Query 018343
Match_columns 357
No_of_seqs 221 out of 532
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 08:12:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018343.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018343hhsearch_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 8E-18 1.7E-22 127.6 6.1 53 108-160 1-57 (57)
2 PF00249 Myb_DNA-binding: Myb- 99.4 2.2E-13 4.8E-18 97.8 5.5 45 111-156 2-47 (48)
3 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 2.5E-10 5.5E-15 77.2 5.6 45 112-157 1-45 (45)
4 smart00717 SANT SANT SWI3, AD 99.1 2.5E-10 5.4E-15 78.1 5.4 46 111-157 2-47 (49)
5 PF13921 Myb_DNA-bind_6: Myb-l 98.7 1.4E-08 3E-13 75.2 4.7 43 113-157 1-43 (60)
6 PLN03212 Transcription repress 98.7 4.3E-08 9.3E-13 93.7 7.4 49 109-158 24-73 (249)
7 KOG0457 Histone acetyltransfer 98.5 1.1E-07 2.3E-12 96.6 5.5 50 111-161 73-122 (438)
8 PLN03091 hypothetical protein; 98.5 1.7E-07 3.7E-12 95.7 5.5 49 109-158 13-62 (459)
9 KOG4329 DNA-binding protein [G 98.5 8.4E-07 1.8E-11 89.2 10.0 57 105-165 272-328 (445)
10 KOG0724 Zuotin and related mol 98.3 3.5E-07 7.6E-12 88.2 2.5 77 103-179 157-238 (335)
11 KOG0048 Transcription factor, 98.3 7.4E-07 1.6E-11 83.3 4.2 48 110-158 9-57 (238)
12 PLN03212 Transcription repress 98.0 1.3E-05 2.8E-10 76.9 6.4 47 110-158 78-124 (249)
13 PLN03091 hypothetical protein; 97.9 2.6E-05 5.7E-10 80.0 7.1 47 111-159 68-114 (459)
14 COG5114 Histone acetyltransfer 97.8 2.1E-05 4.5E-10 78.4 4.7 60 111-178 64-123 (432)
15 COG5259 RSC8 RSC chromatin rem 97.8 2.6E-05 5.7E-10 80.5 5.5 42 110-153 279-320 (531)
16 KOG1279 Chromatin remodeling f 97.5 0.00011 2.4E-09 76.6 5.4 44 108-153 251-294 (506)
17 KOG0048 Transcription factor, 97.0 0.0014 3.1E-08 61.5 6.5 46 110-157 62-107 (238)
18 KOG0049 Transcription factor, 97.0 0.0011 2.3E-08 71.4 6.2 47 111-158 361-407 (939)
19 PLN03162 golden-2 like transcr 97.0 0.0011 2.5E-08 67.4 5.8 58 104-162 231-292 (526)
20 KOG4167 Predicted DNA-binding 96.8 0.0024 5.2E-08 69.3 7.0 49 111-164 620-668 (907)
21 KOG0049 Transcription factor, 96.7 0.0022 4.7E-08 69.1 5.4 48 108-156 410-457 (939)
22 KOG3554 Histone deacetylase co 95.8 0.0083 1.8E-07 62.8 3.9 54 105-162 280-333 (693)
23 COG5118 BDP1 Transcription ini 95.2 0.031 6.7E-07 57.4 5.4 61 88-150 343-403 (507)
24 KOG0050 mRNA splicing protein 95.2 0.018 3.8E-07 60.9 3.8 50 108-158 5-54 (617)
25 PF00098 zf-CCHC: Zinc knuckle 94.5 0.029 6.3E-07 34.0 1.9 18 3-20 1-18 (18)
26 PF13837 Myb_DNA-bind_4: Myb/S 94.5 0.087 1.9E-06 41.2 5.2 51 111-161 2-68 (90)
27 KOG4468 Polycomb-group transcr 94.1 0.062 1.3E-06 57.8 4.7 43 110-153 88-139 (782)
28 PF15288 zf-CCHC_6: Zinc knuck 93.1 0.048 1E-06 39.6 1.3 20 3-22 2-23 (40)
29 PF14392 zf-CCHC_4: Zinc knuck 92.9 0.038 8.3E-07 40.5 0.6 19 1-19 30-48 (49)
30 PLN03142 Probable chromatin-re 92.4 0.2 4.3E-06 56.9 5.6 48 111-159 825-872 (1033)
31 PF09111 SLIDE: SLIDE; InterP 92.4 0.22 4.7E-06 43.2 4.7 51 108-159 47-111 (118)
32 COG5147 REB1 Myb superfamily p 92.4 0.081 1.8E-06 55.9 2.4 56 105-161 15-70 (512)
33 KOG0724 Zuotin and related mol 92.4 0.033 7.2E-07 54.1 -0.4 49 112-162 55-103 (335)
34 KOG1194 Predicted DNA-binding 91.6 0.32 6.9E-06 51.1 5.6 46 111-161 188-233 (534)
35 smart00426 TEA TEA domain. 91.2 0.18 4E-06 40.4 2.7 43 111-154 4-66 (68)
36 KOG0051 RNA polymerase I termi 90.5 0.35 7.6E-06 52.1 4.8 47 109-158 383-429 (607)
37 KOG3841 TEF-1 and related tran 90.5 0.87 1.9E-05 47.0 7.3 54 108-162 74-147 (455)
38 KOG0051 RNA polymerase I termi 90.3 0.39 8.5E-06 51.8 5.0 51 108-159 434-509 (607)
39 PF13873 Myb_DNA-bind_5: Myb/S 85.3 2.7 5.9E-05 32.4 5.7 46 111-156 3-68 (78)
40 KOG4282 Transcription factor G 85.3 1.8 4E-05 42.4 5.8 56 110-165 54-121 (345)
41 PF08914 Myb_DNA-bind_2: Rap1 83.6 2.4 5.2E-05 33.3 4.7 50 110-159 2-59 (65)
42 COG5147 REB1 Myb superfamily p 81.8 2.1 4.6E-05 45.5 4.9 44 109-154 71-114 (512)
43 smart00343 ZnF_C2HC zinc finge 81.6 0.8 1.7E-05 29.2 1.1 18 4-21 1-18 (26)
44 PF01285 TEA: TEA/ATTS domain 81.5 1.9 4.1E-05 44.8 4.4 49 107-156 46-112 (431)
45 PLN03142 Probable chromatin-re 79.5 4.6 0.0001 46.3 6.9 47 109-155 925-982 (1033)
46 PF12776 Myb_DNA-bind_3: Myb/S 76.5 7.1 0.00015 30.8 5.4 44 112-155 1-60 (96)
47 PF06461 DUF1086: Domain of Un 70.3 12 0.00026 34.1 5.9 50 111-161 39-90 (145)
48 KOG2009 Transcription initiati 67.2 5.5 0.00012 43.1 3.6 50 105-159 404-453 (584)
49 KOG0050 mRNA splicing protein 67.1 5.9 0.00013 42.7 3.7 43 111-156 60-102 (617)
50 COG5082 AIR1 Arginine methyltr 63.5 4 8.7E-05 38.5 1.5 20 2-21 97-117 (190)
51 KOG0384 Chromodomain-helicase 59.4 10 0.00022 44.5 4.0 53 109-162 1132-1195(1373)
52 PF13248 zf-ribbon_3: zinc-rib 56.2 7.3 0.00016 25.2 1.4 21 1-21 1-22 (26)
53 PRK13923 putative spore coat p 54.9 17 0.00037 33.8 4.0 47 111-158 6-57 (170)
54 PF11035 SnAPC_2_like: Small n 51.6 51 0.0011 33.8 7.1 50 108-158 19-71 (344)
55 PF14952 zf-tcix: Putative tre 47.9 11 0.00024 28.1 1.4 20 3-22 12-32 (44)
56 KOG0385 Chromatin remodeling c 46.2 32 0.00069 39.2 5.0 50 111-162 796-845 (971)
57 PF08074 CHDCT2: CHDCT2 (NUC03 45.5 13 0.00027 34.8 1.6 28 110-137 3-30 (173)
58 PF04504 DUF573: Protein of un 45.2 54 0.0012 27.4 5.2 39 111-150 5-55 (98)
59 PF13325 MCRS_N: N-terminal re 40.7 36 0.00079 32.4 3.9 46 109-154 72-123 (199)
60 TIGR02894 DNA_bind_RsfA transc 39.7 37 0.0008 31.5 3.7 48 111-160 5-58 (161)
61 PF10571 UPF0547: Uncharacteri 39.0 15 0.00033 24.2 0.8 10 2-11 14-23 (26)
62 PF00191 Annexin: Annexin; In 34.5 48 0.001 24.4 3.0 41 118-160 3-43 (66)
63 COG5082 AIR1 Arginine methyltr 33.9 21 0.00046 33.8 1.3 18 2-19 60-77 (190)
64 PF02509 Rota_NS35: Rotavirus 31.0 18 0.0004 36.2 0.4 53 110-170 194-255 (316)
65 PF09420 Nop16: Ribosome bioge 30.7 1.4E+02 0.003 26.9 5.8 48 108-156 112-162 (164)
66 smart00501 BRIGHT BRIGHT, ARID 30.6 1.3E+02 0.0029 24.1 5.2 30 131-160 54-87 (93)
67 PTZ00368 universal minicircle 30.1 34 0.00074 29.7 1.8 19 3-21 78-96 (148)
68 KOG1194 Predicted DNA-binding 28.1 88 0.0019 33.6 4.7 47 111-159 370-416 (534)
69 PF08792 A2L_zn_ribbon: A2L zi 27.9 27 0.00059 24.2 0.7 10 3-12 4-13 (33)
70 PTZ00368 universal minicircle 27.6 40 0.00086 29.3 1.8 19 3-21 53-71 (148)
71 PF13404 HTH_AsnC-type: AsnC-t 26.4 2.2E+02 0.0047 20.3 5.1 38 116-155 3-40 (42)
72 KOG4400 E3 ubiquitin ligase in 26.1 48 0.001 31.5 2.3 17 4-20 145-161 (261)
73 KOG0119 Splicing factor 1/bran 24.4 41 0.00088 36.3 1.5 18 4-21 287-304 (554)
74 PF13696 zf-CCHC_2: Zinc knuck 24.3 37 0.00081 23.7 0.8 19 3-21 9-27 (32)
75 PF05634 APO_RNA-bind: APO RNA 23.9 43 0.00092 32.2 1.4 20 3-22 99-123 (204)
76 PF01388 ARID: ARID/BRIGHT DNA 23.8 1.6E+02 0.0034 23.3 4.5 27 131-158 58-89 (92)
77 PHA00442 host recBCD nuclease 23.8 84 0.0018 24.8 2.7 24 114-137 24-47 (59)
78 PF13917 zf-CCHC_3: Zinc knuck 22.5 52 0.0011 24.1 1.3 19 2-20 4-22 (42)
79 PF06397 Desulfoferrod_N: Desu 20.4 38 0.00082 24.2 0.3 8 4-11 8-15 (36)
80 KOG1878 Nuclear receptor coreg 20.3 16 0.00035 43.6 -2.5 52 106-162 221-272 (1672)
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=8e-18 Score=127.59 Aligned_cols=53 Identities=49% Similarity=0.711 Sum_probs=48.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCCCCH---HHHHhhhcCCC-CHHHHHHHHHHHHHHH
Q 018343 108 KKGVPWTEEEHRLFLIGLQKLGKGDW---RGIARNYVMSR-TPTQVASHAQKYFIRQ 160 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~kyGkGdW---k~IA~~~V~TR-Tp~QVrSHAQKYF~r~ 160 (357)
|++..||+|||++||+||+.||.|+| +.|++.++.+| |+.||+||+||||+++
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 45689999999999999999999999 99997666788 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=99.43 E-value=2.2e-13 Score=97.85 Aligned_cols=45 Identities=40% Similarity=0.649 Sum_probs=40.8
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcC-CCCHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVM-SRTPTQVASHAQKY 156 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~-TRTp~QVrSHAQKY 156 (357)
.+||+||+++|++||++||.++|+.|| .+|+ +||..||++|+++|
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 589999999999999999997799999 5888 99999999999988
No 3
>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=99.08 E-value=2.5e-10 Score=77.23 Aligned_cols=45 Identities=40% Similarity=0.733 Sum_probs=41.2
Q ss_pred CCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 018343 112 PWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYF 157 (357)
Q Consensus 112 ~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF 157 (357)
+||+||+.+|+.++.+||.++|..|| .++++||..||+.|+++++
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 59999999999999999977999999 6899999999998887653
No 4
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.07 E-value=2.5e-10 Score=78.13 Aligned_cols=46 Identities=33% Similarity=0.530 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYF 157 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF 157 (357)
..||+||+.+|+.++.+||.++|..|| .++++||+.||+.++.+++
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 589999999999999999966999999 6899999999998877654
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=98.74 E-value=1.4e-08 Score=75.23 Aligned_cols=43 Identities=37% Similarity=0.655 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 018343 113 WTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYF 157 (357)
Q Consensus 113 WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF 157 (357)
||+||+++++.++++||. +|+.|| .+++.||+.||+.|+.+++
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 999999999999999996 999999 5888999999998877643
No 6
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.68 E-value=4.3e-08 Score=93.66 Aligned_cols=49 Identities=27% Similarity=0.519 Sum_probs=44.1
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhc-CCCCHHHHHHHHHHHHH
Q 018343 109 KGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYV-MSRTPTQVASHAQKYFI 158 (357)
Q Consensus 109 k~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V-~TRTp~QVrSHAQKYF~ 158 (357)
+..+||+||++++++++++||.++|+.||+ .+ ..||++|||.+|.+|+.
T Consensus 24 KRg~WT~EEDe~L~~lV~kyG~~nW~~IAk-~~g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 24 KRGPWTVEEDEILVSFIKKEGEGRWRSLPK-RAGLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred cCCCCCHHHHHHHHHHHHHhCcccHHHHHH-hhhcCCCcchHHHHHHHhhc
Confidence 356899999999999999999999999995 56 58999999999999973
No 7
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.52 E-value=1.1e-07 Score=96.61 Aligned_cols=50 Identities=28% Similarity=0.558 Sum_probs=47.2
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHh
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQS 161 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~ 161 (357)
..||.+|..+||+|+++||-|+|..|| ++|+|||..+|+.|..|+|++..
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 579999999999999999999999999 79999999999999999999643
No 8
>PLN03091 hypothetical protein; Provisional
Probab=98.47 E-value=1.7e-07 Score=95.66 Aligned_cols=49 Identities=20% Similarity=0.375 Sum_probs=43.5
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcC-CCCHHHHHHHHHHHHH
Q 018343 109 KGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVM-SRTPTQVASHAQKYFI 158 (357)
Q Consensus 109 k~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~-TRTp~QVrSHAQKYF~ 158 (357)
+.+.||.||+++++.++++||.++|+.||+ .++ .||++|||.+|.+|+.
T Consensus 13 rKg~WTpEEDe~L~~~V~kyG~~nWs~IAk-~~g~gRT~KQCRERW~NyLd 62 (459)
T PLN03091 13 RKGLWSPEEDEKLLRHITKYGHGCWSSVPK-QAGLQRCGKSCRLRWINYLR 62 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHhCcCCHHHHhh-hhccCcCcchHhHHHHhccC
Confidence 345899999999999999999999999995 554 8999999999988764
No 9
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=98.46 E-value=8.4e-07 Score=89.16 Aligned_cols=57 Identities=30% Similarity=0.457 Sum_probs=49.8
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhhc
Q 018343 105 CERKKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQSNATR 165 (357)
Q Consensus 105 ~~rkk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~~~~k 165 (357)
.-|...-.|++||++.|.+||+.||| ||..|.++-|.||+...| ..-||+|+++.+.
T Consensus 272 ~~rd~l~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgEl---VeyYYlWKkSery 328 (445)
T KOG4329|consen 272 TVRDDLSGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGEL---VEYYYLWKKSERY 328 (445)
T ss_pred ecccccccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHH---HHHHHHhhcCcch
Confidence 34455568999999999999999999 999999999999999999 5779999987654
No 10
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=3.5e-07 Score=88.24 Aligned_cols=77 Identities=47% Similarity=0.649 Sum_probs=72.3
Q ss_pred CcccccCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHH-----HHHHHHhhhhcccCcCccccccc
Q 018343 103 RRCERKKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQ-----KYFIRQSNATRRKRRSSLFDMVA 177 (357)
Q Consensus 103 ~~~~rkk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQ-----KYF~r~~~~~krKrR~Sl~D~~~ 177 (357)
....++++..|++.+|++|+.++.+||+++|..|+++++.+|++.|+.+|+| +|+.+.....+.++|.+++|++.
T Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~~~~~~~s~~~~~~ 236 (335)
T KOG0724|consen 157 AEELRRKGTPVTERERKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAFEKALARQKSGEEEKRRKSIEDITT 236 (335)
T ss_pred hhhhhhccchhHHHHHHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhccccccchhhhhhc
Confidence 4567888999999999999999999999999999999999999999999999 99999999999999999999987
Q ss_pred CC
Q 018343 178 DD 179 (357)
Q Consensus 178 ~~ 179 (357)
..
T Consensus 237 ~~ 238 (335)
T KOG0724|consen 237 AS 238 (335)
T ss_pred cc
Confidence 73
No 11
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.26 E-value=7.4e-07 Score=83.34 Aligned_cols=48 Identities=19% Similarity=0.299 Sum_probs=44.6
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcC-CCCHHHHHHHHHHHHH
Q 018343 110 GVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVM-SRTPTQVASHAQKYFI 158 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~-TRTp~QVrSHAQKYF~ 158 (357)
.++||.||++++...|++||.|+|..|+ +..+ -|+.+|||.+|-+|+.
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~-k~~gl~R~GKSCRlRW~NyLr 57 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALP-KLAGLRRCGKSCRLRWTNYLR 57 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhh-hhcCCCccchHHHHHhhcccC
Confidence 3799999999999999999999999999 4788 8999999999999965
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.98 E-value=1.3e-05 Score=76.94 Aligned_cols=47 Identities=23% Similarity=0.233 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHH
Q 018343 110 GVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFI 158 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~ 158 (357)
..+||+||++++++..++||. .|..|| .+++.||..||+.||..++.
T Consensus 78 kgpWT~EED~lLlel~~~~Gn-KWs~IA-k~LpGRTDnqIKNRWns~Lr 124 (249)
T PLN03212 78 RGGITSDEEDLILRLHRLLGN-RWSLIA-GRIPGRTDNEIKNYWNTHLR 124 (249)
T ss_pred cCCCChHHHHHHHHHHHhccc-cHHHHH-hhcCCCCHHHHHHHHHHHHh
Confidence 369999999999999999997 899999 59999999999988865554
No 13
>PLN03091 hypothetical protein; Provisional
Probab=97.88 E-value=2.6e-05 Score=79.99 Aligned_cols=47 Identities=19% Similarity=0.317 Sum_probs=42.4
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIR 159 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r 159 (357)
++||+||++++++..++||. .|..|| .+++.||..||+.||...++|
T Consensus 68 gpWT~EED~lLLeL~k~~Gn-KWskIA-k~LPGRTDnqIKNRWnslLKK 114 (459)
T PLN03091 68 GTFSQQEENLIIELHAVLGN-RWSQIA-AQLPGRTDNEIKNLWNSCLKK 114 (459)
T ss_pred CCCCHHHHHHHHHHHHHhCc-chHHHH-HhcCCCCHHHHHHHHHHHHHH
Confidence 58999999999999999998 899999 599999999999998755444
No 14
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.81 E-value=2.1e-05 Score=78.45 Aligned_cols=60 Identities=30% Similarity=0.559 Sum_probs=52.9
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhhcccCcCcccccccC
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQSNATRRKRRSSLFDMVAD 178 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~~~~krKrR~Sl~D~~~~ 178 (357)
.-|+.+|.-+|+++++..|-|+|..|| .|||+|+...|++|.-|||+.- +.+-|-||+..
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIa-dyiGsr~kee~k~HylK~y~es-------~~ypl~~i~~~ 123 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIA-DYIGSRAKEEIKSHYLKMYDES-------KYYPLPDITQN 123 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHH-HHHhhhhhHHHHHHHHHHHhhc-------ccccccccccC
Confidence 469999999999999999999999999 6999999999999999999842 35666666666
No 15
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.80 E-value=2.6e-05 Score=80.47 Aligned_cols=42 Identities=31% Similarity=0.551 Sum_probs=38.5
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHH
Q 018343 110 GVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHA 153 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHA 153 (357)
...|+.+|--++|+||+.||. +|.+|| .+|+|||+.||-.|.
T Consensus 279 dk~WS~qE~~LLLEGIe~ygD-dW~kVA-~HVgtKt~EqCIl~F 320 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGD-DWDKVA-RHVGTKTKEQCILHF 320 (531)
T ss_pred cccccHHHHHHHHHHHHHhhh-hHHHHH-HHhCCCCHHHHHHHH
Confidence 458999999999999999999 999999 599999999997654
No 16
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.52 E-value=0.00011 Score=76.63 Aligned_cols=44 Identities=27% Similarity=0.487 Sum_probs=40.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHH
Q 018343 108 KKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHA 153 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHA 153 (357)
.-+..||++|--++|+||++||. +|.+|| .+|+|||..||-.|.
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 34568999999999999999999 999999 699999999997664
No 17
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.04 E-value=0.0014 Score=61.50 Aligned_cols=46 Identities=26% Similarity=0.350 Sum_probs=41.0
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 018343 110 GVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYF 157 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF 157 (357)
++.||+||.++.+++=.+||- .|..|| .+++.||--.|+.||.-..
T Consensus 62 rg~fT~eEe~~Ii~lH~~~GN-rWs~IA-~~LPGRTDNeIKN~Wnt~l 107 (238)
T KOG0048|consen 62 RGNFSDEEEDLIIKLHALLGN-RWSLIA-GRLPGRTDNEVKNHWNTHL 107 (238)
T ss_pred CCCCCHHHHHHHHHHHHHHCc-HHHHHH-hhCCCcCHHHHHHHHHHHH
Confidence 468999999999999999998 799999 5999999999988874443
No 18
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.03 E-value=0.0011 Score=71.41 Aligned_cols=47 Identities=21% Similarity=0.445 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFI 158 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~ 158 (357)
++||.+|+.+++.|+.+||..+|-+|- ..|+.|+-.|||.++.+.+.
T Consensus 361 g~wt~~ED~~L~~AV~~Yg~kdw~k~R-~~vPnRSdsQcR~RY~nvL~ 407 (939)
T KOG0049|consen 361 GRWTDQEDVLLVCAVSRYGAKDWAKVR-QAVPNRSDSQCRERYTNVLN 407 (939)
T ss_pred CCCCCHHHHHHHHHHHHhCccchhhHH-HhcCCccHHHHHHHHHHHHH
Confidence 589999999999999999999999997 69999999999987655443
No 19
>PLN03162 golden-2 like transcription factor; Provisional
Probab=97.00 E-value=0.0011 Score=67.43 Aligned_cols=58 Identities=33% Similarity=0.415 Sum_probs=45.7
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHcCC--CCHHHHHhhh--cCCCCHHHHHHHHHHHHHHHhh
Q 018343 104 RCERKKGVPWTEEEHRLFLIGLQKLGK--GDWRGIARNY--VMSRTPTQVASHAQKYFIRQSN 162 (357)
Q Consensus 104 ~~~rkk~~~WTeEEH~~FL~GL~kyGk--GdWk~IA~~~--V~TRTp~QVrSHAQKYF~r~~~ 162 (357)
...+|.+..||.|=|++|+++|++.|. -.=|.|- ++ |..-|..+|+||-|||.+.++.
T Consensus 231 ~g~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~IL-elMnV~GLTRenVKSHLQKYRl~rk~ 292 (526)
T PLN03162 231 PGKKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRIL-ELMGVQCLTRHNIASHLQKYRSHRRH 292 (526)
T ss_pred CCCCCCcccCCHHHHHHHHHHHHHhCcCccchHHHH-HHcCCCCcCHHHHHHHHHHHHHhccc
Confidence 356677899999999999999999993 1334554 23 5668999999999999886653
No 20
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=96.84 E-value=0.0024 Score=69.31 Aligned_cols=49 Identities=27% Similarity=0.359 Sum_probs=45.2
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhh
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQSNAT 164 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~~~~ 164 (357)
..||..|.++|-.||-.|-| ||..|+ +.|++||..|| .+-||.|+|-.+
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~-km~~~KtVaqC---VeyYYtWKK~~~ 668 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQ-KMVKSKTVAQC---VEYYYTWKKIMR 668 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHH-HHhccccHHHH---HHHHHHHHHhcc
Confidence 57999999999999999998 999999 69999999999 789999988554
No 21
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=96.71 E-value=0.0022 Score=69.08 Aligned_cols=48 Identities=25% Similarity=0.410 Sum_probs=41.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 018343 108 KKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKY 156 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKY 156 (357)
-|...||-.|+++++.++++||+|.|-+|| .+++.||.+|.+++-..+
T Consensus 410 ~K~~rW~l~edeqL~~~V~~YG~g~WakcA-~~Lp~~t~~q~~rrR~R~ 457 (939)
T KOG0049|consen 410 AKVERWTLVEDEQLLYAVKVYGKGNWAKCA-MLLPKKTSRQLRRRRLRL 457 (939)
T ss_pred hccCceeecchHHHHHHHHHHccchHHHHH-HHccccchhHHHHHHHHH
Confidence 455689999999999999999999999999 699999998887655444
No 22
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=95.81 E-value=0.0083 Score=62.79 Aligned_cols=54 Identities=24% Similarity=0.503 Sum_probs=46.4
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHhh
Q 018343 105 CERKKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQSN 162 (357)
Q Consensus 105 ~~rkk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~~ 162 (357)
-=|....-|+.-|-.+|.++|+|||| ||..|-+.|++=|+.+-+ .+-||+|+..
T Consensus 280 LCRDemEEWSasEanLFEeALeKyGK-DFndIrqdfLPWKSl~sI---veyYYmwKtt 333 (693)
T KOG3554|consen 280 LCRDEMEEWSASEANLFEEALEKYGK-DFNDIRQDFLPWKSLTSI---VEYYYMWKTT 333 (693)
T ss_pred eehhhhhhccchhhHHHHHHHHHhcc-cHHHHHHhhcchHHHHHH---HHHHHHHhhh
Confidence 34567789999999999999999999 999999899997777666 7788888764
No 23
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=95.21 E-value=0.031 Score=57.41 Aligned_cols=61 Identities=20% Similarity=0.323 Sum_probs=46.9
Q ss_pred CccCCCCCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHH
Q 018343 88 GYLSDDPAHGSGSSNRRCERKKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVA 150 (357)
Q Consensus 88 GY~Sd~~v~~~~~~~~~~~rkk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVr 150 (357)
-|..++......+...=..+++..+||.+|-++|-.||..+|- ||..|+ +..++|..+||+
T Consensus 343 E~veen~~ar~vts~t~g~~~~~~~Ws~~e~ekFYKALs~wGt-dF~LIs-~lfP~R~RkqIK 403 (507)
T COG5118 343 EVVEENPFARIVTSSTFGKKKGALRWSKKEIEKFYKALSIWGT-DFSLIS-SLFPNRERKQIK 403 (507)
T ss_pred HHhhccchhheeecccccCCCCCCcccHHHHHHHHHHHHHhcc-hHHHHH-HhcCchhHHHHH
Confidence 3445554333222212245677789999999999999999999 999999 799999999996
No 24
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=95.20 E-value=0.018 Score=60.88 Aligned_cols=50 Identities=24% Similarity=0.460 Sum_probs=45.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHH
Q 018343 108 KKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFI 158 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~ 158 (357)
.+++-|+--|++.+-.++.+||+..|..|+ ....-+|++||+.+|-+|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~-sll~~kt~rqC~~rw~e~ld 54 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIA-SLLNRKTARQCKARWEEWLD 54 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHH-HHHhhcchhHHHHHHHHHhC
Confidence 467889999999999999999999999999 58899999999988877743
No 25
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=94.50 E-value=0.029 Score=33.98 Aligned_cols=18 Identities=44% Similarity=1.184 Sum_probs=16.7
Q ss_pred CccCCCCCCCCCCCCCCC
Q 018343 3 RRCSHCSNNGHNSRTCPT 20 (357)
Q Consensus 3 R~CS~Cg~~GHNsRTC~~ 20 (357)
|+|-.||..||-+|-|+.
T Consensus 1 ~~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 1 RKCFNCGEPGHIARDCPK 18 (18)
T ss_dssp SBCTTTSCSSSCGCTSSS
T ss_pred CcCcCCCCcCcccccCcc
Confidence 689999999999999984
No 26
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=94.46 E-value=0.087 Score=41.17 Aligned_cols=51 Identities=24% Similarity=0.432 Sum_probs=31.9
Q ss_pred CCCCHHHHHHHHHHHHH------cC-----CC--CHHHHHhhh---cCCCCHHHHHHHHHHHHHHHh
Q 018343 111 VPWTEEEHRLFLIGLQK------LG-----KG--DWRGIARNY---VMSRTPTQVASHAQKYFIRQS 161 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~k------yG-----kG--dWk~IA~~~---V~TRTp~QVrSHAQKYF~r~~ 161 (357)
..||++|-..||..+.. ++ ++ -|..||..+ --.||+.||+..+..-..+-+
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 47999999999998776 32 12 699999533 125999999988865443333
No 27
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=94.10 E-value=0.062 Score=57.81 Aligned_cols=43 Identities=30% Similarity=0.493 Sum_probs=35.8
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCHHHHH---------hhhcCCCCHHHHHHHH
Q 018343 110 GVPWTEEEHRLFLIGLQKLGKGDWRGIA---------RNYVMSRTPTQVASHA 153 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~kyGkGdWk~IA---------~~~V~TRTp~QVrSHA 153 (357)
.+.||..|..-|..||+.+|| ||..|- ..-+..||--|||-||
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~y 139 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYY 139 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHH
Confidence 568999999999999999999 999982 2346778899998554
No 28
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=93.11 E-value=0.048 Score=39.63 Aligned_cols=20 Identities=30% Similarity=0.841 Sum_probs=17.6
Q ss_pred CccCCCCCCCCC--CCCCCCCC
Q 018343 3 RRCSHCSNNGHN--SRTCPTRG 22 (357)
Q Consensus 3 R~CS~Cg~~GHN--sRTC~~~~ 22 (357)
+||..||..||. +|+||-..
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 799999999995 59999874
No 29
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=92.92 E-value=0.038 Score=40.48 Aligned_cols=19 Identities=42% Similarity=1.125 Sum_probs=17.2
Q ss_pred CCCccCCCCCCCCCCCCCC
Q 018343 1 MTRRCSHCSNNGHNSRTCP 19 (357)
Q Consensus 1 m~R~CS~Cg~~GHNsRTC~ 19 (357)
+.+.|.+||..||+.+.|+
T Consensus 30 lp~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 30 LPRFCFHCGRIGHSDKECP 48 (49)
T ss_pred cChhhcCCCCcCcCHhHcC
Confidence 4578999999999999997
No 30
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=92.44 E-value=0.2 Score=56.87 Aligned_cols=48 Identities=23% Similarity=0.481 Sum_probs=43.7
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIR 159 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r 159 (357)
..||..+-..|+.|.++||+.+...|| ..|.+||+.+|+.+++-|+.|
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~-~~~~~k~~~ev~~y~~~f~~~ 872 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIA-SEMEGKTEEEVERYAKVFWER 872 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHH-HHhcCCCHHHHHHHHHHHHHh
Confidence 359999999999999999999999999 689999999999998877765
No 31
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.44 E-value=0.22 Score=43.21 Aligned_cols=51 Identities=33% Similarity=0.593 Sum_probs=39.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCC---CCHHHHHh-----------hhcCCCCHHHHHHHHHHHHHH
Q 018343 108 KKGVPWTEEEHRLFLIGLQKLGK---GDWRGIAR-----------NYVMSRTPTQVASHAQKYFIR 159 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~kyGk---GdWk~IA~-----------~~V~TRTp~QVrSHAQKYF~r 159 (357)
.++..||+||++-+|..+.+||- |.|..|-+ -|+.|||+..+.-++. ++++
T Consensus 47 ~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~-tLi~ 111 (118)
T PF09111_consen 47 NKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCN-TLIK 111 (118)
T ss_dssp SS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHH-HHHH
T ss_pred CCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHH-HHHH
Confidence 34568999999999999999999 99999953 3689999999988875 4443
No 32
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=92.41 E-value=0.081 Score=55.85 Aligned_cols=56 Identities=21% Similarity=0.330 Sum_probs=46.7
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHh
Q 018343 105 CERKKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQS 161 (357)
Q Consensus 105 ~~rkk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~ 161 (357)
+...+.+.|+..|+...+.+.++||..+|..||..|+. ||+.||+.|+-.|...+.
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~l 70 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQL 70 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhc
Confidence 44556669999999999999999999999999965554 999999999977766443
No 33
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=92.37 E-value=0.033 Score=54.05 Aligned_cols=49 Identities=18% Similarity=0.088 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHhh
Q 018343 112 PWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQSN 162 (357)
Q Consensus 112 ~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~~ 162 (357)
.||++||..|.++|..| +-.|..|- .|++.++..|.++|+|+||.....
T Consensus 55 ~~t~~~~~~~~~~l~~~-~~~~~~~~-~~~~~~~~v~~~~~~~~~~p~~~~ 103 (335)
T KOG0724|consen 55 RRTPDSWDKFAEALPLE-KRLEDKIE-EYIGLVFDVNIRESGQKPFPKYGK 103 (335)
T ss_pred ccchhhhhHHHhcCccc-cccchhHH-hhhhhHHHHhhhhccCCCccccCc
Confidence 49999999999999999 55999997 799999999999999999987754
No 34
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=91.65 E-value=0.32 Score=51.08 Aligned_cols=46 Identities=28% Similarity=0.455 Sum_probs=39.1
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHh
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQS 161 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~ 161 (357)
-.||.||--+|..+++.||+ +|++|- ..++-|+...+ .|-||-+++
T Consensus 188 d~WT~Ed~vlFe~aF~~~GK-~F~kIr-q~LP~rsLaSl---vqyYy~~KK 233 (534)
T KOG1194|consen 188 DEWTAEDIVLFEQAFQFFGK-DFHKIR-QALPHRSLASL---VQYYYSWKK 233 (534)
T ss_pred ccchHHHHHHHHHHHHHhcc-cHHHHH-HHccCccHHHH---HHHHHHHHH
Confidence 35999999999999999999 999997 69999998777 466666554
No 35
>smart00426 TEA TEA domain.
Probab=91.21 E-value=0.18 Score=40.38 Aligned_cols=43 Identities=30% Similarity=0.369 Sum_probs=32.0
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCH---------------HHHHhhhc-----CCCCHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDW---------------RGIARNYV-----MSRTPTQVASHAQ 154 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdW---------------k~IA~~~V-----~TRTp~QVrSHAQ 154 (357)
..|.++=...|++||+.|-+-.+ ..|+ .|+ ..||.+||.||-|
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 57999999999999998874222 2344 343 3499999999987
No 36
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=90.52 E-value=0.35 Score=52.10 Aligned_cols=47 Identities=26% Similarity=0.440 Sum_probs=41.4
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHH
Q 018343 109 KGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFI 158 (357)
Q Consensus 109 k~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~ 158 (357)
+.+.||+||.+.+......+|. +|+.|++ .++ |.|.-||.+|..|-.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~-~lg-r~P~~crd~wr~~~~ 429 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGK-ALG-RMPMDCRDRWRQYVK 429 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHH-HHc-cCcHHHHHHHHHhhc
Confidence 5678999999999999999997 9999994 555 889999999998854
No 37
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=90.47 E-value=0.87 Score=47.05 Aligned_cols=54 Identities=30% Similarity=0.328 Sum_probs=41.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHcC---------------CCCHHHHHhhhc-----CCCCHHHHHHHHHHHHHHHhh
Q 018343 108 KKGVPWTEEEHRLFLIGLQKLG---------------KGDWRGIARNYV-----MSRTPTQVASHAQKYFIRQSN 162 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~kyG---------------kGdWk~IA~~~V-----~TRTp~QVrSHAQKYF~r~~~ 162 (357)
..-+.|+++=...|.+||..|. .|+=..||+ || +|||.+||-||-|=.-+|+.+
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIar-YIKlrtgktRTrKQVSSHIQVlarrk~r 147 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIAR-YIKLRTGKTRTRKQVSSHIQVLARRKLR 147 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHH-HHHHhcCCchhHHHHHHHHHHHHHHHHH
Confidence 4456899999999999999865 246678885 76 478899999999965544443
No 38
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=90.33 E-value=0.39 Score=51.76 Aligned_cols=51 Identities=18% Similarity=0.292 Sum_probs=40.4
Q ss_pred cCCCCCCHHHHHHHHHHHH-------Hc-------CC----------C-CHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 018343 108 KKGVPWTEEEHRLFLIGLQ-------KL-------GK----------G-DWRGIARNYVMSRTPTQVASHAQKYFIR 159 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~-------ky-------Gk----------G-dWk~IA~~~V~TRTp~QVrSHAQKYF~r 159 (357)
.++.+||.||.+++|..++ .| |. + .|..|+ ..++||+..|||.|++|-..+
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vs-e~~~TR~~~qCr~Kw~kl~~~ 509 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVS-EMLGTRSRIQCRYKWYKLTTS 509 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhh-HhhcCCCcchHHHHHHHHHhh
Confidence 4567999999999999985 33 11 1 799999 599999999999777665443
No 39
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=85.28 E-value=2.7 Score=32.42 Aligned_cols=46 Identities=22% Similarity=0.304 Sum_probs=35.4
Q ss_pred CCCCHHHHHHHHHHHHHc-----CC-----------CCHHHHHhhh----cCCCCHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKL-----GK-----------GDWRGIARNY----VMSRTPTQVASHAQKY 156 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~ky-----Gk-----------GdWk~IA~~~----V~TRTp~QVrSHAQKY 156 (357)
..||.+|.+.+++.+++| |+ .-|..|+..| .+.||..|++..++++
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nl 68 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNL 68 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence 469999999999999987 31 3799998644 2369999997655544
No 40
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=85.27 E-value=1.8 Score=42.42 Aligned_cols=56 Identities=21% Similarity=0.380 Sum_probs=40.7
Q ss_pred CCCCCHHHHHHHHHHHHH----cCCC-----CHHHHHhhhc---CCCCHHHHHHHHHHHHHHHhhhhc
Q 018343 110 GVPWTEEEHRLFLIGLQK----LGKG-----DWRGIARNYV---MSRTPTQVASHAQKYFIRQSNATR 165 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~k----yGkG-----dWk~IA~~~V---~TRTp~QVrSHAQKYF~r~~~~~k 165 (357)
...|+.||-+.||+.... |..+ .|..||+++- --||+.||+..+-+-.++.+..+.
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 478999999999998654 3333 5999997443 339999999887766555554443
No 41
>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=83.58 E-value=2.4 Score=33.31 Aligned_cols=50 Identities=16% Similarity=0.170 Sum_probs=30.5
Q ss_pred CCCCCHHHHHHHHHHHHHcCC--------CCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 018343 110 GVPWTEEEHRLFLIGLQKLGK--------GDWRGIARNYVMSRTPTQVASHAQKYFIR 159 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~kyGk--------GdWk~IA~~~V~TRTp~QVrSHAQKYF~r 159 (357)
+.+.|+||+..++.-|..+.+ .-|+.+++.++...|-.--|.|+.|.+..
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 368999999999999965532 26999998777667777777777665543
No 42
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=81.84 E-value=2.1 Score=45.54 Aligned_cols=44 Identities=32% Similarity=0.485 Sum_probs=38.4
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHH
Q 018343 109 KGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQ 154 (357)
Q Consensus 109 k~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQ 154 (357)
+...|++||++..+..=..+|- .|..|| .++..||..||...+.
T Consensus 71 k~~~~~~eed~~li~l~~~~~~-~wstia-~~~d~rt~~~~~ery~ 114 (512)
T COG5147 71 KKKNWSEEEDEQLIDLDKELGT-QWSTIA-DYKDRRTAQQCVERYV 114 (512)
T ss_pred ccccccHHHHHHHHHHHHhcCc-hhhhhc-cccCccchHHHHHHHH
Confidence 4568999999999999999998 799999 6999999999944333
No 43
>smart00343 ZnF_C2HC zinc finger.
Probab=81.60 E-value=0.8 Score=29.21 Aligned_cols=18 Identities=39% Similarity=1.139 Sum_probs=16.0
Q ss_pred ccCCCCCCCCCCCCCCCC
Q 018343 4 RCSHCSNNGHNSRTCPTR 21 (357)
Q Consensus 4 ~CS~Cg~~GHNsRTC~~~ 21 (357)
+|..||..||.++.|+..
T Consensus 1 ~C~~CG~~GH~~~~C~~~ 18 (26)
T smart00343 1 KCYNCGKEGHIARDCPKX 18 (26)
T ss_pred CCccCCCCCcchhhCCcc
Confidence 599999999999999844
No 44
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=81.55 E-value=1.9 Score=44.81 Aligned_cols=49 Identities=27% Similarity=0.333 Sum_probs=31.4
Q ss_pred ccCCCCCCHHHHHHHHHHHHHcCC-------------CCHHHHHhhhc-----CCCCHHHHHHHHHHH
Q 018343 107 RKKGVPWTEEEHRLFLIGLQKLGK-------------GDWRGIARNYV-----MSRTPTQVASHAQKY 156 (357)
Q Consensus 107 rkk~~~WTeEEH~~FL~GL~kyGk-------------GdWk~IA~~~V-----~TRTp~QVrSHAQKY 156 (357)
.+....|+++=...|++||++|-+ |+=..|+ .|| .+||.+||.||.|-.
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 345578999999999999998764 2334566 354 359999999999955
No 45
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=79.52 E-value=4.6 Score=46.26 Aligned_cols=47 Identities=36% Similarity=0.634 Sum_probs=40.2
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCHHHHHh-----------hhcCCCCHHHHHHHHHH
Q 018343 109 KGVPWTEEEHRLFLIGLQKLGKGDWRGIAR-----------NYVMSRTPTQVASHAQK 155 (357)
Q Consensus 109 k~~~WTeEEH~~FL~GL~kyGkGdWk~IA~-----------~~V~TRTp~QVrSHAQK 155 (357)
++..||+||++-+|-.+.+||-|+|..|-. -|+.+||+..+.-++.-
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~ 982 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDT 982 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHH
Confidence 345799999999999999999999999932 36889999999888753
No 46
>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=76.55 E-value=7.1 Score=30.79 Aligned_cols=44 Identities=27% Similarity=0.474 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHHHHHc-------CCC-----CHHHHHhhh----cCCCCHHHHHHHHHH
Q 018343 112 PWTEEEHRLFLIGLQKL-------GKG-----DWRGIARNY----VMSRTPTQVASHAQK 155 (357)
Q Consensus 112 ~WTeEEH~~FL~GL~ky-------GkG-----dWk~IA~~~----V~TRTp~QVrSHAQK 155 (357)
.||+++.+.||+.|... +.+ .|+.|++.| -...|..||++|.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 49999999999998543 122 588887544 234688999998743
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=70.26 E-value=12 Score=34.06 Aligned_cols=50 Identities=12% Similarity=0.384 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHHHcCCC--CHHHHHhhhcCCCCHHHHHHHHHHHHHHHh
Q 018343 111 VPWTEEEHRLFLIGLQKLGKG--DWRGIARNYVMSRTPTQVASHAQKYFIRQS 161 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkG--dWk~IA~~~V~TRTp~QVrSHAQKYF~r~~ 161 (357)
--++..+.+.||.++.+||-| +|+++- .-+.-||..+++.++--|+.++.
T Consensus 39 lGFn~rQR~~Fln~vMR~G~~~f~~~w~~-~~Lr~Ks~~ei~aY~~LFm~HL~ 90 (145)
T PF06461_consen 39 LGFNPRQRKAFLNAVMRYGMGAFDWKWFV-PRLRGKSEKEIRAYGSLFMRHLC 90 (145)
T ss_pred eccCHHHHHHHHHHHHHHCcCcccchHHh-hhhccccHHHHHHHHHHHHHHhc
Confidence 357899999999999999988 999998 47889999999998855444443
No 48
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=67.21 E-value=5.5 Score=43.11 Aligned_cols=50 Identities=24% Similarity=0.378 Sum_probs=43.3
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 018343 105 CERKKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIR 159 (357)
Q Consensus 105 ~~rkk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r 159 (357)
..+.....||.+|-++|-.+|..+|- ++..|+ +....|+..||+ +||-++
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis-~l~p~R~rk~iK---~K~~~e 453 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLIS-NLFPLRDRKQIK---AKFKKE 453 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-cccccc-cccccccHHHHH---HHHhhh
Confidence 44556789999999999999999999 999999 799999999997 566543
No 49
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=67.10 E-value=5.9 Score=42.66 Aligned_cols=43 Identities=28% Similarity=0.439 Sum_probs=36.3
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKY 156 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKY 156 (357)
+-|+.||++++|+..+.+.. -|+.|+. +-.||..||-.+.++-
T Consensus 60 tews~eederlLhlakl~p~-qwrtIa~--i~gr~~~qc~eRy~~l 102 (617)
T KOG0050|consen 60 TEWSREEDERLLHLAKLEPT-QWRTIAD--IMGRTSQQCLERYNNL 102 (617)
T ss_pred hhhhhhHHHHHHHHHHhcCC-ccchHHH--HhhhhHHHHHHHHHHH
Confidence 67999999999999999987 9999994 4559999996655443
No 50
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=63.55 E-value=4 Score=38.52 Aligned_cols=20 Identities=40% Similarity=1.155 Sum_probs=16.8
Q ss_pred CCccCCCCCCCCCCCCC-CCC
Q 018343 2 TRRCSHCSNNGHNSRTC-PTR 21 (357)
Q Consensus 2 ~R~CS~Cg~~GHNsRTC-~~~ 21 (357)
..+|.+||-+||=+|-| |..
T Consensus 97 ~~~C~~Cg~~GH~~~dC~P~~ 117 (190)
T COG5082 97 PKKCYNCGETGHLSRDCNPSK 117 (190)
T ss_pred ccccccccccCccccccCccc
Confidence 45899999999999999 444
No 51
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=59.44 E-value=10 Score=44.50 Aligned_cols=53 Identities=23% Similarity=0.522 Sum_probs=38.6
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCHHHHHh-------hhcC----CCCHHHHHHHHHHHHHHHhh
Q 018343 109 KGVPWTEEEHRLFLIGLQKLGKGDWRGIAR-------NYVM----SRTPTQVASHAQKYFIRQSN 162 (357)
Q Consensus 109 k~~~WTeEEH~~FL~GL~kyGkGdWk~IA~-------~~V~----TRTp~QVrSHAQKYF~r~~~ 162 (357)
...-|..||+..||.||-+||.|+|..|-- .-+. --+..|.+.+| .|+..+..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dKi~~~e~~P~a~~L~~R~-~yLls~~~ 1195 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDKIFLVETVPQAKHLQRRA-DYLLSLLR 1195 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhhhcccccCCchHHHHHHH-HHHHHHHh
Confidence 567899999999999999999999999921 1111 23456666666 67776543
No 52
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=56.24 E-value=7.3 Score=25.21 Aligned_cols=21 Identities=24% Similarity=0.716 Sum_probs=15.9
Q ss_pred CCCccCCCCCC-CCCCCCCCCC
Q 018343 1 MTRRCSHCSNN-GHNSRTCPTR 21 (357)
Q Consensus 1 m~R~CS~Cg~~-GHNsRTC~~~ 21 (357)
|.+.|.+||+. --..+-|+.=
T Consensus 1 m~~~Cp~Cg~~~~~~~~fC~~C 22 (26)
T PF13248_consen 1 MEMFCPNCGAEIDPDAKFCPNC 22 (26)
T ss_pred CcCCCcccCCcCCcccccChhh
Confidence 88999999984 3366777754
No 53
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=54.86 E-value=17 Score=33.83 Aligned_cols=47 Identities=13% Similarity=0.155 Sum_probs=34.5
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhh-----cCCCCHHHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNY-----VMSRTPTQVASHAQKYFI 158 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~-----V~TRTp~QVrSHAQKYF~ 158 (357)
..||+||+.++-+-+-.|++..=..++ .| .-.||..+|..+|..|..
T Consensus 6 dawt~e~d~llae~vl~~i~eg~tql~-afe~~g~~L~rt~aac~fRwNs~vr 57 (170)
T PRK13923 6 DAWTQERDGLLAEVVLRHIREGGTQLK-AFEEVGDALKRTAAACGFRWNSVVR 57 (170)
T ss_pred hhhhhHHHHHHHHHHHHHHhccchHHH-HHHHHHHHHhhhHHHHHhHHHHHHH
Confidence 479999999998888888864334443 22 345999999999955544
No 54
>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=51.61 E-value=51 Score=33.76 Aligned_cols=50 Identities=22% Similarity=0.268 Sum_probs=38.4
Q ss_pred cCCCCCCHHHHHHHHHHHHHc-CC--CCHHHHHhhhcCCCCHHHHHHHHHHHHH
Q 018343 108 KKGVPWTEEEHRLFLIGLQKL-GK--GDWRGIARNYVMSRTPTQVASHAQKYFI 158 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~ky-Gk--GdWk~IA~~~V~TRTp~QVrSHAQKYF~ 158 (357)
+....||..|.+.+|.+|+-- |+ =|-..|+ +.+.+|+-.||+...|+.-.
T Consensus 19 ~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~-~~l~~Rs~aEI~~fl~~LK~ 71 (344)
T PF11035_consen 19 TGPAAWSAREKRQLLRLLQARRGQPEPDAAELA-KELPGRSEAEIRDFLQQLKG 71 (344)
T ss_pred CCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHH-hhccCcCHHHHHHHHHHHHH
Confidence 445799999999999999965 32 1666788 48999999999876665433
No 55
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=47.92 E-value=11 Score=28.12 Aligned_cols=20 Identities=30% Similarity=0.916 Sum_probs=16.0
Q ss_pred CccCCCC-CCCCCCCCCCCCC
Q 018343 3 RRCSHCS-NNGHNSRTCPTRG 22 (357)
Q Consensus 3 R~CS~Cg-~~GHNsRTC~~~~ 22 (357)
|||.+|| .||+-+--|.+..
T Consensus 12 rkCp~CGt~NG~R~~~CKN~~ 32 (44)
T PF14952_consen 12 RKCPKCGTYNGTRGLSCKNKS 32 (44)
T ss_pred ccCCcCcCccCcccccccCCc
Confidence 8999999 4788777787764
No 56
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=46.21 E-value=32 Score=39.15 Aligned_cols=50 Identities=28% Similarity=0.486 Sum_probs=43.3
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHhh
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQSN 162 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~~ 162 (357)
..||+.+-..|+.|-++||++|-..||+ -|-. |+..|..+|.-+|-++..
T Consensus 796 t~w~k~df~~fi~a~eKygr~di~~ia~-~~e~-~~eev~~y~rvfwer~~e 845 (971)
T KOG0385|consen 796 TNWTKRDFNQFIKANEKYGRDDIENIAA-EVEG-TPEEVGEYARVFWERLEE 845 (971)
T ss_pred cchhhhhHHHHHHHhhccCcchhhhhHH-hhcC-CHHHHHHHHHHHHHHHHH
Confidence 4599999999999999999999999995 5554 999999999877777653
No 57
>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=45.49 E-value=13 Score=34.81 Aligned_cols=28 Identities=29% Similarity=0.588 Sum_probs=25.6
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCHHHHH
Q 018343 110 GVPWTEEEHRLFLIGLQKLGKGDWRGIA 137 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~kyGkGdWk~IA 137 (357)
...|-.+-+-.+|.|+-++|.|+|..|.
T Consensus 3 ~~iw~r~hdywll~gi~~hgy~rwqdi~ 30 (173)
T PF08074_consen 3 YEIWHRRHDYWLLAGIVKHGYGRWQDIQ 30 (173)
T ss_pred hhhhhhhhhHHHHhHHhhccchhHHHHh
Confidence 4579999999999999999999999995
No 58
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=45.19 E-value=54 Score=27.42 Aligned_cols=39 Identities=28% Similarity=0.532 Sum_probs=28.0
Q ss_pred CCCCHHHHHHHHHHHHHc----CCC---CHHHHHhhhcCCC-----CHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKL----GKG---DWRGIARNYVMSR-----TPTQVA 150 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~ky----GkG---dWk~IA~~~V~TR-----Tp~QVr 150 (357)
..||+|+.-.+|+||-.| |.. +|...- .+|... |..|+.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~-~~vk~~l~~~~s~~Ql~ 55 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFY-DFVKGSLSFDVSKNQLY 55 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHH-HHHHHHccCCCCHHHHH
Confidence 369999999999999988 632 777665 455433 556664
No 59
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=40.74 E-value=36 Score=32.36 Aligned_cols=46 Identities=15% Similarity=0.169 Sum_probs=35.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcC--CCCHHHHHh----hhcCCCCHHHHHHHHH
Q 018343 109 KGVPWTEEEHRLFLIGLQKLG--KGDWRGIAR----NYVMSRTPTQVASHAQ 154 (357)
Q Consensus 109 k~~~WTeEEH~~FL~GL~kyG--kGdWk~IA~----~~V~TRTp~QVrSHAQ 154 (357)
...+|+.+|.+.+........ ...|..|-. -|-.+||+++...|||
T Consensus 72 ~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~ 123 (199)
T PF13325_consen 72 SKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWR 123 (199)
T ss_pred ccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHH
Confidence 347999999999998765543 246777722 4788999999999998
No 60
>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=39.66 E-value=37 Score=31.49 Aligned_cols=48 Identities=23% Similarity=0.387 Sum_probs=37.4
Q ss_pred CCCCHHHHHHHHHHHHHcCC-C-----CHHHHHhhhcCCCCHHHHHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGK-G-----DWRGIARNYVMSRTPTQVASHAQKYFIRQ 160 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGk-G-----dWk~IA~~~V~TRTp~QVrSHAQKYF~r~ 160 (357)
-.||+||+.++-+-+-+|=+ | -|..+++ --+||+.-|..+|.-|..++
T Consensus 5 DAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~--~L~RTsAACGFRWNs~VRkq 58 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGR--ALNRTAAACGFRWNAYVRKQ 58 (161)
T ss_pred cccccHHHHHHHHHHHHHHhcchHHHHHHHHHHH--HHcccHHHhcchHHHHHHHH
Confidence 47999999999999888764 2 4555553 34699999999999887754
No 61
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=39.02 E-value=15 Score=24.20 Aligned_cols=10 Identities=30% Similarity=1.022 Sum_probs=8.0
Q ss_pred CCccCCCCCC
Q 018343 2 TRRCSHCSNN 11 (357)
Q Consensus 2 ~R~CS~Cg~~ 11 (357)
+++|.|||+.
T Consensus 14 ~~~Cp~CG~~ 23 (26)
T PF10571_consen 14 AKFCPHCGYD 23 (26)
T ss_pred cCcCCCCCCC
Confidence 5789999873
No 62
>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=34.49 E-value=48 Score=24.44 Aligned_cols=41 Identities=22% Similarity=0.272 Sum_probs=32.6
Q ss_pred HHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHH
Q 018343 118 HRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQ 160 (357)
Q Consensus 118 H~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~ 160 (357)
.+.+-.+++..|...+..|. .+.+|+..|.+.=.+.|...-
T Consensus 3 A~~l~~a~~~~g~de~~li~--Il~~rs~~ql~~i~~~Y~~~~ 43 (66)
T PF00191_consen 3 AELLHAALKGWGTDEDVLIE--ILCTRSPAQLRAIKQAYKKKY 43 (66)
T ss_dssp HHHHHHHHSSSSSTHHHHHH--HHHHSTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHccCCCCChhHhhh--HHhhhcccccceeehhhhhhh
Confidence 45788889999976777765 788999999998888886543
No 63
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=33.89 E-value=21 Score=33.78 Aligned_cols=18 Identities=44% Similarity=1.056 Sum_probs=16.5
Q ss_pred CCccCCCCCCCCCCCCCC
Q 018343 2 TRRCSHCSNNGHNSRTCP 19 (357)
Q Consensus 2 ~R~CS~Cg~~GHNsRTC~ 19 (357)
.++|--||++||-.|-||
T Consensus 60 ~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 60 NPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccchhcccCcccccCC
Confidence 368999999999999999
No 64
>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=31.01 E-value=18 Score=36.18 Aligned_cols=53 Identities=19% Similarity=0.369 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHHHHHHH---------HcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhhcccCcC
Q 018343 110 GVPWTEEEHRLFLIGLQ---------KLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQSNATRRKRRS 170 (357)
Q Consensus 110 ~~~WTeEEH~~FL~GL~---------kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~~~~krKrR~ 170 (357)
..+=.+.+.+.|..-|+ .+|+|.||.+- -.||+.||-+.|...++.+|.++-.
T Consensus 194 ~~pi~d~~~kelvAelrwqyNkFAvItHGkgHyRvV~--------ys~v~nHAdRv~at~ks~~K~~~~~ 255 (316)
T PF02509_consen 194 DTPISDSNVKELVAELRWQYNKFAVITHGKGHYRVVK--------YSSVANHADRVYATFKSNKKTGSQF 255 (316)
T ss_dssp SS---HHHHHHHHHHHHHHTTTEEEEESSSSCEEEEE--------GGGHHHHHHHHHHHHCTTCCTT---
T ss_pred CCCCchHHHHHHHHHHHHhhcceEEEeccCceEEEEe--------hHHhhhhHHHHHHHHhcccccCCcc
Confidence 34666777777777766 37899998875 5799999999999999877765443
No 65
>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=30.66 E-value=1.4e+02 Score=26.86 Aligned_cols=48 Identities=29% Similarity=0.392 Sum_probs=37.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhc-CC--CCHHHHHHHHHHH
Q 018343 108 KKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYV-MS--RTPTQVASHAQKY 156 (357)
Q Consensus 108 kk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V-~T--RTp~QVrSHAQKY 156 (357)
+....=+++|..-....|++||. |+..+++.-= .. .|+.|++-...+|
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 55667888988888888999997 9999996321 12 7999998666655
No 66
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=30.58 E-value=1.3e+02 Score=24.10 Aligned_cols=30 Identities=20% Similarity=0.535 Sum_probs=20.0
Q ss_pred CCHHHHHhhhcCC----CCHHHHHHHHHHHHHHH
Q 018343 131 GDWRGIARNYVMS----RTPTQVASHAQKYFIRQ 160 (357)
Q Consensus 131 GdWk~IA~~~V~T----RTp~QVrSHAQKYF~r~ 160 (357)
..|+.|++.+--. ....+++.+.+||+.-.
T Consensus 54 ~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 54 KKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred CCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 5899999644222 23577888888886543
No 67
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=30.14 E-value=34 Score=29.71 Aligned_cols=19 Identities=53% Similarity=1.214 Sum_probs=13.2
Q ss_pred CccCCCCCCCCCCCCCCCC
Q 018343 3 RRCSHCSNNGHNSRTCPTR 21 (357)
Q Consensus 3 R~CS~Cg~~GHNsRTC~~~ 21 (357)
+.|..||..||.++.|+..
T Consensus 78 ~~C~~Cg~~GH~~~~C~~~ 96 (148)
T PTZ00368 78 RSCYNCGQTGHISRECPNR 96 (148)
T ss_pred cccCcCCCCCcccccCCCc
Confidence 3577777777777777765
No 68
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=28.08 E-value=88 Score=33.63 Aligned_cols=47 Identities=4% Similarity=-0.118 Sum_probs=38.7
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 018343 111 VPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIR 159 (357)
Q Consensus 111 ~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r 159 (357)
..||.+|.-+.+.+|++||+ ++..|+ -.|+-++-.|+..-.-.|-.|
T Consensus 370 ~~~~T~~~la~v~~I~~~~~-~~~pl~-wrik~t~cmee~e~l~~~~Rr 416 (534)
T KOG1194|consen 370 RCFDTPAALALIDNIKRKHH-MCVPLV-WRVKQTKCMEENEILNEEARR 416 (534)
T ss_pred cccCcHHHHHHHHHHHHhcc-Ccchhh-hHhcCcchhhHHHHHHHHHHH
Confidence 68999999999999999999 777887 578989999997655555333
No 69
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=27.95 E-value=27 Score=24.18 Aligned_cols=10 Identities=50% Similarity=1.411 Sum_probs=8.3
Q ss_pred CccCCCCCCC
Q 018343 3 RRCSHCSNNG 12 (357)
Q Consensus 3 R~CS~Cg~~G 12 (357)
++|+.|+++|
T Consensus 4 ~~C~~C~~~~ 13 (33)
T PF08792_consen 4 KKCSKCGGNG 13 (33)
T ss_pred eEcCCCCCCe
Confidence 6899998887
No 70
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=27.56 E-value=40 Score=29.30 Aligned_cols=19 Identities=47% Similarity=1.109 Sum_probs=12.9
Q ss_pred CccCCCCCCCCCCCCCCCC
Q 018343 3 RRCSHCSNNGHNSRTCPTR 21 (357)
Q Consensus 3 R~CS~Cg~~GHNsRTC~~~ 21 (357)
+.|..|+..||-++.||..
T Consensus 53 ~~C~~Cg~~GH~~~~Cp~~ 71 (148)
T PTZ00368 53 RSCYNCGKTGHLSRECPEA 71 (148)
T ss_pred cccCCCCCcCcCcccCCCc
Confidence 3577777777777777665
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=26.37 E-value=2.2e+02 Score=20.31 Aligned_cols=38 Identities=21% Similarity=0.225 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHH
Q 018343 116 EEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQK 155 (357)
Q Consensus 116 EEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQK 155 (357)
+=+++.|..|+.-|+-.|..||+ .++ =+...|..+.++
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~-~lg-lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAE-ELG-LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHH-HHT-S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHH-HHC-cCHHHHHHHHHH
Confidence 45788999999999999999995 555 456667655543
No 72
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=26.11 E-value=48 Score=31.51 Aligned_cols=17 Identities=41% Similarity=1.103 Sum_probs=12.9
Q ss_pred ccCCCCCCCCCCCCCCC
Q 018343 4 RCSHCSNNGHNSRTCPT 20 (357)
Q Consensus 4 ~CS~Cg~~GHNsRTC~~ 20 (357)
+|-.||+.||=++-|+.
T Consensus 145 ~Cy~Cg~~GH~s~~C~~ 161 (261)
T KOG4400|consen 145 KCYSCGEQGHISDDCPE 161 (261)
T ss_pred ccCCCCcCCcchhhCCC
Confidence 47778888888888874
No 73
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=24.45 E-value=41 Score=36.32 Aligned_cols=18 Identities=33% Similarity=0.671 Sum_probs=8.7
Q ss_pred ccCCCCCCCCCCCCCCCC
Q 018343 4 RCSHCSNNGHNSRTCPTR 21 (357)
Q Consensus 4 ~CS~Cg~~GHNsRTC~~~ 21 (357)
.|-+||-.||+++-|...
T Consensus 287 ~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 287 VCKICGPLGHISIDCKVN 304 (554)
T ss_pred cccccCCcccccccCCCc
Confidence 445555555555555433
No 74
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=24.29 E-value=37 Score=23.73 Aligned_cols=19 Identities=37% Similarity=0.914 Sum_probs=17.1
Q ss_pred CccCCCCCCCCCCCCCCCC
Q 018343 3 RRCSHCSNNGHNSRTCPTR 21 (357)
Q Consensus 3 R~CS~Cg~~GHNsRTC~~~ 21 (357)
..|--|+.-||--+.||..
T Consensus 9 Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CEeecCCCCCccHhHCCCC
Confidence 4699999999999999974
No 75
>PF05634 APO_RNA-bind: APO RNA-binding; InterPro: IPR008512 This family consists of plant APO (accumulation of photosystem 1) proteins.
Probab=23.88 E-value=43 Score=32.17 Aligned_cols=20 Identities=35% Similarity=0.732 Sum_probs=16.7
Q ss_pred CccCCC-----CCCCCCCCCCCCCC
Q 018343 3 RRCSHC-----SNNGHNSRTCPTRG 22 (357)
Q Consensus 3 R~CS~C-----g~~GHNsRTC~~~~ 22 (357)
+.|.+| |.-||.-|||....
T Consensus 99 ~~C~~C~EVHVG~~GH~irtC~g~k 123 (204)
T PF05634_consen 99 KACGYCPEVHVGPVGHKIRTCGGFK 123 (204)
T ss_pred eecCCCCCeEECCCcccccccCCCC
Confidence 469999 67899999998764
No 76
>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=23.84 E-value=1.6e+02 Score=23.32 Aligned_cols=27 Identities=33% Similarity=0.620 Sum_probs=18.9
Q ss_pred CCHHHHHhhhcCC---CC--HHHHHHHHHHHHH
Q 018343 131 GDWRGIARNYVMS---RT--PTQVASHAQKYFI 158 (357)
Q Consensus 131 GdWk~IA~~~V~T---RT--p~QVrSHAQKYF~ 158 (357)
+.|..|++.+ +- .+ ..|++.++.+|+.
T Consensus 58 ~~W~~va~~l-g~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 58 KKWREVARKL-GFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp TTHHHHHHHT-TS-TTSCHHHHHHHHHHHHHTH
T ss_pred chHHHHHHHh-CCCCCCCcHHHHHHHHHHHHhH
Confidence 5899999644 32 12 3688888888865
No 77
>PHA00442 host recBCD nuclease inhibitor
Probab=23.80 E-value=84 Score=24.75 Aligned_cols=24 Identities=29% Similarity=0.566 Sum_probs=20.5
Q ss_pred CHHHHHHHHHHHHHcCCCCHHHHH
Q 018343 114 TEEEHRLFLIGLQKLGKGDWRGIA 137 (357)
Q Consensus 114 TeEEH~~FL~GL~kyGkGdWk~IA 137 (357)
+-|-...||.+|+-.|--+|.++.
T Consensus 24 sLek~~~~L~~Lea~GVDNW~Gy~ 47 (59)
T PHA00442 24 SLEKDNEFLKALRACGVDNWDGYM 47 (59)
T ss_pred HHHHhhHHHHHHHHcCCcchhhHH
Confidence 345567899999999999999996
No 78
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=22.52 E-value=52 Score=24.13 Aligned_cols=19 Identities=37% Similarity=0.989 Sum_probs=17.1
Q ss_pred CCccCCCCCCCCCCCCCCC
Q 018343 2 TRRCSHCSNNGHNSRTCPT 20 (357)
Q Consensus 2 ~R~CS~Cg~~GHNsRTC~~ 20 (357)
...|-.|+..||=..-|++
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 3689999999999999995
No 79
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=20.37 E-value=38 Score=24.17 Aligned_cols=8 Identities=50% Similarity=1.385 Sum_probs=3.8
Q ss_pred ccCCCCCC
Q 018343 4 RCSHCSNN 11 (357)
Q Consensus 4 ~CS~Cg~~ 11 (357)
||.+|||.
T Consensus 8 kC~~CGni 15 (36)
T PF06397_consen 8 KCEHCGNI 15 (36)
T ss_dssp E-TTT--E
T ss_pred EccCCCCE
Confidence 78888874
No 80
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=20.33 E-value=16 Score=43.57 Aligned_cols=52 Identities=19% Similarity=0.418 Sum_probs=42.2
Q ss_pred cccCCCCCCHHHHHHHHHHHHHcCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHhh
Q 018343 106 ERKKGVPWTEEEHRLFLIGLQKLGKGDWRGIARNYVMSRTPTQVASHAQKYFIRQSN 162 (357)
Q Consensus 106 ~rkk~~~WTeEEH~~FL~GL~kyGkGdWk~IA~~~V~TRTp~QVrSHAQKYF~r~~~ 162 (357)
.|.....|+++||+.|..=+..+-+ ++..|+ +|.--+|..|| .-.||...++
T Consensus 221 ~~~~~n~Ws~~Ek~~fk~rf~~H~k-nf~~~a-s~~erkSv~d~---vlfyy~nkkt 272 (1672)
T KOG1878|consen 221 DRQRMNEWSPEEKELFKSRFAQHVK-NFGLIA-SFFERKSVSDC---VLFYYLNKKT 272 (1672)
T ss_pred hHHHhhhccccccccccchhhhcCc-chhhhh-hhhcccchhhc---eeeeeecccc
Confidence 3556778999999999999999987 999999 78888999999 4555554444
Done!