Query 048224
Match_columns 220
No_of_seqs 219 out of 1266
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 07:35:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048224.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048224hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 99.9 2E-28 4.4E-33 214.1 5.3 81 1-86 26-106 (238)
2 PLN03212 Transcription repress 99.9 6.7E-26 1.5E-30 199.0 4.9 85 1-89 42-126 (249)
3 PLN03091 hypothetical protein; 99.9 1.6E-24 3.4E-29 202.7 4.6 84 1-88 31-114 (459)
4 KOG0049 Transcription factor, 99.4 2.6E-13 5.7E-18 132.2 3.5 79 1-83 377-455 (939)
5 PF13921 Myb_DNA-bind_6: Myb-l 99.3 3.6E-12 7.8E-17 88.6 3.5 45 2-48 16-60 (60)
6 COG5147 REB1 Myb superfamily p 99.2 6.1E-12 1.3E-16 121.0 2.7 82 1-87 37-118 (512)
7 KOG0050 mRNA splicing protein 99.1 8.9E-12 1.9E-16 119.0 0.6 80 1-86 24-103 (617)
8 KOG0049 Transcription factor, 99.1 5.1E-11 1.1E-15 116.5 3.9 82 4-89 328-409 (939)
9 PF00249 Myb_DNA-binding: Myb- 99.0 6.8E-11 1.5E-15 79.3 1.2 45 37-84 1-46 (48)
10 smart00717 SANT SANT SWI3, AD 98.8 2E-09 4.4E-14 69.6 2.7 44 37-84 1-45 (49)
11 PLN03212 Transcription repress 98.8 3.2E-09 7E-14 94.0 4.5 54 31-87 19-73 (249)
12 PF13921 Myb_DNA-bind_6: Myb-l 98.8 2.4E-09 5.2E-14 74.3 2.3 44 40-87 1-44 (60)
13 KOG0048 Transcription factor, 98.6 1.9E-08 4E-13 88.3 3.3 53 32-87 4-57 (238)
14 cd00167 SANT 'SWI3, ADA2, N-Co 98.6 2.2E-08 4.7E-13 63.9 2.6 40 39-82 1-41 (45)
15 KOG0051 RNA polymerase I termi 98.6 4.5E-08 9.7E-13 95.8 4.6 85 2-89 402-510 (607)
16 PLN03091 hypothetical protein; 98.6 3.7E-08 8.1E-13 93.3 3.9 55 30-87 7-62 (459)
17 PF00249 Myb_DNA-binding: Myb- 98.4 1.3E-07 2.9E-12 63.2 1.5 31 1-31 18-48 (48)
18 smart00717 SANT SANT SWI3, AD 97.8 1.4E-05 3.1E-10 51.3 2.1 32 1-33 18-49 (49)
19 cd00167 SANT 'SWI3, ADA2, N-Co 97.7 2.3E-05 5E-10 49.6 1.9 30 1-31 16-45 (45)
20 COG5147 REB1 Myb superfamily p 97.3 0.00021 4.5E-09 69.6 4.3 74 2-78 309-388 (512)
21 KOG0051 RNA polymerase I termi 97.3 0.00022 4.7E-09 70.4 3.5 73 7-87 354-429 (607)
22 KOG0457 Histone acetyltransfer 95.5 0.011 2.4E-07 56.4 3.3 50 34-86 69-118 (438)
23 TIGR01557 myb_SHAQKYF myb-like 94.9 0.034 7.5E-07 39.0 3.5 39 37-78 3-46 (57)
24 KOG0457 Histone acetyltransfer 93.3 0.041 8.9E-07 52.6 1.6 76 1-77 89-182 (438)
25 PF08914 Myb_DNA-bind_2: Rap1 93.2 0.07 1.5E-06 38.4 2.3 40 37-76 2-47 (65)
26 KOG1279 Chromatin remodeling f 93.1 0.059 1.3E-06 52.7 2.4 46 36-85 252-297 (506)
27 KOG0050 mRNA splicing protein 92.1 0.058 1.3E-06 52.8 0.9 47 35-84 5-51 (617)
28 PF13837 Myb_DNA-bind_4: Myb/S 90.8 0.14 2.9E-06 37.4 1.6 25 6-30 36-63 (90)
29 COG5259 RSC8 RSC chromatin rem 90.4 0.14 3E-06 49.7 1.6 45 36-84 278-322 (531)
30 PF13837 Myb_DNA-bind_4: Myb/S 90.2 0.19 4E-06 36.7 1.8 52 37-88 1-66 (90)
31 TIGR01557 myb_SHAQKYF myb-like 87.5 0.57 1.2E-05 32.8 2.7 30 2-31 21-54 (57)
32 TIGR02894 DNA_bind_RsfA transc 83.9 0.82 1.8E-05 38.6 2.3 45 36-81 3-50 (161)
33 COG5114 Histone acetyltransfer 81.0 1 2.3E-05 42.1 2.1 48 35-85 61-108 (432)
34 PF09111 SLIDE: SLIDE; InterP 80.7 2.2 4.7E-05 34.2 3.6 37 34-70 46-82 (118)
35 COG5114 Histone acetyltransfer 74.3 1.7 3.6E-05 40.8 1.4 74 2-77 81-173 (432)
36 PF11626 Rap1_C: TRF2-interact 71.0 4.4 9.5E-05 30.2 2.8 24 33-56 43-74 (87)
37 COG5118 BDP1 Transcription ini 68.8 4.1 8.9E-05 39.0 2.7 43 39-85 367-409 (507)
38 COG5259 RSC8 RSC chromatin rem 67.7 2.7 5.9E-05 41.0 1.3 28 1-30 296-323 (531)
39 PRK13923 putative spore coat p 62.6 3.6 7.9E-05 35.0 1.0 47 35-82 3-52 (170)
40 KOG1279 Chromatin remodeling f 57.1 6.2 0.00013 38.9 1.6 28 1-30 270-297 (506)
41 PF12776 Myb_DNA-bind_3: Myb/S 56.7 7.6 0.00016 28.4 1.8 39 39-77 1-48 (96)
42 PF07750 GcrA: GcrA cell cycle 55.2 12 0.00026 31.3 2.9 38 39-81 2-39 (162)
43 PLN03142 Probable chromatin-re 54.7 16 0.00036 39.0 4.4 33 33-68 922-954 (1033)
44 smart00595 MADF subfamily of S 54.2 9.1 0.0002 27.7 1.8 22 6-29 29-50 (89)
45 KOG1194 Predicted DNA-binding 52.7 15 0.00032 36.0 3.4 37 37-77 187-223 (534)
46 PF10545 MADF_DNA_bdg: Alcohol 51.8 9.8 0.00021 26.7 1.6 25 6-30 28-52 (85)
47 PF13873 Myb_DNA-bind_5: Myb/S 50.6 18 0.0004 25.6 2.9 34 37-70 2-48 (78)
48 KOG2656 DNA methyltransferase 47.8 8.3 0.00018 37.0 0.9 56 25-88 122-183 (445)
49 PF13325 MCRS_N: N-terminal re 45.0 31 0.00067 30.1 3.9 72 19-92 34-131 (199)
50 KOG4282 Transcription factor G 42.2 17 0.00036 33.3 2.0 25 6-30 85-112 (345)
51 KOG4282 Transcription factor G 39.5 22 0.00047 32.6 2.3 46 37-82 54-109 (345)
52 PF08281 Sigma70_r4_2: Sigma-7 37.9 16 0.00034 24.0 0.8 32 42-78 12-43 (54)
53 PF08914 Myb_DNA-bind_2: Rap1 35.7 18 0.00039 25.9 0.9 32 5-36 31-62 (65)
54 PF11035 SnAPC_2_like: Small n 32.6 52 0.0011 30.9 3.5 41 37-77 21-61 (344)
55 PF01388 ARID: ARID/BRIGHT DNA 31.5 25 0.00053 25.8 1.1 29 5-33 58-90 (92)
56 KOG2009 Transcription initiati 31.1 29 0.00062 35.0 1.7 48 34-85 406-453 (584)
57 TIGR02894 DNA_bind_RsfA transc 28.4 24 0.00052 29.9 0.6 22 9-32 35-56 (161)
58 cd08319 Death_RAIDD Death doma 27.7 46 0.00099 24.9 1.9 27 45-76 2-28 (83)
59 PRK13923 putative spore coat p 27.5 25 0.00054 30.0 0.5 17 16-32 41-57 (170)
60 smart00501 BRIGHT BRIGHT, ARID 23.4 49 0.0011 24.5 1.4 29 5-33 54-86 (93)
61 cd08803 Death_ank3 Death domai 21.5 78 0.0017 23.6 2.2 22 45-70 4-25 (84)
62 PF01466 Skp1: Skp1 family, di 21.3 1.7E+02 0.0037 21.0 3.9 34 8-49 37-70 (78)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.95 E-value=2e-28 Score=214.12 Aligned_cols=81 Identities=57% Similarity=1.020 Sum_probs=76.2
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCccc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLK 80 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k 80 (220)
+||+++|..||+.++++||+||||+||.|||+|+|+||.||+|||.+|++||.+||++ |++||++|||||||++ |
T Consensus 26 ~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr----Ws~IA~~LPGRTDNeI-K 100 (238)
T KOG0048|consen 26 SFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR----WSLIAGRLPGRTDNEV-K 100 (238)
T ss_pred HhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH----HHHHHhhCCCcCHHHH-H
Confidence 5999999999999999999999999999999999999999999999999999999999 9999999999999987 4
Q ss_pred chhhhh
Q 048224 81 PEAPKI 86 (220)
Q Consensus 81 ~~~~~~ 86 (220)
++|...
T Consensus 101 N~Wnt~ 106 (238)
T KOG0048|consen 101 NHWNTH 106 (238)
T ss_pred HHHHHH
Confidence 444443
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.92 E-value=6.7e-26 Score=198.95 Aligned_cols=85 Identities=58% Similarity=1.095 Sum_probs=78.4
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCccc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLK 80 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k 80 (220)
+||..+|..||++|+++|+++|||+||.|||+|.|++++||+|||++|+++|+.||++ |+.||++|||||++++++
T Consensus 42 kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnK----Ws~IAk~LpGRTDnqIKN 117 (249)
T PLN03212 42 KEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNR----WSLIAGRIPGRTDNEIKN 117 (249)
T ss_pred HhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhcccc----HHHHHhhcCCCCHHHHHH
Confidence 5899999999999977999999999999999999999999999999999999999999 999999999999998877
Q ss_pred chhhhhhhc
Q 048224 81 PEAPKIAKH 89 (220)
Q Consensus 81 ~~~~~~~k~ 89 (220)
++...+.++
T Consensus 118 RWns~LrK~ 126 (249)
T PLN03212 118 YWNTHLRKK 126 (249)
T ss_pred HHHHHHhHH
Confidence 766555543
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.90 E-value=1.6e-24 Score=202.74 Aligned_cols=84 Identities=56% Similarity=1.050 Sum_probs=78.3
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCccc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLK 80 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k 80 (220)
+||.++|..||+.|+++|+++|||+||.+||+|.|++++||+|||++|+++|++||++ |++||++|||||++++++
T Consensus 31 kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK----WskIAk~LPGRTDnqIKN 106 (459)
T PLN03091 31 KYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR----WSQIAAQLPGRTDNEIKN 106 (459)
T ss_pred HhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc----hHHHHHhcCCCCHHHHHH
Confidence 5999999999999988999999999999999999999999999999999999999999 999999999999998877
Q ss_pred chhhhhhh
Q 048224 81 PEAPKIAK 88 (220)
Q Consensus 81 ~~~~~~~k 88 (220)
+++..++|
T Consensus 107 RWnslLKK 114 (459)
T PLN03091 107 LWNSCLKK 114 (459)
T ss_pred HHHHHHHH
Confidence 66655554
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.37 E-value=2.6e-13 Score=132.19 Aligned_cols=79 Identities=27% Similarity=0.437 Sum_probs=73.7
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCccc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLK 80 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k 80 (220)
+||++.|..|.+.++ ||+..|||+||+|.|+-..+.+.||-.||+.||.+|++||..+ |.+||..||.||..|-.+
T Consensus 377 ~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~---WakcA~~Lp~~t~~q~~r 452 (939)
T KOG0049|consen 377 RYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGN---WAKCAMLLPKKTSRQLRR 452 (939)
T ss_pred HhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccch---HHHHHHHccccchhHHHH
Confidence 699999999999999 9999999999999999999999999999999999999999998 999999999999977444
Q ss_pred chh
Q 048224 81 PEA 83 (220)
Q Consensus 81 ~~~ 83 (220)
++.
T Consensus 453 rR~ 455 (939)
T KOG0049|consen 453 RRL 455 (939)
T ss_pred HHH
Confidence 333
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=99.26 E-value=3.6e-12 Score=88.61 Aligned_cols=45 Identities=40% Similarity=0.869 Sum_probs=40.7
Q ss_pred CCCCccccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHH
Q 048224 2 YGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLM 48 (220)
Q Consensus 2 yG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~L 48 (220)
|| .+|..||+.|+ +|++.||+.||.++|+|.+++++||++||.+|
T Consensus 16 ~g-~~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 16 YG-NDWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp HT-S-HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred HC-cCHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 67 48999999997 89999999999999999999999999999987
No 6
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.20 E-value=6.1e-12 Score=121.01 Aligned_cols=82 Identities=27% Similarity=0.440 Sum_probs=76.5
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCccc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLK 80 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k 80 (220)
+||+.+|..||..+. -|+++||+.||.+||+|.+++..|+.+||..|+.+..++|.+ |+.||..+||||+.++..
T Consensus 37 ~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~----wstia~~~d~rt~~~~~e 111 (512)
T COG5147 37 KLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ----WSTIADYKDRRTAQQCVE 111 (512)
T ss_pred hcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch----hhhhccccCccchHHHHH
Confidence 589999999999999 699999999999999999999999999999999999999999 999999999999998877
Q ss_pred chhhhhh
Q 048224 81 PEAPKIA 87 (220)
Q Consensus 81 ~~~~~~~ 87 (220)
++...+.
T Consensus 112 ry~~~~~ 118 (512)
T COG5147 112 RYVNTLE 118 (512)
T ss_pred HHHHHhh
Confidence 7765443
No 7
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.14 E-value=8.9e-12 Score=119.04 Aligned_cols=80 Identities=29% Similarity=0.614 Sum_probs=74.9
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCccc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLK 80 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k 80 (220)
|||...|..|++.+. -.+++||+.||..+|+|.|++..|+.+||..||.+++.+-.. |..||..| |||+++|..
T Consensus 24 kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~q----wrtIa~i~-gr~~~qc~e 97 (617)
T KOG0050|consen 24 KYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQ----WRTIADIM-GRTSQQCLE 97 (617)
T ss_pred HcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCc----cchHHHHh-hhhHHHHHH
Confidence 699999999999998 889999999999999999999999999999999999999999 99999999 999999877
Q ss_pred chhhhh
Q 048224 81 PEAPKI 86 (220)
Q Consensus 81 ~~~~~~ 86 (220)
++-..+
T Consensus 98 Ry~~ll 103 (617)
T KOG0050|consen 98 RYNNLL 103 (617)
T ss_pred HHHHHH
Confidence 765554
No 8
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.10 E-value=5.1e-11 Score=116.46 Aligned_cols=82 Identities=18% Similarity=0.366 Sum_probs=75.3
Q ss_pred CCccccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchh
Q 048224 4 EGKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEA 83 (220)
Q Consensus 4 ~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~ 83 (220)
.-+|.+|-.+|+ ||+..|-.-||...|+|.|++|+||++||.+|+.+|.+||.+. |.+|-..+|||++.|++.+|.
T Consensus 328 hI~w~kVV~Ymp-gr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kd---w~k~R~~vPnRSdsQcR~RY~ 403 (939)
T KOG0049|consen 328 HIQWDKVVQYMP-GRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKD---WAKVRQAVPNRSDSQCRERYT 403 (939)
T ss_pred ccchHHHHHhcC-CcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccc---hhhHHHhcCCccHHHHHHHHH
Confidence 357999999999 9999999999999999999999999999999999999999997 999999999999999777766
Q ss_pred hhhhhc
Q 048224 84 PKIAKH 89 (220)
Q Consensus 84 ~~~~k~ 89 (220)
+.+...
T Consensus 404 nvL~~s 409 (939)
T KOG0049|consen 404 NVLNRS 409 (939)
T ss_pred HHHHHh
Confidence 655443
No 9
>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=99.03 E-value=6.8e-11 Score=79.29 Aligned_cols=45 Identities=29% Similarity=0.516 Sum_probs=38.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCC-CCCCCCcccchhh
Q 048224 37 RGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLP-GRTSNDKLKPEAP 84 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lp-gRT~n~~~k~~~~ 84 (220)
|++||+|||++|++++++||.++ |..||..|| |||..|++.++.+
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~---W~~Ia~~~~~~Rt~~qc~~~~~~ 46 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDN---WKKIAKRMPGGRTAKQCRSRYQN 46 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTH---HHHHHHHHSSSSTHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHhCCcH---HHHHHHHcCCCCCHHHHHHHHHh
Confidence 68999999999999999999987 999999999 9999987665543
No 10
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.83 E-value=2e-09 Score=69.61 Aligned_cols=44 Identities=39% Similarity=0.633 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CCCchhhHHHhccCCCCCCCCcccchhh
Q 048224 37 RGEFVADEIDLMIRLHKLLG-NRQEHMWSLIAARLPGRTSNDKLKPEAP 84 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~~G-~~~~~~Ws~IA~~lpgRT~n~~~k~~~~ 84 (220)
+++||++||.+|+.++.+|| .. |..||..||+||+.+++.++..
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~----w~~Ia~~~~~rt~~~~~~~~~~ 45 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNN----WEKIAKELPGRTAEQCRERWNN 45 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCC----HHHHHHHcCCCCHHHHHHHHHH
Confidence 46899999999999999999 77 9999999999999987555543
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.82 E-value=3.2e-09 Score=93.96 Aligned_cols=54 Identities=19% Similarity=0.270 Sum_probs=47.4
Q ss_pred cCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccC-CCCCCCCcccchhhhhh
Q 048224 31 LKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARL-PGRTSNDKLKPEAPKIA 87 (220)
Q Consensus 31 L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~l-pgRT~n~~~k~~~~~~~ 87 (220)
-++.++|++||+|||++|+++|++||..+ |..||+++ +|||+.||+.||.+.+.
T Consensus 19 ~K~glKRg~WT~EEDe~L~~lV~kyG~~n---W~~IAk~~g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 19 TKMGMKRGPWTVEEDEILVSFIKKEGEGR---WRSLPKRAGLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred ccCCCcCCCCCHHHHHHHHHHHHHhCccc---HHHHHHhhhcCCCcchHHHHHHHhhc
Confidence 36789999999999999999999999766 99999998 69999998777766553
No 12
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.80 E-value=2.4e-09 Score=74.34 Aligned_cols=44 Identities=27% Similarity=0.416 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchhhhhh
Q 048224 40 FVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEAPKIA 87 (220)
Q Consensus 40 WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~~~~~ 87 (220)
||+|||++|+++|++||.. |..||.+|+.||..++..++...+.
T Consensus 1 WT~eEd~~L~~~~~~~g~~----W~~Ia~~l~~Rt~~~~~~r~~~~l~ 44 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGND----WKKIAEHLGNRTPKQCRNRWRNHLR 44 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-----HHHHHHHSTTS-HHHHHHHHHHTTS
T ss_pred CCHHHHHHHHHHHHHHCcC----HHHHHHHHCcCCHHHHHHHHHHHCc
Confidence 9999999999999999988 9999999966999988777666343
No 13
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.63 E-value=1.9e-08 Score=88.32 Aligned_cols=53 Identities=15% Similarity=0.137 Sum_probs=46.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCC-CCCCCCcccchhhhhh
Q 048224 32 KPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLP-GRTSNDKLKPEAPKIA 87 (220)
Q Consensus 32 ~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lp-gRT~n~~~k~~~~~~~ 87 (220)
+|.+.|||||+|||++|+++|++||.++ |..||+.++ ||++.+|+.|+.+++.
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~---W~~i~k~~gl~R~GKSCRlRW~NyLr 57 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHN---GTALPKLAGLRRCGKSCRLRWTNYLR 57 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCC---cchhhhhcCCCccchHHHHHhhcccC
Confidence 4556689999999999999999999998 999999999 9999997666665543
No 14
>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=98.62 E-value=2.2e-08 Score=63.86 Aligned_cols=40 Identities=33% Similarity=0.535 Sum_probs=36.0
Q ss_pred CCCHHHHHHHHHHHHHhC-CCCchhhHHHhccCCCCCCCCcccch
Q 048224 39 EFVADEIDLMIRLHKLLG-NRQEHMWSLIAARLPGRTSNDKLKPE 82 (220)
Q Consensus 39 ~WT~eED~~Ll~lv~~~G-~~~~~~Ws~IA~~lpgRT~n~~~k~~ 82 (220)
+||++|+.+|++++..|| .. |..||..|++||+.+++.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~----w~~Ia~~~~~rs~~~~~~~~ 41 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNN----WEKIAKELPGRTPKQCRERW 41 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCC----HHHHHhHcCCCCHHHHHHHH
Confidence 599999999999999999 66 99999999999999775444
No 15
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.58 E-value=4.5e-08 Score=95.81 Aligned_cols=85 Identities=19% Similarity=0.346 Sum_probs=69.8
Q ss_pred CCCCccccHhhhcCCCCCHHHHHHHHHhccCCC--CCCCCCCHHHHHHHHHHHH-------Hh-----------CCC---
Q 048224 2 YGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKPN--IKRGEFVADEIDLMIRLHK-------LL-----------GNR--- 58 (220)
Q Consensus 2 yG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~--i~rg~WT~eED~~Ll~lv~-------~~-----------G~~--- 58 (220)
+| +.|..|+..| +|.+..||+||++|..+. ++++.||.||.++|+++|+ ++ -..
T Consensus 402 ~g-~~W~~Ig~~l--gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~ 478 (607)
T KOG0051|consen 402 HG-NDWKEIGKAL--GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTL 478 (607)
T ss_pred hc-ccHHHHHHHH--ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccc
Confidence 45 5899999877 599999999999999998 5999999999999999996 33 111
Q ss_pred -CchhhHHHhccCCCCCCCCcccchhhhhhhc
Q 048224 59 -QEHMWSLIAARLPGRTSNDKLKPEAPKIAKH 89 (220)
Q Consensus 59 -~~~~Ws~IA~~lpgRT~n~~~k~~~~~~~k~ 89 (220)
..|.|+.|+..+..|+-.+|+.++++.+.+.
T Consensus 479 ~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~ 510 (607)
T KOG0051|consen 479 KDDINWTLVSEMLGTRSRIQCRYKWYKLTTSP 510 (607)
T ss_pred cCCcchhhhhHhhcCCCcchHHHHHHHHHhhH
Confidence 3477999999888899998866666665553
No 16
>PLN03091 hypothetical protein; Provisional
Probab=98.58 E-value=3.7e-08 Score=93.29 Aligned_cols=55 Identities=15% Similarity=0.221 Sum_probs=47.4
Q ss_pred ccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccC-CCCCCCCcccchhhhhh
Q 048224 30 YLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARL-PGRTSNDKLKPEAPKIA 87 (220)
Q Consensus 30 ~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~l-pgRT~n~~~k~~~~~~~ 87 (220)
+-++.+++++||+|||++|+++|++||..+ |..||+.+ +|||+.||+.||.+.+.
T Consensus 7 c~KqklrKg~WTpEEDe~L~~~V~kyG~~n---Ws~IAk~~g~gRT~KQCRERW~NyLd 62 (459)
T PLN03091 7 CYKQKLRKGLWSPEEDEKLLRHITKYGHGC---WSSVPKQAGLQRCGKSCRLRWINYLR 62 (459)
T ss_pred CcCCCCcCCCCCHHHHHHHHHHHHHhCcCC---HHHHhhhhccCcCcchHhHHHHhccC
Confidence 345789999999999999999999999877 99999988 59999998777665443
No 17
>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=98.38 E-value=1.3e-07 Score=63.23 Aligned_cols=31 Identities=35% Similarity=0.723 Sum_probs=28.8
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhcc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYL 31 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L 31 (220)
+||.++|..||..|+.+|++.||+.||.+||
T Consensus 18 ~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 18 KYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp HSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred HhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 4898889999999999999999999999986
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=97.78 E-value=1.4e-05 Score=51.28 Aligned_cols=32 Identities=38% Similarity=0.871 Sum_probs=28.4
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhccCC
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKP 33 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P 33 (220)
+||..+|..||..++ +|++.+|+.||.+++++
T Consensus 18 ~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~~ 49 (49)
T smart00717 18 KYGKNNWEKIAKELP-GRTAEQCRERWNNLLKP 49 (49)
T ss_pred HHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcCC
Confidence 377679999999999 99999999999988753
No 19
>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=97.68 E-value=2.3e-05 Score=49.63 Aligned_cols=30 Identities=37% Similarity=0.837 Sum_probs=26.6
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhcc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYL 31 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L 31 (220)
+||.++|..||..++ +|++.||+.||.+++
T Consensus 16 ~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 16 KYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred HHCcCCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 378789999999998 899999999998764
No 20
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=97.33 E-value=0.00021 Score=69.56 Aligned_cols=74 Identities=26% Similarity=0.552 Sum_probs=60.2
Q ss_pred CCCCccccHhhhcCCCCCHHHHHHHHHhccCC--CCCCCCCCHHHHHHHHHHHHHhC----CCCchhhHHHhccCCCCCC
Q 048224 2 YGEGKWHQVPLRAGLNRCRKSCRLRWLNYLKP--NIKRGEFVADEIDLMIRLHKLLG----NRQEHMWSLIAARLPGRTS 75 (220)
Q Consensus 2 yG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P--~i~rg~WT~eED~~Ll~lv~~~G----~~~~~~Ws~IA~~lpgRT~ 75 (220)
+| +.|..|...+ +|.+.-||+||.+|..+ .+++++|+.||+.+|...+...- .++.+.|..|+..++.|..
T Consensus 309 ~~-~~w~~ig~~~--~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~~~~~~~~~~li~~~~~~~~~ 385 (512)
T COG5147 309 HG-GSWTEIGKLL--GRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEAQQSSRILWLLIAQNIRNRLQ 385 (512)
T ss_pred cc-chhhHhhhhh--ccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHHhhhhhhhHHHHHHhhhcccc
Confidence 45 4799999555 69999999999999999 68999999999999988877432 1223669999999998877
Q ss_pred CCc
Q 048224 76 NDK 78 (220)
Q Consensus 76 n~~ 78 (220)
-.+
T Consensus 386 ~~~ 388 (512)
T COG5147 386 HHC 388 (512)
T ss_pred CCC
Confidence 754
No 21
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.25 E-value=0.00022 Score=70.39 Aligned_cols=73 Identities=25% Similarity=0.270 Sum_probs=58.6
Q ss_pred cccHhhhcCCCCCHHHHHH---HHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchh
Q 048224 7 WHQVPLRAGLNRCRKSCRL---RWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEA 83 (220)
Q Consensus 7 W~~Ia~~~~l~R~~kqCr~---RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~ 83 (220)
|..|...++ .|+.++.-. |=.+.|.+ ++|.||++|++.|..+|.++|+. |..|+..| ||...+|+-++.
T Consensus 354 ~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~--~rg~wt~ee~eeL~~l~~~~g~~----W~~Ig~~l-gr~P~~crd~wr 425 (607)
T KOG0051|consen 354 YNNLYKLLP-YRDRKSIYHHLRRAYTPFEN--KRGKWTPEEEEELKKLVVEHGND----WKEIGKAL-GRMPMDCRDRWR 425 (607)
T ss_pred HHhhhhhcC-cccchhHHHHHHhcCCcccc--ccCCCCcchHHHHHHHHHHhccc----HHHHHHHH-ccCcHHHHHHHH
Confidence 677887888 598887766 33334444 99999999999999999999999 99999999 898887765555
Q ss_pred hhhh
Q 048224 84 PKIA 87 (220)
Q Consensus 84 ~~~~ 87 (220)
+.+.
T Consensus 426 ~~~~ 429 (607)
T KOG0051|consen 426 QYVK 429 (607)
T ss_pred Hhhc
Confidence 5443
No 22
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.53 E-value=0.011 Score=56.39 Aligned_cols=50 Identities=20% Similarity=0.246 Sum_probs=42.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchhhhh
Q 048224 34 NIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEAPKI 86 (220)
Q Consensus 34 ~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~~~~ 86 (220)
.|-...||.+|+-+||+++..||-+| |..||.++..||.-+++..+.+..
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GN---W~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGN---WQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCc---HHHHHHHHcccchHHHHHHHHHHH
Confidence 56667899999999999999999998 999999998788887755555443
No 23
>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=94.90 E-value=0.034 Score=38.99 Aligned_cols=39 Identities=21% Similarity=0.271 Sum_probs=31.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhh---HHHhccCCC-C-CCCCc
Q 048224 37 RGEFVADEIDLMIRLHKLLGNRQEHMW---SLIAARLPG-R-TSNDK 78 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~~G~~~~~~W---s~IA~~lpg-R-T~n~~ 78 (220)
+-.||+||....+++++.||..+ | ..|+..|.. | |..++
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~---~a~pk~I~~~~~~~~lT~~qV 46 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPD---WATPKRILELMVVDGLTRDQV 46 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCc---ccchHHHHHHcCCCCCCHHHH
Confidence 55899999999999999999844 9 999998842 3 65543
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.31 E-value=0.041 Score=52.64 Aligned_cols=76 Identities=21% Similarity=0.392 Sum_probs=49.7
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhcc-CCCCCCCCCC-------HHHHHHHHHH-HHHhCCC---------Cchh
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNYL-KPNIKRGEFV-------ADEIDLMIRL-HKLLGNR---------QEHM 62 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L-~P~i~rg~WT-------~eED~~Ll~l-v~~~G~~---------~~~~ 62 (220)
.||-|||..||.+++ .|+..+|++.|.+++ +-.+-.-+|. ..||..+-+- +..++.. .+-.
T Consensus 89 t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv~s~~~~~~~i~~~~~~~q~e~~~~~k~~~~~~~~~~~~pr~p~~~~p~ 167 (438)
T KOG0457|consen 89 TYGFGNWQDIADHIG-TKTKEECKEHYLKHFVNSPIFPLPDISLGIGVNQDEDAAMAKNRAEPFQPTDLVPRKPGVSNPL 167 (438)
T ss_pred HhCCCcHHHHHHHHc-ccchHHHHHHHHHHHhcCccccccccccccCcchHHHhhhcccccccCCCCCCCCCCCCCCCch
Confidence 489999999999999 999999999999864 3333333332 2344433332 2333331 0112
Q ss_pred hHHHhccCCCCCCCC
Q 048224 63 WSLIAARLPGRTSND 77 (220)
Q Consensus 63 Ws~IA~~lpgRT~n~ 77 (220)
=..|+.+||+|.+-+
T Consensus 168 ~~e~~gyMp~R~dFd 182 (438)
T KOG0457|consen 168 RREISGYMPGRLDFD 182 (438)
T ss_pred HHHHhhhCccchhhh
Confidence 358999999998766
No 25
>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=93.20 E-value=0.07 Score=38.40 Aligned_cols=40 Identities=15% Similarity=0.297 Sum_probs=24.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-----CCchhhHHHhccCC-CCCCC
Q 048224 37 RGEFVADEIDLMIRLHKLLGN-----RQEHMWSLIAARLP-GRTSN 76 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~~G~-----~~~~~Ws~IA~~lp-gRT~n 76 (220)
|.+||.+||.+|+..|+.+.. ..+..|..++..-| .+|--
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQ 47 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQ 47 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SH
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHH
Confidence 468999999999999976532 23467999999887 55544
No 26
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=93.12 E-value=0.059 Score=52.73 Aligned_cols=46 Identities=13% Similarity=0.288 Sum_probs=40.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchhhh
Q 048224 36 KRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEAPK 85 (220)
Q Consensus 36 ~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~~~ 85 (220)
.++.||.+|.-+||+.+..||.. |.+||.++..||--+|+-++.+.
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~dd----W~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDD----WNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhccc----HHHHHhccCCCCHHHHHHHHHhc
Confidence 35689999999999999999999 99999999999999876665543
No 27
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=92.09 E-value=0.058 Score=52.84 Aligned_cols=47 Identities=26% Similarity=0.274 Sum_probs=42.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchhh
Q 048224 35 IKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEAP 84 (220)
Q Consensus 35 i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~~ 84 (220)
++-|.|+.-||++|-..|.+||.+. |+.|++.|+-.|..||..+|+.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nq---ws~i~sll~~kt~rqC~~rw~e 51 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQ---WSRIASLLNRKTARQCKARWEE 51 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHH---HHHHHHHHhhcchhHHHHHHHH
Confidence 5667899999999999999999988 9999999999999988777663
No 28
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=90.84 E-value=0.14 Score=37.43 Aligned_cols=25 Identities=32% Similarity=0.820 Sum_probs=17.8
Q ss_pred ccccHhhhc---CCCCCHHHHHHHHHhc
Q 048224 6 KWHQVPLRA---GLNRCRKSCRLRWLNY 30 (220)
Q Consensus 6 ~W~~Ia~~~---~l~R~~kqCr~RW~n~ 30 (220)
-|..||..| |..|++.||+.+|.+-
T Consensus 36 ~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 36 VWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp HHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 499999887 5589999999999763
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=90.38 E-value=0.14 Score=49.69 Aligned_cols=45 Identities=13% Similarity=0.292 Sum_probs=39.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchhh
Q 048224 36 KRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEAP 84 (220)
Q Consensus 36 ~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~~ 84 (220)
....||.+|..+|++-++.||.. |.+||.++..+|--||+-++.+
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDd----W~kVA~HVgtKt~EqCIl~FL~ 322 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDD----WDKVARHVGTKTKEQCILHFLQ 322 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhh----HHHHHHHhCCCCHHHHHHHHHc
Confidence 34589999999999999999999 9999999999999987655443
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=90.24 E-value=0.19 Score=36.70 Aligned_cols=52 Identities=25% Similarity=0.362 Sum_probs=30.7
Q ss_pred CCCCCHHHHHHHHHHHHH------hC---CCCc-hhhHHHhccC----CCCCCCCcccchhhhhhh
Q 048224 37 RGEFVADEIDLMIRLHKL------LG---NRQE-HMWSLIAARL----PGRTSNDKLKPEAPKIAK 88 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~------~G---~~~~-~~Ws~IA~~l----pgRT~n~~~k~~~~~~~k 88 (220)
|..||.+|...||+++.. ++ .... ..|..||..| ..||+.|+..++.....+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~ 66 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKK 66 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence 457999999999999888 22 2222 3799999988 358888664444433333
No 31
>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=87.52 E-value=0.57 Score=32.79 Aligned_cols=30 Identities=13% Similarity=0.254 Sum_probs=26.2
Q ss_pred CCCCcc---ccHhhhcCCCC-CHHHHHHHHHhcc
Q 048224 2 YGEGKW---HQVPLRAGLNR-CRKSCRLRWLNYL 31 (220)
Q Consensus 2 yG~~~W---~~Ia~~~~l~R-~~kqCr~RW~n~L 31 (220)
||.|+| ..|++.|...| +..||+.+...|.
T Consensus 21 ~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 21 LGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred hCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 788899 99999998667 9999999988774
No 32
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=83.85 E-value=0.82 Score=38.61 Aligned_cols=45 Identities=16% Similarity=0.098 Sum_probs=32.5
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CCCCchhhHHHhccCCCCCCCCcccc
Q 048224 36 KRGEFVADEIDLMIRLHKLL---GNRQEHMWSLIAARLPGRTSNDKLKP 81 (220)
Q Consensus 36 ~rg~WT~eED~~Ll~lv~~~---G~~~~~~Ws~IA~~lpgRT~n~~~k~ 81 (220)
....||.|||.+|.+.|-.| |..+-.-...++..| +||+.+|-=|
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFR 50 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFR 50 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcch
Confidence 45689999999999999887 322212256777888 9999985333
No 33
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=81.05 E-value=1 Score=42.13 Aligned_cols=48 Identities=25% Similarity=0.241 Sum_probs=40.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchhhh
Q 048224 35 IKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEAPK 85 (220)
Q Consensus 35 i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~~~ 85 (220)
|--..|+.+|+.+|++....+|-++ |..||.++..|+..+++..+.+.
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGN---W~dIadyiGsr~kee~k~HylK~ 108 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGN---WEDIADYIGSRAKEEIKSHYLKM 108 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCc---HHHHHHHHhhhhhHHHHHHHHHH
Confidence 4455799999999999999999998 99999999889888765555444
No 34
>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=80.66 E-value=2.2 Score=34.15 Aligned_cols=37 Identities=19% Similarity=0.325 Sum_probs=27.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccC
Q 048224 34 NIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARL 70 (220)
Q Consensus 34 ~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~l 70 (220)
+-++..||++||..||..+.+||...+..|..|...+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 6667799999999999999999993233398887654
No 35
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=74.29 E-value=1.7 Score=40.80 Aligned_cols=74 Identities=20% Similarity=0.412 Sum_probs=47.9
Q ss_pred CCCCccccHhhhcCCCCCHHHHHHHHHhccC-------CCCCCCCCCHHHHHHHHHHH---HHhCC-----CCc----hh
Q 048224 2 YGEGKWHQVPLRAGLNRCRKSCRLRWLNYLK-------PNIKRGEFVADEIDLMIRLH---KLLGN-----RQE----HM 62 (220)
Q Consensus 2 yG~~~W~~Ia~~~~l~R~~kqCr~RW~n~L~-------P~i~rg~WT~eED~~Ll~lv---~~~G~-----~~~----~~ 62 (220)
.|-|||..||..+| .|....|++.|+.++. |+|....=- ..|+.|-+.. ..+-. +++ -.
T Consensus 81 lGlGNW~dIadyiG-sr~kee~k~HylK~y~es~~ypl~~i~~~~~v-~q~~f~~qrr~rie~f~~ppi~prkP~aS~P~ 158 (432)
T COG5114 81 LGLGNWEDIADYIG-SRAKEEIKSHYLKMYDESKYYPLPDITQNIHV-PQDEFLEQRRHRIETFELPPINPRKPKASNPY 158 (432)
T ss_pred cCCCcHHHHHHHHh-hhhhHHHHHHHHHHHhhcccccccccccCCCC-chHHHHHHHHhhhhhccCCCCCCCCCCCCCCc
Confidence 48899999999999 9999999999998776 444432222 2333333222 11110 000 11
Q ss_pred hHHHhccCCCCCCCC
Q 048224 63 WSLIAARLPGRTSND 77 (220)
Q Consensus 63 Ws~IA~~lpgRT~n~ 77 (220)
=..|..+||||-.-+
T Consensus 159 cheiqgyMPgRleFd 173 (432)
T COG5114 159 CHEIQGYMPGRLEFD 173 (432)
T ss_pred hhhhhccCCCccccc
Confidence 367999999998766
No 36
>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=70.95 E-value=4.4 Score=30.24 Aligned_cols=24 Identities=25% Similarity=0.446 Sum_probs=14.6
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhC
Q 048224 33 PNIKRGEFVADEIDLM--------IRLHKLLG 56 (220)
Q Consensus 33 P~i~rg~WT~eED~~L--------l~lv~~~G 56 (220)
|.-..|-||+++|..| -+|+++||
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 6677899999999998 36677777
No 37
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=68.77 E-value=4.1 Score=39.05 Aligned_cols=43 Identities=19% Similarity=0.322 Sum_probs=37.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchhhh
Q 048224 39 EFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEAPK 85 (220)
Q Consensus 39 ~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~~~ 85 (220)
+||..|-.+...+...+|.. .++||..+|.|.-.|++-++.+.
T Consensus 367 ~Ws~~e~ekFYKALs~wGtd----F~LIs~lfP~R~RkqIKaKfi~E 409 (507)
T COG5118 367 RWSKKEIEKFYKALSIWGTD----FSLISSLFPNRERKQIKAKFIKE 409 (507)
T ss_pred cccHHHHHHHHHHHHHhcch----HHHHHHhcCchhHHHHHHHHHHH
Confidence 79999999999999999999 99999999999988764444433
No 38
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=67.71 E-value=2.7 Score=41.05 Aligned_cols=28 Identities=32% Similarity=0.899 Sum_probs=25.0
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNY 30 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~ 30 (220)
+||. +|.+||.+++ +|+..||..++++.
T Consensus 296 ~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 296 MYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred Hhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 4784 8999999999 99999999999863
No 39
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=62.56 E-value=3.6 Score=35.04 Aligned_cols=47 Identities=9% Similarity=-0.002 Sum_probs=33.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCc---hhhHHHhccCCCCCCCCcccch
Q 048224 35 IKRGEFVADEIDLMIRLHKLLGNRQE---HMWSLIAARLPGRTSNDKLKPE 82 (220)
Q Consensus 35 i~rg~WT~eED~~Ll~lv~~~G~~~~---~~Ws~IA~~lpgRT~n~~~k~~ 82 (220)
.+...||.|+|.+|.+.|-.|+.... .+-..++..| +||+.+|--+|
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRw 52 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRW 52 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHH
Confidence 35678999999999888888876532 3455666677 78887754444
No 40
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=57.06 E-value=6.2 Score=38.94 Aligned_cols=28 Identities=32% Similarity=0.901 Sum_probs=25.1
Q ss_pred CCCCCccccHhhhcCCCCCHHHHHHHHHhc
Q 048224 1 MYGEGKWHQVPLRAGLNRCRKSCRLRWLNY 30 (220)
Q Consensus 1 kyG~~~W~~Ia~~~~l~R~~kqCr~RW~n~ 30 (220)
+||. +|.+||.+++ .|+..||..+.++-
T Consensus 270 ~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 270 MYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred Hhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 5885 8999999999 99999999999763
No 41
>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=56.71 E-value=7.6 Score=28.44 Aligned_cols=39 Identities=21% Similarity=0.376 Sum_probs=27.9
Q ss_pred CCCHHHHHHHHHHHHHh---CCCC------chhhHHHhccCCCCCCCC
Q 048224 39 EFVADEIDLMIRLHKLL---GNRQ------EHMWSLIAARLPGRTSND 77 (220)
Q Consensus 39 ~WT~eED~~Ll~lv~~~---G~~~------~~~Ws~IA~~lpgRT~n~ 77 (220)
.||++.+..||+++.+. |++. +.-|..|+..|..++...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~ 48 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLN 48 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCc
Confidence 49999999999988654 4441 135888999886655554
No 42
>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=55.24 E-value=12 Score=31.30 Aligned_cols=38 Identities=21% Similarity=0.284 Sum_probs=31.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccc
Q 048224 39 EFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKP 81 (220)
Q Consensus 39 ~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~ 81 (220)
.||+|+.++|.+|.++ |.. =++||..|.|.|-|+++-+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~S----asqIA~~lg~vsRnAViGk 39 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLS----ASQIARQLGGVSRNAVIGK 39 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCC----HHHHHHHhCCcchhhhhhh
Confidence 4999999999888754 767 8999999988898885433
No 43
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=54.67 E-value=16 Score=38.98 Aligned_cols=33 Identities=18% Similarity=0.253 Sum_probs=27.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhc
Q 048224 33 PNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAA 68 (220)
Q Consensus 33 P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~ 68 (220)
+.-++..+|.+||..|+-.+.+||..+ |..|-.
T Consensus 922 ~~~~~~~~~~~~d~~~~~~~~~~g~~~---~~~~~~ 954 (1033)
T PLN03142 922 GQNKGKLYNEECDRFMLCMVHKLGYGN---WDELKA 954 (1033)
T ss_pred CCCCCCcCCHHHHHHHHHHHHHhccch---HHHHHH
Confidence 444556799999999999999999876 998843
No 44
>smart00595 MADF subfamily of SANT domain.
Probab=54.18 E-value=9.1 Score=27.74 Aligned_cols=22 Identities=27% Similarity=0.792 Sum_probs=19.2
Q ss_pred ccccHhhhcCCCCCHHHHHHHHHh
Q 048224 6 KWHQVPLRAGLNRCRKSCRLRWLN 29 (220)
Q Consensus 6 ~W~~Ia~~~~l~R~~kqCr~RW~n 29 (220)
-|.+||..|+ -+...|+.+|.+
T Consensus 29 aW~~Ia~~l~--~~~~~~~~kw~~ 50 (89)
T smart00595 29 AWEEIAEELG--LSVEECKKRWKN 50 (89)
T ss_pred HHHHHHHHHC--cCHHHHHHHHHH
Confidence 5999999997 399999999965
No 45
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=52.73 E-value=15 Score=36.01 Aligned_cols=37 Identities=24% Similarity=0.446 Sum_probs=33.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCC
Q 048224 37 RGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSND 77 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~ 77 (220)
...||.||--++-+.+..||.. ..+|-+.||.|+=..
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~----F~kIrq~LP~rsLaS 223 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKD----FHKIRQALPHRSLAS 223 (534)
T ss_pred cccchHHHHHHHHHHHHHhccc----HHHHHHHccCccHHH
Confidence 3479999999999999999999 999999999998765
No 46
>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=51.76 E-value=9.8 Score=26.71 Aligned_cols=25 Identities=24% Similarity=0.682 Sum_probs=20.4
Q ss_pred ccccHhhhcCCCCCHHHHHHHHHhc
Q 048224 6 KWHQVPLRAGLNRCRKSCRLRWLNY 30 (220)
Q Consensus 6 ~W~~Ia~~~~l~R~~kqCr~RW~n~ 30 (220)
-|..||..++..-+...|+.||.+.
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~L 52 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNL 52 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHH
Confidence 5999999998456788999999763
No 47
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=50.57 E-value=18 Score=25.63 Aligned_cols=34 Identities=21% Similarity=0.446 Sum_probs=26.1
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CCC--------CchhhHHHhccC
Q 048224 37 RGEFVADEIDLMIRLHKLL-----GNR--------QEHMWSLIAARL 70 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~~-----G~~--------~~~~Ws~IA~~l 70 (220)
...||.+|..+|++++.+| |.. ....|..|+..|
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~l 48 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEEL 48 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHH
Confidence 4579999999999999886 311 124699999877
No 48
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=47.80 E-value=8.3 Score=37.02 Aligned_cols=56 Identities=23% Similarity=0.237 Sum_probs=41.8
Q ss_pred HHHHhccCCCCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhcc-----CCC-CCCCCcccchhhhhhh
Q 048224 25 LRWLNYLKPNIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAAR-----LPG-RTSNDKLKPEAPKIAK 88 (220)
Q Consensus 25 ~RW~n~L~P~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~-----lpg-RT~n~~~k~~~~~~~k 88 (220)
+-|.+||+- ..||.+|-+-|.+|++.|--+ |..||.+ ++. ||--+-+.++|.-.++
T Consensus 122 eEYe~~l~d----n~WskeETD~LF~lck~fDLR----f~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~ 183 (445)
T KOG2656|consen 122 EEYEAHLND----NSWSKEETDYLFDLCKRFDLR----FFVIADRYDNQQYKKSRTVEDLKERYYSVCRK 183 (445)
T ss_pred HHHHHhhcc----ccccHHHHHHHHHHHHhcCee----EEEEeeccchhhccccccHHHHHHHHHHHHHH
Confidence 456666653 679999999999999999999 9999987 454 6666555555544433
No 49
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=45.00 E-value=31 Score=30.11 Aligned_cols=72 Identities=15% Similarity=0.267 Sum_probs=44.4
Q ss_pred CHHHHHHHHHhcc----------------CCCC-----CCCCCCHHHHHHHHHHHHHhCCCCchhhHHHh----c-cCCC
Q 048224 19 CRKSCRLRWLNYL----------------KPNI-----KRGEFVADEIDLMIRLHKLLGNRQEHMWSLIA----A-RLPG 72 (220)
Q Consensus 19 ~~kqCr~RW~n~L----------------~P~i-----~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA----~-~lpg 72 (220)
|-+...+||+..| .|.. .+.+||.+|+++|........... ..+.+|- . +-++
T Consensus 34 T~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~~EE~lL~~v~s~~~p~l-e~Fq~LL~~n~~vFh~s 112 (199)
T PF13325_consen 34 TLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSKEEEQLLGTVASSSQPSL-ETFQELLDKNRSVFHPS 112 (199)
T ss_pred cHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCHHHHHHHHhhhhccCCcH-HHHHHHHHhChhhhccc
Confidence 6667778887644 3322 456899999999998765543330 1133332 2 3378
Q ss_pred CCCCCcccchhhhhhhccCC
Q 048224 73 RTSNDKLKPEAPKIAKHNVI 92 (220)
Q Consensus 73 RT~n~~~k~~~~~~~k~~~~ 92 (220)
||+. .+...|..+++...+
T Consensus 113 RTak-~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 113 RTAK-SLQDHWRLMKQYHLL 131 (199)
T ss_pred cCHH-HHHHHHHHHHHhchh
Confidence 9988 556677766654433
No 50
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=42.21 E-value=17 Score=33.34 Aligned_cols=25 Identities=28% Similarity=0.608 Sum_probs=20.5
Q ss_pred ccccHhhhc---CCCCCHHHHHHHHHhc
Q 048224 6 KWHQVPLRA---GLNRCRKSCRLRWLNY 30 (220)
Q Consensus 6 ~W~~Ia~~~---~l~R~~kqCr~RW~n~ 30 (220)
-|..||.+| +..|++.||+.+|.|.
T Consensus 85 ~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 85 LWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 499999855 4579999999999764
No 51
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=39.52 E-value=22 Score=32.61 Aligned_cols=46 Identities=13% Similarity=0.265 Sum_probs=33.0
Q ss_pred CCCCCHHHHHHHHHHHHHh------CCCCchhhHHHhccC----CCCCCCCcccch
Q 048224 37 RGEFVADEIDLMIRLHKLL------GNRQEHMWSLIAARL----PGRTSNDKLKPE 82 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~~------G~~~~~~Ws~IA~~l----pgRT~n~~~k~~ 82 (220)
...|+.+|-..||++...+ |+.+...|..||..+ .-||+.+|+.++
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~ 109 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKI 109 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence 3689999999999988754 333344599999955 348888754443
No 52
>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=37.93 E-value=16 Score=24.02 Aligned_cols=32 Identities=19% Similarity=0.234 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCc
Q 048224 42 ADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDK 78 (220)
Q Consensus 42 ~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~ 78 (220)
++++..++.++...|.. +..||..+ |.|.+.+
T Consensus 12 ~~~~r~i~~l~~~~g~s----~~eIa~~l-~~s~~~v 43 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMS----YAEIAEIL-GISESTV 43 (54)
T ss_dssp -HHHHHHHHHHHTS-------HHHHHHHC-TS-HHHH
T ss_pred CHHHHHHHHHHHHHCcC----HHHHHHHH-CcCHHHH
Confidence 47788899999999999 99999999 6666643
No 53
>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=35.73 E-value=18 Score=25.89 Aligned_cols=32 Identities=19% Similarity=0.313 Sum_probs=20.6
Q ss_pred CccccHhhhcCCCCCHHHHHHHHHhccCCCCC
Q 048224 5 GKWHQVPLRAGLNRCRKSCRLRWLNYLKPNIK 36 (220)
Q Consensus 5 ~~W~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~ 36 (220)
.=|.++++..+..++-.+-|+||+.+|.+...
T Consensus 31 ~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 31 KIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp HHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 34888887777688999999999999987643
No 54
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=32.56 E-value=52 Score=30.91 Aligned_cols=41 Identities=24% Similarity=0.339 Sum_probs=33.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCC
Q 048224 37 RGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSND 77 (220)
Q Consensus 37 rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~ 77 (220)
-..||.-|...|+++.+...-..+..-..|++.++||+..+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aE 61 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAE 61 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHH
Confidence 34799999999999988774344566789999999998876
No 55
>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=31.55 E-value=25 Score=25.80 Aligned_cols=29 Identities=28% Similarity=0.589 Sum_probs=21.2
Q ss_pred CccccHhhhcCCCCC----HHHHHHHHHhccCC
Q 048224 5 GKWHQVPLRAGLNRC----RKSCRLRWLNYLKP 33 (220)
Q Consensus 5 ~~W~~Ia~~~~l~R~----~kqCr~RW~n~L~P 33 (220)
+.|..||..++.... +.+.+.-|.+||.|
T Consensus 58 ~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 58 KKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp TTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred chHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 569999999986442 36788888888754
No 56
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=31.12 E-value=29 Score=34.95 Aligned_cols=48 Identities=19% Similarity=0.258 Sum_probs=40.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCchhhHHHhccCCCCCCCCcccchhhh
Q 048224 34 NIKRGEFVADEIDLMIRLHKLLGNRQEHMWSLIAARLPGRTSNDKLKPEAPK 85 (220)
Q Consensus 34 ~i~rg~WT~eED~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n~~~k~~~~~ 85 (220)
....++|+..|-.+-.......|.. -++|+..+|+|+..+++-++.++
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~gs~----~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERGSD----FSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhccc----ccccccccccccHHHHHHHHhhh
Confidence 4566799999999999999999999 99999999999999764444433
No 57
>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=28.40 E-value=24 Score=29.86 Aligned_cols=22 Identities=32% Similarity=0.727 Sum_probs=18.3
Q ss_pred cHhhhcCCCCCHHHHHHHHHhccC
Q 048224 9 QVPLRAGLNRCRKSCRLRWLNYLK 32 (220)
Q Consensus 9 ~Ia~~~~l~R~~kqCr~RW~n~L~ 32 (220)
+|+..+ +||+..|.=||+.|++
T Consensus 35 Evg~~L--~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 35 EVGRAL--NRTAAACGFRWNAYVR 56 (161)
T ss_pred HHHHHH--cccHHHhcchHHHHHH
Confidence 455555 7999999999999987
No 58
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=27.70 E-value=46 Score=24.89 Aligned_cols=27 Identities=22% Similarity=0.384 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhCCCCchhhHHHhccCCCCCCC
Q 048224 45 IDLMIRLHKLLGNRQEHMWSLIAARLPGRTSN 76 (220)
Q Consensus 45 D~~Ll~lv~~~G~~~~~~Ws~IA~~lpgRT~n 76 (220)
|..|..++..+|.. |..+|.+| |=|..
T Consensus 2 ~~~L~~la~~LG~~----W~~Lar~L-gls~~ 28 (83)
T cd08319 2 DRELNQLAQRLGPE----WEQVLLDL-GLSQT 28 (83)
T ss_pred HHHHHHHHHHHhhh----HHHHHHHc-CCCHH
Confidence 56788999999999 99999999 44444
No 59
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=27.53 E-value=25 Score=30.02 Aligned_cols=17 Identities=29% Similarity=0.819 Sum_probs=14.8
Q ss_pred CCCCHHHHHHHHHhccC
Q 048224 16 LNRCRKSCRLRWLNYLK 32 (220)
Q Consensus 16 l~R~~kqCr~RW~n~L~ 32 (220)
|+|++.+|..||+.+++
T Consensus 41 L~rt~aac~fRwNs~vr 57 (170)
T PRK13923 41 LKRTAAACGFRWNSVVR 57 (170)
T ss_pred HhhhHHHHHhHHHHHHH
Confidence 37999999999987776
No 60
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=23.35 E-value=49 Score=24.48 Aligned_cols=29 Identities=28% Similarity=0.575 Sum_probs=21.6
Q ss_pred CccccHhhhcCCCC----CHHHHHHHHHhccCC
Q 048224 5 GKWHQVPLRAGLNR----CRKSCRLRWLNYLKP 33 (220)
Q Consensus 5 ~~W~~Ia~~~~l~R----~~kqCr~RW~n~L~P 33 (220)
..|..||..+++.- .+.+-+.-|.+||.|
T Consensus 54 ~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 54 KKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred CCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 57999999998643 356677778877765
No 61
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=21.47 E-value=78 Score=23.62 Aligned_cols=22 Identities=27% Similarity=0.308 Sum_probs=20.0
Q ss_pred HHHHHHHHHHhCCCCchhhHHHhccC
Q 048224 45 IDLMIRLHKLLGNRQEHMWSLIAARL 70 (220)
Q Consensus 45 D~~Ll~lv~~~G~~~~~~Ws~IA~~l 70 (220)
|..|..++..+|.. |..+|..|
T Consensus 4 d~~l~~ia~~LG~d----W~~LA~eL 25 (84)
T cd08803 4 DIRMAIVADHLGLS----WTELAREL 25 (84)
T ss_pred HHHHHHHHHHhhcc----HHHHHHHc
Confidence 56788899999999 99999999
No 62
>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=21.33 E-value=1.7e+02 Score=21.03 Aligned_cols=34 Identities=9% Similarity=0.171 Sum_probs=24.2
Q ss_pred ccHhhhcCCCCCHHHHHHHHHhccCCCCCCCCCCHHHHHHHH
Q 048224 8 HQVPLRAGLNRCRKSCRLRWLNYLKPNIKRGEFVADEIDLMI 49 (220)
Q Consensus 8 ~~Ia~~~~l~R~~kqCr~RW~n~L~P~i~rg~WT~eED~~Ll 49 (220)
..||..+. |+++.+.|... +|.. ++|++|+..|-
T Consensus 37 ~~iA~~i~-gks~eeir~~f------gi~~-d~t~eee~~i~ 70 (78)
T PF01466_consen 37 KYIANMIK-GKSPEEIRKYF------GIEN-DLTPEEEEEIR 70 (78)
T ss_dssp HHHHHHHT-TS-HHHHHHHH------T----TSSHHHHHHHH
T ss_pred HHHHHHhc-CCCHHHHHHHc------CCCC-CCCHHHHHHHH
Confidence 35787888 99999999988 4444 69999988754
Done!