Query 048263
Match_columns 207
No_of_seqs 217 out of 655
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 07:53:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048263.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048263hhsearch_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 6E-18 1.3E-22 119.5 6.2 53 91-143 1-57 (57)
2 PF00249 Myb_DNA-binding: Myb- 99.6 1.3E-15 2.8E-20 101.9 5.3 47 93-140 1-48 (48)
3 smart00717 SANT SANT SWI3, AD 99.4 1.8E-12 4E-17 82.6 5.7 47 93-140 1-47 (49)
4 cd00167 SANT 'SWI3, ADA2, N-Co 99.3 2.9E-12 6.3E-17 80.8 5.7 45 95-140 1-45 (45)
5 PF13921 Myb_DNA-bind_6: Myb-l 99.1 5.5E-11 1.2E-15 81.9 4.9 43 96-140 1-43 (60)
6 PLN03212 Transcription repress 99.1 2.5E-10 5.5E-15 101.3 6.5 52 88-140 20-72 (249)
7 KOG0457 Histone acetyltransfer 99.0 3.1E-10 6.7E-15 107.0 5.8 54 91-145 70-123 (438)
8 PLN03091 hypothetical protein; 98.9 7.6E-10 1.7E-14 104.9 5.3 52 88-140 9-61 (459)
9 PLN03212 Transcription repress 98.8 1.4E-08 3.1E-13 90.3 9.2 51 91-143 76-126 (249)
10 KOG0048 Transcription factor, 98.7 8.5E-09 1.8E-13 89.4 4.2 47 93-140 9-56 (238)
11 PLN03091 hypothetical protein; 98.6 6E-08 1.3E-12 92.2 6.7 51 91-143 65-115 (459)
12 KOG0048 Transcription factor, 98.6 1.4E-07 3.1E-12 81.8 6.5 53 91-145 60-112 (238)
13 COG5114 Histone acetyltransfer 98.5 8.9E-08 1.9E-12 88.7 4.6 52 90-142 60-111 (432)
14 COG5259 RSC8 RSC chromatin rem 98.4 3.6E-07 7.9E-12 87.6 5.3 49 92-146 278-326 (531)
15 KOG0049 Transcription factor, 98.2 1.2E-06 2.6E-11 87.1 5.4 65 88-157 355-419 (939)
16 KOG1279 Chromatin remodeling f 98.2 2.4E-06 5.2E-11 82.6 5.6 51 90-146 250-300 (506)
17 KOG4329 DNA-binding protein [G 98.1 1.5E-05 3.2E-10 75.1 8.2 54 90-147 274-327 (445)
18 KOG0724 Zuotin and related mol 98.0 2.1E-06 4.5E-11 76.9 2.3 77 87-163 158-239 (335)
19 KOG0049 Transcription factor, 97.6 7.3E-05 1.6E-09 74.8 5.1 49 88-137 407-455 (939)
20 KOG0050 mRNA splicing protein 97.0 0.00059 1.3E-08 66.8 3.8 50 91-141 5-54 (617)
21 PLN03162 golden-2 like transcr 97.0 0.0027 5.9E-08 60.5 8.1 58 88-146 232-293 (526)
22 PF13837 Myb_DNA-bind_4: Myb/S 96.5 0.0051 1.1E-07 44.5 4.9 52 94-146 2-70 (90)
23 COG5147 REB1 Myb superfamily p 96.2 0.0028 6E-08 61.8 2.5 58 87-145 14-71 (512)
24 COG5118 BDP1 Transcription ini 96.0 0.011 2.4E-07 56.5 5.5 46 88-135 360-405 (507)
25 KOG0051 RNA polymerase I termi 96.0 0.0093 2E-07 59.2 4.8 49 92-143 383-431 (607)
26 KOG3554 Histone deacetylase co 95.5 0.013 2.8E-07 57.4 3.8 52 89-144 281-332 (693)
27 KOG4468 Polycomb-group transcr 95.4 0.02 4.4E-07 57.3 4.9 50 93-143 88-146 (782)
28 PF00098 zf-CCHC: Zinc knuckle 95.4 0.012 2.6E-07 33.0 1.9 18 2-19 1-18 (18)
29 KOG4167 Predicted DNA-binding 95.4 0.03 6.4E-07 57.1 5.9 49 91-144 617-665 (907)
30 KOG0051 RNA polymerase I termi 95.1 0.028 6E-07 56.0 4.8 52 91-143 434-510 (607)
31 PF08914 Myb_DNA-bind_2: Rap1 95.0 0.048 1E-06 39.6 4.6 51 93-143 2-60 (65)
32 PF09111 SLIDE: SLIDE; InterP 94.9 0.061 1.3E-06 43.2 5.4 51 90-140 46-110 (118)
33 KOG3841 TEF-1 and related tran 94.9 0.19 4.1E-06 48.2 9.5 55 90-145 73-147 (455)
34 PF15288 zf-CCHC_6: Zinc knuck 94.7 0.016 3.4E-07 39.0 1.3 19 2-20 2-22 (40)
35 COG5147 REB1 Myb superfamily p 93.9 0.085 1.8E-06 51.7 4.9 53 91-145 70-122 (512)
36 PLN03142 Probable chromatin-re 93.9 0.098 2.1E-06 55.0 5.6 50 95-145 826-875 (1033)
37 PF13873 Myb_DNA-bind_5: Myb/S 93.2 0.23 5E-06 35.5 5.1 51 93-143 2-72 (78)
38 smart00426 TEA TEA domain. 93.1 0.12 2.6E-06 38.3 3.4 44 93-137 3-66 (68)
39 PF14392 zf-CCHC_4: Zinc knuck 93.0 0.034 7.4E-07 37.7 0.5 17 2-18 32-48 (49)
40 KOG0724 Zuotin and related mol 93.0 0.024 5.1E-07 51.0 -0.4 52 93-146 53-104 (335)
41 KOG0050 mRNA splicing protein 92.0 0.15 3.3E-06 50.4 3.6 51 90-143 56-106 (617)
42 KOG4282 Transcription factor G 91.8 0.32 6.8E-06 44.1 5.2 58 93-150 54-123 (345)
43 KOG1194 Predicted DNA-binding 91.3 0.33 7.1E-06 47.5 5.0 45 89-135 183-227 (534)
44 PF12776 Myb_DNA-bind_3: Myb/S 91.1 0.52 1.1E-05 34.4 4.8 45 95-139 1-61 (96)
45 PF01285 TEA: TEA/ATTS domain 89.6 0.39 8.5E-06 46.1 3.9 49 90-139 46-112 (431)
46 TIGR02894 DNA_bind_RsfA transc 88.9 0.48 1E-05 40.4 3.5 52 92-145 3-60 (161)
47 PLN03142 Probable chromatin-re 88.9 0.92 2E-05 47.9 6.3 52 92-143 925-987 (1033)
48 PRK13923 putative spore coat p 88.2 0.59 1.3E-05 40.0 3.6 51 92-144 4-60 (170)
49 PF06461 DUF1086: Domain of Un 86.8 2 4.4E-05 36.1 5.9 55 92-147 37-93 (145)
50 smart00343 ZnF_C2HC zinc finge 86.7 0.37 8E-06 28.4 1.1 18 3-20 1-18 (26)
51 PF04504 DUF573: Protein of un 78.3 6.1 0.00013 30.5 5.3 43 93-136 4-58 (98)
52 PF13325 MCRS_N: N-terminal re 76.4 3.4 7.4E-05 36.2 3.8 50 90-139 70-125 (199)
53 PF08074 CHDCT2: CHDCT2 (NUC03 75.2 1.7 3.7E-05 37.5 1.6 29 92-120 2-30 (173)
54 KOG0384 Chromodomain-helicase 74.4 1.9 4.2E-05 46.6 2.1 28 92-119 1132-1159(1373)
55 KOG2009 Transcription initiati 70.6 4.5 9.7E-05 40.6 3.5 45 88-134 404-448 (584)
56 COG5082 AIR1 Arginine methyltr 68.4 2.7 5.8E-05 36.7 1.3 16 3-18 99-114 (190)
57 PF09420 Nop16: Ribosome bioge 67.6 14 0.00029 30.6 5.3 48 91-139 112-162 (164)
58 PF11035 SnAPC_2_like: Small n 66.0 21 0.00046 33.7 6.7 49 91-140 19-70 (344)
59 KOG0385 Chromatin remodeling c 63.9 10 0.00022 39.9 4.6 52 93-146 795-846 (971)
60 PF14952 zf-tcix: Putative tre 59.4 5.9 0.00013 27.3 1.4 20 1-20 11-31 (44)
61 PF01388 ARID: ARID/BRIGHT DNA 59.3 25 0.00053 25.7 4.8 28 114-142 58-90 (92)
62 PF13404 HTH_AsnC-type: AsnC-t 58.9 26 0.00057 23.0 4.4 38 99-138 3-40 (42)
63 PF08281 Sigma70_r4_2: Sigma-7 57.4 40 0.00086 22.0 5.2 39 99-140 13-51 (54)
64 KOG1194 Predicted DNA-binding 56.5 25 0.00054 34.9 5.6 65 76-143 353-417 (534)
65 PHA00442 host recBCD nuclease 55.4 13 0.00029 26.9 2.7 25 97-121 24-48 (59)
66 PRK11179 DNA-binding transcrip 53.4 26 0.00057 28.1 4.5 40 98-139 8-47 (153)
67 PF11626 Rap1_C: TRF2-interact 52.7 7.3 0.00016 29.1 1.1 36 92-135 46-81 (87)
68 smart00501 BRIGHT BRIGHT, ARID 52.7 40 0.00087 24.9 5.1 30 114-144 54-88 (93)
69 PF10571 UPF0547: Uncharacteri 52.7 7.2 0.00016 23.7 0.9 10 1-10 14-23 (26)
70 PRK11169 leucine-responsive tr 45.1 39 0.00084 27.5 4.3 40 98-139 13-52 (164)
71 smart00344 HTH_ASNC helix_turn 38.7 70 0.0015 23.6 4.5 40 98-139 2-41 (108)
72 PTZ00368 universal minicircle 38.2 22 0.00047 28.5 1.8 18 3-20 79-96 (148)
73 COG5082 AIR1 Arginine methyltr 38.0 17 0.00036 31.9 1.2 17 2-18 61-77 (190)
74 PTZ00368 universal minicircle 37.4 23 0.00049 28.4 1.8 18 3-20 54-71 (148)
75 PF00191 Annexin: Annexin; In 36.8 42 0.0009 22.7 2.8 41 102-144 4-44 (66)
76 PF08792 A2L_zn_ribbon: A2L zi 35.8 17 0.00037 23.1 0.7 10 2-11 4-13 (33)
77 KOG0119 Splicing factor 1/bran 34.6 22 0.00048 35.5 1.5 19 2-20 286-304 (554)
78 KOG2656 DNA methyltransferase 32.4 44 0.00096 32.6 3.1 44 93-137 130-178 (445)
79 PF13917 zf-CCHC_3: Zinc knuck 32.3 28 0.00061 23.4 1.3 18 2-19 5-22 (42)
80 PF06397 Desulfoferrod_N: Desu 31.8 18 0.00038 23.8 0.3 8 3-10 8-15 (36)
81 PF02509 Rota_NS35: Rotavirus 31.4 22 0.00048 33.1 0.9 58 92-157 193-259 (316)
82 TIGR02937 sigma70-ECF RNA poly 31.3 1.6E+02 0.0034 21.4 5.4 45 95-143 110-154 (158)
83 PF05634 APO_RNA-bind: APO RNA 29.3 30 0.00065 30.7 1.3 19 2-20 99-122 (204)
84 PF02954 HTH_8: Bacterial regu 28.4 1.1E+02 0.0023 19.7 3.6 25 99-125 5-29 (42)
85 smart00595 MADF subfamily of S 27.9 60 0.0013 23.2 2.5 23 115-139 29-51 (89)
86 PF13248 zf-ribbon_3: zinc-rib 26.9 40 0.00088 19.9 1.2 19 1-19 2-21 (26)
87 KOG4400 E3 ubiquitin ligase in 26.0 35 0.00075 29.9 1.2 17 3-19 145-161 (261)
88 PF13719 zinc_ribbon_5: zinc-r 25.6 31 0.00067 22.1 0.6 8 3-10 27-34 (37)
89 PF13696 zf-CCHC_2: Zinc knuck 25.4 36 0.00078 21.9 0.9 19 2-20 9-27 (32)
90 KOG1878 Nuclear receptor coreg 24.8 38 0.00083 37.8 1.4 45 100-146 361-405 (1672)
91 KOG4849 mRNA cleavage factor I 23.9 31 0.00067 33.5 0.5 36 94-133 89-124 (498)
92 PHA03074 late transcription fa 23.6 36 0.00077 30.5 0.8 18 103-120 93-110 (225)
93 PF10545 MADF_DNA_bdg: Alcohol 23.1 82 0.0018 21.7 2.4 32 115-147 28-60 (85)
94 cd08780 Death_TRADD Death Doma 22.5 1.1E+02 0.0024 23.9 3.2 24 97-125 1-24 (90)
95 PLN00111 accumulation of photo 21.3 50 0.0011 32.0 1.3 19 2-20 121-144 (399)
96 KOG4771 Nucleolar protein (NOP 20.8 1.6E+02 0.0035 26.0 4.2 29 92-121 152-180 (210)
97 PF13717 zinc_ribbon_4: zinc-r 20.8 43 0.00094 21.4 0.6 8 3-10 27-34 (36)
98 PF10561 UPF0565: Uncharacteri 20.5 81 0.0018 29.3 2.5 26 88-113 276-301 (303)
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=99.73 E-value=6e-18 Score=119.48 Aligned_cols=53 Identities=47% Similarity=0.649 Sum_probs=47.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCH---HHHHhhhcCCC-CHHHHHHHHHHHHHHh
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDW---KGISKNFVTTR-TPTQVASHAQKYFLRQ 143 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdW---k~IAk~~V~TR-T~~QVrsHaQKYf~rl 143 (207)
|.+..||+|||++||+||+.||.|+| +.|++.++.++ |+.||++|+||||+++
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 45789999999999999999999999 99997455578 9999999999999864
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=99.60 E-value=1.3e-15 Score=101.90 Aligned_cols=47 Identities=40% Similarity=0.649 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcC-CCCHHHHHHHHHHHH
Q 048263 93 GKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVT-TRTPTQVASHAQKYF 140 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~-TRT~~QVrsHaQKYf 140 (207)
+.+||+|||++|++||++||.++|+.||+ +|+ +||+.||++||++|.
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~-~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAK-RMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHH-HHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHH-HcCCCCCHHHHHHHHHhhC
Confidence 36899999999999999999977999996 899 999999999999873
No 3
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.35 E-value=1.8e-12 Score=82.60 Aligned_cols=47 Identities=30% Similarity=0.517 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 048263 93 GKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYF 140 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf 140 (207)
+.+||+||+.+|+.++++||.++|..||+ ++++||+.||+.+|..++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~-~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAK-ELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHH-HcCCCCHHHHHHHHHHHc
Confidence 36899999999999999999669999996 999999999999988764
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=99.33 E-value=2.9e-12 Score=80.77 Aligned_cols=45 Identities=38% Similarity=0.722 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 048263 95 PWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYF 140 (207)
Q Consensus 95 ~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf 140 (207)
+||+||+.+|+.++++||.++|..||+ ++++||..||+.||++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~-~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAK-ELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHh-HcCCCCHHHHHHHHHHhC
Confidence 699999999999999999669999996 999999999999987763
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=99.15 E-value=5.5e-11 Score=81.87 Aligned_cols=43 Identities=35% Similarity=0.659 Sum_probs=36.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 048263 96 WTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYF 140 (207)
Q Consensus 96 WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf 140 (207)
||+||+++|++++++||. +|+.||+ ++++||+.||+.||.+++
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~-~l~~Rt~~~~~~r~~~~l 43 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAE-HLGNRTPKQCRNRWRNHL 43 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHH-HSTTS-HHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHH-HHCcCCHHHHHHHHHHHC
Confidence 999999999999999997 9999997 898899999999987743
No 6
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.06 E-value=2.5e-10 Score=101.29 Aligned_cols=52 Identities=21% Similarity=0.421 Sum_probs=46.8
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhc-CCCCHHHHHHHHHHHH
Q 048263 88 HERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFV-TTRTPTQVASHAQKYF 140 (207)
Q Consensus 88 ~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V-~TRT~~QVrsHaQKYf 140 (207)
+...++.+||+|||++|+++|++||..+|+.||+ .+ .+||.+|||.||.+|+
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk-~~g~gRT~KQCReRW~N~L 72 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPK-RAGLLRCGKSCRLRWMNYL 72 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHH-hhhcCCCcchHHHHHHHhh
Confidence 3445678999999999999999999999999997 67 5899999999999997
No 7
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=99.02 E-value=3.1e-10 Score=107.02 Aligned_cols=54 Identities=26% Similarity=0.489 Sum_probs=49.6
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhcc
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQAS 145 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~ 145 (207)
.....||.+||.+||+|+++||-|||..||+ +|+|||..+|++|+.|+|+...-
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~-hIGtKtkeeck~hy~k~fv~s~~ 123 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIAD-HIGTKTKEECKEHYLKHFVNSPI 123 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHH-HHcccchHHHHHHHHHHHhcCcc
Confidence 3467899999999999999999999999995 99999999999999999987643
No 8
>PLN03091 hypothetical protein; Provisional
Probab=98.95 E-value=7.6e-10 Score=104.89 Aligned_cols=52 Identities=19% Similarity=0.393 Sum_probs=46.9
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcC-CCCHHHHHHHHHHHH
Q 048263 88 HERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVT-TRTPTQVASHAQKYF 140 (207)
Q Consensus 88 ~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~-TRT~~QVrsHaQKYf 140 (207)
+.+.++++||+|||++|+++|++||.++|+.||+ .++ +||++|||.||.+|+
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk-~~g~gRT~KQCRERW~NyL 61 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPK-QAGLQRCGKSCRLRWINYL 61 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhh-hhccCcCcchHhHHHHhcc
Confidence 4556778999999999999999999999999997 665 899999999999886
No 9
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.84 E-value=1.4e-08 Score=90.29 Aligned_cols=51 Identities=20% Similarity=0.277 Sum_probs=46.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHh
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl 143 (207)
.++++||+||++++++.+++||. .|..||+ +|++||..||++||..++.+.
T Consensus 76 I~kgpWT~EED~lLlel~~~~Gn-KWs~IAk-~LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGN-RWSLIAG-RIPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccc-cHHHHHh-hcCCCCHHHHHHHHHHHHhHH
Confidence 45789999999999999999998 8999997 999999999999998776544
No 10
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.73 E-value=8.5e-09 Score=89.37 Aligned_cols=47 Identities=21% Similarity=0.389 Sum_probs=45.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcC-CCCHHHHHHHHHHHH
Q 048263 93 GKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVT-TRTPTQVASHAQKYF 140 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~-TRT~~QVrsHaQKYf 140 (207)
+++||.|||++|.+.|++||.|+|..|++ ..+ .|+.++||.||-.|+
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k-~~gl~R~GKSCRlRW~NyL 56 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPK-LAGLRRCGKSCRLRWTNYL 56 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhh-hcCCCccchHHHHHhhccc
Confidence 59999999999999999999999999997 888 999999999999997
No 11
>PLN03091 hypothetical protein; Provisional
Probab=98.62 E-value=6e-08 Score=92.20 Aligned_cols=51 Identities=16% Similarity=0.343 Sum_probs=46.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHh
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl 143 (207)
.++++||+|||++||+.+++||. .|..||+ +|++||..||+.||...+.+.
T Consensus 65 IkKgpWT~EED~lLLeL~k~~Gn-KWskIAk-~LPGRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 65 LKRGTFSQQEENLIIELHAVLGN-RWSQIAA-QLPGRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred ccCCCCCHHHHHHHHHHHHHhCc-chHHHHH-hcCCCCHHHHHHHHHHHHHHH
Confidence 34689999999999999999998 9999997 999999999999998776654
No 12
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.55 E-value=1.4e-07 Score=81.78 Aligned_cols=53 Identities=19% Similarity=0.317 Sum_probs=47.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhcc
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQAS 145 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~ 145 (207)
-+++.||+|||++++++..+||. .|..||+ ++++||..+|+.||.-.+.|...
T Consensus 60 ikrg~fT~eEe~~Ii~lH~~~GN-rWs~IA~-~LPGRTDNeIKN~Wnt~lkkkl~ 112 (238)
T KOG0048|consen 60 LKRGNFSDEEEDLIIKLHALLGN-RWSLIAG-RLPGRTDNEVKNHWNTHLKKKLL 112 (238)
T ss_pred ccCCCCCHHHHHHHHHHHHHHCc-HHHHHHh-hCCCcCHHHHHHHHHHHHHHHHH
Confidence 45899999999999999999999 8999997 99999999999999777654443
No 13
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.52 E-value=8.9e-08 Score=88.70 Aligned_cols=52 Identities=25% Similarity=0.550 Sum_probs=48.0
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 048263 90 RKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLR 142 (207)
Q Consensus 90 rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~r 142 (207)
..--..|+.+||.+|+++++.+|-|||..||. ||+.|+..+|++|+.|||+-
T Consensus 60 pI~~e~WgadEEllli~~~~TlGlGNW~dIad-yiGsr~kee~k~HylK~y~e 111 (432)
T COG5114 60 PIGEEGWGADEELLLIECLDTLGLGNWEDIAD-YIGSRAKEEIKSHYLKMYDE 111 (432)
T ss_pred cccCCCcCchHHHHHHHHHHhcCCCcHHHHHH-HHhhhhhHHHHHHHHHHHhh
Confidence 34467899999999999999999999999995 99999999999999999874
No 14
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.39 E-value=3.6e-07 Score=87.55 Aligned_cols=49 Identities=35% Similarity=0.709 Sum_probs=44.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhccc
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQASS 146 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~ 146 (207)
....||.+|..+||+||++||. +|.+||+ +|+|||+.||--| |+++...
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~-HVgtKt~EqCIl~----FL~LPie 326 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVAR-HVGTKTKEQCILH----FLQLPIE 326 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHH-HhCCCCHHHHHHH----HHcCCcc
Confidence 5669999999999999999999 9999997 9999999999998 6666554
No 15
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.25 E-value=1.2e-06 Score=87.06 Aligned_cols=65 Identities=22% Similarity=0.371 Sum_probs=52.4
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhccccccccCCCccc
Q 048263 88 HERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQASSDKKNRRTSLFD 157 (207)
Q Consensus 88 ~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~~k~krrsSl~d 157 (207)
..-.+.++||.+||.+|+.|+.+||..+|-+|-+ .|++|+..|||.+ |.+++....|+.| ++|.|
T Consensus 355 dPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~-~vPnRSdsQcR~R---Y~nvL~~s~K~~r-W~l~e 419 (939)
T KOG0049|consen 355 DPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQ-AVPNRSDSQCRER---YTNVLNRSAKVER-WTLVE 419 (939)
T ss_pred CccccCCCCCCHHHHHHHHHHHHhCccchhhHHH-hcCCccHHHHHHH---HHHHHHHhhccCc-eeecc
Confidence 4445789999999999999999999999999996 9999999999998 5555555555443 44443
No 16
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=98.17 E-value=2.4e-06 Score=82.59 Aligned_cols=51 Identities=29% Similarity=0.586 Sum_probs=45.7
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhccc
Q 048263 90 RKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQASS 146 (207)
Q Consensus 90 rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~ 146 (207)
-..+..||++|..+||+||++||. +|.+||. +|++||..||-.| |+++...
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~-hVg~ks~eqCI~k----FL~LPie 300 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD-DWNKVAD-HVGTKSQEQCILK----FLRLPIE 300 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc-cHHHHHh-ccCCCCHHHHHHH----HHhcCcc
Confidence 456789999999999999999999 9999996 9999999999998 7777554
No 17
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=98.06 E-value=1.5e-05 Score=75.06 Aligned_cols=54 Identities=39% Similarity=0.581 Sum_probs=47.4
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhcccc
Q 048263 90 RKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQASSD 147 (207)
Q Consensus 90 rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~~ 147 (207)
|-.-..|++||.+.|.+||+.||| |+..|.++-|.||+..+|-.+ ||++.+...
T Consensus 274 rd~l~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgElVey---YYlWKkSer 327 (445)
T KOG4329|consen 274 RDDLSGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGELVEY---YYLWKKSER 327 (445)
T ss_pred ccccccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHHHHH---HHHhhcCcc
Confidence 445568999999999999999999 999999999999999999886 777776653
No 18
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=2.1e-06 Score=76.91 Aligned_cols=77 Identities=44% Similarity=0.622 Sum_probs=71.9
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHH-----HHHHHhccccccccCCCcccCCCC
Q 048263 87 KHERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQ-----KYFLRQASSDKKNRRTSLFDMPLK 161 (207)
Q Consensus 87 ~~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQ-----KYf~rl~~~~k~krrsSl~d~~~~ 161 (207)
..+++.+.+|++.++.+++.++.++|+++|..|+++++..|++.|+.+|+| +|+.+.....+.+++.+++|++..
T Consensus 158 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~ 237 (335)
T KOG0724|consen 158 EELRRKGTPVTERERKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAFEKALARQKSGEEEKRRKSIEDITTA 237 (335)
T ss_pred hhhhhccchhHHHHHHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhccccccchhhhhhcc
Confidence 367788999999999999999999999999999999999999999999999 999999999999999999999866
Q ss_pred CC
Q 048263 162 ES 163 (207)
Q Consensus 162 ~~ 163 (207)
..
T Consensus 238 ~~ 239 (335)
T KOG0724|consen 238 SE 239 (335)
T ss_pred ch
Confidence 54
No 19
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.61 E-value=7.3e-05 Score=74.78 Aligned_cols=49 Identities=22% Similarity=0.474 Sum_probs=43.1
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHH
Q 048263 88 HERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQ 137 (207)
Q Consensus 88 ~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQ 137 (207)
..+.+.+.||-.||+.|+.+|++||+|+|.+||. +++.||.+|...+-.
T Consensus 407 ~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~-~Lp~~t~~q~~rrR~ 455 (939)
T KOG0049|consen 407 NRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAM-LLPKKTSRQLRRRRL 455 (939)
T ss_pred HHhhccCceeecchHHHHHHHHHHccchHHHHHH-HccccchhHHHHHHH
Confidence 4456789999999999999999999999999996 999999988766543
No 20
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.01 E-value=0.00059 Score=66.76 Aligned_cols=50 Identities=20% Similarity=0.472 Sum_probs=46.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHH
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFL 141 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~ 141 (207)
.+++.|+..||+.+-.|+.+||+..|..|++ .+.-+|+.||+.+|.+|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~s-ll~~kt~rqC~~rw~e~ld 54 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIAS-LLNRKTARQCKARWEEWLD 54 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHH-HHhhcchhHHHHHHHHHhC
Confidence 5689999999999999999999999999997 9999999999999998864
No 21
>PLN03162 golden-2 like transcription factor; Provisional
Probab=97.01 E-value=0.0027 Score=60.47 Aligned_cols=58 Identities=29% Similarity=0.356 Sum_probs=46.6
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCC--CCHHHHHhhh--cCCCCHHHHHHHHHHHHHHhccc
Q 048263 88 HERKRGKPWTEAEHRVFLEGLKLLGK--GDWKGISKNF--VTTRTPTQVASHAQKYFLRQASS 146 (207)
Q Consensus 88 ~~rk~~~~WTeEEh~~FL~gLkkyGk--GdWk~IAk~~--V~TRT~~QVrsHaQKYf~rl~~~ 146 (207)
..+|.+..||.|=|++|++||+++|. --=|.|-+ + |..=|..+|++|-|||.+.+...
T Consensus 232 g~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILe-lMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 232 GKKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILE-LMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCCCCcccCCHHHHHHHHHHHHHhCcCccchHHHHH-HcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 56788999999999999999999993 12344543 4 55789999999999998877644
No 22
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.55 E-value=0.0051 Score=44.52 Aligned_cols=52 Identities=23% Similarity=0.421 Sum_probs=35.8
Q ss_pred CCCCHHHHHHHHHHHHH------hCC-----C--CHHHHHhhhcC----CCCHHHHHHHHHHHHHHhccc
Q 048263 94 KPWTEAEHRVFLEGLKL------LGK-----G--DWKGISKNFVT----TRTPTQVASHAQKYFLRQASS 146 (207)
Q Consensus 94 ~~WTeEEh~~FL~gLkk------yGk-----G--dWk~IAk~~V~----TRT~~QVrsHaQKYf~rl~~~ 146 (207)
..||++|-..||+.+.. ++. + -|+.||. .+. .||+.||+..|..........
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~-~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~ 70 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAE-ELAEHGYNRTPEQCRNKWKNLKKKYKKI 70 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHH-HHHHHC----HHHHHHHHHHHHHHHHCS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHH-HHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 57999999999999888 221 1 5999996 543 799999999988765555444
No 23
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=96.22 E-value=0.0028 Score=61.85 Aligned_cols=58 Identities=17% Similarity=0.370 Sum_probs=50.0
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhcc
Q 048263 87 KHERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQAS 145 (207)
Q Consensus 87 ~~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~ 145 (207)
.+...+.+.|+.+||+.++.++++||..+|..||. .+..||+.||+.||..|...+..
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas-~~~~~~~kq~~~rw~~~lnp~lk 71 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVAS-LLISSTGKQSSNRWNNHLNPQLK 71 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHH-Hhcccccccccchhhhhhchhcc
Confidence 35667788999999999999999999999999997 66669999999999777655543
No 24
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=96.04 E-value=0.011 Score=56.46 Aligned_cols=46 Identities=24% Similarity=0.467 Sum_probs=43.3
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHH
Q 048263 88 HERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASH 135 (207)
Q Consensus 88 ~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsH 135 (207)
..++.-.+||.+|-++|..||.++|. |+..||. ++++|..+||+..
T Consensus 360 g~~~~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~-lfP~R~RkqIKaK 405 (507)
T COG5118 360 GKKKGALRWSKKEIEKFYKALSIWGT-DFSLISS-LFPNRERKQIKAK 405 (507)
T ss_pred cCCCCCCcccHHHHHHHHHHHHHhcc-hHHHHHH-hcCchhHHHHHHH
Confidence 77888999999999999999999999 9999995 9999999999864
No 25
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=95.96 E-value=0.0093 Score=59.24 Aligned_cols=49 Identities=24% Similarity=0.405 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHh
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl 143 (207)
.++.||+||++.|...+.++|. +|..|++ .-+|-|.-|+.+|..|..--
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~--~lgr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGK--ALGRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHH--HHccCcHHHHHHHHHhhccc
Confidence 6899999999999999999998 9999997 66789999999999885443
No 26
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=95.54 E-value=0.013 Score=57.41 Aligned_cols=52 Identities=25% Similarity=0.557 Sum_probs=44.5
Q ss_pred cccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhc
Q 048263 89 ERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQA 144 (207)
Q Consensus 89 ~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~ 144 (207)
=|.....|+.-|-.+|.+||+|||+ |+..|-++|++=++.+.+-.+ ||....
T Consensus 281 CRDemEEWSasEanLFEeALeKyGK-DFndIrqdfLPWKSl~sIvey---YYmwKt 332 (693)
T KOG3554|consen 281 CRDEMEEWSASEANLFEEALEKYGK-DFNDIRQDFLPWKSLTSIVEY---YYMWKT 332 (693)
T ss_pred ehhhhhhccchhhHHHHHHHHHhcc-cHHHHHHhhcchHHHHHHHHH---HHHHhh
Confidence 3556789999999999999999999 999999999999998888765 555443
No 27
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=95.45 E-value=0.02 Score=57.28 Aligned_cols=50 Identities=26% Similarity=0.461 Sum_probs=40.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHH---------hhhcCCCCHHHHHHHHHHHHHHh
Q 048263 93 GKPWTEAEHRVFLEGLKLLGKGDWKGIS---------KNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGkGdWk~IA---------k~~V~TRT~~QVrsHaQKYf~rl 143 (207)
+..||-.|+..|..||+++|+ |+..|- ..-+..+|.-||+.||-+-..++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m 146 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRM 146 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHH
Confidence 679999999999999999999 999991 11366789999998865444443
No 28
>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=95.43 E-value=0.012 Score=32.97 Aligned_cols=18 Identities=50% Similarity=1.128 Sum_probs=16.6
Q ss_pred CccCCCCCCCCCCCCCCC
Q 048263 2 RKCSHCGHNGHNSRTCHA 19 (207)
Q Consensus 2 r~cs~cg~~ghnsrtc~~ 19 (207)
|+|-.||..||-++.||.
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 29
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=95.38 E-value=0.03 Score=57.13 Aligned_cols=49 Identities=24% Similarity=0.426 Sum_probs=42.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhc
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQA 144 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~ 144 (207)
.....||..|-.+|-.||-.|-| |+-.|++ .|+++|..||-.+ ||.+.+
T Consensus 617 ~gSd~WTp~E~~lF~kA~y~~~K-DF~~v~k-m~~~KtVaqCVey---YYtWKK 665 (907)
T KOG4167|consen 617 AGSDKWTPLERKLFNKALYTYSK-DFIFVQK-MVKSKTVAQCVEY---YYTWKK 665 (907)
T ss_pred cCcccccHHHHHHHHHHHHHhcc-cHHHHHH-HhccccHHHHHHH---HHHHHH
Confidence 45678999999999999999998 9999997 9999999999886 555443
No 30
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=95.14 E-value=0.028 Score=55.99 Aligned_cols=52 Identities=19% Similarity=0.287 Sum_probs=43.4
Q ss_pred cCCCCCCHHHHHHHHHHHH-------Hh-------CC-----------CCHHHHHhhhcCCCCHHHHHHHHHHHHHHh
Q 048263 91 KRGKPWTEAEHRVFLEGLK-------LL-------GK-----------GDWKGISKNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLk-------ky-------Gk-----------GdWk~IAk~~V~TRT~~QVrsHaQKYf~rl 143 (207)
.++.+||.||+++||+.|+ +| |. =+|..|++ .++||+..||+.+|++...+-
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse-~~~TR~~~qCr~Kw~kl~~~~ 510 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSE-MLGTRSRIQCRYKWYKLTTSP 510 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhH-hhcCCCcchHHHHHHHHHhhH
Confidence 5789999999999999996 34 11 18999996 999999999999988876543
No 31
>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=95.05 E-value=0.048 Score=39.58 Aligned_cols=51 Identities=20% Similarity=0.234 Sum_probs=32.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCC--------CCHHHHHhhhcCCCCHHHHHHHHHHHHHHh
Q 048263 93 GKPWTEAEHRVFLEGLKLLGK--------GDWKGISKNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGk--------GdWk~IAk~~V~TRT~~QVrsHaQKYf~rl 143 (207)
+.++|+|||..++.-|+.+.. .-|+++++.++...|-.--++||.|.+...
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 478999999999999976532 259999986666889999999977765543
No 32
>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=94.93 E-value=0.061 Score=43.16 Aligned_cols=51 Identities=27% Similarity=0.556 Sum_probs=40.5
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCC---CCHHHHHhh-----------hcCCCCHHHHHHHHHHHH
Q 048263 90 RKRGKPWTEAEHRVFLEGLKLLGK---GDWKGISKN-----------FVTTRTPTQVASHAQKYF 140 (207)
Q Consensus 90 rk~~~~WTeEEh~~FL~gLkkyGk---GdWk~IAk~-----------~V~TRT~~QVrsHaQKYf 140 (207)
..++..||+|||+-+|-.+.+||. |.|..|-.. |+.+||+.++..|..--+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi 110 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLI 110 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHH
Confidence 445789999999999999999999 999999642 466999999999987443
No 33
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=94.93 E-value=0.19 Score=48.17 Aligned_cols=55 Identities=29% Similarity=0.414 Sum_probs=44.6
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCC---------------CCHHHHHhhhcC-----CCCHHHHHHHHHHHHHHhcc
Q 048263 90 RKRGKPWTEAEHRVFLEGLKLLGK---------------GDWKGISKNFVT-----TRTPTQVASHAQKYFLRQAS 145 (207)
Q Consensus 90 rk~~~~WTeEEh~~FL~gLkkyGk---------------GdWk~IAk~~V~-----TRT~~QVrsHaQKYf~rl~~ 145 (207)
+..-+.|+++=|+.|+|||..|-. |+=..||+ |++ |||.+||-+|-|-.=++..+
T Consensus 73 ~daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIar-YIKlrtgktRTrKQVSSHIQVlarrk~r 147 (455)
T KOG3841|consen 73 RDAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIAR-YIKLRTGKTRTRKQVSSHIQVLARRKLR 147 (455)
T ss_pred cccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHH-HHHHhcCCchhHHHHHHHHHHHHHHHHH
Confidence 356789999999999999998752 57789998 986 89999999999865444443
No 34
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=94.74 E-value=0.016 Score=39.01 Aligned_cols=19 Identities=37% Similarity=0.870 Sum_probs=16.8
Q ss_pred CccCCCCCCCCC--CCCCCCC
Q 048263 2 RKCSHCGHNGHN--SRTCHAK 20 (207)
Q Consensus 2 r~cs~cg~~ghn--srtc~~~ 20 (207)
+||..||.+||. +++||-.
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~ 22 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMY 22 (40)
T ss_pred ccccccccccccccCccCCCC
Confidence 799999999995 5999976
No 35
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=93.93 E-value=0.085 Score=51.72 Aligned_cols=53 Identities=25% Similarity=0.404 Sum_probs=48.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhcc
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQAS 145 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~ 145 (207)
.+...|++||++.++..-..+|. .|..||. +++.||..||..+|..-+.....
T Consensus 70 lk~~~~~~eed~~li~l~~~~~~-~wstia~-~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 70 LKKKNWSEEEDEQLIDLDKELGT-QWSTIAD-YKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred cccccccHHHHHHHHHHHHhcCc-hhhhhcc-ccCccchHHHHHHHHHHhhhhhc
Confidence 46789999999999999999999 8999996 99999999999998888777665
No 36
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.89 E-value=0.098 Score=54.96 Aligned_cols=50 Identities=20% Similarity=0.421 Sum_probs=44.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhcc
Q 048263 95 PWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQAS 145 (207)
Q Consensus 95 ~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~ 145 (207)
.||..|=..|+.|.++||..+...||. .|.++|+.+|+.+++.|+.|...
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~-~~~~k~~~ev~~y~~~f~~~~~~ 875 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIAS-EMEGKTEEEVERYAKVFWERYKE 875 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHH-HhcCCCHHHHHHHHHHHHHhhhh
Confidence 599999999999999999999999996 99999999999888887766443
No 37
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.25 E-value=0.23 Score=35.48 Aligned_cols=51 Identities=16% Similarity=0.269 Sum_probs=40.0
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC-----------CCHHHHHhhh----cCCCCHHHHHHHHHHHHHHh
Q 048263 93 GKPWTEAEHRVFLEGLKLL-----GK-----------GDWKGISKNF----VTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkky-----Gk-----------GdWk~IAk~~----V~TRT~~QVrsHaQKYf~rl 143 (207)
...||++|.+.|++.|++| |+ .-|..|+..| .+.||..|++..|+++-...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 4679999999999999997 32 3799998644 23799999999888775443
No 38
>smart00426 TEA TEA domain.
Probab=93.06 E-value=0.12 Score=38.32 Aligned_cols=44 Identities=30% Similarity=0.465 Sum_probs=32.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHH---------------HHHhhhcC-----CCCHHHHHHHHH
Q 048263 93 GKPWTEAEHRVFLEGLKLLGKGDWK---------------GISKNFVT-----TRTPTQVASHAQ 137 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGkGdWk---------------~IAk~~V~-----TRT~~QVrsHaQ 137 (207)
..-|.++=|..|++||+.|-+-.++ .|+. |+- .||.+||.||-|
T Consensus 3 ~~vWp~~lE~Af~~aL~~~~~~g~~kik~~~r~k~~gRNelIs~-YI~~~tGk~Rt~KQVsShIQ 66 (68)
T smart00426 3 EGVWSPDIEQAFQEALAIYPPCGRRKIILSDEGKMYGRNELIAR-YIKLRTGKTRTRKQVSSHIQ 66 (68)
T ss_pred CCcCcHHHHHHHHHHHHHcCccCcccchhhhcCcccchhHHHHH-HHHHHhCCccchhhhcchhe
Confidence 4679999999999999998753222 3442 433 588888888866
No 39
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=93.04 E-value=0.034 Score=37.68 Aligned_cols=17 Identities=47% Similarity=1.155 Sum_probs=15.8
Q ss_pred CccCCCCCCCCCCCCCC
Q 048263 2 RKCSHCGHNGHNSRTCH 18 (207)
Q Consensus 2 r~cs~cg~~ghnsrtc~ 18 (207)
+.|++||..||..+.|+
T Consensus 32 ~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECP 48 (49)
T ss_pred hhhcCCCCcCcCHhHcC
Confidence 57999999999999997
No 40
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=93.02 E-value=0.024 Score=50.96 Aligned_cols=52 Identities=21% Similarity=0.158 Sum_probs=46.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhccc
Q 048263 93 GKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQASS 146 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~ 146 (207)
...||++||..|.++|..| +-.|..|-+ |++.++..|.+.|+|+||-.+...
T Consensus 53 ~~~~t~~~~~~~~~~l~~~-~~~~~~~~~-~~~~~~~v~~~~~~~~~~p~~~~~ 104 (335)
T KOG0724|consen 53 EPRRTPDSWDKFAEALPLE-KRLEDKIEE-YIGLVFDVNIRESGQKPFPKYGKS 104 (335)
T ss_pred ccccchhhhhHHHhcCccc-cccchhHHh-hhhhHHHHhhhhccCCCccccCcc
Confidence 3449999999999999999 559999995 999999999999999999888664
No 41
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=92.02 E-value=0.15 Score=50.43 Aligned_cols=51 Identities=20% Similarity=0.315 Sum_probs=44.1
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHh
Q 048263 90 RKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 90 rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl 143 (207)
..+..-|+.|||+++|.+.+.+-. -|+-|+. +-.||..||-.|+++-+-..
T Consensus 56 ~i~~tews~eederlLhlakl~p~-qwrtIa~--i~gr~~~qc~eRy~~ll~~~ 106 (617)
T KOG0050|consen 56 AIKKTEWSREEDERLLHLAKLEPT-QWRTIAD--IMGRTSQQCLERYNNLLDVY 106 (617)
T ss_pred HHhhhhhhhhHHHHHHHHHHhcCC-ccchHHH--HhhhhHHHHHHHHHHHHHHH
Confidence 346789999999999999999998 9999996 77899999999988765433
No 42
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.79 E-value=0.32 Score=44.11 Aligned_cols=58 Identities=19% Similarity=0.378 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHHHHHH----hCCC-----CHHHHHhhhc---CCCCHHHHHHHHHHHHHHhccccccc
Q 048263 93 GKPWTEAEHRVFLEGLKL----LGKG-----DWKGISKNFV---TTRTPTQVASHAQKYFLRQASSDKKN 150 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkk----yGkG-----dWk~IAk~~V---~TRT~~QVrsHaQKYf~rl~~~~k~k 150 (207)
...|+.||-..||++..+ |..+ .|..||+.+- --||+.||+..+.+...+.++.+.++
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~ 123 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKK 123 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhccc
Confidence 589999999999998876 3334 5999997332 25999999999988777766654433
No 43
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=91.35 E-value=0.33 Score=47.50 Aligned_cols=45 Identities=18% Similarity=0.403 Sum_probs=39.4
Q ss_pred cccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHH
Q 048263 89 ERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASH 135 (207)
Q Consensus 89 ~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsH 135 (207)
..-....||.||-.+|-++.+.||+ ++++|-+ .++.|+...+..+
T Consensus 183 r~~~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq-~LP~rsLaSlvqy 227 (534)
T KOG1194|consen 183 RTEFPDEWTAEDIVLFEQAFQFFGK-DFHKIRQ-ALPHRSLASLVQY 227 (534)
T ss_pred cCCCcccchHHHHHHHHHHHHHhcc-cHHHHHH-HccCccHHHHHHH
Confidence 3345678999999999999999999 9999997 9999998887654
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=91.06 E-value=0.52 Score=34.43 Aligned_cols=45 Identities=27% Similarity=0.485 Sum_probs=33.0
Q ss_pred CCCHHHHHHHHHHHHHh---C----CC-----CHHHHHhhhc----CCCCHHHHHHHHHHH
Q 048263 95 PWTEAEHRVFLEGLKLL---G----KG-----DWKGISKNFV----TTRTPTQVASHAQKY 139 (207)
Q Consensus 95 ~WTeEEh~~FL~gLkky---G----kG-----dWk~IAk~~V----~TRT~~QVrsHaQKY 139 (207)
.||+++++.||+.+... | .+ .|..|++.|- ...|..||++|+...
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 49999999999998664 2 22 5888876332 246889999997654
No 45
>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=89.60 E-value=0.39 Score=46.08 Aligned_cols=49 Identities=31% Similarity=0.411 Sum_probs=33.1
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCC-------------CCHHHHHhhhcC-----CCCHHHHHHHHHHH
Q 048263 90 RKRGKPWTEAEHRVFLEGLKLLGK-------------GDWKGISKNFVT-----TRTPTQVASHAQKY 139 (207)
Q Consensus 90 rk~~~~WTeEEh~~FL~gLkkyGk-------------GdWk~IAk~~V~-----TRT~~QVrsHaQKY 139 (207)
....+.|+++=|..|++||..|-+ |+=+.|++ ||. +||.+||.+|-|-.
T Consensus 46 ~~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~-yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 46 GDGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISD-YIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GGGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHH-HHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHH-HHHHHhCcccchhHHHHHHHHH
Confidence 456789999999999999999764 34455674 665 69999999999955
No 46
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=88.92 E-value=0.48 Score=40.36 Aligned_cols=52 Identities=19% Similarity=0.323 Sum_probs=42.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC-C-----CHHHHHhhhcCCCCHHHHHHHHHHHHHHhcc
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGK-G-----DWKGISKNFVTTRTPTQVASHAQKYFLRQAS 145 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGk-G-----dWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~ 145 (207)
+...||+|||.+|-+.|-+|=. | -+..|++ --+||+.-|.-||+.|..++..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~--~L~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGR--ALNRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHH--HHcccHHHhcchHHHHHHHHHH
Confidence 4578999999999999988743 2 6777775 5689999999999999876654
No 47
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=88.91 E-value=0.92 Score=47.93 Aligned_cols=52 Identities=29% Similarity=0.510 Sum_probs=43.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHHHh-----------hhcCCCCHHHHHHHHHHHHHHh
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKGDWKGISK-----------NFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk-----------~~V~TRT~~QVrsHaQKYf~rl 143 (207)
++..||+|||+.+|-.+.+||.|+|..|-. -|+.+||+.++..|..-.+.-+
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~ 987 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLI 987 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHH
Confidence 456799999999999999999999999943 2467999999999987554444
No 48
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=88.19 E-value=0.59 Score=40.05 Aligned_cols=51 Identities=14% Similarity=0.189 Sum_probs=38.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCC------CHHHHHhhhcCCCCHHHHHHHHHHHHHHhc
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKG------DWKGISKNFVTTRTPTQVASHAQKYFLRQA 144 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkG------dWk~IAk~~V~TRT~~QVrsHaQKYf~rl~ 144 (207)
+...||+||+.+|-+.+-.|++- -+..+++ .-.||+.+|..+|..+..++.
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~--~L~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGD--ALKRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHH--HHhhhHHHHHhHHHHHHHHHH
Confidence 46789999999998888888863 3444443 457999999999977765443
No 49
>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=86.79 E-value=2 Score=36.07 Aligned_cols=55 Identities=13% Similarity=0.298 Sum_probs=48.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCC--CHHHHHhhhcCCCCHHHHHHHHHHHHHHhcccc
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKG--DWKGISKNFVTTRTPTQVASHAQKYFLRQASSD 147 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkG--dWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~~ 147 (207)
..-.++..+...||.+|..||-| +|+..-. -+..+|..+++.++--|+.++....
T Consensus 37 ~VlGFn~rQR~~Fln~vMR~G~~~f~~~w~~~-~Lr~Ks~~ei~aY~~LFm~HL~E~~ 93 (145)
T PF06461_consen 37 EVLGFNPRQRKAFLNAVMRYGMGAFDWKWFVP-RLRGKSEKEIRAYGSLFMRHLCEPG 93 (145)
T ss_pred EEeccCHHHHHHHHHHHHHHCcCcccchHHhh-hhccccHHHHHHHHHHHHHHhcCCC
Confidence 45678899999999999999998 9999986 8999999999999998888887654
No 50
>smart00343 ZnF_C2HC zinc finger.
Probab=86.68 E-value=0.37 Score=28.37 Aligned_cols=18 Identities=44% Similarity=1.082 Sum_probs=15.9
Q ss_pred ccCCCCCCCCCCCCCCCC
Q 048263 3 KCSHCGHNGHNSRTCHAK 20 (207)
Q Consensus 3 ~cs~cg~~ghnsrtc~~~ 20 (207)
+|..||..||.++.|+..
T Consensus 1 ~C~~CG~~GH~~~~C~~~ 18 (26)
T smart00343 1 KCYNCGKEGHIARDCPKX 18 (26)
T ss_pred CCccCCCCCcchhhCCcc
Confidence 599999999999999844
No 51
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=78.33 E-value=6.1 Score=30.47 Aligned_cols=43 Identities=28% Similarity=0.497 Sum_probs=31.0
Q ss_pred CCCCCHHHHHHHHHHHHHh----CCC---CHHHHHhhhcCCC-----CHHHHHHHH
Q 048263 93 GKPWTEAEHRVFLEGLKLL----GKG---DWKGISKNFVTTR-----TPTQVASHA 136 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkky----GkG---dWk~IAk~~V~TR-----T~~QVrsHa 136 (207)
..-||+|+|..+|+||-.| |.. ||...-. +|... |..|+.+-.
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~-~vk~~l~~~~s~~Ql~~Ki 58 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYD-FVKGSLSFDVSKNQLYDKI 58 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHH-HHHHHccCCCCHHHHHHHH
Confidence 4569999999999999988 642 7766663 55433 667776543
No 52
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=76.36 E-value=3.4 Score=36.20 Aligned_cols=50 Identities=10% Similarity=0.100 Sum_probs=37.9
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhC--CCCHHHHH----hhhcCCCCHHHHHHHHHHH
Q 048263 90 RKRGKPWTEAEHRVFLEGLKLLG--KGDWKGIS----KNFVTTRTPTQVASHAQKY 139 (207)
Q Consensus 90 rk~~~~WTeEEh~~FL~gLkkyG--kGdWk~IA----k~~V~TRT~~QVrsHaQKY 139 (207)
...+.+||.+|+++|........ ...|++|= ..|-.+||+.+...||+-.
T Consensus 70 iq~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 70 IQSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred ccccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 34679999999999998765543 23677772 2367789999999999944
No 53
>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=75.20 E-value=1.7 Score=37.46 Aligned_cols=29 Identities=24% Similarity=0.525 Sum_probs=26.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHHH
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKGDWKGIS 120 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkGdWk~IA 120 (207)
....|-.+-|..||.||-+||.|.|..|.
T Consensus 2 ~~~iw~r~hdywll~gi~~hgy~rwqdi~ 30 (173)
T PF08074_consen 2 EYEIWHRRHDYWLLAGIVKHGYGRWQDIQ 30 (173)
T ss_pred hhhhhhhhhhHHHHhHHhhccchhHHHHh
Confidence 35679999999999999999999999996
No 54
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=74.39 E-value=1.9 Score=46.59 Aligned_cols=28 Identities=25% Similarity=0.592 Sum_probs=26.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHH
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKGDWKGI 119 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkGdWk~I 119 (207)
....|..||+..||.||-+||.|+|..|
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~I 1159 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAI 1159 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHh
Confidence 6788999999999999999999999998
No 55
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=70.60 E-value=4.5 Score=40.62 Aligned_cols=45 Identities=24% Similarity=0.456 Sum_probs=41.7
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHH
Q 048263 88 HERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVAS 134 (207)
Q Consensus 88 ~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrs 134 (207)
..+.....||.+|=++|-.++..+|. +..-|+ +..+.|+..||+.
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis-~l~p~R~rk~iK~ 448 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLIS-NLFPLRDRKQIKA 448 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-cccccc-cccccccHHHHHH
Confidence 56677899999999999999999999 999999 4999999999986
No 56
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=68.40 E-value=2.7 Score=36.70 Aligned_cols=16 Identities=56% Similarity=1.294 Sum_probs=14.9
Q ss_pred ccCCCCCCCCCCCCCC
Q 048263 3 KCSHCGHNGHNSRTCH 18 (207)
Q Consensus 3 ~cs~cg~~ghnsrtc~ 18 (207)
+|.+||-+||-+|-|+
T Consensus 99 ~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 99 KCYNCGETGHLSRDCN 114 (190)
T ss_pred ccccccccCccccccC
Confidence 7999999999999994
No 57
>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=67.58 E-value=14 Score=30.64 Aligned_cols=48 Identities=23% Similarity=0.348 Sum_probs=39.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhc---CCCCHHHHHHHHHHH
Q 048263 91 KRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFV---TTRTPTQVASHAQKY 139 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V---~TRT~~QVrsHaQKY 139 (207)
+...+=|++|...+...|++||. |++.++++.= --.|+.|++....+|
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 56778899999999999999998 9999997431 137999999887776
No 58
>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=66.05 E-value=21 Score=33.75 Aligned_cols=49 Identities=20% Similarity=0.308 Sum_probs=38.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHh-CC--CCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 048263 91 KRGKPWTEAEHRVFLEGLKLL-GK--GDWKGISKNFVTTRTPTQVASHAQKYF 140 (207)
Q Consensus 91 k~~~~WTeEEh~~FL~gLkky-Gk--GdWk~IAk~~V~TRT~~QVrsHaQKYf 140 (207)
.....||..|.+.+|.+|+.. |. =|-..|++ .+.+|+..||++.-|+.-
T Consensus 19 ~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~-~l~~Rs~aEI~~fl~~LK 70 (344)
T PF11035_consen 19 TGPAAWSAREKRQLLRLLQARRGQPEPDAAELAK-ELPGRSEAEIRDFLQQLK 70 (344)
T ss_pred CCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHh-hccCcCHHHHHHHHHHHH
Confidence 345799999999999999976 32 16667886 899999999998766543
No 59
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=63.89 E-value=10 Score=39.86 Aligned_cols=52 Identities=23% Similarity=0.387 Sum_probs=44.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhccc
Q 048263 93 GKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQASS 146 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~ 146 (207)
-..||+.+=..|+.|.++||.+|-..||+ -+.. |+.+|...+.-||-++...
T Consensus 795 ft~w~k~df~~fi~a~eKygr~di~~ia~-~~e~-~~eev~~y~rvfwer~~el 846 (971)
T KOG0385|consen 795 FTNWTKRDFNQFIKANEKYGRDDIENIAA-EVEG-TPEEVGEYARVFWERLEEL 846 (971)
T ss_pred ccchhhhhHHHHHHHhhccCcchhhhhHH-hhcC-CHHHHHHHHHHHHHHHHHh
Confidence 35699999999999999999999999997 5666 9999999888887776543
No 60
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=59.36 E-value=5.9 Score=27.28 Aligned_cols=20 Identities=45% Similarity=1.095 Sum_probs=15.7
Q ss_pred CCccCCCCC-CCCCCCCCCCC
Q 048263 1 MRKCSHCGH-NGHNSRTCHAK 20 (207)
Q Consensus 1 ~r~cs~cg~-~ghnsrtc~~~ 20 (207)
.|||.+||- ||+-+--|.+.
T Consensus 11 irkCp~CGt~NG~R~~~CKN~ 31 (44)
T PF14952_consen 11 IRKCPKCGTYNGTRGLSCKNK 31 (44)
T ss_pred cccCCcCcCccCcccccccCC
Confidence 389999995 68777668776
No 61
>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=59.32 E-value=25 Score=25.70 Aligned_cols=28 Identities=21% Similarity=0.510 Sum_probs=20.6
Q ss_pred CCHHHHHhhhcCCCC-----HHHHHHHHHHHHHH
Q 048263 114 GDWKGISKNFVTTRT-----PTQVASHAQKYFLR 142 (207)
Q Consensus 114 GdWk~IAk~~V~TRT-----~~QVrsHaQKYf~r 142 (207)
+.|..|++ .++--. ..+++.+|.+|+..
T Consensus 58 ~~W~~va~-~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 58 KKWREVAR-KLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp TTHHHHHH-HTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred chHHHHHH-HhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 58999997 554322 37899999998764
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=58.90 E-value=26 Score=22.99 Aligned_cols=38 Identities=13% Similarity=0.184 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHH
Q 048263 99 AEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQK 138 (207)
Q Consensus 99 EEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQK 138 (207)
+=|..+|..|+.-|.-.|..||+ .++ =++..|..+.++
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 55789999999999999999997 554 478888887664
No 63
>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=57.37 E-value=40 Score=22.05 Aligned_cols=39 Identities=10% Similarity=0.113 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 048263 99 AEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYF 140 (207)
Q Consensus 99 EEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf 140 (207)
++++..+.-.-..|. .|++||+ .-+.|+..|+.+.++=.
T Consensus 13 ~~~r~i~~l~~~~g~-s~~eIa~--~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 13 ERQREIFLLRYFQGM-SYAEIAE--ILGISESTVKRRLRRAR 51 (54)
T ss_dssp HHHHHHHHHHHTS----HHHHHH--HCTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCc-CHHHHHH--HHCcCHHHHHHHHHHHH
Confidence 444555555556666 9999996 45689999988765543
No 64
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=56.50 E-value=25 Score=34.90 Aligned_cols=65 Identities=9% Similarity=-0.002 Sum_probs=49.1
Q ss_pred CCccCCCCCCccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHh
Q 048263 76 EGYLSDGPIHTKHERKRGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 76 ~GY~sd~~~~~~~~rk~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl 143 (207)
+|-+..+.+..+-. +....||.+|..+++++|++||. +..-|+- -|+..+--|+.+-...|-.|+
T Consensus 353 e~~Ie~dkipes~c-~~n~~~~T~~~la~v~~I~~~~~-~~~pl~w-rik~t~cmee~e~l~~~~Rr~ 417 (534)
T KOG1194|consen 353 EQSIEADKIPESTC-RMNRCFDTPAALALIDNIKRKHH-MCVPLVW-RVKQTKCMEENEILNEEARRQ 417 (534)
T ss_pred hcccccCCCCchhh-hhccccCcHHHHHHHHHHHHhcc-Ccchhhh-HhcCcchhhHHHHHHHHHHHH
Confidence 45555444443333 33489999999999999999999 8888884 899999999998776665554
No 65
>PHA00442 host recBCD nuclease inhibitor
Probab=55.38 E-value=13 Score=26.88 Aligned_cols=25 Identities=24% Similarity=0.565 Sum_probs=21.7
Q ss_pred CHHHHHHHHHHHHHhCCCCHHHHHh
Q 048263 97 TEAEHRVFLEGLKLLGKGDWKGISK 121 (207)
Q Consensus 97 TeEEh~~FL~gLkkyGkGdWk~IAk 121 (207)
+-|-+..||++|+..|--||.++..
T Consensus 24 sLek~~~~L~~Lea~GVDNW~Gy~e 48 (59)
T PHA00442 24 SLEKDNEFLKALRACGVDNWDGYMD 48 (59)
T ss_pred HHHHhhHHHHHHHHcCCcchhhHHH
Confidence 3467788999999999999999974
No 66
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=53.42 E-value=26 Score=28.13 Aligned_cols=40 Identities=18% Similarity=0.233 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 048263 98 EAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKY 139 (207)
Q Consensus 98 eEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKY 139 (207)
++.|.++|..|++-|.-.|..||+ -+ +-++..|+.+.++.
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~-~l-glS~~tV~~Ri~rL 47 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAK-QF-GVSPGTIHVRVEKM 47 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHH-HH-CcCHHHHHHHHHHH
Confidence 467999999999999999999997 44 56888999886654
No 67
>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=52.74 E-value=7.3 Score=29.09 Aligned_cols=36 Identities=14% Similarity=0.361 Sum_probs=17.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHH
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASH 135 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsH 135 (207)
..+-||+|+|+.|+.+ +...|.+ .+.......|+.|
T Consensus 46 ~~GiWT~eDD~~L~~~-------~~~~~~~-L~~khG~~~i~~R 81 (87)
T PF11626_consen 46 MPGIWTPEDDEMLRSG-------DKDDIER-LIKKHGEERIERR 81 (87)
T ss_dssp -TT---HHHHHHHTS---------HHHHHH-HHHHH-HHHHHHH
T ss_pred CCCCcCHHHHHHHHcC-------CHHHHHH-HHHHhCHHHHHHH
Confidence 4688999999999643 4555553 4433445555554
No 68
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=52.70 E-value=40 Score=24.93 Aligned_cols=30 Identities=20% Similarity=0.462 Sum_probs=22.3
Q ss_pred CCHHHHHhhhcCCC-----CHHHHHHHHHHHHHHhc
Q 048263 114 GDWKGISKNFVTTR-----TPTQVASHAQKYFLRQA 144 (207)
Q Consensus 114 GdWk~IAk~~V~TR-----T~~QVrsHaQKYf~rl~ 144 (207)
..|..|++ .++-. ...+++.+|++|+....
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 58999997 66533 36888999999976543
No 69
>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=52.66 E-value=7.2 Score=23.66 Aligned_cols=10 Identities=40% Similarity=1.155 Sum_probs=7.7
Q ss_pred CCccCCCCCC
Q 048263 1 MRKCSHCGHN 10 (207)
Q Consensus 1 ~r~cs~cg~~ 10 (207)
.+.|.|||+.
T Consensus 14 ~~~Cp~CG~~ 23 (26)
T PF10571_consen 14 AKFCPHCGYD 23 (26)
T ss_pred cCcCCCCCCC
Confidence 3689999973
No 70
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=45.10 E-value=39 Score=27.55 Aligned_cols=40 Identities=23% Similarity=0.222 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 048263 98 EAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKY 139 (207)
Q Consensus 98 eEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKY 139 (207)
+|-|.++|.+|++-|+-.|..||+ -+ +-++..|+.|.++.
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~-~l-glS~~tv~~Ri~rL 52 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSK-RV-GLSPTPCLERVRRL 52 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHH-HH-CcCHHHHHHHHHHH
Confidence 677999999999999999999997 44 56888888886654
No 71
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=38.66 E-value=70 Score=23.58 Aligned_cols=40 Identities=20% Similarity=0.258 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 048263 98 EAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKY 139 (207)
Q Consensus 98 eEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKY 139 (207)
++.|..+|..|+..|.-.|..||+ .+ +-++..|+.+.++.
T Consensus 2 d~~D~~il~~L~~~~~~~~~~la~-~l-~~s~~tv~~~l~~L 41 (108)
T smart00344 2 DEIDRKILEELQKDARISLAELAK-KV-GLSPSTVHNRVKRL 41 (108)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHH-HH-CcCHHHHHHHHHHH
Confidence 367899999999999889999997 44 66788888875544
No 72
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=38.24 E-value=22 Score=28.45 Aligned_cols=18 Identities=44% Similarity=1.112 Sum_probs=12.1
Q ss_pred ccCCCCCCCCCCCCCCCC
Q 048263 3 KCSHCGHNGHNSRTCHAK 20 (207)
Q Consensus 3 ~cs~cg~~ghnsrtc~~~ 20 (207)
.|..||..||.++.|+..
T Consensus 79 ~C~~Cg~~GH~~~~C~~~ 96 (148)
T PTZ00368 79 SCYNCGQTGHISRECPNR 96 (148)
T ss_pred ccCcCCCCCcccccCCCc
Confidence 466677777777777664
No 73
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=37.98 E-value=17 Score=31.89 Aligned_cols=17 Identities=47% Similarity=1.075 Sum_probs=16.0
Q ss_pred CccCCCCCCCCCCCCCC
Q 048263 2 RKCSHCGHNGHNSRTCH 18 (207)
Q Consensus 2 r~cs~cg~~ghnsrtc~ 18 (207)
++|--||.+||-.|-||
T Consensus 61 ~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 61 PVCFNCGQNGHLRRDCP 77 (190)
T ss_pred cccchhcccCcccccCC
Confidence 57999999999999999
No 74
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=37.38 E-value=23 Score=28.36 Aligned_cols=18 Identities=44% Similarity=1.045 Sum_probs=11.6
Q ss_pred ccCCCCCCCCCCCCCCCC
Q 048263 3 KCSHCGHNGHNSRTCHAK 20 (207)
Q Consensus 3 ~cs~cg~~ghnsrtc~~~ 20 (207)
.|..||..||-++.||..
T Consensus 54 ~C~~Cg~~GH~~~~Cp~~ 71 (148)
T PTZ00368 54 SCYNCGKTGHLSRECPEA 71 (148)
T ss_pred ccCCCCCcCcCcccCCCc
Confidence 466666666666666654
No 75
>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=36.79 E-value=42 Score=22.74 Aligned_cols=41 Identities=24% Similarity=0.287 Sum_probs=31.7
Q ss_pred HHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhc
Q 048263 102 RVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQA 144 (207)
Q Consensus 102 ~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~ 144 (207)
++|-.|++..|..++.-|. .+.+|++.|.+.=.+.|.....
T Consensus 4 ~~l~~a~~~~g~de~~li~--Il~~rs~~ql~~i~~~Y~~~~g 44 (66)
T PF00191_consen 4 ELLHAALKGWGTDEDVLIE--ILCTRSPAQLRAIKQAYKKKYG 44 (66)
T ss_dssp HHHHHHHSSSSSTHHHHHH--HHHHSTHHHHHHHHHHHHHHHS
T ss_pred HHHHHHccCCCCChhHhhh--HHhhhcccccceeehhhhhhhH
Confidence 4788899999975555555 7889999999988888865543
No 76
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=35.78 E-value=17 Score=23.11 Aligned_cols=10 Identities=70% Similarity=1.574 Sum_probs=8.3
Q ss_pred CccCCCCCCC
Q 048263 2 RKCSHCGHNG 11 (207)
Q Consensus 2 r~cs~cg~~g 11 (207)
++|+.||++|
T Consensus 4 ~~C~~C~~~~ 13 (33)
T PF08792_consen 4 KKCSKCGGNG 13 (33)
T ss_pred eEcCCCCCCe
Confidence 5799999886
No 77
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=34.58 E-value=22 Score=35.52 Aligned_cols=19 Identities=37% Similarity=0.782 Sum_probs=14.1
Q ss_pred CccCCCCCCCCCCCCCCCC
Q 048263 2 RKCSHCGHNGHNSRTCHAK 20 (207)
Q Consensus 2 r~cs~cg~~ghnsrtc~~~ 20 (207)
+.|-+||-.||+++-|...
T Consensus 286 n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 286 NVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccCCcccccccCCCc
Confidence 3677778788888877765
No 78
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=32.43 E-value=44 Score=32.60 Aligned_cols=44 Identities=14% Similarity=0.253 Sum_probs=37.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhh----cCC-CCHHHHHHHHH
Q 048263 93 GKPWTEAEHRVFLEGLKLLGKGDWKGISKNF----VTT-RTPTQVASHAQ 137 (207)
Q Consensus 93 ~~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~----V~T-RT~~QVrsHaQ 137 (207)
...||.||-+-|.+..++|.- .|=-||.-| .++ ||....+.++-
T Consensus 130 dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY 178 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYY 178 (445)
T ss_pred cccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHH
Confidence 477999999999999999998 898888653 555 99999998853
No 79
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=32.35 E-value=28 Score=23.44 Aligned_cols=18 Identities=33% Similarity=0.959 Sum_probs=16.6
Q ss_pred CccCCCCCCCCCCCCCCC
Q 048263 2 RKCSHCGHNGHNSRTCHA 19 (207)
Q Consensus 2 r~cs~cg~~ghnsrtc~~ 19 (207)
..|-.|+..||=..-|++
T Consensus 5 ~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 5 VRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CcCcccCCCCcchhhCCC
Confidence 579999999999999994
No 80
>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=31.81 E-value=18 Score=23.78 Aligned_cols=8 Identities=63% Similarity=1.556 Sum_probs=4.0
Q ss_pred ccCCCCCC
Q 048263 3 KCSHCGHN 10 (207)
Q Consensus 3 ~cs~cg~~ 10 (207)
||.+|||.
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 79999974
No 81
>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=31.44 E-value=22 Score=33.07 Aligned_cols=58 Identities=21% Similarity=0.366 Sum_probs=36.9
Q ss_pred CCCCCCHHHHHHHHHHHHH---------hCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhccccccccCCCccc
Q 048263 92 RGKPWTEAEHRVFLEGLKL---------LGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQASSDKKNRRTSLFD 157 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkk---------yGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~~k~krrsSl~d 157 (207)
...|=.+.+-+.|..-|+= +|+|-|+.|-- .||++||...|...++..|.++..+..+
T Consensus 193 ~~~pi~d~~~kelvAelrwqyNkFAvItHGkgHyRvV~y--------s~v~nHAdRv~at~ks~~K~~~~~~f~~ 259 (316)
T PF02509_consen 193 EDTPISDSNVKELVAELRWQYNKFAVITHGKGHYRVVKY--------SSVANHADRVYATFKSNKKTGSQFSFNL 259 (316)
T ss_dssp SSS---HHHHHHHHHHHHHHTTTEEEEESSSSCEEEEEG--------GGHHHHHHHHHHHHCTTCCTT-------
T ss_pred CCCCCchHHHHHHHHHHHHhhcceEEEeccCceEEEEeh--------HHhhhhHHHHHHHHhcccccCCcccccc
Confidence 3445555565666665553 78999988862 6899999999999999888777555444
No 82
>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=31.27 E-value=1.6e+02 Score=21.43 Aligned_cols=45 Identities=18% Similarity=0.197 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHh
Q 048263 95 PWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQ 143 (207)
Q Consensus 95 ~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl 143 (207)
..++.|...|... -..|. .++.||+ .++. ++..|+.+.++-..++
T Consensus 110 ~L~~~~~~ii~~~-~~~g~-s~~eIA~-~l~~-s~~~v~~~~~~~~~kl 154 (158)
T TIGR02937 110 KLPEREREVLVLR-YLEGL-SYKEIAE-ILGI-SVGTVKRRLKRARKKL 154 (158)
T ss_pred hCCHHHHHHHhhH-HhcCC-CHHHHHH-HHCC-CHHHHHHHHHHHHHHH
Confidence 4556666555332 22455 8999996 6665 7777777766655554
No 83
>PF05634 APO_RNA-bind: APO RNA-binding; InterPro: IPR008512 This family consists of plant APO (accumulation of photosystem 1) proteins.
Probab=29.27 E-value=30 Score=30.67 Aligned_cols=19 Identities=42% Similarity=0.927 Sum_probs=16.2
Q ss_pred CccCCC-----CCCCCCCCCCCCC
Q 048263 2 RKCSHC-----GHNGHNSRTCHAK 20 (207)
Q Consensus 2 r~cs~c-----g~~ghnsrtc~~~ 20 (207)
..|.+| |.-||.-|||...
T Consensus 99 ~~C~~C~EVHVG~~GH~irtC~g~ 122 (204)
T PF05634_consen 99 KACGYCPEVHVGPVGHKIRTCGGF 122 (204)
T ss_pred eecCCCCCeEECCCcccccccCCC
Confidence 468888 6889999999876
No 84
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=28.45 E-value=1.1e+02 Score=19.66 Aligned_cols=25 Identities=12% Similarity=0.235 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHhhhcC
Q 048263 99 AEHRVFLEGLKLLGKGDWKGISKNFVT 125 (207)
Q Consensus 99 EEh~~FL~gLkkyGkGdWk~IAk~~V~ 125 (207)
=|...+.++|+.+|- +....|+ .++
T Consensus 5 ~E~~~i~~aL~~~~g-n~~~aA~-~Lg 29 (42)
T PF02954_consen 5 FEKQLIRQALERCGG-NVSKAAR-LLG 29 (42)
T ss_dssp HHHHHHHHHHHHTTT--HHHHHH-HHT
T ss_pred HHHHHHHHHHHHhCC-CHHHHHH-HHC
Confidence 377889999999985 9999997 554
No 85
>smart00595 MADF subfamily of SANT domain.
Probab=27.90 E-value=60 Score=23.22 Aligned_cols=23 Identities=9% Similarity=0.239 Sum_probs=19.4
Q ss_pred CHHHHHhhhcCCCCHHHHHHHHHHH
Q 048263 115 DWKGISKNFVTTRTPTQVASHAQKY 139 (207)
Q Consensus 115 dWk~IAk~~V~TRT~~QVrsHaQKY 139 (207)
-|..||. -++. |..+|+.+|..-
T Consensus 29 aW~~Ia~-~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAE-ELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHH-HHCc-CHHHHHHHHHHH
Confidence 7999996 7777 999999888755
No 86
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=26.89 E-value=40 Score=19.89 Aligned_cols=19 Identities=21% Similarity=0.653 Sum_probs=12.8
Q ss_pred CCccCCCCCC-CCCCCCCCC
Q 048263 1 MRKCSHCGHN-GHNSRTCHA 19 (207)
Q Consensus 1 ~r~cs~cg~~-ghnsrtc~~ 19 (207)
++.|.+||.. --..+-|+.
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~ 21 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPN 21 (26)
T ss_pred cCCCcccCCcCCcccccChh
Confidence 4689999984 235666664
No 87
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=26.03 E-value=35 Score=29.92 Aligned_cols=17 Identities=47% Similarity=1.056 Sum_probs=15.3
Q ss_pred ccCCCCCCCCCCCCCCC
Q 048263 3 KCSHCGHNGHNSRTCHA 19 (207)
Q Consensus 3 ~cs~cg~~ghnsrtc~~ 19 (207)
+|-.||+.||=++-|+.
T Consensus 145 ~Cy~Cg~~GH~s~~C~~ 161 (261)
T KOG4400|consen 145 KCYSCGEQGHISDDCPE 161 (261)
T ss_pred ccCCCCcCCcchhhCCC
Confidence 59999999999999994
No 88
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=25.63 E-value=31 Score=22.06 Aligned_cols=8 Identities=50% Similarity=1.543 Sum_probs=6.4
Q ss_pred ccCCCCCC
Q 048263 3 KCSHCGHN 10 (207)
Q Consensus 3 ~cs~cg~~ 10 (207)
||++|+|.
T Consensus 27 rC~~C~~~ 34 (37)
T PF13719_consen 27 RCPKCGHV 34 (37)
T ss_pred ECCCCCcE
Confidence 79999874
No 89
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=25.42 E-value=36 Score=21.87 Aligned_cols=19 Identities=32% Similarity=0.859 Sum_probs=16.6
Q ss_pred CccCCCCCCCCCCCCCCCC
Q 048263 2 RKCSHCGHNGHNSRTCHAK 20 (207)
Q Consensus 2 r~cs~cg~~ghnsrtc~~~ 20 (207)
..|--|+..||--+.||..
T Consensus 9 Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CEeecCCCCCccHhHCCCC
Confidence 3688999999999999874
No 90
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=24.79 E-value=38 Score=37.83 Aligned_cols=45 Identities=31% Similarity=0.380 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHhccc
Q 048263 100 EHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVASHAQKYFLRQASS 146 (207)
Q Consensus 100 Eh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVrsHaQKYf~rl~~~ 146 (207)
|-+.--.||-.+|. +|..|+. .|.+.|..||.+-+-||-.|++..
T Consensus 361 e~ev~k~Glveh~R-~~aai~p-~vvt~tes~c~na~a~~~~r~N~d 405 (1672)
T KOG1878|consen 361 EMEVAKSGLVEHGR-EWAAILP-KVVTKTESQCKNAYAKYKNRHNLD 405 (1672)
T ss_pred hhhhhhccchhhhh-hHHHhcC-ccceecccchhhHHHhhhhhhcch
Confidence 34455667777788 9999997 999999999999888887776654
No 91
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=23.86 E-value=31 Score=33.51 Aligned_cols=36 Identities=22% Similarity=0.326 Sum_probs=27.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHH
Q 048263 94 KPWTEAEHRVFLEGLKLLGKGDWKGISKNFVTTRTPTQVA 133 (207)
Q Consensus 94 ~~WTeEEh~~FL~gLkkyGkGdWk~IAk~~V~TRT~~QVr 133 (207)
.-||.+|| ||+||+-.|..++.+|- |+.+||--|-+
T Consensus 89 ~W~TTD~D--L~~A~~S~G~~~~~dmK--FFENR~NGQSK 124 (498)
T KOG4849|consen 89 LWYTTDAD--LLKALQSTGLAQFADMK--FFENRTNGQSK 124 (498)
T ss_pred eEEeccHH--HHHHHHhhhHHHHhhhh--hhhcccCCccc
Confidence 45888776 78999999987777776 78888875543
No 92
>PHA03074 late transcription factor VLTF-3; Provisional
Probab=23.64 E-value=36 Score=30.53 Aligned_cols=18 Identities=28% Similarity=0.405 Sum_probs=12.8
Q ss_pred HHHHHHHHhCCCCHHHHH
Q 048263 103 VFLEGLKLLGKGDWKGIS 120 (207)
Q Consensus 103 ~FL~gLkkyGkGdWk~IA 120 (207)
-||.+-++.|++|++.+=
T Consensus 93 ~fLK~~~~inkKdYklvf 110 (225)
T PHA03074 93 SFLKAKERINKKDYKLVF 110 (225)
T ss_pred HHHHHHHhcCchhHHHHH
Confidence 467777777887877764
No 93
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=23.06 E-value=82 Score=21.68 Aligned_cols=32 Identities=9% Similarity=0.074 Sum_probs=22.7
Q ss_pred CHHHHHhhhcCC-CCHHHHHHHHHHHHHHhcccc
Q 048263 115 DWKGISKNFVTT-RTPTQVASHAQKYFLRQASSD 147 (207)
Q Consensus 115 dWk~IAk~~V~T-RT~~QVrsHaQKYf~rl~~~~ 147 (207)
-|..||. .++. -+..+|+.+|+..-.......
T Consensus 28 aw~~Ia~-~l~~~~~~~~~~~~w~~Lr~~y~~~~ 60 (85)
T PF10545_consen 28 AWQEIAR-ELGKEFSVDDCKKRWKNLRDRYRREL 60 (85)
T ss_pred HHHHHHH-HHccchhHHHHHHHHHHHHHHHHHHH
Confidence 6999996 6663 578889999887655444443
No 94
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into s
Probab=22.53 E-value=1.1e+02 Score=23.94 Aligned_cols=24 Identities=29% Similarity=0.637 Sum_probs=17.5
Q ss_pred CHHHHHHHHHHHHHhCCCCHHHHHhhhcC
Q 048263 97 TEAEHRVFLEGLKLLGKGDWKGISKNFVT 125 (207)
Q Consensus 97 TeEEh~~FL~gLkkyGkGdWk~IAk~~V~ 125 (207)
|+++.+.|-+ ..|+ +|+.+++ .++
T Consensus 1 ~~~~~q~~~~---nvGr-~WK~laR-~Lg 24 (90)
T cd08780 1 TPADQQHFAK---SVGK-KWKPVGR-SLQ 24 (90)
T ss_pred CHHHHHHHHH---HHhH-HHHHHHH-HHc
Confidence 4566666664 4576 9999998 676
No 95
>PLN00111 accumulation of photosystem one; Provisional
Probab=21.34 E-value=50 Score=32.01 Aligned_cols=19 Identities=42% Similarity=0.968 Sum_probs=16.1
Q ss_pred CccCCC-----CCCCCCCCCCCCC
Q 048263 2 RKCSHC-----GHNGHNSRTCHAK 20 (207)
Q Consensus 2 r~cs~c-----g~~ghnsrtc~~~ 20 (207)
..|.+| |+-||.-|||...
T Consensus 121 ~~C~~C~EVHVG~~GH~irtC~g~ 144 (399)
T PLN00111 121 HACKFCSEVHVGKVGHLIRTCRGP 144 (399)
T ss_pred eecCcCCceeECCCCccccccCCc
Confidence 468888 6799999999876
No 96
>KOG4771 consensus Nucleolar protein (NOP16) involved in 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=20.84 E-value=1.6e+02 Score=26.04 Aligned_cols=29 Identities=17% Similarity=0.247 Sum_probs=25.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHHHh
Q 048263 92 RGKPWTEAEHRVFLEGLKLLGKGDWKGISK 121 (207)
Q Consensus 92 ~~~~WTeEEh~~FL~gLkkyGkGdWk~IAk 121 (207)
+..+=++.||+.+...+++||. |++.+.+
T Consensus 152 Kel~~s~rehewi~rL~~KhGd-D~e~M~~ 180 (210)
T KOG4771|consen 152 KELTTSQREHEWIRRLVEKHGD-DIEGMYR 180 (210)
T ss_pred hhcchHHHHHHHHHHHHHHhch-hHHHHHH
Confidence 5577889999999999999997 9999986
No 97
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=20.76 E-value=43 Score=21.37 Aligned_cols=8 Identities=63% Similarity=1.618 Sum_probs=6.4
Q ss_pred ccCCCCCC
Q 048263 3 KCSHCGHN 10 (207)
Q Consensus 3 ~cs~cg~~ 10 (207)
+|+.|||.
T Consensus 27 ~C~~C~~~ 34 (36)
T PF13717_consen 27 RCSKCGHV 34 (36)
T ss_pred ECCCCCCE
Confidence 79999874
No 98
>PF10561 UPF0565: Uncharacterised protein family UPF0565; InterPro: IPR018881 This family of proteins has no known function.
Probab=20.46 E-value=81 Score=29.33 Aligned_cols=26 Identities=31% Similarity=0.562 Sum_probs=23.4
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHhCC
Q 048263 88 HERKRGKPWTEAEHRVFLEGLKLLGK 113 (207)
Q Consensus 88 ~~rk~~~~WTeEEh~~FL~gLkkyGk 113 (207)
|-.-...+|=..|+..|++-|+++|.
T Consensus 276 Qv~D~~RpwI~~E~~~F~~~L~~~~~ 301 (303)
T PF10561_consen 276 QVSDPMRPWIGKEEKKFVKLLKKLGA 301 (303)
T ss_pred cccCCCCcHHHHHHHHHHHHHHHhCC
Confidence 55667899999999999999999996
Done!