Query 021861
Match_columns 306
No_of_seqs 196 out of 696
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 06:14:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021861.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021861hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01557 myb_SHAQKYF myb-like 99.6 3.4E-15 7.3E-20 111.1 6.3 50 24-73 1-56 (57)
2 PF00249 Myb_DNA-binding: Myb- 99.5 1.3E-14 2.8E-19 102.0 6.2 46 26-71 1-48 (48)
3 KOG0457 Histone acetyltransfer 99.3 2.8E-12 6.1E-17 126.8 6.9 70 4-73 43-120 (438)
4 smart00717 SANT SANT SWI3, AD 99.2 1.7E-11 3.7E-16 81.8 5.6 46 26-71 1-47 (49)
5 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 3.9E-11 8.4E-16 79.2 5.6 44 28-71 1-45 (45)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.1 7.7E-11 1.7E-15 85.2 4.9 43 29-71 1-43 (60)
7 PLN03212 Transcription repress 98.9 2.2E-09 4.9E-14 100.3 7.0 63 11-73 8-74 (249)
8 COG5114 Histone acetyltransfer 98.8 1.3E-08 2.8E-13 99.0 8.3 69 4-72 34-110 (432)
9 KOG0724 Zuotin and related mol 98.8 4.5E-10 9.8E-15 105.3 -2.6 99 9-111 35-134 (335)
10 PLN03091 hypothetical protein; 98.8 7.4E-09 1.6E-13 103.3 5.3 50 24-73 12-63 (459)
11 PLN03212 Transcription repress 98.7 2.8E-08 6E-13 93.1 6.7 53 24-76 76-128 (249)
12 PLN03091 hypothetical protein; 98.6 1.7E-07 3.6E-12 93.9 9.5 54 24-77 65-118 (459)
13 KOG0048 Transcription factor, 98.6 3.8E-08 8.3E-13 89.7 4.4 48 26-73 9-58 (238)
14 COG5259 RSC8 RSC chromatin rem 98.5 1.8E-07 3.9E-12 94.2 5.2 42 27-68 280-321 (531)
15 KOG0048 Transcription factor, 98.4 5E-07 1.1E-11 82.4 7.0 54 24-77 60-113 (238)
16 KOG1279 Chromatin remodeling f 98.3 7.5E-07 1.6E-11 90.5 5.7 44 23-66 250-293 (506)
17 KOG0049 Transcription factor, 97.7 6.1E-05 1.3E-09 79.2 5.8 50 24-73 358-408 (939)
18 KOG0049 Transcription factor, 97.1 0.00076 1.6E-08 71.2 5.7 56 25-80 411-467 (939)
19 PLN03162 golden-2 like transcr 97.0 0.0038 8.2E-08 62.7 9.2 54 24-77 235-293 (526)
20 KOG0050 mRNA splicing protein 96.7 0.0018 3.9E-08 66.8 4.8 55 22-76 3-58 (617)
21 KOG0051 RNA polymerase I termi 96.6 0.0027 5.9E-08 66.2 5.1 54 18-72 375-429 (607)
22 PF13837 Myb_DNA-bind_4: Myb/S 96.5 0.0045 9.7E-08 47.2 4.7 51 26-76 1-69 (90)
23 KOG0051 RNA polymerase I termi 96.0 0.0079 1.7E-07 62.9 4.6 50 24-73 434-509 (607)
24 KOG4468 Polycomb-group transcr 95.8 0.014 3E-07 61.4 5.6 53 26-78 88-150 (782)
25 KOG3554 Histone deacetylase co 95.6 0.028 6.1E-07 58.0 6.7 84 24-107 283-373 (693)
26 COG5147 REB1 Myb superfamily p 95.4 0.0085 1.8E-07 61.7 2.4 59 18-76 12-71 (512)
27 COG5118 BDP1 Transcription ini 95.4 0.029 6.2E-07 56.7 5.7 42 25-66 364-405 (507)
28 KOG4329 DNA-binding protein [G 94.9 0.038 8.2E-07 55.5 5.0 58 15-75 263-324 (445)
29 PF13873 Myb_DNA-bind_5: Myb/S 94.8 0.13 2.8E-06 38.9 6.6 50 27-76 3-74 (78)
30 PF08914 Myb_DNA-bind_2: Rap1 94.8 0.043 9.3E-07 42.2 3.9 49 26-74 2-60 (65)
31 KOG4167 Predicted DNA-binding 94.5 0.06 1.3E-06 57.9 5.7 45 26-70 619-663 (907)
32 TIGR02894 DNA_bind_RsfA transc 94.0 0.11 2.3E-06 46.7 5.4 50 27-77 5-61 (161)
33 COG5147 REB1 Myb superfamily p 93.7 0.078 1.7E-06 54.8 4.5 53 24-76 70-122 (512)
34 KOG0050 mRNA splicing protein 93.6 0.15 3.2E-06 53.2 6.3 48 25-73 58-105 (617)
35 PF09111 SLIDE: SLIDE; InterP 93.4 0.27 5.9E-06 41.7 6.6 57 20-76 43-115 (118)
36 PLN03142 Probable chromatin-re 93.0 0.19 4.2E-06 55.7 6.4 48 26-73 824-872 (1033)
37 smart00426 TEA TEA domain. 92.7 0.15 3.2E-06 40.2 3.7 43 26-68 3-66 (68)
38 KOG1194 Predicted DNA-binding 92.5 0.33 7.2E-06 50.0 6.7 43 26-68 187-229 (534)
39 PF12776 Myb_DNA-bind_3: Myb/S 91.7 0.35 7.5E-06 37.3 4.7 43 28-70 1-61 (96)
40 KOG0724 Zuotin and related mol 91.4 0.15 3.2E-06 48.4 2.7 54 24-77 162-222 (335)
41 PF01285 TEA: TEA/ATTS domain 90.9 0.23 5E-06 50.2 3.7 47 24-70 47-112 (431)
42 KOG3841 TEF-1 and related tran 90.7 0.5 1.1E-05 47.9 5.8 54 24-77 74-148 (455)
43 PRK13923 putative spore coat p 90.1 0.53 1.1E-05 42.6 4.9 52 26-77 5-62 (170)
44 KOG4282 Transcription factor G 86.2 2.5 5.4E-05 40.5 7.1 54 26-79 54-121 (345)
45 PLN03142 Probable chromatin-re 75.0 16 0.00035 41.1 9.4 54 25-78 925-991 (1033)
46 smart00501 BRIGHT BRIGHT, ARID 73.0 13 0.00028 29.2 6.0 29 48-76 56-89 (93)
47 KOG2009 Transcription initiati 72.2 3.5 7.5E-05 43.7 3.3 49 25-76 408-456 (584)
48 PF01388 ARID: ARID/BRIGHT DNA 71.1 12 0.00025 29.0 5.3 27 47-73 59-90 (92)
49 PF06461 DUF1086: Domain of Un 70.3 13 0.00028 33.2 6.0 48 28-75 40-90 (145)
50 KOG1194 Predicted DNA-binding 67.2 10 0.00023 39.5 5.4 53 22-74 365-417 (534)
51 PF11035 SnAPC_2_like: Small n 66.2 18 0.0004 36.2 6.6 53 25-77 20-76 (344)
52 PF13404 HTH_AsnC-type: AsnC-t 64.5 27 0.00059 24.4 5.5 37 32-69 3-40 (42)
53 PF08281 Sigma70_r4_2: Sigma-7 63.0 25 0.00055 24.4 5.2 39 33-72 14-52 (54)
54 smart00595 MADF subfamily of S 62.4 14 0.00031 28.1 4.2 23 47-70 29-51 (89)
55 PF04504 DUF573: Protein of un 61.8 34 0.00074 27.9 6.5 41 27-67 5-58 (98)
56 KOG0385 Chromatin remodeling c 58.8 18 0.0004 40.2 5.6 60 18-78 787-847 (971)
57 PF13325 MCRS_N: N-terminal re 55.7 27 0.00058 32.5 5.4 47 24-70 71-125 (199)
58 PRK11179 DNA-binding transcrip 55.1 25 0.00055 29.9 4.9 38 31-69 8-46 (153)
59 TIGR02937 sigma70-ECF RNA poly 53.8 51 0.0011 25.4 6.0 47 28-76 110-156 (158)
60 PF09420 Nop16: Ribosome bioge 49.6 36 0.00078 29.8 5.1 46 25-70 113-162 (164)
61 KOG2656 DNA methyltransferase 48.4 18 0.0004 37.1 3.4 53 26-78 130-188 (445)
62 PRK11169 leucine-responsive tr 46.3 41 0.00089 29.0 4.9 37 31-68 13-50 (164)
63 PF12451 VPS11_C: Vacuolar pro 45.5 21 0.00045 26.0 2.5 27 30-56 17-43 (49)
64 PF04545 Sigma70_r4: Sigma-70, 44.0 1.1E+02 0.0023 21.2 6.1 30 45-75 20-49 (50)
65 PF11626 Rap1_C: TRF2-interact 43.3 16 0.00036 28.8 1.8 17 24-40 45-61 (87)
66 PHA00442 host recBCD nuclease 42.4 15 0.00032 28.3 1.4 32 23-54 9-49 (59)
67 PF07750 GcrA: GcrA cell cycle 41.1 40 0.00087 30.0 4.1 37 28-65 2-38 (162)
68 KOG1878 Nuclear receptor coreg 36.7 16 0.00034 42.8 1.0 43 32-74 360-402 (1672)
69 cd06171 Sigma70_r4 Sigma70, re 36.2 1.2E+02 0.0025 19.4 5.3 41 28-70 10-50 (55)
70 PF08074 CHDCT2: CHDCT2 (NUC03 35.1 22 0.00048 32.6 1.5 28 26-53 3-31 (173)
71 cd08780 Death_TRADD Death Doma 35.1 40 0.00086 28.1 2.8 24 30-56 1-24 (90)
72 PF10545 MADF_DNA_bdg: Alcohol 32.4 86 0.0019 22.9 4.1 24 47-70 28-52 (85)
73 KOG0384 Chromodomain-helicase 31.7 28 0.00061 40.3 2.0 53 25-78 1132-1197(1373)
74 PF10854 DUF2649: Protein of u 31.6 23 0.00051 27.8 0.9 17 286-302 43-59 (67)
75 KOG1019 Retinoblastoma pathway 31.5 30 0.00066 38.3 2.1 60 6-65 24-84 (837)
76 smart00344 HTH_ASNC helix_turn 30.4 1.3E+02 0.0029 23.4 5.1 37 31-68 2-39 (108)
77 PF02954 HTH_8: Bacterial regu 26.8 99 0.0022 21.1 3.3 28 32-59 5-33 (42)
78 PF06967 Mo-nitro_C: Mo-depend 26.5 49 0.0011 27.3 2.0 21 232-252 33-54 (84)
79 TIGR02985 Sig70_bacteroi1 RNA 25.7 2.9E+02 0.0064 22.0 6.5 30 45-75 129-158 (161)
80 PF13384 HTH_23: Homeodomain-l 24.1 1.4E+02 0.003 20.3 3.7 33 31-65 4-36 (50)
81 COG1522 Lrp Transcriptional re 22.3 2.5E+02 0.0055 23.0 5.6 42 31-77 7-49 (154)
82 PF01527 HTH_Tnp_1: Transposas 20.8 2.9E+02 0.0063 20.1 5.1 47 24-72 2-48 (76)
83 PF01726 LexA_DNA_bind: LexA D 20.5 2.4E+02 0.0052 21.4 4.6 33 41-77 19-53 (65)
84 PF10440 WIYLD: Ubiquitin-bind 20.2 69 0.0015 25.1 1.7 19 35-53 30-48 (65)
85 PRK09652 RNA polymerase sigma 20.2 4.1E+02 0.0089 21.7 6.4 29 44-73 143-174 (182)
86 cd08311 Death_p75NR Death doma 20.1 76 0.0017 25.0 1.9 26 31-57 2-27 (77)
No 1
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=99.58 E-value=3.4e-15 Score=111.06 Aligned_cols=50 Identities=42% Similarity=0.632 Sum_probs=45.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcc-h---HHHHHHhC-CC-CHHHHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRG-W---RQIEEHVG-TK-TAVQIRSHAQKFFSK 73 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrg-W---k~IAe~Vg-TR-T~~QVRSHaQKYF~k 73 (306)
|.|..||+|||.+||+||+.||.+ | +.|+++++ +| |..||++|+||||.+
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 356789999999999999999995 9 99998776 67 999999999999986
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=99.54 E-value=1.3e-14 Score=101.97 Aligned_cols=46 Identities=41% Similarity=0.803 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhC-CCCHHHHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMYGRG-WRQIEEHVG-TKTAVQIRSHAQKFF 71 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~Vg-TRT~~QVRSHaQKYF 71 (306)
++.||.||+++|++||.+||.+ |+.||++|+ +||..||++||++|.
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 4789999999999999999999 999999999 999999999999873
No 3
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=99.31 E-value=2.8e-12 Score=126.76 Aligned_cols=70 Identities=31% Similarity=0.621 Sum_probs=65.7
Q ss_pred CccccCCCCCC-CCCCCcccccC------CCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHHH
Q 021861 4 SLYSFENDSLP-KVRKPYTITKQ------REKWTEEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFSK 73 (306)
Q Consensus 4 ~~~s~g~~~~~-K~RKPytitk~------r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~k 73 (306)
+||++|++.++ +..|||.+... ...||.+|+.+||+|++.||.| |..||+|||+||..+|+.||.|+|..
T Consensus 43 ~CFs~GaE~~~H~~~H~Yrim~~~s~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 43 QCFSVGAETGKHQNDHPYRIMDTNSFPILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVN 120 (438)
T ss_pred HHHhcccccCCCCCCCCceeecCCCCCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhc
Confidence 58999999985 99999998766 4799999999999999999999 99999999999999999999999986
No 4
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.23 E-value=1.7e-11 Score=81.80 Aligned_cols=46 Identities=30% Similarity=0.660 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHHhC-cchHHHHHHhCCCCHHHHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMYG-RGWRQIEEHVGTKTAVQIRSHAQKFF 71 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yG-rgWk~IAe~VgTRT~~QVRSHaQKYF 71 (306)
+..||.+|+.+|+.++..|| .+|..||.++++||+.||+.||..++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 36799999999999999999 77999999999999999999988765
No 5
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.19 E-value=3.9e-11 Score=79.24 Aligned_cols=44 Identities=34% Similarity=0.690 Sum_probs=41.2
Q ss_pred CCCHHHHHHHHHHHHHhC-cchHHHHHHhCCCCHHHHHHHHHHHH
Q 021861 28 KWTEEEHQRFLDALKMYG-RGWRQIEEHVGTKTAVQIRSHAQKFF 71 (306)
Q Consensus 28 ~WT~EEh~lFLEaLe~yG-rgWk~IAe~VgTRT~~QVRSHaQKYF 71 (306)
.||.||+.+|+.++..|| ..|..||+.+++||..||+.||++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 67999999999999999999998763
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.12 E-value=7.7e-11 Score=85.22 Aligned_cols=43 Identities=37% Similarity=0.806 Sum_probs=38.0
Q ss_pred CCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHH
Q 021861 29 WTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFF 71 (306)
Q Consensus 29 WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF 71 (306)
||.||+.+|++++..||.+|+.||+++|+||+.||+.||.+++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l 43 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHL 43 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHC
Confidence 9999999999999999999999999999999999999998754
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.91 E-value=2.2e-09 Score=100.31 Aligned_cols=63 Identities=22% Similarity=0.458 Sum_probs=51.9
Q ss_pred CCCCCCCCCccc--ccCCCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhC-CCCHHHHHHHHHHHHHH
Q 021861 11 DSLPKVRKPYTI--TKQREKWTEEEHQRFLDALKMYGRG-WRQIEEHVG-TKTAVQIRSHAQKFFSK 73 (306)
Q Consensus 11 ~~~~K~RKPyti--tk~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~Vg-TRT~~QVRSHaQKYF~k 73 (306)
+-+.+++.|.-. ...++.||.||+++|++++++||.. |+.||+.++ +||+.|||.||.+|+..
T Consensus 8 ~~~~~~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P 74 (249)
T PLN03212 8 KPVSKKTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRP 74 (249)
T ss_pred CCCCCCCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhch
Confidence 334455555543 2457899999999999999999976 999999986 89999999999999865
No 8
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.81 E-value=1.3e-08 Score=99.02 Aligned_cols=69 Identities=22% Similarity=0.484 Sum_probs=62.5
Q ss_pred CccccCCCCC-CCCCCCcccccC------CCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHH
Q 021861 4 SLYSFENDSL-PKVRKPYTITKQ------REKWTEEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFS 72 (306)
Q Consensus 4 ~~~s~g~~~~-~K~RKPytitk~------r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~ 72 (306)
-||.+|...+ +.+-++|.|... ...|+.+|+.+|++|++..|.| |..||+|||.|+...||+||.|||.
T Consensus 34 pCF~~g~~tg~H~pyH~YRiietnsypI~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 34 PCFVNGIETGVHSPYHGYRIIETNSYPIGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred hhhhccccccccCCCCCeeEeeccCccccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 3788898877 488999997643 4789999999999999999999 9999999999999999999999987
No 9
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=4.5e-10 Score=105.27 Aligned_cols=99 Identities=28% Similarity=0.314 Sum_probs=85.7
Q ss_pred CCCCCCCCCCCcccccCCCC-CCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhCCCCCCCcc
Q 021861 9 ENDSLPKVRKPYTITKQREK-WTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKVVRESNGSSESSIM 87 (306)
Q Consensus 9 g~~~~~K~RKPytitk~r~~-WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~r~~~g~~~~~~~ 87 (306)
+.+..++.+++|++.+.+.+ ||.+|+..|.++|..|+..|..|-++++.++.+|+|.|||+||-++.+.. .+..+
T Consensus 35 ~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~~~----~~~~~ 110 (335)
T KOG0724|consen 35 TEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGKSD----TSLAE 110 (335)
T ss_pred HHHHHHHHHHHHHHHhccccccchhhhhHHHhcCccccccchhHHhhhhhHHHHhhhhccCCCccccCccc----ccccc
Confidence 44455799999999987554 99999999999999997779999999999999999999999999987653 33456
Q ss_pred cccCCCCCCCCCCCCCCCCCccCc
Q 021861 88 PIEIPPPRPKRKPVHPYPRKSVDS 111 (306)
Q Consensus 88 ~i~iPpprpKRk~~hpyP~k~~~~ 111 (306)
.+.+|++++++++.|+||++....
T Consensus 111 ~~~~~~~~~~~k~~~~y~~~~~~~ 134 (335)
T KOG0724|consen 111 VEEFYNFWPKFKSWRQYPQKDEPD 134 (335)
T ss_pred ccccCCccccccccccCCCCCCcc
Confidence 778999999999999999998763
No 10
>PLN03091 hypothetical protein; Provisional
Probab=98.76 E-value=7.4e-09 Score=103.34 Aligned_cols=50 Identities=20% Similarity=0.569 Sum_probs=45.4
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhC-CCCHHHHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRG-WRQIEEHVG-TKTAVQIRSHAQKFFSK 73 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~Vg-TRT~~QVRSHaQKYF~k 73 (306)
..++.||.|||++|+++|++||.+ |+.||++++ +||+.|||.||.+|+..
T Consensus 12 lrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP 63 (459)
T PLN03091 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRP 63 (459)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCC
Confidence 456889999999999999999987 999999887 89999999999988754
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.70 E-value=2.8e-08 Score=93.09 Aligned_cols=53 Identities=19% Similarity=0.305 Sum_probs=48.6
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~r 76 (306)
.+++.||.||++++++++..||..|..||.+|++||..|||+||..++++..+
T Consensus 76 I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~ 128 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLL 128 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHH
Confidence 45789999999999999999999999999999999999999999988877543
No 12
>PLN03091 hypothetical protein; Provisional
Probab=98.61 E-value=1.7e-07 Score=93.89 Aligned_cols=54 Identities=19% Similarity=0.398 Sum_probs=49.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~r~ 77 (306)
..++.||.||+++||+.+..||..|..||++|++||..|||+||...++|..+.
T Consensus 65 IkKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~ 118 (459)
T PLN03091 65 LKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (459)
T ss_pred ccCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 357899999999999999999999999999999999999999999888776554
No 13
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.60 E-value=3.8e-08 Score=89.68 Aligned_cols=48 Identities=17% Similarity=0.380 Sum_probs=46.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhC-CCCHHHHHHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMYGRG-WRQIEEHVG-TKTAVQIRSHAQKFFSK 73 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~Vg-TRT~~QVRSHaQKYF~k 73 (306)
+++||.|||++|.+.|++||.+ |..|++.+| .|+..|||.||-+|++.
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP 58 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRP 58 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCC
Confidence 7999999999999999999999 999999999 99999999999999876
No 14
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.45 E-value=1.8e-07 Score=94.20 Aligned_cols=42 Identities=36% Similarity=0.710 Sum_probs=39.8
Q ss_pred CCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHH
Q 021861 27 EKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQ 68 (306)
Q Consensus 27 ~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQ 68 (306)
..||.+|..+|||||++||.+|.+||.|||+||..||..|+.
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL 321 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFL 321 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHH
Confidence 489999999999999999999999999999999999999843
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.43 E-value=5e-07 Score=82.42 Aligned_cols=54 Identities=17% Similarity=0.382 Sum_probs=48.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~r~ 77 (306)
..++.||+||+++++++-..||..|..||.++++||...|++||.-.+.|..+.
T Consensus 60 ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~ 113 (238)
T KOG0048|consen 60 LKRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHWNTHLKKKLLK 113 (238)
T ss_pred ccCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHHHHHHHHHHHH
Confidence 458999999999999999999999999999999999999999998776665443
No 16
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=98.31 E-value=7.5e-07 Score=90.46 Aligned_cols=44 Identities=39% Similarity=0.761 Sum_probs=41.8
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHH
Q 021861 23 TKQREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSH 66 (306)
Q Consensus 23 tk~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSH 66 (306)
...+..||++|..+||+||++||.+|.+||.|||+||..||..|
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~k 293 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILK 293 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHH
Confidence 35678999999999999999999999999999999999999998
No 17
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.67 E-value=6.1e-05 Score=79.15 Aligned_cols=50 Identities=20% Similarity=0.506 Sum_probs=45.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFSK 73 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~k 73 (306)
...++||.+|+.+|+.|+.+||.. |-+|-+.|++|+..|||.+|.+.+..
T Consensus 358 ikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~ 408 (939)
T KOG0049|consen 358 VKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNR 408 (939)
T ss_pred ccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHH
Confidence 457999999999999999999988 99999999999999999998776554
No 18
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.09 E-value=0.00076 Score=71.22 Aligned_cols=56 Identities=30% Similarity=0.598 Sum_probs=47.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhCC
Q 021861 25 QREKWTEEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFSKVVRESNG 80 (306)
Q Consensus 25 ~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~kl~r~~~g 80 (306)
+.++||-.|+++|+++|++||.+ |-+||.++|.||..|.+.+-..+.....+...+
T Consensus 411 K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~k~rl~~~ 467 (939)
T KOG0049|consen 411 KVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAAKLRLAAG 467 (939)
T ss_pred ccCceeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHHHHHHHhcC
Confidence 45899999999999999999999 999999999999988887766666655555433
No 19
>PLN03162 golden-2 like transcription factor; Provisional
Probab=96.98 E-value=0.0038 Score=62.66 Aligned_cols=54 Identities=35% Similarity=0.440 Sum_probs=45.6
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcc---hHHHHHHhC--CCCHHHHHHHHHHHHHHHHHh
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRG---WRQIEEHVG--TKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrg---Wk~IAe~Vg--TRT~~QVRSHaQKYF~kl~r~ 77 (306)
|.|-.||.|=|++|++||++.|-. =|.|=++++ +=|..+|+||-|||...+++.
T Consensus 235 KpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 235 KAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 567899999999999999999943 577776654 689999999999998887643
No 20
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.72 E-value=0.0018 Score=66.79 Aligned_cols=55 Identities=22% Similarity=0.482 Sum_probs=49.4
Q ss_pred cccCCCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Q 021861 22 ITKQREKWTEEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 22 itk~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~kl~r 76 (306)
+....+.|+.-|++.+-.|+.+||.. |.+|+..+..+|+.||+.+|.+|.....+
T Consensus 3 i~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~ 58 (617)
T KOG0050|consen 3 IEIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIK 58 (617)
T ss_pred eEEecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHh
Confidence 34567899999999999999999999 99999999999999999999998776543
No 21
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=96.59 E-value=0.0027 Score=66.24 Aligned_cols=54 Identities=24% Similarity=0.564 Sum_probs=47.5
Q ss_pred CCccccc-CCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHH
Q 021861 18 KPYTITK-QREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFS 72 (306)
Q Consensus 18 KPytitk-~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~ 72 (306)
+-|++-. +++.||+||++.|...+.++|..|+.|++.+| |.+.-||.||..|..
T Consensus 375 R~y~~FE~~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~lg-r~P~~crd~wr~~~~ 429 (607)
T KOG0051|consen 375 RAYTPFENKRGKWTPEEEEELKKLVVEHGNDWKEIGKALG-RMPMDCRDRWRQYVK 429 (607)
T ss_pred hcCCccccccCCCCcchHHHHHHHHHHhcccHHHHHHHHc-cCcHHHHHHHHHhhc
Confidence 4455556 89999999999999999999999999999985 778999999998744
No 22
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.53 E-value=0.0045 Score=47.21 Aligned_cols=51 Identities=25% Similarity=0.536 Sum_probs=35.0
Q ss_pred CCCCCHHHHHHHHHHHHH------hCc--------chHHHHHHhC----CCCHHHHHHHHHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKM------YGR--------GWRQIEEHVG----TKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~------yGr--------gWk~IAe~Vg----TRT~~QVRSHaQKYF~kl~r 76 (306)
|..||.+|...||+.+.. |+. -|+.||+.+. .||+.||+..|.+....-.+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 467999999999999887 321 2999997653 69999999998876555443
No 23
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=95.98 E-value=0.0079 Score=62.94 Aligned_cols=50 Identities=24% Similarity=0.518 Sum_probs=42.2
Q ss_pred cCCCCCCHHHHHHHHHHHH-------Hh--------------C---cc--hHHHHHHhCCCCHHHHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALK-------MY--------------G---RG--WRQIEEHVGTKTAVQIRSHAQKFFSK 73 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe-------~y--------------G---rg--Wk~IAe~VgTRT~~QVRSHaQKYF~k 73 (306)
..++.||.||+++||+.|+ +| + .+ |..|++.+|||+..|||.+|++....
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~ 509 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTS 509 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhh
Confidence 3679999999999999996 44 1 22 99999999999999999999886544
No 24
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=95.82 E-value=0.014 Score=61.43 Aligned_cols=53 Identities=25% Similarity=0.510 Sum_probs=45.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCcchHHH----------HHHhCCCCHHHHHHHHHHHHHHHHHhh
Q 021861 26 REKWTEEEHQRFLDALKMYGRGWRQI----------EEHVGTKTAVQIRSHAQKFFSKVVRES 78 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrgWk~I----------Ae~VgTRT~~QVRSHaQKYF~kl~r~~ 78 (306)
+..||-.|++-|..||++||+++..| -.-+..||..|||.||-+...++.+.-
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 67899999999999999999999988 234557899999999888777776654
No 25
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=95.61 E-value=0.028 Score=57.99 Aligned_cols=84 Identities=23% Similarity=0.468 Sum_probs=59.4
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcchHHHH-HHhCCCCHHHHHHHHHHH-----HHHHHHhhCCCCCCCcccccCCC-CCC
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRGWRQIE-EHVGTKTAVQIRSHAQKF-----FSKVVRESNGSSESSIMPIEIPP-PRP 96 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrgWk~IA-e~VgTRT~~QVRSHaQKY-----F~kl~r~~~g~~~~~~~~i~iPp-prp 96 (306)
...+.|+.-|-.+|.+||++||+++.+|- +|++=|+...|..+|--+ |...+|......++.+..+-||+ -.|
T Consensus 283 DemEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYYmwKttdRYvqqKrlKaaeadsKlkqvYIP~ynKP 362 (693)
T KOG3554|consen 283 DEMEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYYMWKTTDRYVQQKRLKAAEADSKLKQVYIPTYNKP 362 (693)
T ss_pred hhhhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHHHHhhhhHHHHHHhhhhhhhhhhhheeeccCCCCC
Confidence 45689999999999999999999999995 799999988887764321 23334444444566788899986 334
Q ss_pred CCCCCCCCCCC
Q 021861 97 KRKPVHPYPRK 107 (306)
Q Consensus 97 KRk~~hpyP~k 107 (306)
.-..+.+|-.|
T Consensus 363 npnqI~~~n~k 373 (693)
T KOG3554|consen 363 NPNQISPYNTK 373 (693)
T ss_pred CcceecccCCC
Confidence 43444455433
No 26
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=95.44 E-value=0.0085 Score=61.65 Aligned_cols=59 Identities=14% Similarity=0.302 Sum_probs=51.2
Q ss_pred CCcccccCCCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Q 021861 18 KPYTITKQREKWTEEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 18 KPytitk~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~kl~r 76 (306)
|++++....+.|+..|++.++-+++.||.. |..||..++.||+.||+.||..|...+.+
T Consensus 12 ~~~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk 71 (512)
T COG5147 12 KLMQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLK 71 (512)
T ss_pred ccccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcc
Confidence 335555678899999999999999999998 99999988899999999999888776543
No 27
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=95.36 E-value=0.029 Score=56.66 Aligned_cols=42 Identities=21% Similarity=0.509 Sum_probs=39.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHH
Q 021861 25 QREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSH 66 (306)
Q Consensus 25 ~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSH 66 (306)
...+||.+|-++|..||.++|.++..|+.++++|...||+--
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaK 405 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAK 405 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHH
Confidence 447899999999999999999999999999999999999973
No 28
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=94.89 E-value=0.038 Score=55.50 Aligned_cols=58 Identities=21% Similarity=0.463 Sum_probs=47.5
Q ss_pred CCCCCcccc---cCCCCCCHHHHHHHHHHHHHhCcchHHHH-HHhCCCCHHHHHHHHHHHHHHHH
Q 021861 15 KVRKPYTIT---KQREKWTEEEHQRFLDALKMYGRGWRQIE-EHVGTKTAVQIRSHAQKFFSKVV 75 (306)
Q Consensus 15 K~RKPytit---k~r~~WT~EEh~lFLEaLe~yGrgWk~IA-e~VgTRT~~QVRSHaQKYF~kl~ 75 (306)
++|+++... ..-..|+++|=+.|.++|+.||+++..|. ..|.||+...|-.+ ||.+.+
T Consensus 263 lrr~rfnvk~~rd~l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVey---YYlWKk 324 (445)
T KOG4329|consen 263 LRRLRFNVKTVRDDLSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEY---YYLWKK 324 (445)
T ss_pred HHhcCCcceecccccccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHH---HHHhhc
Confidence 667776643 34578999999999999999999999996 68999999999985 555543
No 29
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.79 E-value=0.13 Score=38.87 Aligned_cols=50 Identities=20% Similarity=0.450 Sum_probs=40.9
Q ss_pred CCCCHHHHHHHHHHHHHh-----C----------cc--hHHHHHHh-----CCCCHHHHHHHHHHHHHHHHH
Q 021861 27 EKWTEEEHQRFLDALKMY-----G----------RG--WRQIEEHV-----GTKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 27 ~~WT~EEh~lFLEaLe~y-----G----------rg--Wk~IAe~V-----gTRT~~QVRSHaQKYF~kl~r 76 (306)
..||.+|-..|++.|+.| | +. |..|+..+ +.||..|++..|.++-...++
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 579999999999999998 4 12 99998644 269999999999988666554
No 30
>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=94.76 E-value=0.043 Score=42.16 Aligned_cols=49 Identities=29% Similarity=0.417 Sum_probs=32.0
Q ss_pred CCCCCHHHHHHHHHHHHHh--------Ccc-hHHHHHHhC-CCCHHHHHHHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMY--------GRG-WRQIEEHVG-TKTAVQIRSHAQKFFSKV 74 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~y--------Grg-Wk~IAe~Vg-TRT~~QVRSHaQKYF~kl 74 (306)
|..+|.|||..+++.|..+ |.. |+.+++.-. ..|..-.|.||.|.+...
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 5678999999999999665 333 999997656 799999999988776654
No 31
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=94.53 E-value=0.06 Score=57.91 Aligned_cols=45 Identities=27% Similarity=0.388 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKF 70 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKY 70 (306)
...||..|-++|-+||-.|.+++-.|++.|++||..||-.+|-.+
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 468999999999999999999999999999999999999875433
No 32
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=94.04 E-value=0.11 Score=46.74 Aligned_cols=50 Identities=18% Similarity=0.320 Sum_probs=41.9
Q ss_pred CCCCHHHHHHHHHHHHHh---Ccc----hHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Q 021861 27 EKWTEEEHQRFLDALKMY---GRG----WRQIEEHVGTKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 27 ~~WT~EEh~lFLEaLe~y---Grg----Wk~IAe~VgTRT~~QVRSHaQKYF~kl~r~ 77 (306)
..||.|||.+|-+.|..| |.- +..+++.+ +||+.-|..||..|.++....
T Consensus 5 DAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 679999999999999999 332 66666555 799999999999999987765
No 33
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=93.73 E-value=0.078 Score=54.79 Aligned_cols=53 Identities=23% Similarity=0.419 Sum_probs=48.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~r 76 (306)
.++..|+.||+..++..-.++|..|..||.+++.||..||..+|.+-+....+
T Consensus 70 lk~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 70 LKKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred cccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 46789999999999999999999999999999999999999999988777654
No 34
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=93.62 E-value=0.15 Score=53.19 Aligned_cols=48 Identities=23% Similarity=0.493 Sum_probs=42.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHH
Q 021861 25 QREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSK 73 (306)
Q Consensus 25 ~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~k 73 (306)
++..|+.||++++|.+...+-.-|..|+..| .||..||-.||++.+--
T Consensus 58 ~~tews~eederlLhlakl~p~qwrtIa~i~-gr~~~qc~eRy~~ll~~ 105 (617)
T KOG0050|consen 58 KKTEWSREEDERLLHLAKLEPTQWRTIADIM-GRTSQQCLERYNNLLDV 105 (617)
T ss_pred hhhhhhhhHHHHHHHHHHhcCCccchHHHHh-hhhHHHHHHHHHHHHHH
Confidence 4578999999999999999999999999988 59999999999986443
No 35
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=93.45 E-value=0.27 Score=41.71 Aligned_cols=57 Identities=21% Similarity=0.511 Sum_probs=43.2
Q ss_pred cccccCCCCCCHHHHHHHHHHHHHhCc---c-hHHHHH------------HhCCCCHHHHHHHHHHHHHHHHH
Q 021861 20 YTITKQREKWTEEEHQRFLDALKMYGR---G-WRQIEE------------HVGTKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 20 ytitk~r~~WT~EEh~lFLEaLe~yGr---g-Wk~IAe------------~VgTRT~~QVRSHaQKYF~kl~r 76 (306)
|.....+..||+|||.-+|-.+.+||- + |..|-+ ++.+||+..+.-|..-...-+.|
T Consensus 43 y~~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 43 YPPNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp STSTSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred cCCCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 444556788999999999999999999 6 998853 45699999999998866655544
No 36
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.02 E-value=0.19 Score=55.65 Aligned_cols=48 Identities=23% Similarity=0.513 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFSK 73 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~k 73 (306)
-..|+..+=..|+.|+++||++ ...||..|++||..+|+.+++-|+.+
T Consensus 824 f~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~ 872 (1033)
T PLN03142 824 FSTWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWER 872 (1033)
T ss_pred cCcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHh
Confidence 3579999999999999999999 99999999999999999998887765
No 37
>smart00426 TEA TEA domain.
Probab=92.75 E-value=0.15 Score=40.16 Aligned_cols=43 Identities=33% Similarity=0.465 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCcc--------------hH--HHHHHhC-----CCCHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMYGRG--------------WR--QIEEHVG-----TKTAVQIRSHAQ 68 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrg--------------Wk--~IAe~Vg-----TRT~~QVRSHaQ 68 (306)
.+.|.++=+..|++||+.|-.. |+ -|++||- .||..||-||-|
T Consensus 3 ~~vWp~~lE~Af~~aL~~~~~~g~~kik~~~r~k~~gRNelIs~YI~~~tGk~Rt~KQVsShIQ 66 (68)
T smart00426 3 EGVWSPDIEQAFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQ 66 (68)
T ss_pred CCcCcHHHHHHHHHHHHHcCccCcccchhhhcCcccchhHHHHHHHHHHhCCccchhhhcchhe
Confidence 4679999999999999999332 22 2566553 489999999866
No 38
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=92.46 E-value=0.33 Score=50.02 Aligned_cols=43 Identities=16% Similarity=0.437 Sum_probs=39.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQ 68 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQ 68 (306)
...||.||-.+|-+|+..||+++.+|-..++.|+...++-+|-
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy 229 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYY 229 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHH
Confidence 4789999999999999999999999999999999998887653
No 39
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=91.75 E-value=0.35 Score=37.32 Aligned_cols=43 Identities=30% Similarity=0.528 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHHHHh--------Cc-----chHHHHHHh----C-CCCHHHHHHHHHHH
Q 021861 28 KWTEEEHQRFLDALKMY--------GR-----GWRQIEEHV----G-TKTAVQIRSHAQKF 70 (306)
Q Consensus 28 ~WT~EEh~lFLEaLe~y--------Gr-----gWk~IAe~V----g-TRT~~QVRSHaQKY 70 (306)
.||++++..||+++... +. +|..|++.+ | ..|..||++|+...
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 59999999999999666 11 288887543 3 47899999998754
No 40
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=91.42 E-value=0.15 Score=48.39 Aligned_cols=54 Identities=33% Similarity=0.409 Sum_probs=47.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcc-hHHHHH-HhCCCCHHHHHHHHH-----HHHHHHHHh
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRG-WRQIEE-HVGTKTAVQIRSHAQ-----KFFSKVVRE 77 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe-~VgTRT~~QVRSHaQ-----KYF~kl~r~ 77 (306)
+.+..|+..++.+++.++..||+. |..|++ .+..|++.|+.+|+| +||.+....
T Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~ 222 (335)
T KOG0724|consen 162 RKGTPVTERERKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAFEKALARQKSG 222 (335)
T ss_pred hccchhHHHHHHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhhHHHHHHHhhh
Confidence 456899999999999999999999 999985 677899999999999 888876443
No 41
>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=90.88 E-value=0.23 Score=50.21 Aligned_cols=47 Identities=32% Similarity=0.505 Sum_probs=31.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHh-----------Ccc-hH--HHHHHhC-----CCCHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALKMY-----------GRG-WR--QIEEHVG-----TKTAVQIRSHAQKF 70 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~y-----------Grg-Wk--~IAe~Vg-----TRT~~QVRSHaQKY 70 (306)
+..+.|+++=|..|++||+.| |+. |+ -|++||. .||.+||-+|-|-.
T Consensus 47 ~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 47 DGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 567899999999999999999 333 33 3787765 59999999999966
No 42
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=90.73 E-value=0.5 Score=47.90 Aligned_cols=54 Identities=33% Similarity=0.544 Sum_probs=42.4
Q ss_pred cCCCCCCHHHHHHHHHHHHHh---Cc------------c-hHHHHHHhC-----CCCHHHHHHHHHHHHHHHHHh
Q 021861 24 KQREKWTEEEHQRFLDALKMY---GR------------G-WRQIEEHVG-----TKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~y---Gr------------g-Wk~IAe~Vg-----TRT~~QVRSHaQKYF~kl~r~ 77 (306)
...+.|+.+=++.|+|||..| |+ | =..||.||. |||.+||-+|-|=.-+++.|.
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence 446899999999999999998 22 2 355898886 799999999999665555444
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=90.07 E-value=0.53 Score=42.64 Aligned_cols=52 Identities=23% Similarity=0.289 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCcc-hHHHH--HHhC---CCCHHHHHHHHHHHHHHHHHh
Q 021861 26 REKWTEEEHQRFLDALKMYGRG-WRQIE--EHVG---TKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrg-Wk~IA--e~Vg---TRT~~QVRSHaQKYF~kl~r~ 77 (306)
...||.||+.+|-+.|..|++. =.+++ +.+| .||+.+|..||..+.++....
T Consensus 5 qdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vrk~Yee 62 (170)
T PRK13923 5 QDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVRKQYQE 62 (170)
T ss_pred hhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHH
Confidence 4679999999999999999875 33343 2233 799999999998887766544
No 44
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=86.23 E-value=2.5 Score=40.48 Aligned_cols=54 Identities=19% Similarity=0.458 Sum_probs=41.7
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CcchHHHHH---HhC-CCCHHHHHHHHHHHHHHHHHhhC
Q 021861 26 REKWTEEEHQRFLDALKMY----------GRGWRQIEE---HVG-TKTAVQIRSHAQKFFSKVVRESN 79 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~y----------GrgWk~IAe---~Vg-TRT~~QVRSHaQKYF~kl~r~~~ 79 (306)
...|+.+|-..||++.... +.-|..||+ ..| -||+.||+..+.+...+.++...
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~ 121 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKA 121 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhc
Confidence 4789999999999987654 223999996 344 59999999999887766666543
No 45
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=75.01 E-value=16 Score=41.07 Aligned_cols=54 Identities=17% Similarity=0.393 Sum_probs=45.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCcc-hHHHHH------------HhCCCCHHHHHHHHHHHHHHHHHhh
Q 021861 25 QREKWTEEEHQRFLDALKMYGRG-WRQIEE------------HVGTKTAVQIRSHAQKFFSKVVRES 78 (306)
Q Consensus 25 ~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe------------~VgTRT~~QVRSHaQKYF~kl~r~~ 78 (306)
++..||+||++.+|-.+-+||-+ |..|-. |+.+||+..+.-|..-.+.-+.|+.
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~~e~ 991 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIEKEN 991 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHHHHH
Confidence 34569999999999999999988 999832 4569999999999988777777764
No 46
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=72.98 E-value=13 Score=29.24 Aligned_cols=29 Identities=24% Similarity=0.643 Sum_probs=23.9
Q ss_pred hHHHHHHhCCC-----CHHHHHHHHHHHHHHHHH
Q 021861 48 WRQIEEHVGTK-----TAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 48 Wk~IAe~VgTR-----T~~QVRSHaQKYF~kl~r 76 (306)
|..|++.+|-. ...+++.+|++|+....+
T Consensus 56 W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE~ 89 (93)
T smart00501 56 WKEIARELGIPDTSTSAASSLRKHYERYLLPFER 89 (93)
T ss_pred HHHHHHHhCCCcccchHHHHHHHHHHHHhHHHHH
Confidence 99999988753 368999999999887654
No 47
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=72.22 E-value=3.5 Score=43.69 Aligned_cols=49 Identities=27% Similarity=0.434 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Q 021861 25 QREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 25 ~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~r 76 (306)
....|+.+|-.+|..++..+|-...-|+...+.|+..|||- ||-++-.|
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~---K~~~eE~r 456 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKA---KFKKEEKR 456 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHH---HHhhhhhc
Confidence 45899999999999999999999999999999999999997 55554433
No 48
>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=71.13 E-value=12 Score=29.04 Aligned_cols=27 Identities=30% Similarity=0.663 Sum_probs=21.3
Q ss_pred chHHHHHHhCCCC-----HHHHHHHHHHHHHH
Q 021861 47 GWRQIEEHVGTKT-----AVQIRSHAQKFFSK 73 (306)
Q Consensus 47 gWk~IAe~VgTRT-----~~QVRSHaQKYF~k 73 (306)
.|..||+.+|--. ..++|.+|.+|+..
T Consensus 59 ~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 59 KWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp THHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred hHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 3999999887422 47999999999765
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=70.33 E-value=13 Score=33.19 Aligned_cols=48 Identities=23% Similarity=0.518 Sum_probs=44.0
Q ss_pred CCCHHHHHHHHHHHHHhCcc---hHHHHHHhCCCCHHHHHHHHHHHHHHHH
Q 021861 28 KWTEEEHQRFLDALKMYGRG---WRQIEEHVGTKTAVQIRSHAQKFFSKVV 75 (306)
Q Consensus 28 ~WT~EEh~lFLEaLe~yGrg---Wk~IAe~VgTRT~~QVRSHaQKYF~kl~ 75 (306)
.++..+-..||.+|-+||-+ |+-+-..+..||..+++.++--|+.+|.
T Consensus 40 GFn~rQR~~Fln~vMR~G~~~f~~~w~~~~Lr~Ks~~ei~aY~~LFm~HL~ 90 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRYGMGAFDWKWFVPRLRGKSEKEIRAYGSLFMRHLC 90 (145)
T ss_pred ccCHHHHHHHHHHHHHHCcCcccchHHhhhhccccHHHHHHHHHHHHHHhc
Confidence 57899999999999999996 9999999999999999999988888875
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=67.21 E-value=10 Score=39.53 Aligned_cols=53 Identities=6% Similarity=-0.016 Sum_probs=45.9
Q ss_pred cccCCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 021861 22 ITKQREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKV 74 (306)
Q Consensus 22 itk~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl 74 (306)
+-+.+..||.+|..+++.+|++||++..-|+..||.++..|+..-...|-++.
T Consensus 365 ~c~~n~~~~T~~~la~v~~I~~~~~~~~pl~wrik~t~cmee~e~l~~~~Rr~ 417 (534)
T KOG1194|consen 365 TCRMNRCFDTPAALALIDNIKRKHHMCVPLVWRVKQTKCMEENEILNEEARRQ 417 (534)
T ss_pred hhhhccccCcHHHHHHHHHHHHhccCcchhhhHhcCcchhhHHHHHHHHHHHH
Confidence 33556899999999999999999999999999999999999998776665543
No 51
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=66.18 E-value=18 Score=36.15 Aligned_cols=53 Identities=21% Similarity=0.427 Sum_probs=42.5
Q ss_pred CCCCCCHHHHHHHHHHHHHh-Ccc---hHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Q 021861 25 QREKWTEEEHQRFLDALKMY-GRG---WRQIEEHVGTKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 25 ~r~~WT~EEh~lFLEaLe~y-Grg---Wk~IAe~VgTRT~~QVRSHaQKYF~kl~r~ 77 (306)
.-..||..|...+|.+|+-- |.. -..|++.+.+|+..+|+..-|..-.++.|+
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvare 76 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVARE 76 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHHH
Confidence 35689999999999999865 443 556788999999999999888776666555
No 52
>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=64.54 E-value=27 Score=24.41 Aligned_cols=37 Identities=22% Similarity=0.461 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHH
Q 021861 32 EEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQK 69 (306)
Q Consensus 32 EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQK 69 (306)
+=+.++|..|+.-|+- |..||+.+|- +...|..+.++
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lgl-S~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELGL-SESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHTS--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHCc-CHHHHHHHHHH
Confidence 4578899999999998 9999999974 56667666554
No 53
>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=63.02 E-value=25 Score=24.42 Aligned_cols=39 Identities=10% Similarity=0.202 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHH
Q 021861 33 EHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFS 72 (306)
Q Consensus 33 Eh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~ 72 (306)
++...+...-..|..|++||+.+| .|...|+.+.++=..
T Consensus 14 ~~r~i~~l~~~~g~s~~eIa~~l~-~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 14 RQREIFLLRYFQGMSYAEIAEILG-ISESTVKRRLRRARK 52 (54)
T ss_dssp HHHHHHHHHHTS---HHHHHHHCT-S-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHC-cCHHHHHHHHHHHHh
Confidence 344444444466778999999986 788888887665433
No 54
>smart00595 MADF subfamily of SANT domain.
Probab=62.41 E-value=14 Score=28.08 Aligned_cols=23 Identities=17% Similarity=0.527 Sum_probs=20.0
Q ss_pred chHHHHHHhCCCCHHHHHHHHHHH
Q 021861 47 GWRQIEEHVGTKTAVQIRSHAQKF 70 (306)
Q Consensus 47 gWk~IAe~VgTRT~~QVRSHaQKY 70 (306)
.|..||..+|. |..+|+.+|...
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 39999999988 999999988763
No 55
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=61.82 E-value=34 Score=27.95 Aligned_cols=41 Identities=20% Similarity=0.348 Sum_probs=29.4
Q ss_pred CCCCHHHHHHHHHHHHHh----Cc----chHHHHHHhCC-----CCHHHHHHHH
Q 021861 27 EKWTEEEHQRFLDALKMY----GR----GWRQIEEHVGT-----KTAVQIRSHA 67 (306)
Q Consensus 27 ~~WT~EEh~lFLEaLe~y----Gr----gWk~IAe~VgT-----RT~~QVRSHa 67 (306)
..||+|+|..+|+||..| |. +|...-++|.. =|..|+..-.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~Ki 58 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKI 58 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHH
Confidence 469999999999999999 74 36555555543 3667766543
No 56
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=58.82 E-value=18 Score=40.16 Aligned_cols=60 Identities=23% Similarity=0.424 Sum_probs=50.7
Q ss_pred CCcccccCCCCCCHHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHHHHHHhh
Q 021861 18 KPYTITKQREKWTEEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFSKVVRES 78 (306)
Q Consensus 18 KPytitk~r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~kl~r~~ 78 (306)
|+.-....-..||+.+=..|+.|.++||++ -..||.-|-. |+..|..++.-||.++.+.+
T Consensus 787 k~~ll~~gft~w~k~df~~fi~a~eKygr~di~~ia~~~e~-~~eev~~y~rvfwer~~el~ 847 (971)
T KOG0385|consen 787 KEELLSQGFTNWTKRDFNQFIKANEKYGRDDIENIAAEVEG-TPEEVGEYARVFWERLEELS 847 (971)
T ss_pred hhhhhhccccchhhhhHHHHHHHhhccCcchhhhhHHhhcC-CHHHHHHHHHHHHHHHHHhh
Confidence 333344556789999999999999999999 9999988777 99999999999999887664
No 57
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=55.71 E-value=27 Score=32.54 Aligned_cols=47 Identities=13% Similarity=0.183 Sum_probs=36.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcc---hHHHH-----HHhCCCCHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRG---WRQIE-----EHVGTKTAVQIRSHAQKF 70 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrg---Wk~IA-----e~VgTRT~~QVRSHaQKY 70 (306)
..+..||.+|+++|.......... |.+|= -|-.+||+.+...||+..
T Consensus 71 q~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 71 QSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred cccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 357899999999999977665433 88772 356789999999999943
No 58
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=55.07 E-value=25 Score=29.90 Aligned_cols=38 Identities=18% Similarity=0.351 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHH
Q 021861 31 EEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQK 69 (306)
Q Consensus 31 ~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQK 69 (306)
++-+.++|++|++-|+- |..||+.+|- +...|+.+.++
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lgl-S~~tV~~Ri~r 46 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFGV-SPGTIHVRVEK 46 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHCc-CHHHHHHHHHH
Confidence 46789999999999998 9999999964 66677776443
No 59
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=53.79 E-value=51 Score=25.45 Aligned_cols=47 Identities=17% Similarity=0.283 Sum_probs=31.5
Q ss_pred CCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Q 021861 28 KWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKVVR 76 (306)
Q Consensus 28 ~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~r 76 (306)
..++.|...|... -..|..+..||+.+|- +...|+.+.++-..++.+
T Consensus 110 ~L~~~~~~ii~~~-~~~g~s~~eIA~~l~~-s~~~v~~~~~~~~~kl~~ 156 (158)
T TIGR02937 110 KLPEREREVLVLR-YLEGLSYKEIAEILGI-SVGTVKRRLKRARKKLRE 156 (158)
T ss_pred hCCHHHHHHHhhH-HhcCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHHh
Confidence 4555555554332 2347779999999986 777788777777666643
No 60
>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=49.63 E-value=36 Score=29.80 Aligned_cols=46 Identities=15% Similarity=0.272 Sum_probs=37.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCcchHHHHHHhC----CCCHHHHHHHHHHH
Q 021861 25 QREKWTEEEHQRFLDALKMYGRGWRQIEEHVG----TKTAVQIRSHAQKF 70 (306)
Q Consensus 25 ~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~Vg----TRT~~QVRSHaQKY 70 (306)
...+=|..|...+...|++||.+++.++.-.. -.|+.||+....+|
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34567788888888999999999999996444 38999999877766
No 61
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=48.37 E-value=18 Score=37.13 Aligned_cols=53 Identities=15% Similarity=0.331 Sum_probs=45.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCcchHHHHHH-----hCC-CCHHHHHHHHHHHHHHHHHhh
Q 021861 26 REKWTEEEHQRFLDALKMYGRGWRQIEEH-----VGT-KTAVQIRSHAQKFFSKVVRES 78 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrgWk~IAe~-----VgT-RT~~QVRSHaQKYF~kl~r~~ 78 (306)
...||.||-+-|.+..+.|...|--||+. .++ ||....+.+|-....++-+..
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr 188 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR 188 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence 35699999999999999999999999953 666 999999999877777776554
No 62
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=46.27 E-value=41 Score=29.02 Aligned_cols=37 Identities=16% Similarity=0.256 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHH
Q 021861 31 EEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQ 68 (306)
Q Consensus 31 ~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQ 68 (306)
++-+.++|.+|+.-|+- |..||+.+|- +...|+.|.+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lgl-S~~tv~~Ri~ 50 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVGL-SPTPCLERVR 50 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHCc-CHHHHHHHHH
Confidence 67899999999999998 9999999973 5556666544
No 63
>PF12451 VPS11_C: Vacuolar protein sorting protein 11 C terminal; InterPro: IPR024763 Vps 11 is one of the evolutionarily conserved class C vacuolar protein sorting genes (c-vps: vps11, vps16, vps18, and vps33), whose products physically associate to form the c-vps protein complex required for vesicle docking and fusion. This entry represents the C-terminal domain of vps11.
Probab=45.47 E-value=21 Score=25.97 Aligned_cols=27 Identities=22% Similarity=0.410 Sum_probs=23.5
Q ss_pred CHHHHHHHHHHHHHhCcchHHHHHHhC
Q 021861 30 TEEEHQRFLDALKMYGRGWRQIEEHVG 56 (306)
Q Consensus 30 T~EEh~lFLEaLe~yGrgWk~IAe~Vg 56 (306)
..+.|++|...|+.-..+++-||+|+|
T Consensus 17 ~~~~~d~F~~~L~~s~D~F~vIaeyfG 43 (49)
T PF12451_consen 17 SADQHDLFFKQLEESEDRFSVIAEYFG 43 (49)
T ss_pred HhhcHHHHHHHHHhCCCCchhHHHHHc
Confidence 456799999999877778999999997
No 64
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=44.02 E-value=1.1e+02 Score=21.18 Aligned_cols=30 Identities=20% Similarity=0.355 Sum_probs=20.9
Q ss_pred CcchHHHHHHhCCCCHHHHHHHHHHHHHHHH
Q 021861 45 GRGWRQIEEHVGTKTAVQIRSHAQKFFSKVV 75 (306)
Q Consensus 45 GrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~ 75 (306)
|..+..||+.+|- +...|+.+-.+-+.++.
T Consensus 20 ~~t~~eIa~~lg~-s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 20 GLTLEEIAERLGI-SRSTVRRILKRALKKLR 49 (50)
T ss_dssp T-SHHHHHHHHTS-CHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHCC-cHHHHHHHHHHHHHHhc
Confidence 4459999999875 66777766666666654
No 65
>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=43.33 E-value=16 Score=28.83 Aligned_cols=17 Identities=18% Similarity=0.388 Sum_probs=9.5
Q ss_pred cCCCCCCHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDA 40 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEa 40 (306)
...+-||.|++..|+.+
T Consensus 45 n~~GiWT~eDD~~L~~~ 61 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSG 61 (87)
T ss_dssp T-TT---HHHHHHHTS-
T ss_pred CCCCCcCHHHHHHHHcC
Confidence 45789999999998443
No 66
>PHA00442 host recBCD nuclease inhibitor
Probab=42.40 E-value=15 Score=28.33 Aligned_cols=32 Identities=31% Similarity=0.655 Sum_probs=25.4
Q ss_pred ccCCCCC--------CHHHHHHHHHHHHHhCcc-hHHHHHH
Q 021861 23 TKQREKW--------TEEEHQRFLDALKMYGRG-WRQIEEH 54 (306)
Q Consensus 23 tk~r~~W--------T~EEh~lFLEaLe~yGrg-Wk~IAe~ 54 (306)
+..|..| +-|-+..||+||+-.|-+ |..+.+.
T Consensus 9 titRd~wnd~q~yidsLek~~~~L~~Lea~GVDNW~Gy~eA 49 (59)
T PHA00442 9 TITRDAWNDMQGYIDSLEKDNEFLKALRACGVDNWDGYMDA 49 (59)
T ss_pred eecHHHHHHHHHHHHHHHHhhHHHHHHHHcCCcchhhHHHH
Confidence 3456677 557788999999999998 9988654
No 67
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=41.06 E-value=40 Score=29.96 Aligned_cols=37 Identities=24% Similarity=0.360 Sum_probs=25.9
Q ss_pred CCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHH
Q 021861 28 KWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRS 65 (306)
Q Consensus 28 ~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRS 65 (306)
.||+|+-++|.+ |-.-|..-.+||+.+|..|...|.-
T Consensus 2 ~Wtde~~~~L~~-lw~~G~SasqIA~~lg~vsRnAViG 38 (162)
T PF07750_consen 2 SWTDERVERLRK-LWAEGLSASQIARQLGGVSRNAVIG 38 (162)
T ss_pred CCCHHHHHHHHH-HHHcCCCHHHHHHHhCCcchhhhhh
Confidence 599888776554 4466777999999999444444443
No 68
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=36.67 E-value=16 Score=42.83 Aligned_cols=43 Identities=30% Similarity=0.322 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHHHH
Q 021861 32 EEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFSKV 74 (306)
Q Consensus 32 EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~kl 74 (306)
||-+.--.||..+|+.|..|+..|+++|..||.+-+-||-.++
T Consensus 360 ee~ev~k~Glveh~R~~aai~p~vvt~tes~c~na~a~~~~r~ 402 (1672)
T KOG1878|consen 360 EEMEVAKSGLVEHGREWAAILPKVVTKTESQCKNAYAKYKNRH 402 (1672)
T ss_pred hhhhhhhccchhhhhhHHHhcCccceecccchhhHHHhhhhhh
Confidence 5666778889999999999999999999999998655554444
No 69
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=36.19 E-value=1.2e+02 Score=19.44 Aligned_cols=41 Identities=20% Similarity=0.243 Sum_probs=25.1
Q ss_pred CCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHH
Q 021861 28 KWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKF 70 (306)
Q Consensus 28 ~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKY 70 (306)
.++.++ ..++..+-..|..++.||+.+| -+..+|+.+-++.
T Consensus 10 ~l~~~~-~~~~~~~~~~~~~~~~ia~~~~-~s~~~i~~~~~~~ 50 (55)
T cd06171 10 KLPERE-REVILLRFGEGLSYEEIAEILG-ISRSTVRQRLHRA 50 (55)
T ss_pred hCCHHH-HHHHHHHHhcCCCHHHHHHHHC-cCHHHHHHHHHHH
Confidence 455554 4444555456777999999876 4555665554443
No 70
>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=35.12 E-value=22 Score=32.64 Aligned_cols=28 Identities=25% Similarity=0.598 Sum_probs=25.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCcc-hHHHHH
Q 021861 26 REKWTEEEHQRFLDALKMYGRG-WRQIEE 53 (306)
Q Consensus 26 r~~WT~EEh~lFLEaLe~yGrg-Wk~IAe 53 (306)
..-|-.+-|..||.|+..||-+ |.+|..
T Consensus 3 ~~iw~r~hdywll~gi~~hgy~rwqdi~n 31 (173)
T PF08074_consen 3 YEIWHRRHDYWLLAGIVKHGYGRWQDIQN 31 (173)
T ss_pred hhhhhhhhhHHHHhHHhhccchhHHHHhc
Confidence 4679999999999999999999 999963
No 71
>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=35.05 E-value=40 Score=28.10 Aligned_cols=24 Identities=21% Similarity=0.648 Sum_probs=18.4
Q ss_pred CHHHHHHHHHHHHHhCcchHHHHHHhC
Q 021861 30 TEEEHQRFLDALKMYGRGWRQIEEHVG 56 (306)
Q Consensus 30 T~EEh~lFLEaLe~yGrgWk~IAe~Vg 56 (306)
|.++.+.|-+.| |++|+.++..+|
T Consensus 1 ~~~~~q~~~~nv---Gr~WK~laR~Lg 24 (90)
T cd08780 1 TPADQQHFAKSV---GKKWKPVGRSLQ 24 (90)
T ss_pred CHHHHHHHHHHH---hHHHHHHHHHHc
Confidence 456666666544 899999999998
No 72
>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=32.36 E-value=86 Score=22.88 Aligned_cols=24 Identities=13% Similarity=0.425 Sum_probs=19.8
Q ss_pred chHHHHHHhCC-CCHHHHHHHHHHH
Q 021861 47 GWRQIEEHVGT-KTAVQIRSHAQKF 70 (306)
Q Consensus 47 gWk~IAe~VgT-RT~~QVRSHaQKY 70 (306)
.|..||..++. -++.+|+.+|+..
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~L 52 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNL 52 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHH
Confidence 39999999985 5788899988874
No 73
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=31.67 E-value=28 Score=40.28 Aligned_cols=53 Identities=19% Similarity=0.418 Sum_probs=38.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCcc-hHHHH--------HHhC----CCCHHHHHHHHHHHHHHHHHhh
Q 021861 25 QREKWTEEEHQRFLDALKMYGRG-WRQIE--------EHVG----TKTAVQIRSHAQKFFSKVVRES 78 (306)
Q Consensus 25 ~r~~WT~EEh~lFLEaLe~yGrg-Wk~IA--------e~Vg----TRT~~QVRSHaQKYF~kl~r~~ 78 (306)
....|..+++..||-||-+||.| |..|- +-|. --.+.|...++ .|+..+.+..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dKi~~~e~~P~a~~L~~R~-~yLls~~~~~ 1197 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDKIFLVETVPQAKHLQRRA-DYLLSLLRKH 1197 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhhhcccccCCchHHHHHHH-HHHHHHHhhc
Confidence 45789999999999999999999 99983 2222 23455666654 4777776654
No 74
>PF10854 DUF2649: Protein of unknown function (DUF2649); InterPro: IPR021217 This entry is represented by Spiroplasma phage 1-C74, Orf10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members in this family of proteins are also annotated as Plectrovirus orf 10 transmembrane proteins however currently no function is known.
Probab=31.61 E-value=23 Score=27.85 Aligned_cols=17 Identities=47% Similarity=1.165 Sum_probs=14.3
Q ss_pred eeehhHHHHHHhhhhhc
Q 021861 286 SIWIHIYYLGWFLAIVI 302 (306)
Q Consensus 286 ~~~~~~~~~~~~~~~~~ 302 (306)
.|||-|++|-||+...+
T Consensus 43 GiWiVilFLtWf~lwm~ 59 (67)
T PF10854_consen 43 GIWIVILFLTWFLLWMV 59 (67)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 58999999999987643
No 75
>KOG1019 consensus Retinoblastoma pathway protein LIN-9/chromatin-associated protein Aly [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=31.50 E-value=30 Score=38.30 Aligned_cols=60 Identities=27% Similarity=0.427 Sum_probs=45.5
Q ss_pred cccCCCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHHhCcchHHHHHHhC-CCCHHHHHH
Q 021861 6 YSFENDSLPKVRKPYTITKQREKWTEEEHQRFLDALKMYGRGWRQIEEHVG-TKTAVQIRS 65 (306)
Q Consensus 6 ~s~g~~~~~K~RKPytitk~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~Vg-TRT~~QVRS 65 (306)
+.++.....+.|++..--+....|+..|-.+|+++..++|++|+..+..+. +|...++..
T Consensus 24 ~~~~~~sKt~qR~~~~~d~l~pq~s~~~~e~~~k~~~k~~~~~r~~~~~~~~~R~s~~vel 84 (837)
T KOG1019|consen 24 YDSGSTSKTPQRKRKLADKLSPQWSKLELERFYKAYRKRGREWRKSPAAVRSTRSSNMVEL 84 (837)
T ss_pred ccccccccCCCCCcccccccCcchhHhhhhhhhhcccccccccccccccccchhhhhHHHH
Confidence 334444444556655555667799999999999999999999999987654 588888765
No 76
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=30.39 E-value=1.3e+02 Score=23.44 Aligned_cols=37 Identities=16% Similarity=0.347 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHH
Q 021861 31 EEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQ 68 (306)
Q Consensus 31 ~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQ 68 (306)
++.|.++|.+|...|+- |..||+.+| -+...|+.+.+
T Consensus 2 d~~D~~il~~L~~~~~~~~~~la~~l~-~s~~tv~~~l~ 39 (108)
T smart00344 2 DEIDRKILEELQKDARISLAELAKKVG-LSPSTVHNRVK 39 (108)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHHHHC-cCHHHHHHHHH
Confidence 35788999999999887 999999985 46667776644
No 77
>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=26.76 E-value=99 Score=21.14 Aligned_cols=28 Identities=21% Similarity=0.248 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhCcchHHHHHHhC-CCC
Q 021861 32 EEHQRFLDALKMYGRGWRQIEEHVG-TKT 59 (306)
Q Consensus 32 EEh~lFLEaLe~yGrgWk~IAe~Vg-TRT 59 (306)
=|...+.++|+.+|.+....|+.+| +|+
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~Lgisr~ 33 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLLGISRR 33 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHHTS-HH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHCCCHH
Confidence 3778899999999999999999998 454
No 78
>PF06967 Mo-nitro_C: Mo-dependent nitrogenase C-terminus; InterPro: IPR009717 This entry represents the C terminus (approximately 80 residues) of a number of bacterial Mo-dependent nitrogenases. These are involved in nitrogen fixation in cyanobacteria [].
Probab=26.54 E-value=49 Score=27.31 Aligned_cols=21 Identities=38% Similarity=0.512 Sum_probs=15.1
Q ss_pred CCcceEEEeceEE-EecCCCCC
Q 021861 232 PSCTSIKLFGRTV-LVSDSWKP 252 (306)
Q Consensus 232 ~~~~slkLFGktv-~v~d~~k~ 252 (306)
+-.+.|+|||++| -++-.||-
T Consensus 33 PFERdi~lfGr~l~hIPPLCKL 54 (84)
T PF06967_consen 33 PFERDIKLFGRKLFHIPPLCKL 54 (84)
T ss_pred CCcceEEECCeeEEecCCCCcc
Confidence 4457799999997 45555663
No 79
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=25.68 E-value=2.9e+02 Score=22.01 Aligned_cols=30 Identities=20% Similarity=0.500 Sum_probs=21.5
Q ss_pred CcchHHHHHHhCCCCHHHHHHHHHHHHHHHH
Q 021861 45 GRGWRQIEEHVGTKTAVQIRSHAQKFFSKVV 75 (306)
Q Consensus 45 GrgWk~IAe~VgTRT~~QVRSHaQKYF~kl~ 75 (306)
|..++.||+.+|- +...|+.+...-..++.
T Consensus 129 ~~~~~eIA~~lgi-s~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 129 GKSYKEIAEELGI-SVKTVEYHISKALKELR 158 (161)
T ss_pred CCCHHHHHHHHCC-CHHHHHHHHHHHHHHHH
Confidence 6669999998874 77777776665555554
No 80
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=24.08 E-value=1.4e+02 Score=20.30 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHH
Q 021861 31 EEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRS 65 (306)
Q Consensus 31 ~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRS 65 (306)
.++....+..+.. |...+.||+.+| -+...|..
T Consensus 4 ~~~R~~ii~l~~~-G~s~~~ia~~lg-vs~~Tv~~ 36 (50)
T PF13384_consen 4 EERRAQIIRLLRE-GWSIREIAKRLG-VSRSTVYR 36 (50)
T ss_dssp ------HHHHHHH-T--HHHHHHHHT-S-HHHHHH
T ss_pred hhHHHHHHHHHHC-CCCHHHHHHHHC-cCHHHHHH
Confidence 4445556666666 888999999997 44444443
No 81
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=22.27 E-value=2.5e+02 Score=23.00 Aligned_cols=42 Identities=19% Similarity=0.291 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHhCcc-hHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Q 021861 31 EEEHQRFLDALKMYGRG-WRQIEEHVGTKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 31 ~EEh~lFLEaLe~yGrg-Wk~IAe~VgTRT~~QVRSHaQKYF~kl~r~ 77 (306)
++-+.+.|+.|+.-|+. ++.||+.+| -++.-|+.+ ..+|.+.
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lg-lS~~~v~~R----i~~L~~~ 49 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVG-LSPSTVLRR----IKRLEEE 49 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHC-CCHHHHHHH----HHHHHHC
Confidence 46688999999999998 999999998 566667765 4445444
No 82
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=20.76 E-value=2.9e+02 Score=20.06 Aligned_cols=47 Identities=11% Similarity=0.227 Sum_probs=32.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCcchHHHHHHhCCCCHHHHHHHHHHHHH
Q 021861 24 KQREKWTEEEHQRFLDALKMYGRGWRQIEEHVGTKTAVQIRSHAQKFFS 72 (306)
Q Consensus 24 k~r~~WT~EEh~lFLEaLe~yGrgWk~IAe~VgTRT~~QVRSHaQKYF~ 72 (306)
+.+..||+|+-...+..+..-|.....||.-.|= ++.++.. |.+-|.
T Consensus 2 ~~r~~ys~e~K~~~v~~~~~~g~sv~~va~~~gi-~~~~l~~-W~~~~~ 48 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREYLESGESVSEVAREYGI-SPSTLYN-WRKQYR 48 (76)
T ss_dssp -SS----HHHHHHHHHHHHHHHCHHHHHHHHHTS--HHHHHH-HHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHCCCceEeeeccccc-ccccccH-HHHHHh
Confidence 3567899999999999998888889999988877 6666654 555544
No 83
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=20.52 E-value=2.4e+02 Score=21.40 Aligned_cols=33 Identities=24% Similarity=0.443 Sum_probs=23.5
Q ss_pred HHHhCcc--hHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Q 021861 41 LKMYGRG--WRQIEEHVGTKTAVQIRSHAQKFFSKVVRE 77 (306)
Q Consensus 41 Le~yGrg--Wk~IAe~VgTRT~~QVRSHaQKYF~kl~r~ 77 (306)
++.+|.. -++|++++|-++..-|..| +..|.+.
T Consensus 19 ~~~~G~~Pt~rEIa~~~g~~S~~tv~~~----L~~Le~k 53 (65)
T PF01726_consen 19 IEENGYPPTVREIAEALGLKSTSTVQRH----LKALERK 53 (65)
T ss_dssp HHHHSS---HHHHHHHHTSSSHHHHHHH----HHHHHHT
T ss_pred HHHcCCCCCHHHHHHHhCCCChHHHHHH----HHHHHHC
Confidence 3445766 8999999999988877765 5566543
No 84
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=20.19 E-value=69 Score=25.10 Aligned_cols=19 Identities=37% Similarity=0.705 Sum_probs=15.6
Q ss_pred HHHHHHHHHhCcchHHHHH
Q 021861 35 QRFLDALKMYGRGWRQIEE 53 (306)
Q Consensus 35 ~lFLEaLe~yGrgWk~IAe 53 (306)
..+.+.|+.||.+|.-|.+
T Consensus 30 ~vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 30 PVLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHHcCCchhhhc
Confidence 4567889999999999974
No 85
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=20.16 E-value=4.1e+02 Score=21.71 Aligned_cols=29 Identities=24% Similarity=0.371 Sum_probs=18.1
Q ss_pred hCcchHHHHHHhCCCCHHHHHHH---HHHHHHH
Q 021861 44 YGRGWRQIEEHVGTKTAVQIRSH---AQKFFSK 73 (306)
Q Consensus 44 yGrgWk~IAe~VgTRT~~QVRSH---aQKYF~k 73 (306)
.|..++.||+.+|- +...|+.+ +.+.+.+
T Consensus 143 ~~~s~~eIA~~lgi-s~~tV~~~l~ra~~~Lr~ 174 (182)
T PRK09652 143 EGLSYEEIAEIMGC-PIGTVRSRIFRAREALRA 174 (182)
T ss_pred cCCCHHHHHHHHCC-CHHHHHHHHHHHHHHHHH
Confidence 36679999999874 44555544 4444443
No 86
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=20.13 E-value=76 Score=25.02 Aligned_cols=26 Identities=31% Similarity=0.658 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHhCcchHHHHHHhCC
Q 021861 31 EEEHQRFLDALKMYGRGWRQIEEHVGT 57 (306)
Q Consensus 31 ~EEh~lFLEaLe~yGrgWk~IAe~VgT 57 (306)
.||=+++|..= .-|++|+..|..+|-
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~LG~ 27 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGELGY 27 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHcCC
Confidence 46666777421 568889999999985
Done!