Query 041475
Match_columns 153
No_of_seqs 134 out of 550
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 07:30:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041475.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041475hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00249 Myb_DNA-binding: Myb- 99.4 6.6E-13 1.4E-17 84.8 6.1 45 59-106 2-47 (48)
2 smart00717 SANT SANT SWI3, AD 99.2 7.1E-11 1.5E-15 71.8 6.1 46 59-107 2-47 (49)
3 PLN03212 Transcription repress 99.1 8.9E-11 1.9E-15 99.6 7.1 53 56-111 23-77 (249)
4 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.6E-10 3.5E-15 69.5 5.9 44 60-106 1-44 (45)
5 PF13921 Myb_DNA-bind_6: Myb-l 99.1 7.9E-10 1.7E-14 72.6 7.1 42 61-106 1-43 (60)
6 KOG0048 Transcription factor, 98.9 9.2E-10 2E-14 90.9 4.4 51 58-111 9-61 (238)
7 PLN03091 hypothetical protein; 98.8 4.1E-09 8.9E-14 95.6 6.0 50 58-110 14-65 (459)
8 PLN03212 Transcription repress 98.5 2E-07 4.3E-12 79.3 6.2 50 55-108 75-124 (249)
9 KOG0724 Zuotin and related mol 98.5 1.8E-07 3.9E-12 79.7 5.7 68 58-125 31-103 (335)
10 PLN03091 hypothetical protein; 98.4 8.5E-07 1.8E-11 80.8 6.9 50 55-108 64-113 (459)
11 KOG0048 Transcription factor, 98.2 6.2E-06 1.3E-10 68.2 7.6 56 52-111 56-112 (238)
12 TIGR01557 myb_SHAQKYF myb-like 97.9 3.3E-05 7.2E-10 52.2 5.9 46 59-107 4-54 (57)
13 KOG0457 Histone acetyltransfer 97.9 2E-05 4.3E-10 71.7 6.3 45 58-105 72-116 (438)
14 COG5259 RSC8 RSC chromatin rem 97.7 3.7E-05 8E-10 70.9 4.6 45 58-106 279-323 (531)
15 KOG1279 Chromatin remodeling f 97.7 7.6E-05 1.6E-09 69.0 5.8 48 55-106 250-297 (506)
16 KOG0049 Transcription factor, 97.7 8.5E-05 1.8E-09 71.2 6.0 51 52-105 354-404 (939)
17 PF13837 Myb_DNA-bind_4: Myb/S 97.5 0.00023 5E-09 49.2 5.2 58 59-116 2-73 (90)
18 KOG0049 Transcription factor, 97.4 0.00039 8.5E-09 66.8 7.4 81 29-112 224-305 (939)
19 KOG4167 Predicted DNA-binding 97.4 0.00033 7.2E-09 67.7 6.0 44 57-104 618-661 (907)
20 COG5114 Histone acetyltransfer 96.9 0.0017 3.6E-08 58.3 5.7 58 58-123 63-120 (432)
21 PF13873 Myb_DNA-bind_5: Myb/S 96.7 0.0067 1.5E-07 41.5 5.9 55 59-113 3-75 (78)
22 KOG0050 mRNA splicing protein 96.6 0.0027 5.7E-08 59.6 4.8 52 58-112 7-59 (617)
23 KOG0050 mRNA splicing protein 96.6 0.005 1.1E-07 57.9 6.1 57 55-116 56-112 (617)
24 COG5147 REB1 Myb superfamily p 96.2 0.0071 1.5E-07 56.3 4.8 54 55-112 69-122 (512)
25 KOG0051 RNA polymerase I termi 95.8 0.021 4.5E-07 54.3 6.2 70 30-106 358-427 (607)
26 PF09111 SLIDE: SLIDE; InterP 95.6 0.045 9.7E-07 41.9 6.4 54 58-111 49-114 (118)
27 PF12776 Myb_DNA-bind_3: Myb/S 94.4 0.19 4.1E-06 35.0 6.2 56 60-115 1-70 (96)
28 PLN03142 Probable chromatin-re 94.2 0.11 2.4E-06 52.0 6.5 57 57-116 823-889 (1033)
29 COG5118 BDP1 Transcription ini 93.8 0.13 2.9E-06 47.2 5.7 49 53-105 360-408 (507)
30 TIGR02894 DNA_bind_RsfA transc 92.8 0.13 2.8E-06 41.7 3.6 47 59-106 5-54 (161)
31 KOG4282 Transcription factor G 92.8 0.41 8.9E-06 41.3 6.8 60 58-117 54-123 (345)
32 KOG1194 Predicted DNA-binding 92.7 0.23 5E-06 46.4 5.4 49 54-106 183-231 (534)
33 smart00595 MADF subfamily of S 92.5 0.22 4.8E-06 34.4 4.0 28 82-110 28-55 (89)
34 PRK13923 putative spore coat p 91.4 0.41 8.8E-06 39.1 4.9 57 59-116 6-70 (170)
35 COG5147 REB1 Myb superfamily p 91.1 0.12 2.7E-06 48.3 1.8 50 59-111 21-71 (512)
36 KOG4329 DNA-binding protein [G 90.5 0.44 9.4E-06 43.7 4.7 44 57-104 276-320 (445)
37 KOG0051 RNA polymerase I termi 89.4 0.54 1.2E-05 45.0 4.6 73 30-107 413-507 (607)
38 KOG4468 Polycomb-group transcr 88.8 0.91 2E-05 44.0 5.6 56 57-116 87-152 (782)
39 PF04504 DUF573: Protein of un 87.8 3.7 8E-05 30.2 7.2 53 59-111 5-66 (98)
40 PF10545 MADF_DNA_bdg: Alcohol 87.5 0.98 2.1E-05 30.0 3.8 31 82-112 27-58 (85)
41 PF11035 SnAPC_2_like: Small n 87.1 2.7 5.9E-05 37.8 7.2 54 57-111 20-74 (344)
42 KOG3554 Histone deacetylase co 87.0 1.4 3E-05 41.9 5.5 73 51-127 278-363 (693)
43 PF08914 Myb_DNA-bind_2: Rap1 86.7 1.8 3.8E-05 29.9 4.7 47 59-105 3-55 (65)
44 PF13404 HTH_AsnC-type: AsnC-t 86.3 3.1 6.8E-05 26.1 5.3 39 65-107 4-42 (42)
45 KOG2656 DNA methyltransferase 86.2 0.3 6.5E-06 44.9 0.8 49 59-111 131-185 (445)
46 PF13325 MCRS_N: N-terminal re 78.5 3.7 8.1E-05 34.3 4.4 78 60-146 1-84 (199)
47 TIGR01557 myb_SHAQKYF myb-like 78.1 1 2.2E-05 30.3 0.8 17 135-151 3-19 (57)
48 PRK11179 DNA-binding transcrip 75.7 8.9 0.00019 29.4 5.6 41 64-108 9-49 (153)
49 PRK11169 leucine-responsive tr 71.5 11 0.00025 29.1 5.3 41 64-108 14-54 (164)
50 PF11626 Rap1_C: TRF2-interact 67.6 6.7 0.00015 27.9 3.0 15 58-72 47-61 (87)
51 PF00046 Homeobox: Homeobox do 67.1 25 0.00054 22.0 5.4 46 59-105 5-50 (57)
52 PF00674 DUP: DUP family; Int 65.1 8.3 0.00018 28.3 3.2 41 66-106 44-98 (108)
53 KOG3841 TEF-1 and related tran 64.0 25 0.00054 32.7 6.6 51 56-106 74-141 (455)
54 PF05263 DUF722: Protein of un 63.4 22 0.00048 27.8 5.4 47 61-111 82-128 (130)
55 PLN03142 Probable chromatin-re 63.2 20 0.00042 36.5 6.3 51 58-111 926-988 (1033)
56 cd00086 homeodomain Homeodomai 62.9 34 0.00073 21.1 6.6 48 58-106 4-51 (59)
57 KOG2009 Transcription initiati 62.8 6.9 0.00015 37.5 3.0 46 55-104 406-451 (584)
58 smart00426 TEA TEA domain. 62.0 13 0.00029 26.3 3.6 22 57-78 2-23 (68)
59 PF06461 DUF1086: Domain of Un 60.9 19 0.0004 29.0 4.7 44 60-104 40-83 (145)
60 PF07750 GcrA: GcrA cell cycle 60.2 12 0.00027 29.8 3.6 42 60-106 2-43 (162)
61 PLN03162 golden-2 like transcr 59.5 52 0.0011 30.8 7.9 54 57-111 236-291 (526)
62 PF13325 MCRS_N: N-terminal re 56.3 39 0.00085 28.3 6.0 50 57-107 72-126 (199)
63 smart00344 HTH_ASNC helix_turn 56.1 42 0.00091 23.5 5.5 41 64-108 3-43 (108)
64 COG1522 Lrp Transcriptional re 55.7 34 0.00075 25.3 5.2 41 65-109 9-49 (154)
65 PF10743 Phage_Cox: Regulatory 51.3 33 0.00072 25.4 4.3 48 72-131 4-51 (87)
66 smart00389 HOX Homeodomain. DN 48.6 62 0.0013 19.8 6.2 46 59-105 5-50 (56)
67 PF04545 Sigma70_r4: Sigma-70, 47.8 65 0.0014 19.8 6.1 44 62-111 6-49 (50)
68 PF01285 TEA: TEA/ATTS domain 46.5 22 0.00048 32.7 3.4 50 57-106 48-112 (431)
69 PF01466 Skp1: Skp1 family, di 44.7 24 0.00052 24.4 2.6 21 84-104 36-56 (78)
70 COG5269 ZUO1 Ribosome-associat 44.1 37 0.00081 30.6 4.3 50 57-106 244-299 (379)
71 KOG4559 Uncharacterized conser 44.0 69 0.0015 24.8 5.2 48 62-115 49-100 (120)
72 cd08307 Death_Pelle Death doma 42.5 24 0.00052 26.2 2.5 18 81-98 21-38 (97)
73 PF02724 CDC45: CDC45-like pro 41.5 16 0.00036 34.7 1.8 45 30-77 301-347 (622)
74 TIGR02937 sigma70-ECF RNA poly 40.2 1.1E+02 0.0025 21.0 5.6 29 82-111 127-155 (158)
75 PF07030 DUF1320: Protein of u 40.2 48 0.001 25.0 3.9 28 96-123 84-111 (130)
76 smart00501 BRIGHT BRIGHT, ARID 37.1 1.5E+02 0.0031 20.8 6.0 42 67-108 35-85 (93)
77 KOG1194 Predicted DNA-binding 36.9 24 0.00051 33.5 2.0 47 59-110 471-517 (534)
78 PLN02249 indole-3-acetic acid- 35.2 79 0.0017 30.2 5.3 75 63-144 36-127 (597)
79 PLN02247 indole-3-acetic acid- 34.5 86 0.0019 30.2 5.4 73 63-142 26-114 (606)
80 PRK11924 RNA polymerase sigma 33.6 1.5E+02 0.0033 21.6 5.6 45 66-111 116-170 (179)
81 COG4281 ACB Acyl-CoA-binding p 31.7 83 0.0018 23.3 3.8 31 82-113 54-84 (87)
82 PF04282 DUF438: Family of unk 31.7 41 0.00088 23.8 2.1 23 92-114 11-33 (71)
83 PF05049 IIGP: Interferon-indu 31.4 1.2E+02 0.0026 27.6 5.5 75 5-102 218-310 (376)
84 PLN02620 indole-3-acetic acid- 29.0 1.4E+02 0.0031 28.9 5.9 76 63-145 37-129 (612)
85 KOG0385 Chromatin remodeling c 28.9 1.3E+02 0.0029 30.6 5.7 91 57-151 794-911 (971)
86 PF04510 DUF577: Family of unk 28.9 43 0.00094 27.6 2.1 76 28-105 64-148 (174)
87 PF01388 ARID: ARID/BRIGHT DNA 28.8 96 0.0021 21.4 3.6 40 68-107 40-88 (92)
88 PF00196 GerE: Bacterial regul 26.6 1.7E+02 0.0037 18.5 4.3 44 61-111 4-47 (58)
89 TIGR02985 Sig70_bacteroi1 RNA 26.0 2.5E+02 0.0054 20.0 6.0 28 83-111 131-158 (161)
90 PF14164 YqzH: YqzH-like prote 24.4 54 0.0012 23.0 1.6 27 66-92 7-39 (64)
91 PF05524 PEP-utilisers_N: PEP- 24.0 55 0.0012 23.8 1.8 47 62-109 33-79 (123)
92 PF08281 Sigma70_r4_2: Sigma-7 23.0 1.9E+02 0.0042 17.7 5.6 23 83-106 28-50 (54)
93 COG3068 Uncharacterized protei 22.3 32 0.0007 28.6 0.3 64 39-112 117-180 (194)
94 PRK09646 RNA polymerase sigma 21.7 2.6E+02 0.0055 21.6 5.2 49 62-111 129-187 (194)
95 PF11112 PyocinActivator: Pyoc 21.5 1.4E+02 0.003 21.2 3.3 34 95-128 16-52 (76)
96 PF00887 ACBP: Acyl CoA bindin 21.3 92 0.002 21.7 2.4 22 90-111 62-83 (87)
97 TIGR02950 SigM_subfam RNA poly 21.2 3.3E+02 0.0071 19.6 6.1 44 67-111 97-150 (154)
98 PRK12541 RNA polymerase sigma 21.0 3.3E+02 0.0072 20.0 5.5 50 64-114 101-160 (161)
99 PF12451 VPS11_C: Vacuolar pro 21.0 71 0.0015 20.7 1.6 26 63-92 18-43 (49)
100 KOG2941 Beta-1,4-mannosyltrans 20.6 43 0.00094 31.1 0.7 22 56-77 259-281 (444)
101 PRK12522 RNA polymerase sigma 20.4 2.2E+02 0.0048 21.3 4.5 51 60-111 104-164 (173)
No 1
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.40 E-value=6.6e-13 Score=84.83 Aligned_cols=45 Identities=27% Similarity=0.677 Sum_probs=41.0
Q ss_pred CCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcC-CCCHHHHHHHHHHH
Q 041475 59 STWTAKQNKLFENALAIYDKDTPDRWHNLARAVG-GKTVEEVKRHYEML 106 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VP-GKT~kqcr~Ryk~L 106 (153)
..||.||++.|.+|+.+|+.+ +|.+||..|| |||..||+.||..+
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~---~W~~Ia~~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKD---NWKKIAKRMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTT---HHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCc---HHHHHHHHcCCCCCHHHHHHHHHhh
Confidence 479999999999999999975 8999999999 99999999999976
No 2
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.19 E-value=7.1e-11 Score=71.82 Aligned_cols=46 Identities=24% Similarity=0.647 Sum_probs=42.2
Q ss_pred CCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHH
Q 041475 59 STWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLA 107 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~ 107 (153)
..||.+|++.|..++.+|+. .+|..||..+|+||..||+.||..+.
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~---~~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGK---NNWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCc---CCHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 57999999999999999984 26999999999999999999999764
No 3
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.15 E-value=8.9e-11 Score=99.57 Aligned_cols=53 Identities=15% Similarity=0.369 Sum_probs=45.6
Q ss_pred CCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHc-CCCCHHHHHHHHH-HHHHhhh
Q 041475 56 IGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAV-GGKTVEEVKRHYE-MLAEDVS 111 (153)
Q Consensus 56 ~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~V-PGKT~kqcr~Ryk-~L~eDVk 111 (153)
.....||.|||+.|.+++++|+.. +|..||+.+ +|||.+||++||. +|.++|+
T Consensus 23 lKRg~WT~EEDe~L~~lV~kyG~~---nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~ 77 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKEGEG---RWRSLPKRAGLLRCGKSCRLRWMNYLRPSVK 77 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcc---cHHHHHHhhhcCCCcchHHHHHHHhhchhcc
Confidence 345689999999999999999864 799999998 5999999999999 5666553
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=99.13 E-value=1.6e-10 Score=69.47 Aligned_cols=44 Identities=25% Similarity=0.674 Sum_probs=40.8
Q ss_pred CCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 60 TWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 60 ~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
.||.+|++.|.+++.+|+. .+|..||+.+|+||..||+.||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~---~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK---NNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc---CCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 5999999999999999984 3699999999999999999999875
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=99.05 E-value=7.9e-10 Score=72.64 Aligned_cols=42 Identities=21% Similarity=0.624 Sum_probs=36.7
Q ss_pred CCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHH-H
Q 041475 61 WTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEM-L 106 (153)
Q Consensus 61 WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~-L 106 (153)
||.|||..|..++.+|+. .|.+||+.||.||..+|+.||.. |
T Consensus 1 WT~eEd~~L~~~~~~~g~----~W~~Ia~~l~~Rt~~~~~~r~~~~l 43 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN----DWKKIAEHLGNRTPKQCRNRWRNHL 43 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-----HHHHHHHSTTS-HHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCc----CHHHHHHHHCcCCHHHHHHHHHHHC
Confidence 999999999999999974 69999999966999999999998 5
No 6
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.93 E-value=9.2e-10 Score=90.89 Aligned_cols=51 Identities=14% Similarity=0.320 Sum_probs=48.3
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcC-CCCHHHHHHHHH-HHHHhhh
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVG-GKTVEEVKRHYE-MLAEDVS 111 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VP-GKT~kqcr~Ryk-~L~eDVk 111 (153)
.++||.|||..|...|.+|+++ +|..||..+| ||+.|+||.||. +|.+||+
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~---~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ik 61 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKH---NGTALPKLAGLRRCGKSCRLRWTNYLRPDLK 61 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCC---CcchhhhhcCCCccchHHHHHhhcccCCCcc
Confidence 4799999999999999999986 8999999999 999999999999 7999997
No 7
>PLN03091 hypothetical protein; Provisional
Probab=98.85 E-value=4.1e-09 Score=95.60 Aligned_cols=50 Identities=12% Similarity=0.438 Sum_probs=43.8
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcC-CCCHHHHHHHHH-HHHHhh
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVG-GKTVEEVKRHYE-MLAEDV 110 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VP-GKT~kqcr~Ryk-~L~eDV 110 (153)
...||.|||++|..++.+|+.. .|.+||+.++ |||.+||++||. +|.++|
T Consensus 14 Kg~WTpEEDe~L~~~V~kyG~~---nWs~IAk~~g~gRT~KQCRERW~NyLdP~I 65 (459)
T PLN03091 14 KGLWSPEEDEKLLRHITKYGHG---CWSSVPKQAGLQRCGKSCRLRWINYLRPDL 65 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhCcC---CHHHHhhhhccCcCcchHhHHHHhccCCcc
Confidence 4689999999999999999864 7999999885 899999999999 465554
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.51 E-value=2e-07 Score=79.34 Aligned_cols=50 Identities=20% Similarity=0.365 Sum_probs=44.1
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHH
Q 041475 55 GIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAE 108 (153)
Q Consensus 55 ~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~e 108 (153)
+.....||.|||++|..+...|+. +|.+||+.|||||..+|+.||..+..
T Consensus 75 ~I~kgpWT~EED~lLlel~~~~Gn----KWs~IAk~LpGRTDnqIKNRWns~Lr 124 (249)
T PLN03212 75 SVKRGGITSDEEDLILRLHRLLGN----RWSLIAGRIPGRTDNEIKNYWNTHLR 124 (249)
T ss_pred hcccCCCChHHHHHHHHHHHhccc----cHHHHHhhcCCCCHHHHHHHHHHHHh
Confidence 345679999999999999999985 79999999999999999999996543
No 9
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=1.8e-07 Score=79.66 Aligned_cols=68 Identities=43% Similarity=0.638 Sum_probs=63.9
Q ss_pred CCCCCHHHHHHHHHHHhhcCCC----CchHHHHHHHHcCC-CCHHHHHHHHHHHHHhhhhhhcCCCCCCCCCC
Q 041475 58 RSTWTAKQNKLFENALAIYDKD----TPDRWHNLARAVGG-KTVEEVKRHYEMLAEDVSRIEAGEIPLPDYKK 125 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~----tp~RWekIAa~VPG-KT~kqcr~Ryk~L~eDVk~IEsG~v~lP~y~~ 125 (153)
...|+.++.+.|++|++.+..+ ++++|+++++.||+ ++..++.++|..++.||..+++|.+++|.|..
T Consensus 31 ~~~~~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~ 103 (335)
T KOG0724|consen 31 LSLWTEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGK 103 (335)
T ss_pred hhhhHHHHHHHHHHHHHHHhccccccchhhhhHHHhcCccccccchhHHhhhhhHHHHhhhhccCCCccccCc
Confidence 3569999999999999999864 78999999999999 99999999999999999999999999999976
No 10
>PLN03091 hypothetical protein; Provisional
Probab=98.37 E-value=8.5e-07 Score=80.79 Aligned_cols=50 Identities=22% Similarity=0.467 Sum_probs=44.5
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHH
Q 041475 55 GIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAE 108 (153)
Q Consensus 55 ~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~e 108 (153)
+.....||.|||++|..+.++|+. +|.+||..|||||..+|+.||..+..
T Consensus 64 ~IkKgpWT~EED~lLLeL~k~~Gn----KWskIAk~LPGRTDnqIKNRWnslLK 113 (459)
T PLN03091 64 DLKRGTFSQQEENLIIELHAVLGN----RWSQIAAQLPGRTDNEIKNLWNSCLK 113 (459)
T ss_pred cccCCCCCHHHHHHHHHHHHHhCc----chHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 345679999999999999999985 79999999999999999999996543
No 11
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.19 E-value=6.2e-06 Score=68.25 Aligned_cols=56 Identities=25% Similarity=0.494 Sum_probs=47.0
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHH-HHHHhhh
Q 041475 52 FRNGIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYE-MLAEDVS 111 (153)
Q Consensus 52 ~~n~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk-~L~eDVk 111 (153)
.++......||.||+.++.++-++++. ||..||..|||||-.+++.+|. .|..-+.
T Consensus 56 LrP~ikrg~fT~eEe~~Ii~lH~~~GN----rWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~ 112 (238)
T KOG0048|consen 56 LRPDLKRGNFSDEEEDLIIKLHALLGN----RWSLIAGRLPGRTDNEVKNHWNTHLKKKLL 112 (238)
T ss_pred cCCCccCCCCCHHHHHHHHHHHHHHCc----HHHHHHhhCCCcCHHHHHHHHHHHHHHHHH
Confidence 344445679999999999999999985 8999999999999999999998 4544443
No 12
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.93 E-value=3.3e-05 Score=52.22 Aligned_cols=46 Identities=17% Similarity=0.307 Sum_probs=40.1
Q ss_pred CCCCHHHHHHHHHHHhhcCCCCchHH---HHHHHHcCC-C-CHHHHHHHHHHHH
Q 041475 59 STWTAKQNKLFENALAIYDKDTPDRW---HNLARAVGG-K-TVEEVKRHYEMLA 107 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~tp~RW---ekIAa~VPG-K-T~kqcr~Ryk~L~ 107 (153)
-.||.||...|..||..++.+ .| .+|++.+.. + |..||+.|++...
T Consensus 4 ~~WT~eeh~~Fl~ai~~~G~g---~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 4 VVWTEDLHDRFLQAVQKLGGP---DWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCHHHHHHHHHHHHHhCCC---cccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 479999999999999999975 59 999998763 5 9999999998653
No 13
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.93 E-value=2e-05 Score=71.67 Aligned_cols=45 Identities=36% Similarity=0.638 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHH
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEM 105 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~ 105 (153)
...||.+|.-+|..|+.+|+-| .|+.||.+|+.||++||++||.+
T Consensus 72 ~~~WtadEEilLLea~~t~G~G---NW~dIA~hIGtKtkeeck~hy~k 116 (438)
T KOG0457|consen 72 DPSWTADEEILLLEAAETYGFG---NWQDIADHIGTKTKEECKEHYLK 116 (438)
T ss_pred CCCCChHHHHHHHHHHHHhCCC---cHHHHHHHHcccchHHHHHHHHH
Confidence 4679999999999999999987 89999999999999999999984
No 14
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.72 E-value=3.7e-05 Score=70.88 Aligned_cols=45 Identities=29% Similarity=0.595 Sum_probs=41.6
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
...||.+|--+|..++..|+. .|++||.+|+.||++||.-||..|
T Consensus 279 dk~WS~qE~~LLLEGIe~ygD----dW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGD----DWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhh----hHHHHHHHhCCCCHHHHHHHHHcC
Confidence 358999999999999999985 699999999999999999999876
No 15
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.66 E-value=7.6e-05 Score=69.04 Aligned_cols=48 Identities=27% Similarity=0.551 Sum_probs=43.8
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 55 GIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 55 ~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
......||.+|.-+|..++.+|+. .|.+||.+|++||.+||..||..|
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d----dW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD----DWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc----cHHHHHhccCCCCHHHHHHHHHhc
Confidence 345678999999999999999986 599999999999999999999976
No 16
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.65 E-value=8.5e-05 Score=71.19 Aligned_cols=51 Identities=18% Similarity=0.464 Sum_probs=46.5
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHH
Q 041475 52 FRNGIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEM 105 (153)
Q Consensus 52 ~~n~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~ 105 (153)
-.++.+...||.+||.+|-.|+++|+.. .|-+|-+.|||||-.||++||-.
T Consensus 354 LdPsikhg~wt~~ED~~L~~AV~~Yg~k---dw~k~R~~vPnRSdsQcR~RY~n 404 (939)
T KOG0049|consen 354 LDPSVKHGRWTDQEDVLLVCAVSRYGAK---DWAKVRQAVPNRSDSQCRERYTN 404 (939)
T ss_pred cCccccCCCCCCHHHHHHHHHHHHhCcc---chhhHHHhcCCccHHHHHHHHHH
Confidence 4567778899999999999999999975 79999999999999999999985
No 17
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.51 E-value=0.00023 Score=49.18 Aligned_cols=58 Identities=19% Similarity=0.463 Sum_probs=42.5
Q ss_pred CCCCHHHHHHHHHHHhh------cC--CC--CchHHHHHHHHcC----CCCHHHHHHHHHHHHHhhhhhhcC
Q 041475 59 STWTAKQNKLFENALAI------YD--KD--TPDRWHNLARAVG----GKTVEEVKRHYEMLAEDVSRIEAG 116 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALak------yp--~~--tp~RWekIAa~VP----GKT~kqcr~Ryk~L~eDVk~IEsG 116 (153)
..||.+|...|..+... +. .. ...-|+.||+.|- .||+.||+.+|+.|..+.+.+...
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~~ 73 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKDR 73 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSSS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 46999999999998877 21 11 1247999999985 499999999999999999877654
No 18
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.44 E-value=0.00039 Score=66.80 Aligned_cols=81 Identities=15% Similarity=0.171 Sum_probs=59.0
Q ss_pred ccCCCcchhhhhhhhhhhhccCCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCC-CCHHHHHHHHHHHH
Q 041475 29 KFSELPFLLYISLFEFIYCTLFSFRNGIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGG-KTVEEVKRHYEMLA 107 (153)
Q Consensus 29 ~~~~~~~~~~~~~~e~~~~~~~~~~n~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPG-KT~kqcr~Ryk~L~ 107 (153)
++|.+-|---+|.-++.--=-+..++......||.||++.|. ||+.-+. -..|++||..++. ||.=||..+|+.-+
T Consensus 224 ~ISn~dfEgsrS~~~~~~~W~n~l~P~~nk~~WS~EE~E~L~-AiA~A~~--~~~W~~IA~~Lgt~RS~yQC~~kF~t~~ 300 (939)
T KOG0049|consen 224 AISNFDFEGSRSEWAVKSKWYNELNPKWNKEHWSNEEVEKLK-ALAEAPK--FVSWPMIALNLGTNRSSYQCMEKFKTEV 300 (939)
T ss_pred HhccccccccCCHHHHHHHHhhhcCCccchhccChHHHHHHH-HHHhccc--cccHHHHHHHhCCCcchHHHHHHHHHHH
Confidence 578888888888777653333344444556789999999885 4554433 2479999999996 99999999999766
Q ss_pred Hhhhh
Q 041475 108 EDVSR 112 (153)
Q Consensus 108 eDVk~ 112 (153)
..++.
T Consensus 301 ~~L~e 305 (939)
T KOG0049|consen 301 SQLSE 305 (939)
T ss_pred HHHHh
Confidence 66653
No 19
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=97.37 E-value=0.00033 Score=67.67 Aligned_cols=44 Identities=36% Similarity=0.581 Sum_probs=40.7
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHH
Q 041475 57 GRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYE 104 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk 104 (153)
++..||..|.++|.+||..|.+| +.+|+..|+|||++||.+.|-
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~KD----F~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYSKD----FIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred CcccccHHHHHHHHHHHHHhccc----HHHHHHHhccccHHHHHHHHH
Confidence 56789999999999999999985 899999999999999998874
No 20
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.94 E-value=0.0017 Score=58.30 Aligned_cols=58 Identities=29% Similarity=0.555 Sum_probs=47.7
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhhhcCCCCCCCC
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSRIEAGEIPLPDY 123 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~IEsG~v~lP~y 123 (153)
...|+.+|.-+|..++...+-| .|+-||..|+.|+++||++||.+.. +||.-+|+|+.
T Consensus 63 ~e~WgadEEllli~~~~TlGlG---NW~dIadyiGsr~kee~k~HylK~y-----~es~~ypl~~i 120 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLG---NWEDIADYIGSRAKEEIKSHYLKMY-----DESKYYPLPDI 120 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCC---cHHHHHHHHhhhhhHHHHHHHHHHH-----hhccccccccc
Confidence 4579999999999999999887 7999999999999999999998542 34445555544
No 21
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.67 E-value=0.0067 Score=41.45 Aligned_cols=55 Identities=7% Similarity=0.332 Sum_probs=45.7
Q ss_pred CCCCHHHHHHHHHHHhhcCC---C----------CchHHHHHHHHc----C-CCCHHHHHHHHHHHHHhhhhh
Q 041475 59 STWTAKQNKLFENALAIYDK---D----------TPDRWHNLARAV----G-GKTVEEVKRHYEMLAEDVSRI 113 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~---~----------tp~RWekIAa~V----P-GKT~kqcr~Ryk~L~eDVk~I 113 (153)
..||.+|...|...|.+|+. + ...-|+.||..+ | .||.+|+++.|..|...++..
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~ 75 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKK 75 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 57999999999999999853 1 146799999887 2 399999999999998888753
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.63 E-value=0.0027 Score=59.65 Aligned_cols=52 Identities=21% Similarity=0.540 Sum_probs=45.9
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHH-HHHhhhh
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEM-LAEDVSR 112 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~-L~eDVk~ 112 (153)
...|+.-||.+|..|+.+|+.. .|.+||+.++-||++||+.||.+ |-+.|+.
T Consensus 7 ggvwrntEdeilkaav~kyg~n---qws~i~sll~~kt~rqC~~rw~e~ldp~i~~ 59 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKYGKN---QWSRIASLLNRKTARQCKARWEEWLDPAIKK 59 (617)
T ss_pred cceecccHHHHHHHHHHHcchH---HHHHHHHHHhhcchhHHHHHHHHHhCHHHhh
Confidence 5689999999999999999975 89999999999999999999994 5555554
No 23
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.56 E-value=0.005 Score=57.86 Aligned_cols=57 Identities=14% Similarity=0.366 Sum_probs=47.6
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhhhcC
Q 041475 55 GIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSRIEAG 116 (153)
Q Consensus 55 ~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~IEsG 116 (153)
+.....||.|||..|..+....|. -|--||..| |||..||.+||.+|+..-.+...+
T Consensus 56 ~i~~tews~eederlLhlakl~p~----qwrtIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 56 AIKKTEWSREEDERLLHLAKLEPT----QWRTIADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred HHhhhhhhhhHHHHHHHHHHhcCC----ccchHHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 344568999999999888777775 699999999 899999999999998877655554
No 24
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=96.17 E-value=0.0071 Score=56.32 Aligned_cols=54 Identities=15% Similarity=0.342 Sum_probs=47.0
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhh
Q 041475 55 GIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSR 112 (153)
Q Consensus 55 ~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~ 112 (153)
......||.|||+.+..+=.+++. +|.-||..+||+|..+|.++|..+.++..+
T Consensus 69 ~lk~~~~~~eed~~li~l~~~~~~----~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 69 QLKKKNWSEEEDEQLIDLDKELGT----QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hcccccccHHHHHHHHHHHHhcCc----hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 345578999999999888887775 699999999999999999999988888765
No 25
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=95.81 E-value=0.021 Score=54.29 Aligned_cols=70 Identities=16% Similarity=0.439 Sum_probs=53.8
Q ss_pred cCCCcchhhhhhhhhhhhccCCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 30 FSELPFLLYISLFEFIYCTLFSFRNGIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 30 ~~~~~~~~~~~~~e~~~~~~~~~~n~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
..-||.-.+-|+.=-++-.-.+..+ ..+.||.||++.|.....+++. .|..|+..| ||.+..|+.||...
T Consensus 358 ~~~Lp~R~~~siy~~~rR~y~~FE~--~rg~wt~ee~eeL~~l~~~~g~----~W~~Ig~~l-gr~P~~crd~wr~~ 427 (607)
T KOG0051|consen 358 YKLLPYRDRKSIYHHLRRAYTPFEN--KRGKWTPEEEEELKKLVVEHGN----DWKEIGKAL-GRMPMDCRDRWRQY 427 (607)
T ss_pred hhhcCcccchhHHHHHHhcCCcccc--ccCCCCcchHHHHHHHHHHhcc----cHHHHHHHH-ccCcHHHHHHHHHh
Confidence 3456765555555544433334444 5678999999999999999986 699999999 89999999999976
No 26
>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=95.64 E-value=0.045 Score=41.89 Aligned_cols=54 Identities=15% Similarity=0.422 Sum_probs=45.3
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHc------------CCCCHHHHHHHHHHHHHhhh
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAV------------GGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~V------------PGKT~kqcr~Ryk~L~eDVk 111 (153)
...||.+||..|..++.+|+-+.++.|++|-+.+ -.||+.++.+|-..|..-|.
T Consensus 49 ~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 49 KKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp -SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 4689999999999999999998899999998875 36999999999999876654
No 27
>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=94.35 E-value=0.19 Score=34.98 Aligned_cols=56 Identities=20% Similarity=0.439 Sum_probs=43.1
Q ss_pred CCCHHHHHHHHHHHhhc------C-CC--CchHHHHHHHHcC---C--CCHHHHHHHHHHHHHhhhhhhc
Q 041475 60 TWTAKQNKLFENALAIY------D-KD--TPDRWHNLARAVG---G--KTVEEVKRHYEMLAEDVSRIEA 115 (153)
Q Consensus 60 ~WT~EEdK~LE~ALaky------p-~~--tp~RWekIAa~VP---G--KT~kqcr~Ryk~L~eDVk~IEs 115 (153)
.||.++++.|..++.+. + .+ ++.-|..|++.+- | .|.+||+.||+.|..+-..+..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~~~~~ 70 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYRIWKE 70 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHHHHHH
Confidence 49999999988887655 1 11 2578999998874 3 6889999999999887765543
No 28
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.25 E-value=0.11 Score=52.01 Aligned_cols=57 Identities=33% Similarity=0.520 Sum_probs=45.8
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHh----------hhhhhcC
Q 041475 57 GRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAED----------VSRIEAG 116 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eD----------Vk~IEsG 116 (153)
+-..||..+=..|.+|..+|+.+ .-++||..|.|||.+||++..+..-+- ++.||.|
T Consensus 823 gf~~w~~~~f~~f~~~~~~~gr~---~~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~ 889 (1033)
T PLN03142 823 GFSTWSRRDFNAFIRACEKYGRN---DIKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERG 889 (1033)
T ss_pred CcCcccHHHHHHHHHHHHHhCHh---HHHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHH
Confidence 44579999999999999999975 789999999999999998655433222 5667776
No 29
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=93.82 E-value=0.13 Score=47.21 Aligned_cols=49 Identities=18% Similarity=0.375 Sum_probs=43.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHH
Q 041475 53 RNGIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEM 105 (153)
Q Consensus 53 ~n~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~ 105 (153)
-++.....||.+|...|-+||.+++.+ +..||+..|.|+-+|++..|..
T Consensus 360 g~~~~~~~Ws~~e~ekFYKALs~wGtd----F~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 360 GKKKGALRWSKKEIEKFYKALSIWGTD----FSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred cCCCCCCcccHHHHHHHHHHHHHhcch----HHHHHHhcCchhHHHHHHHHHH
Confidence 345566789999999999999999974 8999999999999999999984
No 30
>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=92.85 E-value=0.13 Score=41.74 Aligned_cols=47 Identities=15% Similarity=0.321 Sum_probs=39.1
Q ss_pred CCCCHHHHHHHHHHHhhcCC-C-C-chHHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 59 STWTAKQNKLFENALAIYDK-D-T-PDRWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~-~-t-p~RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
..||.|||.+|-..+-.|=. | | -.-++.||..+ +||..-|-=||+..
T Consensus 5 DAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~ 54 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAY 54 (161)
T ss_pred cccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHH
Confidence 57999999999999988843 2 2 36789999999 89999999998854
No 31
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.77 E-value=0.41 Score=41.26 Aligned_cols=60 Identities=17% Similarity=0.335 Sum_probs=46.3
Q ss_pred CCCCCHHHHHHHHHHHhhcC----C--CCchHHHHHHHHcC--C--CCHHHHHHHHHHHHHhhhhhhcCC
Q 041475 58 RSTWTAKQNKLFENALAIYD----K--DTPDRWHNLARAVG--G--KTVEEVKRHYEMLAEDVSRIEAGE 117 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp----~--~tp~RWekIAa~VP--G--KT~kqcr~Ryk~L~eDVk~IEsG~ 117 (153)
...|+.+|-..|..+.-+.. . ..-.-|+.||..+. | ||.+||+.+|++|..-.+..+.+.
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 47899999999988855332 1 12356999999554 3 999999999999988888777664
No 32
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=92.66 E-value=0.23 Score=46.37 Aligned_cols=49 Identities=22% Similarity=0.409 Sum_probs=42.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 54 NGIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 54 n~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
.+.-...||.||.-+|++|...|++ ++.+|-+++|.||...++..|-..
T Consensus 183 r~~~~d~WT~Ed~vlFe~aF~~~GK----~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 183 RTEFPDEWTAEDIVLFEQAFQFFGK----DFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred cCCCcccchHHHHHHHHHHHHHhcc----cHHHHHHHccCccHHHHHHHHHHH
Confidence 3444578999999999999999998 599999999999999998887543
No 33
>smart00595 MADF subfamily of SANT domain.
Probab=92.51 E-value=0.22 Score=34.35 Aligned_cols=28 Identities=29% Similarity=0.640 Sum_probs=24.3
Q ss_pred hHHHHHHHHcCCCCHHHHHHHHHHHHHhh
Q 041475 82 DRWHNLARAVGGKTVEEVKRHYEMLAEDV 110 (153)
Q Consensus 82 ~RWekIAa~VPGKT~kqcr~Ryk~L~eDV 110 (153)
.-|..||..+ |.|+++|+.+|+.|....
T Consensus 28 ~aW~~Ia~~l-~~~~~~~~~kw~~LR~~y 55 (89)
T smart00595 28 KAWEEIAEEL-GLSVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 5799999999 569999999999996554
No 34
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=91.37 E-value=0.41 Score=39.12 Aligned_cols=57 Identities=11% Similarity=0.259 Sum_probs=43.2
Q ss_pred CCCCHHHHHHHHHHHhhcCCCC---chHHHHHHHHcCCCCHHHHHHHHHH-H----HHhhhhhhcC
Q 041475 59 STWTAKQNKLFENALAIYDKDT---PDRWHNLARAVGGKTVEEVKRHYEM-L----AEDVSRIEAG 116 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~t---p~RWekIAa~VPGKT~kqcr~Ryk~-L----~eDVk~IEsG 116 (153)
..||.|+|.+|...+..|.... -.-.+.++..+ +||.-.|.-||+. + .++|..++.+
T Consensus 6 dawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee~I~~AKK~ 70 (170)
T PRK13923 6 DAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQEQIKLAKKE 70 (170)
T ss_pred hhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHHHHHHHHHh
Confidence 5799999999999998886532 35567788888 7999999999963 3 2566555444
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=91.07 E-value=0.12 Score=48.28 Aligned_cols=50 Identities=10% Similarity=0.315 Sum_probs=42.7
Q ss_pred CCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHH-HHHHhhh
Q 041475 59 STWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYE-MLAEDVS 111 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk-~L~eDVk 111 (153)
+.|+..||..+..++.+|+.. .|.+||+.++-++.+||+.||. ++...++
T Consensus 21 gsw~~~EDe~l~~~vk~l~~n---nws~vas~~~~~~~kq~~~rw~~~lnp~lk 71 (512)
T COG5147 21 GSWKRTEDEDLKALVKKLGPN---NWSKVASLLISSTGKQSSNRWNNHLNPQLK 71 (512)
T ss_pred CCCCCcchhHHHHHHhhcccc---cHHHHHHHhcccccccccchhhhhhchhcc
Confidence 489999999999999988753 6999999998899999999994 5555554
No 36
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=90.54 E-value=0.44 Score=43.68 Aligned_cols=44 Identities=32% Similarity=0.583 Sum_probs=37.7
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCCchHHHHH-HHHcCCCCHHHHHHHHH
Q 041475 57 GRSTWTAKQNKLFENALAIYDKDTPDRWHNL-ARAVGGKTVEEVKRHYE 104 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~~tp~RWekI-Aa~VPGKT~kqcr~Ryk 104 (153)
....||.+|=+.||..|..|+++ +..| |..|+.||+-+|.+-|-
T Consensus 276 ~l~~wsEeEcr~FEegl~~yGKD----F~lIr~nkvrtRsvgElVeyYY 320 (445)
T KOG4329|consen 276 DLSGWSEEECRNFEEGLELYGKD----FHLIRANKVRTRSVGELVEYYY 320 (445)
T ss_pred ccccCCHHHHHHHHHHHHHhccc----HHHHHhcccccchHHHHHHHHH
Confidence 45689999999999999999985 5555 67899999999998775
No 37
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=89.35 E-value=0.54 Score=44.95 Aligned_cols=73 Identities=10% Similarity=0.257 Sum_probs=50.6
Q ss_pred cCCCcchhhhhhhhhhhhccCCCCCCCCCCCCCHHHHHHHHHHHh-------hc------------CCC---CchHHHHH
Q 041475 30 FSELPFLLYISLFEFIYCTLFSFRNGIGRSTWTAKQNKLFENALA-------IY------------DKD---TPDRWHNL 87 (153)
Q Consensus 30 ~~~~~~~~~~~~~e~~~~~~~~~~n~~s~~~WT~EEdK~LE~ALa-------ky------------p~~---tp~RWekI 87 (153)
.+.+|..--.-.-.++-|.-. .....||.||...|.+++. ++ |.+ .+..|..|
T Consensus 413 lgr~P~~crd~wr~~~~~g~~-----~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~v 487 (607)
T KOG0051|consen 413 LGRMPMDCRDRWRQYVKCGSK-----RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLV 487 (607)
T ss_pred HccCcHHHHHHHHHhhccccc-----cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhh
Confidence 344454444444444444332 2457899999999999884 33 121 45789999
Q ss_pred HHHcCCCCHHHHHHHHHHHH
Q 041475 88 ARAVGGKTVEEVKRHYEMLA 107 (153)
Q Consensus 88 Aa~VPGKT~kqcr~Ryk~L~ 107 (153)
++.++.|+.-||+.+|..|.
T Consensus 488 se~~~TR~~~qCr~Kw~kl~ 507 (607)
T KOG0051|consen 488 SEMLGTRSRIQCRYKWYKLT 507 (607)
T ss_pred hHhhcCCCcchHHHHHHHHH
Confidence 99888899999999999774
No 38
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=88.80 E-value=0.91 Score=43.97 Aligned_cols=56 Identities=25% Similarity=0.475 Sum_probs=45.4
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCCchHHHHH----------HHHcCCCCHHHHHHHHHHHHHhhhhhhcC
Q 041475 57 GRSTWTAKQNKLFENALAIYDKDTPDRWHNL----------ARAVGGKTVEEVKRHYEMLAEDVSRIEAG 116 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~~tp~RWekI----------Aa~VPGKT~kqcr~Ryk~L~eDVk~IEsG 116 (153)
+...||..|...|-.||.+++++ +++| -..+--||..||+.+|-.++.-+..-..|
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKd----Fe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~F~ 152 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKD----FEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLLFG 152 (782)
T ss_pred cccccchhhHHHHHHHHHHhccc----HHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 35689999999999999999985 8888 45566699999999999877666554444
No 39
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=87.81 E-value=3.7 Score=30.16 Aligned_cols=53 Identities=11% Similarity=0.204 Sum_probs=36.0
Q ss_pred CCCCHHHHHHHHHHHhhc----CCCCchHHHHHHHHcCC-----CCHHHHHHHHHHHHHhhh
Q 041475 59 STWTAKQNKLFENALAIY----DKDTPDRWHNLARAVGG-----KTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALaky----p~~tp~RWekIAa~VPG-----KT~kqcr~Ryk~L~eDVk 111 (153)
+.||.++.-.+.++|..| +......|..+...|-+ =|..|+.+..+.|..-..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~ 66 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYR 66 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 579999999999999988 22222455555555433 488888888777755544
No 40
>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=87.53 E-value=0.98 Score=30.04 Aligned_cols=31 Identities=26% Similarity=0.661 Sum_probs=26.2
Q ss_pred hHHHHHHHHcCC-CCHHHHHHHHHHHHHhhhh
Q 041475 82 DRWHNLARAVGG-KTVEEVKRHYEMLAEDVSR 112 (153)
Q Consensus 82 ~RWekIAa~VPG-KT~kqcr~Ryk~L~eDVk~ 112 (153)
+-|+.||..+++ -++++|+.+|+.|+.....
T Consensus 27 ~aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~ 58 (85)
T PF10545_consen 27 EAWQEIARELGKEFSVDDCKKRWKNLRDRYRR 58 (85)
T ss_pred HHHHHHHHHHccchhHHHHHHHHHHHHHHHHH
Confidence 579999999974 6899999999999876643
No 41
>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=87.09 E-value=2.7 Score=37.77 Aligned_cols=54 Identities=22% Similarity=0.469 Sum_probs=42.9
Q ss_pred CCCCCCHHHHHHHHHHHhhcCC-CCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 57 GRSTWTAKQNKLFENALAIYDK-DTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~-~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
....||..|.+.|.++|+.-.. ..+|. ..||..|+|||..|++.--+.|..-|.
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~-ael~~~l~~Rs~aEI~~fl~~LK~rva 74 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDA-AELAKELPGRSEAEIRDFLQQLKGRVA 74 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCH-HHHHhhccCcCHHHHHHHHHHHHHHHH
Confidence 3568999999999999986532 23444 569999999999999998888876664
No 42
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=86.95 E-value=1.4 Score=41.89 Aligned_cols=73 Identities=25% Similarity=0.423 Sum_probs=50.4
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHH-HHHcCCCCHHHHHHHHHHH--------HHhhhhhhcC----C
Q 041475 51 SFRNGIGRSTWTAKQNKLFENALAIYDKDTPDRWHNL-ARAVGGKTVEEVKRHYEML--------AEDVSRIEAG----E 117 (153)
Q Consensus 51 ~~~n~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekI-Aa~VPGKT~kqcr~Ryk~L--------~eDVk~IEsG----~ 117 (153)
|--..+....||..|-.+||.||.+|+++ +..| +..+|=||..++.+.|-.. ...+|+.|+. .
T Consensus 278 PvLCRDemEEWSasEanLFEeALeKyGKD----FndIrqdfLPWKSl~sIveyYYmwKttdRYvqqKrlKaaeadsKlkq 353 (693)
T KOG3554|consen 278 PVLCRDEMEEWSASEANLFEEALEKYGKD----FNDIRQDFLPWKSLTSIVEYYYMWKTTDRYVQQKRLKAAEADSKLKQ 353 (693)
T ss_pred ceeehhhhhhccchhhHHHHHHHHHhccc----HHHHHHhhcchHHHHHHHHHHHHHhhhhHHHHHHhhhhhhhhhhhhe
Confidence 33334456789999999999999999996 4444 5677889988888776532 1223333332 4
Q ss_pred CCCCCCCCCC
Q 041475 118 IPLPDYKKIG 127 (153)
Q Consensus 118 v~lP~y~~~~ 127 (153)
|-+|.|..+.
T Consensus 354 vYIP~ynKPn 363 (693)
T KOG3554|consen 354 VYIPTYNKPN 363 (693)
T ss_pred eeccCCCCCC
Confidence 7899997664
No 43
>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=86.65 E-value=1.8 Score=29.95 Aligned_cols=47 Identities=11% Similarity=0.217 Sum_probs=33.4
Q ss_pred CCCCHHHHHHHHHHHhhcCC-----CCchHHHHHHHHcC-CCCHHHHHHHHHH
Q 041475 59 STWTAKQNKLFENALAIYDK-----DTPDRWHNLARAVG-GKTVEEVKRHYEM 105 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~-----~tp~RWekIAa~VP-GKT~kqcr~Ryk~ 105 (153)
...|.+||.+|...|+.+.. ....-|..+|+.-| ..|-+.-++||..
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K 55 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLK 55 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 46899999999999977632 23678999999999 8999999999974
No 44
>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=86.25 E-value=3.1 Score=26.13 Aligned_cols=39 Identities=18% Similarity=0.254 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHH
Q 041475 65 QNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLA 107 (153)
Q Consensus 65 EdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~ 107 (153)
=|..+..+|..-+. --|..||+.+ |-|...|.+|.+.|.
T Consensus 4 ~D~~Il~~Lq~d~r---~s~~~la~~l-glS~~~v~~Ri~rL~ 42 (42)
T PF13404_consen 4 LDRKILRLLQEDGR---RSYAELAEEL-GLSESTVRRRIRRLE 42 (42)
T ss_dssp HHHHHHHHHHH-TT---S-HHHHHHHH-TS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCC---ccHHHHHHHH-CcCHHHHHHHHHHhC
Confidence 36667777776654 4699999999 899999999999873
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=86.23 E-value=0.3 Score=44.86 Aligned_cols=49 Identities=18% Similarity=0.400 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHHhhcCCCCchHHHHHHHH-----cCC-CCHHHHHHHHHHHHHhhh
Q 041475 59 STWTAKQNKLFENALAIYDKDTPDRWHNLARA-----VGG-KTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~-----VPG-KT~kqcr~Ryk~L~eDVk 111 (153)
..||.+|-..|=..-..|+- ||-.||.. .+. ||++|.++||-..+..+.
T Consensus 131 n~WskeETD~LF~lck~fDL----Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~ 185 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDL----RFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLL 185 (445)
T ss_pred ccccHHHHHHHHHHHHhcCe----eEEEEeeccchhhccccccHHHHHHHHHHHHHHHH
Confidence 57999999988888888986 56666655 665 999999999998877764
No 46
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=78.47 E-value=3.7 Score=34.25 Aligned_cols=78 Identities=21% Similarity=0.224 Sum_probs=51.6
Q ss_pred CCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcC---CCCHHHHHHHHHHHHH--hhhhhhcC-CCCCCCCCCCCCCCCCC
Q 041475 60 TWTAKQNKLFENALAIYDKDTPDRWHNLARAVG---GKTVEEVKRHYEMLAE--DVSRIEAG-EIPLPDYKKIGGTNKAH 133 (153)
Q Consensus 60 ~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VP---GKT~kqcr~Ryk~L~e--DVk~IEsG-~v~lP~y~~~~~~s~~~ 133 (153)
.|+..+|-+|.+|+.+-. .-+.|+..|. .-|.+|+.+||..|.- +|.++..+ +..++..... ..+
T Consensus 1 rW~~~DDl~Li~av~~~~-----~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~----~iq 71 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN-----DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIA----AIQ 71 (199)
T ss_pred CCCchhhHHHHHHHHHhc-----CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhh----ccc
Confidence 499999999999998654 3688888887 4799999999997643 34443333 2334332222 223
Q ss_pred CCCCCCcHHHHHh
Q 041475 134 SYINMDNEEQRLK 146 (153)
Q Consensus 134 ~~~~~~eee~rl~ 146 (153)
...+|+.+|.++.
T Consensus 72 ~kalfS~~EE~lL 84 (199)
T PF13325_consen 72 SKALFSKEEEQLL 84 (199)
T ss_pred ccCCCCHHHHHHH
Confidence 4456777776654
No 47
>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=78.06 E-value=1 Score=30.34 Aligned_cols=17 Identities=0% Similarity=-0.138 Sum_probs=14.5
Q ss_pred CCCCCcHHHHHhhcccc
Q 041475 135 YINMDNEEQRLKTLRLS 151 (153)
Q Consensus 135 ~~~~~eee~rl~~l~l~ 151 (153)
...||+|||+.|+.++.
T Consensus 3 r~~WT~eeh~~Fl~ai~ 19 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQ 19 (57)
T ss_pred CCCCCHHHHHHHHHHHH
Confidence 46899999999998764
No 48
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=75.71 E-value=8.9 Score=29.35 Aligned_cols=41 Identities=15% Similarity=0.216 Sum_probs=33.9
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHH
Q 041475 64 KQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAE 108 (153)
Q Consensus 64 EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~e 108 (153)
+-|..+..+|++-+.- .|..||+.+ |-|...|.+|++.|.+
T Consensus 9 ~~D~~Il~~Lq~d~R~---s~~eiA~~l-glS~~tV~~Ri~rL~~ 49 (153)
T PRK11179 9 NLDRGILEALMENART---PYAELAKQF-GVSPGTIHVRVEKMKQ 49 (153)
T ss_pred HHHHHHHHHHHHcCCC---CHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 4577777888877653 699999999 8999999999999843
No 49
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=71.47 E-value=11 Score=29.14 Aligned_cols=41 Identities=15% Similarity=0.106 Sum_probs=32.8
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHH
Q 041475 64 KQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAE 108 (153)
Q Consensus 64 EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~e 108 (153)
+-|..+..+|++-+. -.|..||+.| |-|..-|.+|++.|.+
T Consensus 14 ~~D~~IL~~Lq~d~R---~s~~eiA~~l-glS~~tv~~Ri~rL~~ 54 (164)
T PRK11169 14 RIDRNILNELQKDGR---ISNVELSKRV-GLSPTPCLERVRRLER 54 (164)
T ss_pred HHHHHHHHHhccCCC---CCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 445666667876665 3699999999 8999999999999844
No 50
>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=67.59 E-value=6.7 Score=27.86 Aligned_cols=15 Identities=13% Similarity=0.623 Sum_probs=8.8
Q ss_pred CCCCCHHHHHHHHHH
Q 041475 58 RSTWTAKQNKLFENA 72 (153)
Q Consensus 58 ~~~WT~EEdK~LE~A 72 (153)
.+-||.++|+.|...
T Consensus 47 ~GiWT~eDD~~L~~~ 61 (87)
T PF11626_consen 47 PGIWTPEDDEMLRSG 61 (87)
T ss_dssp TT---HHHHHHHTS-
T ss_pred CCCcCHHHHHHHHcC
Confidence 467999999998444
No 51
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=67.10 E-value=25 Score=22.04 Aligned_cols=46 Identities=22% Similarity=0.320 Sum_probs=38.5
Q ss_pred CCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHH
Q 041475 59 STWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEM 105 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~ 105 (153)
..+|.++.+.|+......+.-+...-+.||..+ |-|..+|..=|.+
T Consensus 5 ~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l-~l~~~~V~~WF~n 50 (57)
T PF00046_consen 5 TRFTKEQLKVLEEYFQENPYPSKEEREELAKEL-GLTERQVKNWFQN 50 (57)
T ss_dssp SSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHH-TSSHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhccccccccccccccc-cccccccccCHHH
Confidence 468999999999999986655567789999999 8999999776664
No 52
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=65.07 E-value=8.3 Score=28.32 Aligned_cols=41 Identities=15% Similarity=0.349 Sum_probs=28.3
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHHHcC------C--C------CHHHHHHHHHHH
Q 041475 66 NKLFENALAIYDKDTPDRWHNLARAVG------G--K------TVEEVKRHYEML 106 (153)
Q Consensus 66 dK~LE~ALakyp~~tp~RWekIAa~VP------G--K------T~kqcr~Ryk~L 106 (153)
.+.|.+.++.-|......|+.||+.|- | + ..++|..-|+.+
T Consensus 44 ~kfl~eIi~~~P~~d~~~Wd~IA~~mN~yly~~~~w~t~~~FyDG~~C~~~Fr~~ 98 (108)
T PF00674_consen 44 MKFLKEIIEVKPGVDMKKWDIIASRMNQYLYEEGLWNTPYFFYDGKDCYRFFRRL 98 (108)
T ss_pred HHHHHHHHhcCCCCCcccHHHHHHHHHHHHHhCCCCCCcCcccCcHHHHHHHHHH
Confidence 466666666667667899999999883 1 2 246666666654
No 53
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=63.99 E-value=25 Score=32.70 Aligned_cols=51 Identities=29% Similarity=0.470 Sum_probs=41.4
Q ss_pred CCCCCCCHHHHHHHHHHHhhcCCC-C-----------chHHHHHHHHcC---C--CCHHHHHHHHHHH
Q 041475 56 IGRSTWTAKQNKLFENALAIYDKD-T-----------PDRWHNLARAVG---G--KTVEEVKRHYEML 106 (153)
Q Consensus 56 ~s~~~WT~EEdK~LE~ALakyp~~-t-----------p~RWekIAa~VP---G--KT~kqcr~Ryk~L 106 (153)
++.+.||.+=+..|..||+.||+. . =.|=+.||..+- | ||.|||-.|-+.|
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVl 141 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVL 141 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHH
Confidence 355679999999999999999872 1 257789998875 3 8899998888866
No 54
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=63.42 E-value=22 Score=27.77 Aligned_cols=47 Identities=13% Similarity=0.352 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 61 WTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 61 WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
++.++.++| -..|....-..|..||..+ ..+..+|++.+....++|.
T Consensus 82 l~de~k~Ii---~lry~~r~~~TW~~IA~~l-~i~erta~r~~~~fK~~i~ 128 (130)
T PF05263_consen 82 LIDEEKRII---KLRYDRRSRRTWYQIAQKL-HISERTARRWRDRFKNDIY 128 (130)
T ss_pred hCHHHHHHH---HHHHcccccchHHHHHHHh-CccHHHHHHHHHHHHHHhc
Confidence 344444444 2345544446799999999 6999999999998888875
No 55
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=63.17 E-value=20 Score=36.53 Aligned_cols=51 Identities=14% Similarity=0.276 Sum_probs=43.7
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHc------------CCCCHHHHHHHHHHHHHhhh
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAV------------GGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~V------------PGKT~kqcr~Ryk~L~eDVk 111 (153)
...+|.|||..|.-++.+|+-+ +|++|-..+ -.||+.++.+|-..|..-|.
T Consensus 926 ~~~~~~~~d~~~~~~~~~~g~~---~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~ 988 (1033)
T PLN03142 926 GKLYNEECDRFMLCMVHKLGYG---NWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIE 988 (1033)
T ss_pred CCcCCHHHHHHHHHHHHHhccc---hHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHH
Confidence 3579999999999999999975 699997765 26999999999999877774
No 56
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=62.87 E-value=34 Score=21.12 Aligned_cols=48 Identities=21% Similarity=0.282 Sum_probs=39.2
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 58 RSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 58 ~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
...+|.++...|+......+--+...=+.||+.+ |-|..+|..=|..-
T Consensus 4 r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~-~l~~~qV~~WF~nr 51 (59)
T cd00086 4 RTRFTPEQLEELEKEFEKNPYPSREEREELAKEL-GLTERQVKIWFQNR 51 (59)
T ss_pred CCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3579999999999999987654556668999999 79999998877654
No 57
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=62.80 E-value=6.9 Score=37.51 Aligned_cols=46 Identities=17% Similarity=0.379 Sum_probs=40.9
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHH
Q 041475 55 GIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYE 104 (153)
Q Consensus 55 ~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk 104 (153)
......||.+|-.+|..++..++.+ ..-|++..|+|+.++++..|+
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~gs~----~slis~l~p~R~rk~iK~K~~ 451 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERGSD----FSLISNLFPLRDRKQIKAKFK 451 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhccc----ccccccccccccHHHHHHHHh
Confidence 3445689999999999999999874 688999999999999999987
No 58
>smart00426 TEA TEA domain.
Probab=61.98 E-value=13 Score=26.31 Aligned_cols=22 Identities=32% Similarity=0.697 Sum_probs=19.2
Q ss_pred CCCCCCHHHHHHHHHHHhhcCC
Q 041475 57 GRSTWTAKQNKLFENALAIYDK 78 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~ 78 (153)
...-|+.+=..+|.+||..|++
T Consensus 2 g~~vWp~~lE~Af~~aL~~~~~ 23 (68)
T smart00426 2 AEGVWSPDIEQAFQEALAIYPP 23 (68)
T ss_pred CCCcCcHHHHHHHHHHHHHcCc
Confidence 3567999989999999999986
No 59
>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=60.87 E-value=19 Score=28.98 Aligned_cols=44 Identities=23% Similarity=0.369 Sum_probs=37.8
Q ss_pred CCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHH
Q 041475 60 TWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYE 104 (153)
Q Consensus 60 ~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk 104 (153)
..+..|.++|.+++..|+-+. -.|.-+...+.+||.+++++.-.
T Consensus 40 GFn~rQR~~Fln~vMR~G~~~-f~~~w~~~~Lr~Ks~~ei~aY~~ 83 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRYGMGA-FDWKWFVPRLRGKSEKEIRAYGS 83 (145)
T ss_pred ccCHHHHHHHHHHHHHHCcCc-ccchHHhhhhccccHHHHHHHHH
Confidence 589999999999999999843 36887888999999999987765
No 60
>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=60.23 E-value=12 Score=29.79 Aligned_cols=42 Identities=21% Similarity=0.309 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 60 TWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 60 ~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
.||.|+...|.+...+ |. .=..||..|+|.|...|+-+..-|
T Consensus 2 ~Wtde~~~~L~~lw~~---G~--SasqIA~~lg~vsRnAViGk~hRl 43 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE---GL--SASQIARQLGGVSRNAVIGKAHRL 43 (162)
T ss_pred CCCHHHHHHHHHHHHc---CC--CHHHHHHHhCCcchhhhhhhhhcc
Confidence 6999999998887763 32 247999999889999998887755
No 61
>PLN03162 golden-2 like transcription factor; Provisional
Probab=59.55 E-value=52 Score=30.76 Aligned_cols=54 Identities=19% Similarity=0.276 Sum_probs=41.5
Q ss_pred CCCCCCHHHHHHHHHHHhhcCC--CCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 57 GRSTWTAKQNKLFENALAIYDK--DTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~--~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
..-.||.|=.+.|.+|+.+.+. -+|.+--++ ..|+|-|...|+.|-++.+-.++
T Consensus 236 pRLrWTpELH~rFVeAV~qLG~dKATPK~ILel-MnV~GLTRenVKSHLQKYRl~rk 291 (526)
T PLN03162 236 AKVDWTPELHRRFVHAVEQLGVEKAFPSRILEL-MGVQCLTRHNIASHLQKYRSHRR 291 (526)
T ss_pred CcccCCHHHHHHHHHHHHHhCcCccchHHHHHH-cCCCCcCHHHHHHHHHHHHHhcc
Confidence 3457999999999999999984 346655444 34789999999999887665554
No 62
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=56.34 E-value=39 Score=28.26 Aligned_cols=50 Identities=8% Similarity=0.317 Sum_probs=38.0
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcC-----CCCHHHHHHHHHHHH
Q 041475 57 GRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVG-----GKTVEEVKRHYEMLA 107 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VP-----GKT~kqcr~Ryk~L~ 107 (153)
+...||.+|+.+|-+......+ +.+.+++|=..=| +||+++...||..+.
T Consensus 72 ~kalfS~~EE~lL~~v~s~~~p-~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmk 126 (199)
T PF13325_consen 72 SKALFSKEEEQLLGTVASSSQP-SLETFQELLDKNRSVFHPSRTAKSLQDHWRLMK 126 (199)
T ss_pred ccCCCCHHHHHHHHhhhhccCC-cHHHHHHHHHhChhhhccccCHHHHHHHHHHHH
Confidence 4568999999999886554433 3578888865544 799999999999653
No 63
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=56.15 E-value=42 Score=23.53 Aligned_cols=41 Identities=20% Similarity=0.207 Sum_probs=33.3
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHH
Q 041475 64 KQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAE 108 (153)
Q Consensus 64 EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~e 108 (153)
+.|..+..+|.+.+. -.+..||+.+ |-|...|.++.+.|.+
T Consensus 3 ~~D~~il~~L~~~~~---~~~~~la~~l-~~s~~tv~~~l~~L~~ 43 (108)
T smart00344 3 EIDRKILEELQKDAR---ISLAELAKKV-GLSPSTVHNRVKRLEE 43 (108)
T ss_pred HHHHHHHHHHHHhCC---CCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 456677778887654 3599999999 8999999999999955
No 64
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=55.68 E-value=34 Score=25.26 Aligned_cols=41 Identities=22% Similarity=0.172 Sum_probs=31.3
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHh
Q 041475 65 QNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAED 109 (153)
Q Consensus 65 EdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eD 109 (153)
-|..+.+.|++-.. ..+..||+.| |.|...|.+|-+.|.++
T Consensus 9 ~D~~IL~~L~~d~r---~~~~eia~~l-glS~~~v~~Ri~~L~~~ 49 (154)
T COG1522 9 IDRRILRLLQEDAR---ISNAELAERV-GLSPSTVLRRIKRLEEE 49 (154)
T ss_pred HHHHHHHHHHHhCC---CCHHHHHHHH-CCCHHHHHHHHHHHHHC
Confidence 34555566665444 4689999999 79999999999998543
No 65
>PF10743 Phage_Cox: Regulatory phage protein cox; InterPro: IPR019679 Phage Cox proteins are expressed by Enterobacteria phages. The Cox protein is a 79-residue basic protein with a predicted strong helix-turn-helix DNA-binding motif. It inhibits integrative recombination and it activates site-specific excision of the HP1 genome from the Haemophilus influenzae chromosome, Hp1. Cox appears to function as a tetramer. Cox binding sites consist of two direct repeats of the consensus motif 5'-GGTMAWWWWA, one Cox tetramer binding to each motif. Cox binding interferes with the interaction of HP1 integrase with one of its binding sites, IBS5. This competition is central to directional control. Both Cox binding sites are needed for full inhibition of integration and for activating excision, because it plays a positive role in assembling the nucleoprotein complexes that produce excisive recombination, by inducing the formation of a critical conformation in those complexes [].
Probab=51.33 E-value=33 Score=25.42 Aligned_cols=48 Identities=25% Similarity=0.466 Sum_probs=34.9
Q ss_pred HHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhhhcCCCCCCCCCCCCCCCC
Q 041475 72 ALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSRIEAGEIPLPDYKKIGGTNK 131 (153)
Q Consensus 72 ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~IEsG~v~lP~y~~~~~~s~ 131 (153)
.+.+||.+ .---++.|..+ |||..-|+. .|++|+.|+-...++...++
T Consensus 4 ~~~~~p~d-~v~~~~FA~~I-GKt~sAVr~----------Mi~~gKLP~i~~~dP~~p~~ 51 (87)
T PF10743_consen 4 QVSEYPSD-AVTYEKFAEYI-GKTPSAVRK----------MIKAGKLPVIEMRDPEKPNG 51 (87)
T ss_pred hHHhhhcc-ccCHHHHHHHH-CCCHHHHHH----------HHHcCCCCeEeccCCCCCCC
Confidence 35666654 23458999999 899998875 47899999888877765443
No 66
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=48.63 E-value=62 Score=19.85 Aligned_cols=46 Identities=17% Similarity=0.256 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHH
Q 041475 59 STWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEM 105 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~ 105 (153)
..+|.++...|+......+--+...=+.||+.+ |-|..+|..=|.+
T Consensus 5 ~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~-~l~~~qV~~WF~n 50 (56)
T smart00389 5 TSFTPEQLEELEKEFQKNPYPSREEREELAAKL-GLSERQVKVWFQN 50 (56)
T ss_pred CcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-CcCHHHHHHhHHH
Confidence 358999999999998877644455668999999 7999998876654
No 67
>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=47.84 E-value=65 Score=19.84 Aligned_cols=44 Identities=9% Similarity=0.146 Sum_probs=31.0
Q ss_pred CHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 62 TAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 62 T~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
+++|.++|..-. ..+ -.+..||..+ |-|...|+.+.+....-++
T Consensus 6 ~~~er~vi~~~y---~~~--~t~~eIa~~l-g~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 6 PPREREVIRLRY---FEG--LTLEEIAERL-GISRSTVRRILKRALKKLR 49 (50)
T ss_dssp -HHHHHHHHHHH---TST---SHHHHHHHH-TSCHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHh---cCC--CCHHHHHHHH-CCcHHHHHHHHHHHHHHhc
Confidence 566777665544 222 3589999999 8999999999887665554
No 68
>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=46.52 E-value=22 Score=32.66 Aligned_cols=50 Identities=28% Similarity=0.494 Sum_probs=34.4
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCC----------chHHHHHHHHcC---C--CCHHHHHHHHHHH
Q 041475 57 GRSTWTAKQNKLFENALAIYDKDT----------PDRWHNLARAVG---G--KTVEEVKRHYEML 106 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~~t----------p~RWekIAa~VP---G--KT~kqcr~Ryk~L 106 (153)
+...|+.+=..+|.+||+.||+.. -.|=+-||..|= | ||.|||-.|.+.|
T Consensus 48 ~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 48 GEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 456799999999999999998731 244467777664 4 8999999999999
No 69
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=44.74 E-value=24 Score=24.39 Aligned_cols=21 Identities=24% Similarity=0.513 Sum_probs=17.5
Q ss_pred HHHHHHHcCCCCHHHHHHHHH
Q 041475 84 WHNLARAVGGKTVEEVKRHYE 104 (153)
Q Consensus 84 WekIAa~VPGKT~kqcr~Ryk 104 (153)
-..||..+-|||++|+++.+.
T Consensus 36 ~~~iA~~i~gks~eeir~~fg 56 (78)
T PF01466_consen 36 CKYIANMIKGKSPEEIRKYFG 56 (78)
T ss_dssp HHHHHHHHTTS-HHHHHHHHT
T ss_pred HHHHHHHhcCCCHHHHHHHcC
Confidence 468899999999999999884
No 70
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=44.15 E-value=37 Score=30.58 Aligned_cols=50 Identities=16% Similarity=0.192 Sum_probs=39.9
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCC-chHHHHHHHHcCC-----CCHHHHHHHHHHH
Q 041475 57 GRSTWTAKQNKLFENALAIYDKDT-PDRWHNLARAVGG-----KTVEEVKRHYEML 106 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~~t-p~RWekIAa~VPG-----KT~kqcr~Ryk~L 106 (153)
..+.|+.++-..++.+++.+++.. ..+|+.+|+..-| |+.+|+++..+..
T Consensus 244 ~~rkWereagar~~a~aa~k~kae~k~kae~ea~a~asa~a~kkkaKE~~kka~k~ 299 (379)
T COG5269 244 KIRKWEREAGARLKALAALKGKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKM 299 (379)
T ss_pred HHhccchhhhhhHHHHHHHhhhhHHHhHHHHHHHHhhhhHHHHHhHHHHHHHHHHH
Confidence 346799999999999999998743 6899999988765 6777777776654
No 71
>KOG4559 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.97 E-value=69 Score=24.81 Aligned_cols=48 Identities=29% Similarity=0.457 Sum_probs=37.4
Q ss_pred CHHHHHHHHHH----HhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhhhc
Q 041475 62 TAKQNKLFENA----LAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSRIEA 115 (153)
Q Consensus 62 T~EEdK~LE~A----Lakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~IEs 115 (153)
+-||-|+||.. .++|. .-..||+.|.||+ .+.-..|.+|.+.+.+|++
T Consensus 49 ~iEdYKLLEeMNkaTaakY~-----DMk~iAEkla~k~-deLn~KfenL~P~lqQIDa 100 (120)
T KOG4559|consen 49 PIEDYKLLEEMNKATAAKYK-----DMKQIAEKLAGKL-DELNLKFENLAPMLQQIDA 100 (120)
T ss_pred cHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHccch-HHHHHHHHHHHHHHHHHHH
Confidence 46788888876 55664 3579999998765 6788899999998888765
No 72
>cd08307 Death_Pelle Death domain of the protein kinase Pelle. Death domain (DD) of the protein kinase Pelle from Drosophila melanogaster and simlar proteins. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and in mediating innate immune responses to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Pelle also functions in photoreceptor axon targeting. 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 signaling complexes.
Probab=42.55 E-value=24 Score=26.18 Aligned_cols=18 Identities=22% Similarity=0.475 Sum_probs=13.1
Q ss_pred chHHHHHHHHcCCCCHHH
Q 041475 81 PDRWHNLARAVGGKTVEE 98 (153)
Q Consensus 81 p~RWekIAa~VPGKT~kq 98 (153)
.+.|+++|..+++=|..|
T Consensus 21 ~~~W~~LA~~i~~ys~~~ 38 (97)
T cd08307 21 DNVWEELAFVMMGYSNDD 38 (97)
T ss_pred cCcHHHHHHHHhcCCHHH
Confidence 368999999997555544
No 73
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=41.51 E-value=16 Score=34.71 Aligned_cols=45 Identities=27% Similarity=0.390 Sum_probs=35.8
Q ss_pred cCCCcchhhh--hhhhhhhhccCCCCCCCCCCCCCHHHHHHHHHHHhhcC
Q 041475 30 FSELPFLLYI--SLFEFIYCTLFSFRNGIGRSTWTAKQNKLFENALAIYD 77 (153)
Q Consensus 30 ~~~~~~~~~~--~~~e~~~~~~~~~~n~~s~~~WT~EEdK~LE~ALakyp 77 (153)
-.++.|+||| |+.++-|++.-... .-..||..=.|.|.+.|++-+
T Consensus 301 ~~e~rl~LlRHWSLydSm~~S~yvas---kL~lWt~~G~krL~~lLAkMG 347 (622)
T PF02724_consen 301 EEELRLMLLRHWSLYDSMYHSSYVAS---KLKLWTEKGRKRLHKLLAKMG 347 (622)
T ss_pred ccccceeeeccCcHHHHHhhchhhHh---hcchhhhhhHHHHHHHHHHhC
Confidence 4588999995 89999999877443 236899999999999988654
No 74
>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=40.21 E-value=1.1e+02 Score=21.03 Aligned_cols=29 Identities=21% Similarity=0.339 Sum_probs=21.9
Q ss_pred hHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 82 DRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 82 ~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
..+..||+.+ |-|...|+.+.......++
T Consensus 127 ~s~~eIA~~l-~~s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 127 LSYKEIAEIL-GISVGTVKRRLKRARKKLR 155 (158)
T ss_pred CCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3578888888 6788888888887766665
No 75
>PF07030 DUF1320: Protein of unknown function (DUF1320); InterPro: IPR009752 This entry is represented by the Bacteriophage Mu, Gp36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=40.17 E-value=48 Score=25.00 Aligned_cols=28 Identities=25% Similarity=0.275 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHhhhhhhcCCCCCCCC
Q 041475 96 VEEVKRHYEMLAEDVSRIEAGEIPLPDY 123 (153)
Q Consensus 96 ~kqcr~Ryk~L~eDVk~IEsG~v~lP~y 123 (153)
.+++++||+.-+..++.|.+|++.++.-
T Consensus 84 ~e~~~~rY~~A~~~L~~ia~G~~~L~~~ 111 (130)
T PF07030_consen 84 TEPVRERYKDAIKWLEDIAKGKISLGLP 111 (130)
T ss_pred cHHHHHHHHHHHHHHHHHHCCCccCCCC
Confidence 8899999999999999999999865543
No 76
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=37.10 E-value=1.5e+02 Score=20.78 Aligned_cols=42 Identities=17% Similarity=0.328 Sum_probs=28.2
Q ss_pred HHHHHHHhhcCC----CCchHHHHHHHHcCCCC-----HHHHHHHHHHHHH
Q 041475 67 KLFENALAIYDK----DTPDRWHNLARAVGGKT-----VEEVKRHYEMLAE 108 (153)
Q Consensus 67 K~LE~ALakyp~----~tp~RWekIAa~VPGKT-----~kqcr~Ryk~L~e 108 (153)
-.|-.++.+.+. ....+|..||..++-.. ..+++..|....-
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~ 85 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLL 85 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhH
Confidence 345566777654 23578999999996432 5677888885433
No 77
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=36.92 E-value=24 Score=33.49 Aligned_cols=47 Identities=19% Similarity=0.352 Sum_probs=35.0
Q ss_pred CCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhh
Q 041475 59 STWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDV 110 (153)
Q Consensus 59 ~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDV 110 (153)
-.||++|-+ ++.-|+- --+..+.||+.+..||+.|++++|..-..-|
T Consensus 471 ~~wSp~e~s----~ircf~~-y~~~fe~ia~l~~tktp~Q~~~fy~~n~k~i 517 (534)
T KOG1194|consen 471 YGWSPEEKS----AIRCFHW-YKDNFELIAELMATKTPEQIKKFYMDNEKLI 517 (534)
T ss_pred CCCCCcccc----cccCchh-hccchHHHHHHhcCCCHHHHHHHhcCchhhh
Confidence 469999998 4444432 1236899999999999999999998554444
No 78
>PLN02249 indole-3-acetic acid-amido synthetase
Probab=35.22 E-value=79 Score=30.19 Aligned_cols=75 Identities=20% Similarity=0.329 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHhhcCC---------CCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhhhcCC---C----CCCCCCCC
Q 041475 63 AKQNKLFENALAIYDK---------DTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSRIEAGE---I----PLPDYKKI 126 (153)
Q Consensus 63 ~EEdK~LE~ALakyp~---------~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~IEsG~---v----~lP~y~~~ 126 (153)
+-|++.|.+.|.+... .....++..++.||=. .|..+.+.|.++..|. | |+..+...
T Consensus 36 ~~Q~~vL~~iL~~n~~Teyg~~~gf~~i~~~~~F~~~VPv~-------~Yedl~pyIeRi~~Ge~~~vL~~~pi~~f~~S 108 (597)
T PLN02249 36 SVQEKVLGEILSRNSNTEYLKRFDLNGAVDRKTFKSKVPVV-------TYEDLKTEIQRISNGDRSPILSSHPITEFLTS 108 (597)
T ss_pred HHHHHHHHHHHHhcccChhHHhcCCCCCCCHHHHHHhCCCc-------cHHHhHHHHHHHHcCCCCceeCCCchhhhccc
Confidence 4566677777665421 1234467777788843 4677778888888882 2 23344444
Q ss_pred CCCC-CCCCCCCCCcHHHH
Q 041475 127 GGTN-KAHSYINMDNEEQR 144 (153)
Q Consensus 127 ~~~s-~~~~~~~~~eee~r 144 (153)
++++ ++.|-||.|+|.-+
T Consensus 109 SGTT~g~~K~IP~T~~~l~ 127 (597)
T PLN02249 109 SGTSAGERKLMPTIEEDID 127 (597)
T ss_pred CCCCCCceeEEeccHHHHH
Confidence 4444 67899999998765
No 79
>PLN02247 indole-3-acetic acid-amido synthetase
Probab=34.52 E-value=86 Score=30.24 Aligned_cols=73 Identities=21% Similarity=0.269 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhhcCCC--------CchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhhhcCCC-------CCCCCCCCC
Q 041475 63 AKQNKLFENALAIYDKD--------TPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSRIEAGEI-------PLPDYKKIG 127 (153)
Q Consensus 63 ~EEdK~LE~ALakyp~~--------tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~IEsG~v-------~lP~y~~~~ 127 (153)
+-|++.|.+.|.+-... ....++...++||=. .|..+.+.|.+|..|.- |+..+...+
T Consensus 26 ~~Q~~vL~~iL~~n~~Teyg~~~~~~i~~~e~Fk~~VPv~-------~Yedl~pyI~Ri~~Ge~~~llt~~pi~~F~~SS 98 (606)
T PLN02247 26 QIQQQVLEEILTQNAGTEYLRSFLDGESDKQSFKNKVPVV-------NYEDIKPCIERIANGESSSIISAQPITELLTSS 98 (606)
T ss_pred HHHHHHHHHHHHhcccChhhhhcCccCCCHHHHHHhCCCc-------cHHHhHHHHHHHHcCCCCceeCCCCcceeeccC
Confidence 46777888877754321 122345566666633 47777888988888852 122333334
Q ss_pred CCC-CCCCCCCCCcHH
Q 041475 128 GTN-KAHSYINMDNEE 142 (153)
Q Consensus 128 ~~s-~~~~~~~~~eee 142 (153)
+++ ++.|-||.|+|.
T Consensus 99 GTT~g~~K~IP~t~e~ 114 (606)
T PLN02247 99 GTSGGQPKLMPSTAEE 114 (606)
T ss_pred CCCCCceeEeeccHHH
Confidence 444 578999999987
No 80
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=33.56 E-value=1.5e+02 Score=21.65 Aligned_cols=45 Identities=13% Similarity=0.127 Sum_probs=29.9
Q ss_pred HHHHHHHHhhcCCC----------CchHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 66 NKLFENALAIYDKD----------TPDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 66 dK~LE~ALakyp~~----------tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
...|..+|.+.|+. ..-.++.||+.+ |.|...|+.+...-...++
T Consensus 116 ~~~l~~~l~~L~~~~r~i~~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~lr 170 (179)
T PRK11924 116 LARIDRCLDALPVKQREVFLLRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQLLR 170 (179)
T ss_pred HHHHHHHHHhCCHHHHHHhhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 34566777766542 134578899888 7888888877765555554
No 81
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=31.72 E-value=83 Score=23.26 Aligned_cols=31 Identities=23% Similarity=0.451 Sum_probs=25.4
Q ss_pred hHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhh
Q 041475 82 DRWHNLARAVGGKTVEEVKRHYEMLAEDVSRI 113 (153)
Q Consensus 82 ~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~I 113 (153)
-.|+.-| .+-|||.+|.+..|..|++.+++.
T Consensus 54 ~K~eAW~-~LKGksqedA~qeYialVeeLkak 84 (87)
T COG4281 54 YKYEAWA-GLKGKSQEDARQEYIALVEELKAK 84 (87)
T ss_pred hhHHHHh-hccCccHHHHHHHHHHHHHHHHhh
Confidence 3577766 455999999999999999999854
No 82
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=31.68 E-value=41 Score=23.82 Aligned_cols=23 Identities=43% Similarity=0.553 Sum_probs=18.4
Q ss_pred CCCCHHHHHHHHHHHHHhhhhhh
Q 041475 92 GGKTVEEVKRHYEMLAEDVSRIE 114 (153)
Q Consensus 92 PGKT~kqcr~Ryk~L~eDVk~IE 114 (153)
-|.+.++|+++|+.+..+|...|
T Consensus 11 ~G~~~e~vk~~F~~~~~~Vs~~E 33 (71)
T PF04282_consen 11 EGEDPEEVKEEFKKLFSDVSASE 33 (71)
T ss_pred CCCCHHHHHHHHHHHHCCCCHHH
Confidence 37899999999999888876543
No 83
>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.
Probab=31.38 E-value=1.2e+02 Score=27.56 Aligned_cols=75 Identities=29% Similarity=0.404 Sum_probs=43.4
Q ss_pred cchhhhhHhhhcCCcccc-----cc----------ccccccCCCcchhhhhhhhhhhhccCCCCCCCCCCCCCHHHHHHH
Q 041475 5 QSHMRIAILMYLPNITKR-----HT----------FCSYKFSELPFLLYISLFEFIYCTLFSFRNGIGRSTWTAKQNKLF 69 (153)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~-----~~----------~~~~~~~~~~~~~~~~~~e~~~~~~~~~~n~~s~~~WT~EEdK~L 69 (153)
..|.|-+.+..||||+.. .. +.+--.+.+|+|- -=..-+...|
T Consensus 218 p~~Kr~~fllsLp~is~~~I~kKk~~lk~~Iw~~Al~s~~~a~iP~~g----------------------~~~~~D~~~L 275 (376)
T PF05049_consen 218 PAHKRHAFLLSLPNISEAAIEKKKESLKQKIWLEALKSAAVATIPVPG----------------------LSSACDLEIL 275 (376)
T ss_dssp -GGGHHHHHHHS---SHHHHHHHHHHHHHHHHHHHHHT--BSS-CCCS----------------------S--HHHHHHH
T ss_pred HHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcc----------------------cccccCHHHH
Confidence 368899999999999842 11 2222233333331 1225677788
Q ss_pred HHHHhhcCC--C-CchHHHHHHHHcCCCCHHHHHHH
Q 041475 70 ENALAIYDK--D-TPDRWHNLARAVGGKTVEEVKRH 102 (153)
Q Consensus 70 E~ALakyp~--~-tp~RWekIAa~VPGKT~kqcr~R 102 (153)
++.|..|-. | +.+.-++||..+ |++++|.+..
T Consensus 276 ~~~l~~Yr~~FGLDd~SL~~lA~~~-g~~~~~lk~~ 310 (376)
T PF05049_consen 276 EKCLNQYRSSFGLDDESLQKLAQDT-GKPVEELKSI 310 (376)
T ss_dssp HHHHHHHHHHTT-SHHHHHHHHHHT-TS-HHHHHCT
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHh-CCCHHHHHHH
Confidence 888887732 1 357789999999 7999887654
No 84
>PLN02620 indole-3-acetic acid-amido synthetase
Probab=29.02 E-value=1.4e+02 Score=28.87 Aligned_cols=76 Identities=17% Similarity=0.304 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHhhcC---------CCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhhhcCCC-------CCCCCCCC
Q 041475 63 AKQNKLFENALAIYD---------KDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSRIEAGEI-------PLPDYKKI 126 (153)
Q Consensus 63 ~EEdK~LE~ALakyp---------~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~IEsG~v-------~lP~y~~~ 126 (153)
+-|++.|.+.|.+-. -+....++...++||=. .|..+.+.|.+|..|.- |+..+...
T Consensus 37 ~vQ~~vL~~IL~~n~~Teyg~~~~f~~i~~~~~F~~~VPv~-------~Yedl~pyI~Ri~~Ge~s~vL~~~pi~~F~~S 109 (612)
T PLN02620 37 EVQKRVLEEILSRNAHVEYLQRHGLNGRTDRETFKKVMPVI-------TYEDIQPDINRIANGDTSPILCSKPISEFLTS 109 (612)
T ss_pred HHHHHHHHHHHHhcccChhHHhcCCCCCCCHHHHHHhCCCc-------cHHHhHHHHHHHHcCCCCCccCCCChhhhhhc
Confidence 456677777776442 12233467777778744 46777888888888832 23334333
Q ss_pred CC-CCCCCCCCCCCcHHHHH
Q 041475 127 GG-TNKAHSYINMDNEEQRL 145 (153)
Q Consensus 127 ~~-~s~~~~~~~~~eee~rl 145 (153)
++ ++++.|-||.|+|.-.-
T Consensus 110 SGTT~g~~K~IP~t~e~l~~ 129 (612)
T PLN02620 110 SGTSGGERKLMPTIEEELGR 129 (612)
T ss_pred CCCCCCceeeeecCHHHHHH
Confidence 44 44468999999997443
No 85
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=28.94 E-value=1.3e+02 Score=30.64 Aligned_cols=91 Identities=30% Similarity=0.346 Sum_probs=59.8
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHH-------HHH---HhhhhhhcCC---------
Q 041475 57 GRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYE-------MLA---EDVSRIEAGE--------- 117 (153)
Q Consensus 57 s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk-------~L~---eDVk~IEsG~--------- 117 (153)
+...||..+=..|..|-.+|+.+ .-+.||+.|-| |++||...-+ +|. .-+..|+.|.
T Consensus 794 gft~w~k~df~~fi~a~eKygr~---di~~ia~~~e~-~~eev~~y~rvfwer~~el~d~ek~~~~ie~~e~~i~r~~~~ 869 (971)
T KOG0385|consen 794 GFTNWTKRDFNQFIKANEKYGRD---DIENIAAEVEG-TPEEVGEYARVFWERLEELSDIEKIIYQIERGEKRIQRGDSI 869 (971)
T ss_pred cccchhhhhHHHHHHHhhccCcc---hhhhhHHhhcC-CHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhHhhhhHHHHH
Confidence 55679999999999999999975 57899999988 9999865433 332 1224455552
Q ss_pred -----CCCCCCCCCC---CCCCCCCCCCCCcHHHHHhhcccc
Q 041475 118 -----IPLPDYKKIG---GTNKAHSYINMDNEEQRLKTLRLS 151 (153)
Q Consensus 118 -----v~lP~y~~~~---~~s~~~~~~~~~eee~rl~~l~l~ 151 (153)
-.+..|+.+- ..-+..++.+-++++.|--.++|+
T Consensus 870 ~~~ld~k~~~~k~p~~l~i~~~~nk~~~ys~~edrfL~~~l~ 911 (971)
T KOG0385|consen 870 KKALDDKIARYKAPHQLRIQYGTNKGKNYSEEEDRFLECMLH 911 (971)
T ss_pred HHHHhhhHhhhcCchheeeeeccccCCCCchhhHHHHHHHHH
Confidence 1245565541 111122566788888886655553
No 86
>PF04510 DUF577: Family of unknown function (DUF577); InterPro: IPR007598 This is a family of Arabidopsis thaliana (Mouse-ear cress) proteins. Many of these members contain a repeated region.
Probab=28.94 E-value=43 Score=27.58 Aligned_cols=76 Identities=20% Similarity=0.199 Sum_probs=46.6
Q ss_pred cccCCCcchhh--------hhhhhhhhhccCCCCCCCCCCCCCHHHHHHHHHHHhhcCCCC-chHHHHHHHHcCCCCHHH
Q 041475 28 YKFSELPFLLY--------ISLFEFIYCTLFSFRNGIGRSTWTAKQNKLFENALAIYDKDT-PDRWHNLARAVGGKTVEE 98 (153)
Q Consensus 28 ~~~~~~~~~~~--------~~~~e~~~~~~~~~~n~~s~~~WT~EEdK~LE~ALakyp~~t-p~RWekIAa~VPGKT~kq 98 (153)
|-|..||.++| ..+++-.+..+.++.. .+...|+-.=...|-.++.-...+. -+.-..|+..| -+|+++
T Consensus 64 ~IF~~L~~~l~~efl~~~~~~L~~~~~~~L~~p~~-~d~~~W~LAl~~a~~~~Iql~e~~~~~~~vk~L~~~m-v~Sv~e 141 (174)
T PF04510_consen 64 HIFICLPMPLYGEFLIPFMENLLPEISKVLLPPEE-VDVEDWVLALTGAVCMAIQLLESSMRVDLVKELLPKM-VKSVKE 141 (174)
T ss_pred HHHHhCCchhhhhHHHHHHHHHHHHHHHHcCCchh-ccHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHH-HHHHHH
Confidence 56889997777 4566666677766654 4445576655555555555444333 24555565555 488888
Q ss_pred HHHHHHH
Q 041475 99 VKRHYEM 105 (153)
Q Consensus 99 cr~Ryk~ 105 (153)
+..|=.+
T Consensus 142 lV~~g~E 148 (174)
T PF04510_consen 142 LVERGME 148 (174)
T ss_pred HHHcccH
Confidence 7777664
No 87
>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=28.76 E-value=96 Score=21.37 Aligned_cols=40 Identities=20% Similarity=0.382 Sum_probs=26.2
Q ss_pred HHHHHHhhcCCC----CchHHHHHHHHcCCCC-----HHHHHHHHHHHH
Q 041475 68 LFENALAIYDKD----TPDRWHNLARAVGGKT-----VEEVKRHYEMLA 107 (153)
Q Consensus 68 ~LE~ALakyp~~----tp~RWekIAa~VPGKT-----~kqcr~Ryk~L~ 107 (153)
.|-.++.+.+.- ....|..||..++--+ ..+++..|....
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L 88 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYL 88 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHT
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHh
Confidence 455566666531 1356999999996422 478899998643
No 88
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=26.63 E-value=1.7e+02 Score=18.47 Aligned_cols=44 Identities=14% Similarity=0.188 Sum_probs=31.6
Q ss_pred CCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 61 WTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 61 WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
-|+.|-..|.-...-+. =..||..+ |.|.+-|..|...+..-+.
T Consensus 4 LT~~E~~vl~~l~~G~~------~~eIA~~l-~is~~tV~~~~~~i~~Kl~ 47 (58)
T PF00196_consen 4 LTERELEVLRLLAQGMS------NKEIAEEL-GISEKTVKSHRRRIMKKLG 47 (58)
T ss_dssp S-HHHHHHHHHHHTTS-------HHHHHHHH-TSHHHHHHHHHHHHHHHHT
T ss_pred cCHHHHHHHHHHHhcCC------cchhHHhc-CcchhhHHHHHHHHHHHhC
Confidence 46777777776665443 27899999 7999999988888766553
No 89
>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=26.04 E-value=2.5e+02 Score=20.04 Aligned_cols=28 Identities=18% Similarity=0.398 Sum_probs=21.3
Q ss_pred HHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 83 RWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 83 RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
.+..||+.+ |.|...|+.+.......++
T Consensus 131 ~~~eIA~~l-gis~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 131 SYKEIAEEL-GISVKTVEYHISKALKELR 158 (161)
T ss_pred CHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 577888877 7888888888877766665
No 90
>PF14164 YqzH: YqzH-like protein
Probab=24.41 E-value=54 Score=23.03 Aligned_cols=27 Identities=26% Similarity=0.610 Sum_probs=18.1
Q ss_pred HHHHHHHHhhcCCC------CchHHHHHHHHcC
Q 041475 66 NKLFENALAIYDKD------TPDRWHNLARAVG 92 (153)
Q Consensus 66 dK~LE~ALakyp~~------tp~RWekIAa~VP 92 (153)
+|++.++|.+|+.+ ++..|+.+.+.|-
T Consensus 7 ~Kmi~~~l~QYg~d~~~~pls~~E~~~L~~~i~ 39 (64)
T PF14164_consen 7 EKMIINCLRQYGYDVECMPLSDEEWEELCKHIQ 39 (64)
T ss_pred HHHHHHHHHHhCCcccCCCCCHHHHHHHHHHHH
Confidence 46677788888654 3577777766664
No 91
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=23.99 E-value=55 Score=23.85 Aligned_cols=47 Identities=15% Similarity=0.133 Sum_probs=31.0
Q ss_pred CHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHh
Q 041475 62 TAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAED 109 (153)
Q Consensus 62 T~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eD 109 (153)
..+|...|++||.+.-.....-.+++...++.... ++.+-+..|.+|
T Consensus 33 ~~~E~~rl~~Al~~~~~eL~~l~~~~~~~~~~~~a-~If~ah~~~L~D 79 (123)
T PF05524_consen 33 IEAEIERLEQALEKAREELEQLAERAESKLGEEEA-AIFEAHLMMLED 79 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHSSCT-HHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHH-HHHHHHHHHhcC
Confidence 46788899999998865322233344444544444 899999988777
No 92
>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=22.97 E-value=1.9e+02 Score=17.70 Aligned_cols=23 Identities=22% Similarity=0.352 Sum_probs=18.3
Q ss_pred HHHHHHHHcCCCCHHHHHHHHHHH
Q 041475 83 RWHNLARAVGGKTVEEVKRHYEML 106 (153)
Q Consensus 83 RWekIAa~VPGKT~kqcr~Ryk~L 106 (153)
.|..||..+ |.|...|+.+...-
T Consensus 28 s~~eIa~~l-~~s~~~v~~~l~ra 50 (54)
T PF08281_consen 28 SYAEIAEIL-GISESTVKRRLRRA 50 (54)
T ss_dssp -HHHHHHHC-TS-HHHHHHHHHHH
T ss_pred CHHHHHHHH-CcCHHHHHHHHHHH
Confidence 689999999 79999999888753
No 93
>COG3068 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.34 E-value=32 Score=28.58 Aligned_cols=64 Identities=13% Similarity=0.124 Sum_probs=47.5
Q ss_pred hhhhhhhhhccCCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhh
Q 041475 39 ISLFEFIYCTLFSFRNGIGRSTWTAKQNKLFENALAIYDKDTPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSR 112 (153)
Q Consensus 39 ~~~~e~~~~~~~~~~n~~s~~~WT~EEdK~LE~ALakyp~~tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~ 112 (153)
+.+-+++.++............||.++.|..+..=+.++- .|+-. |...+|.+|=-.|..|+++
T Consensus 117 i~iS~~Si~Tva~l~etqag~~~s~~~lKe~e~i~~E~Dv----QW~if------R~L~eceeRDi~LI~~Lr~ 180 (194)
T COG3068 117 IEVSKTSITTVAMLEETQAGREMSDEELKENEAVEQEWDI----QWEIF------RLLAECEERDIELIKGLRA 180 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHhHhhhHHHhhhCHHHHHHHHH----HHHHH------HHHHHHHHhhHHHHHHHHH
Confidence 4555667777776666667789999999988876665543 57654 7889999998888777764
No 94
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=21.72 E-value=2.6e+02 Score=21.56 Aligned_cols=49 Identities=8% Similarity=0.050 Sum_probs=32.0
Q ss_pred CHHHHHHHHHHHhhcCCC----------CchHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 62 TAKQNKLFENALAIYDKD----------TPDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 62 T~EEdK~LE~ALakyp~~----------tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
+.++.+.|..+|.+.|+. ..-..+.||+.+ |.|...|+.+-..-...++
T Consensus 129 ~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~s~~EIA~~L-gis~~tVk~~l~ra~~~Lr 187 (194)
T PRK09646 129 ARLERERVRDCLDALTDTQRESVTLAYYGGLTYREVAERL-AVPLGTVKTRMRDGLIRLR 187 (194)
T ss_pred HHhHHHHHHHHHHhCCHHHHHHHHHHHHcCCCHHHHHHHh-CCChHhHHHHHHHHHHHHH
Confidence 345667788888887753 123457788777 6777777777665444444
No 95
>PF11112 PyocinActivator: Pyocin activator protein PrtN
Probab=21.50 E-value=1.4e+02 Score=21.18 Aligned_cols=34 Identities=32% Similarity=0.504 Sum_probs=22.7
Q ss_pred CHHHHHHHHH-HH--HHhhhhhhcCCCCCCCCCCCCC
Q 041475 95 TVEEVKRHYE-ML--AEDVSRIEAGEIPLPDYKKIGG 128 (153)
Q Consensus 95 T~kqcr~Ryk-~L--~eDVk~IEsG~v~lP~y~~~~~ 128 (153)
+.++|.+.|- .| ..-.+++.+|.+|+|-++-+++
T Consensus 16 pL~~v~~~yf~~lt~~~a~rk~~~g~lplPv~rl~~S 52 (76)
T PF11112_consen 16 PLEEVCEDYFPHLTPKTAKRKANAGELPLPVFRLDDS 52 (76)
T ss_pred cHHHHHHHHHccCCHHHHHHHHHCCCCCCceeecCCc
Confidence 4556666665 43 3334668899999999976643
No 96
>PF00887 ACBP: Acyl CoA binding protein; InterPro: IPR000582 Acyl-CoA-binding protein (ACBP) is a small (10 Kd) protein that binds medium- and long-chain acyl-CoA esters with very high affinity and may function as an intracellular carrier of acyl-CoA esters []. ACBP is also known as diazepam binding inhibitor (DBI) or endozepine (EP) because of its ability to displace diazepam from the benzodiazepine (BZD) recognition site located on the GABA type A receptor. It is therefore possible that this protein also acts as a neuropeptide to modulate the action of the GABA receptor []. ACBP is a highly conserved protein of about 90 residues that is found in all four eukaryotic kingdoms, Animalia, Plantae, Fungi and Protista, and in some eubacterial species []. Although ACBP occurs as a completely independent protein, intact ACB domains have been identified in a number of large, multifunctional proteins in a variety of eukaryotic species. These include large membrane-associated proteins with N-terminal ACB domains, multifunctional enzymes with both ACB and peroxisomal enoyl-CoA Delta(3), Delta(2)-enoyl-CoA isomerase domains, and proteins with both an ACB domain and ankyrin repeats (IPR002110 from INTERPRO) []. The ACB domain consists of four alpha-helices arranged in a bowl shape with a highly exposed acyl-CoA-binding site. The ligand is bound through specific interactions with residues on the protein, most notably several conserved positive charges that interact with the phosphate group on the adenosine-3'phosphate moiety, and the acyl chain is sandwiched between the hydrophobic surfaces of CoA and the protein []. Other proteins containing an ACB domain include: Endozepine-like peptide (ELP) (gene DBIL5) from mouse []. ELP is a testis-specific ACBP homologue that may be involved in the energy metabolism of the mature sperm. MA-DBI, a transmembrane protein of unknown function which has been found in mammals. MA-DBI contains a N-terminal ACB domain. DRS-1 [], a human protein of unknown function that contains a N-terminal ACB domain and a C-terminal enoyl-CoA isomerase/hydratase domain. ; GO: 0000062 fatty-acyl-CoA binding; PDB: 2CB8_A 2FJ9_A 2LBB_A 1ST7_A 3EPY_B 2FDQ_C 1NTI_A 1HB8_A 1ACA_A 1NVL_A ....
Probab=21.33 E-value=92 Score=21.71 Aligned_cols=22 Identities=36% Similarity=0.495 Sum_probs=19.1
Q ss_pred HcCCCCHHHHHHHHHHHHHhhh
Q 041475 90 AVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 90 ~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
.+.|.|.+|.+++|-.+++.+.
T Consensus 62 ~l~gms~~eA~~~Yi~~v~~~~ 83 (87)
T PF00887_consen 62 ALKGMSKEEAMREYIELVEELI 83 (87)
T ss_dssp TTTTTHHHHHHHHHHHHHHHHH
T ss_pred HccCCCHHHHHHHHHHHHHHHH
Confidence 3579999999999999988875
No 97
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=21.18 E-value=3.3e+02 Score=19.65 Aligned_cols=44 Identities=9% Similarity=0.158 Sum_probs=32.4
Q ss_pred HHHHHHHhhcCCC----------CchHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 67 KLFENALAIYDKD----------TPDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 67 K~LE~ALakyp~~----------tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
..+..+|.+.|+. ..-.++.||+.+ |.|...|+.+.......++
T Consensus 97 ~~l~~~l~~L~~~~r~i~~l~~~~g~s~~eIA~~l-gis~~tv~~~l~Ra~~~Lr 150 (154)
T TIGR02950 97 EEITHHLSRLPENYRTVLILREFKEFSYKEIAELL-NLSLAKVKSNLFRARKELK 150 (154)
T ss_pred HHHHHHHHhCCHhheeeeeehhhccCcHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 4678888888753 134689999998 7999998888776555443
No 98
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=21.03 E-value=3.3e+02 Score=20.00 Aligned_cols=50 Identities=12% Similarity=0.155 Sum_probs=34.3
Q ss_pred HHHHHHHHHHhhcCCC----------CchHHHHHHHHcCCCCHHHHHHHHHHHHHhhhhhh
Q 041475 64 KQNKLFENALAIYDKD----------TPDRWHNLARAVGGKTVEEVKRHYEMLAEDVSRIE 114 (153)
Q Consensus 64 EEdK~LE~ALakyp~~----------tp~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk~IE 114 (153)
+|...+..+|...|+. ..-..+.||..+ |-|...|+.|.......++.++
T Consensus 101 ~~~~~~~~~l~~L~~~~r~v~~l~~~~~~s~~eIA~~l-gis~~tv~~~l~Rar~~L~~~~ 160 (161)
T PRK12541 101 HEIASWLDSLSSLPLERRNVLLLRDYYGFSYKEIAEMT-GLSLAKVKIELHRGRKETKSIK 160 (161)
T ss_pred hHHHHHHHHHHHCCHHHHHHhhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHhhc
Confidence 3444556677777652 123457888888 7888889888887777776654
No 99
>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=21.00 E-value=71 Score=20.69 Aligned_cols=26 Identities=35% Similarity=0.572 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHcC
Q 041475 63 AKQNKLFENALAIYDKDTPDRWHNLARAVG 92 (153)
Q Consensus 63 ~EEdK~LE~ALakyp~~tp~RWekIAa~VP 92 (153)
.++..+|..+| .+..|+...||..++
T Consensus 18 ~~~~d~F~~~L----~~s~D~F~vIaeyfG 43 (49)
T PF12451_consen 18 ADQHDLFFKQL----EESEDRFSVIAEYFG 43 (49)
T ss_pred hhcHHHHHHHH----HhCCCCchhHHHHHc
Confidence 34556788888 345679999999994
No 100
>KOG2941 consensus Beta-1,4-mannosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=20.58 E-value=43 Score=31.11 Aligned_cols=22 Identities=27% Similarity=0.732 Sum_probs=18.5
Q ss_pred CCCCCCCHHHHH-HHHHHHhhcC
Q 041475 56 IGRSTWTAKQNK-LFENALAIYD 77 (153)
Q Consensus 56 ~s~~~WT~EEdK-~LE~ALakyp 77 (153)
.++.+||++||= +|..||..|.
T Consensus 259 vsSTswTpDEdf~ILL~AL~~y~ 281 (444)
T KOG2941|consen 259 VSSTSWTPDEDFGILLEALVIYE 281 (444)
T ss_pred EecCCCCCcccHHHHHHHHHhhh
Confidence 378899999987 8888999775
No 101
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=20.39 E-value=2.2e+02 Score=21.28 Aligned_cols=51 Identities=4% Similarity=0.168 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHHHhhcCCCC----------chHHHHHHHHcCCCCHHHHHHHHHHHHHhhh
Q 041475 60 TWTAKQNKLFENALAIYDKDT----------PDRWHNLARAVGGKTVEEVKRHYEMLAEDVS 111 (153)
Q Consensus 60 ~WT~EEdK~LE~ALakyp~~t----------p~RWekIAa~VPGKT~kqcr~Ryk~L~eDVk 111 (153)
.|..++...+.++|...|... .-.-+.||+.+ |.|..-|+.|...-...++
T Consensus 104 ~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~~~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr 164 (173)
T PRK12522 104 FIQKVEAEMIREVIQLLNEKYKTVLVLYYYEQYSYKEMSEIL-NIPIGTVKYRLNYAKKQMR 164 (173)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 456667778889998887631 12235667666 6777777777655444444
Done!