Query 041081
Match_columns 337
No_of_seqs 288 out of 1727
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 03:38:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041081.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041081hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 1.5E-35 3.2E-40 291.9 10.7 120 1-120 1-120 (459)
2 PLN03212 Transcription repress 100.0 6.5E-35 1.4E-39 269.9 9.4 118 3-120 14-131 (249)
3 KOG0048 Transcription factor, 100.0 8.1E-31 1.8E-35 244.8 8.7 112 9-120 4-115 (238)
4 KOG0048 Transcription factor, 99.9 5E-27 1.1E-31 219.3 2.7 108 63-170 5-115 (238)
5 PLN03212 Transcription repress 99.9 4.4E-25 9.5E-30 204.7 3.7 117 43-167 9-128 (249)
6 PLN03091 hypothetical protein; 99.9 1.4E-23 3E-28 207.4 3.9 105 61-165 8-115 (459)
7 KOG0049 Transcription factor, 99.8 3.5E-21 7.6E-26 196.0 4.6 158 4-162 290-458 (939)
8 KOG0049 Transcription factor, 99.8 4.2E-20 9E-25 188.2 4.8 108 1-109 347-458 (939)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.6 4.4E-16 9.6E-21 115.2 3.4 60 17-78 1-60 (60)
10 COG5147 REB1 Myb superfamily p 99.6 2.2E-15 4.8E-20 153.3 5.4 152 9-161 15-166 (512)
11 KOG0050 mRNA splicing protein 99.5 2.1E-14 4.6E-19 144.0 2.5 105 12-118 5-109 (617)
12 KOG0051 RNA polymerase I termi 99.4 3E-14 6.5E-19 146.5 2.1 164 13-181 383-584 (607)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.4 1E-13 2.2E-18 102.6 3.2 56 70-125 1-57 (60)
14 PF00249 Myb_DNA-binding: Myb- 99.4 4.2E-13 9.1E-18 95.4 5.6 46 67-112 1-48 (48)
15 PF00249 Myb_DNA-binding: Myb- 99.3 5.5E-13 1.2E-17 94.8 0.4 48 14-61 1-48 (48)
16 smart00717 SANT SANT SWI3, AD 99.2 5E-11 1.1E-15 82.5 6.4 48 67-114 1-49 (49)
17 KOG0051 RNA polymerase I termi 99.1 8.4E-11 1.8E-15 121.3 4.6 154 13-168 307-513 (607)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 4.5E-10 9.7E-15 76.6 6.0 44 69-112 1-45 (45)
19 COG5147 REB1 Myb superfamily p 99.0 1.8E-10 3.8E-15 117.8 1.9 101 64-164 17-119 (512)
20 smart00717 SANT SANT SWI3, AD 98.9 3.5E-10 7.6E-15 78.2 2.2 48 14-62 1-48 (49)
21 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 2.1E-09 4.6E-14 73.2 1.9 45 16-61 1-45 (45)
22 KOG0050 mRNA splicing protein 98.6 1.1E-08 2.4E-13 103.5 0.6 98 65-163 5-104 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.5 5.1E-05 1.1E-09 56.3 2.4 49 13-61 2-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.5 0.00029 6.2E-09 52.3 6.2 46 67-112 3-54 (57)
25 KOG0457 Histone acetyltransfer 97.4 5.5E-05 1.2E-09 75.8 1.6 51 11-62 69-119 (438)
26 KOG0457 Histone acetyltransfer 97.4 0.00023 5E-09 71.5 5.9 49 64-112 69-118 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.1 0.00042 9.1E-09 61.4 3.3 50 66-116 3-59 (161)
28 PF08914 Myb_DNA-bind_2: Rap1 97.0 0.0013 2.9E-08 50.0 4.6 51 67-117 2-62 (65)
29 PF13325 MCRS_N: N-terminal re 96.7 0.0026 5.6E-08 58.5 5.5 99 16-116 1-130 (199)
30 COG5259 RSC8 RSC chromatin rem 96.7 0.0019 4.2E-08 65.5 5.1 46 66-111 278-323 (531)
31 COG5259 RSC8 RSC chromatin rem 96.7 0.00062 1.3E-08 69.0 1.1 46 13-60 278-323 (531)
32 KOG1279 Chromatin remodeling f 96.5 0.0035 7.7E-08 64.9 5.5 46 66-111 252-297 (506)
33 PF13837 Myb_DNA-bind_4: Myb/S 96.5 0.0017 3.7E-08 51.0 2.5 46 68-113 2-65 (90)
34 KOG1279 Chromatin remodeling f 96.4 0.0014 3E-08 67.8 1.9 47 12-60 251-297 (506)
35 PF08914 Myb_DNA-bind_2: Rap1 96.2 0.0013 2.9E-08 50.0 0.1 52 14-65 2-61 (65)
36 COG5114 Histone acetyltransfer 96.1 0.0053 1.1E-07 59.9 4.0 47 67-113 63-110 (432)
37 PRK13923 putative spore coat p 95.8 0.0071 1.5E-07 54.3 3.1 51 65-116 3-60 (170)
38 PF13873 Myb_DNA-bind_5: Myb/S 95.1 0.036 7.8E-07 42.7 4.6 47 67-113 2-70 (78)
39 PF13837 Myb_DNA-bind_4: Myb/S 94.6 0.0052 1.1E-07 48.2 -1.4 48 14-61 1-64 (90)
40 TIGR02894 DNA_bind_RsfA transc 94.3 0.012 2.6E-07 52.3 0.0 49 12-62 2-56 (161)
41 COG5114 Histone acetyltransfer 94.3 0.015 3.1E-07 56.9 0.4 48 14-62 63-110 (432)
42 PF13873 Myb_DNA-bind_5: Myb/S 93.8 0.015 3.3E-07 44.8 -0.3 49 13-61 1-69 (78)
43 COG5118 BDP1 Transcription ini 92.2 0.22 4.8E-06 49.9 5.0 46 68-113 366-411 (507)
44 PLN03142 Probable chromatin-re 92.0 0.26 5.7E-06 55.5 6.0 99 15-114 825-986 (1033)
45 PRK13923 putative spore coat p 91.4 0.047 1E-06 49.1 -0.5 49 12-62 3-57 (170)
46 PF09111 SLIDE: SLIDE; InterP 87.8 0.78 1.7E-05 38.9 4.2 50 64-113 46-111 (118)
47 PF12776 Myb_DNA-bind_3: Myb/S 86.8 1.7 3.6E-05 34.3 5.4 43 69-111 1-61 (96)
48 KOG4282 Transcription factor G 86.4 0.94 2E-05 44.6 4.5 48 67-114 54-115 (345)
49 KOG1194 Predicted DNA-binding 83.7 3.1 6.7E-05 42.8 6.7 47 65-111 185-231 (534)
50 KOG2656 DNA methyltransferase 77.9 1.3 2.8E-05 44.6 1.9 49 67-115 130-184 (445)
51 PF09111 SLIDE: SLIDE; InterP 76.6 1.3 2.8E-05 37.6 1.3 35 10-44 45-82 (118)
52 PF08281 Sigma70_r4_2: Sigma-7 72.0 7.6 0.00017 27.3 4.2 40 72-112 12-51 (54)
53 COG5118 BDP1 Transcription ini 70.6 2.4 5.1E-05 42.7 1.6 63 15-79 366-436 (507)
54 PF13404 HTH_AsnC-type: AsnC-t 69.3 12 0.00025 25.9 4.4 38 73-111 3-41 (42)
55 smart00595 MADF subfamily of S 69.1 6.8 0.00015 30.4 3.7 22 89-111 30-51 (89)
56 KOG4167 Predicted DNA-binding 68.5 8.2 0.00018 42.0 5.1 45 67-111 619-663 (907)
57 PF11626 Rap1_C: TRF2-interact 66.9 5.5 0.00012 31.6 2.7 25 10-34 43-75 (87)
58 PRK11179 DNA-binding transcrip 66.5 13 0.00027 32.3 5.2 46 72-118 8-54 (153)
59 KOG4282 Transcription factor G 65.4 2 4.3E-05 42.3 -0.1 47 15-61 55-113 (345)
60 PF13325 MCRS_N: N-terminal re 64.5 12 0.00027 34.5 4.9 43 69-112 1-46 (199)
61 KOG4329 DNA-binding protein [G 61.1 1E+02 0.0022 31.4 10.8 44 68-111 278-322 (445)
62 PRK11169 leucine-responsive tr 59.6 16 0.00035 32.1 4.6 46 72-118 13-59 (164)
63 PF11626 Rap1_C: TRF2-interact 56.0 11 0.00023 29.9 2.6 17 63-79 43-59 (87)
64 KOG4468 Polycomb-group transcr 55.1 13 0.00028 39.7 3.6 50 67-116 88-147 (782)
65 PF01388 ARID: ARID/BRIGHT DNA 53.5 24 0.00052 27.6 4.3 38 77-114 40-90 (92)
66 smart00501 BRIGHT BRIGHT, ARID 51.0 27 0.00059 27.6 4.3 38 77-114 36-86 (93)
67 KOG2009 Transcription initiati 49.6 16 0.00036 38.8 3.5 49 66-114 408-456 (584)
68 KOG0384 Chromodomain-helicase 49.3 16 0.00034 42.1 3.4 75 15-96 1134-1209(1373)
69 KOG4167 Predicted DNA-binding 48.6 8.3 0.00018 42.0 1.1 43 15-59 620-662 (907)
70 PF04545 Sigma70_r4: Sigma-70, 46.6 38 0.00082 23.4 4.0 40 73-113 7-46 (50)
71 PF13404 HTH_AsnC-type: AsnC-t 43.5 7.4 0.00016 26.8 -0.1 38 20-59 3-40 (42)
72 PF11035 SnAPC_2_like: Small n 43.2 45 0.00098 33.1 5.1 42 67-108 21-66 (344)
73 KOG2656 DNA methyltransferase 43.1 14 0.00031 37.5 1.7 51 10-61 126-181 (445)
74 smart00344 HTH_ASNC helix_turn 39.5 69 0.0015 25.5 5.0 45 73-118 3-48 (108)
75 PF07750 GcrA: GcrA cell cycle 35.6 52 0.0011 29.3 4.0 41 69-110 2-42 (162)
76 PRK11179 DNA-binding transcrip 35.4 15 0.00032 31.8 0.5 46 19-66 8-53 (153)
77 PLN03142 Probable chromatin-re 34.5 17 0.00036 41.5 0.8 34 11-44 923-956 (1033)
78 PF11035 SnAPC_2_like: Small n 34.0 1.5E+02 0.0033 29.6 7.1 85 14-112 21-126 (344)
79 PRK11169 leucine-responsive tr 33.3 13 0.00029 32.6 -0.2 46 19-66 13-58 (164)
80 TIGR02985 Sig70_bacteroi1 RNA 31.8 80 0.0017 26.1 4.4 35 77-112 120-154 (161)
81 PRK09413 IS2 repressor TnpA; R 31.7 74 0.0016 26.5 4.1 46 12-61 8-53 (121)
82 PF09420 Nop16: Ribosome bioge 31.2 1.3E+02 0.0028 26.5 5.8 47 66-112 113-163 (164)
83 KOG1194 Predicted DNA-binding 28.4 27 0.00059 36.2 1.1 45 13-59 186-230 (534)
84 PF10545 MADF_DNA_bdg: Alcohol 28.0 55 0.0012 24.4 2.5 24 88-111 28-52 (85)
85 COG1522 Lrp Transcriptional re 26.9 1.2E+02 0.0025 25.6 4.6 46 73-119 8-54 (154)
86 KOG4468 Polycomb-group transcr 25.5 31 0.00067 37.0 0.9 48 14-62 88-144 (782)
87 cd08319 Death_RAIDD Death doma 24.2 1.2E+02 0.0026 24.1 3.8 29 75-104 2-30 (83)
88 PF09197 Rap1-DNA-bind: Rap1, 24.2 1.2E+02 0.0025 25.4 3.9 27 89-115 52-78 (105)
89 PF02954 HTH_8: Bacterial regu 23.9 2.1E+02 0.0045 19.2 4.6 35 73-108 5-39 (42)
90 cd08803 Death_ank3 Death domai 23.0 1.5E+02 0.0032 23.5 4.1 28 75-103 4-31 (84)
91 PF09905 DUF2132: Uncharacteri 21.7 1.3E+02 0.0028 23.0 3.3 24 75-100 12-35 (64)
92 KOG2009 Transcription initiati 21.2 74 0.0016 34.1 2.7 49 9-59 404-452 (584)
93 TIGR02937 sigma70-ECF RNA poly 20.5 1.6E+02 0.0034 23.6 4.0 31 81-112 121-151 (158)
94 PF05263 DUF722: Protein of un 20.5 1.2E+02 0.0027 26.1 3.5 27 87-113 100-128 (130)
95 PF09420 Nop16: Ribosome bioge 20.4 82 0.0018 27.8 2.4 32 12-44 112-143 (164)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=1.5e-35 Score=291.89 Aligned_cols=120 Identities=63% Similarity=1.105 Sum_probs=115.5
Q ss_pred CCCCcccccCCCccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHH
Q 041081 1 MGRAPCCEKIGLKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVK 80 (337)
Q Consensus 1 m~r~~~~~k~~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~ 80 (337)
|||++||+|+.++|++||+|||++|+++|++||.++|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998755999999999999999999999999999999999
Q ss_pred HHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhcccccCCCC
Q 041081 81 LHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFT 120 (337)
Q Consensus 81 lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~ 120 (337)
++++||++|..||++|||||+++||+||+.+|+++++...
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~ 120 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRG 120 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999999999998876544
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=6.5e-35 Score=269.91 Aligned_cols=118 Identities=66% Similarity=1.291 Sum_probs=112.7
Q ss_pred CCcccccCCCccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHHHH
Q 041081 3 RAPCCEKIGLKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVKLH 82 (337)
Q Consensus 3 r~~~~~k~~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~lv 82 (337)
|+|||.|++++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 67999999999999999999999999999998899999999964499999999999999999999999999999999999
Q ss_pred HHcCCCHHHHHhhCCCCCHHHHHHHHHHhcccccCCCC
Q 041081 83 SSLGNRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFT 120 (337)
Q Consensus 83 ~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~ 120 (337)
..||++|..||++|||||+++||+||+.+|++++.+..
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~ 131 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQG 131 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcC
Confidence 99999999999999999999999999999998876544
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.97 E-value=8.1e-31 Score=244.79 Aligned_cols=112 Identities=60% Similarity=1.016 Sum_probs=106.0
Q ss_pred cCCCccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHHHHHHcCCC
Q 041081 9 KIGLKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVKLHSSLGNR 88 (337)
Q Consensus 9 k~~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~lv~~~G~~ 88 (337)
|+.++||+||+|||++|+++|++||.++|..||+.++.+|++++||.||.|||+|.+++|.||+|||.+|+++++.||++
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr 83 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR 83 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH
Confidence 34456899999999999999999999999999999995599999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHhcccccCCCC
Q 041081 89 WSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFT 120 (337)
Q Consensus 89 W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~ 120 (337)
|+.||++|||||++.||++|+.+|++++....
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999998886654
No 4
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.93 E-value=5e-27 Score=219.28 Aligned_cols=108 Identities=17% Similarity=0.129 Sum_probs=100.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHcC-CCHHHHHhhCC-CCCHHHHHHHHHHhcccccCCCC-CCCCCCcChHHHhhcCccc
Q 041081 63 ADLKRGNITAEEEETIVKLHSSLG-NRWSLIAAQLP-GRTDNEIKNYWNSHLSRKTFSFT-GPADDPLTSDDLSNNGIKL 139 (337)
Q Consensus 63 p~~kkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lp-gRt~~qcr~Rw~~~L~~~i~~~~-~~~ed~l~~~~~~~~G~kw 139 (337)
+.+.||+||+|||.+|+++|++|| .+|..||+.++ +|++++||.||.|||+|.|++.. +++||.+|+.+|+.+|+||
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 345579999999999999999999 68999999998 99999999999999999999988 9999999999999999999
Q ss_pred cCCCCCCCCCCccccccccchhhhccCCCCC
Q 041081 140 AGGCKRRKGRTSKVNSKKHKLALASIGMPKT 170 (337)
Q Consensus 140 ~~iak~~~GRt~~~iknr~~~~~~~~~~~~~ 170 (337)
+.||+.+||||++.|||+|++.++++...+.
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999887655433
No 5
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.90 E-value=4.4e-25 Score=204.67 Aligned_cols=117 Identities=19% Similarity=0.200 Sum_probs=105.0
Q ss_pred ccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHHHHHHcC-CCHHHHHhhC-CCCCHHHHHHHHHHhcccccCCCC
Q 041081 43 NAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVKLHSSLG-NRWSLIAAQL-PGRTDNEIKNYWNSHLSRKTFSFT 120 (337)
Q Consensus 43 ~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~l-pgRt~~qcr~Rw~~~L~~~i~~~~ 120 (337)
-+++ |++.-|. ++.+++++||+|||++|+++|++|| .+|..||+.+ ++||++|||.||.++|+|.|++.+
T Consensus 9 ~~~~-~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgp 80 (249)
T PLN03212 9 PVSK-KTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGG 80 (249)
T ss_pred CCCC-CCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCC
Confidence 3455 5555443 3578899999999999999999999 6999999998 699999999999999999999999
Q ss_pred -CCCCCCcChHHHhhcCccccCCCCCCCCCCccccccccchhhhccCC
Q 041081 121 -GPADDPLTSDDLSNNGIKLAGGCKRRKGRTSKVNSKKHKLALASIGM 167 (337)
Q Consensus 121 -~~~ed~l~~~~~~~~G~kw~~iak~~~GRt~~~iknr~~~~~~~~~~ 167 (337)
+.+||.+++..+..+|++|+.||+.+||||++.+||||+.++++...
T Consensus 81 WT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~ 128 (249)
T PLN03212 81 ITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLL 128 (249)
T ss_pred CChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHH
Confidence 99999999999999999999999999999999999999988776543
No 6
>PLN03091 hypothetical protein; Provisional
Probab=99.88 E-value=1.4e-23 Score=207.43 Aligned_cols=105 Identities=18% Similarity=0.227 Sum_probs=99.0
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHHcC-CCHHHHHhhC-CCCCHHHHHHHHHHhcccccCCCC-CCCCCCcChHHHhhcCc
Q 041081 61 LRADLKRGNITAEEEETIVKLHSSLG-NRWSLIAAQL-PGRTDNEIKNYWNSHLSRKTFSFT-GPADDPLTSDDLSNNGI 137 (337)
Q Consensus 61 L~p~~kkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~l-pgRt~~qcr~Rw~~~L~~~i~~~~-~~~ed~l~~~~~~~~G~ 137 (337)
.++.+++++||+|||++|+++|.+|| .+|..||+.+ ++|+++|||.||.++|+|.|++.+ +++||.+++.++..+|+
T Consensus 8 ~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~Gn 87 (459)
T PLN03091 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGN 87 (459)
T ss_pred cCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCc
Confidence 44678999999999999999999999 5899999998 599999999999999999999999 99999999999999999
Q ss_pred cccCCCCCCCCCCccccccccchhhhcc
Q 041081 138 KLAGGCKRRKGRTSKVNSKKHKLALASI 165 (337)
Q Consensus 138 kw~~iak~~~GRt~~~iknr~~~~~~~~ 165 (337)
+|+.||+.+||||++.|||||+..+++.
T Consensus 88 KWskIAk~LPGRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 88 RWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred chHHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence 9999999999999999999999887653
No 7
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.82 E-value=3.5e-21 Score=195.97 Aligned_cols=158 Identities=20% Similarity=0.287 Sum_probs=141.8
Q ss_pred Cccccc-----CCCccCCCCHHHHHHHHHHHHHhCCC---CCcccccccCccccccccchhhhhcccCCCCCCCCCHHHH
Q 041081 4 APCCEK-----IGLKKGRWTAEEDEILTKYIRANGEG---SWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEE 75 (337)
Q Consensus 4 ~~~~~k-----~~lkkg~WT~EED~~L~~~V~~~G~~---~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED 75 (337)
|+|.+| ..+++..||.|||.+|+++|+....+ +|++|-..|++ |+..|..-||.+.|+|.+++|+||.+||
T Consensus 290 yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympg-r~~~qLI~R~~~~LdPsikhg~wt~~ED 368 (939)
T KOG0049|consen 290 YQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPG-RTRQQLITRFSHTLDPSVKHGRWTDQED 368 (939)
T ss_pred HHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCC-cchhhhhhhheeccCccccCCCCCCHHH
Confidence 356654 34678999999999999999987653 79999999999 9999999999999999999999999999
Q ss_pred HHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhcccccCCCC-CCCCCCcChHHHhhcC-ccccCCCCCCCCCCcc
Q 041081 76 ETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFT-GPADDPLTSDDLSNNG-IKLAGGCKRRKGRTSK 152 (337)
Q Consensus 76 ~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~-~~~ed~l~~~~~~~~G-~kw~~iak~~~GRt~~ 152 (337)
.+|+.+|.+|| +.|.+|-..+|||+..|||.||.+.|....+... +-.||+.++..+..+| ..|..+|..+|.||.+
T Consensus 369 ~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~ 448 (939)
T KOG0049|consen 369 VLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSR 448 (939)
T ss_pred HHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccchHHHHHHHccccchh
Confidence 99999999999 6899999999999999999999999999999988 8888888999999998 6899999999999996
Q ss_pred ccccccchhh
Q 041081 153 VNSKKHKLAL 162 (337)
Q Consensus 153 ~iknr~~~~~ 162 (337)
....++...+
T Consensus 449 q~~rrR~R~~ 458 (939)
T KOG0049|consen 449 QLRRRRLRLI 458 (939)
T ss_pred HHHHHHHHHH
Confidence 6655555443
No 8
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.79 E-value=4.2e-20 Score=188.19 Aligned_cols=108 Identities=25% Similarity=0.397 Sum_probs=102.1
Q ss_pred CCCCcccccCCCccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHH
Q 041081 1 MGRAPCCEKIGLKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVK 80 (337)
Q Consensus 1 m~r~~~~~k~~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~ 80 (337)
++|+.....|++++|+||.+||.+|+.+|.+||.++|.+|.+.+|+ |+..|||+||.++|+...|++.||-.||+.|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn-RSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN-RSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC-ccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 5899999999999999999999999999999999999999999999 999999999999999999999999999999999
Q ss_pred HHHHcC-CCHHHHHhhCCCCCHHH---HHHHHH
Q 041081 81 LHSSLG-NRWSLIAAQLPGRTDNE---IKNYWN 109 (337)
Q Consensus 81 lv~~~G-~~W~~IA~~lpgRt~~q---cr~Rw~ 109 (337)
+|.+|| .+|.+||..||.||++| ||.|+.
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~ 458 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLI 458 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHHHHH
Confidence 999999 79999999999999955 444443
No 9
>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=99.60 E-value=4.4e-16 Score=115.25 Aligned_cols=60 Identities=40% Similarity=0.833 Sum_probs=54.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHH
Q 041081 17 WTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETI 78 (337)
Q Consensus 17 WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~L 78 (337)
||+|||++|+.+|.+||. +|..||+.|+. |++.||+.||.++|++.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~~-Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLGN-RTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHSTT-S-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHCc-CCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999996 99999999976 9999999999999999999999999999987
No 10
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.56 E-value=2.2e-15 Score=153.31 Aligned_cols=152 Identities=22% Similarity=0.297 Sum_probs=126.4
Q ss_pred cCCCccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHHHHHHcCCC
Q 041081 9 KIGLKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVKLHSSLGNR 88 (337)
Q Consensus 9 k~~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~lv~~~G~~ 88 (337)
...++.|.|+..||+.|..+|+.||..+|..||..+.. |+++||+.||.++++|.+++..|+.+||..|+.+..++|..
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 45678899999999999999999999999999999998 99999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHhcccccCCCCCCCCCCcChHHHhhcCccccCCCCCCCCCCccccccccchh
Q 041081 89 WSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFTGPADDPLTSDDLSNNGIKLAGGCKRRKGRTSKVNSKKHKLA 161 (337)
Q Consensus 89 W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~~~~ed~l~~~~~~~~G~kw~~iak~~~GRt~~~iknr~~~~ 161 (337)
|+.||..+++|+..+|.+||.+.|.....+..+.......+..+..++..++.......-+-.....|+..++
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s~~~s~~~~~~~f~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~ 166 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKIDPFNENSARRPDIYEDELLEREVNREASY 166 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhccccccccchhhccccCchhhhhhhhhhhhhcccchhhhhHHHHH
Confidence 9999999999999999999999998887643344445555555555665556555444444455555555443
No 11
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.45 E-value=2.1e-14 Score=144.00 Aligned_cols=105 Identities=25% Similarity=0.515 Sum_probs=99.2
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHHHHHHcCCCHHH
Q 041081 12 LKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVKLHSSLGNRWSL 91 (337)
Q Consensus 12 lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~lv~~~G~~W~~ 91 (337)
++-|-|+.-||++|..+|.+||...|..|++.+.. .+++||+.||..+|+|.+++..|+.+||.+|+.+...+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~-kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNR-KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhh-cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 56788999999999999999999899999999987 99999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCCHHHHHHHHHHhcccccCC
Q 041081 92 IAAQLPGRTDNEIKNYWNSHLSRKTFS 118 (337)
Q Consensus 92 IA~~lpgRt~~qcr~Rw~~~L~~~i~~ 118 (337)
|+..| ||++.||-.||+++|.-.+..
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 99999 999999999999988766544
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.43 E-value=3e-14 Score=146.52 Aligned_cols=164 Identities=26% Similarity=0.464 Sum_probs=128.5
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCC--CCCCCCHHHHHHHHHHHH-------
Q 041081 13 KKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADL--KRGNITAEEEETIVKLHS------- 83 (337)
Q Consensus 13 kkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~--kkg~WT~EED~~Ll~lv~------- 83 (337)
++|+||+||++.|..+|.++|. .|.+|+..|+ |.+..|++||+++..++- +++.||.||.++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999996 9999999887 999999999999999885 899999999999999995
Q ss_pred Hc-------------------CCCHHHHHhhCCCCCHHHHHHHHHHhcccccCCCC-CCC-CCC-cChHHH------hhc
Q 041081 84 SL-------------------GNRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFT-GPA-DDP-LTSDDL------SNN 135 (337)
Q Consensus 84 ~~-------------------G~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~-~~~-ed~-l~~~~~------~~~ 135 (337)
++ +.+|..|++.+.+|+.-|||.+|+.++........ ... .+. -+++.+ ...
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~~~~~~~v~l~ErL~dl~~~e~~ 539 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQESKGSDMVWLLERLSDLDLTEES 539 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccccccchhHHHHHHHHhcccccCC
Confidence 33 13699999999999999999999988765544433 221 111 112222 233
Q ss_pred CccccCCCCCCCCCC-ccccccccchhhhccCCCCCCCCCccccccc
Q 041081 136 GIKLAGGCKRRKGRT-SKVNSKKHKLALASIGMPKTKRGTISEVLDQ 181 (337)
Q Consensus 136 G~kw~~iak~~~GRt-~~~iknr~~~~~~~~~~~~~~~~~~~~~~~~ 181 (337)
..-|..|++..||.. .-..+.++..+.+. .+.++..++.+.+..
T Consensus 540 ~IDW~~l~~~~~g~~~~~e~r~q~~~lk~~--I~~~k~kt~~E~~~~ 584 (607)
T KOG0051|consen 540 PIDWKSLAEYAPGESTGEELRLQFERLKKK--IPGWKKKTFSEIVDI 584 (607)
T ss_pred ccCHHHHHHhCCCCCcHHHHHHHHHhHhhc--cCCCCCccHHHHHHH
Confidence 467999999999997 66777777777555 555666677665543
No 13
>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=99.41 E-value=1e-13 Score=102.57 Aligned_cols=56 Identities=34% Similarity=0.538 Sum_probs=48.2
Q ss_pred CCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhcccccCCCC-CCCCC
Q 041081 70 ITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFT-GPADD 125 (337)
Q Consensus 70 WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~-~~~ed 125 (337)
||++||.+|+++|..||.+|..||++|+.||+.||++||+++|++.+.+.+ +++|+
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd 57 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEED 57 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHH
Confidence 999999999999999999999999999779999999999999999988877 54443
No 14
>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=99.40 E-value=4.2e-13 Score=95.44 Aligned_cols=46 Identities=33% Similarity=0.647 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHHHcCCC-HHHHHhhCC-CCCHHHHHHHHHHhc
Q 041081 67 RGNITAEEEETIVKLHSSLGNR-WSLIAAQLP-GRTDNEIKNYWNSHL 112 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G~~-W~~IA~~lp-gRt~~qcr~Rw~~~L 112 (337)
+++||++||.+|+++|.+||.. |..||..|| +||..||++||+++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999987 999999999 999999999999885
No 15
>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=99.28 E-value=5.5e-13 Score=94.83 Aligned_cols=48 Identities=38% Similarity=0.711 Sum_probs=42.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcc
Q 041081 14 KGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYL 61 (337)
Q Consensus 14 kg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L 61 (337)
|++||++||++|+++|.+||.++|..||..|+++|++.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 689999999999999999998669999999994499999999999875
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.19 E-value=5e-11 Score=82.49 Aligned_cols=48 Identities=40% Similarity=0.776 Sum_probs=45.0
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhccc
Q 041081 67 RGNITAEEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLSR 114 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~~ 114 (337)
+++||++||.+|+.++..|| .+|..||..|++||+.+|+.||++++++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~~ 49 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLKP 49 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcCC
Confidence 36899999999999999999 9999999999999999999999988753
No 17
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.07 E-value=8.4e-11 Score=121.35 Aligned_cols=154 Identities=20% Similarity=0.183 Sum_probs=122.7
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC---------------C--------CCcccccccCccccccccchhhhhcccCCC-CCC
Q 041081 13 KKGRWTAEEDEILTKYIRANGE---------------G--------SWRSLPKNAGLLRCGKSCRLRWINYLRADL-KRG 68 (337)
Q Consensus 13 kkg~WT~EED~~L~~~V~~~G~---------------~--------~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~-kkg 68 (337)
+-+.|+++||++|-+.|..|-. . -|..|...||- |+...+++.-++...|-- ++|
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~-R~~~siy~~~rR~y~~FE~~rg 385 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPY-RDRKSIYHHLRRAYTPFENKRG 385 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCc-ccchhHHHHHHhcCCccccccC
Confidence 3488999999999999998821 1 26778888898 999998885445555544 899
Q ss_pred CCCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhccccc--CCCC-CCCCCCcChHHHh--------h---
Q 041081 69 NITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHLSRKT--FSFT-GPADDPLTSDDLS--------N--- 134 (337)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i--~~~~-~~~ed~l~~~~~~--------~--- 134 (337)
.||++|++.|..+|.++|+.|..|++.| ||.+..||.||.++.+..- .+.. +.+|++.+++.+. .
T Consensus 386 ~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~ 464 (607)
T KOG0051|consen 386 KWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQAS 464 (607)
T ss_pred CCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhccccc
Confidence 9999999999999999999999999999 9999999999999999884 5555 7777777766663 1
Q ss_pred ---------------cCccccCCCCCCCCCCccccccccchhhhccCCC
Q 041081 135 ---------------NGIKLAGGCKRRKGRTSKVNSKKHKLALASIGMP 168 (337)
Q Consensus 135 ---------------~G~kw~~iak~~~GRt~~~iknr~~~~~~~~~~~ 168 (337)
.+..|..|++.+.-|.--.+..+|..++......
T Consensus 465 n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 465 NTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred ccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 3456888888777777777888887776554433
No 18
>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=99.05 E-value=4.5e-10 Score=76.59 Aligned_cols=44 Identities=36% Similarity=0.689 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhc
Q 041081 69 NITAEEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHL 112 (337)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L 112 (337)
+||++||.+|+.++..|| .+|..||+.|++|++.+|++||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998764
No 19
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.97 E-value=1.8e-10 Score=117.81 Aligned_cols=101 Identities=24% Similarity=0.301 Sum_probs=94.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhcccccCCCC-CCCCCCcChHHHhhcCccccC
Q 041081 64 DLKRGNITAEEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFT-GPADDPLTSDDLSNNGIKLAG 141 (337)
Q Consensus 64 ~~kkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~-~~~ed~l~~~~~~~~G~kw~~ 141 (337)
.++.|.|+..||..|..+|+.|| ++|+.||..|.-|+++||++||++++.|.+++.. +.+|+..++.+....|++|..
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~wst 96 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhhh
Confidence 45688999999999999999999 6899999999889999999999999999999988 888888999999999999999
Q ss_pred CCCCCCCCCccccccccchhhhc
Q 041081 142 GCKRRKGRTSKVNSKKHKLALAS 164 (337)
Q Consensus 142 iak~~~GRt~~~iknr~~~~~~~ 164 (337)
|+...+|||...+.++|...+..
T Consensus 97 ia~~~d~rt~~~~~ery~~~~~~ 119 (512)
T COG5147 97 IADYKDRRTAQQCVERYVNTLED 119 (512)
T ss_pred hccccCccchHHHHHHHHHHhhh
Confidence 99999999999999999976543
No 20
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.94 E-value=3.5e-10 Score=78.21 Aligned_cols=48 Identities=40% Similarity=0.859 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhccc
Q 041081 14 KGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLR 62 (337)
Q Consensus 14 kg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 62 (337)
+++||++||.+|+.++..||..+|..||..+++ |++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~-rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCC-CCHHHHHHHHHHHcC
Confidence 478999999999999999996699999999997 999999999998764
No 21
>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=98.79 E-value=2.1e-09 Score=73.20 Aligned_cols=45 Identities=40% Similarity=0.795 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcc
Q 041081 16 RWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYL 61 (337)
Q Consensus 16 ~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L 61 (337)
+||++||..|+.++.+||..+|..||..+++ |++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHhC
Confidence 5999999999999999996699999999998 99999999998753
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.59 E-value=1.1e-08 Score=103.45 Aligned_cols=98 Identities=21% Similarity=0.218 Sum_probs=90.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhcccccCCCC-CCCCCCcChHHHhhcCccccCC
Q 041081 65 LKRGNITAEEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFSFT-GPADDPLTSDDLSNNGIKLAGG 142 (337)
Q Consensus 65 ~kkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~~-~~~ed~l~~~~~~~~G~kw~~i 142 (337)
++.|.|+.-||++|..+|.+|| +.|+.|++.++-.+++||++||..+|.|.|++.. ..++|..++.+....-..|..|
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtI 84 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTI 84 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchH
Confidence 4678999999999999999999 6899999999999999999999999999999988 8888888888888899999999
Q ss_pred CCCCCCCCccccccccchhhh
Q 041081 143 CKRRKGRTSKVNSKKHKLALA 163 (337)
Q Consensus 143 ak~~~GRt~~~iknr~~~~~~ 163 (337)
+.. -|||++.+--|++.++-
T Consensus 85 a~i-~gr~~~qc~eRy~~ll~ 104 (617)
T KOG0050|consen 85 ADI-MGRTSQQCLERYNNLLD 104 (617)
T ss_pred HHH-hhhhHHHHHHHHHHHHH
Confidence 876 59999999999987753
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.54 E-value=5.1e-05 Score=56.29 Aligned_cols=49 Identities=10% Similarity=0.200 Sum_probs=42.8
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCC---cccccccCccc-cccccchhhhhcc
Q 041081 13 KKGRWTAEEDEILTKYIRANGEGSW---RSLPKNAGLLR-CGKSCRLRWINYL 61 (337)
Q Consensus 13 kkg~WT~EED~~L~~~V~~~G~~~W---~~IA~~l~~~R-t~~qCr~Rw~~~L 61 (337)
++-.||+||..+++.+|+.+|.++| +.|++.|...| +..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3567999999999999999998899 99999887546 9999999887764
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.53 E-value=0.00029 Score=52.32 Aligned_cols=46 Identities=15% Similarity=0.229 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHcCC-CH---HHHHhhCC-CC-CHHHHHHHHHHhc
Q 041081 67 RGNITAEEEETIVKLHSSLGN-RW---SLIAAQLP-GR-TDNEIKNYWNSHL 112 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G~-~W---~~IA~~lp-gR-t~~qcr~Rw~~~L 112 (337)
+-.||+||..++++++..||. +| ..|+..|. .| |..||+.+.+.|.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 458999999999999999995 99 99999984 55 9999999998775
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.42 E-value=5.5e-05 Score=75.83 Aligned_cols=51 Identities=20% Similarity=0.538 Sum_probs=46.5
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhccc
Q 041081 11 GLKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLR 62 (337)
Q Consensus 11 ~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 62 (337)
.+-...||++|+-+|++++..||.|||..||.+|+. |++.+|+++|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGt-Ktkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGT-KTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcc-cchHHHHHHHHHHHh
Confidence 345678999999999999999999999999999997 999999999998753
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.42 E-value=0.00023 Score=71.47 Aligned_cols=49 Identities=24% Similarity=0.401 Sum_probs=44.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhc
Q 041081 64 DLKRGNITAEEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHL 112 (337)
Q Consensus 64 ~~kkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L 112 (337)
.+-...||.+|+.+||+++..|| ++|..||.++..|+..+|+.+|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 34456899999999999999999 89999999999999999999998764
No 27
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.09 E-value=0.00042 Score=61.41 Aligned_cols=50 Identities=18% Similarity=0.280 Sum_probs=44.1
Q ss_pred CCCCCCHHHHHHHHHHHHHc---CC----CHHHHHhhCCCCCHHHHHHHHHHhccccc
Q 041081 66 KRGNITAEEEETIVKLHSSL---GN----RWSLIAAQLPGRTDNEIKNYWNSHLSRKT 116 (337)
Q Consensus 66 kkg~WT~EED~~Ll~lv~~~---G~----~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i 116 (337)
+...||.|||.+|.+.|..| |. -+..|++.| +||+..|.-||+.++|+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY 59 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQY 59 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHH
Confidence 46689999999999999987 42 489999999 9999999999999998664
No 28
>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=96.96 E-value=0.0013 Score=50.02 Aligned_cols=51 Identities=18% Similarity=0.309 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHHcC--------C-CHHHHHhhCC-CCCHHHHHHHHHHhcccccC
Q 041081 67 RGNITAEEEETIVKLHSSLG--------N-RWSLIAAQLP-GRTDNEIKNYWNSHLSRKTF 117 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G--------~-~W~~IA~~lp-gRt~~qcr~Rw~~~L~~~i~ 117 (337)
+.+||.+||++|+..|..+. + -|.+++...| .+|-.+.|+||...|+++..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 45899999999999997653 1 2999999988 99999999999999987643
No 29
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.74 E-value=0.0026 Score=58.47 Aligned_cols=99 Identities=18% Similarity=0.314 Sum_probs=69.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCcccccccCcc--ccccccchhhhhcc-cCCC--------------------CCCCCCH
Q 041081 16 RWTAEEDEILTKYIRANGEGSWRSLPKNAGLL--RCGKSCRLRWINYL-RADL--------------------KRGNITA 72 (337)
Q Consensus 16 ~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~--Rt~~qCr~Rw~~~L-~p~~--------------------kkg~WT~ 72 (337)
+|++++|-+|+.+|..-. +-..|+..+.-. -|-..+.+||+..| +|.+ .+-+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 699999999999998654 455555443221 35556788998875 2221 4568999
Q ss_pred HHHHHHHHHHHHcCC---CHHHHHh----hC-CCCCHHHHHHHHHHhccccc
Q 041081 73 EEEETIVKLHSSLGN---RWSLIAA----QL-PGRTDNEIKNYWNSHLSRKT 116 (337)
Q Consensus 73 EED~~Ll~lv~~~G~---~W~~IA~----~l-pgRt~~qcr~Rw~~~L~~~i 116 (337)
+|+++|......... .+.+|=. .| ++||++++..+|..+.+..+
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~L 130 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHL 130 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhch
Confidence 999999998766643 5777632 23 89999999999986644443
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.73 E-value=0.0019 Score=65.49 Aligned_cols=46 Identities=13% Similarity=0.188 Sum_probs=42.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHh
Q 041081 66 KRGNITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSH 111 (337)
Q Consensus 66 kkg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~ 111 (337)
....||.+|..+|++.|+.||..|.+||+++.+||..||-.||.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 3458999999999999999999999999999999999999999765
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.67 E-value=0.00062 Score=68.99 Aligned_cols=46 Identities=20% Similarity=0.577 Sum_probs=43.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhc
Q 041081 13 KKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINY 60 (337)
Q Consensus 13 kkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~ 60 (337)
....||.+|-.+|++.|+.||. +|.+||.++++ |+..||..||.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgt-Kt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVGT-KTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhCC-CCHHHHHHHHHcC
Confidence 5668999999999999999997 99999999998 9999999999775
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.53 E-value=0.0035 Score=64.90 Aligned_cols=46 Identities=15% Similarity=0.251 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHh
Q 041081 66 KRGNITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSH 111 (337)
Q Consensus 66 kkg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~ 111 (337)
.+..||.+|..+|++.|..||..|.+||.++.+||..||-.++.++
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 3568999999999999999999999999999999999999999765
No 33
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.53 E-value=0.0017 Score=51.01 Aligned_cols=46 Identities=28% Similarity=0.484 Sum_probs=33.4
Q ss_pred CCCCHHHHHHHHHHHHH------cC--C------CHHHHHhhC----CCCCHHHHHHHHHHhcc
Q 041081 68 GNITAEEEETIVKLHSS------LG--N------RWSLIAAQL----PGRTDNEIKNYWNSHLS 113 (337)
Q Consensus 68 g~WT~EED~~Ll~lv~~------~G--~------~W~~IA~~l----pgRt~~qcr~Rw~~~L~ 113 (337)
..||.+|...||+++.. ++ . -|..||..| ..||+.||+.||.++.+
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~ 65 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKK 65 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence 47999999999999876 21 1 399999987 47999999999998653
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.43 E-value=0.0014 Score=67.84 Aligned_cols=47 Identities=21% Similarity=0.598 Sum_probs=43.3
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhc
Q 041081 12 LKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINY 60 (337)
Q Consensus 12 lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~ 60 (337)
-.++.||.+|+.+|+++|+.||. +|.+||.++++ |+..||..++.+.
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~-ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGD-DWNKVADHVGT-KSQEQCILKFLRL 297 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccCC-CCHHHHHHHHHhc
Confidence 34678999999999999999997 99999999998 9999999998764
No 35
>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=96.19 E-value=0.0013 Score=50.02 Aligned_cols=52 Identities=27% Similarity=0.499 Sum_probs=33.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--CcccccccCccccccccchhhhhcccCCC
Q 041081 14 KGRWTAEEDEILTKYIRANGE------GS--WRSLPKNAGLLRCGKSCRLRWINYLRADL 65 (337)
Q Consensus 14 kg~WT~EED~~L~~~V~~~G~------~~--W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~ 65 (337)
|-+||.+||++|++.|..+.. |+ |.++++.-++.++-.+-|+||...|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 458999999999999976632 22 99999988855888999999999987654
No 36
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.14 E-value=0.0053 Score=59.86 Aligned_cols=47 Identities=26% Similarity=0.393 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhcc
Q 041081 67 RGNITAEEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLS 113 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~ 113 (337)
...|+..|+.+|++.....| .+|..||.++..|+...||.+|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34699999999999999999 899999999999999999999987654
No 37
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.83 E-value=0.0071 Score=54.31 Aligned_cols=51 Identities=16% Similarity=0.207 Sum_probs=42.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHcCC-------CHHHHHhhCCCCCHHHHHHHHHHhccccc
Q 041081 65 LKRGNITAEEEETIVKLHSSLGN-------RWSLIAAQLPGRTDNEIKNYWNSHLSRKT 116 (337)
Q Consensus 65 ~kkg~WT~EED~~Ll~lv~~~G~-------~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i 116 (337)
.++..||.|+|.+|-+.|..|+. -...++..| +||+.+|..||+.+++.+.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 35678999999999999988873 266777777 8999999999999998663
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.15 E-value=0.036 Score=42.66 Aligned_cols=47 Identities=32% Similarity=0.512 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHHHHHcC----C-------------CHHHHHhhC-----CCCCHHHHHHHHHHhcc
Q 041081 67 RGNITAEEEETIVKLHSSLG----N-------------RWSLIAAQL-----PGRTDNEIKNYWNSHLS 113 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G----~-------------~W~~IA~~l-----pgRt~~qcr~Rw~~~L~ 113 (337)
+..||.+|...|+++|.+|. + -|..|+..| +.|+..|++.+|.++..
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~ 70 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKS 70 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHH
Confidence 45799999999999998872 1 299999887 36999999999998753
No 39
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=94.62 E-value=0.0052 Score=48.21 Aligned_cols=48 Identities=25% Similarity=0.638 Sum_probs=33.2
Q ss_pred cCCCCHHHHHHHHHHHHH--h----CC-C------CCcccccccC---ccccccccchhhhhcc
Q 041081 14 KGRWTAEEDEILTKYIRA--N----GE-G------SWRSLPKNAG---LLRCGKSCRLRWINYL 61 (337)
Q Consensus 14 kg~WT~EED~~L~~~V~~--~----G~-~------~W~~IA~~l~---~~Rt~~qCr~Rw~~~L 61 (337)
|..||.+|...|+.++.. + +. + -|..||..|. -.|++.||+.+|.++.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 457999999999999987 2 11 1 3999998874 3399999999998864
No 40
>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=94.34 E-value=0.012 Score=52.31 Aligned_cols=49 Identities=27% Similarity=0.634 Sum_probs=41.8
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC-C-----CCcccccccCccccccccchhhhhccc
Q 041081 12 LKKGRWTAEEDEILTKYIRANGE-G-----SWRSLPKNAGLLRCGKSCRLRWINYLR 62 (337)
Q Consensus 12 lkkg~WT~EED~~L~~~V~~~G~-~-----~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 62 (337)
.+.-.||.|||.+|...|-+|-. | ...+++..+. ||+..|.-||+.+++
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 45678999999999999999932 1 4888888886 999999999999886
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.25 E-value=0.015 Score=56.89 Aligned_cols=48 Identities=19% Similarity=0.509 Sum_probs=44.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhccc
Q 041081 14 KGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLR 62 (337)
Q Consensus 14 kg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 62 (337)
--.|+..|+.+|+++....|.|||..||..++. |....|+.+|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGs-r~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGS-RAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhh-hhhHHHHHHHHHHHh
Confidence 456999999999999999999999999999997 999999999988765
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.83 E-value=0.015 Score=44.77 Aligned_cols=49 Identities=22% Similarity=0.454 Sum_probs=39.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC----------------CCCccccccc----Cccccccccchhhhhcc
Q 041081 13 KKGRWTAEEDEILTKYIRANGE----------------GSWRSLPKNA----GLLRCGKSCRLRWINYL 61 (337)
Q Consensus 13 kkg~WT~EED~~L~~~V~~~G~----------------~~W~~IA~~l----~~~Rt~~qCr~Rw~~~L 61 (337)
++..||.+|.+.|+++|.+|.. ..|..|+..+ ++.|+..|++.+|.++.
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 3578999999999999998821 1399999777 22499999999998864
No 43
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=92.21 E-value=0.22 Score=49.86 Aligned_cols=46 Identities=26% Similarity=0.307 Sum_probs=42.6
Q ss_pred CCCCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhcc
Q 041081 68 GNITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHLS 113 (337)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L~ 113 (337)
.+||.+|-.+...++...|..+..||..+|.|..+||+.+|.+--+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 3899999999999999999999999999999999999999976543
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=92.03 E-value=0.26 Score=55.50 Aligned_cols=99 Identities=14% Similarity=0.303 Sum_probs=74.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccch-------h-------------------------------
Q 041081 15 GRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRL-------R------------------------------- 56 (337)
Q Consensus 15 g~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~-------R------------------------------- 56 (337)
..|+.-+=..++.+..+||..+-..||..|.+ ++...++. |
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~-k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEG-KTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcC-CCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35888888999999999998889999999976 66655532 1
Q ss_pred ----------hhhc-c-cCCCCCCCCCHHHHHHHHHHHHHcC-CCHHHHHhh------------CCCCCHHHHHHHHHHh
Q 041081 57 ----------WINY-L-RADLKRGNITAEEEETIVKLHSSLG-NRWSLIAAQ------------LPGRTDNEIKNYWNSH 111 (337)
Q Consensus 57 ----------w~~~-L-~p~~kkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~------------lpgRt~~qcr~Rw~~~ 111 (337)
|... + -+..++..+|.+||..|+-.+.+|| .+|..|-.. +..||+..+..|...+
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 1110 0 0223445799999999999999999 789998432 3589999999999988
Q ss_pred ccc
Q 041081 112 LSR 114 (337)
Q Consensus 112 L~~ 114 (337)
|+-
T Consensus 984 ~~~ 986 (1033)
T PLN03142 984 IRL 986 (1033)
T ss_pred HHH
Confidence 754
No 45
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=91.39 E-value=0.047 Score=49.08 Aligned_cols=49 Identities=20% Similarity=0.508 Sum_probs=38.8
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCC------CCcccccccCccccccccchhhhhccc
Q 041081 12 LKKGRWTAEEDEILTKYIRANGEG------SWRSLPKNAGLLRCGKSCRLRWINYLR 62 (337)
Q Consensus 12 lkkg~WT~EED~~L~~~V~~~G~~------~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 62 (337)
.++..||.|+|.+|.+.|-+|+.. ....++..+. |++.+|..||+.+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 467889999999999999988642 2555566665 999999999977664
No 46
>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=87.85 E-value=0.78 Score=38.93 Aligned_cols=50 Identities=20% Similarity=0.369 Sum_probs=39.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcCC----CHHHHHhh------------CCCCCHHHHHHHHHHhcc
Q 041081 64 DLKRGNITAEEEETIVKLHSSLGN----RWSLIAAQ------------LPGRTDNEIKNYWNSHLS 113 (337)
Q Consensus 64 ~~kkg~WT~EED~~Ll~lv~~~G~----~W~~IA~~------------lpgRt~~qcr~Rw~~~L~ 113 (337)
..++..||.+||.-|+-++.+||- .|..|-.. +..||+..+..|.+.+|+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~ 111 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIK 111 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHH
Confidence 456779999999999999999995 79888653 357999999999987764
No 47
>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=86.78 E-value=1.7 Score=34.29 Aligned_cols=43 Identities=28% Similarity=0.476 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHHHHHc---CC----------CHHHHHhhC-----CCCCHHHHHHHHHHh
Q 041081 69 NITAEEEETIVKLHSSL---GN----------RWSLIAAQL-----PGRTDNEIKNYWNSH 111 (337)
Q Consensus 69 ~WT~EED~~Ll~lv~~~---G~----------~W~~IA~~l-----pgRt~~qcr~Rw~~~ 111 (337)
.||+++++.|++++... |+ .|..|+..| ...+..||++||..+
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 49999999999998543 21 299998887 235778999998755
No 48
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=86.43 E-value=0.94 Score=44.57 Aligned_cols=48 Identities=17% Similarity=0.318 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHHHHHc----------CCCHHHHHhhC----CCCCHHHHHHHHHHhccc
Q 041081 67 RGNITAEEEETIVKLHSSL----------GNRWSLIAAQL----PGRTDNEIKNYWNSHLSR 114 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~----------G~~W~~IA~~l----pgRt~~qcr~Rw~~~L~~ 114 (337)
...|+.+|-..||++.... +.-|..||+.| .-||+.|||+||.++.+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~ 115 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKK 115 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence 3689999999999887542 23599999965 469999999999988654
No 49
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=83.73 E-value=3.1 Score=42.83 Aligned_cols=47 Identities=21% Similarity=0.240 Sum_probs=42.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHh
Q 041081 65 LKRGNITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSH 111 (337)
Q Consensus 65 ~kkg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~ 111 (337)
-....||.||-.++-++...||.++.+|-+.||.|+-..+...|+..
T Consensus 185 ~~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 185 EFPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred CCcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHH
Confidence 34568999999999999999999999999999999999999888754
No 50
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=77.92 E-value=1.3 Score=44.62 Aligned_cols=49 Identities=20% Similarity=0.283 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHHhh-----CCC-CCHHHHHHHHHHhcccc
Q 041081 67 RGNITAEEEETIVKLHSSLGNRWSLIAAQ-----LPG-RTDNEIKNYWNSHLSRK 115 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G~~W~~IA~~-----lpg-Rt~~qcr~Rw~~~L~~~ 115 (337)
...||.+|-..|++|.+.|.-+|-.||.. ++. ||-..+|+||+..-+.-
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l 184 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKL 184 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHH
Confidence 35699999999999999999999999887 555 99999999998665433
No 51
>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=76.64 E-value=1.3 Score=37.56 Aligned_cols=35 Identities=26% Similarity=0.437 Sum_probs=29.1
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCC---CCCccccccc
Q 041081 10 IGLKKGRWTAEEDEILTKYIRANGE---GSWRSLPKNA 44 (337)
Q Consensus 10 ~~lkkg~WT~EED~~L~~~V~~~G~---~~W~~IA~~l 44 (337)
|.-++..||.+||.-|+-.+.+||. +.|..|...+
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 3667788999999999999999999 8899988766
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=72.01 E-value=7.6 Score=27.28 Aligned_cols=40 Identities=23% Similarity=0.269 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhc
Q 041081 72 AEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHL 112 (337)
Q Consensus 72 ~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L 112 (337)
++++..++.++...|-.+.+||..+ |.+...|+.+....+
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRAR 51 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 4677788888888899999999999 899999999887654
No 53
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=70.56 E-value=2.4 Score=42.74 Aligned_cols=63 Identities=17% Similarity=0.238 Sum_probs=50.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhc--ccCC-----C-CCCCCCHHHHHHHH
Q 041081 15 GRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINY--LRAD-----L-KRGNITAEEEETIV 79 (337)
Q Consensus 15 g~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~--L~p~-----~-kkg~WT~EED~~Ll 79 (337)
-+||.+|-+++.+++...|. +...|+..+|. |..+|+...|.+- .+|. + .+.|+..+|-.+|.
T Consensus 366 ~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~-R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~ 436 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGT-DFSLISSLFPN-RERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLR 436 (507)
T ss_pred CcccHHHHHHHHHHHHHhcc-hHHHHHHhcCc-hhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHH
Confidence 46999999999999999997 99999999999 9999999998764 2331 1 24577777765544
No 54
>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=69.28 E-value=12 Score=25.86 Aligned_cols=38 Identities=18% Similarity=0.362 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHh
Q 041081 73 EEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSH 111 (337)
Q Consensus 73 EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~ 111 (337)
+=|.+|+.+++.-| ..+..||+.+ |=+...|..|...+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 45889999999999 5899999999 88999999998653
No 55
>smart00595 MADF subfamily of SANT domain.
Probab=69.11 E-value=6.8 Score=30.41 Aligned_cols=22 Identities=32% Similarity=0.545 Sum_probs=19.7
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHh
Q 041081 89 WSLIAAQLPGRTDNEIKNYWNSH 111 (337)
Q Consensus 89 W~~IA~~lpgRt~~qcr~Rw~~~ 111 (337)
|..||..|.. +...|+.+|+++
T Consensus 30 W~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 30 WEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHCc-CHHHHHHHHHHH
Confidence 9999999955 999999999876
No 56
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=68.49 E-value=8.2 Score=42.01 Aligned_cols=45 Identities=11% Similarity=0.166 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHh
Q 041081 67 RGNITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSH 111 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~ 111 (337)
...||+.|-.+.-+++..|.+.+-.|++.++++|-+||-..|+..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 348999999999999999999999999999999999999887644
No 57
>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=66.93 E-value=5.5 Score=31.63 Aligned_cols=25 Identities=40% Similarity=0.735 Sum_probs=14.3
Q ss_pred CCCccCCCCHHHHHHH--------HHHHHHhCC
Q 041081 10 IGLKKGRWTAEEDEIL--------TKYIRANGE 34 (337)
Q Consensus 10 ~~lkkg~WT~EED~~L--------~~~V~~~G~ 34 (337)
|.-..|-||+++|+.| .+++++||.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 4455789999999999 446677774
No 58
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=66.53 E-value=13 Score=32.29 Aligned_cols=46 Identities=11% Similarity=0.098 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhcccccCC
Q 041081 72 AEEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFS 118 (337)
Q Consensus 72 ~EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~ 118 (337)
.+-|.+|+.+.++-| ..|..||+.+ |-+...|+.|+..+....+.+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 357999999999999 5999999999 899999999999998877654
No 59
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=65.35 E-value=2 Score=42.31 Aligned_cols=47 Identities=21% Similarity=0.384 Sum_probs=36.7
Q ss_pred CCCCHHHHHHHHHHHHHh----CC-----CCCcccccccC---ccccccccchhhhhcc
Q 041081 15 GRWTAEEDEILTKYIRAN----GE-----GSWRSLPKNAG---LLRCGKSCRLRWINYL 61 (337)
Q Consensus 15 g~WT~EED~~L~~~V~~~----G~-----~~W~~IA~~l~---~~Rt~~qCr~Rw~~~L 61 (337)
..|+.+|-..|+.+..+. .. .-|..||..+. ..|++.||+.+|.++.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 679999999999988643 11 24999998553 2399999999998864
No 60
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=64.51 E-value=12 Score=34.53 Aligned_cols=43 Identities=16% Similarity=0.197 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHHHcCCCHHHHHhhC---CCCCHHHHHHHHHHhc
Q 041081 69 NITAEEEETIVKLHSSLGNRWSLIAAQL---PGRTDNEIKNYWNSHL 112 (337)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~~W~~IA~~l---pgRt~~qcr~Rw~~~L 112 (337)
+|++.+|-+|+.+|.. |+.-..|++.+ -.-|-..+..||+.+|
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~ll 46 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALL 46 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHH
Confidence 5999999999999865 66777776654 4567889999999876
No 61
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=61.09 E-value=1e+02 Score=31.35 Aligned_cols=44 Identities=20% Similarity=0.278 Sum_probs=39.3
Q ss_pred CCCCHHHHHHHHHHHHHcCCCHHHH-HhhCCCCCHHHHHHHHHHh
Q 041081 68 GNITAEEEETIVKLHSSLGNRWSLI-AAQLPGRTDNEIKNYWNSH 111 (337)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~~W~~I-A~~lpgRt~~qcr~Rw~~~ 111 (337)
..|+.+|-...-+-++.||+++..| +..++.|+-..|-..|+-.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 3799999999999999999999999 5568999999999887655
No 62
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=59.61 E-value=16 Score=32.05 Aligned_cols=46 Identities=7% Similarity=-0.031 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhcccccCC
Q 041081 72 AEEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFS 118 (337)
Q Consensus 72 ~EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~ 118 (337)
.+-|.+|+.+.++-| ..|..||+.+ |-+...|+.|++.+.+..+.+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 457899999999998 5999999999 889999999999998877644
No 63
>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=55.99 E-value=11 Score=29.94 Aligned_cols=17 Identities=29% Similarity=0.341 Sum_probs=10.1
Q ss_pred CCCCCCCCCHHHHHHHH
Q 041081 63 ADLKRGNITAEEEETIV 79 (337)
Q Consensus 63 p~~kkg~WT~EED~~Ll 79 (337)
|....|-||+++|..|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 55668899999999994
No 64
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=55.09 E-value=13 Score=39.74 Aligned_cols=50 Identities=16% Similarity=0.391 Sum_probs=40.8
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHHhh----------CCCCCHHHHHHHHHHhccccc
Q 041081 67 RGNITAEEEETIVKLHSSLGNRWSLIAAQ----------LPGRTDNEIKNYWNSHLSRKT 116 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~G~~W~~IA~~----------lpgRt~~qcr~Rw~~~L~~~i 116 (337)
|..||..|..-...++.+||+++..|-+. ..-+|..|+|.+|+..+++.-
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~ 147 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMN 147 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHH
Confidence 56899999999999999999999999332 234677899999998876553
No 65
>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=53.49 E-value=24 Score=27.63 Aligned_cols=38 Identities=18% Similarity=0.309 Sum_probs=28.0
Q ss_pred HHHHHHHHcCC--------CHHHHHhhCCC---CC--HHHHHHHHHHhccc
Q 041081 77 TIVKLHSSLGN--------RWSLIAAQLPG---RT--DNEIKNYWNSHLSR 114 (337)
Q Consensus 77 ~Ll~lv~~~G~--------~W~~IA~~lpg---Rt--~~qcr~Rw~~~L~~ 114 (337)
+|..+|..+|+ .|..||..|.- -+ +.++|..|..+|.+
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 47777887773 59999999822 22 36799999998854
No 66
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=51.02 E-value=27 Score=27.62 Aligned_cols=38 Identities=18% Similarity=0.351 Sum_probs=28.4
Q ss_pred HHHHHHHHcCC--------CHHHHHhhCCC-----CCHHHHHHHHHHhccc
Q 041081 77 TIVKLHSSLGN--------RWSLIAAQLPG-----RTDNEIKNYWNSHLSR 114 (337)
Q Consensus 77 ~Ll~lv~~~G~--------~W~~IA~~lpg-----Rt~~qcr~Rw~~~L~~ 114 (337)
+|..+|.+.|+ .|..||..|.- ..+.+++..|.++|.|
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 37777777763 69999999832 2467889999988864
No 67
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=49.57 E-value=16 Score=38.81 Aligned_cols=49 Identities=29% Similarity=0.360 Sum_probs=43.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhccc
Q 041081 66 KRGNITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHLSR 114 (337)
Q Consensus 66 kkg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L~~ 114 (337)
...+|+.+|-.+........|...+.|+..+|+|..+|+|.+|..-=++
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r 456 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKR 456 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhc
Confidence 4568999999999999999999999999999999999999999755433
No 68
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=49.28 E-value=16 Score=42.11 Aligned_cols=75 Identities=16% Similarity=0.229 Sum_probs=49.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHHHHHHc-CCCHHHHH
Q 041081 15 GRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVKLHSSL-GNRWSLIA 93 (337)
Q Consensus 15 g~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~lv~~~-G~~W~~IA 93 (337)
--|..++|..|+-.|-+||.++|..|-.--.. |..- ...+.-.+...++=...-..|+.++..+ +.+|....
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L------~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~~ 1206 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDL------GLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKKL 1206 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhccCccc------cchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCchhh
Confidence 45999999999999999999999998532111 1110 1111212445566777777888888877 56676665
Q ss_pred hhC
Q 041081 94 AQL 96 (337)
Q Consensus 94 ~~l 96 (337)
+..
T Consensus 1207 ~~~ 1209 (1373)
T KOG0384|consen 1207 KRE 1209 (1373)
T ss_pred hcc
Confidence 544
No 69
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=48.55 E-value=8.3 Score=41.98 Aligned_cols=43 Identities=14% Similarity=0.277 Sum_probs=38.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhh
Q 041081 15 GRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWIN 59 (337)
Q Consensus 15 g~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 59 (337)
-.||+.|-.++.+++..|.. +.-.|++.+++ ++..||-+-|..
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~km~~~-KtVaqCVeyYYt 662 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQKMVKS-KTVAQCVEYYYT 662 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHHHHhcc-ccHHHHHHHHHH
Confidence 46999999999999999995 99999999998 999999987653
No 70
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=46.64 E-value=38 Score=23.43 Aligned_cols=40 Identities=20% Similarity=0.307 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhcc
Q 041081 73 EEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHLS 113 (337)
Q Consensus 73 EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L~ 113 (337)
+++..++.++-..|..+.+||..| |-+...|+.+....|+
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~ 46 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALK 46 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHH
Confidence 455566666655567999999999 7788888888776653
No 71
>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=43.46 E-value=7.4 Score=26.84 Aligned_cols=38 Identities=21% Similarity=0.354 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhh
Q 041081 20 EEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWIN 59 (337)
Q Consensus 20 EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 59 (337)
+=|.+|+.+++..+...+.+||+.++ =+...|..|+..
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45889999999999889999999997 578888888754
No 72
>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=43.16 E-value=45 Score=33.08 Aligned_cols=42 Identities=26% Similarity=0.536 Sum_probs=34.5
Q ss_pred CCCCCHHHHHHHHHHHHHc-CC---CHHHHHhhCCCCCHHHHHHHH
Q 041081 67 RGNITAEEEETIVKLHSSL-GN---RWSLIAAQLPGRTDNEIKNYW 108 (337)
Q Consensus 67 kg~WT~EED~~Ll~lv~~~-G~---~W~~IA~~lpgRt~~qcr~Rw 108 (337)
-..||.-|...|+++.+.. |. .=..|++.++||+..+|++.-
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl 66 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFL 66 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHH
Confidence 4489999999999998765 43 467899999999999998743
No 73
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=43.13 E-value=14 Score=37.47 Aligned_cols=51 Identities=14% Similarity=0.187 Sum_probs=43.5
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCCcccccc-----cCccccccccchhhhhcc
Q 041081 10 IGLKKGRWTAEEDEILTKYIRANGEGSWRSLPKN-----AGLLRCGKSCRLRWINYL 61 (337)
Q Consensus 10 ~~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~-----l~~~Rt~~qCr~Rw~~~L 61 (337)
..+....||++|-+.|.++.++|-- .|-.||.. .+..|+....++||..+.
T Consensus 126 ~~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 126 AHLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred HhhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 3455678999999999999999997 99999987 555599999999997763
No 74
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=39.49 E-value=69 Score=25.47 Aligned_cols=45 Identities=11% Similarity=0.088 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhcccccCC
Q 041081 73 EEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFS 118 (337)
Q Consensus 73 EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~ 118 (337)
+.|.+|+.++...| ..+..||+.+ |-+...|+.|...+.+..+.+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 56888999999888 5899999999 889999999999888776544
No 75
>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=35.59 E-value=52 Score=29.31 Aligned_cols=41 Identities=32% Similarity=0.245 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHH
Q 041081 69 NITAEEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNS 110 (337)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~ 110 (337)
.||.|..++|.+|.. -|..=.+||..|.+.|.+.|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw~-~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWA-EGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHH-cCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 599999999998874 48889999999988999988877654
No 76
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=35.45 E-value=15 Score=31.84 Aligned_cols=46 Identities=15% Similarity=0.154 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCC
Q 041081 19 AEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLK 66 (337)
Q Consensus 19 ~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~k 66 (337)
.+-|.+|+.+.++.|.-.|.+||+.++ -+...|+.|+.+....++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 357999999999999889999999997 7889999999887665543
No 77
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=34.54 E-value=17 Score=41.51 Aligned_cols=34 Identities=21% Similarity=0.303 Sum_probs=29.2
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCCccccccc
Q 041081 11 GLKKGRWTAEEDEILTKYIRANGEGSWRSLPKNA 44 (337)
Q Consensus 11 ~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l 44 (337)
.-++..+|.+||..|+-.+.+||.++|..|...+
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 3345569999999999999999999999997665
No 78
>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=33.98 E-value=1.5e+02 Score=29.55 Aligned_cols=85 Identities=19% Similarity=0.312 Sum_probs=59.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCC---CCcccccccCccccccccchhhhhcccCCCCCCCCCHHHHHHHHHHHHH-c----
Q 041081 14 KGRWTAEEDEILTKYIRANGEG---SWRSLPKNAGLLRCGKSCRLRWINYLRADLKRGNITAEEEETIVKLHSS-L---- 85 (337)
Q Consensus 14 kg~WT~EED~~L~~~V~~~G~~---~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~kkg~WT~EED~~Ll~lv~~-~---- 85 (337)
-..||.-|...|+.+.+....+ +-.+|++.+++ |+..++++ |.+.|+ +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~-Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPG-RSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccC-cCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 3569999999999999866323 34577888888 88888776 344443 2345555554 2
Q ss_pred -CCC------------HHHHHhhCCCCCHHHHHHHHHHhc
Q 041081 86 -GNR------------WSLIAAQLPGRTDNEIKNYWNSHL 112 (337)
Q Consensus 86 -G~~------------W~~IA~~lpgRt~~qcr~Rw~~~L 112 (337)
|.+ |..+|..+-|.-...+---|-+.|
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l 126 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVL 126 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence 211 999999998888888877776665
No 79
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=33.30 E-value=13 Score=32.61 Aligned_cols=46 Identities=20% Similarity=0.178 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcccCCCC
Q 041081 19 AEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYLRADLK 66 (337)
Q Consensus 19 ~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~~k 66 (337)
.+-|.+|+.+.++.|.-.|.+||+.++ -+...|+.|+++....++-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 567999999999999889999999997 6888999999888766554
No 80
>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=31.82 E-value=80 Score=26.14 Aligned_cols=35 Identities=23% Similarity=0.263 Sum_probs=26.0
Q ss_pred HHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhc
Q 041081 77 TIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHL 112 (337)
Q Consensus 77 ~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L 112 (337)
.++.+.-..|-...+||+.+ |.+...++.+.+..+
T Consensus 120 ~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~ 154 (161)
T TIGR02985 120 KIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKAL 154 (161)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 33344334567899999998 789999999887654
No 81
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=31.71 E-value=74 Score=26.48 Aligned_cols=46 Identities=17% Similarity=0.226 Sum_probs=32.3
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhhcc
Q 041081 12 LKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWINYL 61 (337)
Q Consensus 12 lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L 61 (337)
.++.+||.|+-..++..+...|. .-..||..++- +. +-..+|.+.+
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~-~tl~~W~r~y 53 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AA-SQLFLWRKQY 53 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CH-HHHHHHHHHH
Confidence 34678999999888888777775 67788888764 22 3344576654
No 82
>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=31.20 E-value=1.3e+02 Score=26.54 Aligned_cols=47 Identities=17% Similarity=0.163 Sum_probs=39.5
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCHHHHHhhC----CCCCHHHHHHHHHHhc
Q 041081 66 KRGNITAEEEETIVKLHSSLGNRWSLIAAQL----PGRTDNEIKNYWNSHL 112 (337)
Q Consensus 66 kkg~WT~EED~~Ll~lv~~~G~~W~~IA~~l----pgRt~~qcr~Rw~~~L 112 (337)
....-|..|..-|..||.+||.+....+.-. --.|..||+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 4557899999999999999999999998754 2489999999887764
No 83
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=28.41 E-value=27 Score=36.17 Aligned_cols=45 Identities=16% Similarity=0.209 Sum_probs=38.5
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhh
Q 041081 13 KKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWIN 59 (337)
Q Consensus 13 kkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 59 (337)
..-.||.||--++-++...||. +..+|-+.||. |+-..+++-|..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP~-rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALPH-RSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcc-cHHHHHHHccC-ccHHHHHHHHHH
Confidence 3457999999999999999996 99999999998 888877776644
No 84
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=28.05 E-value=55 Score=24.44 Aligned_cols=24 Identities=25% Similarity=0.494 Sum_probs=19.0
Q ss_pred CHHHHHhhCC-CCCHHHHHHHHHHh
Q 041081 88 RWSLIAAQLP-GRTDNEIKNYWNSH 111 (337)
Q Consensus 88 ~W~~IA~~lp-gRt~~qcr~Rw~~~ 111 (337)
-|..||..|. .-+...|+.||.++
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~L 52 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNL 52 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHH
Confidence 4999999995 35678899999865
No 85
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=26.90 E-value=1.2e+02 Score=25.58 Aligned_cols=46 Identities=9% Similarity=0.043 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhcccccCCC
Q 041081 73 EEEETIVKLHSSLG-NRWSLIAAQLPGRTDNEIKNYWNSHLSRKTFSF 119 (337)
Q Consensus 73 EED~~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~Rw~~~L~~~i~~~ 119 (337)
+-|.+|+++.+.-+ ..+..||+.+ |-+...|+.|=.++.+..+.+.
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIKG 54 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCceee
Confidence 56888999999888 5899999999 7999999999999988886553
No 86
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=25.55 E-value=31 Score=37.01 Aligned_cols=48 Identities=19% Similarity=0.324 Sum_probs=36.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCcccccccCcc---------ccccccchhhhhccc
Q 041081 14 KGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLL---------RCGKSCRLRWINYLR 62 (337)
Q Consensus 14 kg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~---------Rt~~qCr~Rw~~~L~ 62 (337)
|..||..|.+....+++++|. +..+|-..+..+ ++..|.|+.|++.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 567999999999999999995 998883333222 566788888877654
No 87
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=24.25 E-value=1.2e+02 Score=24.07 Aligned_cols=29 Identities=24% Similarity=0.585 Sum_probs=22.5
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCCHHHH
Q 041081 75 EETIVKLHSSLGNRWSLIAAQLPGRTDNEI 104 (337)
Q Consensus 75 D~~Ll~lv~~~G~~W~~IA~~lpgRt~~qc 104 (337)
|+.|..+....|..|..+|.+| |=+..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 4668888999999999999998 4444433
No 88
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=24.22 E-value=1.2e+02 Score=25.40 Aligned_cols=27 Identities=19% Similarity=0.337 Sum_probs=20.3
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHhcccc
Q 041081 89 WSLIAAQLPGRTDNEIKNYWNSHLSRK 115 (337)
Q Consensus 89 W~~IA~~lpgRt~~qcr~Rw~~~L~~~ 115 (337)
....+...|..|..+=|+||+..+...
T Consensus 52 F~~~~~~~p~HT~~sWRDR~RKfv~~~ 78 (105)
T PF09197_consen 52 FKDLARKNPRHTENSWRDRYRKFVSEY 78 (105)
T ss_dssp HHHHHHHTTTS-HHHHHHHHHHTHHHH
T ss_pred HHHHHHcCCccchhHHHHHHHHHHHHc
Confidence 345578889999999999998877543
No 89
>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=23.93 E-value=2.1e+02 Score=19.22 Aligned_cols=35 Identities=20% Similarity=0.118 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHH
Q 041081 73 EEEETIVKLHSSLGNRWSLIAAQLPGRTDNEIKNYW 108 (337)
Q Consensus 73 EED~~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~Rw 108 (337)
-|...|.+++..++.+-.+.|+.| |=+...+..|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 367788899999999999999998 44555555443
No 90
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=22.99 E-value=1.5e+02 Score=23.54 Aligned_cols=28 Identities=21% Similarity=0.404 Sum_probs=22.1
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCCHHH
Q 041081 75 EETIVKLHSSLGNRWSLIAAQLPGRTDNE 103 (337)
Q Consensus 75 D~~Ll~lv~~~G~~W~~IA~~lpgRt~~q 103 (337)
|.+|..+....|..|.++|..| |=+...
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~d 31 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDE 31 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHH
Confidence 5678888889999999999999 444433
No 91
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=21.72 E-value=1.3e+02 Score=23.00 Aligned_cols=24 Identities=17% Similarity=0.405 Sum_probs=19.2
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCC
Q 041081 75 EETIVKLHSSLGNRWSLIAAQLPGRT 100 (337)
Q Consensus 75 D~~Ll~lv~~~G~~W~~IA~~lpgRt 100 (337)
+.+|.++|..|| |..++..++-|+
T Consensus 12 e~il~~Lv~~yG--W~~L~~~i~i~C 35 (64)
T PF09905_consen 12 ETILTELVEHYG--WEELGERININC 35 (64)
T ss_dssp HHHHHHHHHHT---HHHHHHHTTSSS
T ss_pred HHHHHHHHHHhC--HHHHHhhccccc
Confidence 567889999996 999999986554
No 92
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=21.16 E-value=74 Score=34.08 Aligned_cols=49 Identities=20% Similarity=0.374 Sum_probs=43.1
Q ss_pred cCCCccCCCCHHHHHHHHHHHHHhCCCCCcccccccCccccccccchhhhh
Q 041081 9 KIGLKKGRWTAEEDEILTKYIRANGEGSWRSLPKNAGLLRCGKSCRLRWIN 59 (337)
Q Consensus 9 k~~lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 59 (337)
-+.....+|+.+|-++...+....|. +...|+...++ |..+|++..|..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~-R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLISNLFPL-RDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-ccccccccccc-ccHHHHHHHHhh
Confidence 34556789999999999999999997 99999999998 999999887754
No 93
>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=20.49 E-value=1.6e+02 Score=23.60 Aligned_cols=31 Identities=23% Similarity=0.173 Sum_probs=23.1
Q ss_pred HHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhc
Q 041081 81 LHSSLGNRWSLIAAQLPGRTDNEIKNYWNSHL 112 (337)
Q Consensus 81 lv~~~G~~W~~IA~~lpgRt~~qcr~Rw~~~L 112 (337)
+.-..|..+..||+.+ |-+...++.+....+
T Consensus 121 ~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~ 151 (158)
T TIGR02937 121 LRYLEGLSYKEIAEIL-GISVGTVKRRLKRAR 151 (158)
T ss_pred hHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3334577899999999 558888888877654
No 94
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=20.48 E-value=1.2e+02 Score=26.15 Aligned_cols=27 Identities=22% Similarity=0.465 Sum_probs=16.9
Q ss_pred CCHHHHHhhC--CCCCHHHHHHHHHHhcc
Q 041081 87 NRWSLIAAQL--PGRTDNEIKNYWNSHLS 113 (337)
Q Consensus 87 ~~W~~IA~~l--pgRt~~qcr~Rw~~~L~ 113 (337)
..|-.||..| .-||...-+.++++.++
T Consensus 100 ~TW~~IA~~l~i~erta~r~~~~fK~~i~ 128 (130)
T PF05263_consen 100 RTWYQIAQKLHISERTARRWRDRFKNDIY 128 (130)
T ss_pred chHHHHHHHhCccHHHHHHHHHHHHHHhc
Confidence 5899999988 44554444444544443
No 95
>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=20.37 E-value=82 Score=27.83 Aligned_cols=32 Identities=19% Similarity=0.407 Sum_probs=25.8
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCccccccc
Q 041081 12 LKKGRWTAEEDEILTKYIRANGEGSWRSLPKNA 44 (337)
Q Consensus 12 lkkg~WT~EED~~L~~~V~~~G~~~W~~IA~~l 44 (337)
-+..+-|..|-.-|..+|.+||. +...+|.-.
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~ 143 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDR 143 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccC
Confidence 45567899999999999999996 887776543
Done!