Query 024479
Match_columns 267
No_of_seqs 193 out of 1191
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 04:53:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 99.6 1.3E-15 2.8E-20 136.3 5.0 46 1-46 72-117 (238)
2 PLN03212 Transcription repress 99.2 9.4E-12 2E-16 114.2 5.4 50 1-50 88-137 (249)
3 PLN03091 hypothetical protein; 99.1 3.7E-11 8.1E-16 117.6 5.6 52 1-52 77-128 (459)
4 PF13921 Myb_DNA-bind_6: Myb-l 98.4 5.7E-08 1.2E-12 69.1 1.1 39 1-39 8-46 (60)
5 smart00717 SANT SANT SWI3, AD 98.4 1.5E-07 3.3E-12 61.7 3.0 37 1-37 11-48 (49)
6 PF00249 Myb_DNA-binding: Myb- 98.4 1.5E-07 3.2E-12 65.1 2.8 36 1-36 11-48 (48)
7 cd00167 SANT 'SWI3, ADA2, N-Co 98.3 5.2E-07 1.1E-11 58.5 3.5 35 1-35 9-44 (45)
8 PLN03212 Transcription repress 97.6 3.4E-05 7.4E-10 71.4 2.7 44 1-44 35-80 (249)
9 PLN03091 hypothetical protein; 97.1 0.00022 4.7E-09 70.9 1.4 43 1-43 24-68 (459)
10 KOG0048 Transcription factor, 96.7 0.00045 9.7E-09 62.3 0.4 48 1-48 19-68 (238)
11 COG5147 REB1 Myb superfamily p 94.4 0.033 7.1E-07 56.5 3.3 40 2-41 83-122 (512)
12 KOG0050 mRNA splicing protein 93.9 0.042 9.1E-07 56.1 2.8 41 4-44 20-61 (617)
13 KOG0049 Transcription factor, 93.8 0.057 1.2E-06 56.7 3.6 43 1-43 370-413 (939)
14 COG5147 REB1 Myb superfamily p 93.4 0.033 7.2E-07 56.5 1.3 44 2-45 31-75 (512)
15 KOG0049 Transcription factor, 91.6 0.43 9.3E-06 50.4 6.4 41 2-42 423-464 (939)
16 PF13837 Myb_DNA-bind_4: Myb/S 80.0 1.3 2.8E-05 33.1 2.0 33 12-45 36-72 (90)
17 KOG0051 RNA polymerase I termi 76.5 2.5 5.3E-05 44.2 3.4 35 2-37 395-429 (607)
18 PF08281 Sigma70_r4_2: Sigma-7 71.9 6.9 0.00015 26.8 3.8 34 2-36 18-51 (54)
19 PF02260 FATC: FATC domain; I 69.1 1.7 3.6E-05 28.9 0.1 15 125-139 16-30 (33)
20 KOG0457 Histone acetyltransfer 60.1 8.6 0.00019 38.9 3.2 36 1-36 82-118 (438)
21 PF08914 Myb_DNA-bind_2: Rap1 59.5 8.9 0.00019 28.9 2.5 33 9-41 28-62 (65)
22 PF13873 Myb_DNA-bind_5: Myb/S 54.7 18 0.00038 26.7 3.4 27 13-39 41-72 (78)
23 KOG0050 mRNA splicing protein 48.3 18 0.00038 37.8 3.3 43 2-45 70-112 (617)
24 PF10545 MADF_DNA_bdg: Alcohol 45.3 26 0.00057 25.2 3.1 24 13-36 29-53 (85)
25 TIGR01557 myb_SHAQKYF myb-like 44.9 31 0.00067 25.3 3.3 33 2-34 14-52 (57)
26 smart00595 MADF subfamily of S 43.7 31 0.00067 25.7 3.3 23 13-36 30-52 (89)
27 TIGR02894 DNA_bind_RsfA transc 41.6 20 0.00043 31.9 2.2 29 13-42 33-61 (161)
28 COG5114 Histone acetyltransfer 34.7 32 0.00069 34.2 2.6 34 1-34 73-107 (432)
29 KOG1279 Chromatin remodeling f 29.9 51 0.0011 34.0 3.3 34 1-34 263-296 (506)
30 COG5259 RSC8 RSC chromatin rem 28.1 49 0.0011 34.2 2.8 34 1-34 289-322 (531)
31 cd08779 Death_PIDD Death Domai 27.0 39 0.00085 26.3 1.5 27 2-29 5-31 (86)
32 cd08317 Death_ank Death domain 25.7 77 0.0017 24.1 2.9 29 2-31 7-35 (84)
33 KOG0489 Transcription factor z 25.5 91 0.002 28.9 3.8 36 2-38 171-213 (261)
34 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 25.4 75 0.0016 23.0 2.6 30 3-33 13-42 (50)
35 KOG4282 Transcription factor G 24.7 82 0.0018 29.7 3.5 36 10-46 83-122 (345)
36 cd08319 Death_RAIDD Death doma 24.3 82 0.0018 24.7 2.9 29 2-31 5-33 (83)
37 PF01388 ARID: ARID/BRIGHT DNA 24.0 1.6E+02 0.0035 22.2 4.4 27 11-37 58-89 (92)
38 PF13384 HTH_23: Homeodomain-l 23.8 24 0.00052 23.7 -0.2 28 2-31 10-37 (50)
39 PRK13923 putative spore coat p 23.2 79 0.0017 28.3 2.9 26 14-40 35-60 (170)
40 PF12776 Myb_DNA-bind_3: Myb/S 22.4 84 0.0018 23.6 2.6 28 13-41 34-66 (96)
41 cd08318 Death_NMPP84 Death dom 22.2 94 0.002 24.0 2.8 26 4-30 12-37 (86)
42 PRK15328 invasion protein IagB 21.6 1.5E+02 0.0033 25.8 4.3 43 2-44 99-143 (160)
43 KOG1194 Predicted DNA-binding 21.2 1.2E+02 0.0026 31.5 4.0 34 2-35 198-231 (534)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.58 E-value=1.3e-15 Score=136.27 Aligned_cols=46 Identities=65% Similarity=1.047 Sum_probs=43.6
Q ss_pred CHHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHHHHHHHHhhcCC
Q 024479 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTHLKKKLKKLQTG 46 (267)
Q Consensus 1 LIi~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~LrKklkk~~~~ 46 (267)
+||+||++|||||++||++|||||||+||||||++|||+++++..+
T Consensus 72 ~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~ 117 (238)
T KOG0048|consen 72 LIIKLHALLGNRWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGID 117 (238)
T ss_pred HHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCC
Confidence 5999999999999999999999999999999999999999998833
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.23 E-value=9.4e-12 Score=114.18 Aligned_cols=50 Identities=54% Similarity=0.956 Sum_probs=45.7
Q ss_pred CHHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHHHHHHHHhhcCCCCCC
Q 024479 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTHLKKKLKKLQTGSDGG 50 (267)
Q Consensus 1 LIi~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~LrKklkk~~~~~~~~ 50 (267)
+|+++|.+||+||+.||++|||||||+|||||+.+++|++++....+..+
T Consensus 88 lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~ 137 (249)
T PLN03212 88 LILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTH 137 (249)
T ss_pred HHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCC
Confidence 58999999999999999999999999999999999999998877666554
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.15 E-value=3.7e-11 Score=117.61 Aligned_cols=52 Identities=52% Similarity=0.882 Sum_probs=47.1
Q ss_pred CHHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHHHHHHHHhhcCCCCCCCC
Q 024479 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTHLKKKLKKLQTGSDGGQN 52 (267)
Q Consensus 1 LIi~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~LrKklkk~~~~~~~~~~ 52 (267)
+|+++|++||+||++||++||||||++|||||+.++||++++...++..+.+
T Consensus 77 lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kp 128 (459)
T PLN03091 77 LIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKP 128 (459)
T ss_pred HHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCC
Confidence 4899999999999999999999999999999999999999988877665543
No 4
>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=98.45 E-value=5.7e-08 Score=69.14 Aligned_cols=39 Identities=36% Similarity=0.700 Sum_probs=32.7
Q ss_pred CHHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHHHHHH
Q 024479 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTHLKKK 39 (267)
Q Consensus 1 LIi~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~LrKk 39 (267)
+|+++|.+||+.|..||++|+.||..+|++||+.+|+++
T Consensus 8 ~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~ 46 (60)
T PF13921_consen 8 LLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPK 46 (60)
T ss_dssp HHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTT
T ss_pred HHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCccc
Confidence 478999999999999999996699999999999866533
No 5
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.44 E-value=1.5e-07 Score=61.74 Aligned_cols=37 Identities=41% Similarity=0.740 Sum_probs=34.0
Q ss_pred CHHHHHHHhc-CcHHHHhccCCCCChhHHHHHHHHHHH
Q 024479 1 MIIHLQALLG-NRWAAIASYLPQRTDNDIKNYWNTHLK 37 (267)
Q Consensus 1 LIi~L~~elG-nKWs~IAk~LPGRTDNqIKNrWnt~Lr 37 (267)
+|+.++.+|| ..|..||..||+||+++|++||+..++
T Consensus 11 ~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 11 LLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred HHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 4788999999 999999999999999999999997654
No 6
>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=98.43 E-value=1.5e-07 Score=65.10 Aligned_cols=36 Identities=22% Similarity=0.470 Sum_probs=33.2
Q ss_pred CHHHHHHHhcCc-HHHHhccCC-CCChhHHHHHHHHHH
Q 024479 1 MIIHLQALLGNR-WAAIASYLP-QRTDNDIKNYWNTHL 36 (267)
Q Consensus 1 LIi~L~~elGnK-Ws~IAk~LP-GRTDNqIKNrWnt~L 36 (267)
+|++++.+||.. |..||.+|| |||..+|++||+.++
T Consensus 11 ~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 11 KLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp HHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred HHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 378999999988 999999999 999999999999764
No 7
>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=98.34 E-value=5.2e-07 Score=58.54 Aligned_cols=35 Identities=29% Similarity=0.615 Sum_probs=32.5
Q ss_pred CHHHHHHHhc-CcHHHHhccCCCCChhHHHHHHHHH
Q 024479 1 MIIHLQALLG-NRWAAIASYLPQRTDNDIKNYWNTH 35 (267)
Q Consensus 1 LIi~L~~elG-nKWs~IAk~LPGRTDNqIKNrWnt~ 35 (267)
+|++++.++| .+|..||+.||+||.++|++||+.+
T Consensus 9 ~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 9 LLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred HHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 4788999999 9999999999999999999999865
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.61 E-value=3.4e-05 Score=71.43 Aligned_cols=44 Identities=16% Similarity=0.357 Sum_probs=39.2
Q ss_pred CHHHHHHHhc-CcHHHHhccC-CCCChhHHHHHHHHHHHHHHHhhc
Q 024479 1 MIIHLQALLG-NRWAAIASYL-PQRTDNDIKNYWNTHLKKKLKKLQ 44 (267)
Q Consensus 1 LIi~L~~elG-nKWs~IAk~L-PGRTDNqIKNrWnt~LrKklkk~~ 44 (267)
+|++++++|| ++|..||+++ +|||+.+|+.||+.+|++.+++-.
T Consensus 35 ~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgp 80 (249)
T PLN03212 35 ILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGG 80 (249)
T ss_pred HHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCC
Confidence 4789999999 6899999998 799999999999999998876644
No 9
>PLN03091 hypothetical protein; Provisional
Probab=97.06 E-value=0.00022 Score=70.86 Aligned_cols=43 Identities=19% Similarity=0.357 Sum_probs=37.5
Q ss_pred CHHHHHHHhc-CcHHHHhccC-CCCChhHHHHHHHHHHHHHHHhh
Q 024479 1 MIIHLQALLG-NRWAAIASYL-PQRTDNDIKNYWNTHLKKKLKKL 43 (267)
Q Consensus 1 LIi~L~~elG-nKWs~IAk~L-PGRTDNqIKNrWnt~LrKklkk~ 43 (267)
+|++++.+|| ..|..||+++ +||++.+|+.||+.+|++.+++-
T Consensus 24 ~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKg 68 (459)
T PLN03091 24 KLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRG 68 (459)
T ss_pred HHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCC
Confidence 4789999999 5699999988 59999999999999888877553
No 10
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=96.72 E-value=0.00045 Score=62.27 Aligned_cols=48 Identities=17% Similarity=0.252 Sum_probs=42.2
Q ss_pred CHHHHHHHhcCc-HHHHhccCC-CCChhHHHHHHHHHHHHHHHhhcCCCC
Q 024479 1 MIIHLQALLGNR-WAAIASYLP-QRTDNDIKNYWNTHLKKKLKKLQTGSD 48 (267)
Q Consensus 1 LIi~L~~elGnK-Ws~IAk~LP-GRTDNqIKNrWnt~LrKklkk~~~~~~ 48 (267)
+|++++++||.+ |..|++.++ ||++.+|+-||..+|++.+++-.-+.+
T Consensus 19 ~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~e 68 (238)
T KOG0048|consen 19 TQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDE 68 (238)
T ss_pred HHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHH
Confidence 478999999955 999999999 999999999999999999987655433
No 11
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=94.42 E-value=0.033 Score=56.53 Aligned_cols=40 Identities=28% Similarity=0.495 Sum_probs=36.8
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHHHHHHHH
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTHLKKKLK 41 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~LrKklk 41 (267)
|++++.++|++|..||.++||||+.+|.+||+..+.....
T Consensus 83 li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 83 LIDLDKELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred HHHHHHhcCchhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 7899999999999999999999999999999987776655
No 12
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=93.86 E-value=0.042 Score=56.13 Aligned_cols=41 Identities=32% Similarity=0.545 Sum_probs=37.1
Q ss_pred HHHHHhc-CcHHHHhccCCCCChhHHHHHHHHHHHHHHHhhc
Q 024479 4 HLQALLG-NRWAAIASYLPQRTDNDIKNYWNTHLKKKLKKLQ 44 (267)
Q Consensus 4 ~L~~elG-nKWs~IAk~LPGRTDNqIKNrWnt~LrKklkk~~ 44 (267)
-.+..|| |.|+.|++.|+..|..+||+||+.++.+.+++..
T Consensus 20 aav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~te 61 (617)
T KOG0050|consen 20 AAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTE 61 (617)
T ss_pred HHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhh
Confidence 3578899 8899999999999999999999999999988764
No 13
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=93.79 E-value=0.057 Score=56.71 Aligned_cols=43 Identities=19% Similarity=0.474 Sum_probs=37.7
Q ss_pred CHHHHHHHhcCc-HHHHhccCCCCChhHHHHHHHHHHHHHHHhh
Q 024479 1 MIIHLQALLGNR-WAAIASYLPQRTDNDIKNYWNTHLKKKLKKL 43 (267)
Q Consensus 1 LIi~L~~elGnK-Ws~IAk~LPGRTDNqIKNrWnt~LrKklkk~ 43 (267)
+|+..+++||.| |++|...+|||+|.||+.||...|...+|+-
T Consensus 370 ~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~ 413 (939)
T KOG0049|consen 370 LLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVE 413 (939)
T ss_pred HHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccC
Confidence 478889999966 9999999999999999999998887776553
No 14
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=93.43 E-value=0.033 Score=56.50 Aligned_cols=44 Identities=39% Similarity=0.598 Sum_probs=38.6
Q ss_pred HHHHHHHhc-CcHHHHhccCCCCChhHHHHHHHHHHHHHHHhhcC
Q 024479 2 IIHLQALLG-NRWAAIASYLPQRTDNDIKNYWNTHLKKKLKKLQT 45 (267)
Q Consensus 2 Ii~L~~elG-nKWs~IAk~LPGRTDNqIKNrWnt~LrKklkk~~~ 45 (267)
+..++++|| |.|++||..|.-|+.+++++||+.++.+++++...
T Consensus 31 l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~ 75 (512)
T COG5147 31 LKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNW 75 (512)
T ss_pred HHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccc
Confidence 456789999 77999999998899999999999999988877654
No 15
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=91.56 E-value=0.43 Score=50.45 Aligned_cols=41 Identities=22% Similarity=0.429 Sum_probs=33.4
Q ss_pred HHHHHHHhc-CcHHHHhccCCCCChhHHHHHHHHHHHHHHHh
Q 024479 2 IIHLQALLG-NRWAAIASYLPQRTDNDIKNYWNTHLKKKLKK 42 (267)
Q Consensus 2 Ii~L~~elG-nKWs~IAk~LPGRTDNqIKNrWnt~LrKklkk 42 (267)
||.++.+|| ..|.+||.+||.||..+...|-...++.+++-
T Consensus 423 L~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~k~rl 464 (939)
T KOG0049|consen 423 LLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAAKLRL 464 (939)
T ss_pred HHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHHHHHHH
Confidence 688999999 77999999999999988777666566555443
No 16
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=79.98 E-value=1.3 Score=33.10 Aligned_cols=33 Identities=42% Similarity=0.694 Sum_probs=23.2
Q ss_pred cHHHHhccC----CCCChhHHHHHHHHHHHHHHHhhcC
Q 024479 12 RWAAIASYL----PQRTDNDIKNYWNTHLKKKLKKLQT 45 (267)
Q Consensus 12 KWs~IAk~L----PGRTDNqIKNrWnt~LrKklkk~~~ 45 (267)
.|..||..| ..||..+|+++|+. |+++.++...
T Consensus 36 ~w~~Ia~~l~~~G~~rt~~qc~~Kw~~-L~~~Yk~~k~ 72 (90)
T PF13837_consen 36 VWKEIAEELAEHGYNRTPEQCRNKWKN-LKKKYKKIKD 72 (90)
T ss_dssp HHHHHHHHHHHHC----HHHHHHHHHH-HHHHHHCSSS
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHHHHHHHh
Confidence 499999987 57999999999997 5556666553
No 17
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=76.50 E-value=2.5 Score=44.18 Aligned_cols=35 Identities=29% Similarity=0.512 Sum_probs=31.4
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHHHH
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTHLK 37 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~Lr 37 (267)
|..+|.++|+.|..|++.| ||...+|+-+|+...+
T Consensus 395 L~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~ 429 (607)
T KOG0051|consen 395 LKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVK 429 (607)
T ss_pred HHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhc
Confidence 5678999999999999998 9999999999986544
No 18
>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=71.92 E-value=6.9 Score=26.81 Aligned_cols=34 Identities=24% Similarity=0.299 Sum_probs=25.1
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHHH
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTHL 36 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~L 36 (267)
|+.++-..|-.|..||..+ |.+.+.|+++-+.-+
T Consensus 18 i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 18 IFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRAR 51 (54)
T ss_dssp HHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHH
T ss_pred HHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 5778888999999999999 999999999766443
No 19
>PF02260 FATC: FATC domain; InterPro: IPR003152 The FATC domain is found at the C-terminal end of the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding; PDB: 2KIT_A 1W1N_A 2KIO_A.
Probab=69.06 E-value=1.7 Score=28.86 Aligned_cols=15 Identities=40% Similarity=0.937 Sum_probs=13.2
Q ss_pred ccchHhHHHHHhhhh
Q 024479 125 ASNAENISRLLQNWM 139 (267)
Q Consensus 125 ass~enIsrlL~gwm 139 (267)
|.+.+|++||-.|||
T Consensus 16 At~~~nLa~my~GW~ 30 (33)
T PF02260_consen 16 ATDPENLARMYIGWM 30 (33)
T ss_dssp HHHHHHHHHHCTSS-
T ss_pred HcCHHHHHHHhcchh
Confidence 678999999999998
No 20
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=60.14 E-value=8.6 Score=38.86 Aligned_cols=36 Identities=19% Similarity=0.485 Sum_probs=31.4
Q ss_pred CHHHHHHHhc-CcHHHHhccCCCCChhHHHHHHHHHH
Q 024479 1 MIIHLQALLG-NRWAAIASYLPQRTDNDIKNYWNTHL 36 (267)
Q Consensus 1 LIi~L~~elG-nKWs~IAk~LPGRTDNqIKNrWnt~L 36 (267)
+||+....|| -.|..||.++--||..+||.||..+.
T Consensus 82 lLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 82 LLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred HHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 4788889999 77999999998899999999987543
No 21
>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=59.49 E-value=8.9 Score=28.90 Aligned_cols=33 Identities=21% Similarity=0.498 Sum_probs=21.9
Q ss_pred hcCc-HHHHhccCC-CCChhHHHHHHHHHHHHHHH
Q 024479 9 LGNR-WAAIASYLP-QRTDNDIKNYWNTHLKKKLK 41 (267)
Q Consensus 9 lGnK-Ws~IAk~LP-GRTDNqIKNrWnt~LrKklk 41 (267)
-||+ |..++..-| .+|=...|+||..+|+.+..
T Consensus 28 ~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 28 SGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp TSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred chHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 3566 999999887 99999999999988877643
No 22
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=54.71 E-value=18 Score=26.72 Aligned_cols=27 Identities=30% Similarity=0.542 Sum_probs=22.1
Q ss_pred HHHHhccC-----CCCChhHHHHHHHHHHHHH
Q 024479 13 WAAIASYL-----PQRTDNDIKNYWNTHLKKK 39 (267)
Q Consensus 13 Ws~IAk~L-----PGRTDNqIKNrWnt~LrKk 39 (267)
|..|+..| +.||..+||.+|..+....
T Consensus 41 W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 41 WEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred HHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 99999876 4799999999999765443
No 23
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=48.32 E-value=18 Score=37.78 Aligned_cols=43 Identities=23% Similarity=0.366 Sum_probs=37.7
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHHHHHHHHhhcC
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTHLKKKLKKLQT 45 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~LrKklkk~~~ 45 (267)
++++...+-+.|..|+..+ ||+.++|-.|++..+...+.+..-
T Consensus 70 lLhlakl~p~qwrtIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 70 LLHLAKLEPTQWRTIADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred HHHHHHhcCCccchHHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 6788999999999999988 999999999999998877765443
No 24
>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=45.34 E-value=26 Score=25.19 Aligned_cols=24 Identities=29% Similarity=0.504 Sum_probs=19.9
Q ss_pred HHHHhccCCC-CChhHHHHHHHHHH
Q 024479 13 WAAIASYLPQ-RTDNDIKNYWNTHL 36 (267)
Q Consensus 13 Ws~IAk~LPG-RTDNqIKNrWnt~L 36 (267)
|..||..|.. -+.++|+.+|+.+-
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr 53 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLR 53 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHH
Confidence 9999999953 57789999999654
No 25
>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=44.88 E-value=31 Score=25.31 Aligned_cols=33 Identities=15% Similarity=0.320 Sum_probs=26.2
Q ss_pred HHHHHHHhcC-cH---HHHhccCC--CCChhHHHHHHHH
Q 024479 2 IIHLQALLGN-RW---AAIASYLP--QRTDNDIKNYWNT 34 (267)
Q Consensus 2 Ii~L~~elGn-KW---s~IAk~LP--GRTDNqIKNrWnt 34 (267)
.++.+..||- .| ..|+..+. +.|-.+|+.+.+.
T Consensus 14 Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QK 52 (57)
T TIGR01557 14 FLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQK 52 (57)
T ss_pred HHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHH
Confidence 4678899996 89 99999873 4499999987653
No 26
>smart00595 MADF subfamily of SANT domain.
Probab=43.69 E-value=31 Score=25.75 Aligned_cols=23 Identities=26% Similarity=0.488 Sum_probs=20.1
Q ss_pred HHHHhccCCCCChhHHHHHHHHHH
Q 024479 13 WAAIASYLPQRTDNDIKNYWNTHL 36 (267)
Q Consensus 13 Ws~IAk~LPGRTDNqIKNrWnt~L 36 (267)
|..||..| |-|..+||.+|+.+-
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR 52 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLR 52 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHH
Confidence 99999999 449999999999654
No 27
>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=41.59 E-value=20 Score=31.92 Aligned_cols=29 Identities=21% Similarity=0.423 Sum_probs=23.6
Q ss_pred HHHHhccCCCCChhHHHHHHHHHHHHHHHh
Q 024479 13 WAAIASYLPQRTDNDIKNYWNTHLKKKLKK 42 (267)
Q Consensus 13 Ws~IAk~LPGRTDNqIKNrWnt~LrKklkk 42 (267)
...+++.| +||.-+|.=|||..+||++..
T Consensus 33 FeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 33 FEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred HHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 34556666 999999999999999988743
No 28
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=34.68 E-value=32 Score=34.23 Aligned_cols=34 Identities=29% Similarity=0.619 Sum_probs=29.3
Q ss_pred CHHHHHHHhc-CcHHHHhccCCCCChhHHHHHHHH
Q 024479 1 MIIHLQALLG-NRWAAIASYLPQRTDNDIKNYWNT 34 (267)
Q Consensus 1 LIi~L~~elG-nKWs~IAk~LPGRTDNqIKNrWnt 34 (267)
++|+.-..+| ..|.-||.++-.|+..+||.+|..
T Consensus 73 lli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK 107 (432)
T COG5114 73 LLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLK 107 (432)
T ss_pred HHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHH
Confidence 3667778888 779999999999999999999864
No 29
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=29.92 E-value=51 Score=34.02 Aligned_cols=34 Identities=9% Similarity=0.330 Sum_probs=30.5
Q ss_pred CHHHHHHHhcCcHHHHhccCCCCChhHHHHHHHH
Q 024479 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNT 34 (267)
Q Consensus 1 LIi~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt 34 (267)
||++.+..||-.|.+||.++-.||-.+|--++-.
T Consensus 263 LLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 263 LLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred HHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHh
Confidence 5788999999999999999999999999887754
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=28.06 E-value=49 Score=34.20 Aligned_cols=34 Identities=12% Similarity=0.299 Sum_probs=30.4
Q ss_pred CHHHHHHHhcCcHHHHhccCCCCChhHHHHHHHH
Q 024479 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNT 34 (267)
Q Consensus 1 LIi~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt 34 (267)
||++-.+.||--|.+||+++.-||-.+|=-+|-.
T Consensus 289 LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~ 322 (531)
T COG5259 289 LLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQ 322 (531)
T ss_pred HHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHc
Confidence 4778889999999999999999999999888764
No 31
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. 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
Probab=26.96 E-value=39 Score=26.28 Aligned_cols=27 Identities=22% Similarity=0.458 Sum_probs=20.3
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHH
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIK 29 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIK 29 (267)
|..+-.++|..|..++.+| |=++.+|.
T Consensus 5 l~~ia~~LG~~Wk~lar~L-Glse~~Id 31 (86)
T cd08779 5 LLSIAGRLGLDWQAIGLHL-GLSYRELQ 31 (86)
T ss_pred HHHHHHHHhHHHHHHHHHc-CCCHHHHH
Confidence 4566789999999999998 55555443
No 32
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. 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. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. 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-associati
Probab=25.73 E-value=77 Score=24.13 Aligned_cols=29 Identities=28% Similarity=0.554 Sum_probs=23.1
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHHHH
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIKNY 31 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIKNr 31 (267)
|..+...+|..|.++|+.| |=++.+|...
T Consensus 7 l~~ia~~lG~dW~~LAr~L-g~~~~dI~~i 35 (84)
T cd08317 7 LADISNLLGSDWPQLAREL-GVSETDIDLI 35 (84)
T ss_pred HHHHHHHHhhHHHHHHHHc-CCCHHHHHHH
Confidence 3456688999999999999 7788777664
No 33
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=25.46 E-value=91 Score=28.90 Aligned_cols=36 Identities=25% Similarity=0.421 Sum_probs=25.3
Q ss_pred HHHHHHHhc-CcH------HHHhccCCCCChhHHHHHHHHHHHH
Q 024479 2 IIHLQALLG-NRW------AAIASYLPQRTDNDIKNYWNTHLKK 38 (267)
Q Consensus 2 Ii~L~~elG-nKW------s~IAk~LPGRTDNqIKNrWnt~LrK 38 (267)
|++|-+||= ||+ ..||..| .=|+.+||.+|.++-.|
T Consensus 171 llELEkEFhfN~YLtR~RRiEiA~~L-~LtErQIKIWFQNRRMK 213 (261)
T KOG0489|consen 171 LLELEKEFHFNKYLTRSRRIEIAHAL-NLTERQIKIWFQNRRMK 213 (261)
T ss_pred hhhhhhhhccccccchHHHHHHHhhc-chhHHHHHHHHHHHHHH
Confidence 566667776 554 6677766 56899999999865433
No 34
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=25.42 E-value=75 Score=23.04 Aligned_cols=30 Identities=23% Similarity=0.365 Sum_probs=22.1
Q ss_pred HHHHHHhcCcHHHHhccCCCCChhHHHHHHH
Q 024479 3 IHLQALLGNRWAAIASYLPQRTDNDIKNYWN 33 (267)
Q Consensus 3 i~L~~elGnKWs~IAk~LPGRTDNqIKNrWn 33 (267)
|++..++|-+-..||+++ ||+-+.|++|-+
T Consensus 13 id~m~qlG~s~~~isr~i-~RSr~~Ir~yl~ 42 (50)
T PF11427_consen 13 IDVMHQLGMSLREISRRI-GRSRTCIRRYLK 42 (50)
T ss_dssp HHHHHHTT--HHHHHHHH-T--HHHHHHHHH
T ss_pred HHHHHHhchhHHHHHHHh-CccHHHHHHHhc
Confidence 566788999999999998 999999999743
No 35
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=24.67 E-value=82 Score=29.73 Aligned_cols=36 Identities=25% Similarity=0.315 Sum_probs=26.6
Q ss_pred cCcHHHHhccC----CCCChhHHHHHHHHHHHHHHHhhcCC
Q 024479 10 GNRWAAIASYL----PQRTDNDIKNYWNTHLKKKLKKLQTG 46 (267)
Q Consensus 10 GnKWs~IAk~L----PGRTDNqIKNrWnt~LrKklkk~~~~ 46 (267)
+.-|..||+.+ --||+.+||++|....+ ++++....
T Consensus 83 ~~~We~va~k~~~~g~~rs~~qck~K~~nl~k-~Yk~~k~~ 122 (345)
T KOG4282|consen 83 GPLWEEVARKMAELGYPRSPKQCKAKIENLKK-KYKKEKAK 122 (345)
T ss_pred ccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH-HHHHHhcc
Confidence 34599999954 56899999999997654 56665543
No 36
>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=24.31 E-value=82 Score=24.70 Aligned_cols=29 Identities=24% Similarity=0.390 Sum_probs=23.6
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHHHH
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIKNY 31 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIKNr 31 (267)
|..+...+|..|..+|.+| |=|+.+|...
T Consensus 5 L~~la~~LG~~W~~Lar~L-gls~~~I~~i 33 (83)
T cd08319 5 LNQLAQRLGPEWEQVLLDL-GLSQTDIYRC 33 (83)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHHHH
Confidence 4567789999999999998 7787777653
No 37
>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=23.98 E-value=1.6e+02 Score=22.19 Aligned_cols=27 Identities=22% Similarity=0.545 Sum_probs=18.3
Q ss_pred CcHHHHhccC--CC-CC--hhHHHHHHHHHHH
Q 024479 11 NRWAAIASYL--PQ-RT--DNDIKNYWNTHLK 37 (267)
Q Consensus 11 nKWs~IAk~L--PG-RT--DNqIKNrWnt~Lr 37 (267)
.+|..|+..| |. .+ ..++|+.|..+|.
T Consensus 58 ~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 58 KKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp TTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred chHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 4599999988 22 22 2578888877664
No 38
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=23.80 E-value=24 Score=23.70 Aligned_cols=28 Identities=25% Similarity=0.254 Sum_probs=20.2
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHHHH
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIKNY 31 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIKNr 31 (267)
|+.++.+ |-....||+.| |-+.+-|.++
T Consensus 10 ii~l~~~-G~s~~~ia~~l-gvs~~Tv~~w 37 (50)
T PF13384_consen 10 IIRLLRE-GWSIREIAKRL-GVSRSTVYRW 37 (50)
T ss_dssp HHHHHHH-T--HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHC-CCCHHHHHHHH-CcCHHHHHHH
Confidence 6778888 99999999998 7777777664
No 39
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=23.24 E-value=79 Score=28.33 Aligned_cols=26 Identities=23% Similarity=0.428 Sum_probs=21.0
Q ss_pred HHHhccCCCCChhHHHHHHHHHHHHHH
Q 024479 14 AAIASYLPQRTDNDIKNYWNTHLKKKL 40 (267)
Q Consensus 14 s~IAk~LPGRTDNqIKNrWnt~LrKkl 40 (267)
..++..| +||.-+|.-|||..+|+++
T Consensus 35 e~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 35 EEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred HHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 4445666 8999999999999998766
No 40
>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=22.39 E-value=84 Score=23.57 Aligned_cols=28 Identities=36% Similarity=0.643 Sum_probs=19.9
Q ss_pred HHHHhccC---CCC--ChhHHHHHHHHHHHHHHH
Q 024479 13 WAAIASYL---PQR--TDNDIKNYWNTHLKKKLK 41 (267)
Q Consensus 13 Ws~IAk~L---PGR--TDNqIKNrWnt~LrKklk 41 (267)
|..|+..| +|+ |..+|||+|+.+ |++.+
T Consensus 34 w~~i~~~~~~~~~~~~t~~qlknk~~~l-k~~y~ 66 (96)
T PF12776_consen 34 WNNIAEEFNEKTGLNYTKKQLKNKWKTL-KKDYR 66 (96)
T ss_pred HHHHHHHHHHHhCCcccHHHHHHHHHHH-HHHHH
Confidence 88898877 333 678999998854 44443
No 41
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=22.25 E-value=94 Score=24.05 Aligned_cols=26 Identities=27% Similarity=0.579 Sum_probs=21.9
Q ss_pred HHHHHhcCcHHHHhccCCCCChhHHHH
Q 024479 4 HLQALLGNRWAAIASYLPQRTDNDIKN 30 (267)
Q Consensus 4 ~L~~elGnKWs~IAk~LPGRTDNqIKN 30 (267)
.+-..+|..|..+|+.| |=++++|..
T Consensus 12 ~ia~~iG~~Wk~Lar~L-Gls~~dI~~ 37 (86)
T cd08318 12 VFANKLGEDWKTLAPHL-EMKDKEIRA 37 (86)
T ss_pred HHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 34578899999999999 889988865
No 42
>PRK15328 invasion protein IagB; Provisional
Probab=21.56 E-value=1.5e+02 Score=25.82 Aligned_cols=43 Identities=19% Similarity=0.502 Sum_probs=33.0
Q ss_pred HHHHHHHhcCcHHHHhccCC--CCChhHHHHHHHHHHHHHHHhhc
Q 024479 2 IIHLQALLGNRWAAIASYLP--QRTDNDIKNYWNTHLKKKLKKLQ 44 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LP--GRTDNqIKNrWnt~LrKklkk~~ 44 (267)
|.+++..||+.|..|+.+=- ++.....+.+|...+.+..+++.
T Consensus 99 L~~~~~~~g~~~~alaaYNaG~~~~~~~~~~~Y~~kV~~~y~~l~ 143 (160)
T PRK15328 99 LSDMMKIYGYSWEAVGAYNAGTSPKRSDIRKRYAKKIWENYRKLK 143 (160)
T ss_pred HHHHHHHcCChHHhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHh
Confidence 56788999999999999864 44445667778877877877775
No 43
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=21.17 E-value=1.2e+02 Score=31.46 Aligned_cols=34 Identities=18% Similarity=0.380 Sum_probs=30.2
Q ss_pred HHHHHHHhcCcHHHHhccCCCCChhHHHHHHHHH
Q 024479 2 IIHLQALLGNRWAAIASYLPQRTDNDIKNYWNTH 35 (267)
Q Consensus 2 Ii~L~~elGnKWs~IAk~LPGRTDNqIKNrWnt~ 35 (267)
+-+.|..||....+|.+.||.|+-..|.-||+..
T Consensus 198 Fe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 198 FEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred HHHHHHHhcccHHHHHHHccCccHHHHHHHHHHH
Confidence 4467899999999999999999999999998754
Done!