Query 021965
Match_columns 304
No_of_seqs 161 out of 545
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 06:59:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021965.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021965hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12776 Myb_DNA-bind_3: Myb/S 100.0 8E-28 1.7E-32 184.8 11.9 95 21-116 1-96 (96)
2 PF13837 Myb_DNA-bind_4: Myb/S 98.5 8.8E-08 1.9E-12 72.1 3.0 70 19-89 1-72 (90)
3 PF13873 Myb_DNA-bind_5: Myb/S 97.4 0.00082 1.8E-08 49.1 6.9 66 20-85 3-73 (78)
4 PF00249 Myb_DNA-binding: Myb- 96.9 0.0032 7E-08 41.5 5.7 47 20-81 2-48 (48)
5 PF04504 DUF573: Protein of un 96.5 0.022 4.7E-07 43.7 8.6 67 20-90 5-71 (98)
6 PF13921 Myb_DNA-bind_6: Myb-l 95.8 0.018 3.9E-07 39.6 4.3 43 22-81 1-44 (60)
7 KOG4282 Transcription factor G 95.6 0.032 7E-07 52.5 6.6 72 19-93 54-125 (345)
8 smart00717 SANT SANT SWI3, AD 94.6 0.08 1.7E-06 33.9 4.5 46 20-81 2-47 (49)
9 smart00595 MADF subfamily of S 94.2 0.12 2.7E-06 38.3 5.5 37 49-91 26-62 (89)
10 PF10545 MADF_DNA_bdg: Alcohol 93.6 0.22 4.7E-06 36.2 5.7 41 48-92 24-64 (85)
11 cd00167 SANT 'SWI3, ADA2, N-Co 93.6 0.14 3.1E-06 32.1 4.1 44 21-80 1-44 (45)
12 TIGR01557 myb_SHAQKYF myb-like 92.2 0.71 1.5E-05 31.6 6.1 51 18-81 2-54 (57)
13 PLN03212 Transcription repress 82.2 4 8.6E-05 36.4 6.1 47 21-84 80-126 (249)
14 smart00426 TEA TEA domain. 82.0 2 4.4E-05 30.4 3.4 61 20-80 4-68 (68)
15 PLN03091 hypothetical protein; 81.5 4.1 8.8E-05 39.3 6.2 49 20-85 68-116 (459)
16 PLN03212 Transcription repress 76.4 7.2 0.00016 34.8 5.8 45 19-78 25-69 (249)
17 PF08914 Myb_DNA-bind_2: Rap1 76.1 9.9 0.00021 26.7 5.4 52 19-77 2-53 (65)
18 PLN03091 hypothetical protein; 74.3 7.3 0.00016 37.6 5.7 48 16-78 11-58 (459)
19 KOG0048 Transcription factor, 72.4 8.6 0.00019 34.2 5.5 51 21-88 64-115 (238)
20 PLN03162 golden-2 like transcr 71.8 9.7 0.00021 35.8 5.7 58 15-84 233-290 (526)
21 PF03353 Lin-8: Ras-mediated v 67.1 19 0.00042 33.2 6.9 74 17-91 15-89 (313)
22 TIGR02894 DNA_bind_RsfA transc 55.5 33 0.00071 28.6 5.4 55 21-86 6-61 (161)
23 PF14420 Clr5: Clr5 domain 54.9 21 0.00046 23.9 3.6 29 52-80 22-50 (54)
24 PF09357 RteC: RteC protein; 50.9 70 0.0015 28.1 7.1 52 13-68 131-182 (218)
25 PRK13923 putative spore coat p 50.6 73 0.0016 26.9 6.8 56 20-86 6-62 (170)
26 smart00251 SAM_PNT SAM / Point 49.3 51 0.0011 24.2 5.1 73 8-82 6-81 (82)
27 PF00627 UBA: UBA/TS-N domain; 47.1 36 0.00079 20.6 3.5 31 250-281 3-33 (37)
28 cd08532 SAM_PNT-PDEF-like Ster 46.0 1.1E+02 0.0024 22.1 6.3 64 18-84 9-75 (76)
29 PF01285 TEA: TEA/ATTS domain 44.4 10 0.00022 36.9 0.9 68 17-84 47-116 (431)
30 PF13565 HTH_32: Homeodomain-l 41.0 94 0.002 21.7 5.5 50 14-75 24-75 (77)
31 PF15080 DUF4547: Domain of un 39.4 66 0.0014 26.9 4.7 65 230-297 81-145 (196)
32 PF12826 HHH_2: Helix-hairpin- 38.1 50 0.0011 22.8 3.4 30 253-283 34-63 (64)
33 PF13376 OmdA: Bacteriocin-pro 37.2 43 0.00093 23.0 3.0 27 272-298 12-38 (63)
34 PF02198 SAM_PNT: Sterile alph 35.6 91 0.002 22.7 4.7 77 6-83 4-83 (84)
35 PF03705 CheR_N: CheR methyltr 35.4 1E+02 0.0022 20.2 4.6 35 50-84 2-39 (57)
36 cd00194 UBA Ubiquitin Associat 35.2 92 0.002 18.6 4.0 29 252-281 4-32 (38)
37 cd08535 SAM_PNT-Tel_Yan Steril 34.6 1.3E+02 0.0029 21.2 5.1 62 20-83 4-68 (68)
38 PF10845 DUF2576: Protein of u 33.8 91 0.002 20.1 3.7 32 65-99 8-39 (48)
39 cd08542 SAM_PNT-ETS-1 Sterile 32.1 2.2E+02 0.0047 21.3 6.2 78 6-84 6-86 (88)
40 TIGR02097 yccV hemimethylated 31.8 34 0.00074 26.3 1.9 33 96-137 22-54 (101)
41 KOG3841 TEF-1 and related tran 30.8 1.4E+02 0.0031 28.4 6.0 63 20-83 77-144 (455)
42 KOG0048 Transcription factor, 30.3 67 0.0015 28.4 3.9 42 21-77 11-52 (238)
43 PF13325 MCRS_N: N-terminal re 28.9 1.6E+02 0.0034 25.6 5.7 61 17-87 71-131 (199)
44 PF09963 DUF2197: Uncharacteri 28.3 18 0.00039 24.7 -0.2 16 119-134 17-32 (56)
45 PF03206 NifW: Nitrogen fixati 27.9 2.4E+02 0.0052 21.8 6.0 51 57-118 14-65 (105)
46 COG2150 Predicted regulator of 27.8 1E+02 0.0023 25.7 4.2 42 261-302 52-93 (167)
47 smart00165 UBA Ubiquitin assoc 25.9 1.5E+02 0.0033 17.5 4.0 22 252-274 4-25 (37)
48 cd08534 SAM_PNT-GABP-alpha Ste 25.8 2.2E+02 0.0048 21.3 5.3 76 6-82 6-84 (89)
49 cd08203 SAM_PNT Sterile alpha 24.8 2.4E+02 0.0053 19.5 5.4 61 20-82 3-66 (66)
50 PF07904 Eaf7: Chromatin modif 24.7 2.6E+02 0.0056 20.9 5.6 46 28-78 4-54 (91)
51 KOG4330 Uncharacterized conser 24.1 1E+02 0.0022 26.2 3.4 54 18-78 142-198 (206)
52 cd08533 SAM_PNT-ETS-1,2 Steril 24.1 2.7E+02 0.0059 19.8 5.9 64 19-83 4-70 (71)
53 PF13325 MCRS_N: N-terminal re 23.9 1.8E+02 0.0039 25.2 5.2 45 21-80 1-45 (199)
54 PF08247 ENOD40: ENOD40 protei 23.8 16 0.00035 16.7 -0.7 7 298-304 1-7 (12)
55 cd08543 SAM_PNT-ETS-2 Sterile 23.0 3.3E+02 0.0071 20.4 6.2 76 9-85 9-87 (89)
56 smart00674 CENPB Putative DNA- 21.7 2.6E+02 0.0057 18.8 5.3 18 105-123 46-63 (66)
57 KOG0871 Class 2 transcription 21.6 4.5E+02 0.0097 21.7 6.6 20 243-263 63-82 (156)
58 PF11459 DUF2893: Protein of u 21.5 1.7E+02 0.0038 20.8 3.8 53 245-298 16-68 (69)
59 cd07153 Fur_like Ferric uptake 20.9 2.6E+02 0.0056 21.1 5.2 39 237-275 7-46 (116)
No 1
>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=99.95 E-value=8e-28 Score=184.84 Aligned_cols=95 Identities=31% Similarity=0.681 Sum_probs=92.5
Q ss_pred CCChHHHHHHHHHHHHHHHhCCC-CCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHhhcCCCceee
Q 021965 21 VWSIAMDKCLIEALAIQARTGNK-IDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYKVMRDLLSQDGFHWN 99 (304)
Q Consensus 21 ~Wt~~~~~~lld~l~e~~~~G~~-~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~~~~~l~~~SG~gWD 99 (304)
.||+.++++||++|++++..|++ .+++|++++|+.|+.+||+++|..+|+.||+||++.||+.|+.|+.|+++||||||
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~~~~~l~~~sg~gwd 80 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYRIWKELRNHSGFGWD 80 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHHHHHHHHcCCCceEc
Confidence 59999999999999999999999 48999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccCChHHHHHH
Q 021965 100 PNTKMIECDNDDLWKRY 116 (304)
Q Consensus 100 ~~~~~i~a~~~e~W~~~ 116 (304)
+.++||+|+ +|+|++|
T Consensus 81 ~~~~~i~a~-~e~W~~y 96 (96)
T PF12776_consen 81 PETGMITAD-DEWWDEY 96 (96)
T ss_pred CCCCeEECC-HHHHhhC
Confidence 999999996 9999986
No 2
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=98.48 E-value=8.8e-08 Score=72.15 Aligned_cols=70 Identities=19% Similarity=0.205 Sum_probs=47.5
Q ss_pred CcCCChHHHHHHHHHHHHHHHhCCC-CCCCCCH-HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHH
Q 021965 19 NVVWSIAMDKCLIEALAIQARTGNK-IDKCFNE-NAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYKVMRD 89 (304)
Q Consensus 19 ~~~Wt~~~~~~lld~l~e~~~~G~~-~~~~f~~-~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~~~~~ 89 (304)
|..||++++..||+++.+.+..... ..+..+. ..|..|+..|++ .|...|..||++||+.|++.|+.++.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~-~G~~rt~~qc~~Kw~~L~~~Yk~~k~ 72 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAE-HGYNRTPEQCRNKWKNLKKKYKKIKD 72 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHH-HC----HHHHHHHHHHHHHHHHCSSS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 3579999999999999984322211 1234444 599999999995 69999999999999999999987764
No 3
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=97.36 E-value=0.00082 Score=49.08 Aligned_cols=66 Identities=14% Similarity=0.074 Sum_probs=53.3
Q ss_pred cCCChHHHHHHHHHHHHH--HHhCCCCC---CCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQ--ARTGNKID---KCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYK 85 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~--~~~G~~~~---~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~ 85 (304)
..||..+..+||+++.+. +..|...+ ...+..+|..|+..||+..|...|..|++.+|..||..=+
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~K 73 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAK 73 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHH
Confidence 489999999999999775 33442222 2346799999999999999888999999999999987644
No 4
>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=96.91 E-value=0.0032 Score=41.48 Aligned_cols=47 Identities=15% Similarity=0.227 Sum_probs=37.8
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIK 81 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk 81 (304)
-.||++++..|++++... |.. .|..|+..|. ...|..||++||..++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~---g~~--------~W~~Ia~~~~----~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKY---GKD--------NWKKIAKRMP----GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHS---TTT--------HHHHHHHHHS----SSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHh---CCc--------HHHHHHHHcC----CCCCHHHHHHHHHhhC
Confidence 379999999999998655 532 7999998776 7889999999998764
No 5
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=96.54 E-value=0.022 Score=43.69 Aligned_cols=67 Identities=13% Similarity=0.246 Sum_probs=53.5
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHh
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYKVMRDL 90 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~~~~~l 90 (304)
-.||++.+-.||+-|++....... ... ..+......+.......++..||.+|+++||+.|.....-
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~---~p~-~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k 71 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGK---SPQ-PDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK 71 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCC---CCC-ccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh
Confidence 369999999999999999665322 222 2677777778888888899999999999999999876543
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=95.75 E-value=0.018 Score=39.64 Aligned_cols=43 Identities=21% Similarity=0.418 Sum_probs=33.7
Q ss_pred CChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH-HH
Q 021965 22 WSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKT-IK 81 (304)
Q Consensus 22 Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~-lk 81 (304)
||++++..|+.++.+. |+ .|..|+..|. ..|..||++||.. |+
T Consensus 1 WT~eEd~~L~~~~~~~---g~---------~W~~Ia~~l~-----~Rt~~~~~~r~~~~l~ 44 (60)
T PF13921_consen 1 WTKEEDELLLELVKKY---GN---------DWKKIAEHLG-----NRTPKQCRNRWRNHLR 44 (60)
T ss_dssp S-HHHHHHHHHHHHHH---TS----------HHHHHHHST-----TS-HHHHHHHHHHTTS
T ss_pred CCHHHHHHHHHHHHHH---Cc---------CHHHHHHHHC-----cCCHHHHHHHHHHHCc
Confidence 9999999999998776 43 5999988864 7889999999987 53
No 7
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=95.56 E-value=0.032 Score=52.48 Aligned_cols=72 Identities=13% Similarity=0.139 Sum_probs=57.2
Q ss_pred CcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHhhcC
Q 021965 19 NVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYKVMRDLLSQ 93 (304)
Q Consensus 19 ~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~~~~~l~~~ 93 (304)
...|+.+.+..||++.-+.-.. -..+..+...|..|+.++ ...|...+..||++||+.|++.|+.-+.-...
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~--~~~~~~k~~~We~va~k~-~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~~~ 125 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVA--LRRGKLKGPLWEEVARKM-AELGYPRSPKQCKAKIENLKKKYKKEKAKKEG 125 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHH--HHhhhhcccHHHHHHHHH-HHhCCCCCHHHHHHHHHHHHHHHHHHhcccCC
Confidence 3789999999999999855322 223445678999999943 44799999999999999999999988866543
No 8
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=94.60 E-value=0.08 Score=33.90 Aligned_cols=46 Identities=17% Similarity=0.275 Sum_probs=37.5
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIK 81 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk 81 (304)
..||++++..|+.++.+. |. ..|..|+..|. ..|..+|++||..+.
T Consensus 2 ~~Wt~~E~~~l~~~~~~~---g~--------~~w~~Ia~~~~-----~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKY---GK--------NNWEKIAKELP-----GRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHH---Cc--------CCHHHHHHHcC-----CCCHHHHHHHHHHHc
Confidence 479999999999998765 42 35999998885 779999999998765
No 9
>smart00595 MADF subfamily of SANT domain.
Probab=94.23 E-value=0.12 Score=38.26 Aligned_cols=37 Identities=16% Similarity=0.290 Sum_probs=32.2
Q ss_pred CHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 021965 49 NENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYKVMRDLL 91 (304)
Q Consensus 49 ~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~~~~~l~ 91 (304)
+..+|..|+..|+. +.+.|+.||+.||..|.....-.
T Consensus 26 r~~aW~~Ia~~l~~------~~~~~~~kw~~LR~~y~~e~~r~ 62 (89)
T smart00595 26 KRKAWEEIAEELGL------SVEECKKRWKNLRDRYRRELKRL 62 (89)
T ss_pred HHHHHHHHHHHHCc------CHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999977 99999999999999999865443
No 10
>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=93.60 E-value=0.22 Score=36.21 Aligned_cols=41 Identities=15% Similarity=0.301 Sum_probs=34.0
Q ss_pred CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHhhc
Q 021965 48 FNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYKVMRDLLS 92 (304)
Q Consensus 48 f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~~~~~l~~ 92 (304)
.+.++|..|+..|+ ..++.+.|+++|..||..|.....-..
T Consensus 24 ~r~~aw~~Ia~~l~----~~~~~~~~~~~w~~Lr~~y~~~~~~~~ 64 (85)
T PF10545_consen 24 LREEAWQEIARELG----KEFSVDDCKKRWKNLRDRYRRELKKIK 64 (85)
T ss_pred HHHHHHHHHHHHHc----cchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45689999999884 445688999999999999999777665
No 11
>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=93.58 E-value=0.14 Score=32.11 Aligned_cols=44 Identities=18% Similarity=0.344 Sum_probs=35.3
Q ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 021965 21 VWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTI 80 (304)
Q Consensus 21 ~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~l 80 (304)
.||.+++..|+.++.+. |. ..|..|+..|.. .+..+|++||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~---g~--------~~w~~Ia~~~~~-----rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKY---GK--------NNWEKIAKELPG-----RTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHH---Cc--------CCHHHHHhHcCC-----CCHHHHHHHHHHh
Confidence 49999999999998765 42 348899988753 7889999998765
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=92.21 E-value=0.71 Score=31.62 Aligned_cols=51 Identities=16% Similarity=0.313 Sum_probs=34.6
Q ss_pred CCcCCChHHHHHHHHHHHHHHHhCCCCCCCC-CHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Q 021965 18 RNVVWSIAMDKCLIEALAIQARTGNKIDKCF-NENAYTAACIAVNTRFNL-NLNNQKVVNRLKTIK 81 (304)
Q Consensus 18 ~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f-~~~~w~~i~~~ln~~~g~-~~t~~q~knr~~~lk 81 (304)
++..||++....||+.+... |. +.+ ++ ..|+. .++. .+|..||++|+...+
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~---G~---g~~a~p---k~I~~----~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKL---GG---PDWATP---KRILE----LMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHh---CC---Ccccch---HHHHH----HcCCCCCCHHHHHHHHHHHH
Confidence 57899999999999998655 41 111 01 33443 4443 459999999998654
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=82.22 E-value=4 Score=36.39 Aligned_cols=47 Identities=9% Similarity=0.109 Sum_probs=34.6
Q ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 021965 21 VWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRY 84 (304)
Q Consensus 21 ~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y 84 (304)
.||.+++..|+++... -|+ -|..|+..|.. -|-.+|||||..+-+..
T Consensus 80 pWT~EED~lLlel~~~---~Gn---------KWs~IAk~LpG-----RTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 80 GITSDEEDLILRLHRL---LGN---------RWSLIAGRIPG-----RTDNEIKNYWNTHLRKK 126 (249)
T ss_pred CCChHHHHHHHHHHHh---ccc---------cHHHHHhhcCC-----CCHHHHHHHHHHHHhHH
Confidence 7999999998877433 353 49999998744 34689999997665543
No 14
>smart00426 TEA TEA domain.
Probab=82.00 E-value=2 Score=30.36 Aligned_cols=61 Identities=18% Similarity=0.199 Sum_probs=44.1
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCCCC---CCCHHHHHH-HHHHHHHHhCCCCCHHHHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKIDK---CFNENAYTA-ACIAVNTRFNLNLNNQKVVNRLKTI 80 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~~~---~f~~~~w~~-i~~~ln~~~g~~~t~~q~knr~~~l 80 (304)
..|.+..+.+|++.|......|.+... -.+.-+-|. |...+..++|..-|+.|+-+|+..|
T Consensus 4 ~vWp~~lE~Af~~aL~~~~~~g~~kik~~~r~k~~gRNelIs~YI~~~tGk~Rt~KQVsShIQvl 68 (68)
T smart00426 4 GVWSPDIEQAFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVL 68 (68)
T ss_pred CcCcHHHHHHHHHHHHHcCccCcccchhhhcCcccchhHHHHHHHHHHhCCccchhhhcchheeC
Confidence 589999999999999888777765311 111122333 5566677899999999999998643
No 15
>PLN03091 hypothetical protein; Provisional
Probab=81.47 E-value=4.1 Score=39.32 Aligned_cols=49 Identities=16% Similarity=0.222 Sum_probs=37.4
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYK 85 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~ 85 (304)
-.||.+++..||++.... |+ .|..|+..|. .-|..+|||||..+-+.+.
T Consensus 68 gpWT~EED~lLLeL~k~~---Gn---------KWskIAk~LP-----GRTDnqIKNRWnslLKKkl 116 (459)
T PLN03091 68 GTFSQQEENLIIELHAVL---GN---------RWSQIAAQLP-----GRTDNEIKNLWNSCLKKKL 116 (459)
T ss_pred CCCCHHHHHHHHHHHHHh---Cc---------chHHHHHhcC-----CCCHHHHHHHHHHHHHHHH
Confidence 379999999999888543 53 5999998773 3457799999987666553
No 16
>PLN03212 Transcription repressor MYB5; Provisional
Probab=76.39 E-value=7.2 Score=34.80 Aligned_cols=45 Identities=13% Similarity=0.178 Sum_probs=33.2
Q ss_pred CcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 021965 19 NVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLK 78 (304)
Q Consensus 19 ~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~ 78 (304)
+..||++++..|+.++... |. ..|..|+.. .|...+..||+.||.
T Consensus 25 Rg~WT~EEDe~L~~lV~ky---G~--------~nW~~IAk~----~g~gRT~KQCReRW~ 69 (249)
T PLN03212 25 RGPWTVEEDEILVSFIKKE---GE--------GRWRSLPKR----AGLLRCGKSCRLRWM 69 (249)
T ss_pred CCCCCHHHHHHHHHHHHHh---Cc--------ccHHHHHHh----hhcCCCcchHHHHHH
Confidence 4579999999999876544 32 138877754 456678889999985
No 17
>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=76.09 E-value=9.9 Score=26.71 Aligned_cols=52 Identities=12% Similarity=0.191 Sum_probs=29.5
Q ss_pred CcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Q 021965 19 NVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRL 77 (304)
Q Consensus 19 ~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~ 77 (304)
|+..|.++|.+|++.+.+....|....++ .-|.. |.+......|..-.++||
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn---~iwk~----le~~~~t~HtwQSwR~Ry 53 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGN---KIWKE----LEEKHPTRHTWQSWRDRY 53 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSS---HHHHH----HHHS-SSS--SHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchH---HHHHH----HHHHcCCCCCHHHHHHHH
Confidence 46789999999999999886665333332 44544 444455578888888888
No 18
>PLN03091 hypothetical protein; Provisional
Probab=74.32 E-value=7.3 Score=37.63 Aligned_cols=48 Identities=19% Similarity=0.221 Sum_probs=34.2
Q ss_pred CCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 021965 16 KGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLK 78 (304)
Q Consensus 16 ~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~ 78 (304)
+-++..||+++|..|++++... |. ..|..|+.. .|...+..||+.||.
T Consensus 11 klrKg~WTpEEDe~L~~~V~ky---G~--------~nWs~IAk~----~g~gRT~KQCRERW~ 58 (459)
T PLN03091 11 KLRKGLWSPEEDEKLLRHITKY---GH--------GCWSSVPKQ----AGLQRCGKSCRLRWI 58 (459)
T ss_pred CCcCCCCCHHHHHHHHHHHHHh---Cc--------CCHHHHhhh----hccCcCcchHhHHHH
Confidence 3344689999999999887554 42 248888754 355667888888876
No 19
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=72.42 E-value=8.6 Score=34.19 Aligned_cols=51 Identities=24% Similarity=0.308 Sum_probs=38.5
Q ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH-HHHHHHHHH
Q 021965 21 VWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKT-IKKRYKVMR 88 (304)
Q Consensus 21 ~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~-lk~~y~~~~ 88 (304)
.||++++..+|.+-.. -||| |..||..|--++. ..|||+|.+ ||+++....
T Consensus 64 ~fT~eEe~~Ii~lH~~---~GNr---------Ws~IA~~LPGRTD-----NeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 64 NFSDEEEDLIIKLHAL---LGNR---------WSLIAGRLPGRTD-----NEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred CCCHHHHHHHHHHHHH---HCcH---------HHHHHhhCCCcCH-----HHHHHHHHHHHHHHHHHcC
Confidence 7999999999887644 4886 9999998876655 678999944 466665443
No 20
>PLN03162 golden-2 like transcription factor; Provisional
Probab=71.77 E-value=9.7 Score=35.82 Aligned_cols=58 Identities=14% Similarity=0.275 Sum_probs=40.8
Q ss_pred CCCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 021965 15 HKGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRY 84 (304)
Q Consensus 15 ~~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y 84 (304)
.|++|+.||++..+.|++.+.+. | .+. ..=+.|.+.++- -.+|..+|++|++..|..-
T Consensus 233 ~KKpRLrWTpELH~rFVeAV~qL---G--~dK----ATPK~ILelMnV---~GLTRenVKSHLQKYRl~r 290 (526)
T PLN03162 233 KKKAKVDWTPELHRRFVHAVEQL---G--VEK----AFPSRILELMGV---QCLTRHNIASHLQKYRSHR 290 (526)
T ss_pred CCCCcccCCHHHHHHHHHHHHHh---C--cCc----cchHHHHHHcCC---CCcCHHHHHHHHHHHHHhc
Confidence 56788999999999999988544 5 222 222345555542 3689999999998766543
No 21
>PF03353 Lin-8: Ras-mediated vulval-induction antagonist; InterPro: IPR005020 This is a family of Caenorhabditis elegans proteins of unknown function.
Probab=67.11 E-value=19 Score=33.24 Aligned_cols=74 Identities=8% Similarity=0.157 Sum_probs=56.3
Q ss_pred CCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH-HHHhh
Q 021965 17 GRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYKV-MRDLL 91 (304)
Q Consensus 17 ~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~~-~~~l~ 91 (304)
.....|.....+.+|.+|-+.-.... ..+......|..++..++.+||.-++..+|+.-|+.-|...+. ++.+.
T Consensus 15 ~~~~~~~~~~kk~il~~i~~~p~lw~-~~~~~~~~~~~~v~v~vy~Rtg~~~~~~~i~~~~~~aK~~Lr~~l~~~I 89 (313)
T PF03353_consen 15 NKKAKKDVELKKVILSEIEKFPELWK-KKSRVPNEEWEEVAVEVYKRTGKLVSVKHIRSIFKNAKDSLRRRLRKCI 89 (313)
T ss_pred cccchhhHHHHHHHHHHHhcChHhhh-ccCCccHHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33456777777778887765544444 4456678899999999999999999999999999988887665 44433
No 22
>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=55.51 E-value=33 Score=28.63 Aligned_cols=55 Identities=22% Similarity=0.323 Sum_probs=36.3
Q ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH-HHHHHHHHH
Q 021965 21 VWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRL-KTIKKRYKV 86 (304)
Q Consensus 21 ~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~-~~lk~~y~~ 86 (304)
.||.+.|..|-+..+.+|..|.- .-.++..+...||. |...|-=|| ..+|++|..
T Consensus 6 AWT~eeDlLLAEtVLrhIReG~T-----QL~AFeEvg~~L~R------TsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 6 AWTHEEDLLLAETVLRHIREGST-----QLSAFEEVGRALNR------TAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred ccccHHHHHHHHHHHHHHhcchH-----HHHHHHHHHHHHcc------cHHHhcchHHHHHHHHHHH
Confidence 79999999999999999999842 12456666666553 444443344 334555544
No 23
>PF14420 Clr5: Clr5 domain
Probab=54.92 E-value=21 Score=23.86 Aligned_cols=29 Identities=7% Similarity=0.126 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 021965 52 AYTAACIAVNTRFNLNLNNQKVVNRLKTI 80 (304)
Q Consensus 52 ~w~~i~~~ln~~~g~~~t~~q~knr~~~l 80 (304)
....|+..|.+.+|..-|..|+++|++.+
T Consensus 22 tl~~v~~~M~~~~~F~at~rqy~~r~~~W 50 (54)
T PF14420_consen 22 TLEEVMEIMKEEHGFKATKRQYKRRFKKW 50 (54)
T ss_pred cHHHHHHHHHHHhCCCcCHHHHHHHHHHc
Confidence 34689999999999999999999999865
No 24
>PF09357 RteC: RteC protein; InterPro: IPR018534 Human colonic Bacteroides species harbour a family of large conjugative transposons, called tetracycline resistance (Tcr) elements. Activities of these elements are enhanced by pregrowth of bacteria in medium containing tetracycline, indicating that at least some Tcr element genes are regulated by tetracycline. An insertional disruption in the rteC gene abolished self-transfer of the Tcr element to Bacteroides recipients, indicating that the gene was essential for self-transfer [].
Probab=50.89 E-value=70 Score=28.11 Aligned_cols=52 Identities=15% Similarity=0.153 Sum_probs=40.1
Q ss_pred ccCCCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCC
Q 021965 13 MKHKGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNL 68 (304)
Q Consensus 13 ~~~~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~ 68 (304)
.....+...||.+. ..|+|++.-....|.-.++. ..-..|+..|..-|+..+
T Consensus 131 ~~~~~~~l~WTgsk-~~LiELiYaL~~~g~in~G~---~~i~~i~~~fe~~F~i~l 182 (218)
T PF09357_consen 131 SPSPKSKLKWTGSK-TDLIELIYALYASGCINNGN---ADIKEIARFFEKLFNIDL 182 (218)
T ss_pred ccCCCCCccccchH-HHHHHHHHHHHHcCCcCCCc---cCHHHHHHHHHHHhCCCc
Confidence 34456678999985 66899998888888554433 777889999999999875
No 25
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=50.57 E-value=73 Score=26.87 Aligned_cols=56 Identities=20% Similarity=0.293 Sum_probs=36.7
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH-HHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRL-KTIKKRYKV 86 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~-~~lk~~y~~ 86 (304)
=.||.+.+..|-+.+++++..|.. .-.+...+...|+. |..+|.-|| ..++++|..
T Consensus 6 dawt~e~d~llae~vl~~i~eg~t-----ql~afe~~g~~L~r------t~aac~fRwNs~vrk~Yee 62 (170)
T PRK13923 6 DAWTQERDGLLAEVVLRHIREGGT-----QLKAFEEVGDALKR------TAAACGFRWNSVVRKQYQE 62 (170)
T ss_pred hhhhhHHHHHHHHHHHHHHhccch-----HHHHHHHHHHHHhh------hHHHHHhHHHHHHHHHHHH
Confidence 479999999999999999999854 22344444444443 445555555 445555543
No 26
>smart00251 SAM_PNT SAM / Pointed domain. A subfamily of the SAM domain
Probab=49.33 E-value=51 Score=24.16 Aligned_cols=73 Identities=8% Similarity=0.038 Sum_probs=50.7
Q ss_pred cccccccCCCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH---HHHHHHhCCCCCHHHHHHHHHHHHH
Q 021965 8 GQRREMKHKGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC---IAVNTRFNLNLNNQKVVNRLKTIKK 82 (304)
Q Consensus 8 ~~~~~~~~~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~---~~ln~~~g~~~t~~q~knr~~~lk~ 82 (304)
+++....-+.....||...-..-|...+.+.....-.-..|.-.|-.-|. +.|-.+++ +..+.|.+|+..||+
T Consensus 6 ~~~~~~~ip~dP~~Wt~~~V~~Wl~w~~~ef~L~~~~~~~f~m~G~~Lc~ls~edF~~~~p--~~GdiL~~hL~~Lk~ 81 (82)
T smart00251 6 KEQKRLGIPADPQLWTEDHVLEWLEWAVKEFSLSPIDFSKFDMSGKELCSMSKEEFLERAP--FGGDILWSHLQILRK 81 (82)
T ss_pred HHHHHhCCCCChhhCCHHHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHcCCHHHHHHHcC--CchHHHHHHHHHHHh
Confidence 33333344445679999999999999998876543333455444444443 66777777 799999999999986
No 27
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=47.07 E-value=36 Score=20.56 Aligned_cols=31 Identities=26% Similarity=0.351 Sum_probs=16.9
Q ss_pred HHHHHHhhcCCChhHHHHHHHHHHHhcCHHHH
Q 021965 250 SELLQAVMEIDGLEEAKQMYAFEYLNADPIKA 281 (304)
Q Consensus 250 ~~~i~~l~~ipgl~~e~~~~A~~~l~~d~~~a 281 (304)
++.+..|.+| ||+.+.-..|+..--.|...|
T Consensus 3 ~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A 33 (37)
T PF00627_consen 3 EEKVQQLMEM-GFSREQAREALRACNGNVERA 33 (37)
T ss_dssp HHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHH
T ss_pred HHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHH
Confidence 3456666666 666666666665553344443
No 28
>cd08532 SAM_PNT-PDEF-like Sterile alpha motif (SAM)/Pointed domain of prostate-derived ETS factor. SAM Pointed domain of PDEF-like (Prostate-Derived ETS Factor) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. In human males this activator is highly expressed in the prostate gland and enhances androgen-mediated activation of the PSA promoter though interaction with the DNA binding domain of androgen receptor. PDEF may play a role in prostate cancer development as well as in goblet cell formation and mucus production in the epithelial lining of respiratory and intestinal tracts.
Probab=45.96 E-value=1.1e+02 Score=22.14 Aligned_cols=64 Identities=17% Similarity=0.107 Sum_probs=48.5
Q ss_pred CCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH---HHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 021965 18 RNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC---IAVNTRFNLNLNNQKVVNRLKTIKKRY 84 (304)
Q Consensus 18 ~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~---~~ln~~~g~~~t~~q~knr~~~lk~~y 84 (304)
....||.+.-..-|...+.+-+... .-..|.-.|-.-+. +.|..+++. ..+.|.+|+.-||..|
T Consensus 9 DP~~Ws~~~V~~WL~w~~~ef~L~~-~~~~F~mnG~~LC~ls~edF~~r~p~--~GdiL~~hL~~lk~a~ 75 (76)
T cd08532 9 DPYQWSPANVQKWLLWTEHQYRLPP-PPRCFELNGKDLCALSEEDFRRRAPQ--GGDTLHAQLDIWKSAA 75 (76)
T ss_pred ChhhcCHHHHHHHHHHHHHHhCCCC-chhcCCCCHHHHHcCCHHHHHHHcCC--chhHHHHHHHHHHHhh
Confidence 3468999999999999999977654 44567555544443 566666665 8999999999999876
No 29
>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=44.39 E-value=10 Score=36.93 Aligned_cols=68 Identities=15% Similarity=0.183 Sum_probs=38.1
Q ss_pred CCCcCCChHHHHHHHHHHHHHHHhCCCCCC-CCCHHHHH-HHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 021965 17 GRNVVWSIAMDKCLIEALAIQARTGNKIDK-CFNENAYT-AACIAVNTRFNLNLNNQKVVNRLKTIKKRY 84 (304)
Q Consensus 17 ~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~-~f~~~~w~-~i~~~ln~~~g~~~t~~q~knr~~~lk~~y 84 (304)
+..-+|+++.+.+|++.|.-.-..|.|.-. .-+.-+-| -|+..+..++|..-|++||-+|+..|++.+
T Consensus 47 ~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl~~~~ 116 (431)
T PF01285_consen 47 DGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVLKREI 116 (431)
T ss_dssp GGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHHTT--
T ss_pred CCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHHHHHH
Confidence 345699999999999999877666654310 00111222 356667778999999999999999995444
No 30
>PF13565 HTH_32: Homeodomain-like domain
Probab=41.01 E-value=94 Score=21.68 Aligned_cols=50 Identities=10% Similarity=0.168 Sum_probs=32.1
Q ss_pred cCCCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCC--CHHHHHH
Q 021965 14 KHKGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNL--NNQKVVN 75 (304)
Q Consensus 14 ~~~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~--t~~q~kn 75 (304)
.++|..-. ++++...+++++.++- .|+. ..|+..|.+.||..+ +...|..
T Consensus 24 ~~~Grp~~-~~e~~~~i~~~~~~~p--------~wt~---~~i~~~L~~~~g~~~~~S~~tv~R 75 (77)
T PF13565_consen 24 PRPGRPRK-DPEQRERIIALIEEHP--------RWTP---REIAEYLEEEFGISVRVSRSTVYR 75 (77)
T ss_pred CCCCCCCC-cHHHHHHHHHHHHhCC--------CCCH---HHHHHHHHHHhCCCCCccHhHHHH
Confidence 34444444 7776666777665442 3433 468899999999876 7776653
No 31
>PF15080 DUF4547: Domain of unknown function (DUF4547)
Probab=39.37 E-value=66 Score=26.90 Aligned_cols=65 Identities=20% Similarity=0.321 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHhhcccCCHHHHHHHhhcCCChhHHHHHHHHHHHhcCHHHHHHhhcCChhhhHHHHH
Q 021965 230 ASSIRKLADAMERSKTAINASELLQAVMEIDGLEEAKQMYAFEYLNADPIKARAFMTYDPRMRKIYLF 297 (304)
Q Consensus 230 ~~~~~~~a~ai~~~~~~~s~~~~i~~l~~ipgl~~e~~~~A~~~l~~d~~~a~~Fl~l~~~~R~~WL~ 297 (304)
...+..+++.+++...+..|.-+|+.+.+-=||.+...-..|.+|+..-.+++-| +.+.|..|++
T Consensus 81 ~r~LPTlASvLrrKvkN~~Ir~vwesvLee~GLqE~dv~aLCtFfiahgnkaehy---~a~~R~~yi~ 145 (196)
T PF15080_consen 81 VRGLPTLASVLRRKVKNKRIRVVWESVLEECGLQEGDVTALCTFFIAHGNKAEHY---AAKVRQMYIR 145 (196)
T ss_pred HhCcchHHHHHHHHhhchHHHHHHHHHHHHcCCCcccHHHHHHHHHHhcchHhHh---HHHHHHHHHh
Confidence 3344455666665555667899999886666999888888888887666666654 2345666654
No 32
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=38.15 E-value=50 Score=22.80 Aligned_cols=30 Identities=17% Similarity=0.373 Sum_probs=22.5
Q ss_pred HHHhhcCCChhHHHHHHHHHHHhcCHHHHHH
Q 021965 253 LQAVMEIDGLEEAKQMYAFEYLNADPIKARA 283 (304)
Q Consensus 253 i~~l~~ipgl~~e~~~~A~~~l~~d~~~a~~ 283 (304)
++.|..+||+.+..--.-+++| +++.++++
T Consensus 34 ~e~L~~i~gIG~~~A~si~~ff-~~~~n~~~ 63 (64)
T PF12826_consen 34 VEELSAIPGIGPKIAQSIYEFF-QDPENREL 63 (64)
T ss_dssp HHHHCTSTT--HHHHHHHHHHH-H-HHHHHH
T ss_pred HHHHhccCCcCHHHHHHHHHHH-CCHHhhhh
Confidence 4578899999998888889999 79988875
No 33
>PF13376 OmdA: Bacteriocin-protection, YdeI or OmpD-Associated
Probab=37.25 E-value=43 Score=23.01 Aligned_cols=27 Identities=26% Similarity=0.417 Sum_probs=21.7
Q ss_pred HHHhcCHHHHHHhhcCChhhhHHHHHH
Q 021965 272 EYLNADPIKARAFMTYDPRMRKIYLFR 298 (304)
Q Consensus 272 ~~l~~d~~~a~~Fl~l~~~~R~~WL~r 298 (304)
..|..+|...+.|-+|++..|..||..
T Consensus 12 ~aL~~~p~a~~~f~~l~~~~rr~~i~w 38 (63)
T PF13376_consen 12 AALEANPEAKEFFESLTPSYRREYIRW 38 (63)
T ss_pred HHHHCCHHHHHHHHHCCHHHHHHHHHH
Confidence 345578999999999999998888753
No 34
>PF02198 SAM_PNT: Sterile alpha motif (SAM)/Pointed domain; InterPro: IPR003118 Transcription factors are protein molecules that bind to specific DNA sequences in the genome, resulting in the induction or inhibition of gene transcription []. The ets oncogene is such a factor, possessing a region of 85-90 amino acids known as the ETS (erythroblast transformation specific) domain [, ]. This domain is rich in positively-charged and aromatic residues, and binds to purine-rich segments of DNA. The ETS domain IPR000418 from INTERPRO has been identified in other transcription factors such as PU.1, human erg, human elf-1, human elk-1, GA binding protein, and a number of others [, , ]. It is generally localized at the C terminus of the protein, with the exception of ELF-1, ELK-1, ELK-3, ELK-4 and ERF where it is found at the N terminus. This entry describes the highly conserved PNT (or Pointed) domain which is found within a subset of the ETs domain (IPR000418 from INTERPRO ), including mammalian Ets-1, Ets-2, Erg, Fli-1, GABPalpha, and Tel, as well as Drosophila Pnt-P2 and Yan. The PNT domain (IPR001660 from INTERPRO ) through a common tertiary arrangement of four alpha-helices. A role in protein-protein association has been established for the PNT domain [, ].; GO: 0043565 sequence-specific DNA binding, 0005634 nucleus; PDB: 1SXE_A 1SXD_A 2KMD_A 2JV3_A 2E8P_A 1SV4_B 1SV0_B 1LKY_F 1JI7_B 2DKX_A ....
Probab=35.56 E-value=91 Score=22.75 Aligned_cols=77 Identities=12% Similarity=0.055 Sum_probs=47.0
Q ss_pred cccccccccCCCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHH--HHHHH-HHHHHHhCCCCCHHHHHHHHHHHHH
Q 021965 6 YQGQRREMKHKGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENA--YTAAC-IAVNTRFNLNLNNQKVVNRLKTIKK 82 (304)
Q Consensus 6 ~~~~~~~~~~~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~--w~~i~-~~ln~~~g~~~t~~q~knr~~~lk~ 82 (304)
|+++.....-+.....||......-|...+++.....-.-..|.-.| .-.+. +.|-.+++. ...+-|.+++..||+
T Consensus 4 ~~~~~~~~~~p~DP~~Wt~~~V~~Wl~w~~~~f~l~~~~~~~f~~~G~~Lc~lt~e~F~~~~~~-~~G~~Ly~~L~~Lk~ 82 (84)
T PF02198_consen 4 FRKECKRLWLPKDPRLWTKEDVLQWLRWVVREFDLPAIDFSRFNMNGRELCSLTKEDFRRRFPS-GYGDILYSHLQLLKK 82 (84)
T ss_dssp HHHHHCTTTSCSSGGG--HHHHHHHHHHHHHHTT-SSCHGGGGTS-HHHHHHSHHHHHHHHSTH-TTHHHHHHHHHHHHH
T ss_pred HHHHHHHhCCCCChhhCCHHHHHHHHHHHHHhcCCCcCchhccCCCHHHHHHcCHHHHHHHcCC-CcHHHHHHHHHHHHH
Confidence 44445555555666899999999999888888554322123343333 33332 455555555 778899999999987
Q ss_pred H
Q 021965 83 R 83 (304)
Q Consensus 83 ~ 83 (304)
.
T Consensus 83 ~ 83 (84)
T PF02198_consen 83 C 83 (84)
T ss_dssp H
T ss_pred c
Confidence 5
No 35
>PF03705 CheR_N: CheR methyltransferase, all-alpha domain; InterPro: IPR022641 CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the N-terminal domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF01739 from PFAM. Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region [].; PDB: 1AF7_A 1BC5_A.
Probab=35.36 E-value=1e+02 Score=20.22 Aligned_cols=35 Identities=11% Similarity=0.170 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHHHHHH
Q 021965 50 ENAYTAACIAVNTRFNLNLN---NQKVVNRLKTIKKRY 84 (304)
Q Consensus 50 ~~~w~~i~~~ln~~~g~~~t---~~q~knr~~~lk~~y 84 (304)
...+..+...+.+++|..++ ...|+.|+..+.+.+
T Consensus 2 d~~f~~~~~~i~~~~Gi~l~~~K~~~l~rRl~~rm~~~ 39 (57)
T PF03705_consen 2 DAEFERFRELIYRRTGIDLSEYKRSLLERRLARRMRAL 39 (57)
T ss_dssp HHHHHHHHHHHHHHH-----GGGHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHCCCCchhhHHHHHHHHHHHHHHc
Confidence 56788999999999997654 578888888777664
No 36
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=35.16 E-value=92 Score=18.56 Aligned_cols=29 Identities=21% Similarity=0.324 Sum_probs=14.6
Q ss_pred HHHHhhcCCChhHHHHHHHHHHHhcCHHHH
Q 021965 252 LLQAVMEIDGLEEAKQMYAFEYLNADPIKA 281 (304)
Q Consensus 252 ~i~~l~~ipgl~~e~~~~A~~~l~~d~~~a 281 (304)
.++.|.+| ||+.+....|+...-.|..+|
T Consensus 4 ~v~~L~~m-Gf~~~~~~~AL~~~~~d~~~A 32 (38)
T cd00194 4 KLEQLLEM-GFSREEARKALRATNNNVERA 32 (38)
T ss_pred HHHHHHHc-CCCHHHHHHHHHHhCCCHHHH
Confidence 44555555 565555555555554343333
No 37
>cd08535 SAM_PNT-Tel_Yan Sterile alpha motif (SAM)/Pointed domain of Tel/Yan protein. SAM Pointed domain of Tel (Translocation, Ets, Leukemia)/Yan subfamily of ETS transcriptional repressors is a protein-protein interaction domain. SAM Pointed domains of this type of regulators can interact with each other, forming head-to-tail homodimers or homooligomers, and/or interact with SAM Pointed domains of another subfamily of ETS factors forming heterodimers. The oligomeric form is able to block transcription of target genesand is involved in MAPK signaling. They participate in regulation of different processes during embryo development including hematopoietic differentiation and eye development. Tel/Yan transcriptional factors are frequent targets of chromosomal translocations resulting in fusions of SAM domain with new neighboring genes. Such chimeric proteins were found in different tumors. Members of this subfamily are potential targets for cancer therapy.
Probab=34.56 E-value=1.3e+02 Score=21.20 Aligned_cols=62 Identities=11% Similarity=-0.014 Sum_probs=44.7
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH---HHHHHHhCCCCCHHHHHHHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC---IAVNTRFNLNLNNQKVVNRLKTIKKR 83 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~---~~ln~~~g~~~t~~q~knr~~~lk~~ 83 (304)
..||.+.-..-|...+.+.....-.-..|.-.|=.-|. +.|-.+.+ +..+.+.+|+..||+.
T Consensus 4 ~~Wt~~~V~~WL~wa~~ef~L~~i~~~~F~mnGk~LC~ls~edF~~r~p--~~GdiL~~hL~~L~~~ 68 (68)
T cd08535 4 RYWSRDDVLQWLRWAENEFSLPPIDSNTFEMNGKALCLLTKEDFRYRSP--HSGDVLYELLQHLLKQ 68 (68)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCCCChhccCCCHHHHhcCCHHHHhhhCC--CchHHHHHHHHHHHhC
Confidence 47999999999999998877654333566555544443 45555544 6999999999999873
No 38
>PF10845 DUF2576: Protein of unknown function (DUF2576); InterPro: IPR022556 The function of this viral family of proteins is unknown. The entry contains Orf5 from Autographa californica nuclear polyhedrosis virus (AcMNPV).
Probab=33.78 E-value=91 Score=20.15 Aligned_cols=32 Identities=6% Similarity=0.322 Sum_probs=24.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhcCCCceee
Q 021965 65 NLNLNNQKVVNRLKTIKKRYKVMRDLLSQDGFHWN 99 (304)
Q Consensus 65 g~~~t~~q~knr~~~lk~~y~~~~~l~~~SG~gWD 99 (304)
+..|+++||+.-+..||+.- .+|-..|+.|+|
T Consensus 8 ~~dydreqlrrelnsLR~~v---helctRs~t~fD 39 (48)
T PF10845_consen 8 QHDYDREQLRRELNSLRRSV---HELCTRSTTGFD 39 (48)
T ss_pred ccccCHHHHHHHHHHHHHHH---HHHHHhcCCCcc
Confidence 45789999999999999865 444456777777
No 39
>cd08542 SAM_PNT-ETS-1 Sterile alpha motif (SAM)/Pointed domain of ETS-1. SAM Pointed domain of ETS-1 subfamily of ETS transcriptional activators is a protein-protein interaction domain. The ETS-1 activator is regulated by phosphorylation. It contains a docking site for the ERK2 MAP (Mitogen Activated Protein) kinase, while the ERK2 phosphorylation site is located in the N-terminal disordered region upstream of the SAM Pointed domain. Mutations of the kinase docking site residues inhibit phosphorylation. ETS-1 activators play role in a number of different physiological processes, and they are expressed during embryonic development, including blood vessel formation, hematopoietic, lymphoid, neuronal and osteogenic differentiation. The Ets-1 gene is a proto-oncogene involved in progression of different tumors (including breast cancer, meningioma, and prostate cancer). Members of this subfamily are potential molecular targets for selective cancer therapy.
Probab=32.13 E-value=2.2e+02 Score=21.30 Aligned_cols=78 Identities=6% Similarity=-0.018 Sum_probs=52.5
Q ss_pred cccccccccCCCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH---HHHHHHhCCCCCHHHHHHHHHHHHH
Q 021965 6 YQGQRREMKHKGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC---IAVNTRFNLNLNNQKVVNRLKTIKK 82 (304)
Q Consensus 6 ~~~~~~~~~~~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~---~~ln~~~g~~~t~~q~knr~~~lk~ 82 (304)
|.++++...-+.....||...-..-|...+.+.....-.-..|.-.|=.-|+ +.|-.+. ..+..+-|-+|+..||+
T Consensus 6 f~~~q~rl~Ip~DP~~Wt~~~V~~WL~Wa~~ef~L~~i~~~~F~m~Gk~LC~Ls~edF~~~~-P~~~GdIL~~HL~~L~k 84 (88)
T cd08542 6 FTKEQQRLGIPKDPRQWTETHVRDWVMWAVNEFSLKGVDFQKFCMNGAALCALGKECFLELA-PDFVGDILWEHLEILQK 84 (88)
T ss_pred HhHhhhhcCCCCChhhCCHHHHHHHHHHHHHHcCCCCCCcccCCCCHHHHHcCCHHHHHhHc-CCCccHHHHHHHHHHHH
Confidence 3444555555666679999999999999998876644333566544433333 3343333 34689999999999998
Q ss_pred HH
Q 021965 83 RY 84 (304)
Q Consensus 83 ~y 84 (304)
..
T Consensus 85 ~~ 86 (88)
T cd08542 85 ED 86 (88)
T ss_pred hc
Confidence 63
No 40
>TIGR02097 yccV hemimethylated DNA binding domain. This model describes the small protein from E. coli YccV and its homologs in other Proteobacteria. YccV is now described as a hemimethylated DNA binding protein. The model also describes a domain in longer eukaryotic proteins.
Probab=31.84 E-value=34 Score=26.28 Aligned_cols=33 Identities=12% Similarity=0.176 Sum_probs=20.6
Q ss_pred ceeeCCCCccccCChHHHHHHHHhCCccccccCCCCCChHHH
Q 021965 96 FHWNPNTKMIECDNDDLWKRYIAAHPDARGFRGKQIEMYDEL 137 (304)
Q Consensus 96 ~gWD~~~~~i~a~~~e~W~~~ik~hp~a~~fr~k~~~~y~~l 137 (304)
+|||++.. + +++||+..-...... + .-|+|..|
T Consensus 22 ~gwDp~~~---~-~eeW~~~~~~~~~p~---~--~qPfYhvL 54 (101)
T TIGR02097 22 IDVDPEYS---N-TEEWLDAIPVEIRPL---R--DQPFYHVL 54 (101)
T ss_pred EeEChhcc---C-ChHHHHhhhcccCcc---c--CCCceEEE
Confidence 68999864 4 588887776653222 4 44556655
No 41
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=30.79 E-value=1.4e+02 Score=28.43 Aligned_cols=63 Identities=21% Similarity=0.316 Sum_probs=46.1
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCC----CCCCCHHHHH-HHHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKI----DKCFNENAYT-AACIAVNTRFNLNLNNQKVVNRLKTIKKR 83 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~----~~~f~~~~w~-~i~~~ln~~~g~~~t~~q~knr~~~lk~~ 83 (304)
-+|++.-+..|.+.|.-.---|.|. |.| |-=|-| -|+..+.-++|..-|+.|+-+|...|++.
T Consensus 77 gvWSpdIEqsFqEALaiyppcGrrKIilsdeg-kmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarr 144 (455)
T KOG3841|consen 77 GVWSPDIEQSFQEALAIYPPCGRRKIILSDEG-KMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARR 144 (455)
T ss_pred cccChhHHHHHHHHHhhcCCCCceeEEEccCc-cccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHH
Confidence 3899999999999997665555431 222 111223 36677788899999999999999999775
No 42
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=30.34 E-value=67 Score=28.44 Aligned_cols=42 Identities=19% Similarity=0.136 Sum_probs=28.1
Q ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Q 021965 21 VWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRL 77 (304)
Q Consensus 21 ~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~ 77 (304)
.||+++|..|++++..+ |.+ -|..|++.+. +.-+..+|+-||
T Consensus 11 pWt~EED~~L~~~V~~~---G~~--------~W~~i~k~~g----l~R~GKSCRlRW 52 (238)
T KOG0048|consen 11 PWTQEEDLTQIRSIKSF---GKH--------NGTALPKLAG----LRRCGKSCRLRW 52 (238)
T ss_pred CCChHHHHHHHHHHHHh---CCC--------CcchhhhhcC----CCccchHHHHHh
Confidence 79999999999998766 533 5666665544 333444555554
No 43
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=28.86 E-value=1.6e+02 Score=25.55 Aligned_cols=61 Identities=8% Similarity=0.129 Sum_probs=44.6
Q ss_pred CCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 021965 17 GRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTIKKRYKVM 87 (304)
Q Consensus 17 ~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~lk~~y~~~ 87 (304)
-.++-|+.+++.+|...-... .-+...+..|...--.-|-..-|..+|++||..+| +|..+
T Consensus 71 q~kalfS~~EE~lL~~v~s~~---------~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmk-qy~LL 131 (199)
T PF13325_consen 71 QSKALFSKEEEQLLGTVASSS---------QPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMK-QYHLL 131 (199)
T ss_pred cccCCCCHHHHHHHHhhhhcc---------CCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHH-Hhchh
Confidence 346889999999887744321 23457888888877777888899999999999554 45443
No 44
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=28.31 E-value=18 Score=24.65 Aligned_cols=16 Identities=31% Similarity=0.729 Sum_probs=14.5
Q ss_pred hCCccccccCCCCCCh
Q 021965 119 AHPDARGFRGKQIEMY 134 (304)
Q Consensus 119 ~hp~a~~fr~k~~~~y 134 (304)
.+|.|+++||+|+.-|
T Consensus 17 ~~~~aKrLrnrPi~tY 32 (56)
T PF09963_consen 17 DTPEAKRLRNRPIHTY 32 (56)
T ss_pred CCHHHHHhhcCCCcce
Confidence 6889999999999887
No 45
>PF03206 NifW: Nitrogen fixation protein NifW; InterPro: IPR004893 Nitrogenase is a complex metalloenzyme composed of two proteins designated the Fe-protein and the MoFe-protein. Apart from these two proteins, a number of accessory proteins are essential for the maturation and assembly of nitrogenase. Even though experimental evidence suggests that these accessory proteins are required for nitrogenase activity, the exact roles played by many of these proteins in the functions of nitrogenase are unclear []. Using yeast two-hybrid screening it has been shown that NifW can interact with itself as well as NifZ. ; GO: 0009399 nitrogen fixation
Probab=27.86 E-value=2.4e+02 Score=21.79 Aligned_cols=51 Identities=20% Similarity=0.289 Sum_probs=38.6
Q ss_pred HHHHHHHhCCCCCHHHHH-HHHHHHHHHHHHHHHhhcCCCceeeCCCCccccCChHHHHHHHH
Q 021965 57 CIAVNTRFNLNLNNQKVV-NRLKTIKKRYKVMRDLLSQDGFHWNPNTKMIECDNDDLWKRYIA 118 (304)
Q Consensus 57 ~~~ln~~~g~~~t~~q~k-nr~~~lk~~y~~~~~l~~~SG~gWD~~~~~i~a~~~e~W~~~ik 118 (304)
++.|-+.||..|+...+. ||+.-||+-..-+.......|. +.++.|..|-.
T Consensus 14 AEdFf~fF~V~YDp~vv~V~RLHILkrF~~yL~~~~~~~~~-----------~e~~~~~~~R~ 65 (105)
T PF03206_consen 14 AEDFFDFFGVPYDPKVVNVNRLHILKRFGQYLRAADFAPGL-----------SEEEDWAAYRR 65 (105)
T ss_pred HHHHHHHhCCCcchhHHHHhhHHHHHHHHHHHHhccCCCCC-----------CHHHHHHHHHH
Confidence 578889999999999998 9999999988888766332221 23677876654
No 46
>COG2150 Predicted regulator of amino acid metabolism, contains ACT domain [General function prediction only]
Probab=27.83 E-value=1e+02 Score=25.74 Aligned_cols=42 Identities=14% Similarity=0.157 Sum_probs=33.9
Q ss_pred ChhHHHHHHHHHHHhcCHHHHHHhhcCChhhhHHHHHHHhhh
Q 021965 261 GLEEAKQMYAFEYLNADPIKARAFMTYDPRMRKIYLFRQFWW 302 (304)
Q Consensus 261 gl~~e~~~~A~~~l~~d~~~a~~Fl~l~~~~R~~WL~r~l~~ 302 (304)
|+|....+...+++..|+.-+++|.+|.|-.-+.=+...|||
T Consensus 52 gVdRrvV~~Ti~~I~sd~~L~~if~nl~P~a~l~~vA~~lG~ 93 (167)
T COG2150 52 GVDRRVVYATIELIESDEELRRIFENLEPVASLADVAPLLGL 93 (167)
T ss_pred CcchHhHHHHHHHHhcCHHHHHHHHhccchhhHHHHHHhcCC
Confidence 778888888888888899999999999877666666666666
No 47
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=25.90 E-value=1.5e+02 Score=17.49 Aligned_cols=22 Identities=14% Similarity=0.371 Sum_probs=10.3
Q ss_pred HHHHhhcCCChhHHHHHHHHHHH
Q 021965 252 LLQAVMEIDGLEEAKQMYAFEYL 274 (304)
Q Consensus 252 ~i~~l~~ipgl~~e~~~~A~~~l 274 (304)
.++.|.+| ||+.+....|+..-
T Consensus 4 ~v~~L~~m-Gf~~~~a~~aL~~~ 25 (37)
T smart00165 4 KIDQLLEM-GFSREEALKALRAA 25 (37)
T ss_pred HHHHHHHc-CCCHHHHHHHHHHh
Confidence 34444555 45555444444433
No 48
>cd08534 SAM_PNT-GABP-alpha Sterile alpha motif (SAM)/Pointed domain of GA-binding protein alpha chain. SAM Pointed domain of GABP-alpha subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. This type of transcriptional regulators forms heterotetramers containing two alpha and two beta subunits. It interacts with GA repeats (purine rich repeats). GABP transcriptional factors control gene expression in cell cycle control, apoptosis, and cellular respiration. GABP participates in regulation of transmembrane receptors and key hormones especially in myeloid cells and at the neuromuscular junction.
Probab=25.83 E-value=2.2e+02 Score=21.27 Aligned_cols=76 Identities=9% Similarity=0.014 Sum_probs=50.0
Q ss_pred cccccccccCCCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH---HHHHHHhCCCCCHHHHHHHHHHHHH
Q 021965 6 YQGQRREMKHKGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC---IAVNTRFNLNLNNQKVVNRLKTIKK 82 (304)
Q Consensus 6 ~~~~~~~~~~~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~---~~ln~~~g~~~t~~q~knr~~~lk~ 82 (304)
|..++....-+.....||...-..-|...+.+-..-.-.-..|.-.|=.-|. +.|-.+.+ .+..+-+-+|+..||+
T Consensus 6 ~~keq~rl~IP~DP~~Wt~~~V~~WL~Wa~~ef~L~~v~~~~F~m~Gk~LC~Ls~edF~~r~p-~~~GdiL~~hLe~Lrk 84 (89)
T cd08534 6 YRKEQERLKIPYDPMEWTEDQVLHWVVWAVKEFSLTDIDLSDWNITGRELCSLTQEEFFQRVP-KDPGDIFWTHLELLRK 84 (89)
T ss_pred hHHHHHhcCCCCChHHcCHHHHHHHHHHHHHHcCCCCCChhhcCCCHHHHhcCCHHHHHHHcC-CCccHHHHHHHHHHHH
Confidence 3344444445556679999999999999988866543222456544443333 44555555 3478999999998886
No 49
>cd08203 SAM_PNT Sterile alpha motif (SAM)/Pointed domain. Sterile alpha motif (SAM)/Pointed domain is found in about 40% of transcriptional regulators of ETS family (initially named for Erythroblastosis virus, E26-E Twenty Six). SAM Pointed domain containing proteins of this family additionally have C-terminal ETS DNA-binding domain. In a few cases, SAM Pointed domain appears as a single domain protein. Members of this group are mostly involved in regulation of embryonic development and growth control in eukaryotes. SAM Pointed domains mediate protein-protein interactions. Depending on the subgroup, they can interact with other SAM Pointed domains forming homo or hetero dimers/oligomers and/or they can recruit a protein kinase to its target which can be the SAM Pointed domain containing protein itself or another protein that has no kinase docking site. Thus, SAM Pointed domains participate in transcriptional regulation and signal transduction. Some genes coding ETS family transcripti
Probab=24.84 E-value=2.4e+02 Score=19.52 Aligned_cols=61 Identities=13% Similarity=0.017 Sum_probs=42.9
Q ss_pred cCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH---HHHHHHhCCCCCHHHHHHHHHHHHH
Q 021965 20 VVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC---IAVNTRFNLNLNNQKVVNRLKTIKK 82 (304)
Q Consensus 20 ~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~---~~ln~~~g~~~t~~q~knr~~~lk~ 82 (304)
..||.+.-..-|..++.+-+...-.-..|.-.|-.-|. +.|..+++. ..+.|.+++..||+
T Consensus 3 ~~Wt~~~V~~Wl~w~~~~f~L~~~~~~~F~m~G~~Lc~ls~edF~~~~p~--~GdiL~~hL~~l~~ 66 (66)
T cd08203 3 RLWTKEHVLQWLEWAVKEFSLPPIDFSKFNMNGKELCLLTKEDFLRRAPS--GGDILYEHLQLLRK 66 (66)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCCCChhhcCCCHHHHHhCCHHHHHHHcCC--cHHHHHHHHHHHhC
Confidence 47999999999999888766543223456555544443 667777776 88888888888763
No 50
>PF07904 Eaf7: Chromatin modification-related protein EAF7; InterPro: IPR012423 The Saccharomyces cerevisiae (Baker's yeast) member of this family P53911 from SWISSPROT is part of NuA4, the only essential histone acetyltransferase complex in S. cerevisiae involved in global histone acetylation []. ; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0043189 H4/H2A histone acetyltransferase complex
Probab=24.66 E-value=2.6e+02 Score=20.87 Aligned_cols=46 Identities=13% Similarity=0.096 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHH-----hCCCCCHHHHHHHHH
Q 021965 28 KCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTR-----FNLNLNNQKVVNRLK 78 (304)
Q Consensus 28 ~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~-----~g~~~t~~q~knr~~ 78 (304)
-.|+.++++. +|-|.-|--+.-.|+..||.. .+..++.+.|=+|+.
T Consensus 4 i~Lf~a~~~~-----KPvGi~KHF~M~~I~~~l~~~~~~~~~~~~~t~~~IW~kL~ 54 (91)
T PF07904_consen 4 IRLFRAMCRY-----KPVGIHKHFHMICIVERLNNPGFDPKLNKHFTIDDIWKKLR 54 (91)
T ss_pred HHHHHHHHhc-----CCCccchHHHHHHHHHHHhccccCCccCCcCCHHHHHHHHH
Confidence 3455555443 444443444566688888888 667777777655544
No 51
>KOG4330 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.14 E-value=1e+02 Score=26.21 Aligned_cols=54 Identities=7% Similarity=0.268 Sum_probs=38.6
Q ss_pred CCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH-HHHHHHhC--CCCCHHHHHHHHH
Q 021965 18 RNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC-IAVNTRFN--LNLNNQKVVNRLK 78 (304)
Q Consensus 18 ~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~-~~ln~~~g--~~~t~~q~knr~~ 78 (304)
.....|-.+-..+|+.|+.+...-.| +-|..|+ .+|.+.+. +.||.+||..||.
T Consensus 142 ek~~FTlrqVqmICErllKerE~klR-------eeyE~vLttKLaEQydafVkFt~dQi~rry~ 198 (206)
T KOG4330|consen 142 EKPLFTLRQVQMICERLLKEREIKLR-------EEYEMVLTTKLAEQYDAFVKFTHDQIMRRYG 198 (206)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34567888888899999887655433 3444444 66777775 5789999999885
No 52
>cd08533 SAM_PNT-ETS-1,2 Sterile alpha motif (SAM)/Pointed domain of ETS-1,2 family. SAM Pointed domain of ETS-1,2 family of transcriptional activators is a protein-protein interaction domain. It carries a kinase docking site and mediates interaction between ETS transcriptional activators and protein kinases. This group of transcriptional factors is involved in the Ras/MAP kinase signaling pathway. MAP kinases phosphorylate the transcription factors. Phosphorylated factors then recruit coactivators and enhance transactivation. Members of this group play a role in regulation of different embryonic developmental processes. ETS-1,2 transcriptional activators are proto-oncogenes involved in malignant transformation and tumor progression. They are potential molecular targets for selective cancer therapy.
Probab=24.13 E-value=2.7e+02 Score=19.81 Aligned_cols=64 Identities=6% Similarity=-0.067 Sum_probs=45.8
Q ss_pred CcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH---HHHHHHhCCCCCHHHHHHHHHHHHHH
Q 021965 19 NVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC---IAVNTRFNLNLNNQKVVNRLKTIKKR 83 (304)
Q Consensus 19 ~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~---~~ln~~~g~~~t~~q~knr~~~lk~~ 83 (304)
...||...-..-|...+.+.....-.-..|.-.|=.-|. +.|-.+.+. +..+-|-+|+..||+.
T Consensus 4 P~~Wt~~~V~~WL~Wa~~ef~L~~v~~~~F~m~Gk~LC~ls~edF~~~~p~-~~GdIL~~hL~~L~k~ 70 (71)
T cd08533 4 PRLWTETHVRQWLLWAVNEFSLEGVNFQKFCMSGRDLCALGKERFLELAPD-FVGDILWEHLEILQKE 70 (71)
T ss_pred hhhCCHHHHHHHHHHHHHHcCCCCCCcccCCCCHHHHHcCCHHHHHHHcCC-CcchHHHHHHHHHHhc
Confidence 357999999999999998876643333566555544443 445555444 7899999999999875
No 53
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=23.86 E-value=1.8e+02 Score=25.19 Aligned_cols=45 Identities=20% Similarity=0.336 Sum_probs=29.9
Q ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q 021965 21 VWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAACIAVNTRFNLNLNNQKVVNRLKTI 80 (304)
Q Consensus 21 ~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~~~ln~~~g~~~t~~q~knr~~~l 80 (304)
.|++..+-.||..+.. |+ ....|... -+|-+.||-..|+.||..|
T Consensus 1 rW~~~DDl~Li~av~~----~~---------~L~~v~~g--vkFS~~fT~~Ei~~RW~~l 45 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ----TN---------DLESVHLG--VKFSCKFTLQEIEERWYAL 45 (199)
T ss_pred CCCchhhHHHHHHHHH----hc---------CHHHHHcc--CCcCCcCcHHHHHHHHHHH
Confidence 5999988887776532 21 11223332 4588899999999998765
No 54
>PF08247 ENOD40: ENOD40 protein; InterPro: IPR013186 The soybean early nodulin 40 (ENOD40) mRNA contains two short overlapping ORFs; in vitro translation yields two peptides of 12 and 24 amino acids []. The putative role of the ENOD40 genes has been in favour of organogenesis, such as induction of the cortical cell divisions that lead to initiation of nodule primordia, in developing lateral roots and embryonic tissues. This supports the hypothesis for a role of ENOD40 in lateral organ development [].
Probab=23.80 E-value=16 Score=16.67 Aligned_cols=7 Identities=29% Similarity=0.748 Sum_probs=4.5
Q ss_pred HHhhhcC
Q 021965 298 RQFWWWK 304 (304)
Q Consensus 298 r~l~~~~ 304 (304)
++|||.|
T Consensus 1 m~l~wqk 7 (12)
T PF08247_consen 1 MELCWQK 7 (12)
T ss_pred CceeEee
Confidence 4678854
No 55
>cd08543 SAM_PNT-ETS-2 Sterile alpha motif (SAM)/Pointed domain of ETS-2. SAM Pointed domain of ETS-2 subfamily of ETS transcriptional regulators is a protein-protein interaction domain. It contains a docking site for Cdk10 (cyclin-dependent kinase 10), a member of the Cdc2 kinase family. The interaction between ETS-2 and Cdk10 kinase inhibits ETS-2 transactivation activity in mammals. ETS-2 is also regulated by ERK2 MAP kinase. ETS-2, which is phosphorylated by ERK2, can interact with coactivators and enhance transactivation. ETS-2 transcriptional activators are involved in embryonic development and cell cycle control. The Ets-2 gene is a proto-oncogene. It is overexpressed in breast and prostate cancer cells and its overexpression is necessary for transformation of such cells. Members of ETS-2 subfamily are potential molecular targets for selective cancer therapy.
Probab=23.05 E-value=3.3e+02 Score=20.39 Aligned_cols=76 Identities=9% Similarity=-0.023 Sum_probs=52.0
Q ss_pred ccccccCCCCCcCCChHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHH---HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 021965 9 QRREMKHKGRNVVWSIAMDKCLIEALAIQARTGNKIDKCFNENAYTAAC---IAVNTRFNLNLNNQKVVNRLKTIKKRYK 85 (304)
Q Consensus 9 ~~~~~~~~~~~~~Wt~~~~~~lld~l~e~~~~G~~~~~~f~~~~w~~i~---~~ln~~~g~~~t~~q~knr~~~lk~~y~ 85 (304)
+++...-+.....||...-..-|...+.+.....-.-..|.-.|=.-|. +.|..+.+ .+..+-|-+|+..|.+...
T Consensus 9 ~~~rl~Ip~DP~~Wt~~~V~~WL~Wa~~ef~L~~i~~~~F~m~Gk~LC~Ls~edF~~~ap-~~~GdIL~~HL~~l~k~~~ 87 (89)
T cd08543 9 EQRRLGIPKNPWLWTEQQVCQWLLWATNEFSLVNVNFQQFGMNGQELCNLGKERFLELAP-DFVGDILWEHLEQMIKENQ 87 (89)
T ss_pred HhHhcCCCCChhhCCHHHHHHHHHHHHHHcCCCCCCcccCCCChHHHHcCCHHHHHhHcC-CCcchHHHHHHHHHHHHHc
Confidence 3444444555679999999999999999877654434566544433333 44555554 5789999999999888753
No 56
>smart00674 CENPB Putative DNA-binding domain in centromere protein B, mouse jerky and transposases.
Probab=21.74 E-value=2.6e+02 Score=18.76 Aligned_cols=18 Identities=11% Similarity=0.237 Sum_probs=13.0
Q ss_pred cccCChHHHHHHHHhCCcc
Q 021965 105 IECDNDDLWKRYIAAHPDA 123 (304)
Q Consensus 105 i~a~~~e~W~~~ik~hp~a 123 (304)
+.+ +..|...+.+.||..
T Consensus 46 f~~-s~~Wl~rF~~Rh~~~ 63 (66)
T smart00674 46 FKA-SNGWLTRFKKRHNIV 63 (66)
T ss_pred CCC-CHHHHHHHHHHcCCc
Confidence 345 578888888888753
No 57
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=21.65 E-value=4.5e+02 Score=21.69 Aligned_cols=20 Identities=20% Similarity=0.491 Sum_probs=17.2
Q ss_pred hcccCCHHHHHHHhhcCCChh
Q 021965 243 SKTAINASELLQAVMEIDGLE 263 (304)
Q Consensus 243 ~~~~~s~~~~i~~l~~ipgl~ 263 (304)
.+..++++-|+++|+.+ ||.
T Consensus 63 ~KKTIa~EHV~KALe~L-gF~ 82 (156)
T KOG0871|consen 63 AKKTIAPEHVIKALENL-GFG 82 (156)
T ss_pred hcccCCHHHHHHHHHHc-chH
Confidence 35678999999999999 887
No 58
>PF11459 DUF2893: Protein of unknwon function (DUF2893); InterPro: IPR021561 This is a bacterial family of uncharacterised proteins.
Probab=21.52 E-value=1.7e+02 Score=20.77 Aligned_cols=53 Identities=13% Similarity=0.054 Sum_probs=37.6
Q ss_pred ccCCHHHHHHHhhcCCChhHHHHHHHHHHHhcCHHHHHHhhcCChhhhHHHHHH
Q 021965 245 TAINASELLQAVMEIDGLEEAKQMYAFEYLNADPIKARAFMTYDPRMRKIYLFR 298 (304)
Q Consensus 245 ~~~s~~~~i~~l~~ipgl~~e~~~~A~~~l~~d~~~a~~Fl~l~~~~R~~WL~r 298 (304)
+..+.+++...++++-++....+-.-++.- ..-.-.+.|+-|.+...-.|..+
T Consensus 16 ~~~s~e~a~~l~egL~nLrp~~lq~LL~~C-~svKvkRLfl~lA~~~~h~W~~~ 68 (69)
T PF11459_consen 16 KRQSFEEADELMEGLRNLRPRVLQELLEHC-TSVKVKRLFLYLAERAGHPWFKR 68 (69)
T ss_pred ccCCHHHHHHHHHHHhhcCHHHHHHHHHHC-ccHHHHHHHHHHHHHcCCchHhc
Confidence 356778888888888777766555555544 45567889998888877777754
No 59
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=20.89 E-value=2.6e+02 Score=21.11 Aligned_cols=39 Identities=15% Similarity=0.198 Sum_probs=29.2
Q ss_pred HHHHHhhcccCCHHHHHHHhhc-CCChhHHHHHHHHHHHh
Q 021965 237 ADAMERSKTAINASELLQAVME-IDGLEEAKQMYAFEYLN 275 (304)
Q Consensus 237 a~ai~~~~~~~s~~~~i~~l~~-ipgl~~e~~~~A~~~l~ 275 (304)
.+.+.......++.++++.|.+ .|+++....+.+++.|.
T Consensus 7 l~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~ 46 (116)
T cd07153 7 LEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLE 46 (116)
T ss_pred HHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence 3344444456889999999954 56788899999999995
Done!