.4 44 23-69 1-44 (45)
8 KOG0724 Zuotin and related mol 99.1 2.4E-10 5.2E-15 94.3 6.7 116 21-136 31-185 (335)
9 KOG0049 Transcription factor, 98.9 2.3E-09 5E-14 95.5 6.2 74 21-136 360-433 (939)
10 PLN03212 Transcription repress 98.6 7.1E-08 1.5E-12 77.5 5.9 47 21-71 78-124 (249)
11 PLN03091 hypothetical protein; 98.5 2.9E-07 6.4E-12 79.1 6.2 47 21-71 67-113 (459)
12 KOG0049 Transcription factor, 98.4 4.9E-07 1.1E-11 81.0 5.1 76 21-135 305-380 (939)
13 KOG0048 Transcription factor, 98.3 1.6E-06 3.4E-11 69.1 6.0 46 21-70 62-107 (238)
14 TIGR01557 myb_SHAQKYF myb-like 98.2 1.3E-06 2.7E-11 55.8 3.3 23 114-136 2-24 (57)
15 KOG0457 Histone acetyltransfer 98.1 7.9E-06 1.7E-10 70.1 6.8 58 19-84 70-127 (438)
16 TIGR01557 myb_SHAQKYF myb-like 98.0 2.8E-05 6E-10 49.5 5.6 47 21-70 3-54 (57)
17 KOG0051 RNA polymerase I termi 97.8 6.1E-05 1.3E-09 67.2 7.5 70 20-131 383-452 (607)
18 COG5259 RSC8 RSC chromatin rem 97.8 2.2E-05 4.7E-10 68.2 4.5 50 21-74 279-329 (531)
19 KOG1279 Chromatin remodeling f 97.6 0.00011 2.3E-09 64.7 5.4 55 17-75 249-304 (506)
20 COG5114 Histone acetyltransfer 97.6 0.00011 2.4E-09 61.5 5.1 59 22-88 64-122 (432)
21 KOG0050 mRNA splicing protein 97.5 0.00013 2.9E-09 64.1 5.2 48 21-71 7-54 (617)
22 PF00249 Myb_DNA-binding: Myb- 97.5 8.3E-05 1.8E-09 45.0 2.7 21 116-136 2-22 (48)
23 PF13837 Myb_DNA-bind_4: Myb/S 97.2 0.00044 9.6E-09 46.2 3.8 56 22-77 2-71 (90)
24 KOG4167 Predicted DNA-binding 97.1 0.00085 1.8E-08 61.2 5.8 47 20-70 618-664 (907)
25 COG5147 REB1 Myb superfamily p 96.9 0.00096 2.1E-08 58.8 4.3 72 21-134 20-91 (512)
26 PF13873 Myb_DNA-bind_5: Myb/S 96.9 0.0022 4.8E-08 42.1 4.8 54 22-75 3-74 (78)
27 PLN03142 Probable chromatin-re 96.8 0.0041 8.8E-08 59.0 7.4 99 22-136 825-947 (1033)
28 PF09111 SLIDE: SLIDE; InterP 96.5 0.0084 1.8E-07 43.4 5.6 56 18-73 46-113 (118)
29 smart00717 SANT SANT SWI3, AD 96.5 0.0031 6.8E-08 36.5 2.8 19 116-134 2-20 (49)
30 cd00167 SANT 'SWI3, ADA2, N-Co 96.4 0.0031 6.6E-08 36.0 2.6 18 117-134 1-18 (45)
31 KOG0050 mRNA splicing protein 96.4 0.0039 8.5E-08 55.1 4.0 45 22-71 60-104 (617)
32 COG5147 REB1 Myb superfamily p 95.9 0.012 2.6E-07 52.1 4.8 52 20-75 71-122 (512)
33 PF12776 Myb_DNA-bind_3: Myb/S 95.1 0.07 1.5E-06 35.9 5.4 54 23-76 1-68 (96)
34 KOG1194 Predicted DNA-binding 95.1 0.038 8.2E-07 48.4 4.8 45 21-69 187-231 (534)
35 COG5118 BDP1 Transcription ini 94.7 0.083 1.8E-06 45.5 5.8 46 20-69 364-409 (507)
36 TIGR02894 DNA_bind_RsfA transc 93.6 0.093 2E-06 40.0 3.7 49 22-71 5-56 (161)
37 PF08914 Myb_DNA-bind_2: Rap1 93.5 0.22 4.8E-06 32.3 4.9 49 22-70 3-57 (65)
38 KOG4329 DNA-binding protein [G 92.2 0.12 2.7E-06 44.2 2.8 24 113-136 275-298 (445)
39 PRK13923 putative spore coat p 91.9 0.25 5.3E-06 38.0 3.9 49 21-70 5-56 (170)
40 PF13325 MCRS_N: N-terminal re 91.7 0.66 1.4E-05 36.5 6.2 45 23-72 1-48 (199)
41 smart00595 MADF subfamily of S 91.0 0.27 5.8E-06 32.6 3.0 25 46-71 29-53 (89)
42 KOG0051 RNA polymerase I termi 90.5 0.47 1E-05 42.9 4.8 53 19-71 434-508 (607)
43 KOG4282 Transcription factor G 89.2 1.3 2.9E-05 36.7 6.4 56 21-76 54-119 (345)
44 KOG4329 DNA-binding protein [G 88.9 0.75 1.6E-05 39.6 4.7 47 20-69 276-322 (445)
45 KOG2656 DNA methyltransferase 87.1 0.45 9.7E-06 41.1 2.3 50 22-75 131-186 (445)
46 KOG4468 Polycomb-group transcr 86.8 1.9 4.2E-05 39.3 6.1 50 22-75 89-148 (782)
47 PF13404 HTH_AsnC-type: AsnC-t 83.6 3.5 7.6E-05 24.2 4.4 37 29-69 5-41 (42)
48 PF09111 SLIDE: SLIDE; InterP 82.1 1.5 3.2E-05 31.7 2.8 22 114-135 48-69 (118)
49 PF10545 MADF_DNA_bdg: Alcohol 81.3 2.4 5.2E-05 27.1 3.4 28 46-73 28-56 (85)
50 KOG3554 Histone deacetylase co 80.4 1.1 2.4E-05 39.8 1.9 24 113-136 283-306 (693)
51 cd00086 homeodomain Homeodomai 80.1 10 0.00022 22.5 6.1 48 21-69 4-51 (59)
52 PF11035 SnAPC_2_like: Small n 79.6 8.7 0.00019 32.5 6.9 53 21-74 21-74 (344)
53 KOG2009 Transcription initiati 79.0 1.9 4.2E-05 38.9 3.1 45 20-68 408-452 (584)
54 KOG0385 Chromatin remodeling c 79.0 8.9 0.00019 36.3 7.3 103 22-135 796-915 (971)
55 KOG3554 Histone deacetylase co 77.6 2.8 6.1E-05 37.3 3.6 45 22-69 286-330 (693)
56 PF00046 Homeobox: Homeobox do 77.5 9.1 0.0002 22.9 5.0 47 21-68 4-50 (57)
57 PLN03142 Probable chromatin-re 76.1 8.1 0.00018 37.3 6.4 51 21-74 926-988 (1033)
58 PF11626 Rap1_C: TRF2-interact 75.4 3.4 7.3E-05 27.9 2.8 16 18-33 44-59 (87)
59 smart00389 HOX Homeodomain. DN 72.5 17 0.00037 21.4 6.0 46 22-68 5-50 (56)
60 KOG3841 TEF-1 and related tran 69.7 13 0.00028 32.3 5.6 61 20-80 75-153 (455)
61 PF00674 DUP: DUP family; Int 66.6 6.8 0.00015 27.3 2.9 42 29-70 44-99 (108)
62 PF05263 DUF722: Protein of un 63.9 20 0.00043 26.4 5.0 29 45-74 100-128 (130)
63 PRK11179 DNA-binding transcrip 63.9 23 0.00049 25.9 5.4 41 27-71 9-49 (153)
64 PF13325 MCRS_N: N-terminal re 61.2 31 0.00067 27.2 5.9 53 18-71 70-127 (199)
65 PRK11169 leucine-responsive tr 59.3 25 0.00054 26.0 4.9 40 28-71 15-54 (164)
66 PF04504 DUF573: Protein of un 56.5 63 0.0014 22.3 7.6 51 21-71 4-63 (98)
67 PLN03162 golden-2 like transcr 56.4 14 0.00031 32.1 3.5 24 111-134 233-256 (526)
68 KOG1279 Chromatin remodeling f 56.1 9.6 0.00021 34.0 2.5 20 115-134 253-272 (506)
69 KOG0457 Histone acetyltransfer 52.7 12 0.00026 32.8 2.5 21 116-136 73-93 (438)
70 PF04545 Sigma70_r4: Sigma-70, 52.2 46 0.001 19.4 5.5 43 25-73 6-48 (50)
71 PF07750 GcrA: GcrA cell cycle 51.2 25 0.00054 26.5 3.8 42 23-69 2-43 (162)
72 cd08307 Death_Pelle Death doma 48.7 16 0.00034 25.5 2.2 20 44-63 21-40 (97)
73 KOG1194 Predicted DNA-binding 46.6 13 0.00028 33.0 1.8 44 21-69 470-513 (534)
74 COG5259 RSC8 RSC chromatin rem 44.2 17 0.00037 32.4 2.2 20 116-135 280-299 (531)
75 COG5269 ZUO1 Ribosome-associat 44.0 28 0.0006 29.3 3.3 49 21-69 245-299 (379)
76 smart00501 BRIGHT BRIGHT, ARID 42.7 77 0.0017 21.1 4.9 44 28-71 33-85 (93)
77 smart00344 HTH_ASNC helix_turn 42.4 89 0.0019 20.9 5.2 41 27-71 3-43 (108)
78 PF14775 NYD-SP28_assoc: Sperm 40.0 44 0.00096 21.2 3.1 31 46-76 2-38 (60)
79 PRK15372 pathogenicity island 38.9 34 0.00074 28.2 3.0 16 56-71 32-47 (292)
80 PF10561 UPF0565: Uncharacteri 38.1 31 0.00068 28.8 2.8 27 109-135 275-301 (303)
81 PF01466 Skp1: Skp1 family, di 37.8 29 0.00063 22.7 2.1 21 47-67 36-56 (78)
82 KOG2251 Homeobox transcription 37.6 48 0.001 26.7 3.6 40 21-62 41-83 (228)
83 COG1522 Lrp Transcriptional re 36.7 42 0.00091 23.9 3.0 39 29-71 10-48 (154)
84 PF06461 DUF1086: Domain of Un 35.8 74 0.0016 23.9 4.2 46 23-70 40-85 (145)
85 PF12451 VPS11_C: Vacuolar pro 34.5 27 0.0006 21.1 1.4 28 26-58 18-45 (49)
86 smart00426 TEA TEA domain. 31.3 53 0.0011 21.6 2.5 20 116-135 4-23 (68)
87 PF00196 GerE: Bacterial regul 30.1 1E+02 0.0023 18.4 3.6 41 24-71 4-44 (58)
88 COG4281 ACB Acyl-CoA-binding p 29.6 97 0.0021 21.1 3.6 28 47-75 56-83 (87)
89 COG1549 Queuine tRNA-ribosyltr 29.1 33 0.00073 30.7 1.6 46 21-71 303-348 (519)
90 PF01285 TEA: TEA/ATTS domain 29.0 66 0.0014 28.2 3.4 51 19-69 47-112 (431)
91 KOG4468 Polycomb-group transcr 29.0 40 0.00087 31.1 2.1 21 116-136 89-109 (782)
92 PF01388 ARID: ARID/BRIGHT DNA 28.7 93 0.002 20.4 3.5 42 30-71 39-89 (92)
93 KOG3698 Hyaluronoglucosaminida 28.6 51 0.0011 30.5 2.7 26 110-135 22-47 (891)
94 PF04282 DUF438: Family of unk 27.6 52 0.0011 21.7 2.0 21 55-75 11-31 (71)
95 smart00386 HAT HAT (Half-A-TPR 26.1 94 0.002 15.2 2.8 24 29-53 7-30 (33)
96 PTZ00458 acyl CoA binding prot 25.9 96 0.0021 21.2 3.1 21 54-74 63-83 (90)
97 KOG4559 Uncharacterized conser 25.5 2E+02 0.0043 20.6 4.7 48 25-78 49-100 (120)
98 PF14164 YqzH: YqzH-like prote 25.5 41 0.00089 21.9 1.2 27 29-55 7-39 (64)
99 PRK04654 sec-independent trans 25.5 99 0.0022 24.7 3.5 39 31-73 12-50 (214)
100 PRK11924 RNA polymerase sigma 25.5 2.2E+02 0.0047 20.1 5.2 46 28-74 115-170 (179)
101 PF00887 ACBP: Acyl CoA bindin 25.4 74 0.0016 21.0 2.5 21 54-74 63-83 (87)
102 PF05491 RuvB_C: Holliday junc 25.4 94 0.002 20.8 2.9 42 25-67 7-50 (76)
103 cd00435 ACBP Acyl CoA binding 25.0 1E+02 0.0022 20.6 3.1 21 54-74 61-81 (85)
104 PRK03906 mannonate dehydratase 24.9 81 0.0018 27.1 3.2 50 20-74 36-93 (385)
105 PF14003 YlbE: YlbE-like prote 23.7 90 0.002 20.3 2.5 29 26-54 22-51 (65)
106 PF08672 APC2: Anaphase promot 23.5 99 0.0021 19.5 2.7 21 115-135 30-50 (60)
107 TIGR00695 uxuA mannonate dehyd 22.6 1.3E+02 0.0029 26.0 4.0 50 20-74 36-93 (394)
108 COG4387 Mu-like prophage prote 22.2 1.9E+02 0.0041 21.4 4.2 31 56-86 80-110 (139)
109 PF02954 HTH_8: Bacterial regu 21.8 1.7E+02 0.0037 16.6 4.2 34 28-66 6-39 (42)
110 PF12324 HTH_15: Helix-turn-he 21.3 84 0.0018 21.1 2.1 40 29-69 23-62 (77)
111 KOG0488 Transcription factor B 21.3 1.8E+02 0.0038 24.3 4.4 47 20-68 175-222 (309)
112 PLN03162 golden-2 like transcr 21.3 4.4E+02 0.0095 23.2 6.8 49 22-71 238-288 (526)
113 PF05524 PEP-utilisers_N: PEP- 20.8 57 0.0012 22.7 1.2 45 25-74 33-81 (123)
114 PF07030 DUF1320: Protein of u 20.6 1.9E+02 0.0041 20.6 4.0 28 59-86 84-111 (130)
115 PRK09646 RNA polymerase sigma 20.1 3.1E+02 0.0067 20.2 5.3 49 25-74 129-187 (194)
116 PRK15387 E3 ubiquitin-protein 20.0 1E+02 0.0022 29.1 3.0 16 56-71 62-77 (788)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.49 E-value=8.9e-14 Score=111.23 Aligned_cols=74 Identities=19% Similarity=0.308 Sum_probs=64.1
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhC-CCCCHHHHHHHHHHHHHhHhhhccCCccCCCCCCCCCCCCCCcc
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQL-PGKSAVEVREHYEALVHDVYEIDSGRVELPSYADDSDWDSPSQI 98 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~v-pgrt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~~~~~~s~~~~ 98 (136)
..++||+|||++|..++++|+. .+|..||..+ |+||.+||++||.+.+. |..
T Consensus 24 KRg~WT~EEDe~L~~lV~kyG~---~nW~~IAk~~g~gRT~KQCReRW~N~L~------------P~I------------ 76 (249)
T PLN03212 24 KRGPWTVEEDEILVSFIKKEGE---GRWRSLPKRAGLLRCGKSCRLRWMNYLR------------PSV------------ 76 (249)
T ss_pred cCCCCCHHHHHHHHHHHHHhCc---ccHHHHHHhhhcCCCcchHHHHHHHhhc------------hhc------------
Confidence 3578999999999999999985 4799999998 59999999999999984 222
Q ss_pred CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhCC
Q 032677 99 SFAPKSTKHGDPERKKGTPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 99 ~~~~k~~~~~~~erkkg~pWTeeEhrlfL~gL~kyGK 135 (136)
++ .+||+||+.++|....+||.
T Consensus 77 --------------~k-gpWT~EED~lLlel~~~~Gn 98 (249)
T PLN03212 77 --------------KR-GGITSDEEDLILRLHRLLGN 98 (249)
T ss_pred --------------cc-CCCChHHHHHHHHHHHhccc
Confidence 22 58999999999999999985
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=99.44 E-value=2.4e-13 Score=83.17 Aligned_cols=46 Identities=30% Similarity=0.724 Sum_probs=41.2
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCC-CCCHHHHHHHHHHHH
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQLP-GKSAVEVREHYEALV 70 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vp-grt~~qv~~ry~~l~ 70 (136)
+.||.||+.+|..||.+|+.+ +|..||..|| |||..||+.||..++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~---~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKD---NWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTT---HHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhCCc---HHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 579999999999999999963 7999999999 999999999999874
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.39 E-value=8.9e-13 Score=112.59 Aligned_cols=73 Identities=14% Similarity=0.317 Sum_probs=63.4
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCC-CCCHHHHHHHHHHHHHhHhhhccCCccCCCCCCCCCCCCCCccC
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLP-GKSAVEVREHYEALVHDVYEIDSGRVELPSYADDSDWDSPSQIS 99 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vp-grt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~~~~~~s~~~~~ 99 (136)
.+.||.|||++|..+|.+|+. ..|..||..++ |||.+||++||.+.+. |.
T Consensus 14 Kg~WTpEEDe~L~~~V~kyG~---~nWs~IAk~~g~gRT~KQCRERW~NyLd------------P~-------------- 64 (459)
T PLN03091 14 KGLWSPEEDEKLLRHITKYGH---GCWSSVPKQAGLQRCGKSCRLRWINYLR------------PD-------------- 64 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhCc---CCHHHHhhhhccCcCcchHhHHHHhccC------------Cc--------------
Confidence 467999999999999999986 47999999885 8999999999999884 21
Q ss_pred CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhCC
Q 032677 100 FAPKSTKHGDPERKKGTPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 100 ~~~k~~~~~~~erkkg~pWTeeEhrlfL~gL~kyGK 135 (136)
.++ .+||.||+++||...++||.
T Consensus 65 ------------IkK-gpWT~EED~lLLeL~k~~Gn 87 (459)
T PLN03091 65 ------------LKR-GTFSQQEENLIIELHAVLGN 87 (459)
T ss_pred ------------ccC-CCCCHHHHHHHHHHHHHhCc
Confidence 223 58999999999999999995
No 4
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.32 E-value=6.2e-12 Score=79.67 Aligned_cols=43 Identities=23% Similarity=0.594 Sum_probs=37.0
Q ss_pred CCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHH
Q 032677 24 WNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALV 70 (136)
Q Consensus 24 WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~ 70 (136)
||.|||.+|..++..|+. .|..||..||.||..+|+.||...+
T Consensus 1 WT~eEd~~L~~~~~~~g~----~W~~Ia~~l~~Rt~~~~~~r~~~~l 43 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN----DWKKIAEHLGNRTPKQCRNRWRNHL 43 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-----HHHHHHHSTTS-HHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCc----CHHHHHHHHCcCCHHHHHHHHHHHC
Confidence 999999999999999973 6999999996699999999999944
No 5
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.26 E-value=1.1e-11 Score=98.62 Aligned_cols=72 Identities=14% Similarity=0.237 Sum_probs=64.1
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCC-CCCHHHHHHHHHHHHHhHhhhccCCccCCCCCCCCCCCCCCccC
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLP-GKSAVEVREHYEALVHDVYEIDSGRVELPSYADDSDWDSPSQIS 99 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vp-grt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~~~~~~s~~~~~ 99 (136)
.++||.|||.+|...|.+|+++ +|..||..+| +|+.++||.||.+.+. |+
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~---~W~~i~k~~gl~R~GKSCRlRW~NyLr------------P~-------------- 59 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKH---NGTALPKLAGLRRCGKSCRLRWTNYLR------------PD-------------- 59 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCC---CcchhhhhcCCCccchHHHHHhhcccC------------CC--------------
Confidence 4899999999999999999964 8999999999 9999999999999884 21
Q ss_pred CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhC
Q 032677 100 FAPKSTKHGDPERKKGTPWTEEEHKLFLIGLKKIR 134 (136)
Q Consensus 100 ~~~k~~~~~~~erkkg~pWTeeEhrlfL~gL~kyG 134 (136)
.++ .+||+||.++.+.+..+||
T Consensus 60 ------------ikr-g~fT~eEe~~Ii~lH~~~G 81 (238)
T KOG0048|consen 60 ------------LKR-GNFSDEEEDLIIKLHALLG 81 (238)
T ss_pred ------------ccC-CCCCHHHHHHHHHHHHHHC
Confidence 222 5799999999999999998
No 6
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.22 E-value=3.1e-11 Score=71.60 Aligned_cols=46 Identities=33% Similarity=0.752 Sum_probs=42.7
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHH
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALV 70 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~ 70 (136)
..||.+|+.+|..+++.|+. .+|..||..||+||..+|+.||..++
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~---~~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGK---NNWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCc---CCHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 57999999999999999984 37999999999999999999999875
No 7
>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=1.1e-10 Score=68.33 Aligned_cols=44 Identities=34% Similarity=0.778 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 23 HWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 23 ~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
.||.+|+++|..++..|+. .+|..||..||+||..||+.||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~---~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK---NNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc---CCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 5999999999999999984 4799999999999999999999876
No 8
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.08 E-value=2.4e-10 Score=94.29 Aligned_cols=116 Identities=36% Similarity=0.537 Sum_probs=90.9
Q ss_pred CCCCCHHHHHHHHHHHhhCCCC----CChHHHHHHHhCCC-CCHHHHHHHHHHHHHhHhhhccCCccCCCCCCCC-----
Q 032677 21 STHWNRSEDKLFEHALVMFPEE----SPDRWQKIASQLPG-KSAVEVREHYEALVHDVYEIDSGRVELPSYADDS----- 90 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~----~~~rW~~IA~~vpg-rt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~~~----- 90 (136)
...|+.++.+.|++||+.+... ++++|+++++.+|+ .+..+++.+|..++.+|..|+++.++||.|....
T Consensus 31 ~~~~~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~~~~~~~~ 110 (335)
T KOG0724|consen 31 LSLWTEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGKSDTSLAE 110 (335)
T ss_pred hhhhHHHHHHHHHHHHHHHhccccccchhhhhHHHhcCccccccchhHHhhhhhHHHHhhhhccCCCccccCcccccccc
Confidence 3569999999999999999864 78999999999999 9999999999999999999999999999997631
Q ss_pred ------CCC---CCCcc-CC--------CCCC-----------CCCCCCCCCCCCCCCHHHHHHHHHHHHhhCCC
Q 032677 91 ------DWD---SPSQI-SF--------APKS-----------TKHGDPERKKGTPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 91 ------~~~---s~~~~-~~--------~~k~-----------~~~~~~erkkg~pWTeeEhrlfL~gL~kyGKG 136 (136)
.|. +..+. .. ..+. +......++++++|++.+|++|+.++.+||++
T Consensus 111 ~~~~~~~~~~~k~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 185 (335)
T KOG0724|consen 111 VEEFYNFWPKFKSWRQYPQKDEPDEEDSENRSQSRYSGGTQRGKSNAEELRRKGTPVTERERKLVLLALKKDGKI 185 (335)
T ss_pred ccccCCccccccccccCCCCCCcccccccchhhhhhcccccccccchhhhhhccchhHHHHHHHHHhhhcccccc
Confidence 010 00000 00 0110 01124566888999999999999999999985
No 9
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.90 E-value=2.3e-09 Score=95.52 Aligned_cols=74 Identities=26% Similarity=0.512 Sum_probs=65.5
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHhhhccCCccCCCCCCCCCCCCCCccCC
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDVYEIDSGRVELPSYADDSDWDSPSQISF 100 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~~~~~~s~~~~~~ 100 (136)
-+.||.+||.+|-.|+++|++ ..|-+|-+.|||||..||++||.+.+.-
T Consensus 360 hg~wt~~ED~~L~~AV~~Yg~---kdw~k~R~~vPnRSdsQcR~RY~nvL~~---------------------------- 408 (939)
T KOG0049|consen 360 HGRWTDQEDVLLVCAVSRYGA---KDWAKVRQAVPNRSDSQCRERYTNVLNR---------------------------- 408 (939)
T ss_pred CCCCCCHHHHHHHHHHHHhCc---cchhhHHHhcCCccHHHHHHHHHHHHHH----------------------------
Confidence 468999999999999999997 4799999999999999999999999850
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhCCC
Q 032677 101 APKSTKHGDPERKKGTPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 101 ~~k~~~~~~~erkkg~pWTeeEhrlfL~gL~kyGKG 136 (136)
+-|...||-.|+.+|+..+++||+|
T Consensus 409 -----------s~K~~rW~l~edeqL~~~V~~YG~g 433 (939)
T KOG0049|consen 409 -----------SAKVERWTLVEDEQLLYAVKVYGKG 433 (939)
T ss_pred -----------hhccCceeecchHHHHHHHHHHccc
Confidence 1122459999999999999999997
No 10
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.62 E-value=7.1e-08 Score=77.52 Aligned_cols=47 Identities=19% Similarity=0.449 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
.++||.|||.+|..++..|+. +|..||..|||||..+|+.||..++.
T Consensus 78 kgpWT~EED~lLlel~~~~Gn----KWs~IAk~LpGRTDnqIKNRWns~Lr 124 (249)
T PLN03212 78 RGGITSDEEDLILRLHRLLGN----RWSLIAGRIPGRTDNEIKNYWNTHLR 124 (249)
T ss_pred cCCCChHHHHHHHHHHHhccc----cHHHHHhhcCCCCHHHHHHHHHHHHh
Confidence 468999999999999999984 89999999999999999999998874
No 11
>PLN03091 hypothetical protein; Provisional
Probab=98.47 E-value=2.9e-07 Score=79.11 Aligned_cols=47 Identities=23% Similarity=0.571 Sum_probs=43.5
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
.++||.|||.+|..+++.|+. +|.+||..|||||..+|+.||..++.
T Consensus 67 KgpWT~EED~lLLeL~k~~Gn----KWskIAk~LPGRTDnqIKNRWnslLK 113 (459)
T PLN03091 67 RGTFSQQEENLIIELHAVLGN----RWSQIAAQLPGRTDNEIKNLWNSCLK 113 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhCc----chHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 468999999999999999984 89999999999999999999998765
No 12
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.36 E-value=4.9e-07 Score=80.97 Aligned_cols=76 Identities=20% Similarity=0.469 Sum_probs=66.0
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHhhhccCCccCCCCCCCCCCCCCCccCC
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDVYEIDSGRVELPSYADDSDWDSPSQISF 100 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~~~~~~s~~~~~~ 100 (136)
...||+|||.+|..++..-..++--.|.+|-..||||+..|+|-||-..++ |+
T Consensus 305 ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~Ld------------Ps--------------- 357 (939)
T KOG0049|consen 305 EKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLD------------PS--------------- 357 (939)
T ss_pred hhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccC------------cc---------------
Confidence 378999999999999888777777789999999999999999999998874 22
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhCC
Q 032677 101 APKSTKHGDPERKKGTPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 101 ~~k~~~~~~~erkkg~pWTeeEhrlfL~gL~kyGK 135 (136)
.++ .+||.+|+-+|+.|+.+||-
T Consensus 358 -----------ikh-g~wt~~ED~~L~~AV~~Yg~ 380 (939)
T KOG0049|consen 358 -----------VKH-GRWTDQEDVLLVCAVSRYGA 380 (939)
T ss_pred -----------ccC-CCCCCHHHHHHHHHHHHhCc
Confidence 223 57999999999999999983
No 13
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.29 E-value=1.6e-06 Score=69.06 Aligned_cols=46 Identities=26% Similarity=0.607 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALV 70 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~ 70 (136)
.+.||.||+.++..|-+.++ +||..||..|||||..+|+.+|.-.+
T Consensus 62 rg~fT~eEe~~Ii~lH~~~G----NrWs~IA~~LPGRTDNeIKN~Wnt~l 107 (238)
T KOG0048|consen 62 RGNFSDEEEDLIIKLHALLG----NRWSLIAGRLPGRTDNEVKNHWNTHL 107 (238)
T ss_pred CCCCCHHHHHHHHHHHHHHC----cHHHHHHhhCCCcCHHHHHHHHHHHH
Confidence 57899999999999999998 58999999999999999999997665
No 14
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.22 E-value=1.3e-06 Score=55.76 Aligned_cols=23 Identities=30% Similarity=0.528 Sum_probs=21.0
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCC
Q 032677 114 KGTPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 114 kg~pWTeeEhrlfL~gL~kyGKG 136 (136)
++..||+|||+.||.||+.||.|
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g 24 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGP 24 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCC
Confidence 45789999999999999999986
No 15
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.11 E-value=7.9e-06 Score=70.09 Aligned_cols=58 Identities=28% Similarity=0.458 Sum_probs=49.8
Q ss_pred CCCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHhhhccCCccCC
Q 032677 19 THSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDVYEIDSGRVELP 84 (136)
Q Consensus 19 ~~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~~ie~g~v~~p 84 (136)
.....||.+|.-+|..|+..|+-| +|+.||.+|+.||.++|++||.+.. |++-..++|
T Consensus 70 i~~~~WtadEEilLLea~~t~G~G---NW~dIA~hIGtKtkeeck~hy~k~f-----v~s~~~~~~ 127 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFG---NWQDIADHIGTKTKEECKEHYLKHF-----VNSPIFPLP 127 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCC---cHHHHHHHHcccchHHHHHHHHHHH-----hcCcccccc
Confidence 345679999999999999999976 8999999998899999999999975 345566666
No 16
>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=97.95 E-value=2.8e-05 Score=49.54 Aligned_cols=47 Identities=15% Similarity=0.304 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHH---HHHHHhCC-CC-CHHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRW---QKIASQLP-GK-SAVEVREHYEALV 70 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW---~~IA~~vp-gr-t~~qv~~ry~~l~ 70 (136)
.-.||.||...|..||..|+.+ .| ..|++.|. .+ |..||+.|+....
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g---~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGP---DWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCC---cccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3569999999999999999864 59 99999885 35 9999999998764
No 17
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.83 E-value=6.1e-05 Score=67.19 Aligned_cols=70 Identities=19% Similarity=0.510 Sum_probs=59.5
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHhhhccCCccCCCCCCCCCCCCCCccC
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDVYEIDSGRVELPSYADDSDWDSPSQIS 99 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~~~~~~s~~~~~ 99 (136)
..+.||+||++.|......++. +|..|+..| ||.+..|++||..++.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~----~W~~Ig~~l-gr~P~~crd~wr~~~~---------------------------- 429 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN----DWKEIGKAL-GRMPMDCRDRWRQYVK---------------------------- 429 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc----cHHHHHHHH-ccCcHHHHHHHHHhhc----------------------------
Confidence 6889999999999999999974 799999999 9999999999999883
Q ss_pred CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH
Q 032677 100 FAPKSTKHGDPERKKGTPWTEEEHKLFLIGLK 131 (136)
Q Consensus 100 ~~~k~~~~~~~erkkg~pWTeeEhrlfL~gL~ 131 (136)
.+. .++..+||-||-++||..+.
T Consensus 430 ~g~---------~~~r~~Ws~eEe~~Llk~V~ 452 (607)
T KOG0051|consen 430 CGS---------KRNRGAWSIEEEEKLLKTVN 452 (607)
T ss_pred ccc---------ccccCcchHHHHHHHHHHHH
Confidence 010 12336899999999998875
No 18
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.82 E-value=2.2e-05 Score=68.17 Aligned_cols=50 Identities=26% Similarity=0.555 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH-HHhHh
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL-VHDVY 74 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l-~~dv~ 74 (136)
...||.+|.-+|-.+|..|+. .|.+||.+|..||++||+.||-.| .+|-.
T Consensus 279 dk~WS~qE~~LLLEGIe~ygD----dW~kVA~HVgtKt~EqCIl~FL~LPieD~~ 329 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGD----DWDKVARHVGTKTKEQCILHFLQLPIEDNY 329 (531)
T ss_pred cccccHHHHHHHHHHHHHhhh----hHHHHHHHhCCCCHHHHHHHHHcCCcchhh
Confidence 458999999999999999984 799999999999999999999988 44443
No 19
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.59 E-value=0.00011 Score=64.68 Aligned_cols=55 Identities=24% Similarity=0.462 Sum_probs=47.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH-HHhHhh
Q 032677 17 AMTHSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL-VHDVYE 75 (136)
Q Consensus 17 ~~~~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l-~~dv~~ 75 (136)
..+....||..|.-+|-.+|.+|+. .|.+||.+|..||..||+.|+..| .+|-..
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~d----dW~kVa~hVg~ks~eqCI~kFL~LPieD~~l 304 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGD----DWNKVADHVGTKSQEQCILKFLRLPIEDPYL 304 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhcc----cHHHHHhccCCCCHHHHHHHHHhcCccchhh
Confidence 4556788999999999999999984 799999999999999999999998 555443
No 20
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.58 E-value=0.00011 Score=61.48 Aligned_cols=59 Identities=22% Similarity=0.425 Sum_probs=52.3
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHhhhccCCccCCCCCC
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDVYEIDSGRVELPSYAD 88 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~ 88 (136)
..|+.+|.-+|..++...+-| +|+-||..|+.|+.++|+.||-++. +||..+|+|....
T Consensus 64 e~WgadEEllli~~~~TlGlG---NW~dIadyiGsr~kee~k~HylK~y-----~es~~ypl~~i~~ 122 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLG---NWEDIADYIGSRAKEEIKSHYLKMY-----DESKYYPLPDITQ 122 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCC---cHHHHHHHHhhhhhHHHHHHHHHHH-----hhccccccccccc
Confidence 569999999999999999875 8999999998899999999999876 5788888887643
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.54 E-value=0.00013 Score=64.10 Aligned_cols=48 Identities=25% Similarity=0.595 Sum_probs=44.6
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
++.|+.-||..|..++.+|+. ..|.+||+.++-+|++||..||.+.++
T Consensus 7 ggvwrntEdeilkaav~kyg~---nqws~i~sll~~kt~rqC~~rw~e~ld 54 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKYGK---NQWSRIASLLNRKTARQCKARWEEWLD 54 (617)
T ss_pred cceecccHHHHHHHHHHHcch---HHHHHHHHHHhhcchhHHHHHHHHHhC
Confidence 578999999999999999996 589999999999999999999998874
No 22
>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=97.52 E-value=8.3e-05 Score=45.00 Aligned_cols=21 Identities=43% Similarity=0.721 Sum_probs=18.1
Q ss_pred CCCCHHHHHHHHHHHHhhCCC
Q 032677 116 TPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 116 ~pWTeeEhrlfL~gL~kyGKG 136 (136)
.+||+||+.+|+.|+.+||++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~ 22 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKD 22 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTT
T ss_pred CCCCHHHHHHHHHHHHHhCCc
Confidence 479999999999999999975
No 23
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.22 E-value=0.00044 Score=46.20 Aligned_cols=56 Identities=21% Similarity=0.455 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHHHhh------CC--CCC-C-hHHHHHHHhCC----CCCHHHHHHHHHHHHHhHhhhc
Q 032677 22 THWNRSEDKLFEHALVM------FP--EES-P-DRWQKIASQLP----GKSAVEVREHYEALVHDVYEID 77 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~------~~--~~~-~-~rW~~IA~~vp----grt~~qv~~ry~~l~~dv~~ie 77 (136)
..||.+|..+|..++.. |. ... . .-|+.||..|- .||+.||+.+|++|....+.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k 71 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIK 71 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 46999999999999887 21 111 2 36999999984 5999999999999998777543
No 24
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=97.14 E-value=0.00085 Score=61.19 Aligned_cols=47 Identities=23% Similarity=0.388 Sum_probs=41.2
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHH
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALV 70 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~ 70 (136)
.+..||..|.++|.+||..|.. ....|+..|++||+.||.+-|-.-.
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~K----DF~~v~km~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYSK----DFIFVQKMVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred CcccccHHHHHHHHHHHHHhcc----cHHHHHHHhccccHHHHHHHHHHHH
Confidence 4567999999999999999975 5899999999999999998875443
No 25
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=96.95 E-value=0.00096 Score=58.84 Aligned_cols=72 Identities=22% Similarity=0.446 Sum_probs=58.2
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHhhhccCCccCCCCCCCCCCCCCCccCC
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDVYEIDSGRVELPSYADDSDWDSPSQISF 100 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~~ie~g~v~~p~~~~~~~~~s~~~~~~ 100 (136)
.+.|+..||..|..++..|+. ..|.+||+.++-++.+||+.||.+.++ |.+
T Consensus 20 ~gsw~~~EDe~l~~~vk~l~~---nnws~vas~~~~~~~kq~~~rw~~~ln------------p~l-------------- 70 (512)
T COG5147 20 GGSWKRTEDEDLKALVKKLGP---NNWSKVASLLISSTGKQSSNRWNNHLN------------PQL-------------- 70 (512)
T ss_pred CCCCCCcchhHHHHHHhhccc---ccHHHHHHHhcccccccccchhhhhhc------------hhc--------------
Confidence 347999999999999998874 569999999988999999999976653 211
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhC
Q 032677 101 APKSTKHGDPERKKGTPWTEEEHKLFLIGLKKIR 134 (136)
Q Consensus 101 ~~k~~~~~~~erkkg~pWTeeEhrlfL~gL~kyG 134 (136)
+ -..||++|++.++..-..+|
T Consensus 71 ------------k-~~~~~~eed~~li~l~~~~~ 91 (512)
T COG5147 71 ------------K-KKNWSEEEDEQLIDLDKELG 91 (512)
T ss_pred ------------c-cccccHHHHHHHHHHHHhcC
Confidence 1 25699999999888776665
No 26
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.90 E-value=0.0022 Score=42.13 Aligned_cols=54 Identities=15% Similarity=0.361 Sum_probs=43.9
Q ss_pred CCCCHHHHHHHHHHHhhCCC---C--C--------ChHHHHHHHhCC-----CCCHHHHHHHHHHHHHhHhh
Q 032677 22 THWNRSEDKLFEHALVMFPE---E--S--------PDRWQKIASQLP-----GKSAVEVREHYEALVHDVYE 75 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~---~--~--------~~rW~~IA~~vp-----grt~~qv~~ry~~l~~dv~~ 75 (136)
..||.+|..+|...|.+|+. + . ..-|+.||+.|. .||..||+..|.+|...++.
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 57999999999999999863 1 1 233999999882 49999999999999876653
No 27
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.80 E-value=0.0041 Score=59.02 Aligned_cols=99 Identities=23% Similarity=0.455 Sum_probs=64.6
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH------h----HhhhccCCccCC-------
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH------D----VYEIDSGRVELP------- 84 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~------d----v~~ie~g~v~~p------- 84 (136)
..||.-|-..|.+|..+|+. +.-+.||..|.|||..+|+.-++..-+ | +..||.|--.+-
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr---~~~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~ 901 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGR---NDIKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMK 901 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCH---hHHHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56999999999999999996 478999999999999999754333322 1 334554421110
Q ss_pred -------CCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhCCC
Q 032677 85 -------SYADDSDWDSPSQISFAPKSTKHGDPERKKGTPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 85 -------~~~~~~~~~s~~~~~~~~k~~~~~~~erkkg~pWTeeEhrlfL~gL~kyGKG 136 (136)
.|.. .| .+..+. - . ..++..+|+||+|.+|..|.+||=|
T Consensus 902 ~~~~k~~~~~~--p~---~~l~~~------~-~-~~~~~~~~~~~d~~~~~~~~~~g~~ 947 (1033)
T PLN03142 902 AIGKKLDRYKN--PW---LELKIQ------Y-G-QNKGKLYNEECDRFMLCMVHKLGYG 947 (1033)
T ss_pred HHHHHHHHccC--cH---HHceee------c-C-CCCCCcCCHHHHHHHHHHHHHhccc
Confidence 0000 00 000000 0 0 2345679999999999999999943
No 28
>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=96.47 E-value=0.0084 Score=43.40 Aligned_cols=56 Identities=16% Similarity=0.436 Sum_probs=46.3
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhC---C---------CCCHHHHHHHHHHHHHhH
Q 032677 18 MTHSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQL---P---------GKSAVEVREHYEALVHDV 73 (136)
Q Consensus 18 ~~~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~v---p---------grt~~qv~~ry~~l~~dv 73 (136)
......+|.+||..|..++.+|+-++++.|++|-+.+ | .||+.++.+|...|+.-|
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 3446789999999999999999998889999999876 2 899999999999998544
No 29
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=96.47 E-value=0.0031 Score=36.48 Aligned_cols=19 Identities=42% Similarity=0.627 Sum_probs=18.2
Q ss_pred CCCCHHHHHHHHHHHHhhC
Q 032677 116 TPWTEEEHKLFLIGLKKIR 134 (136)
Q Consensus 116 ~pWTeeEhrlfL~gL~kyG 134 (136)
.+||++|+.+|+.++..||
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g 20 (49)
T smart00717 2 GEWTEEEDELLIELVKKYG 20 (49)
T ss_pred CCCCHHHHHHHHHHHHHHC
Confidence 5799999999999999999
No 30
>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=96.43 E-value=0.0031 Score=36.03 Aligned_cols=18 Identities=56% Similarity=0.944 Sum_probs=17.4
Q ss_pred CCCHHHHHHHHHHHHhhC
Q 032677 117 PWTEEEHKLFLIGLKKIR 134 (136)
Q Consensus 117 pWTeeEhrlfL~gL~kyG 134 (136)
+||++|+++|+.++.+||
T Consensus 1 ~Wt~eE~~~l~~~~~~~g 18 (45)
T cd00167 1 PWTEEEDELLLEAVKKYG 18 (45)
T ss_pred CCCHHHHHHHHHHHHHHC
Confidence 699999999999999999
No 31
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.37 E-value=0.0039 Score=55.09 Aligned_cols=45 Identities=31% Similarity=0.678 Sum_probs=40.9
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
..||.|||..|.-+...+|. .|-.||..| |||..||.+||.+|+.
T Consensus 60 tews~eederlLhlakl~p~----qwrtIa~i~-gr~~~qc~eRy~~ll~ 104 (617)
T KOG0050|consen 60 TEWSREEDERLLHLAKLEPT----QWRTIADIM-GRTSQQCLERYNNLLD 104 (617)
T ss_pred hhhhhhHHHHHHHHHHhcCC----ccchHHHHh-hhhHHHHHHHHHHHHH
Confidence 46999999999888888864 799999999 9999999999999985
No 32
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=95.93 E-value=0.012 Score=52.10 Aligned_cols=52 Identities=19% Similarity=0.350 Sum_probs=46.2
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHhh
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDVYE 75 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~~ 75 (136)
....||.+|++.|..+-..++. +|..||..+||+|..+|.++|..++++...
T Consensus 71 k~~~~~~eed~~li~l~~~~~~----~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 71 KKKNWSEEEDEQLIDLDKELGT----QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred ccccccHHHHHHHHHHHHhcCc----hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 4578999999999999988874 799999999999999999999999876554
No 33
>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=95.09 E-value=0.07 Score=35.85 Aligned_cols=54 Identities=17% Similarity=0.428 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHHHhhC------C-CC--CChHHHHHHHhCC---C--CCHHHHHHHHHHHHHhHhhh
Q 032677 23 HWNRSEDKLFEHALVMF------P-EE--SPDRWQKIASQLP---G--KSAVEVREHYEALVHDVYEI 76 (136)
Q Consensus 23 ~WT~eEdk~le~al~~~------~-~~--~~~rW~~IA~~vp---g--rt~~qv~~ry~~l~~dv~~i 76 (136)
.||.++++.|..+|... + .+ ++..|..|++.|- | .|..||+.||..|..+-+.+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~~~ 68 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYRIW 68 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHHHH
Confidence 49999999998887553 1 11 2556999999884 3 67899999999998755543
No 34
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=95.06 E-value=0.038 Score=48.36 Aligned_cols=45 Identities=27% Similarity=0.514 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
...||.||.-+|++|+..|+. +..+|-++||.||...++.-|-..
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK----~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGK----DFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred cccchHHHHHHHHHHHHHhcc----cHHHHHHHccCccHHHHHHHHHHH
Confidence 467999999999999999986 799999999999999998887654
No 35
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=94.70 E-value=0.083 Score=45.51 Aligned_cols=46 Identities=17% Similarity=0.403 Sum_probs=41.5
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
..-+||.+|...|-+||..++- ...-|++.+|.|.-+||+..|++-
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt----dF~LIs~lfP~R~RkqIKaKfi~E 409 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT----DFSLISSLFPNRERKQIKAKFIKE 409 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc----hHHHHHHhcCchhHHHHHHHHHHH
Confidence 4468999999999999999985 589999999999999999988874
No 36
>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=93.64 E-value=0.093 Score=40.00 Aligned_cols=49 Identities=16% Similarity=0.367 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHhhCCC-C-C-ChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 22 THWNRSEDKLFEHALVMFPE-E-S-PDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~-~-~-~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
..||.|||.+|-..+-.|=. | | -.-.+.|+..+ +||+.-|--||...|.
T Consensus 5 DAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVR 56 (161)
T ss_pred cccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHH
Confidence 46999999999999888753 2 2 24589999999 8999999999998875
No 37
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=93.53 E-value=0.22 Score=32.35 Aligned_cols=49 Identities=12% Similarity=0.241 Sum_probs=34.3
Q ss_pred CCCCHHHHHHHHHHHhhCCC-----CCChHHHHHHHhCC-CCCHHHHHHHHHHHH
Q 032677 22 THWNRSEDKLFEHALVMFPE-----ESPDRWQKIASQLP-GKSAVEVREHYEALV 70 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~-----~~~~rW~~IA~~vp-grt~~qv~~ry~~l~ 70 (136)
.++|.+||.+|...|+.+.. ..+.-|..+|+.-| ..|-.-.++||...+
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L 57 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHL 57 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 46899999999999976542 22566999999999 899999999998765
No 38
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=92.17 E-value=0.12 Score=44.24 Aligned_cols=24 Identities=29% Similarity=0.452 Sum_probs=21.1
Q ss_pred CCCCCCCHHHHHHHHHHHHhhCCC
Q 032677 113 KKGTPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 113 kkg~pWTeeEhrlfL~gL~kyGKG 136 (136)
..-..|||+|-|.|++||+.|||.
T Consensus 275 d~l~~wsEeEcr~FEegl~~yGKD 298 (445)
T KOG4329|consen 275 DDLSGWSEEECRNFEEGLELYGKD 298 (445)
T ss_pred cccccCCHHHHHHHHHHHHHhccc
Confidence 334689999999999999999994
No 39
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=91.91 E-value=0.25 Score=38.03 Aligned_cols=49 Identities=14% Similarity=0.372 Sum_probs=39.0
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCC---ChHHHHHHHhCCCCCHHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEES---PDRWQKIASQLPGKSAVEVREHYEALV 70 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~---~~rW~~IA~~vpgrt~~qv~~ry~~l~ 70 (136)
...||.|+|.+|...+..|.... -.-.+.++..+ +||+..|-.||...+
T Consensus 5 qdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~v 56 (170)
T PRK13923 5 QDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVV 56 (170)
T ss_pred hhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHH
Confidence 35699999999999988887533 24477788888 899999999995554
No 40
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=91.65 E-value=0.66 Score=36.51 Aligned_cols=45 Identities=20% Similarity=0.312 Sum_probs=37.9
Q ss_pred CCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCC---CCCHHHHHHHHHHHHHh
Q 032677 23 HWNRSEDKLFEHALVMFPEESPDRWQKIASQLP---GKSAVEVREHYEALVHD 72 (136)
Q Consensus 23 ~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vp---grt~~qv~~ry~~l~~d 72 (136)
.|++.+|-+|++|+..-. .-+.|+..|+ .-|..+|.+||..|+.|
T Consensus 1 rW~~~DDl~Li~av~~~~-----~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN-----DLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHHHHhc-----CHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 599999999999998743 4788888776 46999999999999863
No 41
>smart00595 MADF subfamily of SANT domain.
Probab=91.02 E-value=0.27 Score=32.62 Aligned_cols=25 Identities=32% Similarity=0.656 Sum_probs=22.7
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 46 RWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 46 rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
-|..||..| |.|+.+|+.+|+.|..
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~ 53 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRD 53 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 399999999 6799999999999975
No 42
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=90.45 E-value=0.47 Score=42.91 Aligned_cols=53 Identities=17% Similarity=0.337 Sum_probs=42.4
Q ss_pred CCCCCCCHHHHHHHHHHHh-------hC------------CCC---CChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 19 THSTHWNRSEDKLFEHALV-------MF------------PEE---SPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 19 ~~~~~WT~eEdk~le~al~-------~~------------~~~---~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
...+.||.||...|.+++. .| |.+ .+-.|..|++.+..|+--||+.+|..|+.
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~ 508 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTT 508 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHh
Confidence 4678899999999999985 22 111 23469999999988999999999999874
No 43
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=89.24 E-value=1.3 Score=36.69 Aligned_cols=56 Identities=13% Similarity=0.237 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHhhCC----CCC--ChHHHHHHHhCC----CCCHHHHHHHHHHHHHhHhhh
Q 032677 21 STHWNRSEDKLFEHALVMFP----EES--PDRWQKIASQLP----GKSAVEVREHYEALVHDVYEI 76 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~----~~~--~~rW~~IA~~vp----grt~~qv~~ry~~l~~dv~~i 76 (136)
...||.+|-..|..+..... .++ -.-|+.||..+. -||..||+.+|++|..-.+..
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 47899999999998865432 211 234999999554 399999999999997655543
No 44
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=88.87 E-value=0.75 Score=39.56 Aligned_cols=47 Identities=21% Similarity=0.301 Sum_probs=38.5
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
..+.||.+|=+.||..|..|+.+ .--.=|..|+.|++.+|+.-|-.-
T Consensus 276 ~l~~wsEeEcr~FEegl~~yGKD---F~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 276 DLSGWSEEECRNFEEGLELYGKD---FHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccccCCHHHHHHHHHHHHHhccc---HHHHHhcccccchHHHHHHHHHHh
Confidence 45789999999999999999973 444446789999999999877654
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=87.13 E-value=0.45 Score=41.11 Aligned_cols=50 Identities=16% Similarity=0.367 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHh-----CCC-CCHHHHHHHHHHHHHhHhh
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQ-----LPG-KSAVEVREHYEALVHDVYE 75 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~-----vpg-rt~~qv~~ry~~l~~dv~~ 75 (136)
..||.+|..-|=.+-..|.- ||-.||.. ++. ||++++++||-.++..+..
T Consensus 131 n~WskeETD~LF~lck~fDL----Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~k 186 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDL----RFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLK 186 (445)
T ss_pred ccccHHHHHHHHHHHHhcCe----eEEEEeeccchhhccccccHHHHHHHHHHHHHHHHH
Confidence 46999999988888899975 78888877 666 9999999999998765543
No 46
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=86.79 E-value=1.9 Score=39.29 Aligned_cols=50 Identities=28% Similarity=0.466 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHH----------HHhCCCCCHHHHHHHHHHHHHhHhh
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKI----------ASQLPGKSAVEVREHYEALVHDVYE 75 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~I----------A~~vpgrt~~qv~~ry~~l~~dv~~ 75 (136)
..||-.|...|-.||..|+. ..++| -..+--||..||+.+|-.++.-+..
T Consensus 89 taWt~~E~~~Ffdal~~~GK----dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k 148 (782)
T KOG4468|consen 89 TAWTHQEEESFFDALRQVGK----DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNK 148 (782)
T ss_pred cccchhhHHHHHHHHHHhcc----cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHh
Confidence 47999999999999999997 47777 3334458999999999988764443
No 47
>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=83.60 E-value=3.5 Score=24.22 Aligned_cols=37 Identities=24% Similarity=0.283 Sum_probs=27.9
Q ss_pred HHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 29 DKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 29 dk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
|..+..+|..-+. -.|..||+.+ |-|...|..|.+.|
T Consensus 5 D~~Il~~Lq~d~r---~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 5 DRKILRLLQEDGR---RSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHH-TT---S-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCC---ccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 5666677777643 4699999999 99999999999876
No 48
>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=82.11 E-value=1.5 Score=31.72 Aligned_cols=22 Identities=32% Similarity=0.380 Sum_probs=18.1
Q ss_pred CCCCCCHHHHHHHHHHHHhhCC
Q 032677 114 KGTPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 114 kg~pWTeeEhrlfL~gL~kyGK 135 (136)
++..+|++|+|-+|..+.+||=
T Consensus 48 ~~k~yseeEDRfLl~~~~~~G~ 69 (118)
T PF09111_consen 48 KKKVYSEEEDRFLLCMLYKYGY 69 (118)
T ss_dssp S-SSS-HHHHHHHHHHHHHHTT
T ss_pred CCCCcCcHHHHHHHHHHHHhCC
Confidence 3568999999999999999994
No 49
>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=81.33 E-value=2.4 Score=27.11 Aligned_cols=28 Identities=25% Similarity=0.430 Sum_probs=23.6
Q ss_pred HHHHHHHhCCC-CCHHHHHHHHHHHHHhH
Q 032677 46 RWQKIASQLPG-KSAVEVREHYEALVHDV 73 (136)
Q Consensus 46 rW~~IA~~vpg-rt~~qv~~ry~~l~~dv 73 (136)
-|..||..++. -++.+|+.+|..|....
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y 56 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRY 56 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHH
Confidence 49999999963 68899999999998633
No 50
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=80.35 E-value=1.1 Score=39.83 Aligned_cols=24 Identities=25% Similarity=0.437 Sum_probs=21.0
Q ss_pred CCCCCCCHHHHHHHHHHHHhhCCC
Q 032677 113 KKGTPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 113 kkg~pWTeeEhrlfL~gL~kyGKG 136 (136)
..-..||.-|--||+.+|+||||+
T Consensus 283 DemEEWSasEanLFEeALeKyGKD 306 (693)
T KOG3554|consen 283 DEMEEWSASEANLFEEALEKYGKD 306 (693)
T ss_pred hhhhhccchhhHHHHHHHHHhccc
Confidence 334679999999999999999995
No 51
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=80.06 E-value=10 Score=22.52 Aligned_cols=48 Identities=17% Similarity=0.265 Sum_probs=39.9
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
...+|.+....|+..+...+.-+...=+.||+.+ |-+..+|..=+.+-
T Consensus 4 r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~-~l~~~qV~~WF~nr 51 (59)
T cd00086 4 RTRFTPEQLEELEKEFEKNPYPSREEREELAKEL-GLTERQVKIWFQNR 51 (59)
T ss_pred CCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4578999999999999997755566789999999 89999998766654
No 52
>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=79.63 E-value=8.7 Score=32.51 Aligned_cols=53 Identities=26% Similarity=0.454 Sum_probs=40.5
Q ss_pred CCCCCHHHHHHHHHHHhhCCC-CCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHh
Q 032677 21 STHWNRSEDKLFEHALVMFPE-ESPDRWQKIASQLPGKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~-~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~ 74 (136)
...||..|.+.|-++|..... ..++ -..|+..++||+..||++--..|..-|.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd-~ael~~~l~~Rs~aEI~~fl~~LK~rva 74 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPD-AAELAKELPGRSEAEIRDFLQQLKGRVA 74 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcC-HHHHHhhccCcCHHHHHHHHHHHHHHHH
Confidence 568999999999999887533 2244 4559999999999999887777765443
No 53
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=79.02 E-value=1.9 Score=38.91 Aligned_cols=45 Identities=20% Similarity=0.437 Sum_probs=40.2
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHH
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEA 68 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~ 68 (136)
....||.+|-.+|.+++..++. ...-|++.+|+|+.++|+..|+.
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs----~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGS----DFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcc----cccccccccccccHHHHHHHHhh
Confidence 4578999999999999999985 46889999999999999988875
No 54
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=79.01 E-value=8.9 Score=36.28 Aligned_cols=103 Identities=21% Similarity=0.322 Sum_probs=61.5
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhH----------hhhccCCccCCCCCCCCC
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDV----------YEIDSGRVELPSYADDSD 91 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv----------~~ie~g~v~~p~~~~~~~ 91 (136)
..||.-+-..|.+|-.+|+. +.-+.||+.|-+ |+++|..-.+-+-+-+ ..||.|--.+-.-..
T Consensus 796 t~w~k~df~~fi~a~eKygr---~di~~ia~~~e~-~~eev~~y~rvfwer~~el~d~ek~~~~ie~~e~~i~r~~~--- 868 (971)
T KOG0385|consen 796 TNWTKRDFNQFIKANEKYGR---DDIENIAAEVEG-TPEEVGEYARVFWERLEELSDIEKIIYQIERGEKRIQRGDS--- 868 (971)
T ss_pred cchhhhhHHHHHHHhhccCc---chhhhhHHhhcC-CHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhHhhhhHHHH---
Confidence 56999999999999999986 468999999987 9999865333222211 123443211100000
Q ss_pred CCCCCccCCCCCC---CC----CCCCCCCCCCCCCHHHHHHHHHHHHhhCC
Q 032677 92 WDSPSQISFAPKS---TK----HGDPERKKGTPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 92 ~~s~~~~~~~~k~---~~----~~~~erkkg~pWTeeEhrlfL~gL~kyGK 135 (136)
.......+- +. .-.....++.+.|++|+|-++.+|.|+|=
T Consensus 869 ----~~~~ld~k~~~~k~p~~l~i~~~~nk~~~ys~~edrfL~~~l~K~g~ 915 (971)
T KOG0385|consen 869 ----IKKALDDKIARYKAPHQLRIQYGTNKGKNYSEEEDRFLECMLHKLGF 915 (971)
T ss_pred ----HHHHHhhhHhhhcCchheeeeeccccCCCCchhhHHHHHHHHHHhcc
Confidence 000000000 00 00011236789999999999999999983
No 55
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=77.64 E-value=2.8 Score=37.32 Aligned_cols=45 Identities=31% Similarity=0.387 Sum_probs=34.9
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
-.||..|--+||.||.+|+.+ .=+--+..+|=||...+++-|-..
T Consensus 286 EEWSasEanLFEeALeKyGKD---FndIrqdfLPWKSl~sIveyYYmw 330 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKD---FNDIRQDFLPWKSLTSIVEYYYMW 330 (693)
T ss_pred hhccchhhHHHHHHHHHhccc---HHHHHHhhcchHHHHHHHHHHHHH
Confidence 479999999999999999974 223445667889988888776554
No 56
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=77.49 E-value=9.1 Score=22.94 Aligned_cols=47 Identities=19% Similarity=0.367 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEA 68 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~ 68 (136)
...+|.++...|+..+...+--+...-+.||..+ |-+..+|..=|.+
T Consensus 4 r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l-~l~~~~V~~WF~n 50 (57)
T PF00046_consen 4 RTRFTKEQLKVLEEYFQENPYPSKEEREELAKEL-GLTERQVKNWFQN 50 (57)
T ss_dssp SSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHH-TSSHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHhccccccccccccccc-cccccccccCHHH
Confidence 4568999999999999986654567789999999 8999999766554
No 57
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=76.06 E-value=8.1 Score=37.30 Aligned_cols=51 Identities=12% Similarity=0.336 Sum_probs=43.4
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhC---C---------CCCHHHHHHHHHHHHHhHh
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQL---P---------GKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~v---p---------grt~~qv~~ry~~l~~dv~ 74 (136)
...+|.|||..|..++.+|+-+ +|+.|-..+ | .||+.++.+|...|+.-|.
T Consensus 926 ~~~~~~~~d~~~~~~~~~~g~~---~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~ 988 (1033)
T PLN03142 926 GKLYNEECDRFMLCMVHKLGYG---NWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIE 988 (1033)
T ss_pred CCcCCHHHHHHHHHHHHHhccc---hHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHH
Confidence 5569999999999999999964 699996665 3 7999999999999986554
No 58
>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=75.44 E-value=3.4 Score=27.87 Aligned_cols=16 Identities=13% Similarity=0.441 Sum_probs=9.4
Q ss_pred CCCCCCCCHHHHHHHH
Q 032677 18 MTHSTHWNRSEDKLFE 33 (136)
Q Consensus 18 ~~~~~~WT~eEdk~le 33 (136)
....+-||+++|.+|.
T Consensus 44 ~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 44 DNMPGIWTPEDDEMLR 59 (87)
T ss_dssp TT-TT---HHHHHHHT
T ss_pred CCCCCCcCHHHHHHHH
Confidence 3456789999999993
No 59
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=72.52 E-value=17 Score=21.38 Aligned_cols=46 Identities=20% Similarity=0.307 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHH
Q 032677 22 THWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEA 68 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~ 68 (136)
..+|.++..+|+..+...+--+...=+.||+.+ |-+..+|..=+.+
T Consensus 5 ~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~-~l~~~qV~~WF~n 50 (56)
T smart00389 5 TSFTPEQLEELEKEFQKNPYPSREEREELAAKL-GLSERQVKVWFQN 50 (56)
T ss_pred CcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-CcCHHHHHHhHHH
Confidence 459999999999999887754456678999999 8999998865554
No 60
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=69.66 E-value=13 Score=32.29 Aligned_cols=61 Identities=21% Similarity=0.367 Sum_probs=45.1
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCC------------ChHHHHHHHhCC-----CCCHHHHHHHHHHHHH-hHhhhccCC
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEES------------PDRWQKIASQLP-----GKSAVEVREHYEALVH-DVYEIDSGR 80 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~------------~~rW~~IA~~vp-----grt~~qv~~ry~~l~~-dv~~ie~g~ 80 (136)
+.+.||++=+..|..||+.||+.. -.|=|-||..+- .||.+||-.|-.-|.. -++.|.+..
T Consensus 75 aegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq~kl 153 (455)
T KOG3841|consen 75 AEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQAKL 153 (455)
T ss_pred cccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 457899999999999999999631 356789998885 4788999888777643 333344333
No 61
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=66.61 E-value=6.8 Score=27.34 Aligned_cols=42 Identities=21% Similarity=0.450 Sum_probs=30.6
Q ss_pred HHHHHHHHhhCCCCCChHHHHHHHhCC------C--CC------HHHHHHHHHHHH
Q 032677 29 DKLFEHALVMFPEESPDRWQKIASQLP------G--KS------AVEVREHYEALV 70 (136)
Q Consensus 29 dk~le~al~~~~~~~~~rW~~IA~~vp------g--rt------~~qv~~ry~~l~ 70 (136)
.++|...++.-|......|+.||..|. | +| .++|..-|+.++
T Consensus 44 ~kfl~eIi~~~P~~d~~~Wd~IA~~mN~yly~~~~w~t~~~FyDG~~C~~~Fr~~v 99 (108)
T PF00674_consen 44 MKFLKEIIEVKPGVDMKKWDIIASRMNQYLYEEGLWNTPYFFYDGKDCYRFFRRLV 99 (108)
T ss_pred HHHHHHHHhcCCCCCcccHHHHHHHHHHHHHhCCCCCCcCcccCcHHHHHHHHHHh
Confidence 567777777777766889999999994 1 22 467777777765
No 62
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=63.93 E-value=20 Score=26.36 Aligned_cols=29 Identities=28% Similarity=0.507 Sum_probs=25.3
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHhHh
Q 032677 45 DRWQKIASQLPGKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 45 ~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~ 74 (136)
.-|..||..+ ..+.++|+..+....++|.
T Consensus 100 ~TW~~IA~~l-~i~erta~r~~~~fK~~i~ 128 (130)
T PF05263_consen 100 RTWYQIAQKL-HISERTARRWRDRFKNDIY 128 (130)
T ss_pred chHHHHHHHh-CccHHHHHHHHHHHHHHhc
Confidence 4599999999 7999999999998887765
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=63.87 E-value=23 Score=25.89 Aligned_cols=41 Identities=20% Similarity=0.232 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 27 SEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 27 eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
+-|..+..+|..-+. -.|..||+.+ |-|...|..|++.|.+
T Consensus 9 ~~D~~Il~~Lq~d~R---~s~~eiA~~l-glS~~tV~~Ri~rL~~ 49 (153)
T PRK11179 9 NLDRGILEALMENAR---TPYAELAKQF-GVSPGTIHVRVEKMKQ 49 (153)
T ss_pred HHHHHHHHHHHHcCC---CCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 356666677777653 3599999999 9999999999999985
No 64
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=61.19 E-value=31 Score=27.18 Aligned_cols=53 Identities=13% Similarity=0.350 Sum_probs=39.7
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhC-----CCCCHHHHHHHHHHHHH
Q 032677 18 MTHSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQL-----PGKSAVEVREHYEALVH 71 (136)
Q Consensus 18 ~~~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~v-----pgrt~~qv~~ry~~l~~ 71 (136)
......||.+|+.+|.+....... +...+++|=..= ++||+++...||..|..
T Consensus 70 iq~kalfS~~EE~lL~~v~s~~~p-~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkq 127 (199)
T PF13325_consen 70 IQSKALFSKEEEQLLGTVASSSQP-SLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQ 127 (199)
T ss_pred ccccCCCCHHHHHHHHhhhhccCC-cHHHHHHHHHhChhhhccccCHHHHHHHHHHHHH
Confidence 335678999999999986655533 356777775544 48999999999998764
No 65
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=59.25 E-value=25 Score=26.03 Aligned_cols=40 Identities=15% Similarity=0.051 Sum_probs=32.2
Q ss_pred HHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 28 EDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 28 Edk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
-|..+..+|..-+. -.|..||+.+ |-|..-|.+|++.|.+
T Consensus 15 ~D~~IL~~Lq~d~R---~s~~eiA~~l-glS~~tv~~Ri~rL~~ 54 (164)
T PRK11169 15 IDRNILNELQKDGR---ISNVELSKRV-GLSPTPCLERVRRLER 54 (164)
T ss_pred HHHHHHHHhccCCC---CCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 35555567766553 4699999999 9999999999999985
No 66
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=56.53 E-value=63 Score=22.25 Aligned_cols=51 Identities=12% Similarity=0.240 Sum_probs=32.7
Q ss_pred CCCCCHHHHHHHHHHHhhCCC--CC--ChHH----HHHHHhCC-CCCHHHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPE--ES--PDRW----QKIASQLP-GKSAVEVREHYEALVH 71 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~--~~--~~rW----~~IA~~vp-grt~~qv~~ry~~l~~ 71 (136)
...||.+|.-.|-++|..|-. |. ...| +.|...+. .-|..|+.+....|..
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~ 63 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKK 63 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHH
Confidence 467999998888899888832 21 1234 44444443 2477888777777754
No 67
>PLN03162 golden-2 like transcription factor; Provisional
Probab=56.40 E-value=14 Score=32.11 Aligned_cols=24 Identities=25% Similarity=0.581 Sum_probs=20.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhC
Q 032677 111 ERKKGTPWTEEEHKLFLIGLKKIR 134 (136)
Q Consensus 111 erkkg~pWTeeEhrlfL~gL~kyG 134 (136)
.+|...-||.|=|+.|+.++.+.|
T Consensus 233 ~KKpRLrWTpELH~rFVeAV~qLG 256 (526)
T PLN03162 233 KKKAKVDWTPELHRRFVHAVEQLG 256 (526)
T ss_pred CCCCcccCCHHHHHHHHHHHHHhC
Confidence 445568999999999999999988
No 68
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=56.11 E-value=9.6 Score=34.04 Aligned_cols=20 Identities=30% Similarity=0.502 Sum_probs=18.6
Q ss_pred CCCCCHHHHHHHHHHHHhhC
Q 032677 115 GTPWTEEEHKLFLIGLKKIR 134 (136)
Q Consensus 115 g~pWTeeEhrlfL~gL~kyG 134 (136)
+..||+.|--|||.|+.+||
T Consensus 253 ~~~WT~qE~lLLLE~ie~y~ 272 (506)
T KOG1279|consen 253 RPNWTEQETLLLLEAIEMYG 272 (506)
T ss_pred CCCccHHHHHHHHHHHHHhc
Confidence 46899999999999999998
No 69
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=52.71 E-value=12 Score=32.80 Aligned_cols=21 Identities=29% Similarity=0.509 Sum_probs=19.3
Q ss_pred CCCCHHHHHHHHHHHHhhCCC
Q 032677 116 TPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 116 ~pWTeeEhrlfL~gL~kyGKG 136 (136)
-.||.+|--+||.|+.+||=|
T Consensus 73 ~~WtadEEilLLea~~t~G~G 93 (438)
T KOG0457|consen 73 PSWTADEEILLLEAAETYGFG 93 (438)
T ss_pred CCCChHHHHHHHHHHHHhCCC
Confidence 469999999999999999976
No 70
>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=52.18 E-value=46 Score=19.37 Aligned_cols=43 Identities=21% Similarity=0.262 Sum_probs=30.6
Q ss_pred CHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhH
Q 032677 25 NRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDV 73 (136)
Q Consensus 25 T~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv 73 (136)
+++|...|...+ |. .-.+..||+.+ |-|..-|+.+....+.-+
T Consensus 6 ~~~er~vi~~~y--~~---~~t~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 6 PPREREVIRLRY--FE---GLTLEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp -HHHHHHHHHHH--TS---T-SHHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHh--cC---CCCHHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 556666666555 32 23589999999 899999998888776544
No 71
>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=51.20 E-value=25 Score=26.54 Aligned_cols=42 Identities=21% Similarity=0.185 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 23 HWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 23 ~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
.||.|...+|.++... |. .=.+||..|+|.|-.-|+-+..-|
T Consensus 2 ~Wtde~~~~L~~lw~~---G~--SasqIA~~lg~vsRnAViGk~hRl 43 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE---GL--SASQIARQLGGVSRNAVIGKAHRL 43 (162)
T ss_pred CCCHHHHHHHHHHHHc---CC--CHHHHHHHhCCcchhhhhhhhhcc
Confidence 5999999999888754 22 348999999779999999887776
No 72
>cd08307 Death_Pelle Death domain of the protein kinase Pelle. Death domain (DD) of the protein kinase Pelle from Drosophila melanogaster and simlar proteins. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and in mediating innate immune responses to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Pelle also functions in photoreceptor axon targeting. 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=48.73 E-value=16 Score=25.51 Aligned_cols=20 Identities=25% Similarity=0.466 Sum_probs=15.7
Q ss_pred ChHHHHHHHhCCCCCHHHHH
Q 032677 44 PDRWQKIASQLPGKSAVEVR 63 (136)
Q Consensus 44 ~~rW~~IA~~vpgrt~~qv~ 63 (136)
.+.|+++|..+++-|..+|+
T Consensus 21 ~~~W~~LA~~i~~ys~~~v~ 40 (97)
T cd08307 21 DNVWEELAFVMMGYSNDDVE 40 (97)
T ss_pred cCcHHHHHHHHhcCCHHHHH
Confidence 36899999999876666654
No 73
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=46.57 E-value=13 Score=33.03 Aligned_cols=44 Identities=16% Similarity=0.344 Sum_probs=34.3
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
.-.||++|-. +.+....|. +..+-||+.+..+|+.|+..+|..-
T Consensus 470 ~~~wSp~e~s-~ircf~~y~----~~fe~ia~l~~tktp~Q~~~fy~~n 513 (534)
T KOG1194|consen 470 NYGWSPEEKS-AIRCFHWYK----DNFELIAELMATKTPEQIKKFYMDN 513 (534)
T ss_pred cCCCCCcccc-cccCchhhc----cchHHHHHHhcCCCHHHHHHHhcCc
Confidence 4579999988 444444444 3689999999999999999999763
No 74
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=44.23 E-value=17 Score=32.36 Aligned_cols=20 Identities=25% Similarity=0.539 Sum_probs=18.5
Q ss_pred CCCCHHHHHHHHHHHHhhCC
Q 032677 116 TPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 116 ~pWTeeEhrlfL~gL~kyGK 135 (136)
.+||.+|--|||.|++.||-
T Consensus 280 k~WS~qE~~LLLEGIe~ygD 299 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGD 299 (531)
T ss_pred ccccHHHHHHHHHHHHHhhh
Confidence 58999999999999999983
No 75
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=43.96 E-value=28 Score=29.27 Aligned_cols=49 Identities=16% Similarity=0.197 Sum_probs=38.4
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCC-ChHHHHHHHhCCC-----CCHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEES-PDRWQKIASQLPG-----KSAVEVREHYEAL 69 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~-~~rW~~IA~~vpg-----rt~~qv~~ry~~l 69 (136)
.+.|++++-..++.+++.++... ..+|+.+|+.+.+ |..+++++....+
T Consensus 245 ~rkWereagar~~a~aa~k~kae~k~kae~ea~a~asa~a~kkkaKE~~kka~k~ 299 (379)
T COG5269 245 IRKWEREAGARLKALAALKGKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKM 299 (379)
T ss_pred HhccchhhhhhHHHHHHHhhhhHHHhHHHHHHHHhhhhHHHHHhHHHHHHHHHHH
Confidence 46799999999999999988633 6789999998864 5667777665554
No 76
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=42.65 E-value=77 Score=21.06 Aligned_cols=44 Identities=20% Similarity=0.286 Sum_probs=30.5
Q ss_pred HHHHHHHHHhhCCC----CCChHHHHHHHhCCCC-----CHHHHHHHHHHHHH
Q 032677 28 EDKLFEHALVMFPE----ESPDRWQKIASQLPGK-----SAVEVREHYEALVH 71 (136)
Q Consensus 28 Edk~le~al~~~~~----~~~~rW~~IA~~vpgr-----t~~qv~~ry~~l~~ 71 (136)
+.-.|-.++.+++. .....|..||..+.-. ...+++..|...+-
T Consensus 33 dL~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~ 85 (93)
T smart00501 33 DLYRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLL 85 (93)
T ss_pred cHHHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhH
Confidence 34456667777764 2256799999999532 25788899988764
No 77
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=42.39 E-value=89 Score=20.87 Aligned_cols=41 Identities=17% Similarity=0.140 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 27 SEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 27 eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
+.|..+..+|...+. -.+..||..+ |-+...|.++...|.+
T Consensus 3 ~~D~~il~~L~~~~~---~~~~~la~~l-~~s~~tv~~~l~~L~~ 43 (108)
T smart00344 3 EIDRKILEELQKDAR---ISLAELAKKV-GLSPSTVHNRVKRLEE 43 (108)
T ss_pred HHHHHHHHHHHHhCC---CCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 345666677777653 3589999999 9999999999999985
No 78
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=40.01 E-value=44 Score=21.15 Aligned_cols=31 Identities=16% Similarity=0.477 Sum_probs=22.2
Q ss_pred HHHHHHHhCCCCCHH------HHHHHHHHHHHhHhhh
Q 032677 46 RWQKIASQLPGKSAV------EVREHYEALVHDVYEI 76 (136)
Q Consensus 46 rW~~IA~~vpgrt~~------qv~~ry~~l~~dv~~i 76 (136)
-|+++|..||..+.+ ...+||..++.|-..+
T Consensus 2 yW~~~~~vip~~~~~~W~~L~~~l~rY~~vL~~R~~l 38 (60)
T PF14775_consen 2 YWERLANVIPDEKIRLWDALENFLKRYNKVLLDRAAL 38 (60)
T ss_pred HHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 599999999976543 4677888876654443
No 79
>PRK15372 pathogenicity island 2 effector protein SseI; Provisional
Probab=38.90 E-value=34 Score=28.19 Aligned_cols=16 Identities=25% Similarity=0.414 Sum_probs=14.4
Q ss_pred CCCHHHHHHHHHHHHH
Q 032677 56 GKSAVEVREHYEALVH 71 (136)
Q Consensus 56 grt~~qv~~ry~~l~~ 71 (136)
|-|.++|+.+|..|..
T Consensus 32 gtTpe~I~s~Fe~Lr~ 47 (292)
T PRK15372 32 GTTREDVVSRFELLRT 47 (292)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 7899999999999985
No 80
>PF10561 UPF0565: Uncharacterised protein family UPF0565; InterPro: IPR018881 This family of proteins has no known function.
Probab=38.07 E-value=31 Score=28.82 Aligned_cols=27 Identities=30% Similarity=0.397 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHhhCC
Q 032677 109 DPERKKGTPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 109 ~~erkkg~pWTeeEhrlfL~gL~kyGK 135 (136)
-|=.....||--.|++.|+.-|+++|-
T Consensus 275 yQv~D~~RpwI~~E~~~F~~~L~~~~~ 301 (303)
T PF10561_consen 275 YQVSDPMRPWIGKEEKKFVKLLKKLGA 301 (303)
T ss_pred ccccCCCCcHHHHHHHHHHHHHHHhCC
Confidence 344455689999999999999999983
No 81
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=37.83 E-value=29 Score=22.65 Aligned_cols=21 Identities=33% Similarity=0.509 Sum_probs=16.9
Q ss_pred HHHHHHhCCCCCHHHHHHHHH
Q 032677 47 WQKIASQLPGKSAVEVREHYE 67 (136)
Q Consensus 47 W~~IA~~vpgrt~~qv~~ry~ 67 (136)
-..||..+-|||++|++..+.
T Consensus 36 ~~~iA~~i~gks~eeir~~fg 56 (78)
T PF01466_consen 36 CKYIANMIKGKSPEEIRKYFG 56 (78)
T ss_dssp HHHHHHHHTTS-HHHHHHHHT
T ss_pred HHHHHHHhcCCCHHHHHHHcC
Confidence 577889999999999998763
No 82
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=37.65 E-value=48 Score=26.70 Aligned_cols=40 Identities=23% Similarity=0.328 Sum_probs=31.1
Q ss_pred CCCCCHHHHHHHHHHHhh--CCCCCChHHHHHHHhCCC-CCHHHH
Q 032677 21 STHWNRSEDKLFEHALVM--FPEESPDRWQKIASQLPG-KSAVEV 62 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~--~~~~~~~rW~~IA~~vpg-rt~~qv 62 (136)
...+|..+...||.++++ ||. -..|+++|..|.= .+..+|
T Consensus 41 RTtFtr~QlevLe~LF~kTqYPD--v~~rEelAlklnLpeSrVqV 83 (228)
T KOG2251|consen 41 RTTFTRKQLEVLEALFAKTQYPD--VFMREELALKLNLPESRVQV 83 (228)
T ss_pred cceecHHHHHHHHHHHHhhcCcc--HHHHHHHHHHhCCchhhhhh
Confidence 457999999999999998 664 5789999999841 344444
No 83
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=36.75 E-value=42 Score=23.86 Aligned_cols=39 Identities=18% Similarity=0.106 Sum_probs=30.1
Q ss_pred HHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 29 DKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 29 dk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
|..+-++|..-.. ..+..||+.+ |-|...|..|-+.|.+
T Consensus 10 D~~IL~~L~~d~r---~~~~eia~~l-glS~~~v~~Ri~~L~~ 48 (154)
T COG1522 10 DRRILRLLQEDAR---ISNAELAERV-GLSPSTVLRRIKRLEE 48 (154)
T ss_pred HHHHHHHHHHhCC---CCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 4444455555443 4689999999 8999999999999985
No 84
>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=35.82 E-value=74 Score=23.91 Aligned_cols=46 Identities=28% Similarity=0.481 Sum_probs=37.6
Q ss_pred CCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHH
Q 032677 23 HWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALV 70 (136)
Q Consensus 23 ~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~ 70 (136)
.++..+-++|-+||..|+-+. -.|.-+...+.+||.++++ .|..|.
T Consensus 40 GFn~rQR~~Fln~vMR~G~~~-f~~~w~~~~Lr~Ks~~ei~-aY~~LF 85 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRYGMGA-FDWKWFVPRLRGKSEKEIR-AYGSLF 85 (145)
T ss_pred ccCHHHHHHHHHHHHHHCcCc-ccchHHhhhhccccHHHHH-HHHHHH
Confidence 589999999999999999853 3688888889999998876 466654
No 85
>PF12451 VPS11_C: Vacuolar protein sorting protein 11 C terminal; InterPro: IPR024763 Vps 11 is one of the evolutionarily conserved class C vacuolar protein sorting genes (c-vps: vps11, vps16, vps18, and vps33), whose products physically associate to form the c-vps protein complex required for vesicle docking and fusion. This entry represents the C-terminal domain of vps11.
Probab=34.48 E-value=27 Score=21.14 Aligned_cols=28 Identities=39% Similarity=0.608 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCC
Q 032677 26 RSEDKLFEHALVMFPEESPDRWQKIASQLPGKS 58 (136)
Q Consensus 26 ~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt 58 (136)
.+.-.+|..+| ..+.|+...||..+ ||-
T Consensus 18 ~~~~d~F~~~L----~~s~D~F~vIaeyf-GrG 45 (49)
T PF12451_consen 18 ADQHDLFFKQL----EESEDRFSVIAEYF-GRG 45 (49)
T ss_pred hhcHHHHHHHH----HhCCCCchhHHHHH-ccc
Confidence 34456788888 33468999999999 664
No 86
>smart00426 TEA TEA domain.
Probab=31.34 E-value=53 Score=21.61 Aligned_cols=20 Identities=15% Similarity=0.267 Sum_probs=17.7
Q ss_pred CCCCHHHHHHHHHHHHhhCC
Q 032677 116 TPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 116 ~pWTeeEhrlfL~gL~kyGK 135 (136)
.-|.++=-..|++||..|++
T Consensus 4 ~vWp~~lE~Af~~aL~~~~~ 23 (68)
T smart00426 4 GVWSPDIEQAFQEALAIYPP 23 (68)
T ss_pred CcCcHHHHHHHHHHHHHcCc
Confidence 45999999999999999975
No 87
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=30.07 E-value=1e+02 Score=18.40 Aligned_cols=41 Identities=20% Similarity=0.240 Sum_probs=31.5
Q ss_pred CCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 24 WNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 24 WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
-|+.|...|.-+..-+. =..||..+ |.+..-|..|-..+..
T Consensus 4 LT~~E~~vl~~l~~G~~------~~eIA~~l-~is~~tV~~~~~~i~~ 44 (58)
T PF00196_consen 4 LTERELEVLRLLAQGMS------NKEIAEEL-GISEKTVKSHRRRIMK 44 (58)
T ss_dssp S-HHHHHHHHHHHTTS-------HHHHHHHH-TSHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHhcCC------cchhHHhc-CcchhhHHHHHHHHHH
Confidence 47788888877776664 38899999 8999999888888764
No 88
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=29.57 E-value=97 Score=21.08 Aligned_cols=28 Identities=32% Similarity=0.494 Sum_probs=23.3
Q ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHhHhh
Q 032677 47 WQKIASQLPGKSAVEVREHYEALVHDVYE 75 (136)
Q Consensus 47 W~~IA~~vpgrt~~qv~~ry~~l~~dv~~ 75 (136)
|+.-|.. -|+|.++.+..|..||+.++.
T Consensus 56 ~eAW~~L-KGksqedA~qeYialVeeLka 83 (87)
T COG4281 56 YEAWAGL-KGKSQEDARQEYIALVEELKA 83 (87)
T ss_pred HHHHhhc-cCccHHHHHHHHHHHHHHHHh
Confidence 7777654 599999999999999987664
No 89
>COG1549 Queuine tRNA-ribosyltransferases, contain PUA domain [Translation, ribosomal structure and biogenesis]
Probab=29.07 E-value=33 Score=30.72 Aligned_cols=46 Identities=24% Similarity=0.508 Sum_probs=32.8
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 21 STHWNRSEDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 21 ~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
.+.|++||.++....|+.|=..++ -..|-+++|| .+..+++.++++
T Consensus 303 tG~WseEE~~~v~~~l~~yl~k~~--~~~vIAhv~g---r~~~E~~~e~v~ 348 (519)
T COG1549 303 TGHWSEEEKEFVAELLKSYLEKTD--YRKVIAHVPG---REAVERVLEAVD 348 (519)
T ss_pred cccccHHHHHHHHHHHHHHhhhcC--CceEEEEcCc---hhHHHHHhhccC
Confidence 468999999999999888876543 3567778888 444555555553
No 90
>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=29.03 E-value=66 Score=28.16 Aligned_cols=51 Identities=22% Similarity=0.427 Sum_probs=33.3
Q ss_pred CCCCCCCHHHHHHHHHHHhhCCCCC----------ChHHHHHHHhCC---C--CCHHHHHHHHHHH
Q 032677 19 THSTHWNRSEDKLFEHALVMFPEES----------PDRWQKIASQLP---G--KSAVEVREHYEAL 69 (136)
Q Consensus 19 ~~~~~WT~eEdk~le~al~~~~~~~----------~~rW~~IA~~vp---g--rt~~qv~~ry~~l 69 (136)
.....|+.+=...|..||+.||+.. ..|=+-||..|- | ||.+||-.|-.-|
T Consensus 47 ~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 47 DGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 3457899999999999999999742 233456666653 3 8899999998888
No 91
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=29.00 E-value=40 Score=31.12 Aligned_cols=21 Identities=29% Similarity=0.672 Sum_probs=19.8
Q ss_pred CCCCHHHHHHHHHHHHhhCCC
Q 032677 116 TPWTEEEHKLFLIGLKKIRQG 136 (136)
Q Consensus 116 ~pWTeeEhrlfL~gL~kyGKG 136 (136)
..||-.|--.|..||+.|||.
T Consensus 89 taWt~~E~~~Ffdal~~~GKd 109 (782)
T KOG4468|consen 89 TAWTHQEEESFFDALRQVGKD 109 (782)
T ss_pred cccchhhHHHHHHHHHHhccc
Confidence 689999999999999999984
No 92
>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=28.72 E-value=93 Score=20.39 Aligned_cols=42 Identities=21% Similarity=0.339 Sum_probs=27.4
Q ss_pred HHHHHHHhhCCCC----CChHHHHHHHhCCCC---C--HHHHHHHHHHHHH
Q 032677 30 KLFEHALVMFPEE----SPDRWQKIASQLPGK---S--AVEVREHYEALVH 71 (136)
Q Consensus 30 k~le~al~~~~~~----~~~rW~~IA~~vpgr---t--~~qv~~ry~~l~~ 71 (136)
-.|-.++.+++.- ....|..||..+.-- + ..+++..|...+.
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 3455666666542 124599999999421 2 3689999998764
No 93
>KOG3698 consensus Hyaluronoglucosaminidase [Posttranslational modification, protein turnover, chaperones]
Probab=28.58 E-value=51 Score=30.54 Aligned_cols=26 Identities=31% Similarity=0.512 Sum_probs=21.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHhhCC
Q 032677 110 PERKKGTPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 110 ~erkkg~pWTeeEhrlfL~gL~kyGK 135 (136)
.|-.=|.|||.|+.|-|..-|++.|=
T Consensus 22 vEGFYGRPWt~EQRK~LFrrl~~~gl 47 (891)
T KOG3698|consen 22 VEGFYGRPWTPEQRKHLFRRLNQLGL 47 (891)
T ss_pred eccccCCCCCHHHHHHHHHHHHhccc
Confidence 45566899999999999888888773
No 94
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=27.56 E-value=52 Score=21.69 Aligned_cols=21 Identities=33% Similarity=0.570 Sum_probs=16.9
Q ss_pred CCCCHHHHHHHHHHHHHhHhh
Q 032677 55 PGKSAVEVREHYEALVHDVYE 75 (136)
Q Consensus 55 pgrt~~qv~~ry~~l~~dv~~ 75 (136)
-|.+.++|+++|..++.+|..
T Consensus 11 ~G~~~e~vk~~F~~~~~~Vs~ 31 (71)
T PF04282_consen 11 EGEDPEEVKEEFKKLFSDVSA 31 (71)
T ss_pred CCCCHHHHHHHHHHHHCCCCH
Confidence 478889999999998876664
No 95
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=26.12 E-value=94 Score=15.22 Aligned_cols=24 Identities=42% Similarity=0.693 Sum_probs=17.7
Q ss_pred HHHHHHHHhhCCCCCChHHHHHHHh
Q 032677 29 DKLFEHALVMFPEESPDRWQKIASQ 53 (136)
Q Consensus 29 dk~le~al~~~~~~~~~rW~~IA~~ 53 (136)
..+|+++|..+| ..++-|..-+..
T Consensus 7 r~i~e~~l~~~~-~~~~~W~~y~~~ 30 (33)
T smart00386 7 RKIYERALEKFP-KSVELWLKYAEF 30 (33)
T ss_pred HHHHHHHHHHCC-CChHHHHHHHHH
Confidence 458899999988 456778776654
No 96
>PTZ00458 acyl CoA binding protein; Provisional
Probab=25.88 E-value=96 Score=21.22 Aligned_cols=21 Identities=10% Similarity=0.441 Sum_probs=18.1
Q ss_pred CCCCCHHHHHHHHHHHHHhHh
Q 032677 54 LPGKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 54 vpgrt~~qv~~ry~~l~~dv~ 74 (136)
+.|.|..+.+++|..|++.+.
T Consensus 63 l~~ms~~eA~~~YI~l~~~l~ 83 (90)
T PTZ00458 63 IENLNREDAKKRYVEIVTELF 83 (90)
T ss_pred cCCCCHHHHHHHHHHHHHHHh
Confidence 478999999999999998654
No 97
>KOG4559 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.52 E-value=2e+02 Score=20.58 Aligned_cols=48 Identities=27% Similarity=0.374 Sum_probs=34.0
Q ss_pred CHHHHHHHHHH----HhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhHhhhcc
Q 032677 25 NRSEDKLFEHA----LVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDVYEIDS 78 (136)
Q Consensus 25 T~eEdk~le~a----l~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~~ie~ 78 (136)
+-||-|+||.. +++|- .-.+||+.+.|++ .++-..|.+|.-.+..|+.
T Consensus 49 ~iEdYKLLEeMNkaTaakY~-----DMk~iAEkla~k~-deLn~KfenL~P~lqQIDa 100 (120)
T KOG4559|consen 49 PIEDYKLLEEMNKATAAKYK-----DMKQIAEKLAGKL-DELNLKFENLAPMLQQIDA 100 (120)
T ss_pred cHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHccch-HHHHHHHHHHHHHHHHHHH
Confidence 34677777764 55563 4789999997765 5677889998776666653
No 98
>PF14164 YqzH: YqzH-like protein
Probab=25.50 E-value=41 Score=21.88 Aligned_cols=27 Identities=15% Similarity=0.521 Sum_probs=17.5
Q ss_pred HHHHHHHHhhCCCC------CChHHHHHHHhCC
Q 032677 29 DKLFEHALVMFPEE------SPDRWQKIASQLP 55 (136)
Q Consensus 29 dk~le~al~~~~~~------~~~rW~~IA~~vp 55 (136)
.|++.++|..|+.+ ++.-|+.+.+.|-
T Consensus 7 ~Kmi~~~l~QYg~d~~~~pls~~E~~~L~~~i~ 39 (64)
T PF14164_consen 7 EKMIINCLRQYGYDVECMPLSDEEWEELCKHIQ 39 (64)
T ss_pred HHHHHHHHHHhCCcccCCCCCHHHHHHHHHHHH
Confidence 46777788888654 2455777666663
No 99
>PRK04654 sec-independent translocase; Provisional
Probab=25.49 E-value=99 Score=24.70 Aligned_cols=39 Identities=23% Similarity=0.349 Sum_probs=28.0
Q ss_pred HHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHHHHhH
Q 032677 31 LFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEALVHDV 73 (136)
Q Consensus 31 ~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv 73 (136)
++.-+|.-|+ |.|+=+|+..+ ||...++++.+..+.+++
T Consensus 12 I~VVALlV~G---PerLPe~aRtl-Gk~irk~R~~~~~vk~El 50 (214)
T PRK04654 12 IAVVALVVLG---PERLPKAARFA-GLWVRRARMQWDSVKQEL 50 (214)
T ss_pred HHHHHHHhcC---chHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 4445666676 57999999998 888888777666655544
No 100
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=25.48 E-value=2.2e+02 Score=20.11 Aligned_cols=46 Identities=15% Similarity=0.167 Sum_probs=29.8
Q ss_pred HHHHHHHHHhhCCCCC----------ChHHHHHHHhCCCCCHHHHHHHHHHHHHhHh
Q 032677 28 EDKLFEHALVMFPEES----------PDRWQKIASQLPGKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 28 Edk~le~al~~~~~~~----------~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~ 74 (136)
....|..+|...|+.. .-..+.||+.+ |.|...|+.+......-++
T Consensus 115 ~~~~l~~~l~~L~~~~r~i~~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~lr 170 (179)
T PRK11924 115 DLARIDRCLDALPVKQREVFLLRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQLLR 170 (179)
T ss_pred HHHHHHHHHHhCCHHHHHHhhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3445667777766421 23478999998 8888888777666554443
No 101
>PF00887 ACBP: Acyl CoA binding protein; InterPro: IPR000582 Acyl-CoA-binding protein (ACBP) is a small (10 Kd) protein that binds medium- and long-chain acyl-CoA esters with very high affinity and may function as an intracellular carrier of acyl-CoA esters []. ACBP is also known as diazepam binding inhibitor (DBI) or endozepine (EP) because of its ability to displace diazepam from the benzodiazepine (BZD) recognition site located on the GABA type A receptor. It is therefore possible that this protein also acts as a neuropeptide to modulate the action of the GABA receptor []. ACBP is a highly conserved protein of about 90 residues that is found in all four eukaryotic kingdoms, Animalia, Plantae, Fungi and Protista, and in some eubacterial species []. Although ACBP occurs as a completely independent protein, intact ACB domains have been identified in a number of large, multifunctional proteins in a variety of eukaryotic species. These include large membrane-associated proteins with N-terminal ACB domains, multifunctional enzymes with both ACB and peroxisomal enoyl-CoA Delta(3), Delta(2)-enoyl-CoA isomerase domains, and proteins with both an ACB domain and ankyrin repeats (IPR002110 from INTERPRO) []. The ACB domain consists of four alpha-helices arranged in a bowl shape with a highly exposed acyl-CoA-binding site. The ligand is bound through specific interactions with residues on the protein, most notably several conserved positive charges that interact with the phosphate group on the adenosine-3'phosphate moiety, and the acyl chain is sandwiched between the hydrophobic surfaces of CoA and the protein []. Other proteins containing an ACB domain include: Endozepine-like peptide (ELP) (gene DBIL5) from mouse []. ELP is a testis-specific ACBP homologue that may be involved in the energy metabolism of the mature sperm. MA-DBI, a transmembrane protein of unknown function which has been found in mammals. MA-DBI contains a N-terminal ACB domain. DRS-1 [], a human protein of unknown function that contains a N-terminal ACB domain and a C-terminal enoyl-CoA isomerase/hydratase domain. ; GO: 0000062 fatty-acyl-CoA binding; PDB: 2CB8_A 2FJ9_A 2LBB_A 1ST7_A 3EPY_B 2FDQ_C 1NTI_A 1HB8_A 1ACA_A 1NVL_A ....
Probab=25.45 E-value=74 Score=21.00 Aligned_cols=21 Identities=33% Similarity=0.445 Sum_probs=18.0
Q ss_pred CCCCCHHHHHHHHHHHHHhHh
Q 032677 54 LPGKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 54 vpgrt~~qv~~ry~~l~~dv~ 74 (136)
+.|.|..+.+.+|..+++.+.
T Consensus 63 l~gms~~eA~~~Yi~~v~~~~ 83 (87)
T PF00887_consen 63 LKGMSKEEAMREYIELVEELI 83 (87)
T ss_dssp TTTTHHHHHHHHHHHHHHHHH
T ss_pred ccCCCHHHHHHHHHHHHHHHH
Confidence 479999999999999987653
No 102
>PF05491 RuvB_C: Holliday junction DNA helicase ruvB C-terminus; InterPro: IPR008823 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the C-terminal region of the proteins; it is thought to be a helicase DNA-binding domain.; GO: 0003677 DNA binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 3PFI_B 1IXR_C 1HQC_B 1IXS_B 1IN8_A 1IN4_A 1IN5_A 1J7K_A 1IN6_A 1IN7_A.
Probab=25.42 E-value=94 Score=20.80 Aligned_cols=42 Identities=17% Similarity=0.269 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHHhhCCCCCChHHHHHHHhCCC--CCHHHHHHHHH
Q 032677 25 NRSEDKLFEHALVMFPEESPDRWQKIASQLPG--KSAVEVREHYE 67 (136)
Q Consensus 25 T~eEdk~le~al~~~~~~~~~rW~~IA~~vpg--rt~~qv~~ry~ 67 (136)
..-+.+.|+.++..|..+ |---+.||+.+.- .|.++|.+-|-
T Consensus 7 d~~D~~yL~~l~~~f~gg-PvGl~tlA~~l~ed~~Tie~v~EPyL 50 (76)
T PF05491_consen 7 DELDRRYLKTLIENFKGG-PVGLDTLAAALGEDKETIEDVIEPYL 50 (76)
T ss_dssp BHHHHHHHHHHHHCSTTS--B-HHHHHHHTTS-HHHHHHTTHHHH
T ss_pred CHHHHHHHHHHHHHcCCC-CeeHHHHHHHHCCCHhHHHHHhhHHH
Confidence 456777888888888754 7789999999942 45566665553
No 103
>cd00435 ACBP Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a role in regulation of intermediary metabolism and gene regulation. The suggested role of ACBP is to act as a intracellular acyl-CoA transporter and pool former. ACBPs are present in a large group of eukaryotic species and several tissue-specific isoforms have been detected.
Probab=25.02 E-value=1e+02 Score=20.62 Aligned_cols=21 Identities=29% Similarity=0.366 Sum_probs=18.0
Q ss_pred CCCCCHHHHHHHHHHHHHhHh
Q 032677 54 LPGKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 54 vpgrt~~qv~~ry~~l~~dv~ 74 (136)
+.|.|.++++.+|..+++.+.
T Consensus 61 l~~ms~~eA~~~YV~~~~~l~ 81 (85)
T cd00435 61 LKGMSKEDAMKAYIAKVEELI 81 (85)
T ss_pred cCCCCHHHHHHHHHHHHHHHh
Confidence 478999999999999997553
No 104
>PRK03906 mannonate dehydratase; Provisional
Probab=24.87 E-value=81 Score=27.11 Aligned_cols=50 Identities=14% Similarity=0.214 Sum_probs=36.2
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCC--------CCCHHHHHHHHHHHHHhHh
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLP--------GKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vp--------grt~~qv~~ry~~l~~dv~ 74 (136)
.+..||.++.+.++..|..++- .|+.|.+ +| +-+..+-++.|+..+..+-
T Consensus 36 ~g~~W~~~~i~~~~~~ie~~Gl----~~~vvEs-~pv~~~Ik~g~~~rd~~ie~y~~sirnlg 93 (385)
T PRK03906 36 VGEVWPVEEILARKAEIEAAGL----EWSVVES-VPVHEDIKTGTPNRDRYIENYKQTLRNLA 93 (385)
T ss_pred CCCCCCHHHHHHHHHHHHHcCC----eEEEEeC-CCccHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 4578999999999999999985 5666643 33 3455677788888766444
No 105
>PF14003 YlbE: YlbE-like protein
Probab=23.73 E-value=90 Score=20.35 Aligned_cols=29 Identities=31% Similarity=0.390 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHhhCC-CCCChHHHHHHHhC
Q 032677 26 RSEDKLFEHALVMFP-EESPDRWQKIASQL 54 (136)
Q Consensus 26 ~eEdk~le~al~~~~-~~~~~rW~~IA~~v 54 (136)
++|...|+.+...|- ...|+|-++|+..|
T Consensus 22 P~~l~~fe~~a~~~y~kT~p~rVek~~n~l 51 (65)
T PF14003_consen 22 PEELEAFEKEAKHFYKKTIPHRVEKFSNQL 51 (65)
T ss_pred HHHHHHHHHHHHHHHhccccHHHHHHHhHH
Confidence 567777777555443 34477777777665
No 106
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=23.55 E-value=99 Score=19.49 Aligned_cols=21 Identities=29% Similarity=0.199 Sum_probs=15.4
Q ss_pred CCCCCHHHHHHHHHHHHhhCC
Q 032677 115 GTPWTEEEHKLFLIGLKKIRQ 135 (136)
Q Consensus 115 g~pWTeeEhrlfL~gL~kyGK 135 (136)
+.+||.+|=+.||..+.+=||
T Consensus 30 ~~~~s~~eL~~fL~~lv~e~~ 50 (60)
T PF08672_consen 30 GYDISLEELQEFLDRLVEEGK 50 (60)
T ss_dssp -TT--HHHHHHHHHHHHHTTS
T ss_pred CCCCCHHHHHHHHHHHHHCCc
Confidence 468999999999999887654
No 107
>TIGR00695 uxuA mannonate dehydratase. This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.
Probab=22.56 E-value=1.3e+02 Score=26.05 Aligned_cols=50 Identities=14% Similarity=0.268 Sum_probs=37.0
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCChHHHHHHHhCC--------CCCHHHHHHHHHHHHHhHh
Q 032677 20 HSTHWNRSEDKLFEHALVMFPEESPDRWQKIASQLP--------GKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~~~~~rW~~IA~~vp--------grt~~qv~~ry~~l~~dv~ 74 (136)
.+..||.++...++..|+.++- +|+.|.+ +| +-...+-++.|+..+..+.
T Consensus 36 ~gevW~~~~i~~~k~~ie~~GL----~~~vvEs-~pv~e~Ik~g~~~rd~~Ienyk~~irNla 93 (394)
T TIGR00695 36 NGEVWEKEEIRKRKEYIESAGL----HWSVVES-VPVHEAIKTGTGNYGRWIENYKQTLRNLA 93 (394)
T ss_pred CCCCCCHHHHHHHHHHHHHcCC----eEEEEeC-CCccHHHHcCCCcHHHHHHHHHHHHHHHH
Confidence 3568999999999999999885 5766643 33 2345677888888876554
No 108
>COG4387 Mu-like prophage protein gp36 [Function unknown]
Probab=22.17 E-value=1.9e+02 Score=21.43 Aligned_cols=31 Identities=26% Similarity=0.363 Sum_probs=25.5
Q ss_pred CCCHHHHHHHHHHHHHhHhhhccCCccCCCC
Q 032677 56 GKSAVEVREHYEALVHDVYEIDSGRVELPSY 86 (136)
Q Consensus 56 grt~~qv~~ry~~l~~dv~~ie~g~v~~p~~ 86 (136)
+|-..|.++||+.-+.-++.+-+|.|++-..
T Consensus 80 ~r~Tdq~r~rYe~av~~L~~va~G~V~lGvd 110 (139)
T COG4387 80 NRATDQARQRYEDAVRFLEKVASGAVSLGVD 110 (139)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHcCCCccccC
Confidence 6778999999999877778888999886443
No 109
>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=21.77 E-value=1.7e+02 Score=16.57 Aligned_cols=34 Identities=26% Similarity=0.215 Sum_probs=24.4
Q ss_pred HHHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHH
Q 032677 28 EDKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHY 66 (136)
Q Consensus 28 Edk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry 66 (136)
|-..++.+|..+.. +..+.|..+ |-+...+..+-
T Consensus 6 E~~~i~~aL~~~~g----n~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 6 EKQLIRQALERCGG----NVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHTTT-----HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHhCC----CHHHHHHHH-CCCHHHHHHHH
Confidence 66788999999974 578888888 77776665543
No 110
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=21.34 E-value=84 Score=21.12 Aligned_cols=40 Identities=25% Similarity=0.343 Sum_probs=26.2
Q ss_pred HHHHHHHHhhCCCCCChHHHHHHHhCCCCCHHHHHHHHHHH
Q 032677 29 DKLFEHALVMFPEESPDRWQKIASQLPGKSAVEVREHYEAL 69 (136)
Q Consensus 29 dk~le~al~~~~~~~~~rW~~IA~~vpgrt~~qv~~ry~~l 69 (136)
-.+|..+|...-.|.|-.=+.+|+.. |+++++|+.--..+
T Consensus 23 ~~L~r~LLr~LA~G~PVt~~~LA~a~-g~~~e~v~~~L~~~ 62 (77)
T PF12324_consen 23 AWLLRPLLRLLAKGQPVTVEQLAAAL-GWPVEEVRAALAAM 62 (77)
T ss_dssp HHHHHHHHHHHTTTS-B-HHHHHHHH-T--HHHHHHHHHH-
T ss_pred HHHHHHHHHHHHcCCCcCHHHHHHHH-CCCHHHHHHHHHhC
Confidence 34566666666667788889999999 89999998654444
No 111
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=21.32 E-value=1.8e+02 Score=24.28 Aligned_cols=47 Identities=17% Similarity=0.237 Sum_probs=37.8
Q ss_pred CCCCCCHHHHHHHHHHHhhCCC-CCChHHHHHHHhCCCCCHHHHHHHHHH
Q 032677 20 HSTHWNRSEDKLFEHALVMFPE-ESPDRWQKIASQLPGKSAVEVREHYEA 68 (136)
Q Consensus 20 ~~~~WT~eEdk~le~al~~~~~-~~~~rW~~IA~~vpgrt~~qv~~ry~~ 68 (136)
+...+|.-+...||+-+.+..- ..+|| ..||+.+ |-|..||+-=|.+
T Consensus 175 sRTaFT~~Ql~~LEkrF~~QKYLS~~DR-~~LA~~L-gLTdaQVKtWfQN 222 (309)
T KOG0488|consen 175 SRTAFSDHQLFELEKRFEKQKYLSVADR-IELAASL-GLTDAQVKTWFQN 222 (309)
T ss_pred chhhhhHHHHHHHHHHHHHhhcccHHHH-HHHHHHc-CCchhhHHHHHhh
Confidence 4467999999999998765432 34788 9999999 9999999877766
No 112
>PLN03162 golden-2 like transcription factor; Provisional
Probab=21.31 E-value=4.4e+02 Score=23.23 Aligned_cols=49 Identities=16% Similarity=0.281 Sum_probs=37.1
Q ss_pred CCCCHHHHHHHHHHHhhCCCC--CChHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 032677 22 THWNRSEDKLFEHALVMFPEE--SPDRWQKIASQLPGKSAVEVREHYEALVH 71 (136)
Q Consensus 22 ~~WT~eEdk~le~al~~~~~~--~~~rW~~IA~~vpgrt~~qv~~ry~~l~~ 71 (136)
-.||.|=.+.|..||...+.. +|.+--+|= .|+|-|...|..|-++..-
T Consensus 238 LrWTpELH~rFVeAV~qLG~dKATPK~ILelM-nV~GLTRenVKSHLQKYRl 288 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQLGVEKAFPSRILELM-GVQCLTRHNIASHLQKYRS 288 (526)
T ss_pred ccCCHHHHHHHHHHHHHhCcCccchHHHHHHc-CCCCcCHHHHHHHHHHHHH
Confidence 469999999999999999842 465544443 2679999999888777643
No 113
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=20.75 E-value=57 Score=22.70 Aligned_cols=45 Identities=20% Similarity=0.172 Sum_probs=30.8
Q ss_pred CHHHHHHHHHHHhhCCCCCChHHHHHHHh----CCCCCHHHHHHHHHHHHHhHh
Q 032677 25 NRSEDKLFEHALVMFPEESPDRWQKIASQ----LPGKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 25 T~eEdk~le~al~~~~~~~~~rW~~IA~~----vpgrt~~qv~~ry~~l~~dv~ 74 (136)
..+|..+|.+||.+.-. ....+++. ++... .++.+-+..|++|-.
T Consensus 33 ~~~E~~rl~~Al~~~~~----eL~~l~~~~~~~~~~~~-a~If~ah~~~L~D~~ 81 (123)
T PF05524_consen 33 IEAEIERLEQALEKARE----ELEQLAERAESKLGEEE-AAIFEAHLMMLEDPE 81 (123)
T ss_dssp HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHCHSSC-THHHHHHHHHHT-HH
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHhccccH-HHHHHHHHHHhcCHh
Confidence 36788999999998754 34444444 53333 489999999988733
No 114
>PF07030 DUF1320: Protein of unknown function (DUF1320); InterPro: IPR009752 This entry is represented by the Bacteriophage Mu, Gp36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=20.58 E-value=1.9e+02 Score=20.56 Aligned_cols=28 Identities=25% Similarity=0.381 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhHhhhccCCccCCCC
Q 032677 59 AVEVREHYEALVHDVYEIDSGRVELPSY 86 (136)
Q Consensus 59 ~~qv~~ry~~l~~dv~~ie~g~v~~p~~ 86 (136)
.+++++||+.-+.-++.|-.|.+.++.-
T Consensus 84 ~e~~~~rY~~A~~~L~~ia~G~~~L~~~ 111 (130)
T PF07030_consen 84 TEPVRERYKDAIKWLEDIAKGKISLGLP 111 (130)
T ss_pred cHHHHHHHHHHHHHHHHHHCCCccCCCC
Confidence 7899999999999999999999886544
No 115
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=20.06 E-value=3.1e+02 Score=20.19 Aligned_cols=49 Identities=12% Similarity=0.135 Sum_probs=32.3
Q ss_pred CHHHHHHHHHHHhhCCCCC----------ChHHHHHHHhCCCCCHHHHHHHHHHHHHhHh
Q 032677 25 NRSEDKLFEHALVMFPEES----------PDRWQKIASQLPGKSAVEVREHYEALVHDVY 74 (136)
Q Consensus 25 T~eEdk~le~al~~~~~~~----------~~rW~~IA~~vpgrt~~qv~~ry~~l~~dv~ 74 (136)
+.++...|..+|...|+.. .-....||+.+ |.|..-|+.+-...+..++
T Consensus 129 ~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~s~~EIA~~L-gis~~tVk~~l~ra~~~Lr 187 (194)
T PRK09646 129 ARLERERVRDCLDALTDTQRESVTLAYYGGLTYREVAERL-AVPLGTVKTRMRDGLIRLR 187 (194)
T ss_pred HHhHHHHHHHHHHhCCHHHHHHHHHHHHcCCCHHHHHHHh-CCChHhHHHHHHHHHHHHH
Confidence 3456677888998887521 12267888888 7788777777655544443
No 116
>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional
Probab=20.02 E-value=1e+02 Score=29.10 Aligned_cols=16 Identities=25% Similarity=0.420 Sum_probs=14.3
Q ss_pred CCCHHHHHHHHHHHHH
Q 032677 56 GKSAVEVREHYEALVH 71 (136)
Q Consensus 56 grt~~qv~~ry~~l~~ 71 (136)
|-|.++|+.+|..|..
T Consensus 62 ~~~~~~~~~~~~~l~~ 77 (788)
T PRK15387 62 GTTREDVINRFELLRT 77 (788)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 7889999999999975
Done!