Query 020167
Match_columns 330
No_of_seqs 222 out of 787
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 07:33:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020167.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020167hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01557 myb_SHAQKYF myb-like 99.6 3E-15 6.6E-20 112.4 6.1 50 77-126 1-56 (57)
2 KOG0724 Zuotin and related mol 99.6 1.3E-16 2.7E-21 151.4 -3.7 252 62-328 35-313 (335)
3 PF00249 Myb_DNA-binding: Myb- 99.5 3.2E-14 6.9E-19 101.2 6.3 45 79-123 1-47 (48)
4 smart00717 SANT SANT SWI3, AD 99.2 2.5E-11 5.5E-16 82.2 5.3 46 79-124 1-47 (49)
5 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 5.7E-11 1.2E-15 79.6 5.6 43 81-123 1-44 (45)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.1 1.2E-10 2.5E-15 85.4 4.9 42 82-123 1-42 (60)
7 KOG0457 Histone acetyltransfer 99.1 1.9E-10 4.1E-15 115.2 7.3 65 62-126 49-120 (438)
8 PLN03212 Transcription repress 98.8 9.3E-09 2E-13 97.2 5.8 51 77-127 23-75 (249)
9 PLN03212 Transcription repress 98.7 4.1E-08 9E-13 92.9 8.5 53 77-129 76-128 (249)
10 COG5114 Histone acetyltransfer 98.7 3.9E-08 8.5E-13 96.5 8.4 65 62-126 40-111 (432)
11 PLN03091 hypothetical protein; 98.7 1.5E-08 3.2E-13 102.3 5.2 53 74-126 9-63 (459)
12 PLN03091 hypothetical protein; 98.6 9.8E-08 2.1E-12 96.4 7.3 53 77-129 65-117 (459)
13 COG5259 RSC8 RSC chromatin rem 98.6 8.1E-08 1.7E-12 97.6 5.7 42 79-120 279-320 (531)
14 KOG0048 Transcription factor, 98.5 1.7E-07 3.7E-12 86.6 7.2 53 77-129 60-112 (238)
15 KOG1279 Chromatin remodeling f 98.4 4.6E-07 1E-11 93.1 5.9 44 77-120 251-294 (506)
16 KOG0048 Transcription factor, 98.4 2.7E-07 5.9E-12 85.3 3.7 51 79-129 9-61 (238)
17 PLN03162 golden-2 like transcr 97.7 0.0002 4.3E-09 72.1 10.3 55 76-130 234-293 (526)
18 KOG0049 Transcription factor, 97.7 6.9E-05 1.5E-09 79.4 6.1 53 77-129 358-411 (939)
19 KOG4468 Polycomb-group transcr 96.9 0.0034 7.3E-08 66.5 8.2 53 78-130 87-149 (782)
20 KOG0051 RNA polymerase I termi 96.7 0.0017 3.7E-08 68.5 4.8 53 73-126 377-430 (607)
21 PF13837 Myb_DNA-bind_4: Myb/S 96.6 0.0038 8.2E-08 48.3 4.9 51 79-129 1-69 (90)
22 KOG0049 Transcription factor, 96.3 0.005 1.1E-07 65.8 5.3 45 78-122 411-456 (939)
23 KOG0051 RNA polymerase I termi 96.2 0.0053 1.1E-07 64.9 4.6 52 77-128 434-511 (607)
24 KOG0050 mRNA splicing protein 96.1 0.0067 1.5E-07 63.3 4.8 54 75-128 3-57 (617)
25 COG5118 BDP1 Transcription ini 95.3 0.035 7.6E-07 56.5 6.1 42 77-118 363-404 (507)
26 KOG4167 Predicted DNA-binding 95.0 0.042 9E-07 59.6 5.9 43 79-121 619-661 (907)
27 COG5147 REB1 Myb superfamily p 94.9 0.017 3.7E-07 60.2 2.7 58 72-129 13-71 (512)
28 PF13873 Myb_DNA-bind_5: Myb/S 94.6 0.15 3.3E-06 39.0 6.7 51 79-129 2-74 (78)
29 PF11035 SnAPC_2_like: Small n 94.6 1.4 3E-05 44.2 14.8 52 78-129 20-75 (344)
30 KOG4329 DNA-binding protein [G 94.1 0.075 1.6E-06 53.9 5.2 47 77-126 275-322 (445)
31 KOG3841 TEF-1 and related tran 93.4 0.38 8.3E-06 49.1 8.6 54 77-130 74-148 (455)
32 KOG3554 Histone deacetylase co 93.3 0.085 1.8E-06 55.1 4.0 49 72-120 278-327 (693)
33 KOG1194 Predicted DNA-binding 93.0 0.19 4E-06 52.3 5.9 41 80-120 188-228 (534)
34 KOG0724 Zuotin and related mol 92.8 0.071 1.5E-06 51.2 2.4 70 77-153 162-238 (335)
35 COG5147 REB1 Myb superfamily p 92.7 0.14 3.1E-06 53.5 4.6 53 77-129 70-122 (512)
36 PLN03142 Probable chromatin-re 92.3 0.29 6.2E-06 55.0 6.6 48 79-126 824-872 (1033)
37 smart00426 TEA TEA domain. 92.2 0.17 3.6E-06 40.2 3.4 43 79-121 3-66 (68)
38 PF09111 SLIDE: SLIDE; InterP 92.0 0.57 1.2E-05 40.2 6.7 58 72-129 42-115 (118)
39 PF12776 Myb_DNA-bind_3: Myb/S 91.0 0.72 1.6E-05 36.1 5.9 43 81-123 1-61 (96)
40 KOG0050 mRNA splicing protein 90.0 0.33 7.2E-06 51.2 4.0 47 78-125 58-104 (617)
41 TIGR02894 DNA_bind_RsfA transc 88.2 0.98 2.1E-05 41.1 5.2 49 78-127 3-58 (161)
42 KOG4282 Transcription factor G 87.6 6.9 0.00015 38.0 11.1 51 79-129 54-118 (345)
43 PF08914 Myb_DNA-bind_2: Rap1 87.1 0.99 2.1E-05 35.1 4.0 48 79-126 2-59 (65)
44 PF01285 TEA: TEA/ATTS domain 85.6 1.1 2.3E-05 46.1 4.5 48 76-123 46-112 (431)
45 PRK13923 putative spore coat p 83.0 1.6 3.5E-05 40.0 4.0 49 78-126 4-58 (170)
46 PF04504 DUF573: Protein of un 82.7 4.8 0.0001 33.3 6.4 43 79-121 4-59 (98)
47 PF13404 HTH_AsnC-type: AsnC-t 78.9 7.7 0.00017 27.4 5.5 38 84-122 2-40 (42)
48 KOG2009 Transcription initiati 76.3 2.3 5.1E-05 45.4 3.3 50 78-130 408-457 (584)
49 KOG1194 Predicted DNA-binding 70.8 8.9 0.00019 40.4 5.8 53 77-129 367-419 (534)
50 PF02954 HTH_8: Bacterial regu 70.6 11 0.00025 26.1 4.6 25 86-110 6-30 (42)
51 PF01388 ARID: ARID/BRIGHT DNA 69.9 10 0.00022 29.8 4.8 37 90-126 41-90 (92)
52 PF08281 Sigma70_r4_2: Sigma-7 69.3 17 0.00037 25.7 5.4 39 85-124 13-51 (54)
53 PRK11179 DNA-binding transcrip 66.6 13 0.00027 32.2 5.1 44 84-132 8-52 (153)
54 smart00501 BRIGHT BRIGHT, ARID 65.3 20 0.00043 28.6 5.6 41 87-128 35-88 (93)
55 PLN03142 Probable chromatin-re 65.2 17 0.00037 41.5 7.0 54 77-130 924-990 (1033)
56 PRK11169 leucine-responsive tr 63.0 15 0.00033 32.1 4.9 44 84-132 13-57 (164)
57 KOG1878 Nuclear receptor coreg 60.0 3.9 8.5E-05 47.9 1.0 48 85-132 360-407 (1672)
58 PF10141 ssDNA-exonuc_C: Singl 59.9 9 0.0002 34.8 3.1 46 256-301 90-138 (195)
59 TIGR02937 sigma70-ECF RNA poly 57.4 38 0.00082 26.6 6.0 47 81-129 110-156 (158)
60 KOG0385 Chromatin remodeling c 55.3 22 0.00047 40.0 5.5 59 71-130 787-846 (971)
61 KOG0493 Transcription factor E 54.8 1.4E+02 0.0029 30.0 10.3 53 78-131 249-305 (342)
62 PF06461 DUF1086: Domain of Un 54.2 36 0.00078 30.8 5.8 48 81-128 40-90 (145)
63 PF09420 Nop16: Ribosome bioge 53.9 25 0.00053 31.2 4.8 46 78-123 113-162 (164)
64 smart00344 HTH_ASNC helix_turn 53.5 32 0.00069 27.3 5.0 44 84-132 2-46 (108)
65 PF04545 Sigma70_r4: Sigma-70, 52.0 69 0.0015 22.4 6.0 42 86-128 8-49 (50)
66 PF11626 Rap1_C: TRF2-interact 49.9 10 0.00022 30.4 1.6 17 77-93 45-61 (87)
67 PF10561 UPF0565: Uncharacteri 47.4 16 0.00034 36.3 2.7 29 71-99 273-301 (303)
68 PF07750 GcrA: GcrA cell cycle 45.8 35 0.00075 30.7 4.5 38 81-119 2-39 (162)
69 KOG2656 DNA methyltransferase 45.5 19 0.00041 37.4 3.0 51 79-129 130-186 (445)
70 PRK01905 DNA-binding protein F 43.7 68 0.0015 25.1 5.3 28 83-110 35-62 (77)
71 smart00595 MADF subfamily of S 43.6 42 0.00092 25.8 4.1 23 100-123 29-51 (89)
72 PRK00430 fis global DNA-bindin 43.3 63 0.0014 26.6 5.3 26 85-110 55-80 (95)
73 PF13325 MCRS_N: N-terminal re 41.0 60 0.0013 30.6 5.4 46 78-123 72-125 (199)
74 PHA00442 host recBCD nuclease 41.0 17 0.00036 28.3 1.4 33 75-107 8-49 (59)
75 PF10440 WIYLD: Ubiquitin-bind 40.6 17 0.00038 28.7 1.5 19 88-106 30-48 (65)
76 cd06171 Sigma70_r4 Sigma70, re 40.2 1E+02 0.0022 20.0 5.5 42 81-124 10-51 (55)
77 KOG0384 Chromodomain-helicase 35.9 1.3E+02 0.0027 35.7 7.8 53 78-131 1132-1197(1373)
78 KOG1019 Retinoblastoma pathway 34.7 22 0.00048 39.7 1.7 56 63-118 28-84 (837)
79 PF11593 Med3: Mediator comple 34.4 68 0.0015 33.0 5.0 13 65-77 190-202 (379)
80 KOG1878 Nuclear receptor coreg 33.8 15 0.00033 43.3 0.4 54 67-120 213-266 (1672)
81 PRK11924 RNA polymerase sigma 32.9 1.5E+02 0.0032 24.7 6.1 32 97-129 140-171 (179)
82 cd08311 Death_p75NR Death doma 31.9 35 0.00076 27.2 2.0 32 84-118 2-34 (77)
83 PF10545 MADF_DNA_bdg: Alcohol 31.7 82 0.0018 23.3 3.9 25 100-124 28-53 (85)
84 COG3604 FhlA Transcriptional r 31.0 58 0.0012 35.0 3.9 45 80-125 501-545 (550)
85 PF12451 VPS11_C: Vacuolar pro 30.9 45 0.00097 24.5 2.3 28 83-110 17-44 (49)
86 PF13384 HTH_23: Homeodomain-l 30.2 93 0.002 21.5 3.8 34 83-118 3-36 (50)
87 PF06628 Catalase-rel: Catalas 29.9 1.8E+02 0.004 22.2 5.6 39 81-129 19-57 (68)
88 TIGR02915 PEP_resp_reg putativ 29.6 69 0.0015 31.5 4.1 29 84-112 404-433 (445)
89 TIGR02985 Sig70_bacteroi1 RNA 28.5 2.3E+02 0.0049 23.0 6.4 31 97-128 128-158 (161)
90 PF01410 COLFI: Fibrillar coll 28.0 31 0.00067 32.0 1.3 16 4-19 21-36 (214)
91 PRK10365 transcriptional regul 27.5 67 0.0014 31.4 3.6 29 84-112 404-433 (441)
92 COG1522 Lrp Transcriptional re 27.3 1.7E+02 0.0038 24.3 5.6 44 84-132 7-51 (154)
93 PF08074 CHDCT2: CHDCT2 (NUC03 27.3 37 0.0008 31.5 1.6 28 79-106 3-31 (173)
94 PRK11608 pspF phage shock prot 26.5 84 0.0018 30.5 4.0 38 85-131 286-324 (326)
95 PRK09652 RNA polymerase sigma 26.4 2.4E+02 0.0051 23.5 6.2 30 97-127 143-172 (182)
96 cd08780 Death_TRADD Death Doma 26.0 1.2E+02 0.0026 25.6 4.2 24 83-109 1-24 (90)
97 PF12181 MogR_DNAbind: DNA bin 25.9 1.8E+02 0.004 26.3 5.6 64 78-144 59-134 (148)
98 PRK09643 RNA polymerase sigma 24.3 2.5E+02 0.0054 24.6 6.3 31 96-127 148-178 (192)
99 KOG0487 Transcription factor A 23.8 59 0.0013 32.5 2.4 58 64-130 233-293 (308)
100 cd08317 Death_ank Death domain 22.9 69 0.0015 25.2 2.3 23 88-110 5-27 (84)
101 PRK05022 anaerobic nitric oxid 22.9 1.1E+02 0.0024 31.5 4.3 40 84-132 467-507 (509)
102 PRK11388 DNA-binding transcrip 21.8 1.4E+02 0.003 31.5 4.8 42 82-132 588-630 (638)
103 PF01527 HTH_Tnp_1: Transposas 21.7 2.8E+02 0.006 20.5 5.2 46 78-125 3-48 (76)
104 smart00005 DEATH DEATH domain, 21.4 86 0.0019 24.0 2.5 23 88-110 6-29 (88)
105 PF09862 DUF2089: Protein of u 20.9 3E+02 0.0065 23.9 5.8 43 84-127 35-77 (113)
106 PF00191 Annexin: Annexin; In 20.0 1.3E+02 0.0028 21.9 3.0 38 89-126 5-42 (66)
No 1
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=99.58 E-value=3e-15 Score=112.45 Aligned_cols=50 Identities=48% Similarity=0.727 Sum_probs=46.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCc-hH---HHHHHHhC-CC-CHHHHHHHHHHHHHH
Q 020167 77 KSRESWTEQEHDKFLEALQLFDR-DW---KKIEAFIG-SK-TVIQIRSHAQKYFLK 126 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGr-dW---kkIA~~Vg-TR-T~~Q~RSHaQKYf~k 126 (330)
|.|..||+|||.+||+||+.||+ +| ++|+++++ ++ |..||+||+||||.+
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 46789999999999999999997 99 99998775 67 999999999999986
No 2
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=1.3e-16 Score=151.44 Aligned_cols=252 Identities=23% Similarity=0.142 Sum_probs=170.8
Q ss_pred CCCCCCCCCCCcccccCCC-CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhhc-CCC---CCC
Q 020167 62 AEDPSKKIRKPYTITKSRE-SWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN-GTS---EHV 136 (330)
Q Consensus 62 ~e~~~kKirkPy~i~k~r~-~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~-g~~---e~i 136 (330)
.++..++++++|.+.+.+. .||.+||+.|.++|..|++.|+.|-++++.++..|+++|+|+||-++.+. +.. +.+
T Consensus 35 ~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~~~~~~~~~~~~ 114 (335)
T KOG0724|consen 35 TEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGKSDTSLAEVEEF 114 (335)
T ss_pred HHHHHHHHHHHHHHHhccccccchhhhhHHHhcCccccccchhHHhhhhhHHHHhhhhccCCCccccCcccccccccccc
Confidence 4566789999999998654 49999999999999999889999999999999999999999999998874 222 348
Q ss_pred CCCCCCCCCCCCCCCCCCCCCcccccccCCccCccccCCCCcccCCCCCCccCCCCCCccCCCCCCCCCCCccCcccccc
Q 020167 137 PPPRPKRKAAHPYPQKAPKTVHGVSQFGGQVQSSAALLEPGYIYRPDSSSVLGNPVPVAALSSWSYDSVPPVNVSQVTKD 216 (330)
Q Consensus 137 P~pr~KRks~h~~p~~~~~~~~~~~q~~~~~qss~~~~~~g~~~~~dsssv~~~~~~~~~~~sw~~~~~~~~~~~~~~~~ 216 (330)
|++++++++.|+|+++...+.... ..........+. +++....+..+..+..+.......|.... ..
T Consensus 115 ~~~~~~~k~~~~y~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~ 181 (335)
T KOG0724|consen 115 YNFWPKFKSWRQYPQKDEPDEEDS--ENRSQSRYSGGT-QRGKSNAEELRRKGTPVTERERKLVLLAL----------KK 181 (335)
T ss_pred CCccccccccccCCCCCCcccccc--cchhhhhhcccc-cccccchhhhhhccchhHHHHHHHHHhhh----------cc
Confidence 999999999999999987653322 111111112222 33444444444444444333322222210 00
Q ss_pred CCCCCCCCCCCc----ccccCCCCCCC------CccccccccCCCCCCCCCccCCChHHHHh--hhhccc-----C----
Q 020167 217 DVGLPGSSNAQN----FCYSSSNDSTL------RTWPVGETIDRGDHGKPRRVMPDFAQVYS--FLGSVF-----D---- 275 (330)
Q Consensus 217 d~~~~g~~~~~~----~~~~s~~~s~~------~~~~~~~~~~~~~~~~~l~~~PdFaqVY~--FigsvF-----d---- 275 (330)
++.........+ .+.. .-++-. +........+.....+.++.++++.+++. |.++++ +
T Consensus 182 ~~~~~~~~~~~~~~~~r~~~-~~~s~a~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 260 (335)
T KOG0724|consen 182 DGKIDWRKISQNVEKERTPE-QVASHAQEKAFEKALARQKSGEEEKRRKSIEDITTASEAEDRKKEDEAAKEAKKKPRDT 260 (335)
T ss_pred cccccceechhhhhhhhcch-hhhhhhhhhhhHHHHHHHhhhccccccchhhhhhccchhhhhhcchhhhhhhhcccccc
Confidence 111000000010 0100 000100 11111223345567788899999999988 999999 7
Q ss_pred CCchhhhHhhccCCchhHHHHHHHHH-HHHhhcCChhhhhhhhhheeccccccc
Q 020167 276 PNSTGHIQRLKQMDPINFETVLLLMR-NLAINLTSPEFEDHVSTCLFSALCKSC 328 (330)
Q Consensus 276 p~~~~hlq~Lk~MdpI~~ETvLLLmr-NLs~NL~sp~fe~~~~~l~~~~~~~~~ 328 (330)
|...+|.+.++.|++++.++.++.|. |+..+|+++.|+.++.+.+- ++|.++
T Consensus 261 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 313 (335)
T KOG0724|consen 261 PSLKSRNKRLKSFDGIAEESSETEDSLELVAALSAPMEEPQWELKAA-AGSNSS 313 (335)
T ss_pred ccccchhhhcccCCccCCCchhHHHhHHHHHhhhccccccHHHHHhh-ccccch
Confidence 88899999999999999999999999 89999999999999666555 665554
No 3
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.51 E-value=3.2e-14 Score=101.17 Aligned_cols=45 Identities=42% Similarity=0.725 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHcCch-HHHHHHHhC-CCCHHHHHHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLFDRD-WKKIEAFIG-SKTVIQIRSHAQKY 123 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yGrd-WkkIA~~Vg-TRT~~Q~RSHaQKY 123 (330)
++.||+||+++|++||++||.+ |+.||++|+ +||..||++||++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhh
Confidence 5789999999999999999986 999999999 99999999999987
No 4
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.21 E-value=2.5e-11 Score=82.18 Aligned_cols=46 Identities=24% Similarity=0.539 Sum_probs=42.7
Q ss_pred CCCCCHHHHHHHHHHHHHcC-chHHHHHHHhCCCCHHHHHHHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYF 124 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yG-rdWkkIA~~VgTRT~~Q~RSHaQKYf 124 (330)
+..||.||+.+|++++++|| .+|..||+++++||..||+.||..++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 46899999999999999999 89999999999999999999987654
No 5
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.17 E-value=5.7e-11 Score=79.59 Aligned_cols=43 Identities=30% Similarity=0.581 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHHHHHcC-chHHHHHHHhCCCCHHHHHHHHHHH
Q 020167 81 SWTEQEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKY 123 (330)
Q Consensus 81 ~WT~EEh~lFLEgLe~yG-rdWkkIA~~VgTRT~~Q~RSHaQKY 123 (330)
.||.||+.+|+.++++|| .+|..||+.+++||..||+.||+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 599999999999999999 8999999999999999999998765
No 6
>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=99.10 E-value=1.2e-10 Score=85.42 Aligned_cols=42 Identities=33% Similarity=0.670 Sum_probs=37.1
Q ss_pred CCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHH
Q 020167 82 WTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKY 123 (330)
Q Consensus 82 WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKY 123 (330)
||.||+++|++++++||.+|++||+++|.||..||+.||.++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~ 42 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNH 42 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHT
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHH
Confidence 999999999999999999999999999999999999998763
No 7
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=99.08 E-value=1.9e-10 Score=115.16 Aligned_cols=65 Identities=32% Similarity=0.559 Sum_probs=59.8
Q ss_pred CCCCCCCCCCCcccccC------CCCCCHHHHHHHHHHHHHcC-chHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 020167 62 AEDPSKKIRKPYTITKS------RESWTEQEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 62 ~e~~~kKirkPy~i~k~------r~~WT~EEh~lFLEgLe~yG-rdWkkIA~~VgTRT~~Q~RSHaQKYf~k 126 (330)
.|-+.++..|||.+-+. ...||.+|+.+||+|++.|| ++|..||+|||+||.++|+.||.|+|..
T Consensus 49 aE~~~H~~~H~Yrim~~~s~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 49 AETGKHQNDHPYRIMDTNSFPILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVN 120 (438)
T ss_pred cccCCCCCCCCceeecCCCCCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhc
Confidence 36777899999988765 67999999999999999999 7999999999999999999999999876
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.77 E-value=9.3e-09 Score=97.20 Aligned_cols=51 Identities=16% Similarity=0.296 Sum_probs=46.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhC-CCCHHHHHHHHHHHHHHH
Q 020167 77 KSRESWTEQEHDKFLEALQLFDR-DWKKIEAFIG-SKTVIQIRSHAQKYFLKV 127 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGr-dWkkIA~~Vg-TRT~~Q~RSHaQKYf~kl 127 (330)
..++.||.||+++|++++++||. +|+.||+.++ .||..|||.||.+|+..-
T Consensus 23 lKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~ 75 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPS 75 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchh
Confidence 46889999999999999999994 9999999886 899999999999997553
No 9
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.72 E-value=4.1e-08 Score=92.88 Aligned_cols=53 Identities=23% Similarity=0.231 Sum_probs=48.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 77 KSRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
.+++.||.||+++++++++.||..|..||++|++||..|||+||..++++..+
T Consensus 76 I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~ 128 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLL 128 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHH
Confidence 46899999999999999999999999999999999999999999888777544
No 10
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.71 E-value=3.9e-08 Score=96.49 Aligned_cols=65 Identities=26% Similarity=0.487 Sum_probs=58.7
Q ss_pred CCCCCCCCCCCccccc------CCCCCCHHHHHHHHHHHHHcC-chHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 020167 62 AEDPSKKIRKPYTITK------SRESWTEQEHDKFLEALQLFD-RDWKKIEAFIGSKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 62 ~e~~~kKirkPy~i~k------~r~~WT~EEh~lFLEgLe~yG-rdWkkIA~~VgTRT~~Q~RSHaQKYf~k 126 (330)
.+.+.+...++|.|.. ..+.|+.+|+.+|+++++..| ++|..||.|||+|+.++||+|+.||+..
T Consensus 40 ~~tg~H~pyH~YRiietnsypI~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~e 111 (432)
T COG5114 40 IETGVHSPYHGYRIIETNSYPIGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYDE 111 (432)
T ss_pred ccccccCCCCCeeEeeccCccccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHhh
Confidence 4667778889998864 368999999999999999999 7999999999999999999999999874
No 11
>PLN03091 hypothetical protein; Provisional
Probab=98.70 E-value=1.5e-08 Score=102.28 Aligned_cols=53 Identities=15% Similarity=0.334 Sum_probs=46.5
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhC-CCCHHHHHHHHHHHHHH
Q 020167 74 TITKSRESWTEQEHDKFLEALQLFDR-DWKKIEAFIG-SKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 74 ~i~k~r~~WT~EEh~lFLEgLe~yGr-dWkkIA~~Vg-TRT~~Q~RSHaQKYf~k 126 (330)
+....++.||.|||++|+++|++||. +|+.||+.++ +|+..|||.||.+|+..
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP 63 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRP 63 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCC
Confidence 34456789999999999999999995 8999999887 89999999999987643
No 12
>PLN03091 hypothetical protein; Provisional
Probab=98.58 E-value=9.8e-08 Score=96.45 Aligned_cols=53 Identities=19% Similarity=0.330 Sum_probs=48.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 77 KSRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
.+++.||.||+++||+.+++||.+|.+||++|++||..|||+||...++|..+
T Consensus 65 IkKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 65 LKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred ccCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999887766544
No 13
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.55 E-value=8.1e-08 Score=97.57 Aligned_cols=42 Identities=31% Similarity=0.610 Sum_probs=39.9
Q ss_pred CCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHA 120 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHa 120 (330)
...||.+|..+|||||++||.+|.+||.|||+||++||.-|+
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~F 320 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHF 320 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHH
Confidence 348999999999999999999999999999999999999975
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.54 E-value=1.7e-07 Score=86.62 Aligned_cols=53 Identities=17% Similarity=0.306 Sum_probs=48.4
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 77 KSRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
..++.||+|||++++++...||.+|..||+++++||..+||+||.-..+|..+
T Consensus 60 ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~ 112 (238)
T KOG0048|consen 60 LKRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHWNTHLKKKLL 112 (238)
T ss_pred ccCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999888665433
No 15
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=98.37 E-value=4.6e-07 Score=93.05 Aligned_cols=44 Identities=34% Similarity=0.632 Sum_probs=41.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHH
Q 020167 77 KSRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHA 120 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHa 120 (330)
..+..||++|..+|||||++||.+|.+||.|||+||..||..|+
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kF 294 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKF 294 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHH
Confidence 35789999999999999999999999999999999999999974
No 16
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.36 E-value=2.7e-07 Score=85.29 Aligned_cols=51 Identities=16% Similarity=0.286 Sum_probs=46.9
Q ss_pred CCCCCHHHHHHHHHHHHHcC-chHHHHHHHhC-CCCHHHHHHHHHHHHHHHhh
Q 020167 79 RESWTEQEHDKFLEALQLFD-RDWKKIEAFIG-SKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yG-rdWkkIA~~Vg-TRT~~Q~RSHaQKYf~kl~k 129 (330)
++.||.|||++|++.|++|| ++|..|++..| .|+..+||-||-.|++--.|
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ik 61 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLK 61 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCcc
Confidence 79999999999999999999 58999999999 99999999999998766444
No 17
>PLN03162 golden-2 like transcription factor; Provisional
Probab=97.73 E-value=0.0002 Score=72.10 Aligned_cols=55 Identities=25% Similarity=0.330 Sum_probs=47.6
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCc---hHHHHHHHh--CCCCHHHHHHHHHHHHHHHhhc
Q 020167 76 TKSRESWTEQEHDKFLEALQLFDR---DWKKIEAFI--GSKTVIQIRSHAQKYFLKVQKN 130 (330)
Q Consensus 76 ~k~r~~WT~EEh~lFLEgLe~yGr---dWkkIA~~V--gTRT~~Q~RSHaQKYf~kl~k~ 130 (330)
+|.|-.||.|-|++|++||++.|. .-|+|-+++ ..-|..+|+||.|||...+++.
T Consensus 234 KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 234 KKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 467889999999999999999993 688888775 4789999999999999987643
No 18
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.66 E-value=6.9e-05 Score=79.41 Aligned_cols=53 Identities=21% Similarity=0.376 Sum_probs=46.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 77 KSRESWTEQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
...++||.+|+.+|+.|+.+||. +|-+|-+.|++|+..|||.+|...+..-.|
T Consensus 358 ikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K 411 (939)
T KOG0049|consen 358 VKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAK 411 (939)
T ss_pred ccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhc
Confidence 46899999999999999999995 999999999999999999998776554333
No 19
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=96.88 E-value=0.0034 Score=66.45 Aligned_cols=53 Identities=28% Similarity=0.490 Sum_probs=43.0
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHH----------HHhCCCCHHHHHHHHHHHHHHHhhc
Q 020167 78 SRESWTEQEHDKFLEALQLFDRDWKKIE----------AFIGSKTVIQIRSHAQKYFLKVQKN 130 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yGrdWkkIA----------~~VgTRT~~Q~RSHaQKYf~kl~k~ 130 (330)
.+..||.+|+..|..||++||+|+.+|- .-+..||..|||.||-+...++.|.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 3789999999999999999999999982 3356789999999876655555443
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=96.73 E-value=0.0017 Score=68.46 Aligned_cols=53 Identities=25% Similarity=0.493 Sum_probs=46.1
Q ss_pred ccccc-CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 020167 73 YTITK-SRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 73 y~i~k-~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~k 126 (330)
|++-+ .++.||+||++.|...+.++|.+|+.|++.+| |.+.-||.||..|...
T Consensus 377 y~~FE~~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~lg-r~P~~crd~wr~~~~~ 430 (607)
T KOG0051|consen 377 YTPFENKRGKWTPEEEEELKKLVVEHGNDWKEIGKALG-RMPMDCRDRWRQYVKC 430 (607)
T ss_pred CCccccccCCCCcchHHHHHHHHHHhcccHHHHHHHHc-cCcHHHHHHHHHhhcc
Confidence 34444 89999999999999999999999999999998 5789999999887544
No 21
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.62 E-value=0.0038 Score=48.30 Aligned_cols=51 Identities=29% Similarity=0.480 Sum_probs=35.0
Q ss_pred CCCCCHHHHHHHHHHHHH------cC--c------hHHHHHHHhC----CCCHHHHHHHHHHHHHHHhh
Q 020167 79 RESWTEQEHDKFLEALQL------FD--R------DWKKIEAFIG----SKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~------yG--r------dWkkIA~~Vg----TRT~~Q~RSHaQKYf~kl~k 129 (330)
|..||++|...||+.+.. |+ + -|+.||+.+. .||+.||+..|.....+-.+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 468999999999998877 31 1 5999997653 59999999999776555443
No 22
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=96.34 E-value=0.005 Score=65.85 Aligned_cols=45 Identities=27% Similarity=0.556 Sum_probs=39.7
Q ss_pred CCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHH
Q 020167 78 SRESWTEQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQK 122 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQK 122 (330)
+.++||..|++.|+++|++||. .|-+||.++|.||..|.+++-..
T Consensus 411 K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R 456 (939)
T KOG0049|consen 411 KVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLR 456 (939)
T ss_pred ccCceeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHH
Confidence 4689999999999999999995 99999999999999887665433
No 23
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=96.20 E-value=0.0053 Score=64.88 Aligned_cols=52 Identities=23% Similarity=0.493 Sum_probs=43.6
Q ss_pred cCCCCCCHHHHHHHHHHHH-------Hc------------------Cc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 020167 77 KSRESWTEQEHDKFLEALQ-------LF------------------DR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 128 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe-------~y------------------Gr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~ 128 (330)
.+++.||.||+++||..++ +| .. .|..|++.+|||+..|||.||++....-.
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 3789999999999999995 44 11 79999999999999999999988655543
No 24
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.12 E-value=0.0067 Score=63.32 Aligned_cols=54 Identities=17% Similarity=0.398 Sum_probs=48.3
Q ss_pred cccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 020167 75 ITKSRESWTEQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 128 (330)
Q Consensus 75 i~k~r~~WT~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~ 128 (330)
+-+..+.|+.-|++.+..++.+||. .|.+|+..+..+|+.||+.+|.+|..-..
T Consensus 3 i~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i 57 (617)
T KOG0050|consen 3 IEIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAI 57 (617)
T ss_pred eEEecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHH
Confidence 3456889999999999999999997 89999999999999999999998866543
No 25
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=95.30 E-value=0.035 Score=56.49 Aligned_cols=42 Identities=26% Similarity=0.554 Sum_probs=39.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHH
Q 020167 77 KSRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRS 118 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RS 118 (330)
+...+||.+|-++|..||.++|-++..|+.++++|...||+.
T Consensus 363 ~~~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKa 404 (507)
T COG5118 363 KGALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKA 404 (507)
T ss_pred CCCCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHH
Confidence 345799999999999999999999999999999999999997
No 26
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=94.99 E-value=0.042 Score=59.58 Aligned_cols=43 Identities=28% Similarity=0.403 Sum_probs=40.2
Q ss_pred CCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQ 121 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQ 121 (330)
...||..|..+|-+||-.|.+|+-.|+++|.+||+.||-.+|-
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHH
Confidence 4589999999999999999999999999999999999998753
No 27
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=94.91 E-value=0.017 Score=60.20 Aligned_cols=58 Identities=16% Similarity=0.250 Sum_probs=49.9
Q ss_pred CcccccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 72 PYTITKSRESWTEQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 72 Py~i~k~r~~WT~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
++......+.|+..||+.++-+++.||. +|.+||..+..|+..||+.||..|.....+
T Consensus 13 ~~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk 71 (512)
T COG5147 13 LMQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLK 71 (512)
T ss_pred cccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcc
Confidence 3555567889999999999999999995 999999998999999999999777666533
No 28
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.63 E-value=0.15 Score=39.02 Aligned_cols=51 Identities=18% Similarity=0.434 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHc-----C------------chHHHHHHHh-----CCCCHHHHHHHHHHHHHHHhh
Q 020167 79 RESWTEQEHDKFLEALQLF-----D------------RDWKKIEAFI-----GSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~y-----G------------rdWkkIA~~V-----gTRT~~Q~RSHaQKYf~kl~k 129 (330)
...||.+|.+.|++.+++| | +-|..|+..+ +.||..|+|..|..+-....+
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 4579999999999999987 3 1699999644 369999999999888766644
No 29
>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=94.58 E-value=1.4 Score=44.21 Aligned_cols=52 Identities=19% Similarity=0.325 Sum_probs=43.3
Q ss_pred CCCCCCHHHHHHHHHHHHHc-Cc---hHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 78 SRESWTEQEHDKFLEALQLF-DR---DWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~y-Gr---dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
....||..|...+|.+|+-- |. |-..|++.+.+|+..||+...|+.-.++.+
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvar 75 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVAR 75 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHH
Confidence 35699999999999999876 43 677788999999999999988887666554
No 30
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=94.14 E-value=0.075 Score=53.91 Aligned_cols=47 Identities=26% Similarity=0.549 Sum_probs=41.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHH-HHhCCCCHHHHHHHHHHHHHH
Q 020167 77 KSRESWTEQEHDKFLEALQLFDRDWKKIE-AFIGSKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGrdWkkIA-~~VgTRT~~Q~RSHaQKYf~k 126 (330)
..-..|+++|=+.|.+||+.||+|+..|. .-|.+|+.-+|..+ ||+.
T Consensus 275 d~l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVey---YYlW 322 (445)
T KOG4329|consen 275 DDLSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEY---YYLW 322 (445)
T ss_pred cccccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHH---HHHh
Confidence 44568999999999999999999999997 57999999999985 5555
No 31
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=93.40 E-value=0.38 Score=49.10 Aligned_cols=54 Identities=24% Similarity=0.395 Sum_probs=43.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHcC---c-------------hHHHHHHHhC-----CCCHHHHHHHHHHHHHHHhhc
Q 020167 77 KSRESWTEQEHDKFLEALQLFD---R-------------DWKKIEAFIG-----SKTVIQIRSHAQKYFLKVQKN 130 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yG---r-------------dWkkIA~~Vg-----TRT~~Q~RSHaQKYf~kl~k~ 130 (330)
.-.+.|+++=|+.|+|||..|- | +=..||.||+ |||..||-+|-|-+-++..+.
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999998872 1 2356898885 799999999999876665543
No 32
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=93.34 E-value=0.085 Score=55.08 Aligned_cols=49 Identities=27% Similarity=0.475 Sum_probs=41.0
Q ss_pred CcccccCCCCCCHHHHHHHHHHHHHcCchHHHHH-HHhCCCCHHHHHHHH
Q 020167 72 PYTITKSRESWTEQEHDKFLEALQLFDRDWKKIE-AFIGSKTVIQIRSHA 120 (330)
Q Consensus 72 Py~i~k~r~~WT~EEh~lFLEgLe~yGrdWkkIA-~~VgTRT~~Q~RSHa 120 (330)
|-.....-+.|+..|-.+|.|||++||+|+..|- +|++=|+...|..+|
T Consensus 278 PvLCRDemEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 278 PVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred ceeehhhhhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHH
Confidence 3334455689999999999999999999999997 899988888877754
No 33
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=93.03 E-value=0.19 Score=52.27 Aligned_cols=41 Identities=22% Similarity=0.477 Sum_probs=38.3
Q ss_pred CCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHH
Q 020167 80 ESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHA 120 (330)
Q Consensus 80 ~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHa 120 (330)
..||.||-.+|-.+++.||+++.+|.+.++.|+...++-+|
T Consensus 188 d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyY 228 (534)
T KOG1194|consen 188 DEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYY 228 (534)
T ss_pred ccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHH
Confidence 48999999999999999999999999999999998888654
No 34
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=92.79 E-value=0.071 Score=51.22 Aligned_cols=70 Identities=27% Similarity=0.354 Sum_probs=56.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCc-hHHHHH-HHhCCCCHHHHHHHHH-----HHHHHHhhcCCCCCCCCCCCCCCCCCCC
Q 020167 77 KSRESWTEQEHDKFLEALQLFDR-DWKKIE-AFIGSKTVIQIRSHAQ-----KYFLKVQKNGTSEHVPPPRPKRKAAHPY 149 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGr-dWkkIA-~~VgTRT~~Q~RSHaQ-----KYf~kl~k~g~~e~iP~pr~KRks~h~~ 149 (330)
+.+..|+..++.+++.++.++|+ +|..|+ .++..|++.|+.+|+| +|+.+....+. ...|+++|++
T Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~~-------~~~~~s~~~~ 234 (335)
T KOG0724|consen 162 RKGTPVTERERKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAFEKALARQKSGEE-------EKRRKSIEDI 234 (335)
T ss_pred hccchhHHHHHHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhcc-------ccccchhhhh
Confidence 46789999999999999999997 999998 5778899999999999 88888744332 3456677776
Q ss_pred CCCC
Q 020167 150 PQKA 153 (330)
Q Consensus 150 p~~~ 153 (330)
+-..
T Consensus 235 ~~~~ 238 (335)
T KOG0724|consen 235 TTAS 238 (335)
T ss_pred hccc
Confidence 6544
No 35
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=92.70 E-value=0.14 Score=53.51 Aligned_cols=53 Identities=13% Similarity=0.364 Sum_probs=47.4
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 77 KSRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
.++..|+.||+..++..-.++|-.|..||.+++.||..||..+|..-+....+
T Consensus 70 lk~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 70 LKKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred cccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 46889999999999999999999999999999999999999988876655443
No 36
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=92.28 E-value=0.29 Score=55.04 Aligned_cols=48 Identities=21% Similarity=0.454 Sum_probs=43.2
Q ss_pred CCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~k 126 (330)
=..|+..+=..|+.|.++||| +...||..|++||..+|+.+++.|+.+
T Consensus 824 f~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~ 872 (1033)
T PLN03142 824 FSTWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWER 872 (1033)
T ss_pred cCcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHh
Confidence 357999999999999999998 899999999999999999888776655
No 37
>smart00426 TEA TEA domain.
Probab=92.22 E-value=0.17 Score=40.23 Aligned_cols=43 Identities=28% Similarity=0.476 Sum_probs=31.4
Q ss_pred CCCCCHHHHHHHHHHHHHcCc--hH--------------HHHHHHhC-----CCCHHHHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLFDR--DW--------------KKIEAFIG-----SKTVIQIRSHAQ 121 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yGr--dW--------------kkIA~~Vg-----TRT~~Q~RSHaQ 121 (330)
...|.++=|..|++||+.|-. .+ .-|++|+- .||..||-||-|
T Consensus 3 ~~vWp~~lE~Af~~aL~~~~~~g~~kik~~~r~k~~gRNelIs~YI~~~tGk~Rt~KQVsShIQ 66 (68)
T smart00426 3 EGVWSPDIEQAFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQ 66 (68)
T ss_pred CCcCcHHHHHHHHHHHHHcCccCcccchhhhcCcccchhHHHHHHHHHHhCCccchhhhcchhe
Confidence 468999999999999999852 12 12565543 488888888865
No 38
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=91.99 E-value=0.57 Score=40.20 Aligned_cols=58 Identities=21% Similarity=0.431 Sum_probs=44.7
Q ss_pred CcccccCCCCCCHHHHHHHHHHHHHcCc----hHHHHHH------------HhCCCCHHHHHHHHHHHHHHHhh
Q 020167 72 PYTITKSRESWTEQEHDKFLEALQLFDR----DWKKIEA------------FIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 72 Py~i~k~r~~WT~EEh~lFLEgLe~yGr----dWkkIA~------------~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
.|.....+..||+|||.-+|-.+.+||- .|..|-+ |+.+||+.++.-|+.-...-+.|
T Consensus 42 ~y~~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 42 NYPPNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp SSTSTSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred ccCCCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 4555667899999999999999999995 8999854 36699999999999776665544
No 39
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=90.99 E-value=0.72 Score=36.08 Aligned_cols=43 Identities=23% Similarity=0.360 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHHHHHc---C-----c-----hHHHHHHHh----C-CCCHHHHHHHHHHH
Q 020167 81 SWTEQEHDKFLEALQLF---D-----R-----DWKKIEAFI----G-SKTVIQIRSHAQKY 123 (330)
Q Consensus 81 ~WT~EEh~lFLEgLe~y---G-----r-----dWkkIA~~V----g-TRT~~Q~RSHaQKY 123 (330)
+||+++++.||+.+... | + .|+.|++.+ | ..|..||++|+...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 59999999999988554 1 1 599987433 3 46899999998654
No 40
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=90.02 E-value=0.33 Score=51.18 Aligned_cols=47 Identities=19% Similarity=0.471 Sum_probs=42.9
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHH
Q 020167 78 SRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFL 125 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~ 125 (330)
++..|+.||++++|.+.+.+..-|.-|+..|| |+..||-.|+++..-
T Consensus 58 ~~tews~eederlLhlakl~p~qwrtIa~i~g-r~~~qc~eRy~~ll~ 104 (617)
T KOG0050|consen 58 KKTEWSREEDERLLHLAKLEPTQWRTIADIMG-RTSQQCLERYNNLLD 104 (617)
T ss_pred hhhhhhhhHHHHHHHHHHhcCCccchHHHHhh-hhHHHHHHHHHHHHH
Confidence 57899999999999999999999999999987 799999999988543
No 41
>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=88.20 E-value=0.98 Score=41.14 Aligned_cols=49 Identities=14% Similarity=0.257 Sum_probs=38.4
Q ss_pred CCCCCCHHHHHHHHHHHHHc---Cc----hHHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 020167 78 SRESWTEQEHDKFLEALQLF---DR----DWKKIEAFIGSKTVIQIRSHAQKYFLKV 127 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~y---Gr----dWkkIA~~VgTRT~~Q~RSHaQKYf~kl 127 (330)
....||.|||.+|-|.+-+| |+ .+..+++-+ +||..-|.-||+.|.++.
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkq 58 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQ 58 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHH
Confidence 34689999999999999888 32 344444443 699999999999998864
No 42
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=87.64 E-value=6.9 Score=38.01 Aligned_cols=51 Identities=20% Similarity=0.377 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHHHHHcC----------chHHHHHH---HhC-CCCHHHHHHHHHHHHHHHhh
Q 020167 79 RESWTEQEHDKFLEALQLFD----------RDWKKIEA---FIG-SKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yG----------rdWkkIA~---~Vg-TRT~~Q~RSHaQKYf~kl~k 129 (330)
...|+.+|-..||++..... ..|..||+ ..| -||..|||..+.+...+.++
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence 58999999999999875431 26999996 234 59999999998775555444
No 43
>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=87.10 E-value=0.99 Score=35.07 Aligned_cols=48 Identities=21% Similarity=0.241 Sum_probs=30.9
Q ss_pred CCCCCHHHHHHHHHHHHHc---C----c--hHHHHHHHhC-CCCHHHHHHHHHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLF---D----R--DWKKIEAFIG-SKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~y---G----r--dWkkIA~~Vg-TRT~~Q~RSHaQKYf~k 126 (330)
|..+|.|||..+++-|..+ | + =|+++++.-. ..|..-.|+||.|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~ 59 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRG 59 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT--
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Confidence 5678999999999999665 2 1 5999997655 78999999987765444
No 44
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=85.56 E-value=1.1 Score=46.14 Aligned_cols=48 Identities=27% Similarity=0.458 Sum_probs=32.6
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcC---c-hH----------HHHHHHhC-----CCCHHHHHHHHHHH
Q 020167 76 TKSRESWTEQEHDKFLEALQLFD---R-DW----------KKIEAFIG-----SKTVIQIRSHAQKY 123 (330)
Q Consensus 76 ~k~r~~WT~EEh~lFLEgLe~yG---r-dW----------kkIA~~Vg-----TRT~~Q~RSHaQKY 123 (330)
.+..+.|+++=|..|+|||+.|- + .+ +-|++||. .||.+||-+|.|-.
T Consensus 46 ~~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 46 GDGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GGGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 45689999999999999999983 1 12 23787764 59999999999977
No 45
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=82.96 E-value=1.6 Score=39.97 Aligned_cols=49 Identities=16% Similarity=0.236 Sum_probs=37.5
Q ss_pred CCCCCCHHHHHHHHHHHHHcCc-hHHHHHH--HhC---CCCHHHHHHHHHHHHHH
Q 020167 78 SRESWTEQEHDKFLEALQLFDR-DWKKIEA--FIG---SKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yGr-dWkkIA~--~Vg---TRT~~Q~RSHaQKYf~k 126 (330)
....||.||+.+|-+.+-.|++ .=.+++. .+| .||..+|.-||+.+..+
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vrk 58 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVRK 58 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHHH
Confidence 4578999999999999999985 3344442 233 68999999999887665
No 46
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=82.74 E-value=4.8 Score=33.30 Aligned_cols=43 Identities=19% Similarity=0.370 Sum_probs=32.2
Q ss_pred CCCCCHHHHHHHHHHHHHc----Cc----hHHHHHHHhCCC-----CHHHHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLF----DR----DWKKIEAFIGSK-----TVIQIRSHAQ 121 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~y----Gr----dWkkIA~~VgTR-----T~~Q~RSHaQ 121 (330)
...||+|+|..+|+||-.| |. +|...-++|... |..|+..-..
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~Kir 59 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIR 59 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHH
Confidence 4679999999999999888 62 787776666432 6677766443
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=78.85 E-value=7.7 Score=27.45 Aligned_cols=38 Identities=18% Similarity=0.302 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHH
Q 020167 84 EQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQK 122 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQK 122 (330)
++-+.++|..|+.-|+ .|..||+.+|- |...|..+.++
T Consensus 2 D~~D~~Il~~Lq~d~r~s~~~la~~lgl-S~~~v~~Ri~r 40 (42)
T PF13404_consen 2 DELDRKILRLLQEDGRRSYAELAEELGL-SESTVRRRIRR 40 (42)
T ss_dssp -HHHHHHHHHHHH-TTS-HHHHHHHHTS--HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHcCCccHHHHHHHHCc-CHHHHHHHHHH
Confidence 3567899999999997 99999999996 78888887765
No 48
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=76.30 E-value=2.3 Score=45.40 Aligned_cols=50 Identities=22% Similarity=0.392 Sum_probs=44.2
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhhc
Q 020167 78 SRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN 130 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~ 130 (330)
...+|+.+|-++|-.++..+|-+..-|+.....|+..|||- ||-++-.++
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~---K~~~eE~r~ 457 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKA---KFKKEEKRN 457 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHH---HHhhhhhcc
Confidence 46899999999999999999999999999999999999997 666665443
No 49
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=70.78 E-value=8.9 Score=40.35 Aligned_cols=53 Identities=0% Similarity=-0.075 Sum_probs=47.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 77 KSRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
+...+|+.+|..+++.+|++||++...|+-.||.++..|+++-...|-++...
T Consensus 367 ~~n~~~~T~~~la~v~~I~~~~~~~~pl~wrik~t~cmee~e~l~~~~Rr~mf 419 (534)
T KOG1194|consen 367 RMNRCFDTPAALALIDNIKRKHHMCVPLVWRVKQTKCMEENEILNEEARRQMF 419 (534)
T ss_pred hhccccCcHHHHHHHHHHHHhccCcchhhhHhcCcchhhHHHHHHHHHHHHHH
Confidence 34589999999999999999999999999999999999999988887666543
No 50
>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=70.55 E-value=11 Score=26.14 Aligned_cols=25 Identities=20% Similarity=0.252 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHcCchHHHHHHHhCC
Q 020167 86 EHDKFLEALQLFDRDWKKIEAFIGS 110 (330)
Q Consensus 86 Eh~lFLEgLe~yGrdWkkIA~~VgT 110 (330)
|...+.++|+.+|++..+.|+.+|-
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~Lgi 30 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLLGI 30 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHHTS
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHCC
Confidence 7778888999999999999999984
No 51
>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=69.92 E-value=10 Score=29.81 Aligned_cols=37 Identities=24% Similarity=0.493 Sum_probs=25.9
Q ss_pred HHHHHHHcCc--------hHHHHHHHhCCCC-----HHHHHHHHHHHHHH
Q 020167 90 FLEALQLFDR--------DWKKIEAFIGSKT-----VIQIRSHAQKYFLK 126 (330)
Q Consensus 90 FLEgLe~yGr--------dWkkIA~~VgTRT-----~~Q~RSHaQKYf~k 126 (330)
|-.++...|+ .|..|++.+|--. ..++|.||.+|+..
T Consensus 41 Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 41 LYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 3345555552 6999999887422 47899999998754
No 52
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=69.26 E-value=17 Score=25.65 Aligned_cols=39 Identities=5% Similarity=0.142 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHH
Q 020167 85 QEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYF 124 (330)
Q Consensus 85 EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf 124 (330)
+++...+...-..|..|++||+.+| .|...|+.|.++=.
T Consensus 13 ~~~r~i~~l~~~~g~s~~eIa~~l~-~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 13 ERQREIFLLRYFQGMSYAEIAEILG-ISESTVKRRLRRAR 51 (54)
T ss_dssp HHHHHHHHHHHTS---HHHHHHHCT-S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCcCHHHHHHHHC-cCHHHHHHHHHHHH
Confidence 4455555566667889999999997 68899998765543
No 53
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=66.63 E-value=13 Score=32.18 Aligned_cols=44 Identities=20% Similarity=0.285 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcCC
Q 020167 84 EQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGT 132 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~g~ 132 (330)
++.|.++|++|++-|| .|..||+.+|- +...|+.+.++ +...|.
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lgl-S~~tV~~Ri~r----L~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFGV-SPGTIHVRVEK----MKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHCc-CHHHHHHHHHH----HHHCCC
Confidence 5678999999999998 99999999986 78888887654 555554
No 54
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=65.33 E-value=20 Score=28.56 Aligned_cols=41 Identities=22% Similarity=0.409 Sum_probs=29.5
Q ss_pred HHHHHHHHHHcCc--------hHHHHHHHhCCC-----CHHHHHHHHHHHHHHHh
Q 020167 87 HDKFLEALQLFDR--------DWKKIEAFIGSK-----TVIQIRSHAQKYFLKVQ 128 (330)
Q Consensus 87 h~lFLEgLe~yGr--------dWkkIA~~VgTR-----T~~Q~RSHaQKYf~kl~ 128 (330)
..+|. ++.+.|+ .|..|++.+|-. ...+++.||++|+....
T Consensus 35 ~~Ly~-~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE 88 (93)
T smart00501 35 YRLYR-LVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPFE 88 (93)
T ss_pred HHHHH-HHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHHH
Confidence 34444 5777763 799999988754 36789999999876653
No 55
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=65.16 E-value=17 Score=41.46 Aligned_cols=54 Identities=15% Similarity=0.342 Sum_probs=44.9
Q ss_pred cCCCCCCHHHHHHHHHHHHHcC-chHHHHHH------------HhCCCCHHHHHHHHHHHHHHHhhc
Q 020167 77 KSRESWTEQEHDKFLEALQLFD-RDWKKIEA------------FIGSKTVIQIRSHAQKYFLKVQKN 130 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEgLe~yG-rdWkkIA~------------~VgTRT~~Q~RSHaQKYf~kl~k~ 130 (330)
.++..||+||+..+|-.+.+|| ++|.+|-+ |+.+||+.++.-|+.-....+.|.
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~~e 990 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIEKE 990 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHHHH
Confidence 3456799999999999999999 68999843 366999999999998777777664
No 56
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=62.96 E-value=15 Score=32.14 Aligned_cols=44 Identities=14% Similarity=0.219 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcCC
Q 020167 84 EQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGT 132 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~g~ 132 (330)
++-|.++|.+|++-|| .|..||+-+|- +...|+.|.++ +.+.|-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lgl-S~~tv~~Ri~r----L~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVGL-SPTPCLERVRR----LERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHCc-CHHHHHHHHHH----HHHCCC
Confidence 6789999999999998 99999999985 67788887654 555553
No 57
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=60.01 E-value=3.9 Score=47.85 Aligned_cols=48 Identities=21% Similarity=0.216 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcCC
Q 020167 85 QEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGT 132 (330)
Q Consensus 85 EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~g~ 132 (330)
||.+.-..||-.+||+|.+|+..|+++|..||++.+-||-.++..++.
T Consensus 360 ee~ev~k~Glveh~R~~aai~p~vvt~tes~c~na~a~~~~r~N~d~~ 407 (1672)
T KOG1878|consen 360 EEMEVAKSGLVEHGREWAAILPKVVTKTESQCKNAYAKYKNRHNLDEP 407 (1672)
T ss_pred hhhhhhhccchhhhhhHHHhcCccceecccchhhHHHhhhhhhcchhh
Confidence 455677789999999999999999999999999876667666655543
No 58
>PF10141 ssDNA-exonuc_C: Single-strand DNA-specific exonuclease, C terminal domain; InterPro: IPR018779 This entry represents a domain found at the C terminus of a set of single-stranded DNA-specific exonucleases, including RecJ. Its function has not, as yet, been determined.
Probab=59.88 E-value=9 Score=34.78 Aligned_cols=46 Identities=22% Similarity=0.322 Sum_probs=33.8
Q ss_pred CCccCCC---hHHHHhhhhcccCCCchhhhHhhccCCchhHHHHHHHHH
Q 020167 256 PRRVMPD---FAQVYSFLGSVFDPNSTGHIQRLKQMDPINFETVLLLMR 301 (330)
Q Consensus 256 ~l~~~Pd---FaqVY~FigsvFdp~~~~hlq~Lk~MdpI~~ETvLLLmr 301 (330)
.+.++|+ |+++|+||-..=.-+...|++.|-.-==|+.+++.++++
T Consensus 90 y~~~~P~Re~F~~~Y~~l~~~~~~~l~~~~~~La~~l~i~~~~l~fml~ 138 (195)
T PF10141_consen 90 YFEGMPTREQFKKLYKFLKQHPNFDLKEQLQALAKYLGISPDTLKFMLK 138 (195)
T ss_pred hhcCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHCcCHHHHHHHHH
Confidence 3567886 999999998862223467888886666688888777765
No 59
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=57.44 E-value=38 Score=26.63 Aligned_cols=47 Identities=17% Similarity=0.259 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 81 SWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 81 ~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
..++.|...|.. .-..|..+..||+.+|- +...|+.+.++-..++++
T Consensus 110 ~L~~~~~~ii~~-~~~~g~s~~eIA~~l~~-s~~~v~~~~~~~~~kl~~ 156 (158)
T TIGR02937 110 KLPEREREVLVL-RYLEGLSYKEIAEILGI-SVGTVKRRLKRARKKLRE 156 (158)
T ss_pred hCCHHHHHHHhh-HHhcCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHHh
Confidence 455555555432 22347799999999987 788888887777666643
No 60
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=55.33 E-value=22 Score=40.00 Aligned_cols=59 Identities=19% Similarity=0.400 Sum_probs=49.8
Q ss_pred CCcccccCCCCCCHHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhc
Q 020167 71 KPYTITKSRESWTEQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN 130 (330)
Q Consensus 71 kPy~i~k~r~~WT~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~ 130 (330)
|+.-....-+.||..+=..|+.|.++||+ +-..||+-+-. |+++|..++.-+|.++.+.
T Consensus 787 k~~ll~~gft~w~k~df~~fi~a~eKygr~di~~ia~~~e~-~~eev~~y~rvfwer~~el 846 (971)
T KOG0385|consen 787 KEELLSQGFTNWTKRDFNQFIKANEKYGRDDIENIAAEVEG-TPEEVGEYARVFWERLEEL 846 (971)
T ss_pred hhhhhhccccchhhhhHHHHHHHhhccCcchhhhhHHhhcC-CHHHHHHHHHHHHHHHHHh
Confidence 44444555678999999999999999998 89999988877 9999999999888887664
No 61
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=54.75 E-value=1.4e+02 Score=30.03 Aligned_cols=53 Identities=17% Similarity=0.210 Sum_probs=39.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcC----chHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcC
Q 020167 78 SRESWTEQEHDKFLEALQLFD----RDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 131 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yG----rdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~g 131 (330)
.|..+|.|.-.+|..-++.-- ++-+.++.-+| -+..|||.-+|+-..||+|..
T Consensus 249 PRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELg-LNEsQIKIWFQNKRAKiKKsT 305 (342)
T KOG0493|consen 249 PRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELG-LNESQIKIWFQNKRAKIKKST 305 (342)
T ss_pred ccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhC-cCHHHhhHHhhhhhhhhhhcc
Confidence 478899999888887665533 35566776665 479999998888888887753
No 62
>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=54.21 E-value=36 Score=30.77 Aligned_cols=48 Identities=19% Similarity=0.379 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHHHcCc---hHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 020167 81 SWTEQEHDKFLEALQLFDR---DWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 128 (330)
Q Consensus 81 ~WT~EEh~lFLEgLe~yGr---dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~ 128 (330)
-++..+...||.++-+||- +|+-.-..+..||..+++.+.--|+.+|-
T Consensus 40 GFn~rQR~~Fln~vMR~G~~~f~~~w~~~~Lr~Ks~~ei~aY~~LFm~HL~ 90 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRYGMGAFDWKWFVPRLRGKSEKEIRAYGSLFMRHLC 90 (145)
T ss_pred ccCHHHHHHHHHHHHHHCcCcccchHHhhhhccccHHHHHHHHHHHHHHhc
Confidence 5789999999999999994 89999888899999999998876666663
No 63
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=53.93 E-value=25 Score=31.25 Aligned_cols=46 Identities=20% Similarity=0.203 Sum_probs=35.9
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHHHH----hCCCCHHHHHHHHHHH
Q 020167 78 SRESWTEQEHDKFLEALQLFDRDWKKIEAF----IGSKTVIQIRSHAQKY 123 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~----VgTRT~~Q~RSHaQKY 123 (330)
....=|.+|.+-+...|++||.|++.++.= .--.|..||+-...+|
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 445667778777788999999999999943 3358999999877665
No 64
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=53.53 E-value=32 Score=27.32 Aligned_cols=44 Identities=18% Similarity=0.342 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcCC
Q 020167 84 EQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGT 132 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~g~ 132 (330)
++.|.++|+.|++.|+ .|+.||+.+|- +...|+.|.+ ++.+.|.
T Consensus 2 d~~D~~il~~L~~~~~~~~~~la~~l~~-s~~tv~~~l~----~L~~~g~ 46 (108)
T smart00344 2 DEIDRKILEELQKDARISLAELAKKVGL-SPSTVHNRVK----RLEEEGV 46 (108)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHHHHCc-CHHHHHHHHH----HHHHCCC
Confidence 3678899999999986 99999999975 6778887654 4555554
No 65
>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=52.05 E-value=69 Score=22.38 Aligned_cols=42 Identities=10% Similarity=0.131 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 020167 86 EHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 128 (330)
Q Consensus 86 Eh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~ 128 (330)
++...+...-..|..+..||+.+|- |...|+.+-.+-+.+++
T Consensus 8 ~er~vi~~~y~~~~t~~eIa~~lg~-s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 8 REREVIRLRYFEGLTLEEIAERLGI-SRSTVRRILKRALKKLR 49 (50)
T ss_dssp HHHHHHHHHHTST-SHHHHHHHHTS-CHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHCC-cHHHHHHHHHHHHHHhc
Confidence 3333344333345699999999986 77777777666666654
No 66
>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=49.93 E-value=10 Score=30.39 Aligned_cols=17 Identities=12% Similarity=0.368 Sum_probs=9.5
Q ss_pred cCCCCCCHHHHHHHHHH
Q 020167 77 KSRESWTEQEHDKFLEA 93 (330)
Q Consensus 77 k~r~~WT~EEh~lFLEg 93 (330)
...+-||.|+|+.|+.+
T Consensus 45 n~~GiWT~eDD~~L~~~ 61 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSG 61 (87)
T ss_dssp T-TT---HHHHHHHTS-
T ss_pred CCCCCcCHHHHHHHHcC
Confidence 45789999999988443
No 67
>PF10561 UPF0565: Uncharacterised protein family UPF0565; InterPro: IPR018881 This family of proteins has no known function.
Probab=47.41 E-value=16 Score=36.34 Aligned_cols=29 Identities=24% Similarity=0.642 Sum_probs=27.5
Q ss_pred CCcccccCCCCCCHHHHHHHHHHHHHcCc
Q 020167 71 KPYTITKSRESWTEQEHDKFLEALQLFDR 99 (330)
Q Consensus 71 kPy~i~k~r~~WT~EEh~lFLEgLe~yGr 99 (330)
.||++....+.|=..|++.|++.|+++|-
T Consensus 273 TPyQv~D~~RpwI~~E~~~F~~~L~~~~~ 301 (303)
T PF10561_consen 273 TPYQVSDPMRPWIGKEEKKFVKLLKKLGA 301 (303)
T ss_pred CcccccCCCCcHHHHHHHHHHHHHHHhCC
Confidence 79999999999999999999999999984
No 68
>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=45.85 E-value=35 Score=30.70 Aligned_cols=38 Identities=13% Similarity=0.200 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHH
Q 020167 81 SWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSH 119 (330)
Q Consensus 81 ~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSH 119 (330)
.||+|+.++|.+. -.=|..-.+||+-+|..|...|.-.
T Consensus 2 ~Wtde~~~~L~~l-w~~G~SasqIA~~lg~vsRnAViGk 39 (162)
T PF07750_consen 2 SWTDERVERLRKL-WAEGLSASQIARQLGGVSRNAVIGK 39 (162)
T ss_pred CCCHHHHHHHHHH-HHcCCCHHHHHHHhCCcchhhhhhh
Confidence 5999888865554 4668889999999995555566553
No 69
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=45.45 E-value=19 Score=37.37 Aligned_cols=51 Identities=22% Similarity=0.322 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHcCchHHHHHHH-----hCC-CCHHHHHHHHHHHHHHHhh
Q 020167 79 RESWTEQEHDKFLEALQLFDRDWKKIEAF-----IGS-KTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yGrdWkkIA~~-----VgT-RT~~Q~RSHaQKYf~kl~k 129 (330)
...||.||.+-|.+.-+.|.-+|--|++- .+. ||.+..+.+|=....++.+
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~k 186 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLK 186 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHH
Confidence 45699999999999999999988888842 555 9999999987555555544
No 70
>PRK01905 DNA-binding protein Fis; Provisional
Probab=43.69 E-value=68 Score=25.08 Aligned_cols=28 Identities=7% Similarity=0.061 Sum_probs=24.3
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhCC
Q 020167 83 TEQEHDKFLEALQLFDRDWKKIEAFIGS 110 (330)
Q Consensus 83 T~EEh~lFLEgLe~yGrdWkkIA~~VgT 110 (330)
..-|.+.+.++|+.+|+++.+.|+.+|-
T Consensus 35 ~~~E~~~i~~aL~~~~gn~s~aAr~LGI 62 (77)
T PRK01905 35 SCVEKPLLEVVMEQAGGNQSLAAEYLGI 62 (77)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHCC
Confidence 3457778999999999999999999985
No 71
>smart00595 MADF subfamily of SANT domain.
Probab=43.59 E-value=42 Score=25.83 Aligned_cols=23 Identities=17% Similarity=0.416 Sum_probs=20.4
Q ss_pred hHHHHHHHhCCCCHHHHHHHHHHH
Q 020167 100 DWKKIEAFIGSKTVIQIRSHAQKY 123 (330)
Q Consensus 100 dWkkIA~~VgTRT~~Q~RSHaQKY 123 (330)
.|..||.-++. |..+|+.+|...
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 79999999988 999999998763
No 72
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=43.29 E-value=63 Score=26.60 Aligned_cols=26 Identities=12% Similarity=0.081 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHcCchHHHHHHHhCC
Q 020167 85 QEHDKFLEALQLFDRDWKKIEAFIGS 110 (330)
Q Consensus 85 EEh~lFLEgLe~yGrdWkkIA~~VgT 110 (330)
-|...+.++++.+|+++.+.|+.+|-
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~LGI 80 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALMLGI 80 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHhCC
Confidence 47778999999999999999999995
No 73
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=41.03 E-value=60 Score=30.59 Aligned_cols=46 Identities=13% Similarity=0.206 Sum_probs=36.7
Q ss_pred CCCCCCHHHHHHHHHHHHHcC---chHHHHH-----HHhCCCCHHHHHHHHHHH
Q 020167 78 SRESWTEQEHDKFLEALQLFD---RDWKKIE-----AFIGSKTVIQIRSHAQKY 123 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yG---rdWkkIA-----~~VgTRT~~Q~RSHaQKY 123 (330)
.+..||.+|+++|........ ..+++|= -|-.+||+.+...||+-.
T Consensus 72 ~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 72 SKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred ccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 678999999999999766554 3788873 356789999999999853
No 74
>PHA00442 host recBCD nuclease inhibitor
Probab=40.97 E-value=17 Score=28.27 Aligned_cols=33 Identities=24% Similarity=0.605 Sum_probs=25.9
Q ss_pred cccCCCCC--------CHHHHHHHHHHHHHcCc-hHHHHHHH
Q 020167 75 ITKSRESW--------TEQEHDKFLEALQLFDR-DWKKIEAF 107 (330)
Q Consensus 75 i~k~r~~W--------T~EEh~lFLEgLe~yGr-dWkkIA~~ 107 (330)
.+..|..| +-|.+..||++|+-.|- +|..+.+.
T Consensus 8 VtitRd~wnd~q~yidsLek~~~~L~~Lea~GVDNW~Gy~eA 49 (59)
T PHA00442 8 VTITRDAWNDMQGYIDSLEKDNEFLKALRACGVDNWDGYMDA 49 (59)
T ss_pred eeecHHHHHHHHHHHHHHHHhhHHHHHHHHcCCcchhhHHHH
Confidence 34556777 56788899999999995 99998643
No 75
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=40.56 E-value=17 Score=28.66 Aligned_cols=19 Identities=32% Similarity=0.677 Sum_probs=15.6
Q ss_pred HHHHHHHHHcCchHHHHHH
Q 020167 88 DKFLEALQLFDRDWKKIEA 106 (330)
Q Consensus 88 ~lFLEgLe~yGrdWkkIA~ 106 (330)
..+.+.|+.||++|.-|.+
T Consensus 30 ~vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 30 PVLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHHcCCchhhhc
Confidence 3566789999999999974
No 76
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=40.23 E-value=1e+02 Score=20.00 Aligned_cols=42 Identities=12% Similarity=0.170 Sum_probs=26.8
Q ss_pred CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHH
Q 020167 81 SWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYF 124 (330)
Q Consensus 81 ~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf 124 (330)
.+++++ ..+++.+-..|..++.||+.+|- +..+|+.+.++..
T Consensus 10 ~l~~~~-~~~~~~~~~~~~~~~~ia~~~~~-s~~~i~~~~~~~~ 51 (55)
T cd06171 10 KLPERE-REVILLRFGEGLSYEEIAEILGI-SRSTVRQRLHRAL 51 (55)
T ss_pred hCCHHH-HHHHHHHHhcCCCHHHHHHHHCc-CHHHHHHHHHHHH
Confidence 455554 44445554567799999988873 6677776554443
No 77
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=35.92 E-value=1.3e+02 Score=35.71 Aligned_cols=53 Identities=15% Similarity=0.306 Sum_probs=37.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcC-chHHHHH--------HHhC----CCCHHHHHHHHHHHHHHHhhcC
Q 020167 78 SRESWTEQEHDKFLEALQLFD-RDWKKIE--------AFIG----SKTVIQIRSHAQKYFLKVQKNG 131 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yG-rdWkkIA--------~~Vg----TRT~~Q~RSHaQKYf~kl~k~g 131 (330)
....|..+|+..||-||-+|| +.|..|- +-+. --...+...++ .|...+.+..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dKi~~~e~~P~a~~L~~R~-~yLls~~~~~ 1197 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDKIFLVETVPQAKHLQRRA-DYLLSLLRKH 1197 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhhhcccccCCchHHHHHHH-HHHHHHHhhc
Confidence 467899999999999999999 5999994 1121 12345555555 5777766544
No 78
>KOG1019 consensus Retinoblastoma pathway protein LIN-9/chromatin-associated protein Aly [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=34.69 E-value=22 Score=39.74 Aligned_cols=56 Identities=20% Similarity=0.363 Sum_probs=44.5
Q ss_pred CCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhC-CCCHHHHHH
Q 020167 63 EDPSKKIRKPYTITKSRESWTEQEHDKFLEALQLFDRDWKKIEAFIG-SKTVIQIRS 118 (330)
Q Consensus 63 e~~~kKirkPy~i~k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~Vg-TRT~~Q~RS 118 (330)
....-+.|++..-.+-...|+..|-.+|+++..++|+.|++.+..+- +|...++.-
T Consensus 28 ~~sKt~qR~~~~~d~l~pq~s~~~~e~~~k~~~k~~~~~r~~~~~~~~~R~s~~vel 84 (837)
T KOG1019|consen 28 STSKTPQRKRKLADKLSPQWSKLELERFYKAYRKRGREWRKSPAAVRSTRSSNMVEL 84 (837)
T ss_pred ccccCCCCCcccccccCcchhHhhhhhhhhcccccccccccccccccchhhhhHHHH
Confidence 33344566666666778899999999999999999999999997664 588887764
No 79
>PF11593 Med3: Mediator complex subunit 3 fungal; InterPro: IPR020998 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents the subunit Med3, which is a physical target for Cyc8-Tup1, a yeast transcriptional co-repressor []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=34.42 E-value=68 Score=33.02 Aligned_cols=13 Identities=46% Similarity=0.549 Sum_probs=9.5
Q ss_pred CCCCCCCCccccc
Q 020167 65 PSKKIRKPYTITK 77 (330)
Q Consensus 65 ~~kKirkPy~i~k 77 (330)
..||.|||+..+|
T Consensus 190 t~KKpRKPRqtKK 202 (379)
T PF11593_consen 190 TAKKPRKPRQTKK 202 (379)
T ss_pred ccCCCCCCCCccc
Confidence 3588888887555
No 80
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=33.81 E-value=15 Score=43.29 Aligned_cols=54 Identities=17% Similarity=0.236 Sum_probs=44.6
Q ss_pred CCCCCCcccccCCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHH
Q 020167 67 KKIRKPYTITKSRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHA 120 (330)
Q Consensus 67 kKirkPy~i~k~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHa 120 (330)
+...|+|+-......|+.+|++.|.+-+-++-++...|+.|+-.||..+|--+|
T Consensus 213 ~d~nkv~k~~~~~n~Ws~~Ek~~fk~rf~~H~knf~~~as~~erkSv~d~vlfy 266 (1672)
T KOG1878|consen 213 KDPNKVHKDRQRMNEWSPEEKELFKSRFAQHVKNFGLIASFFERKSVSDCVLFY 266 (1672)
T ss_pred cCcccccchHHHhhhccccccccccchhhhcCcchhhhhhhhcccchhhceeee
Confidence 344455554557889999999999999999999999999999999998886543
No 81
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=32.93 E-value=1.5e+02 Score=24.70 Aligned_cols=32 Identities=13% Similarity=0.230 Sum_probs=22.6
Q ss_pred cCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 97 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 97 yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
.|..+..||+.+|- +...|+.+..+-..++++
T Consensus 140 ~~~~~~eIA~~lgi-s~~tv~~~~~ra~~~lr~ 171 (179)
T PRK11924 140 EGLSYREIAEILGV-PVGTVKSRLRRARQLLRE 171 (179)
T ss_pred cCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHHH
Confidence 46789999998885 567777776665555543
No 82
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=31.95 E-value=35 Score=27.21 Aligned_cols=32 Identities=28% Similarity=0.498 Sum_probs=22.8
Q ss_pred HHHHHHHHH-HHHHcCchHHHHHHHhCCCCHHHHHH
Q 020167 84 EQEHDKFLE-ALQLFDRDWKKIEAFIGSKTVIQIRS 118 (330)
Q Consensus 84 ~EEh~lFLE-gLe~yGrdWkkIA~~VgTRT~~Q~RS 118 (330)
.||-+++|. + ..|+||+..|..+|- +...|+.
T Consensus 2 ~~~v~~ll~~~--nlG~dW~~LA~~LG~-~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG--RPGRDWRSLAGELGY-EDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC--CCccCHHHHHHHcCC-CHHHHHH
Confidence 467777775 4 568899999999986 3455544
No 83
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=31.70 E-value=82 Score=23.34 Aligned_cols=25 Identities=16% Similarity=0.296 Sum_probs=20.5
Q ss_pred hHHHHHHHhCC-CCHHHHHHHHHHHH
Q 020167 100 DWKKIEAFIGS-KTVIQIRSHAQKYF 124 (330)
Q Consensus 100 dWkkIA~~VgT-RT~~Q~RSHaQKYf 124 (330)
-|..||..++. -+..+|+.+|+...
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr 53 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLR 53 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHH
Confidence 69999998884 57889999988743
No 84
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=30.99 E-value=58 Score=35.01 Aligned_cols=45 Identities=18% Similarity=0.219 Sum_probs=35.6
Q ss_pred CCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHH
Q 020167 80 ESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFL 125 (330)
Q Consensus 80 ~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~ 125 (330)
..--+.|.++++++|++.|.+|.+-|+.+|. ++.|+-+.+++|=+
T Consensus 501 ~~~~~~eR~~I~~aL~~~~~~~a~AAr~LGl-~~~~L~~~~kRlGI 545 (550)
T COG3604 501 EATEEFERQLIIAALEETNGNWAGAARRLGL-TRRTLLYRMKRLGI 545 (550)
T ss_pred hhhHHHHHHHHHHHHHHhCCcHHHHHHHhCC-CHHHHHHHHHHcCC
Confidence 3334677888899999999999998899886 67888877766533
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=30.88 E-value=45 Score=24.50 Aligned_cols=28 Identities=21% Similarity=0.517 Sum_probs=23.9
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhCC
Q 020167 83 TEQEHDKFLEALQLFDRDWKKIEAFIGS 110 (330)
Q Consensus 83 T~EEh~lFLEgLe~yGrdWkkIA~~VgT 110 (330)
..+.|++|...|+.-....+-||+|+|.
T Consensus 17 ~~~~~d~F~~~L~~s~D~F~vIaeyfGr 44 (49)
T PF12451_consen 17 SADQHDLFFKQLEESEDRFSVIAEYFGR 44 (49)
T ss_pred HhhcHHHHHHHHHhCCCCchhHHHHHcc
Confidence 4567999999998777899999999984
No 86
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=30.16 E-value=93 Score=21.45 Aligned_cols=34 Identities=12% Similarity=0.224 Sum_probs=18.4
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHH
Q 020167 83 TEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRS 118 (330)
Q Consensus 83 T~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RS 118 (330)
+.++....++.+.. |...++||+.+| -+...|..
T Consensus 3 ~~~~R~~ii~l~~~-G~s~~~ia~~lg-vs~~Tv~~ 36 (50)
T PF13384_consen 3 SEERRAQIIRLLRE-GWSIREIAKRLG-VSRSTVYR 36 (50)
T ss_dssp -------HHHHHHH-T--HHHHHHHHT-S-HHHHHH
T ss_pred chhHHHHHHHHHHC-CCCHHHHHHHHC-cCHHHHHH
Confidence 45556667777777 889999999998 35555554
No 87
>PF06628 Catalase-rel: Catalase-related immune-responsive; InterPro: IPR010582 Catalases (1.11.1.6 from EC) are antioxidant enzymes that catalyse the conversion of hydrogen peroxide to water and molecular oxygen, serving to protect cells from its toxic effects []. Hydrogen peroxide is produced as a consequence of oxidative cellular metabolism and can be converted to the highly reactive hydroxyl radical via transition metals, this radical being able to damage a wide variety of molecules within a cell, leading to oxidative stress and cell death. Catalases act to neutralise hydrogen peroxide toxicity, and are produced by all aerobic organisms ranging from bacteria to man. Most catalases are mono-functional, haem-containing enzymes, although there are also bifunctional haem-containing peroxidase/catalases (IPR000763 from INTERPRO) that are closely related to plant peroxidases, and non-haem, manganese-containing catalases (IPR007760 from INTERPRO) that are found in bacteria []. This entry represents a small conserved region within catalase enzymes that carries the immune-responsive amphipathic octa-peptide that is recognised by T cells [].; PDB: 2CAH_A 1NM0_A 1H7K_A 1E93_A 1H6N_A 3HB6_A 2CAG_A 1M85_A 1MQF_A 1A4E_C ....
Probab=29.86 E-value=1.8e+02 Score=22.21 Aligned_cols=39 Identities=21% Similarity=0.446 Sum_probs=30.8
Q ss_pred CCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHHhh
Q 020167 81 SWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK 129 (330)
Q Consensus 81 ~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k 129 (330)
.++++|.+.|++ .|+.+++.=+..+|+.++-.||.++..
T Consensus 19 ~l~~~er~~lv~----------nia~~l~~v~~~~i~~r~l~~f~~vd~ 57 (68)
T PF06628_consen 19 VLSDEERERLVE----------NIAGHLSGVSDEEIQERVLAYFYKVDP 57 (68)
T ss_dssp HSSHHHHHHHHH----------HHHHHHTTSSHHHHHHHHHHHHHHH-H
T ss_pred HCCHHHHHHHHH----------HHHHHHccCChhhHHHHHHHHHHHhCH
Confidence 568888888874 478888887888899999999998753
No 88
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator. Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).
Probab=29.57 E-value=69 Score=31.52 Aligned_cols=29 Identities=14% Similarity=0.346 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHcCchHHHHHHHhC-CCC
Q 020167 84 EQEHDKFLEALQLFDRDWKKIEAFIG-SKT 112 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGrdWkkIA~~Vg-TRT 112 (330)
+-|.+.+.++|+.+|++..+.|+.+| +|+
T Consensus 404 ~~E~~~i~~al~~~~gn~~~aA~~Lgisr~ 433 (445)
T TIGR02915 404 RAEREAVRKAIARVDGNIARAAELLGITRP 433 (445)
T ss_pred HHHHHHHHHHHHHhCCCHHHHHHHhCCCHH
Confidence 34778899999999999999999999 454
No 89
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=28.54 E-value=2.3e+02 Score=23.04 Aligned_cols=31 Identities=19% Similarity=0.333 Sum_probs=22.8
Q ss_pred cCchHHHHHHHhCCCCHHHHHHHHHHHHHHHh
Q 020167 97 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQ 128 (330)
Q Consensus 97 yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~ 128 (330)
.|..++.||+.+|- +...|+++...-..+++
T Consensus 128 ~~~~~~eIA~~lgi-s~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 128 EGKSYKEIAEELGI-SVKTVEYHISKALKELR 158 (161)
T ss_pred cCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHH
Confidence 36689999998885 78888887666555553
No 90
>PF01410 COLFI: Fibrillar collagen C-terminal domain; InterPro: IPR000885 Collagens contain a large number of globular domains in between the regions of triple helical repeats IPR008160 from INTERPRO. These domains are involved in binding diverse substrates. One of these domains is found at the C terminus of fibrillar collagens. The exact function of this domain is unknown.; GO: 0005201 extracellular matrix structural constituent, 0005581 collagen
Probab=28.03 E-value=31 Score=32.01 Aligned_cols=16 Identities=25% Similarity=0.657 Sum_probs=14.3
Q ss_pred cCCCCCCCccccCCCC
Q 020167 4 VNPNPAQGFFFFDPMN 19 (330)
Q Consensus 4 ~~p~~~~~~~~~d~~~ 19 (330)
.+|+.+.|.|++||.+
T Consensus 21 ~~p~~~dG~YwIDPN~ 36 (214)
T PF01410_consen 21 CHPELPDGEYWIDPNG 36 (214)
T ss_pred hCcccCCCcEeECCCC
Confidence 5799999999999984
No 91
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=27.54 E-value=67 Score=31.37 Aligned_cols=29 Identities=21% Similarity=0.288 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHcCchHHHHHHHhC-CCC
Q 020167 84 EQEHDKFLEALQLFDRDWKKIEAFIG-SKT 112 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGrdWkkIA~~Vg-TRT 112 (330)
+-|.+.+.++|+++|++..+.|+.+| +|+
T Consensus 404 ~~e~~~i~~~l~~~~gn~~~aa~~Lgisr~ 433 (441)
T PRK10365 404 EVEKEVILAALEKTGGNKTEAARQLGITRK 433 (441)
T ss_pred HHHHHHHHHHHHHhCCCHHHHHHHhCCCHH
Confidence 45777899999999999999999999 454
No 92
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=27.26 E-value=1.7e+02 Score=24.34 Aligned_cols=44 Identities=14% Similarity=0.212 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHcCc-hHHHHHHHhCCCCHHHHHHHHHHHHHHHhhcCC
Q 020167 84 EQEHDKFLEALQLFDR-DWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGT 132 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGr-dWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~g~ 132 (330)
++-+.++|+.|+.-|+ .+..||+.+| -+..-|+.+- .++.+.|.
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lg-lS~~~v~~Ri----~~L~~~Gi 51 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVG-LSPSTVLRRI----KRLEEEGV 51 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHC-CCHHHHHHHH----HHHHHCCc
Confidence 4678899999999997 8999999999 5788888764 45666664
No 93
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=27.25 E-value=37 Score=31.48 Aligned_cols=28 Identities=18% Similarity=0.433 Sum_probs=24.6
Q ss_pred CCCCCHHHHHHHHHHHHHcC-chHHHHHH
Q 020167 79 RESWTEQEHDKFLEALQLFD-RDWKKIEA 106 (330)
Q Consensus 79 r~~WT~EEh~lFLEgLe~yG-rdWkkIA~ 106 (330)
.+-|-.+-|..||.|+..|| .+|..|..
T Consensus 3 ~~iw~r~hdywll~gi~~hgy~rwqdi~n 31 (173)
T PF08074_consen 3 YEIWHRRHDYWLLAGIVKHGYGRWQDIQN 31 (173)
T ss_pred hhhhhhhhhHHHHhHHhhccchhHHHHhc
Confidence 46798899999999999999 59999973
No 94
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=26.53 E-value=84 Score=30.54 Aligned_cols=38 Identities=18% Similarity=0.232 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHcCchHHHHHHHhC-CCCHHHHHHHHHHHHHHHhhcC
Q 020167 85 QEHDKFLEALQLFDRDWKKIEAFIG-SKTVIQIRSHAQKYFLKVQKNG 131 (330)
Q Consensus 85 EEh~lFLEgLe~yGrdWkkIA~~Vg-TRT~~Q~RSHaQKYf~kl~k~g 131 (330)
-|.+.+.++|+.+|++-.+.|+.+| +|+ ..+.|+++.|
T Consensus 286 ~Er~~I~~aL~~~~gn~~~aA~~LGIsR~---------tLyrklk~~g 324 (326)
T PRK11608 286 QEKELLQRSLQQAKFNQKRAAELLGLTYH---------QLRALLKKHQ 324 (326)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHhCCCHH---------HHHHHHHHcC
Confidence 4778899999999999999999999 454 3556666554
No 95
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=26.38 E-value=2.4e+02 Score=23.52 Aligned_cols=30 Identities=13% Similarity=0.191 Sum_probs=19.7
Q ss_pred cCchHHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 020167 97 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKV 127 (330)
Q Consensus 97 yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl 127 (330)
.|..++.||+.+|- +...|+.+...-..++
T Consensus 143 ~~~s~~eIA~~lgi-s~~tV~~~l~ra~~~L 172 (182)
T PRK09652 143 EGLSYEEIAEIMGC-PIGTVRSRIFRAREAL 172 (182)
T ss_pred cCCCHHHHHHHHCC-CHHHHHHHHHHHHHHH
Confidence 46699999999885 5666665544433333
No 96
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into s
Probab=26.04 E-value=1.2e+02 Score=25.56 Aligned_cols=24 Identities=17% Similarity=0.459 Sum_probs=17.0
Q ss_pred CHHHHHHHHHHHHHcCchHHHHHHHhC
Q 020167 83 TEQEHDKFLEALQLFDRDWKKIEAFIG 109 (330)
Q Consensus 83 T~EEh~lFLEgLe~yGrdWkkIA~~Vg 109 (330)
|.++...|-+ ..|++|++++..+|
T Consensus 1 ~~~~~q~~~~---nvGr~WK~laR~Lg 24 (90)
T cd08780 1 TPADQQHFAK---SVGKKWKPVGRSLQ 24 (90)
T ss_pred CHHHHHHHHH---HHhHHHHHHHHHHc
Confidence 3445444443 45899999999998
No 97
>PF12181 MogR_DNAbind: DNA binding domain of the motility gene repressor (MogR); InterPro: IPR021009 This domain family is found in bacteria, and is approximately 150 amino acids in length. MogR is involved in the transcriptional repressor of flagellar motility genes, such as flaA, during extracellular growth at 37 degrees Celsius and during intracellular infection. It binds directly to gene promoter region and probably prevents RNA polymerase binding. At low temperatures, MogR repression activity is modulated by the DegU response regulator in an unknown mechanism. MogR is required for full virulence []. MogR binds AT rich flagellar gene promoter regions upstream of the flagellar gene. These regions follow the pattern 5'-TTTTNNNNNAAAA-3'. This domain is the DNA binding domain of MogR []. ; PDB: 3FDQ_B.
Probab=25.89 E-value=1.8e+02 Score=26.31 Aligned_cols=64 Identities=23% Similarity=0.333 Sum_probs=33.9
Q ss_pred CCCCCCHHHHHHHHHHHH---HcCchHHHHHHHhC-------CCCHHHHHHHHHHHHHHHhhcCCCCCCCC--CCCCCC
Q 020167 78 SRESWTEQEHDKFLEALQ---LFDRDWKKIEAFIG-------SKTVIQIRSHAQKYFLKVQKNGTSEHVPP--PRPKRK 144 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe---~yGrdWkkIA~~Vg-------TRT~~Q~RSHaQKYf~kl~k~g~~e~iP~--pr~KRk 144 (330)
..-.|=.-|-++|-+.++ .+|-+--.|+++|. -||+.|..+- ||.-....-..++||. |.||||
T Consensus 59 S~isWLKsELELLy~~YQf~q~h~lni~diSk~~Skn~L~lFpKTeSQLQNT---YYKLKk~~i~fEnI~K~KPGRKrK 134 (148)
T PF12181_consen 59 SNISWLKSELELLYACYQFCQRHGLNILDISKMLSKNDLNLFPKTESQLQNT---YYKLKKEEIPFENIKKNKPGRKRK 134 (148)
T ss_dssp SSEEE-HHHHHHHHHHHHHHHHTT--HHHHHHHHSTTTT-SSSS-HHHHHHH---HHHHHTTSS-SS-EE----S----
T ss_pred hhhHHHHHHHHHHHHHHHHHHHcCCccccHHHHhhhhhhccCCCCHHHHHHH---HHHHHhhhcchhhccccCCCcccc
Confidence 345798888888877664 45667778888875 5899998874 3332222334566665 456665
No 98
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=24.32 E-value=2.5e+02 Score=24.61 Aligned_cols=31 Identities=6% Similarity=0.078 Sum_probs=21.6
Q ss_pred HcCchHHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 020167 96 LFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKV 127 (330)
Q Consensus 96 ~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl 127 (330)
..|..++.||+.+|. +...|++|...=..++
T Consensus 148 ~~g~s~~EIA~~lg~-s~~tV~~rl~rar~~L 178 (192)
T PRK09643 148 MQGYSVADAARMLGV-AEGTVKSRCARGRARL 178 (192)
T ss_pred HcCCCHHHHHHHHCc-CHHHHHHHHHHHHHHH
Confidence 346689999988885 6778888764444444
No 99
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=23.75 E-value=59 Score=32.54 Aligned_cols=58 Identities=22% Similarity=0.311 Sum_probs=37.3
Q ss_pred CCCCCCCCCcccccCCCCCCHHHHHHHHHHHHHc---CchHHHHHHHhCCCCHHHHHHHHHHHHHHHhhc
Q 020167 64 DPSKKIRKPYTITKSRESWTEQEHDKFLEALQLF---DRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN 130 (330)
Q Consensus 64 ~~~kKirkPy~i~k~r~~WT~EEh~lFLEgLe~y---GrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl~k~ 130 (330)
..++|-|+||+. .=|.|-|+-|| +.+| .|+|. |++.+- -|..|||.-+|+=.+|.+|.
T Consensus 233 ~~~RKKRcPYTK-----~QtlELEkEFl--fN~YitkeKR~E-lSr~lN-LTeRQVKIWFQNRRMK~KK~ 293 (308)
T KOG0487|consen 233 RRGRKKRCPYTK-----HQTLELEKEFL--FNMYITKEKRLE-LSRTLN-LTERQVKIWFQNRRMKEKKV 293 (308)
T ss_pred cccccccCCchH-----HHHHHHHHHHH--HHHHHhHHHHHH-HHHhcc-cchhheeeeehhhhhHHhhh
Confidence 456788888862 22344444443 3444 34665 887764 58999999888777776664
No 100
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=22.94 E-value=69 Score=25.19 Aligned_cols=23 Identities=17% Similarity=0.473 Sum_probs=18.0
Q ss_pred HHHHHHHHHcCchHHHHHHHhCC
Q 020167 88 DKFLEALQLFDRDWKKIEAFIGS 110 (330)
Q Consensus 88 ~lFLEgLe~yGrdWkkIA~~VgT 110 (330)
..|...-+..|.+|+++|..+|-
T Consensus 5 ~~l~~ia~~lG~dW~~LAr~Lg~ 27 (84)
T cd08317 5 IRLADISNLLGSDWPQLARELGV 27 (84)
T ss_pred chHHHHHHHHhhHHHHHHHHcCC
Confidence 34555667779999999999983
No 101
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=22.87 E-value=1.1e+02 Score=31.53 Aligned_cols=40 Identities=10% Similarity=0.181 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHcCchHHHHHHHhCC-CCHHHHHHHHHHHHHHHhhcCC
Q 020167 84 EQEHDKFLEALQLFDRDWKKIEAFIGS-KTVIQIRSHAQKYFLKVQKNGT 132 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGrdWkkIA~~VgT-RT~~Q~RSHaQKYf~kl~k~g~ 132 (330)
+-|.+.+.++|+.+|++..+.|+.+|- |+ ..+.|++|-|.
T Consensus 467 ~~Er~~I~~aL~~~~gn~~~aA~~LGisr~---------tL~rklk~~gi 507 (509)
T PRK05022 467 AFQRQLIRQALAQHQGNWAAAARALELDRA---------NLHRLAKRLGL 507 (509)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHhCCCHH---------HHHHHHHHcCC
Confidence 457888999999999999999999994 43 24555655553
No 102
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=21.81 E-value=1.4e+02 Score=31.54 Aligned_cols=42 Identities=21% Similarity=0.446 Sum_probs=33.8
Q ss_pred CCHHHHHHHHHHHHHcCchHHHHHHHhC-CCCHHHHHHHHHHHHHHHhhcCC
Q 020167 82 WTEQEHDKFLEALQLFDRDWKKIEAFIG-SKTVIQIRSHAQKYFLKVQKNGT 132 (330)
Q Consensus 82 WT~EEh~lFLEgLe~yGrdWkkIA~~Vg-TRT~~Q~RSHaQKYf~kl~k~g~ 132 (330)
+-+-|.+.+.++|+.+|++..+.|+.+| +|+ ..+.|+++-|.
T Consensus 588 l~~~E~~~i~~al~~~~gn~~~aA~~LGisR~---------TLyrklk~~~i 630 (638)
T PRK11388 588 LAELEKEAIINAAQVCGGRIQEMAALLGIGRT---------TLWRKMKQHGI 630 (638)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHCCCHH---------HHHHHHHHcCC
Confidence 4466888899999999999999999999 555 35677777664
No 103
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=21.74 E-value=2.8e+02 Score=20.45 Aligned_cols=46 Identities=7% Similarity=0.026 Sum_probs=32.1
Q ss_pred CCCCCCHHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHH
Q 020167 78 SRESWTEQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFL 125 (330)
Q Consensus 78 ~r~~WT~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~ 125 (330)
.+..||.|+-..+++.+..-|.....||.-.|= ++.++.. |.+-|.
T Consensus 3 ~r~~ys~e~K~~~v~~~~~~g~sv~~va~~~gi-~~~~l~~-W~~~~~ 48 (76)
T PF01527_consen 3 KRRRYSPEFKLQAVREYLESGESVSEVAREYGI-SPSTLYN-WRKQYR 48 (76)
T ss_dssp SS----HHHHHHHHHHHHHHHCHHHHHHHHHTS--HHHHHH-HHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHCCCceEeeeccccc-ccccccH-HHHHHh
Confidence 467899999999999887778899999988777 6666665 555444
No 104
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=21.39 E-value=86 Score=23.98 Aligned_cols=23 Identities=22% Similarity=0.560 Sum_probs=17.4
Q ss_pred HHHHHHHHH-cCchHHHHHHHhCC
Q 020167 88 DKFLEALQL-FDRDWKKIEAFIGS 110 (330)
Q Consensus 88 ~lFLEgLe~-yGrdWkkIA~~VgT 110 (330)
..|...++. .|.+|+++|..+|-
T Consensus 6 ~~~~~l~~~~~g~~W~~la~~Lg~ 29 (88)
T smart00005 6 EKLAKLLDHPLGLDWRELARKLGL 29 (88)
T ss_pred HHHHHHHcCccchHHHHHHHHcCC
Confidence 345555555 79999999999995
No 105
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=20.87 E-value=3e+02 Score=23.85 Aligned_cols=43 Identities=19% Similarity=0.259 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 020167 84 EQEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKV 127 (330)
Q Consensus 84 ~EEh~lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~kl 127 (330)
.+|+..|++.+-+..++-|.|++.+|- +.--||++..+...++
T Consensus 35 ~~E~~~Fi~~Fi~~rGnlKe~e~~lgi-SYPTvR~rLd~ii~~l 77 (113)
T PF09862_consen 35 SPEQLEFIKLFIKNRGNLKEMEKELGI-SYPTVRNRLDKIIEKL 77 (113)
T ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHCC-CcHHHHHHHHHHHHHh
Confidence 578999999999999999999999885 7788999887776665
No 106
>PF00191 Annexin: Annexin; InterPro: IPR018502 The annexins (or lipocortins) are a family of proteins that bind to phospholipids in a calcium-dependent manner []. They are distributed ubiquitously in different tissues and cell types of higher and lower eukaryotes, including mammals, fish, birds, Drosophila melanogaster (Fruit fly), Xenopus laevis (African clawed frog), Caenorhabditis elegans , Dictyostelium discoideum (Slime mold) and Neurospora crassa [, ]. Annexins are absent from yeasts and prokaryotes []. The plant annexins are somewhat distinct from those found in other taxa []. Most eukaryotic species have 1-20 annexin (ANX) genes. All annexins share a core domain made up of four similar repeats, each approximately 70 amino acids long []. Each individual annexin repeat (sometimes referred to as endonexin folds) is folded into five alpha-helices, and in turn are wound into a right-handed super-helix; they usually contain a characteristic 'type 2' motif for binding calcium ions with the sequence 'GxGT-[38 residues]-D/E'. Animal and fungal annexins also have variable amino-terminal domains. The core domains of most vertebrate annexins have been analysed by X-ray crystallography, revealing conservation of their secondary and tertiary structures despite only 45-55% amino-acid identity among individual members. The four repeats pack into a structure that resembles a flattened disc, with a slightly convex surface on which the Ca 2+ -binding loops are located and a concave surface at which the amino and carboxyl termini come into close apposition. Annexins are traditionally thought of as calcium-dependent phospholipid-binding proteins, but recent work suggests a more complex set of functions. The famiy has been linked with inhibition of phospholipase activity, exocytosis and endoctyosis, signal transduction, organisation of the extracellular matrix, resistance to reactive oxygen species and DNA replication [].; GO: 0005509 calcium ion binding, 0005544 calcium-dependent phospholipid binding; PDB: 1N44_A 1BC1_A 2IE6_A 2H0M_A 1A8B_A 2H0K_A 1BCW_A 1BCZ_A 1N42_A 1BC0_A ....
Probab=20.00 E-value=1.3e+02 Score=21.87 Aligned_cols=38 Identities=21% Similarity=0.228 Sum_probs=30.2
Q ss_pred HHHHHHHHcCchHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 020167 89 KFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLK 126 (330)
Q Consensus 89 lFLEgLe~yGrdWkkIA~~VgTRT~~Q~RSHaQKYf~k 126 (330)
+|.+|++..|.+=..|-+.+.+|+..|.+.=.+.|...
T Consensus 5 ~l~~a~~~~g~de~~li~Il~~rs~~ql~~i~~~Y~~~ 42 (66)
T PF00191_consen 5 LLHAALKGWGTDEDVLIEILCTRSPAQLRAIKQAYKKK 42 (66)
T ss_dssp HHHHHHSSSSSTHHHHHHHHHHSTHHHHHHHHHHHHHH
T ss_pred HHHHHccCCCCChhHhhhHHhhhcccccceeehhhhhh
Confidence 67778888887666677788899999998877777554
Done!