Query 022562
Match_columns 295
No_of_seqs 239 out of 564
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 04:29:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022562.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022562hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01557 myb_SHAQKYF myb-like 99.7 7.2E-18 1.6E-22 124.8 6.0 53 84-136 1-57 (57)
2 PF00249 Myb_DNA-binding: Myb- 99.5 2.7E-14 6E-19 100.0 5.1 45 87-132 2-47 (48)
3 smart00717 SANT SANT SWI3, AD 99.2 3E-11 6.6E-16 80.5 5.4 46 87-133 2-47 (49)
4 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 3.3E-11 7.1E-16 79.5 5.3 45 88-133 1-45 (45)
5 PF13921 Myb_DNA-bind_6: Myb-l 98.9 9.3E-10 2E-14 79.4 4.5 43 89-133 1-43 (60)
6 PLN03212 Transcription repress 98.8 6.4E-09 1.4E-13 97.0 5.5 51 82-133 21-72 (249)
7 KOG0457 Histone acetyltransfer 98.8 6.8E-09 1.5E-13 102.8 5.2 50 87-137 73-122 (438)
8 PLN03091 hypothetical protein; 98.7 1.4E-08 3.1E-13 101.0 5.1 52 81-133 9-61 (459)
9 KOG0048 Transcription factor, 98.5 1.1E-07 2.3E-12 86.7 4.1 47 86-133 9-56 (238)
10 KOG0724 Zuotin and related mol 98.3 2.9E-07 6.3E-12 86.4 2.7 79 79-157 157-240 (335)
11 PLN03212 Transcription repress 98.3 1.5E-06 3.2E-11 81.4 6.1 50 84-135 76-125 (249)
12 PLN03091 hypothetical protein; 98.2 2.8E-06 6E-11 85.0 6.6 49 85-135 66-114 (459)
13 COG5114 Histone acetyltransfer 98.1 2.7E-06 5.9E-11 82.8 4.3 69 88-168 65-133 (432)
14 COG5259 RSC8 RSC chromatin rem 98.0 4.9E-06 1.1E-10 83.8 4.4 44 85-130 278-321 (531)
15 KOG4329 DNA-binding protein [G 97.9 1.2E-05 2.5E-10 79.3 5.2 54 82-139 273-326 (445)
16 KOG1279 Chromatin remodeling f 97.9 1.5E-05 3.2E-10 81.0 5.0 44 84-129 251-294 (506)
17 KOG0049 Transcription factor, 97.8 3.3E-05 7.1E-10 80.7 5.5 62 84-150 358-419 (939)
18 KOG0048 Transcription factor, 97.6 0.00014 3E-09 66.4 6.3 48 84-133 60-107 (238)
19 KOG0049 Transcription factor, 97.0 0.00067 1.5E-08 71.3 4.5 49 83-132 409-457 (939)
20 PLN03162 golden-2 like transcr 96.8 0.0039 8.5E-08 62.3 7.5 59 80-139 231-293 (526)
21 KOG0050 mRNA splicing protein 96.2 0.0035 7.7E-08 64.4 3.5 49 84-133 5-53 (617)
22 PF13837 Myb_DNA-bind_4: Myb/S 95.7 0.021 4.5E-07 43.5 4.9 51 87-138 2-69 (90)
23 KOG4167 Predicted DNA-binding 95.5 0.019 4.1E-07 61.3 5.0 49 85-138 618-666 (907)
24 COG5118 BDP1 Transcription ini 95.1 0.036 7.8E-07 55.7 5.5 45 81-127 360-404 (507)
25 KOG4468 Polycomb-group transcr 94.8 0.038 8.3E-07 58.0 4.9 47 86-133 88-143 (782)
26 KOG3554 Histone deacetylase co 94.8 0.019 4.2E-07 58.9 2.8 47 81-128 280-326 (693)
27 KOG0051 RNA polymerase I termi 94.7 0.038 8.3E-07 57.8 4.6 59 85-148 383-441 (607)
28 smart00426 TEA TEA domain. 94.5 0.043 9.3E-07 42.9 3.5 43 87-130 4-66 (68)
29 COG5147 REB1 Myb superfamily p 94.0 0.031 6.8E-07 57.4 2.2 56 81-137 15-70 (512)
30 KOG3841 TEF-1 and related tran 93.8 0.22 4.9E-06 50.0 7.6 49 83-132 73-141 (455)
31 KOG0051 RNA polymerase I termi 93.7 0.079 1.7E-06 55.5 4.6 53 84-137 434-511 (607)
32 PLN03142 Probable chromatin-re 93.4 0.11 2.5E-06 57.2 5.3 47 88-135 826-872 (1033)
33 KOG0724 Zuotin and related mol 93.2 0.019 4E-07 54.3 -0.9 50 88-139 55-104 (335)
34 PF09111 SLIDE: SLIDE; InterP 93.1 0.19 4.2E-06 42.4 5.2 52 84-136 47-112 (118)
35 PF01285 TEA: TEA/ATTS domain 91.7 0.19 4.1E-06 50.7 4.1 49 83-132 46-112 (431)
36 KOG1194 Predicted DNA-binding 91.6 0.31 6.8E-06 50.0 5.3 43 85-129 186-228 (534)
37 PF13873 Myb_DNA-bind_5: Myb/S 90.7 0.59 1.3E-05 35.1 4.9 47 87-133 3-69 (78)
38 PF08914 Myb_DNA-bind_2: Rap1 89.5 0.67 1.5E-05 35.4 4.4 50 86-135 2-59 (65)
39 COG5147 REB1 Myb superfamily p 89.3 0.54 1.2E-05 48.6 4.9 53 84-138 70-122 (512)
40 KOG4282 Transcription factor G 89.1 0.78 1.7E-05 43.8 5.5 56 86-141 54-121 (345)
41 KOG0050 mRNA splicing protein 88.1 0.49 1.1E-05 49.3 3.7 49 85-136 58-106 (617)
42 PLN03142 Probable chromatin-re 83.4 2.4 5.2E-05 47.2 6.3 51 85-136 925-986 (1033)
43 TIGR02894 DNA_bind_RsfA transc 81.3 1.6 3.4E-05 39.3 3.2 49 85-135 3-57 (161)
44 PF12776 Myb_DNA-bind_3: Myb/S 79.7 5.6 0.00012 30.5 5.5 45 88-132 1-61 (96)
45 PRK13923 putative spore coat p 73.3 3.3 7.1E-05 37.5 3.0 47 85-132 4-55 (170)
46 KOG2009 Transcription initiati 70.9 4.7 0.0001 42.5 3.9 46 80-127 403-448 (584)
47 PF06461 DUF1086: Domain of Un 70.7 11 0.00024 33.4 5.6 50 89-139 41-92 (145)
48 KOG0384 Chromodomain-helicase 64.0 4.1 8.9E-05 46.4 2.0 54 85-139 1132-1196(1373)
49 PF04504 DUF573: Protein of un 59.6 19 0.00041 29.3 4.7 39 88-127 6-56 (98)
50 KOG0385 Chromatin remodeling c 59.6 13 0.00027 41.2 4.6 51 86-138 795-845 (971)
51 PF11035 SnAPC_2_like: Small n 54.6 36 0.00079 34.0 6.4 49 83-132 18-69 (344)
52 PF08074 CHDCT2: CHDCT2 (NUC03 54.4 7.2 0.00016 35.5 1.5 28 86-113 3-30 (173)
53 PF09420 Nop16: Ribosome bioge 51.7 42 0.00091 29.3 5.8 48 84-132 112-162 (164)
54 PF13325 MCRS_N: N-terminal re 48.2 22 0.00048 32.9 3.7 49 83-131 70-124 (199)
55 KOG1194 Predicted DNA-binding 37.6 64 0.0014 33.8 5.4 47 84-132 367-413 (534)
56 PHA00442 host recBCD nuclease 37.3 32 0.0007 26.3 2.4 23 91-113 25-47 (59)
57 PF01388 ARID: ARID/BRIGHT DNA 36.6 72 0.0016 24.5 4.5 27 107-134 58-89 (92)
58 PF00191 Annexin: Annexin; In 36.3 40 0.00087 24.1 2.8 40 94-135 3-42 (66)
59 smart00501 BRIGHT BRIGHT, ARID 35.7 85 0.0018 24.5 4.8 30 107-137 54-88 (93)
60 PF11626 Rap1_C: TRF2-interact 28.2 31 0.00067 27.2 1.1 13 86-98 47-59 (87)
61 PF08281 Sigma70_r4_2: Sigma-7 25.7 2.2E+02 0.0049 19.5 5.1 37 92-131 13-49 (54)
62 PF13404 HTH_AsnC-type: AsnC-t 25.4 2E+02 0.0043 19.9 4.7 38 92-131 3-40 (42)
63 KOG2656 DNA methyltransferase 24.6 88 0.0019 32.2 3.8 42 87-129 131-177 (445)
64 KOG1878 Nuclear receptor coreg 23.6 12 0.00027 43.4 -2.5 47 80-128 219-265 (1672)
65 PF02509 Rota_NS35: Rotavirus 22.6 48 0.001 32.6 1.5 54 87-148 195-257 (316)
66 PRK11179 DNA-binding transcrip 20.7 1.8E+02 0.0038 24.7 4.5 40 91-132 8-47 (153)
67 TIGR02937 sigma70-ECF RNA poly 20.5 2.8E+02 0.006 21.3 5.2 45 88-136 110-154 (158)
No 1
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=99.72 E-value=7.2e-18 Score=124.84 Aligned_cols=53 Identities=47% Similarity=0.684 Sum_probs=47.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCh---hhhhhhhcCCC-CHHHHHHHHHHHHHHh
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDW---RGISRNFVKTR-TPTQVASHAQKYFLRR 136 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdW---k~IAr~~V~TR-T~~QVrSHAQKYF~rl 136 (295)
|.+..||+|||++||+||+.||.|+| +.|++.++.+| |+.||+||+||||+++
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k~ 57 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLKQ 57 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHccC
Confidence 45678999999999999999999999 99995556688 9999999999999863
No 2
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.50 E-value=2.7e-14 Score=100.01 Aligned_cols=45 Identities=38% Similarity=0.628 Sum_probs=41.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhhhhcC-CCCHHHHHHHHHHH
Q 022562 87 VPWTEEEHKLFLLGLQKVGKGDWRGISRNFVK-TRTPTQVASHAQKY 132 (295)
Q Consensus 87 ~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~-TRT~~QVrSHAQKY 132 (295)
.+||+||+++|++||++||.++|+.|| .+|+ +||..||++|+++|
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia-~~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKDNWKKIA-KRMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTTHHHHHH-HHHSSSSTHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCcHHHHHH-HHcCCCCCHHHHHHHHHhh
Confidence 479999999999999999997799999 7888 99999999999987
No 3
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.20 E-value=3e-11 Score=80.53 Aligned_cols=46 Identities=30% Similarity=0.512 Sum_probs=42.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHH
Q 022562 87 VPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYF 133 (295)
Q Consensus 87 ~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF 133 (295)
..||+||+.+|+.++.+||.++|..|| .++++||..||+.++.+++
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia-~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIA-KELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHH-HHcCCCCHHHHHHHHHHHc
Confidence 579999999999999999966999999 7999999999999987664
No 4
>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=99.19 E-value=3.3e-11 Score=79.49 Aligned_cols=45 Identities=38% Similarity=0.713 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHH
Q 022562 88 PWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYF 133 (295)
Q Consensus 88 ~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF 133 (295)
+||+||+.+|+.++.+||.++|..|| .++++||..||+.|+++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia-~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIA-KELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHH-hHcCCCCHHHHHHHHHHhC
Confidence 59999999999999999966999999 7999999999999987653
No 5
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.94 E-value=9.3e-10 Score=79.39 Aligned_cols=43 Identities=35% Similarity=0.674 Sum_probs=36.9
Q ss_pred CCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHH
Q 022562 89 WTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYF 133 (295)
Q Consensus 89 WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF 133 (295)
||+||+++|++++++||. +|..|| .++++||+.||+.|+.+++
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia-~~l~~Rt~~~~~~r~~~~l 43 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIA-EHLGNRTPKQCRNRWRNHL 43 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHH-HHSTTS-HHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHH-HHHCcCCHHHHHHHHHHHC
Confidence 999999999999999997 999999 7889999999999887743
No 6
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.79 E-value=6.4e-09 Score=96.96 Aligned_cols=51 Identities=24% Similarity=0.444 Sum_probs=45.5
Q ss_pred cccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhc-CCCCHHHHHHHHHHHH
Q 022562 82 ERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFV-KTRTPTQVASHAQKYF 133 (295)
Q Consensus 82 ~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V-~TRT~~QVrSHAQKYF 133 (295)
...+..+||+||++++++++++||..+|+.|| ..+ ..||.+|||.+|.+|+
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IA-k~~g~gRT~KQCReRW~N~L 72 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLP-KRAGLLRCGKSCRLRWMNYL 72 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHH-HhhhcCCCcchHHHHHHHhh
Confidence 33456789999999999999999999999999 566 5899999999999997
No 7
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.77 E-value=6.8e-09 Score=102.77 Aligned_cols=50 Identities=28% Similarity=0.569 Sum_probs=47.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhh
Q 022562 87 VPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRS 137 (295)
Q Consensus 87 ~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~ 137 (295)
..||.+|+.+||+|+++||-|+|..|| ++|||||..+|+.|+.|+|++..
T Consensus 73 ~~WtadEEilLLea~~t~G~GNW~dIA-~hIGtKtkeeck~hy~k~fv~s~ 122 (438)
T KOG0457|consen 73 PSWTADEEILLLEAAETYGFGNWQDIA-DHIGTKTKEECKEHYLKHFVNSP 122 (438)
T ss_pred CCCChHHHHHHHHHHHHhCCCcHHHHH-HHHcccchHHHHHHHHHHHhcCc
Confidence 459999999999999999999999999 89999999999999999998754
No 8
>PLN03091 hypothetical protein; Provisional
Probab=98.70 E-value=1.4e-08 Score=101.00 Aligned_cols=52 Identities=21% Similarity=0.410 Sum_probs=45.6
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcC-CCCHHHHHHHHHHHH
Q 022562 81 RERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVK-TRTPTQVASHAQKYF 133 (295)
Q Consensus 81 ~~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~-TRT~~QVrSHAQKYF 133 (295)
+.+.+.++||.|||+++++++++||.++|..|| ..++ +||.+|||.+|.+|+
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IA-k~~g~gRT~KQCRERW~NyL 61 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVP-KQAGLQRCGKSCRLRWINYL 61 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHh-hhhccCcCcchHhHHHHhcc
Confidence 344556679999999999999999999999999 5665 899999999999886
No 9
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.49 E-value=1.1e-07 Score=86.66 Aligned_cols=47 Identities=19% Similarity=0.343 Sum_probs=44.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcC-CCCHHHHHHHHHHHH
Q 022562 86 GVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVK-TRTPTQVASHAQKYF 133 (295)
Q Consensus 86 ~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~-TRT~~QVrSHAQKYF 133 (295)
.++||.|||.++...|++||.++|..|+ ...+ .|+.+|||.+|-+|+
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~-k~~gl~R~GKSCRlRW~NyL 56 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALP-KLAGLRRCGKSCRLRWTNYL 56 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhh-hhcCCCccchHHHHHhhccc
Confidence 5899999999999999999999999999 7888 899999999999996
No 10
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=2.9e-07 Score=86.41 Aligned_cols=79 Identities=54% Similarity=0.705 Sum_probs=74.5
Q ss_pred ccccccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHH-----HHHHHhhhcccccCCCccccccc
Q 022562 79 ASRERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQ-----KYFLRRSNLNRRRRRSSLFDITT 153 (295)
Q Consensus 79 ~~~~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQ-----KYF~rl~~~~k~krR~Sl~dit~ 153 (295)
.+..++++..|++.+|.+|+.++.+||+++|..|.++++.+|++.|+.+|+| +|+.+....++.++|.+++|++.
T Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~~~~~~~s~~~~~~ 236 (335)
T KOG0724|consen 157 AEELRRKGTPVTERERKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAFEKALARQKSGEEEKRRKSIEDITT 236 (335)
T ss_pred hhhhhhccchhHHHHHHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhccccccchhhhhhc
Confidence 4677888999999999999999999999999999999999999999999999 99999999999999999999998
Q ss_pred CCCC
Q 022562 154 DSVA 157 (295)
Q Consensus 154 d~~~ 157 (295)
....
T Consensus 237 ~~~~ 240 (335)
T KOG0724|consen 237 ASEA 240 (335)
T ss_pred cchh
Confidence 7755
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.26 E-value=1.5e-06 Score=81.39 Aligned_cols=50 Identities=18% Similarity=0.221 Sum_probs=44.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLR 135 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~r 135 (295)
-+..+||+||++++++...+||. .|..|| .+++.||..||+.||..++.+
T Consensus 76 I~kgpWT~EED~lLlel~~~~Gn-KWs~IA-k~LpGRTDnqIKNRWns~LrK 125 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGN-RWSLIA-GRIPGRTDNEIKNYWNTHLRK 125 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccc-cHHHHH-hhcCCCCHHHHHHHHHHHHhH
Confidence 44678999999999999999998 899999 799999999999988765543
No 12
>PLN03091 hypothetical protein; Provisional
Probab=98.19 E-value=2.8e-06 Score=84.98 Aligned_cols=49 Identities=14% Similarity=0.291 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLR 135 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~r 135 (295)
+.++||+||++++++..++||. +|..|| .++..||..||+.||...+.|
T Consensus 66 kKgpWT~EED~lLLeL~k~~Gn-KWskIA-k~LPGRTDnqIKNRWnslLKK 114 (459)
T PLN03091 66 KRGTFSQQEENLIIELHAVLGN-RWSQIA-AQLPGRTDNEIKNLWNSCLKK 114 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHhCc-chHHHH-HhcCCCCHHHHHHHHHHHHHH
Confidence 3468999999999999999998 999999 799999999999999765544
No 13
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.10 E-value=2.7e-06 Score=82.75 Aligned_cols=69 Identities=23% Similarity=0.467 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhhcccccCCCcccccccCCCCCCCcchhhcc
Q 022562 88 PWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSNLNRRRRRSSLFDITTDSVAATPMEEELVD 167 (295)
Q Consensus 88 ~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~~~k~krR~Sl~dit~d~~~~~~~~~~~~~ 167 (295)
-|+.+|+.+|+++++..|-|+|..|| .|||.|+...|++|+-|||+.-+ =+-|-||+.. .+|+.+...
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIa-dyiGsr~kee~k~HylK~y~es~-------~ypl~~i~~~----~~v~q~~f~ 132 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIA-DYIGSRAKEEIKSHYLKMYDESK-------YYPLPDITQN----IHVPQDEFL 132 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHH-HHHhhhhhHHHHHHHHHHHhhcc-------cccccccccC----CCCchHHHH
Confidence 49999999999999999999999999 89999999999999999998532 2556666543 466666655
Q ss_pred c
Q 022562 168 H 168 (295)
Q Consensus 168 ~ 168 (295)
.
T Consensus 133 ~ 133 (432)
T COG5114 133 E 133 (432)
T ss_pred H
Confidence 4
No 14
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.01 E-value=4.9e-06 Score=83.80 Aligned_cols=44 Identities=32% Similarity=0.573 Sum_probs=40.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHH
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQ 130 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQ 130 (295)
..-.||.+|..++|+||+.||. ||.+|| .+|+|||..||--|.-
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA-~HVgtKt~EqCIl~FL 321 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVA-RHVGTKTKEQCILHFL 321 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHH-HHhCCCCHHHHHHHHH
Confidence 3447999999999999999999 999999 7999999999999653
No 15
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=97.93 E-value=1.2e-05 Score=79.34 Aligned_cols=54 Identities=33% Similarity=0.490 Sum_probs=47.0
Q ss_pred cccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhhc
Q 022562 82 ERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSNL 139 (295)
Q Consensus 82 ~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~~ 139 (295)
-|.....|+++|++.|.+||+.||| |+..|.++.|.||+...|.. -||++.+..
T Consensus 273 ~rd~l~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgElVe---yYYlWKkSe 326 (445)
T KOG4329|consen 273 VRDDLSGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGELVE---YYYLWKKSE 326 (445)
T ss_pred cccccccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHHHH---HHHHhhcCc
Confidence 4556778999999999999999999 99999999999999999987 467775553
No 16
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.87 E-value=1.5e-05 Score=80.98 Aligned_cols=44 Identities=27% Similarity=0.508 Sum_probs=40.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHH
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHA 129 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHA 129 (295)
.-+..||++|.-++|+||++||. ||.+|| .+|+|||..||-.|.
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa-~hVg~ks~eqCI~kF 294 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGD-DWNKVA-DHVGTKSQEQCILKF 294 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcc-cHHHHH-hccCCCCHHHHHHHH
Confidence 44567999999999999999999 999999 899999999999954
No 17
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.76 E-value=3.3e-05 Score=80.73 Aligned_cols=62 Identities=19% Similarity=0.357 Sum_probs=49.6
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhhcccccCCCcccc
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSNLNRRRRRSSLFD 150 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~~~k~krR~Sl~d 150 (295)
-+-++||.+|+.+++.|+.+||.+||-+|- ..|+.|+..|||.++. .++...+| +-|.+|.|
T Consensus 358 ikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R-~~vPnRSdsQcR~RY~---nvL~~s~K-~~rW~l~e 419 (939)
T KOG0049|consen 358 VKHGRWTDQEDVLLVCAVSRYGAKDWAKVR-QAVPNRSDSQCRERYT---NVLNRSAK-VERWTLVE 419 (939)
T ss_pred ccCCCCCCHHHHHHHHHHHHhCccchhhHH-HhcCCccHHHHHHHHH---HHHHHhhc-cCceeecc
Confidence 455679999999999999999999999997 8999999999999554 44444443 24566644
No 18
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.58 E-value=0.00014 Score=66.40 Aligned_cols=48 Identities=21% Similarity=0.313 Sum_probs=42.9
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHH
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYF 133 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF 133 (295)
-+.+.||+||+++.+++-.+||. +|..|| .+++.||.-.|+.||.-..
T Consensus 60 ikrg~fT~eEe~~Ii~lH~~~GN-rWs~IA-~~LPGRTDNeIKN~Wnt~l 107 (238)
T KOG0048|consen 60 LKRGNFSDEEEDLIIKLHALLGN-RWSLIA-GRLPGRTDNEVKNHWNTHL 107 (238)
T ss_pred ccCCCCCHHHHHHHHHHHHHHCc-HHHHHH-hhCCCcCHHHHHHHHHHHH
Confidence 44677999999999999999999 899999 7999999999999984443
No 19
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.01 E-value=0.00067 Score=71.27 Aligned_cols=49 Identities=20% Similarity=0.416 Sum_probs=42.7
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHH
Q 022562 83 RKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKY 132 (295)
Q Consensus 83 rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKY 132 (295)
+-|...||-.|+++++.++++||+|.|-+|| .+++.||.+|.+++-..+
T Consensus 409 s~K~~rW~l~edeqL~~~V~~YG~g~WakcA-~~Lp~~t~~q~~rrR~R~ 457 (939)
T KOG0049|consen 409 SAKVERWTLVEDEQLLYAVKVYGKGNWAKCA-MLLPKKTSRQLRRRRLRL 457 (939)
T ss_pred hhccCceeecchHHHHHHHHHHccchHHHHH-HHccccchhHHHHHHHHH
Confidence 4556679999999999999999999999999 899999998877665444
No 20
>PLN03162 golden-2 like transcription factor; Provisional
Probab=96.79 E-value=0.0039 Score=62.26 Aligned_cols=59 Identities=32% Similarity=0.454 Sum_probs=45.8
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHhCC--CChhhhhhhh--cCCCCHHHHHHHHHHHHHHhhhc
Q 022562 80 SRERKRGVPWTEEEHKLFLLGLQKVGK--GDWRGISRNF--VKTRTPTQVASHAQKYFLRRSNL 139 (295)
Q Consensus 80 ~~~rkk~~~WTeEEh~~FLegL~kyGk--GdWk~IAr~~--V~TRT~~QVrSHAQKYF~rl~~~ 139 (295)
...+|.+..||.|=|++|++||++.|. --=|+|- ++ |..-|..+|+||-|||...+++.
T Consensus 231 ~g~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~IL-elMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 231 PGKKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRIL-ELMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCCCCCcccCCHHHHHHHHHHHHHhCcCccchHHHH-HHcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 346778899999999999999999993 1234444 33 45679999999999998776644
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.24 E-value=0.0035 Score=64.44 Aligned_cols=49 Identities=20% Similarity=0.512 Sum_probs=46.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHH
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYF 133 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF 133 (295)
.+++.|+..|++.+-.++.+||+..|.+|+ ..+.-+|+.||+.+|.+|.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~-sll~~kt~rqC~~rw~e~l 53 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIA-SLLNRKTARQCKARWEEWL 53 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHH-HHHhhcchhHHHHHHHHHh
Confidence 568889999999999999999999999999 8999999999999998886
No 22
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.74 E-value=0.021 Score=43.46 Aligned_cols=51 Identities=24% Similarity=0.409 Sum_probs=33.0
Q ss_pred CCCCHHHHHHHHHHHHH------hC-----CC--Chhhhhhhhc----CCCCHHHHHHHHHHHHHHhhh
Q 022562 87 VPWTEEEHKLFLLGLQK------VG-----KG--DWRGISRNFV----KTRTPTQVASHAQKYFLRRSN 138 (295)
Q Consensus 87 ~~WTeEEh~~FLegL~k------yG-----kG--dWk~IAr~~V----~TRT~~QVrSHAQKYF~rl~~ 138 (295)
..||++|-..||+.+.. ++ ++ -|+.|| ..+ -.||+.||+..+.+-..+-.+
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia-~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIA-EELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHH-HHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHH-HHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 36999999999999887 21 12 599999 454 269999999988654443333
No 23
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=95.45 E-value=0.019 Score=61.25 Aligned_cols=49 Identities=29% Similarity=0.391 Sum_probs=42.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhh
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSN 138 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~ 138 (295)
....||..|.++|-.||-.|-| |+..|+ .+|.+||..||..+ ||++.+-
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~K-DF~~v~-km~~~KtVaqCVey---YYtWKK~ 666 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYSK-DFIFVQ-KMVKSKTVAQCVEY---YYTWKKI 666 (907)
T ss_pred CcccccHHHHHHHHHHHHHhcc-cHHHHH-HHhccccHHHHHHH---HHHHHHh
Confidence 3456999999999999999999 999999 89999999999984 5555443
No 24
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=95.11 E-value=0.036 Score=55.69 Aligned_cols=45 Identities=24% Similarity=0.444 Sum_probs=42.5
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHH
Q 022562 81 RERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVAS 127 (295)
Q Consensus 81 ~~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrS 127 (295)
..++...+||.+|-++|-.||..+|- |+..|+ +++++|..+||+-
T Consensus 360 g~~~~~~~Ws~~e~ekFYKALs~wGt-dF~LIs-~lfP~R~RkqIKa 404 (507)
T COG5118 360 GKKKGALRWSKKEIEKFYKALSIWGT-DFSLIS-SLFPNRERKQIKA 404 (507)
T ss_pred cCCCCCCcccHHHHHHHHHHHHHhcc-hHHHHH-HhcCchhHHHHHH
Confidence 56788889999999999999999999 999999 8999999999987
No 25
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=94.81 E-value=0.038 Score=58.01 Aligned_cols=47 Identities=28% Similarity=0.470 Sum_probs=38.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhh---------hhhcCCCCHHHHHHHHHHHH
Q 022562 86 GVPWTEEEHKLFLLGLQKVGKGDWRGIS---------RNFVKTRTPTQVASHAQKYF 133 (295)
Q Consensus 86 ~~~WTeEEh~~FLegL~kyGkGdWk~IA---------r~~V~TRT~~QVrSHAQKYF 133 (295)
.+.||-.|...|..||+++|| |+.+|- ..-+..+|-.|||-||.+-.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 568999999999999999999 999992 24456788899998665443
No 26
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=94.81 E-value=0.019 Score=58.88 Aligned_cols=47 Identities=28% Similarity=0.456 Sum_probs=41.6
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHH
Q 022562 81 RERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASH 128 (295)
Q Consensus 81 ~~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSH 128 (295)
-=|.....|+..|-.+|.+||+|||| |+..|-++|++=++.+-+..+
T Consensus 280 LCRDemEEWSasEanLFEeALeKyGK-DFndIrqdfLPWKSl~sIvey 326 (693)
T KOG3554|consen 280 LCRDEMEEWSASEANLFEEALEKYGK-DFNDIRQDFLPWKSLTSIVEY 326 (693)
T ss_pred eehhhhhhccchhhHHHHHHHHHhcc-cHHHHHHhhcchHHHHHHHHH
Confidence 34677888999999999999999999 999999999998888777664
No 27
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=94.70 E-value=0.038 Score=57.78 Aligned_cols=59 Identities=25% Similarity=0.408 Sum_probs=47.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhhcccccCCCcc
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSNLNRRRRRSSL 148 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~~~k~krR~Sl 148 (295)
+.+.||+||.+.+.....++|. +|..|+ +.++ |.|.-||.+|..|-.--.+ +++.+-++
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig-~~lg-r~P~~crd~wr~~~~~g~~--~~r~~Ws~ 441 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIG-KALG-RMPMDCRDRWRQYVKCGSK--RNRGAWSI 441 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHH-HHHc-cCcHHHHHHHHHhhccccc--cccCcchH
Confidence 5677999999999999999998 999999 5666 8899999999988554443 34455554
No 28
>smart00426 TEA TEA domain.
Probab=94.53 E-value=0.043 Score=42.86 Aligned_cols=43 Identities=30% Similarity=0.372 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCh---------------hhhhhhhc-----CCCCHHHHHHHHH
Q 022562 87 VPWTEEEHKLFLLGLQKVGKGDW---------------RGISRNFV-----KTRTPTQVASHAQ 130 (295)
Q Consensus 87 ~~WTeEEh~~FLegL~kyGkGdW---------------k~IAr~~V-----~TRT~~QVrSHAQ 130 (295)
.-|.++=+..|++||+.|-+-.+ ..|+ +|+ ..||.+||.||-|
T Consensus 4 ~vWp~~lE~Af~~aL~~~~~~g~~kik~~~r~k~~gRNelIs-~YI~~~tGk~Rt~KQVsShIQ 66 (68)
T smart00426 4 GVWSPDIEQAFQEALAIYPPCGRRKIILSDEGKMYGRNELIA-RYIKLRTGKTRTRKQVSSHIQ 66 (68)
T ss_pred CcCcHHHHHHHHHHHHHcCccCcccchhhhcCcccchhHHHH-HHHHHHhCCccchhhhcchhe
Confidence 45999999999999999964222 2344 444 4599999999977
No 29
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=94.00 E-value=0.031 Score=57.42 Aligned_cols=56 Identities=14% Similarity=0.357 Sum_probs=46.5
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhh
Q 022562 81 RERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRS 137 (295)
Q Consensus 81 ~~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~ 137 (295)
+...+++.|+..|+..++-+.++||..+|..|| ..+..||..||+.|+..|...+-
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~va-s~~~~~~~kq~~~rw~~~lnp~l 70 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVA-SLLISSTGKQSSNRWNNHLNPQL 70 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHH-HHhcccccccccchhhhhhchhc
Confidence 344556689999999999999999999999999 56666999999999977754443
No 30
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=93.77 E-value=0.22 Score=50.04 Aligned_cols=49 Identities=31% Similarity=0.367 Sum_probs=41.3
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhC---------------CCChhhhhhhhc-----CCCCHHHHHHHHHHH
Q 022562 83 RKRGVPWTEEEHKLFLLGLQKVG---------------KGDWRGISRNFV-----KTRTPTQVASHAQKY 132 (295)
Q Consensus 83 rkk~~~WTeEEh~~FLegL~kyG---------------kGdWk~IAr~~V-----~TRT~~QVrSHAQKY 132 (295)
|...+.|+++=++.|.|||..|- .|+=..|| .|+ .|||.+||-||-|=.
T Consensus 73 ~daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIa-rYIKlrtgktRTrKQVSSHIQVl 141 (455)
T KOG3841|consen 73 RDAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIA-RYIKLRTGKTRTRKQVSSHIQVL 141 (455)
T ss_pred cccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHH-HHHHHhcCCchhHHHHHHHHHHH
Confidence 35566799999999999999994 27788999 487 689999999999854
No 31
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=93.74 E-value=0.079 Score=55.49 Aligned_cols=53 Identities=23% Similarity=0.300 Sum_probs=42.8
Q ss_pred cCCCCCCHHHHHHHHHHHH-------Hh-------CC-----------CChhhhhhhhcCCCCHHHHHHHHHHHHHHhh
Q 022562 84 KRGVPWTEEEHKLFLLGLQ-------KV-------GK-----------GDWRGISRNFVKTRTPTQVASHAQKYFLRRS 137 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~-------ky-------Gk-----------GdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~ 137 (295)
.+..+||.||.+++|..++ .| |. =.|..|+ ..++||+..|||.||+|-..+-.
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vs-e~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVS-EMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhh-HhhcCCCcchHHHHHHHHHhhHH
Confidence 4677899999999999996 44 11 1799999 69999999999998887655443
No 32
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.38 E-value=0.11 Score=57.23 Aligned_cols=47 Identities=21% Similarity=0.489 Sum_probs=43.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022562 88 PWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLR 135 (295)
Q Consensus 88 ~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~r 135 (295)
-||..+=..|+.|.++||+.|...|| ..|.++|..+|+.+++-|+.|
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~-~~~~~k~~~ev~~y~~~f~~~ 872 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIA-SEMEGKTEEEVERYAKVFWER 872 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHH-HHhcCCCHHHHHHHHHHHHHh
Confidence 49999999999999999999999999 799999999999888766644
No 33
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=93.18 E-value=0.019 Score=54.30 Aligned_cols=50 Identities=16% Similarity=0.089 Sum_probs=45.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhhc
Q 022562 88 PWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSNL 139 (295)
Q Consensus 88 ~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~~ 139 (295)
.||++||..|.++|..| +-.|+.|- .|++.++..|.++|+|+||-++...
T Consensus 55 ~~t~~~~~~~~~~l~~~-~~~~~~~~-~~~~~~~~v~~~~~~~~~~p~~~~~ 104 (335)
T KOG0724|consen 55 RRTPDSWDKFAEALPLE-KRLEDKIE-EYIGLVFDVNIRESGQKPFPKYGKS 104 (335)
T ss_pred ccchhhhhHHHhcCccc-cccchhHH-hhhhhHHHHhhhhccCCCccccCcc
Confidence 39999999999999999 45999998 8999999999999999999887764
No 34
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=93.14 E-value=0.19 Score=42.39 Aligned_cols=52 Identities=29% Similarity=0.574 Sum_probs=40.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCC---CChhhhhh-----------hhcCCCCHHHHHHHHHHHHHHh
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGK---GDWRGISR-----------NFVKTRTPTQVASHAQKYFLRR 136 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGk---GdWk~IAr-----------~~V~TRT~~QVrSHAQKYF~rl 136 (295)
.++..||+|||+-+|..+.+||- |.|..|-+ =|+.+||+..+..++. +++++
T Consensus 47 ~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~-tLi~~ 112 (118)
T PF09111_consen 47 NKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCN-TLIKL 112 (118)
T ss_dssp SS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHH-HHHHH
T ss_pred CCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHH-HHHHH
Confidence 45667999999999999999999 99999963 2569999999999985 55443
No 35
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=91.75 E-value=0.19 Score=50.68 Aligned_cols=49 Identities=31% Similarity=0.352 Sum_probs=33.0
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCC-------------CChhhhhhhhc-----CCCCHHHHHHHHHHH
Q 022562 83 RKRGVPWTEEEHKLFLLGLQKVGK-------------GDWRGISRNFV-----KTRTPTQVASHAQKY 132 (295)
Q Consensus 83 rkk~~~WTeEEh~~FLegL~kyGk-------------GdWk~IAr~~V-----~TRT~~QVrSHAQKY 132 (295)
.+....|+++=+..|++||..|-+ |+=+.|+ .|| .+||.+||.||.|-.
T Consensus 46 ~~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~-~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 46 GDGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELIS-DYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GGGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHH-HHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHH-HHHHHHhCcccchhHHHHHHHHH
Confidence 455667999999999999999953 4555677 566 569999999999955
No 36
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=91.55 E-value=0.31 Score=49.99 Aligned_cols=43 Identities=26% Similarity=0.332 Sum_probs=37.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHH
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHA 129 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHA 129 (295)
--..||.||--+|..+++.||+ ++.+|- ..++-|+...++-++
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK-~F~kIr-q~LP~rsLaSlvqyY 228 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGK-DFHKIR-QALPHRSLASLVQYY 228 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcc-cHHHHH-HHccCccHHHHHHHH
Confidence 3456999999999999999999 999998 899999987776543
No 37
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=90.65 E-value=0.59 Score=35.14 Aligned_cols=47 Identities=17% Similarity=0.284 Sum_probs=37.4
Q ss_pred CCCCHHHHHHHHHHHHHhC----------------CCChhhhhhhhc----CCCCHHHHHHHHHHHH
Q 022562 87 VPWTEEEHKLFLLGLQKVG----------------KGDWRGISRNFV----KTRTPTQVASHAQKYF 133 (295)
Q Consensus 87 ~~WTeEEh~~FLegL~kyG----------------kGdWk~IAr~~V----~TRT~~QVrSHAQKYF 133 (295)
-.||.+|.+.|++.+++|- ..-|..|+..+- +.||..|++..|+++-
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 4599999999999999983 147999985331 4699999999887653
No 38
>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=89.52 E-value=0.67 Score=35.44 Aligned_cols=50 Identities=16% Similarity=0.184 Sum_probs=31.6
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------CCChhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022562 86 GVPWTEEEHKLFLLGLQKVG--------KGDWRGISRNFVKTRTPTQVASHAQKYFLR 135 (295)
Q Consensus 86 ~~~WTeEEh~~FLegL~kyG--------kGdWk~IAr~~V~TRT~~QVrSHAQKYF~r 135 (295)
.++.|+||+..++..|..+. ..-|+.+++.++..+|-.--|.|+-|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~ 59 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRG 59 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT--
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Confidence 46799999999999997663 236999997777678888888877665543
No 39
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=89.29 E-value=0.54 Score=48.60 Aligned_cols=53 Identities=21% Similarity=0.366 Sum_probs=46.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhh
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSN 138 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~ 138 (295)
.+...|++||++.++..-..+|- .|..|| .+++.||..||...|.+-+.....
T Consensus 70 lk~~~~~~eed~~li~l~~~~~~-~wstia-~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 70 LKKKNWSEEEDEQLIDLDKELGT-QWSTIA-DYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred cccccccHHHHHHHHHHHHhcCc-hhhhhc-cccCccchHHHHHHHHHHhhhhhc
Confidence 34566999999999999999999 899999 899999999999988877766655
No 40
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=89.07 E-value=0.78 Score=43.76 Aligned_cols=56 Identities=16% Similarity=0.300 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-----CChhhhhhhhc---CCCCHHHHHHHHHHHHHHhhhccc
Q 022562 86 GVPWTEEEHKLFLLGLQKVG----K-----GDWRGISRNFV---KTRTPTQVASHAQKYFLRRSNLNR 141 (295)
Q Consensus 86 ~~~WTeEEh~~FLegL~kyG----k-----GdWk~IAr~~V---~TRT~~QVrSHAQKYF~rl~~~~k 141 (295)
...|+++|-+.||++..+.- . ..|..||+.+- --||+.||+..+.+-.++.++.+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~ 121 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKA 121 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhc
Confidence 57899999999999876542 2 36999996333 349999999988766555555544
No 41
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=88.10 E-value=0.49 Score=49.27 Aligned_cols=49 Identities=20% Similarity=0.336 Sum_probs=41.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHh
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRR 136 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl 136 (295)
+.+-|+.||++++|.+.+.+-. .|+-|+ ..|+ ||..||-.|+++..-..
T Consensus 58 ~~tews~eederlLhlakl~p~-qwrtIa-~i~g-r~~~qc~eRy~~ll~~~ 106 (617)
T KOG0050|consen 58 KKTEWSREEDERLLHLAKLEPT-QWRTIA-DIMG-RTSQQCLERYNNLLDVY 106 (617)
T ss_pred hhhhhhhhHHHHHHHHHHhcCC-ccchHH-HHhh-hhHHHHHHHHHHHHHHH
Confidence 4456999999999999999998 999999 5665 99999999988764433
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=83.42 E-value=2.4 Score=47.22 Aligned_cols=51 Identities=31% Similarity=0.627 Sum_probs=41.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhh-----------hhcCCCCHHHHHHHHHHHHHHh
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISR-----------NFVKTRTPTQVASHAQKYFLRR 136 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr-----------~~V~TRT~~QVrSHAQKYF~rl 136 (295)
++..||+||++-+|-.+.+||.|+|..|-. -|+.+||+..+..++. +++++
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~-~l~~~ 986 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCD-TLIRL 986 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHH-HHHHH
Confidence 344599999999999999999999999942 3568999999998885 44433
No 43
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=81.27 E-value=1.6 Score=39.25 Aligned_cols=49 Identities=18% Similarity=0.288 Sum_probs=36.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC------CChhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGK------GDWRGISRNFVKTRTPTQVASHAQKYFLR 135 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGk------GdWk~IAr~~V~TRT~~QVrSHAQKYF~r 135 (295)
+.-.||+||+.++-+.+.+|=+ .-+..++ .-+ +||+.-|.-+|..|..+
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg-~~L-~RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVG-RAL-NRTAAACGFRWNAYVRK 57 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHH-HHH-cccHHHhcchHHHHHHH
Confidence 3457999999999999999832 2455555 223 49999999999877643
No 44
>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=79.71 E-value=5.6 Score=30.49 Aligned_cols=45 Identities=24% Similarity=0.423 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHHHHHh---CC---------CChhhhhhhhc----CCCCHHHHHHHHHHH
Q 022562 88 PWTEEEHKLFLLGLQKV---GK---------GDWRGISRNFV----KTRTPTQVASHAQKY 132 (295)
Q Consensus 88 ~WTeEEh~~FLegL~ky---Gk---------GdWk~IAr~~V----~TRT~~QVrSHAQKY 132 (295)
.||+++++.||+.|... |. ..|+.|++.|. ...|..||++|....
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 49999999999999665 21 15888875433 346889999997543
No 45
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=73.28 E-value=3.3 Score=37.46 Aligned_cols=47 Identities=17% Similarity=0.163 Sum_probs=35.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhc-----CCCCHHHHHHHHHHH
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFV-----KTRTPTQVASHAQKY 132 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V-----~TRT~~QVrSHAQKY 132 (295)
+...||+||+.++-+-+.+|++..=..++ .|- =.||..+|..+|..|
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~-afe~~g~~L~rt~aac~fRwNs~ 55 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLK-AFEEVGDALKRTAAACGFRWNSV 55 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHH-HHHHHHHHHhhhHHHHHhHHHHH
Confidence 34569999999999999999875445554 222 349999999999443
No 46
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=70.86 E-value=4.7 Score=42.53 Aligned_cols=46 Identities=26% Similarity=0.423 Sum_probs=42.1
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHH
Q 022562 80 SRERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVAS 127 (295)
Q Consensus 80 ~~~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrS 127 (295)
...+.....||.+|-++|-.+|..+|- +...|+ +....|+..||+-
T Consensus 403 ~sk~~~~~~w~~se~e~fyka~~~~gs-~~slis-~l~p~R~rk~iK~ 448 (584)
T KOG2009|consen 403 YSKKLETDKWDASETELFYKALSERGS-DFSLIS-NLFPLRDRKQIKA 448 (584)
T ss_pred ccCccccCcccchhhHHhhhHHhhhcc-cccccc-cccccccHHHHHH
Confidence 355667888999999999999999999 999999 8999999999987
No 47
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=70.71 E-value=11 Score=33.41 Aligned_cols=50 Identities=14% Similarity=0.368 Sum_probs=43.4
Q ss_pred CCHHHHHHHHHHHHHhCCC--ChhhhhhhhcCCCCHHHHHHHHHHHHHHhhhc
Q 022562 89 WTEEEHKLFLLGLQKVGKG--DWRGISRNFVKTRTPTQVASHAQKYFLRRSNL 139 (295)
Q Consensus 89 WTeEEh~~FLegL~kyGkG--dWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~~ 139 (295)
++..+.+.||.+|.+||-+ +|+-+. ..+..+|..+++.++-=|+.++.-.
T Consensus 41 Fn~rQR~~Fln~vMR~G~~~f~~~w~~-~~Lr~Ks~~ei~aY~~LFm~HL~E~ 92 (145)
T PF06461_consen 41 FNPRQRKAFLNAVMRYGMGAFDWKWFV-PRLRGKSEKEIRAYGSLFMRHLCEP 92 (145)
T ss_pred cCHHHHHHHHHHHHHHCcCcccchHHh-hhhccccHHHHHHHHHHHHHHhcCC
Confidence 6888999999999999987 899888 6888999999999997777777643
No 48
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=63.95 E-value=4.1 Score=46.40 Aligned_cols=54 Identities=22% Similarity=0.480 Sum_probs=38.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhh-------hhcC----CCCHHHHHHHHHHHHHHhhhc
Q 022562 85 RGVPWTEEEHKLFLLGLQKVGKGDWRGISR-------NFVK----TRTPTQVASHAQKYFLRRSNL 139 (295)
Q Consensus 85 k~~~WTeEEh~~FLegL~kyGkGdWk~IAr-------~~V~----TRT~~QVrSHAQKYF~rl~~~ 139 (295)
-..-|..||+..||.||-+||.|.|..|-- .-+. -=+..|.+.++ .|+..+.+.
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dKi~~~e~~P~a~~L~~R~-~yLls~~~~ 1196 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDKIFLVETVPQAKHLQRRA-DYLLSLLRK 1196 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhhhcccccCCchHHHHHHH-HHHHHHHhh
Confidence 567799999999999999999999999931 1111 12345666666 577665543
No 49
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=59.64 E-value=19 Score=29.26 Aligned_cols=39 Identities=33% Similarity=0.570 Sum_probs=28.1
Q ss_pred CCCHHHHHHHHHHHHHh----CC---CChhhhhhhhcCCC-----CHHHHHH
Q 022562 88 PWTEEEHKLFLLGLQKV----GK---GDWRGISRNFVKTR-----TPTQVAS 127 (295)
Q Consensus 88 ~WTeEEh~~FLegL~ky----Gk---GdWk~IAr~~V~TR-----T~~QVrS 127 (295)
-||+|++..+|+||-.| |. -||.... ++|... |..|+..
T Consensus 6 ~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~-~~vk~~l~~~~s~~Ql~~ 56 (98)
T PF04504_consen 6 LWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFY-DFVKGSLSFDVSKNQLYD 56 (98)
T ss_pred CCCchHHHHHHHHHHHHHHhcCCCCCccHHHHH-HHHHHHccCCCCHHHHHH
Confidence 49999999999999999 63 2777766 555433 4455544
No 50
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=59.58 E-value=13 Score=41.16 Aligned_cols=51 Identities=25% Similarity=0.429 Sum_probs=43.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhh
Q 022562 86 GVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSN 138 (295)
Q Consensus 86 ~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~ 138 (295)
-..||+.+-..|+.|-++||++|-..||+ -|-. |+..|..++.-||.++..
T Consensus 795 ft~w~k~df~~fi~a~eKygr~di~~ia~-~~e~-~~eev~~y~rvfwer~~e 845 (971)
T KOG0385|consen 795 FTNWTKRDFNQFIKANEKYGRDDIENIAA-EVEG-TPEEVGEYARVFWERLEE 845 (971)
T ss_pred ccchhhhhHHHHHHHhhccCcchhhhhHH-hhcC-CHHHHHHHHHHHHHHHHH
Confidence 45599999999999999999999999994 5554 999999998877766654
No 51
>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=54.57 E-value=36 Score=33.95 Aligned_cols=49 Identities=18% Similarity=0.287 Sum_probs=38.4
Q ss_pred ccCCCCCCHHHHHHHHHHHHHh-CC--CChhhhhhhhcCCCCHHHHHHHHHHH
Q 022562 83 RKRGVPWTEEEHKLFLLGLQKV-GK--GDWRGISRNFVKTRTPTQVASHAQKY 132 (295)
Q Consensus 83 rkk~~~WTeEEh~~FLegL~ky-Gk--GdWk~IAr~~V~TRT~~QVrSHAQKY 132 (295)
.+....||..|.+.+|.+|+-- |. =|-..|+ ..+.+|+..||+..-|+.
T Consensus 18 ~~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~-~~l~~Rs~aEI~~fl~~L 69 (344)
T PF11035_consen 18 VTGPAAWSAREKRQLLRLLQARRGQPEPDAAELA-KELPGRSEAEIRDFLQQL 69 (344)
T ss_pred CCCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHH-hhccCcCHHHHHHHHHHH
Confidence 3556789999999999999976 32 2555777 689999999999876654
No 52
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=54.44 E-value=7.2 Score=35.47 Aligned_cols=28 Identities=29% Similarity=0.583 Sum_probs=25.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhh
Q 022562 86 GVPWTEEEHKLFLLGLQKVGKGDWRGIS 113 (295)
Q Consensus 86 ~~~WTeEEh~~FLegL~kyGkGdWk~IA 113 (295)
...|-.+-|-.||.|+-+||.|+|..|.
T Consensus 3 ~~iw~r~hdywll~gi~~hgy~rwqdi~ 30 (173)
T PF08074_consen 3 YEIWHRRHDYWLLAGIVKHGYGRWQDIQ 30 (173)
T ss_pred hhhhhhhhhHHHHhHHhhccchhHHHHh
Confidence 4469999999999999999999999996
No 53
>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=51.71 E-value=42 Score=29.28 Aligned_cols=48 Identities=25% Similarity=0.401 Sum_probs=39.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhc-CC--CCHHHHHHHHHHH
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFV-KT--RTPTQVASHAQKY 132 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V-~T--RT~~QVrSHAQKY 132 (295)
+....=|+.|.......|++||. |++.++++.= .. .|+.|++-...+|
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 66777899999999999999997 9999996432 22 7999999877776
No 54
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=48.19 E-value=22 Score=32.88 Aligned_cols=49 Identities=14% Similarity=0.154 Sum_probs=36.6
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhC--CCChhhhhh----hhcCCCCHHHHHHHHHH
Q 022562 83 RKRGVPWTEEEHKLFLLGLQKVG--KGDWRGISR----NFVKTRTPTQVASHAQK 131 (295)
Q Consensus 83 rkk~~~WTeEEh~~FLegL~kyG--kGdWk~IAr----~~V~TRT~~QVrSHAQK 131 (295)
-....+||.+|++.+........ ...|.+|=. .|-.+||+++...||+-
T Consensus 70 iq~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~l 124 (199)
T PF13325_consen 70 IQSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRL 124 (199)
T ss_pred ccccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHH
Confidence 35667899999999988755542 246666621 47788999999999984
No 55
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=37.63 E-value=64 Score=33.83 Aligned_cols=47 Identities=4% Similarity=-0.092 Sum_probs=39.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHH
Q 022562 84 KRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKY 132 (295)
Q Consensus 84 kk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKY 132 (295)
+-...||.+|..+.+.+|++||+ +...|+ .-|+..+-.|+..-.-.|
T Consensus 367 ~~n~~~~T~~~la~v~~I~~~~~-~~~pl~-wrik~t~cmee~e~l~~~ 413 (534)
T KOG1194|consen 367 RMNRCFDTPAALALIDNIKRKHH-MCVPLV-WRVKQTKCMEENEILNEE 413 (534)
T ss_pred hhccccCcHHHHHHHHHHHHhcc-Ccchhh-hHhcCcchhhHHHHHHHH
Confidence 33467999999999999999999 889998 788989999988644444
No 56
>PHA00442 host recBCD nuclease inhibitor
Probab=37.31 E-value=32 Score=26.33 Aligned_cols=23 Identities=30% Similarity=0.588 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHhCCCChhhhh
Q 022562 91 EEEHKLFLLGLQKVGKGDWRGIS 113 (295)
Q Consensus 91 eEEh~~FLegL~kyGkGdWk~IA 113 (295)
-|-+..||.+|+-.|-.+|.++.
T Consensus 25 Lek~~~~L~~Lea~GVDNW~Gy~ 47 (59)
T PHA00442 25 LEKDNEFLKALRACGVDNWDGYM 47 (59)
T ss_pred HHHhhHHHHHHHHcCCcchhhHH
Confidence 45677899999999999999997
No 57
>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=36.58 E-value=72 Score=24.52 Aligned_cols=27 Identities=33% Similarity=0.628 Sum_probs=19.2
Q ss_pred CChhhhhhhhcCC---CC--HHHHHHHHHHHHH
Q 022562 107 GDWRGISRNFVKT---RT--PTQVASHAQKYFL 134 (295)
Q Consensus 107 GdWk~IAr~~V~T---RT--~~QVrSHAQKYF~ 134 (295)
++|..|++ .++- -+ ..+++.++.+|+.
T Consensus 58 ~~W~~va~-~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 58 KKWREVAR-KLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp TTHHHHHH-HTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred chHHHHHH-HhCCCCCCCcHHHHHHHHHHHHhH
Confidence 58999995 4432 12 3689999988865
No 58
>PF00191 Annexin: Annexin; InterPro: IPR018502 The annexins (or lipocortins) are a family of proteins that bind to phospholipids in a calcium-dependent manner []. They are distributed ubiquitously in different tissues and cell types of higher and lower eukaryotes, including mammals, fish, birds, Drosophila melanogaster (Fruit fly), Xenopus laevis (African clawed frog), Caenorhabditis elegans , Dictyostelium discoideum (Slime mold) and Neurospora crassa [, ]. Annexins are absent from yeasts and prokaryotes []. The plant annexins are somewhat distinct from those found in other taxa []. Most eukaryotic species have 1-20 annexin (ANX) genes. All annexins share a core domain made up of four similar repeats, each approximately 70 amino acids long []. Each individual annexin repeat (sometimes referred to as endonexin folds) is folded into five alpha-helices, and in turn are wound into a right-handed super-helix; they usually contain a characteristic 'type 2' motif for binding calcium ions with the sequence 'GxGT-[38 residues]-D/E'. Animal and fungal annexins also have variable amino-terminal domains. The core domains of most vertebrate annexins have been analysed by X-ray crystallography, revealing conservation of their secondary and tertiary structures despite only 45-55% amino-acid identity among individual members. The four repeats pack into a structure that resembles a flattened disc, with a slightly convex surface on which the Ca 2+ -binding loops are located and a concave surface at which the amino and carboxyl termini come into close apposition. Annexins are traditionally thought of as calcium-dependent phospholipid-binding proteins, but recent work suggests a more complex set of functions. The famiy has been linked with inhibition of phospholipase activity, exocytosis and endoctyosis, signal transduction, organisation of the extracellular matrix, resistance to reactive oxygen species and DNA replication [].; GO: 0005509 calcium ion binding, 0005544 calcium-dependent phospholipid binding; PDB: 1N44_A 1BC1_A 2IE6_A 2H0M_A 1A8B_A 2H0K_A 1BCW_A 1BCZ_A 1N42_A 1BC0_A ....
Probab=36.30 E-value=40 Score=24.15 Aligned_cols=40 Identities=25% Similarity=0.288 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022562 94 HKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLR 135 (295)
Q Consensus 94 h~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~r 135 (295)
-+.+-.|++..|..++.-|. .+.+|+..|.+.-.+.|...
T Consensus 3 A~~l~~a~~~~g~de~~li~--Il~~rs~~ql~~i~~~Y~~~ 42 (66)
T PF00191_consen 3 AELLHAALKGWGTDEDVLIE--ILCTRSPAQLRAIKQAYKKK 42 (66)
T ss_dssp HHHHHHHHSSSSSTHHHHHH--HHHHSTHHHHHHHHHHHHHH
T ss_pred HHHHHHHccCCCCChhHhhh--HHhhhcccccceeehhhhhh
Confidence 34788899999986666664 88899999999888877544
No 59
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=35.70 E-value=85 Score=24.49 Aligned_cols=30 Identities=20% Similarity=0.482 Sum_probs=20.9
Q ss_pred CChhhhhhhhcCC-----CCHHHHHHHHHHHHHHhh
Q 022562 107 GDWRGISRNFVKT-----RTPTQVASHAQKYFLRRS 137 (295)
Q Consensus 107 GdWk~IAr~~V~T-----RT~~QVrSHAQKYF~rl~ 137 (295)
..|..|++ .++- ....+++.+++||+....
T Consensus 54 ~~W~~Va~-~lg~~~~~~~~~~~lk~~Y~k~L~~yE 88 (93)
T smart00501 54 KKWKEIAR-ELGIPDTSTSAASSLRKHYERYLLPFE 88 (93)
T ss_pred CCHHHHHH-HhCCCcccchHHHHHHHHHHHHhHHHH
Confidence 58999995 4433 335788888888865443
No 60
>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=28.17 E-value=31 Score=27.15 Aligned_cols=13 Identities=23% Similarity=0.493 Sum_probs=8.0
Q ss_pred CCCCCHHHHHHHH
Q 022562 86 GVPWTEEEHKLFL 98 (295)
Q Consensus 86 ~~~WTeEEh~~FL 98 (295)
.+.||+|+++.++
T Consensus 47 ~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 47 PGIWTPEDDEMLR 59 (87)
T ss_dssp TT---HHHHHHHT
T ss_pred CCCcCHHHHHHHH
Confidence 4559999999984
No 61
>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=25.71 E-value=2.2e+02 Score=19.47 Aligned_cols=37 Identities=14% Similarity=0.196 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHH
Q 022562 92 EEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQK 131 (295)
Q Consensus 92 EEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQK 131 (295)
++++..+...-..|. .|+.|| ..++ .|...|+.+.++
T Consensus 13 ~~~r~i~~l~~~~g~-s~~eIa-~~l~-~s~~~v~~~l~r 49 (54)
T PF08281_consen 13 ERQREIFLLRYFQGM-SYAEIA-EILG-ISESTVKRRLRR 49 (54)
T ss_dssp HHHHHHHHHHHTS----HHHHH-HHCT-S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCc-CHHHHH-HHHC-cCHHHHHHHHHH
Confidence 344444444555566 999999 5665 788888876654
No 62
>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=25.41 E-value=2e+02 Score=19.90 Aligned_cols=38 Identities=16% Similarity=0.231 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHH
Q 022562 92 EEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQK 131 (295)
Q Consensus 92 EEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQK 131 (295)
+=++++|..|+.-|+-.|..|| ..++- |...|..+.++
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la-~~lgl-S~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELA-EELGL-SESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHH-HHHTS--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHH-HHHCc-CHHHHHHHHHH
Confidence 5578999999999999999999 56663 66777776654
No 63
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=24.65 E-value=88 Score=32.22 Aligned_cols=42 Identities=17% Similarity=0.274 Sum_probs=35.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhhhh----cCC-CCHHHHHHHH
Q 022562 87 VPWTEEEHKLFLLGLQKVGKGDWRGISRNF----VKT-RTPTQVASHA 129 (295)
Q Consensus 87 ~~WTeEEh~~FLegL~kyGkGdWk~IAr~~----V~T-RT~~QVrSHA 129 (295)
..||.||-+-+.+..++|.- +|--||..| .++ ||....+.++
T Consensus 131 n~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRy 177 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERY 177 (445)
T ss_pred ccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHH
Confidence 56999999999999999998 888888543 455 9999999866
No 64
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=23.60 E-value=12 Score=43.41 Aligned_cols=47 Identities=21% Similarity=0.415 Sum_probs=41.9
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHH
Q 022562 80 SRERKRGVPWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASH 128 (295)
Q Consensus 80 ~~~rkk~~~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSH 128 (295)
.+.|.....|+++||+.|..=+..+-+ ++..|+ +|+--+|..||.-.
T Consensus 219 ~k~~~~~n~Ws~~Ek~~fk~rf~~H~k-nf~~~a-s~~erkSv~d~vlf 265 (1672)
T KOG1878|consen 219 HKDRQRMNEWSPEEKELFKSRFAQHVK-NFGLIA-SFFERKSVSDCVLF 265 (1672)
T ss_pred cchHHHhhhccccccccccchhhhcCc-chhhhh-hhhcccchhhceee
Confidence 355678889999999999999999998 999999 89999999999863
No 65
>PF02509 Rota_NS35: Rotavirus non-structural protein 35; InterPro: IPR003668 Rotavirus non-structural protein 2 (NSP2) is a basic protein which possesses RNA-binding activity and is essential for genome replication []. It may also be important for viral RNA packaging.; GO: 0003723 RNA binding, 0019079 viral genome replication; PDB: 2GU0_B 2R8F_A 2R7P_A 2R7C_A 1L9V_A 2R7J_A.
Probab=22.61 E-value=48 Score=32.59 Aligned_cols=54 Identities=22% Similarity=0.372 Sum_probs=34.5
Q ss_pred CCCCHHHHHHHHHHHH---------HhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHhhhcccccCCCcc
Q 022562 87 VPWTEEEHKLFLLGLQ---------KVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRRSNLNRRRRRSSL 148 (295)
Q Consensus 87 ~~WTeEEh~~FLegL~---------kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl~~~~k~krR~Sl 148 (295)
.+=.+.+.+.|..-|+ .+|+|.||.+- -.||+.||-..|...++.+|..+-.+.
T Consensus 195 ~pi~d~~~kelvAelrwqyNkFAvItHGkgHyRvV~--------ys~v~nHAdRv~at~ks~~K~~~~~~f 257 (316)
T PF02509_consen 195 TPISDSNVKELVAELRWQYNKFAVITHGKGHYRVVK--------YSSVANHADRVYATFKSNKKTGSQFSF 257 (316)
T ss_dssp S---HHHHHHHHHHHHHHTTTEEEEESSSSCEEEEE--------GGGHHHHHHHHHHHHCTTCCTT-----
T ss_pred CCCchHHHHHHHHHHHHhhcceEEEeccCceEEEEe--------hHHhhhhHHHHHHHHhcccccCCcccc
Confidence 3445555566665554 23889998886 469999999999999887776543443
No 66
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=20.75 E-value=1.8e+02 Score=24.66 Aligned_cols=40 Identities=10% Similarity=0.186 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHH
Q 022562 91 EEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKY 132 (295)
Q Consensus 91 eEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKY 132 (295)
++-++++|..|++=|+-.|..|| ..++ -+...|+.+.++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA-~~lg-lS~~tV~~Ri~rL 47 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELA-KQFG-VSPGTIHVRVEKM 47 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHH-HHHC-cCHHHHHHHHHHH
Confidence 46789999999999999999999 5665 4777777776653
No 67
>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=20.53 E-value=2.8e+02 Score=21.26 Aligned_cols=45 Identities=13% Similarity=0.216 Sum_probs=26.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHh
Q 022562 88 PWTEEEHKLFLLGLQKVGKGDWRGISRNFVKTRTPTQVASHAQKYFLRR 136 (295)
Q Consensus 88 ~WTeEEh~~FLegL~kyGkGdWk~IAr~~V~TRT~~QVrSHAQKYF~rl 136 (295)
.+++.|...|...+ ..|. .+..|| ..++. +...|+.+.++-..++
T Consensus 110 ~L~~~~~~ii~~~~-~~g~-s~~eIA-~~l~~-s~~~v~~~~~~~~~kl 154 (158)
T TIGR02937 110 KLPEREREVLVLRY-LEGL-SYKEIA-EILGI-SVGTVKRRLKRARKKL 154 (158)
T ss_pred hCCHHHHHHHhhHH-hcCC-CHHHHH-HHHCC-CHHHHHHHHHHHHHHH
Confidence 35666666654322 2355 899999 56765 6666666555544444
Done!