Query 018802
Match_columns 350
No_of_seqs 153 out of 420
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 04:09:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018802.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018802hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03162 golden-2 like transcr 99.9 3.6E-24 7.8E-29 210.0 10.2 63 140-203 231-293 (526)
2 TIGR01557 myb_SHAQKYF myb-like 99.9 1.8E-22 4E-27 150.8 6.4 56 144-199 1-56 (57)
3 PF00249 Myb_DNA-binding: Myb- 98.2 3.7E-06 8.1E-11 59.1 5.3 48 146-197 1-48 (48)
4 cd00167 SANT 'SWI3, ADA2, N-Co 94.4 0.16 3.6E-06 32.8 5.5 44 148-196 1-44 (45)
5 smart00717 SANT SANT SWI3, AD 93.6 0.29 6.4E-06 31.9 5.6 45 147-196 2-46 (49)
6 smart00426 TEA TEA domain. 90.8 0.32 6.9E-06 39.0 3.6 46 147-195 4-67 (68)
7 PF12776 Myb_DNA-bind_3: Myb/S 88.6 0.37 8E-06 37.1 2.4 51 148-198 1-63 (96)
8 PF13921 Myb_DNA-bind_6: Myb-l 79.6 7.3 0.00016 28.0 5.7 41 149-195 1-41 (60)
9 PF01285 TEA: TEA/ATTS domain 79.2 2 4.3E-05 43.8 3.6 54 142-196 45-112 (431)
10 smart00501 BRIGHT BRIGHT, ARID 73.7 4.1 8.8E-05 32.2 3.3 45 152-197 33-84 (93)
11 KOG0457 Histone acetyltransfer 60.0 14 0.0003 38.4 4.8 51 143-199 69-120 (438)
12 PLN03212 Transcription repress 60.0 20 0.00044 34.8 5.6 46 143-192 22-67 (249)
13 PF13837 Myb_DNA-bind_4: Myb/S 55.5 11 0.00025 28.4 2.6 58 146-203 1-74 (90)
14 KOG3841 TEF-1 and related tran 54.2 6.7 0.00014 40.6 1.4 55 144-200 74-145 (455)
15 KOG0850 Transcription factor D 46.4 15 0.00033 35.7 2.4 63 133-202 113-179 (245)
16 PLN03091 hypothetical protein; 46.0 41 0.0009 35.3 5.5 36 142-180 10-45 (459)
17 KOG0724 Zuotin and related mol 43.7 11 0.00024 35.6 1.1 52 145-202 52-103 (335)
18 PLN03091 hypothetical protein; 42.2 52 0.0011 34.7 5.6 47 146-198 67-117 (459)
19 TIGR02894 DNA_bind_RsfA transc 31.6 28 0.00062 32.0 1.6 53 139-198 41-94 (161)
20 PF07384 DUF1497: Protein of u 30.7 42 0.00091 26.4 2.2 22 146-167 35-56 (59)
21 cd06171 Sigma70_r4 Sigma70, re 29.7 1.4E+02 0.003 19.1 4.3 27 170-199 27-53 (55)
22 PLN03212 Transcription repress 28.8 1.1E+02 0.0025 29.9 5.2 41 146-192 78-118 (249)
23 PF08127 Propeptide_C1: Peptid 27.6 39 0.00084 24.4 1.4 36 153-195 1-36 (41)
24 PF00690 Cation_ATPase_N: Cati 24.4 81 0.0018 23.4 2.7 31 171-201 5-38 (69)
25 KOG0842 Transcription factor t 23.2 82 0.0018 31.5 3.2 57 139-202 150-210 (307)
26 smart00351 PAX Paired Box doma 22.0 2.1E+02 0.0045 24.1 5.0 43 149-199 18-60 (125)
27 cd08783 Death_MALT1 Death doma 20.0 1.6E+02 0.0034 25.4 3.9 48 145-196 36-84 (97)
No 1
>PLN03162 golden-2 like transcription factor; Provisional
Probab=99.90 E-value=3.6e-24 Score=210.03 Aligned_cols=63 Identities=43% Similarity=0.678 Sum_probs=59.0
Q ss_pred cCCCCCccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhhhcccccC
Q 018802 140 RSVRAPRMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMYRTVKSTD 203 (350)
Q Consensus 140 ~s~kKpRlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKYRl~k~~~ 203 (350)
...||+||+||+|||++||+||++|| .++|+||+||++|+|+|||++||||||||||+++++.
T Consensus 231 ~g~KKpRLrWTpELH~rFVeAV~qLG-~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 231 PGKKKAKVDWTPELHRRFVHAVEQLG-VEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCCCCCcccCCHHHHHHHHHHHHHhC-cCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 34689999999999999999999999 7999999999999999999999999999999987653
No 2
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=99.87 E-value=1.8e-22 Score=150.78 Aligned_cols=56 Identities=55% Similarity=0.830 Sum_probs=54.0
Q ss_pred CCccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhhhcc
Q 018802 144 APRMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMYRTV 199 (350)
Q Consensus 144 KpRlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKYRl~ 199 (350)
|+|++||+|+|++||+||+.||+.+.|+||+|+++|++++||+.||+|||||||+.
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 68999999999999999999997789999999999999999999999999999985
No 3
>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=98.18 E-value=3.7e-06 Score=59.10 Aligned_cols=48 Identities=23% Similarity=0.248 Sum_probs=41.4
Q ss_pred ccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhhh
Q 018802 146 RMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMYR 197 (350)
Q Consensus 146 RlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKYR 197 (350)
|..||+|.+.+|++||.++|. -.++.|.+.|+ .+-|..+|++|.++|+
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~---~~W~~Ia~~~~-~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGK---DNWKKIAKRMP-GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTT---THHHHHHHHHS-SSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCC---cHHHHHHHHcC-CCCCHHHHHHHHHhhC
Confidence 578999999999999999993 15999999999 6679999999999985
No 4
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=94.35 E-value=0.16 Score=32.83 Aligned_cols=44 Identities=14% Similarity=0.172 Sum_probs=37.3
Q ss_pred ccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhh
Q 018802 148 RWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMY 196 (350)
Q Consensus 148 rWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKY 196 (350)
.||.+-+..|+.++.++|- ..++.|.+.|+- =|..+|+.|.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~---~~w~~Ia~~~~~--rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK---NNWEKIAKELPG--RTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc---CCHHHHHhHcCC--CCHHHHHHHHHHh
Confidence 4999999999999999992 458999999865 4999999887654
No 5
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=93.58 E-value=0.29 Score=31.93 Aligned_cols=45 Identities=11% Similarity=0.166 Sum_probs=37.4
Q ss_pred cccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhh
Q 018802 147 MRWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMY 196 (350)
Q Consensus 147 lrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKY 196 (350)
-.||++-...|+.+|.++|- ..++.|.+.|+ +-|..+|+.+..++
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~---~~w~~Ia~~~~--~rt~~~~~~~~~~~ 46 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGK---NNWEKIAKELP--GRTAEQCRERWNNL 46 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCc---CCHHHHHHHcC--CCCHHHHHHHHHHH
Confidence 46999999999999999991 34899999987 55999998876554
No 6
>smart00426 TEA TEA domain.
Probab=90.78 E-value=0.32 Score=38.96 Aligned_cols=46 Identities=20% Similarity=0.275 Sum_probs=30.7
Q ss_pred cccChHHHHHHHHHHHHhCCCCCCChH-HHHh-----------------hcCCCCCCHHHHHHHhhh
Q 018802 147 MRWTTTLHAHFVHAVQLLGGHERATPK-SVLE-----------------LMNVKDLTLAHVKSHLQM 195 (350)
Q Consensus 147 lrWT~ELH~rFVeAVeqLGG~dkAtPK-kILe-----------------lMnV~GLTr~hVKSHLQK 195 (350)
-+|.++|-..|++|+..+= ...+-| ++.. .-|. -=|+.||.||+|.
T Consensus 4 ~vWp~~lE~Af~~aL~~~~--~~g~~kik~~~r~k~~gRNelIs~YI~~~tGk-~Rt~KQVsShIQv 67 (68)
T smart00426 4 GVWSPDIEQAFQEALAIYP--PCGRRKIILSDEGKMYGRNELIARYIKLRTGK-TRTRKQVSSHIQV 67 (68)
T ss_pred CcCcHHHHHHHHHHHHHcC--ccCcccchhhhcCcccchhHHHHHHHHHHhCC-ccchhhhcchhee
Confidence 3799999999999999874 222222 2221 1221 2388999999995
No 7
>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=88.55 E-value=0.37 Score=37.07 Aligned_cols=51 Identities=14% Similarity=0.269 Sum_probs=36.2
Q ss_pred ccChHHHHHHHHHHHHh---CCC------CCCChHHHHhhcCC---CCCCHHHHHHHhhhhhc
Q 018802 148 RWTTTLHAHFVHAVQLL---GGH------ERATPKSVLELMNV---KDLTLAHVKSHLQMYRT 198 (350)
Q Consensus 148 rWT~ELH~rFVeAVeqL---GG~------dkAtPKkILelMnV---~GLTr~hVKSHLQKYRl 198 (350)
+||++..+-||+.+-+. |.- .+...+.|.+.++- ..+|..||++|++..|.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 59999999999988333 322 23445667777665 34899999999985443
No 8
>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=79.60 E-value=7.3 Score=27.96 Aligned_cols=41 Identities=17% Similarity=0.279 Sum_probs=33.9
Q ss_pred cChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhh
Q 018802 149 WTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQM 195 (350)
Q Consensus 149 WT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQK 195 (350)
||+|--++.+++|...|. .++.|-+.|+ .=|..+|+.+..+
T Consensus 1 WT~eEd~~L~~~~~~~g~----~W~~Ia~~l~--~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN----DWKKIAEHLG--NRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-----HHHHHHHST--TS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc----CHHHHHHHHC--cCCHHHHHHHHHH
Confidence 999999999999999983 5999999997 3489999988777
No 9
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=79.15 E-value=2 Score=43.78 Aligned_cols=54 Identities=19% Similarity=0.187 Sum_probs=29.7
Q ss_pred CCCCccccChHHHHHHHHHHHHhCCCCCCChH--------------HHHhhcCCCCCCHHHHHHHhhhh
Q 018802 142 VRAPRMRWTTTLHAHFVHAVQLLGGHERATPK--------------SVLELMNVKDLTLAHVKSHLQMY 196 (350)
Q Consensus 142 ~kKpRlrWT~ELH~rFVeAVeqLGG~dkAtPK--------------kILelMnV~GLTr~hVKSHLQKY 196 (350)
..+..-+|.+++.+.|++|+..+=-..+++-+ .|...-| ..=|+.||.||+|..
T Consensus 45 ~~~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg-~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 45 DGDGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTG-KTRTRKQVSSHIQVL 112 (431)
T ss_dssp -GGGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS-----SHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhC-cccchhHHHHHHHHH
Confidence 35678999999999999999887311112111 1111112 224889999999998
No 10
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=73.73 E-value=4.1 Score=32.15 Aligned_cols=45 Identities=20% Similarity=0.290 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhCCCC----CCChHHHHhhcCCCCC---CHHHHHHHhhhhh
Q 018802 152 TLHAHFVHAVQLLGGHE----RATPKSVLELMNVKDL---TLAHVKSHLQMYR 197 (350)
Q Consensus 152 ELH~rFVeAVeqLGG~d----kAtPKkILelMnV~GL---Tr~hVKSHLQKYR 197 (350)
+|++-|. +|..+||.+ +..|+.|.+.|+++.- ...++++|-+||=
T Consensus 33 dL~~Ly~-~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L 84 (93)
T smart00501 33 DLYRLYR-LVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYL 84 (93)
T ss_pred cHHHHHH-HHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHh
Confidence 7899998 588999965 3569999999999742 2456777777663
No 11
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=60.03 E-value=14 Score=38.45 Aligned_cols=51 Identities=18% Similarity=0.208 Sum_probs=44.2
Q ss_pred CCCccccChHHHHHHHHHHHHhC-CCCCCChHHHHhhcCCCCCCHHHHHHHhhhhhcc
Q 018802 143 RAPRMRWTTTLHAHFVHAVQLLG-GHERATPKSVLELMNVKDLTLAHVKSHLQMYRTV 199 (350)
Q Consensus 143 kKpRlrWT~ELH~rFVeAVeqLG-G~dkAtPKkILelMnV~GLTr~hVKSHLQKYRl~ 199 (350)
..-..-||.+--..|++|++.+| | -|.-|.+.||.. |.++++.|--|+...
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~G----NW~dIA~hIGtK--tkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFG----NWQDIADHIGTK--TKEECKEHYLKHFVN 120 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCC----cHHHHHHHHccc--chHHHHHHHHHHHhc
Confidence 44567899999999999999999 4 489999999966 999999999888764
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=59.99 E-value=20 Score=34.85 Aligned_cols=46 Identities=13% Similarity=0.033 Sum_probs=34.0
Q ss_pred CCCccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHH
Q 018802 143 RAPRMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSH 192 (350)
Q Consensus 143 kKpRlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSH 192 (350)
..+|..||+|.-++-+++|+.+|. ..++.|.+.|+ ++=|..|.+-.
T Consensus 22 glKRg~WT~EEDe~L~~lV~kyG~---~nW~~IAk~~g-~gRT~KQCReR 67 (249)
T PLN03212 22 GMKRGPWTVEEDEILVSFIKKEGE---GRWRSLPKRAG-LLRCGKSCRLR 67 (249)
T ss_pred CCcCCCCCHHHHHHHHHHHHHhCc---ccHHHHHHhhh-cCCCcchHHHH
Confidence 445778999999999999999993 45888888775 23355555443
No 13
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=55.46 E-value=11 Score=28.40 Aligned_cols=58 Identities=17% Similarity=0.338 Sum_probs=35.5
Q ss_pred ccccChHHHHHHHHHHHH------h--CCCC-C-CChHHHHhhcCCCCC--CHHHHHHHh----hhhhcccccC
Q 018802 146 RMRWTTTLHAHFVHAVQL------L--GGHE-R-ATPKSVLELMNVKDL--TLAHVKSHL----QMYRTVKSTD 203 (350)
Q Consensus 146 RlrWT~ELH~rFVeAVeq------L--GG~d-k-AtPKkILelMnV~GL--Tr~hVKSHL----QKYRl~k~~~ 203 (350)
|-.||++.-..|++++.. + |+.. . .+.+.|.+.|..-|. |..|++... ++||..+...
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~~~ 74 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKDRN 74 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSSSS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 568999999999999866 2 1222 2 268889888866555 888877554 4677655443
No 14
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=54.15 E-value=6.7 Score=40.60 Aligned_cols=55 Identities=22% Similarity=0.337 Sum_probs=35.4
Q ss_pred CCccccChHHHHHHHHHHHHhCCCCCCChHHHHh--------------hcCC---CCCCHHHHHHHhhhhhccc
Q 018802 144 APRMRWTTTLHAHFVHAVQLLGGHERATPKSVLE--------------LMNV---KDLTLAHVKSHLQMYRTVK 200 (350)
Q Consensus 144 KpRlrWT~ELH~rFVeAVeqLGG~dkAtPKkILe--------------lMnV---~GLTr~hVKSHLQKYRl~k 200 (350)
-..-+|+++.-+.|.||+..+-- --+=|-||. ..+. +-=|+.||.||.|.....+
T Consensus 74 daegvWSpdIEqsFqEALaiypp--cGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk 145 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPP--CGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRK 145 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCC--CCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHH
Confidence 35568999999999999987630 001122222 1222 2358999999999765544
No 15
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=46.37 E-value=15 Score=35.71 Aligned_cols=63 Identities=29% Similarity=0.343 Sum_probs=43.9
Q ss_pred ccccccccCCCCCccccCh----HHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhhhccccc
Q 018802 133 RMISGVKRSVRAPRMRWTT----TLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMYRTVKST 202 (350)
Q Consensus 133 ~~~~g~~~s~kKpRlrWT~----ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKYRl~k~~ 202 (350)
+.+++-.+.+||||-.... .|.+||-+.=- -|.|.+ .||--+=|||..|||+-.|.=|.+.++
T Consensus 113 ~~~Ngk~KK~RKPRTIYSS~QLqaL~rRFQkTQY------LALPER-AeLAAsLGLTQTQVKIWFQNrRSK~KK 179 (245)
T KOG0850|consen 113 RRPNGKGKKVRKPRTIYSSLQLQALNRRFQQTQY------LALPER-AELAASLGLTQTQVKIWFQNRRSKFKK 179 (245)
T ss_pred eccCCCcccccCCcccccHHHHHHHHHHHhhcch------hcCcHH-HHHHHHhCCchhHhhhhhhhhHHHHHH
Confidence 3455666778999999986 68888866422 244444 245555689999999999977765433
No 16
>PLN03091 hypothetical protein; Provisional
Probab=46.00 E-value=41 Score=35.33 Aligned_cols=36 Identities=11% Similarity=0.164 Sum_probs=29.4
Q ss_pred CCCCccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcC
Q 018802 142 VRAPRMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMN 180 (350)
Q Consensus 142 ~kKpRlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMn 180 (350)
.+..|.+||+|.-++.+++|+++|- ..|+.|.+.|+
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~---~nWs~IAk~~g 45 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGH---GCWSSVPKQAG 45 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCc---CCHHHHhhhhc
Confidence 3456778999999999999999993 45888887775
No 17
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=43.73 E-value=11 Score=35.63 Aligned_cols=52 Identities=13% Similarity=0.061 Sum_probs=40.2
Q ss_pred CccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhhhccccc
Q 018802 145 PRMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMYRTVKST 202 (350)
Q Consensus 145 pRlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKYRl~k~~ 202 (350)
..-+||++.|.+|.+||... +..+.+|-+.-+.. +.-++.+|-|+|.-....
T Consensus 52 ~~~~~t~~~~~~~~~~l~~~----~~~~~~~~~~~~~~--~~v~~~~~~~~~~p~~~~ 103 (335)
T KOG0724|consen 52 DEPRRTPDSWDKFAEALPLE----KRLEDKIEEYIGLV--FDVNIRESGQKPFPKYGK 103 (335)
T ss_pred cccccchhhhhHHHhcCccc----cccchhHHhhhhhH--HHHhhhhccCCCccccCc
Confidence 45569999999999887654 36788888887775 777888888888775544
No 18
>PLN03091 hypothetical protein; Provisional
Probab=42.22 E-value=52 Score=34.66 Aligned_cols=47 Identities=15% Similarity=0.113 Sum_probs=38.6
Q ss_pred ccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHH----HHhhhhhc
Q 018802 146 RMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVK----SHLQMYRT 198 (350)
Q Consensus 146 RlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVK----SHLQKYRl 198 (350)
+-.||.|.-++.++.+..+| ..+.+|-+.| +|=|-.+|| ++|+|+..
T Consensus 67 KgpWT~EED~lLLeL~k~~G----nKWskIAk~L--PGRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 67 RGTFSQQEENLIIELHAVLG----NRWSQIAAQL--PGRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhC----cchHHHHHhc--CCCCHHHHHHHHHHHHHHHHH
Confidence 34799999999999999999 4699999987 677999998 45666643
No 19
>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=31.59 E-value=28 Score=31.96 Aligned_cols=53 Identities=30% Similarity=0.449 Sum_probs=40.1
Q ss_pred ccCCCCCccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcC-CCCCCHHHHHHHhhhhhc
Q 018802 139 KRSVRAPRMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMN-VKDLTLAHVKSHLQMYRT 198 (350)
Q Consensus 139 ~~s~kKpRlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMn-V~GLTr~hVKSHLQKYRl 198 (350)
.++.-...|||...+-.++.+||+.--- .+-. .+. ...||+++|-+-||.|..
T Consensus 41 ~RTsAACGFRWNs~VRkqY~~~i~~AKk-qRk~------~~~~~~~ltl~~vI~fLq~l~~ 94 (161)
T TIGR02894 41 NRTAAACGFRWNAYVRKQYEEAIELAKK-QRKE------LKREAGSLTLQDVISFLQNLKT 94 (161)
T ss_pred cccHHHhcchHHHHHHHHHHHHHHHHHH-HHhc------cccCcccCCHHHHHHHHHHHHh
Confidence 3556678999999999999999997541 1111 222 256999999999999984
No 20
>PF07384 DUF1497: Protein of unknown function (DUF1497); InterPro: IPR009972 This entry is represented by Bacteriophage r1t, Orf17. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage and bacterial proteins of around 59 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this organism. The function of this family is unknown.
Probab=30.73 E-value=42 Score=26.37 Aligned_cols=22 Identities=23% Similarity=0.575 Sum_probs=19.2
Q ss_pred ccccChHHHHHHHHHHHHhCCC
Q 018802 146 RMRWTTTLHAHFVHAVQLLGGH 167 (350)
Q Consensus 146 RlrWT~ELH~rFVeAVeqLGG~ 167 (350)
.-.+..|+|..|-+-|+.|||-
T Consensus 35 ~~kfnqem~aefheri~klggk 56 (59)
T PF07384_consen 35 QNKFNQEMQAEFHERIKKLGGK 56 (59)
T ss_pred hhHhhHHHHHHHHHHHHHhccc
Confidence 3467899999999999999984
No 21
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=29.70 E-value=1.4e+02 Score=19.07 Aligned_cols=27 Identities=11% Similarity=0.220 Sum_probs=21.5
Q ss_pred CChHHHHhhcCCCCCCHHHHHHHhhhhhcc
Q 018802 170 ATPKSVLELMNVKDLTLAHVKSHLQMYRTV 199 (350)
Q Consensus 170 AtPKkILelMnV~GLTr~hVKSHLQKYRl~ 199 (350)
-+++.|.+.||+ +...|+.++++.+..
T Consensus 27 ~~~~~ia~~~~~---s~~~i~~~~~~~~~~ 53 (55)
T cd06171 27 LSYEEIAEILGI---SRSTVRQRLHRALKK 53 (55)
T ss_pred CCHHHHHHHHCc---CHHHHHHHHHHHHHH
Confidence 568999999886 788898888877653
No 22
>PLN03212 Transcription repressor MYB5; Provisional
Probab=28.77 E-value=1.1e+02 Score=29.86 Aligned_cols=41 Identities=17% Similarity=0.075 Sum_probs=33.8
Q ss_pred ccccChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHH
Q 018802 146 RMRWTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSH 192 (350)
Q Consensus 146 RlrWT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSH 192 (350)
+-.||.|.-+.-++++..+| ..+..|...| +|=|-.+||.+
T Consensus 78 kgpWT~EED~lLlel~~~~G----nKWs~IAk~L--pGRTDnqIKNR 118 (249)
T PLN03212 78 RGGITSDEEDLILRLHRLLG----NRWSLIAGRI--PGRTDNEIKNY 118 (249)
T ss_pred cCCCChHHHHHHHHHHHhcc----ccHHHHHhhc--CCCCHHHHHHH
Confidence 45799999999999999999 3589999877 66688999844
No 23
>PF08127 Propeptide_C1: Peptidase family C1 propeptide; InterPro: IPR012599 This domain is found at the N-terminal of cathepsin B and cathepsin B-like peptidases that belong to MEROPS peptidase subfamily C1A. Cathepsin B are lysosomal cysteine proteinases belonging to the papain superfamily and are unique in their ability to act as both an endo- and an exopeptidases. They are synthesized as inactive zymogens. Activation of the peptidases occurs with the removal of the propeptide [, ]. ; GO: 0004197 cysteine-type endopeptidase activity, 0050790 regulation of catalytic activity; PDB: 1MIR_A 1PBH_A 2PBH_A 3PBH_A.
Probab=27.56 E-value=39 Score=24.39 Aligned_cols=36 Identities=17% Similarity=0.209 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhh
Q 018802 153 LHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQM 195 (350)
Q Consensus 153 LH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQK 195 (350)
|-+.||+-|+...-.++| -.|.++.|.++|+..|--
T Consensus 1 Lsde~I~~IN~~~~tWkA-------G~NF~~~~~~~ik~LlGv 36 (41)
T PF08127_consen 1 LSDEFIDYINSKNTTWKA-------GRNFENTSIEYIKRLLGV 36 (41)
T ss_dssp S-HHHHHHHHHCT-SEEE-----------SSB-HHHHHHCS-B
T ss_pred CCHHHHHHHHcCCCcccC-------CCCCCCCCHHHHHHHcCC
Confidence 457899999998644555 233577888888877643
No 24
>PF00690 Cation_ATPase_N: Cation transporter/ATPase, N-terminus; InterPro: IPR004014 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3KDP_C 3N2F_A 3B8E_A 3N23_A 2XZB_A 1MHS_B 3A3Y_A 2ZXE_A 3B8C_A 3B9B_A ....
Probab=24.41 E-value=81 Score=23.36 Aligned_cols=31 Identities=19% Similarity=0.277 Sum_probs=25.2
Q ss_pred ChHHHHhhcC---CCCCCHHHHHHHhhhhhcccc
Q 018802 171 TPKSVLELMN---VKDLTLAHVKSHLQMYRTVKS 201 (350)
Q Consensus 171 tPKkILelMn---V~GLTr~hVKSHLQKYRl~k~ 201 (350)
....|++.++ ..|||.++|+..+++|=....
T Consensus 5 ~~~~v~~~l~t~~~~GLs~~ev~~r~~~~G~N~l 38 (69)
T PF00690_consen 5 SVEEVLKRLNTSSSQGLSSEEVEERRKKYGPNEL 38 (69)
T ss_dssp SHHHHHHHHTTBTSSBBTHHHHHHHHHHHSSSST
T ss_pred CHHHHHHHHCcCCCCCCCHHHHHHHHHhcccccc
Confidence 3567888887 479999999999999976554
No 25
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=23.20 E-value=82 Score=31.49 Aligned_cols=57 Identities=28% Similarity=0.286 Sum_probs=39.0
Q ss_pred ccCCCCCccccCh----HHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhhhccccc
Q 018802 139 KRSVRAPRMRWTT----TLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMYRTVKST 202 (350)
Q Consensus 139 ~~s~kKpRlrWT~----ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKYRl~k~~ 202 (350)
++..||+|+-.+. ||-+||-..--.-+ .|+. .| .+.+ .||-.|||+-.|..|=+.++
T Consensus 150 ~~~kRKrRVLFSqAQV~ELERRFrqQRYLSA-PERE----~L-A~~L-rLT~TQVKIWFQNrRYK~KR 210 (307)
T KOG0842|consen 150 KRKKRKRRVLFSQAQVYELERRFRQQRYLSA-PERE----HL-ASSL-RLTPTQVKIWFQNRRYKTKR 210 (307)
T ss_pred cccccccccccchhHHHHHHHHHHhhhcccc-HhHH----HH-HHhc-CCCchheeeeeecchhhhhh
Confidence 5677899999986 89999976543333 3322 11 2222 48999999999988865544
No 26
>smart00351 PAX Paired Box domain.
Probab=22.03 E-value=2.1e+02 Score=24.05 Aligned_cols=43 Identities=19% Similarity=0.217 Sum_probs=35.7
Q ss_pred cChHHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhhhcc
Q 018802 149 WTTTLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMYRTV 199 (350)
Q Consensus 149 WT~ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKYRl~ 199 (350)
++.|+-++||.++. +| .+.+.|.+.++| ++.-|..-+++|+..
T Consensus 18 ~s~~~R~riv~~~~--~G---~s~~~iA~~~gv---s~~tV~kwi~r~~~~ 60 (125)
T smart00351 18 LPDEERQRIVELAQ--NG---VRPCDISRQLCV---SHGCVSKILGRYYET 60 (125)
T ss_pred CCHHHHHHHHHHHH--cC---CCHHHHHHHHCc---CHHHHHHHHHHHHHc
Confidence 88899999999986 44 467889888888 688888889999863
No 27
>cd08783 Death_MALT1 Death domain similar to that found in Mucosa-associated lymphoid tissue-lymphoma-translocation gene 1. Death domain (DD) similar to that found in Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1). Malt1, together with Bcl10 (B-cell lymphoma 10), are the integral components of the CBM signalosome. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells) and with CARMA1 to form L-CBM (CBM complex in lymphoid immune cells), to mediate activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. 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
Probab=20.03 E-value=1.6e+02 Score=25.43 Aligned_cols=48 Identities=21% Similarity=0.352 Sum_probs=40.0
Q ss_pred CccccCh-HHHHHHHHHHHHhCCCCCCChHHHHhhcCCCCCCHHHHHHHhhhh
Q 018802 145 PRMRWTT-TLHAHFVHAVQLLGGHERATPKSVLELMNVKDLTLAHVKSHLQMY 196 (350)
Q Consensus 145 pRlrWT~-ELH~rFVeAVeqLGG~dkAtPKkILelMnV~GLTr~hVKSHLQKY 196 (350)
+|||-++ ||+++-+..++.-| .--|..|+.|++.|-|..++-.-||+-
T Consensus 36 ~~fr~S~~el~~cslkvl~p~g----SPsk~LL~~~~~rg~Tv~~Ll~~L~~M 84 (97)
T cd08783 36 GRFRLSCLDLEQCSLKVLEPEG----SPSRSLLKLLGERGCTVTELSEFLQAM 84 (97)
T ss_pred CccccCHHHHHHHHHHHhcCCC----CchHHHHHHHHHcCCcHHHHHHHHHHh
Confidence 4888888 88888888888766 335788999999999999999888863
Done!