Query 044532
Match_columns 147
No_of_seqs 115 out of 1173
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 04:09:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044532.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044532hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00265 MADS_MEF2_like MEF2 (m 100.0 1.5E-33 3.2E-38 186.6 -0.1 70 8-77 1-70 (77)
2 KOG0014 MADS box transcription 100.0 3.4E-32 7.5E-37 206.8 1.3 71 7-77 1-73 (195)
3 smart00432 MADS MADS domain. 100.0 2.4E-30 5.1E-35 162.7 3.8 59 8-66 1-59 (59)
4 cd00266 MADS_SRF_like SRF-like 100.0 1.3E-30 2.9E-35 174.7 0.7 69 8-76 1-70 (83)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 1.8E-29 3.9E-34 158.8 3.2 59 8-66 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 2.8E-27 6.2E-32 144.4 -2.4 51 15-65 1-51 (51)
7 KOG0015 Regulator of arginine 99.9 1.3E-22 2.7E-27 161.4 3.6 74 2-75 57-130 (338)
8 COG5068 ARG80 Regulator of arg 99.5 8E-15 1.7E-19 121.3 3.2 70 6-75 80-149 (412)
9 PF01486 K-box: K-box region; 97.9 4.3E-05 9.3E-10 52.5 5.9 56 79-134 17-76 (100)
10 PF06698 DUF1192: Protein of u 78.9 7.9 0.00017 24.1 4.9 38 95-132 12-49 (59)
11 PF10491 Nrf1_DNA-bind: NLS-bi 76.0 0.99 2.1E-05 35.1 0.3 79 38-116 45-141 (214)
12 PF07106 TBPIP: Tat binding pr 66.8 8.1 0.00018 28.5 3.5 55 80-134 85-139 (169)
13 PF10584 Proteasome_A_N: Prote 62.2 2.9 6.2E-05 21.2 0.2 11 51-61 5-15 (23)
14 PLN03230 acetyl-coenzyme A car 52.7 33 0.00072 29.6 5.1 69 60-129 39-127 (431)
15 PF09151 DUF1936: Domain of un 49.6 12 0.00027 20.3 1.4 28 40-67 2-31 (36)
16 COG0139 HisI Phosphoribosyl-AM 46.6 14 0.0003 25.9 1.7 38 22-59 49-95 (111)
17 PF01502 PRA-CH: Phosphoribosy 45.7 16 0.00034 23.9 1.7 38 23-60 18-64 (75)
18 PF09278 MerR-DNA-bind: MerR, 45.3 67 0.0015 19.3 4.6 23 110-132 35-57 (65)
19 KOG3048 Molecular chaperone Pr 44.5 66 0.0014 23.8 4.9 34 99-132 8-41 (153)
20 PLN03229 acetyl-coenzyme A car 42.0 54 0.0012 30.4 5.0 78 49-127 50-146 (762)
21 PF07960 CBP4: CBP4; InterPro 39.9 15 0.00032 26.5 0.9 33 49-83 16-48 (128)
22 PF11800 RP-C_C: Replication p 39.8 88 0.0019 23.8 5.4 44 103-146 20-64 (207)
23 PF09941 DUF2173: Uncharacteri 39.2 20 0.00043 25.1 1.5 25 38-63 3-27 (108)
24 PF10083 DUF2321: Uncharacteri 36.0 34 0.00074 25.5 2.4 23 100-122 94-116 (158)
25 PF13252 DUF4043: Protein of u 35.1 22 0.00048 29.7 1.4 29 37-65 270-298 (341)
26 KOG4252 GTP-binding protein [S 33.7 26 0.00056 27.2 1.5 15 45-59 91-105 (246)
27 PF04873 EIN3: Ethylene insens 32.4 15 0.00032 30.9 0.0 42 28-69 50-92 (354)
28 TIGR01916 F420_cofE F420-0:gam 31.0 45 0.00097 26.6 2.5 29 39-67 133-161 (243)
29 COG4917 EutP Ethanolamine util 29.4 40 0.00087 24.6 1.8 77 41-117 59-145 (148)
30 KOG3838 Mannose lectin ERGIC-5 28.5 3E+02 0.0066 23.9 7.0 34 101-134 313-349 (497)
31 PF06937 EURL: EURL protein; 26.5 97 0.0021 25.2 3.7 36 99-134 214-249 (285)
32 PF10210 MRP-S32: Mitochondria 25.7 64 0.0014 22.0 2.2 17 50-66 14-31 (96)
33 cd01365 KISc_KIF1A_KIF1B Kines 25.6 47 0.001 27.4 1.9 36 42-77 83-121 (356)
34 PRK00295 hypothetical protein; 25.1 1.8E+02 0.004 18.2 5.1 32 114-145 36-67 (68)
35 COG4831 Roadblock/LC7 domain [ 24.7 52 0.0011 22.6 1.6 29 36-65 3-31 (109)
36 PF14263 DUF4354: Domain of un 24.3 29 0.00064 24.8 0.3 40 17-61 41-80 (124)
37 PF11944 DUF3461: Protein of u 23.8 1.1E+02 0.0025 21.8 3.2 25 106-130 101-125 (125)
38 PF11629 Mst1_SARAH: C termina 23.8 99 0.0021 18.5 2.5 21 101-121 5-25 (49)
39 KOG0184 20S proteasome, regula 23.6 43 0.00093 26.6 1.1 20 42-61 3-22 (254)
40 PRK00064 recF recombination pr 23.2 1.5E+02 0.0033 24.5 4.4 78 51-128 114-199 (361)
41 TIGR01478 STEVOR variant surfa 22.9 59 0.0013 26.6 1.8 46 12-77 24-69 (295)
42 cd00468 HIT_like HIT family: H 22.7 1.6E+02 0.0034 18.3 3.6 26 99-124 30-55 (86)
43 PF06020 Roughex: Drosophila r 22.4 43 0.00093 27.6 1.0 16 42-57 183-198 (334)
44 cd00106 KISc Kinesin motor dom 21.1 63 0.0014 26.1 1.7 36 42-77 73-111 (328)
45 TIGR02420 dksA RNA polymerase- 21.1 2.5E+02 0.0055 19.1 4.6 29 104-132 1-29 (110)
46 cd01366 KISc_C_terminal Kinesi 21.0 71 0.0015 25.9 2.0 40 42-81 72-114 (329)
47 PF00383 dCMP_cyt_deam_1: Cyti 20.7 59 0.0013 21.3 1.3 31 34-64 7-41 (102)
48 PRK00736 hypothetical protein; 20.6 2.3E+02 0.005 17.7 4.9 31 115-145 37-67 (68)
49 PF04120 Iron_permease: Low af 20.5 1.7E+02 0.0038 21.0 3.7 29 99-127 90-118 (132)
50 PF14009 DUF4228: Domain of un 20.3 36 0.00079 24.4 0.2 31 45-75 12-43 (181)
51 PRK09458 pspB phage shock prot 20.3 2.6E+02 0.0057 18.2 4.7 30 101-131 33-62 (75)
52 PRK09555 feoA ferrous iron tra 20.2 1.1E+02 0.0023 19.6 2.3 32 32-63 20-51 (74)
No 1
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.97 E-value=1.5e-33 Score=186.56 Aligned_cols=70 Identities=49% Similarity=0.797 Sum_probs=68.4
Q ss_pred CcccceeEEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCCCCCCCCcccCCC
Q 044532 8 GRQKIQMKRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGHPSIEAPVNDNTH 77 (147)
Q Consensus 8 gR~Ki~ik~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~psv~~vi~ry~~ 77 (147)
||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||+|||||+|++|+|++|++++|++||.+
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~ 70 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQK 70 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHh
Confidence 8999999999999999999999999999999999999999999999999999999999999999999963
No 2
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=99.97 E-value=3.4e-32 Score=206.79 Aligned_cols=71 Identities=54% Similarity=0.837 Sum_probs=68.7
Q ss_pred CCcccceeEEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCCCC--CCCCcccCCC
Q 044532 7 KGRQKIQMKRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGHPS--IEAPVNDNTH 77 (147)
Q Consensus 7 mgR~Ki~ik~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~ps--v~~vi~ry~~ 77 (147)
|||+||+|++|+|++.|+|||+|||.||||||+||||||||+||+|||||+|++|+|++|+ +++|+++|..
T Consensus 1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~ 73 (195)
T KOG0014|consen 1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLN 73 (195)
T ss_pred CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHh
Confidence 8999999999999999999999999999999999999999999999999999999999887 9999999963
No 3
>smart00432 MADS MADS domain.
Probab=99.96 E-value=2.4e-30 Score=162.73 Aligned_cols=59 Identities=54% Similarity=0.944 Sum_probs=57.7
Q ss_pred CcccceeEEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCCC
Q 044532 8 GRQKIQMKRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGHP 66 (147)
Q Consensus 8 gR~Ki~ik~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~p 66 (147)
||+||+|++|+|+.+|++||+||+.||+|||+|||+||||+||+|||||+|+++.|++|
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p 59 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence 89999999999999999999999999999999999999999999999999999999876
No 4
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.96 E-value=1.3e-30 Score=174.70 Aligned_cols=69 Identities=52% Similarity=0.823 Sum_probs=66.1
Q ss_pred CcccceeEEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCCCC-CCCCcccCC
Q 044532 8 GRQKIQMKRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGHPS-IEAPVNDNT 76 (147)
Q Consensus 8 gR~Ki~ik~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~ps-v~~vi~ry~ 76 (147)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|+.+.|++++ +++++++|.
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~ 70 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFE 70 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHh
Confidence 799999999999999999999999999999999999999999999999999999987766 899999995
No 5
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.95 E-value=1.8e-29 Score=158.80 Aligned_cols=59 Identities=56% Similarity=0.883 Sum_probs=57.0
Q ss_pred CcccceeEEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCCC
Q 044532 8 GRQKIQMKRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGHP 66 (147)
Q Consensus 8 gR~Ki~ik~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~p 66 (147)
||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||+|||||+|+++.|++|
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~ 59 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence 79999999999999999999999999999999999999999999999999999988764
No 6
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=99.92 E-value=2.8e-27 Score=144.42 Aligned_cols=51 Identities=55% Similarity=0.900 Sum_probs=46.1
Q ss_pred EEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCC
Q 044532 15 KRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGH 65 (147)
Q Consensus 15 k~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~ 65 (147)
|+|+|++.|++||+||+.||||||.|||+||||+||+|||||+|++|+|++
T Consensus 1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f~s 51 (51)
T PF00319_consen 1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTFPS 51 (51)
T ss_dssp S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEEES
T ss_pred CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEecC
Confidence 579999999999999999999999999999999999999999999998864
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.86 E-value=1.3e-22 Score=161.39 Aligned_cols=74 Identities=47% Similarity=0.751 Sum_probs=70.8
Q ss_pred CcccCCCcccceeEEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCCCCCCCCcccC
Q 044532 2 AAKKTKGRQKIQMKRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGHPSIEAPVNDN 75 (147)
Q Consensus 2 ~~k~~mgR~Ki~ik~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~psv~~vi~ry 75 (147)
.+|++.||+||+|++|+|+..|.+||||||.||||||+|||||+|.+|-|+|.|.+|-+|+|+.|.++.||..-
T Consensus 57 ~~k~~~gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s~ 130 (338)
T KOG0015|consen 57 GGKKTTGRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITSD 130 (338)
T ss_pred CCccccceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccch
Confidence 36889999999999999999999999999999999999999999999999999999999999999999999654
No 8
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.50 E-value=8e-15 Score=121.35 Aligned_cols=70 Identities=41% Similarity=0.593 Sum_probs=66.1
Q ss_pred CCCcccceeEEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCCCCCCCCcccC
Q 044532 6 TKGRQKIQMKRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGHPSIEAPVNDN 75 (147)
Q Consensus 6 ~mgR~Ki~ik~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~psv~~vi~ry 75 (147)
+|||+||.|.+|+|+.+|.+||+||+.||+|||.||++|.|.+|.++|.|.+|.++.|+.|..+.|+.--
T Consensus 80 ~~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~~~~ 149 (412)
T COG5068 80 SVTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVVKSL 149 (412)
T ss_pred ccccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCccccccccc
Confidence 5899999999999999999999999999999999999999999999999999999999999887777544
No 9
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=97.87 E-value=4.3e-05 Score=52.51 Aligned_cols=56 Identities=16% Similarity=0.242 Sum_probs=46.6
Q ss_pred hHHHHHHHHHHHH----hCCCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 044532 79 LVEAHRQMRRGKE----TQPRWWETPVNELNHQELLQMDATIDNLHKTFLARLNEKTAAA 134 (147)
Q Consensus 79 l~~~~~kL~~e~~----~~~~~~~~~l~~l~~~eL~~l~~~Le~~l~~v~~r~~~l~~~~ 134 (147)
+..++.+|+.+++ ..+++.|++|++|+++||..|+..|+..+..|+.|+.++..+.
T Consensus 17 ~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~ 76 (100)
T PF01486_consen 17 LQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQ 76 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Confidence 4445566666655 5678889999999999999999999999999999999887554
No 10
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=78.90 E-value=7.9 Score=24.13 Aligned_cols=38 Identities=18% Similarity=0.098 Sum_probs=31.6
Q ss_pred CccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044532 95 RWWETPVNELNHQELLQMDATIDNLHKTFLARLNEKTA 132 (147)
Q Consensus 95 ~~~~~~l~~l~~~eL~~l~~~Le~~l~~v~~r~~~l~~ 132 (147)
+..+.+|+.||++||.+-...|+.-+..++.-+.....
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~~K~a 49 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLEAAIAKKSA 49 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34578899999999999999999988888877766543
No 11
>PF10491 Nrf1_DNA-bind: NLS-binding and DNA-binding and dimerisation domains of Nrf1; InterPro: IPR019525 Nuclear respiratory factor-1 is a transcriptional activator that has been implicated in the nuclear control of respiratory chain expression in vertebrates. The first 26 amino acids of nuclear respiratory factor-1 are required for the binding of dynein light chain. The interaction with dynein light chain is observed for both ewg and Nrf-1, transcription factors that are structurally and functionally similar between humans and Drosophila []. In Drosophila, the erect wing (ewg) protein is required for proper development of the central nervous system and the indirect flight muscles. The fly ewg gene encodes a novel DNA-binding domain that is also found in four genes previously identified in sea urchin, chicken, zebrafish, and human []. The highest level of expression of both ewg and Nrf-1 was found in the central nervous system, somites, first branchial arch, optic vesicle, and otic vesicle. In the mouse Nrf-1 protein, Q8C4C0 from SWISSPROT, there is also an NLS domain at 88-116, and a DNA binding and dimerisation domain at 127-282. Ewg is a site-specific transcriptional activator, and evolutionarily conserved regions of ewg contribute both positively and negatively to transcriptional activity [].
Probab=76.03 E-value=0.99 Score=35.06 Aligned_cols=79 Identities=18% Similarity=0.259 Sum_probs=49.4
Q ss_pred hhhhhhcccccEeEEEeeCCCC--C-cccCCCCCCCCcccCCCchHHHH-HHHHHHHH----------hCCCcc--C--C
Q 044532 38 ASELVTLTGSEIAILVFSQSGK--P-FSFGHPSIEAPVNDNTHPLVEAH-RQMRRGKE----------TQPRWW--E--T 99 (147)
Q Consensus 38 a~ELs~LC~~~v~~iv~sp~gk--~-~~~~~psv~~vi~ry~~~l~~~~-~kL~~e~~----------~~~~~~--~--~ 99 (147)
..|++|-+|-+|+++|++|+-. . ..||...++.|+..|...+.+.. +.|..+.- ++..+. | .
T Consensus 45 ~de~~trvGqqavvl~~~p~kp~~~f~vfGa~pL~~vv~~~~~~I~~~le~~laqqaPp~~~~~~~~~~LP~L~~dGiPt 124 (214)
T PF10491_consen 45 IDEYTTRVGQQAVVLCCTPSKPNPVFKVFGAAPLENVVRNLKPVIMEDLENALAQQAPPQEENSPMLSNLPPLFIDGIPT 124 (214)
T ss_pred HHHHHHhhhceeEEEEecCCCCCCceeeecchhHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCcccccCchHHhcCCCC
Confidence 4789999999999999999632 2 25677778889988876444433 33322211 111111 2 2
Q ss_pred CCCCCCHHHHHHHHHHH
Q 044532 100 PVNELNHQELLQMDATI 116 (147)
Q Consensus 100 ~l~~l~~~eL~~l~~~L 116 (147)
+++-++..+|+.|.-.+
T Consensus 125 svekmTqaQLr~FIP~m 141 (214)
T PF10491_consen 125 SVEKMTQAQLRAFIPFM 141 (214)
T ss_pred cHHHhhHHHHHHHHHHH
Confidence 45777888888776544
No 12
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=66.82 E-value=8.1 Score=28.52 Aligned_cols=55 Identities=9% Similarity=0.108 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHhCCCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 044532 80 VEAHRQMRRGKETQPRWWETPVNELNHQELLQMDATIDNLHKTFLARLNEKTAAA 134 (147)
Q Consensus 80 ~~~~~kL~~e~~~~~~~~~~~l~~l~~~eL~~l~~~Le~~l~~v~~r~~~l~~~~ 134 (147)
.+++..|+.+......-+..-...++.+||......|..-...+.+|+..|....
T Consensus 85 ~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~ 139 (169)
T PF07106_consen 85 REELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSGS 139 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 3333444444332222233334567899999999999999999999999998743
No 13
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=62.21 E-value=2.9 Score=21.15 Aligned_cols=11 Identities=45% Similarity=0.794 Sum_probs=9.0
Q ss_pred EEEeeCCCCCc
Q 044532 51 ILVFSQSGKPF 61 (147)
Q Consensus 51 ~iv~sp~gk~~ 61 (147)
+.+|||+|+++
T Consensus 5 ~t~FSp~Grl~ 15 (23)
T PF10584_consen 5 ITTFSPDGRLF 15 (23)
T ss_dssp TTSBBTTSSBH
T ss_pred ceeECCCCeEE
Confidence 45899999976
No 14
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=52.65 E-value=33 Score=29.61 Aligned_cols=69 Identities=9% Similarity=0.221 Sum_probs=40.0
Q ss_pred CcccCCCC------CC----CCcccCCC----------chHHHHHHHHHHHHhCCCccCCCCCCCCHHHHHHHHHHHHHH
Q 044532 60 PFSFGHPS------IE----APVNDNTH----------PLVEAHRQMRRGKETQPRWWETPVNELNHQELLQMDATIDNL 119 (147)
Q Consensus 60 ~~~~~~ps------v~----~vi~ry~~----------~l~~~~~kL~~e~~~~~~~~~~~l~~l~~~eL~~l~~~Le~~ 119 (147)
.++|+||. +. ..+.+|+. .+.+....|+..+++.+..-...--++ .+|+..|+..++..
T Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~fe~pi~ele~ki~el~~~~~~~~~~~-~~ei~~l~~~~~~~ 117 (431)
T PLN03230 39 EHEYPWPEKLPQGELTTGALKILNRFKPLKNKPKPVTLPFEKPIVDLENRIDEVRELANKTGVDF-SAQIAELEERYDQV 117 (431)
T ss_pred CCCCCCcccCCCCcccccHHHHHHhcCCCCCCCCCCccchhhHHHHHHHHHHHHHhhhhcccccH-HHHHHHHHHHHHHH
Confidence 47778875 23 36677752 234445666666554433322221223 37788888888888
Q ss_pred HHHHHHHHHH
Q 044532 120 HKTFLARLNE 129 (147)
Q Consensus 120 l~~v~~r~~~ 129 (147)
.+.+-..+.-
T Consensus 118 ~~~i~~~Lt~ 127 (431)
T PLN03230 118 RRELYSRLTP 127 (431)
T ss_pred HHHHHhcCCH
Confidence 8877665543
No 15
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=49.64 E-value=12 Score=20.31 Aligned_cols=28 Identities=25% Similarity=0.406 Sum_probs=17.8
Q ss_pred hhhhcccccEeEEEeeCCCCCccc--CCCC
Q 044532 40 ELVTLTGSEIAILVFSQSGKPFSF--GHPS 67 (147)
Q Consensus 40 ELs~LC~~~v~~iv~sp~gk~~~~--~~ps 67 (147)
.|+--||+-|-+-||...|..-.| +.|.
T Consensus 2 hlcpkcgvgvl~pvy~~kgeikvfrcsnpa 31 (36)
T PF09151_consen 2 HLCPKCGVGVLEPVYNQKGEIKVFRCSNPA 31 (36)
T ss_dssp -B-TTTSSSBEEEEE-TTS-EEEEEES-TT
T ss_pred ccCCccCceEEEEeecCCCcEEEEEcCCCc
Confidence 367789999999999999964433 4453
No 16
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=46.60 E-value=14 Score=25.94 Aligned_cols=38 Identities=21% Similarity=0.352 Sum_probs=27.9
Q ss_pred Ccceeccccccchhh---------hhhhhhhcccccEeEEEeeCCCC
Q 044532 22 GRLITFSKRRSGIYK---------KASELVTLTGSEIAILVFSQSGK 59 (147)
Q Consensus 22 ~R~~Tf~KRk~GL~K---------Ka~ELs~LC~~~v~~iv~sp~gk 59 (147)
.+..-||+=|+-|.+ |+-|+.+-||.++-+++..|.|.
T Consensus 49 g~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~gg 95 (111)
T COG0139 49 GEAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIGG 95 (111)
T ss_pred CeEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCCC
Confidence 334445666664555 56789999999999999999664
No 17
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=45.73 E-value=16 Score=23.89 Aligned_cols=38 Identities=18% Similarity=0.339 Sum_probs=27.9
Q ss_pred cceeccccccchhhh---------hhhhhhcccccEeEEEeeCCCCC
Q 044532 23 RLITFSKRRSGIYKK---------ASELVTLTGSEIAILVFSQSGKP 60 (147)
Q Consensus 23 R~~Tf~KRk~GL~KK---------a~ELs~LC~~~v~~iv~sp~gk~ 60 (147)
+..-||+-|++|..| +.|+.+-||.++-++..-|.|..
T Consensus 18 ~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~a 64 (75)
T PF01502_consen 18 RATYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGPA 64 (75)
T ss_dssp B-EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-S
T ss_pred cEEEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCCC
Confidence 344558878777666 46799999999999999998873
No 18
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=45.32 E-value=67 Score=19.28 Aligned_cols=23 Identities=13% Similarity=0.124 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 044532 110 LQMDATIDNLHKTFLARLNEKTA 132 (147)
Q Consensus 110 ~~l~~~Le~~l~~v~~r~~~l~~ 132 (147)
......+...+..|+++++.|..
T Consensus 35 ~~~~~~l~~~~~~i~~~i~~L~~ 57 (65)
T PF09278_consen 35 ADRRALLEEKLEEIEEQIAELQA 57 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34446788888888888887753
No 19
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=44.47 E-value=66 Score=23.76 Aligned_cols=34 Identities=15% Similarity=0.173 Sum_probs=29.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044532 99 TPVNELNHQELLQMDATIDNLHKTFLARLNEKTA 132 (147)
Q Consensus 99 ~~l~~l~~~eL~~l~~~Le~~l~~v~~r~~~l~~ 132 (147)
-++..||+++|.++...+|.-+.-+..-++.|..
T Consensus 8 idltkLsleQL~~lk~q~dqEl~~lq~Sl~~L~~ 41 (153)
T KOG3048|consen 8 IDLTKLSLEQLGALKKQFDQELNFLQDSLNALKG 41 (153)
T ss_pred CChhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788999999999999999999888888877764
No 20
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=42.01 E-value=54 Score=30.35 Aligned_cols=78 Identities=8% Similarity=0.179 Sum_probs=42.4
Q ss_pred EeEEEeeCCCCCcccCCCC-----C----CCCcccCCC----------chHHHHHHHHHHHHhCCCccCCCCCCCCHHHH
Q 044532 49 IAILVFSQSGKPFSFGHPS-----I----EAPVNDNTH----------PLVEAHRQMRRGKETQPRWWETPVNELNHQEL 109 (147)
Q Consensus 49 v~~iv~sp~gk~~~~~~ps-----v----~~vi~ry~~----------~l~~~~~kL~~e~~~~~~~~~~~l~~l~~~eL 109 (147)
+.|+.--..|+-++|+||. + -..+.+|+. .+.+....|+..+...+..-...--++ .+|+
T Consensus 50 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ldfEkpi~ele~ki~el~~~~~~~~~~~-~~ei 128 (762)
T PLN03229 50 LAVVAKIRKGKKHEYPWPADPDPNVKGGVLSYLSHFKPLKEKPKPVTLDFEKPLVDLEKKIVDVRKMANETGLDF-SDQI 128 (762)
T ss_pred eEEEeeeccccccCCCCCCCCCCCcccchhhHhhccCCCCCCCCCCCcchhhHHHHHHHHHHHHHhhhhcccccH-HHHH
Confidence 3444444557778888875 2 233445542 233445556555554333222211222 3778
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 044532 110 LQMDATIDNLHKTFLARL 127 (147)
Q Consensus 110 ~~l~~~Le~~l~~v~~r~ 127 (147)
..|+..++.....+-.++
T Consensus 129 ~~Le~k~~~~~~~iy~~L 146 (762)
T PLN03229 129 ISLESKYQQALKDLYTHL 146 (762)
T ss_pred HHHHHHHHHHHHHHHccC
Confidence 889888888877764443
No 21
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=39.91 E-value=15 Score=26.51 Aligned_cols=33 Identities=12% Similarity=0.065 Sum_probs=24.0
Q ss_pred EeEEEeeCCCCCcccCCCCCCCCcccCCCchHHHH
Q 044532 49 IAILVFSQSGKPFSFGHPSIEAPVNDNTHPLVEAH 83 (147)
Q Consensus 49 v~~iv~sp~gk~~~~~~psv~~vi~ry~~~l~~~~ 83 (147)
+|+|+.+| -++.|..|+-+.++.+|..+|...+
T Consensus 16 ~~ii~~G~--~l~~y~tPTeEeL~~r~sPELrkr~ 48 (128)
T PF07960_consen 16 AVIIGGGP--ALVKYTTPTEEELFKRYSPELRKRY 48 (128)
T ss_pred ceeEeech--HHheecCCCHHHHHHhcCHHHHHHH
Confidence 45555555 4677889999999999987665443
No 22
>PF11800 RP-C_C: Replication protein C C-terminal region; InterPro: IPR021760 Replication protein C is involved in the early stages of viral DNA replication.
Probab=39.81 E-value=88 Score=23.82 Aligned_cols=44 Identities=11% Similarity=0.056 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-cCCCCCCCCCCC
Q 044532 103 ELNHQELLQMDATIDNLHKTFLARLNEKTAAA-SSSMAPPMYFHH 146 (147)
Q Consensus 103 ~l~~~eL~~l~~~Le~~l~~v~~r~~~l~~~~-~ss~~~~~~~~h 146 (147)
..+.++|..+...|+.++..|....+...... .+.+..++..||
T Consensus 20 ~~~~~~L~~l~~~L~~l~~~v~~~le~~~~t~~~s~~~~qnerhi 64 (207)
T PF11800_consen 20 KASLADLEALLDELEALLEEVENALESQEKTEEMSGNDSQNERHI 64 (207)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCccccccccc
Confidence 46899999999999999999999988765433 344555555554
No 23
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=39.24 E-value=20 Score=25.07 Aligned_cols=25 Identities=32% Similarity=0.438 Sum_probs=20.0
Q ss_pred hhhhhhcccccEeEEEeeCCCCCccc
Q 044532 38 ASELVTLTGSEIAILVFSQSGKPFSF 63 (147)
Q Consensus 38 a~ELs~LC~~~v~~iv~sp~gk~~~~ 63 (147)
..+|-.|-||-+| ..||++|++.+|
T Consensus 3 l~~Lm~lpGv~AA-g~Fs~~G~l~e~ 27 (108)
T PF09941_consen 3 LDKLMKLPGVVAA-GEFSDDGKLVEY 27 (108)
T ss_pred HHHhhcCCCeEEE-EEECCCCeEEee
Confidence 4678888888655 899999998765
No 24
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=35.96 E-value=34 Score=25.50 Aligned_cols=23 Identities=26% Similarity=0.320 Sum_probs=18.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHH
Q 044532 100 PVNELNHQELLQMDATIDNLHKT 122 (147)
Q Consensus 100 ~l~~l~~~eL~~l~~~Le~~l~~ 122 (147)
.+++|+.+|-++|...|++++..
T Consensus 94 e~eeLs~deke~~~~sl~dL~~d 116 (158)
T PF10083_consen 94 EDEELSPDEKEQFKESLPDLTKD 116 (158)
T ss_pred HhhcCCHHHHHHHHhhhHHHhhc
Confidence 46778888888888888887764
No 25
>PF13252 DUF4043: Protein of unknown function (DUF4043)
Probab=35.07 E-value=22 Score=29.68 Aligned_cols=29 Identities=24% Similarity=0.358 Sum_probs=21.0
Q ss_pred hhhhhhhcccccEeEEEeeCCCCCcccCC
Q 044532 37 KASELVTLTGSEIAILVFSQSGKPFSFGH 65 (147)
Q Consensus 37 Ka~ELs~LC~~~v~~iv~sp~gk~~~~~~ 65 (147)
.+-.-++|||++++++.|+..+..-.|.|
T Consensus 270 ~~v~ralLlGaQA~~~A~G~~~~~~~~~w 298 (341)
T PF13252_consen 270 VAVARALLLGAQALVIAFGKSGSGMRFFW 298 (341)
T ss_pred cceeeeeeechhheeeeeeccCCCccccc
Confidence 34557899999999999998544333444
No 26
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=33.68 E-value=26 Score=27.20 Aligned_cols=15 Identities=33% Similarity=0.744 Sum_probs=13.2
Q ss_pred ccccEeEEEeeCCCC
Q 044532 45 TGSEIAILVFSQSGK 59 (147)
Q Consensus 45 C~~~v~~iv~sp~gk 59 (147)
-||++|++|||.++.
T Consensus 91 rgaqa~vLVFSTTDr 105 (246)
T KOG4252|consen 91 RGAQASVLVFSTTDR 105 (246)
T ss_pred ccccceEEEEecccH
Confidence 489999999999875
No 27
>PF04873 EIN3: Ethylene insensitive 3; InterPro: IPR006957 Ethylene insensitive 3 (EIN3) proteins are a family of plant DNA-binding proteins that regulate transcription in response to the gaseous plant hormone ethylene, and are essential for ethylene-mediated responses. In the presence of ethylene, dark-grown dicotyledonous seedlings undergo dramatic morphological changes collectively known as the 'triple response'. In Arabidopsis, these changes consist of a radial swelling of the hypocotyl, an exaggeration in the curvature of the apical hook, and the inhibition of cell elongation in the hypocotyl and root.; GO: 0005634 nucleus; PDB: 1WIJ_A.
Probab=32.39 E-value=15 Score=30.89 Aligned_cols=42 Identities=29% Similarity=0.342 Sum_probs=0.0
Q ss_pred cccccchhhhhhhhhhcccccEeE-EEeeCCCCCcccCCCCCC
Q 044532 28 SKRRSGIYKKASELVTLTGSEIAI-LVFSQSGKPFSFGHPSIE 69 (147)
Q Consensus 28 ~KRk~GL~KKa~ELs~LC~~~v~~-iv~sp~gk~~~~~~psv~ 69 (147)
+.=..||+|=+.=..-+|+|..++ =+.+..|++.+|++||+.
T Consensus 50 s~aqd~ilkym~~~m~~~n~~gfvy~~~~~~~k~~~~~s~slr 92 (354)
T PF04873_consen 50 SRAQDGILKYMFPEMELCNAPGFVYTIISSSGKPVEGVSPSLR 92 (354)
T ss_dssp -------------------------------------------
T ss_pred hhhhhHHHHhhccccccccCceeeecCCCCCCCccCCcCCccc
Confidence 333456666667778899999998 677778999999999875
No 28
>TIGR01916 F420_cofE F420-0:gamma-glutamyl ligase. This model represents an enzyme of coenzyme F(420) biosynthesis, as catalyzed by MJ0768 of Methanococcus jannaschii and by the N-terminal half of FbiB of Mycobacterium bovis strain BCG. Note that only two glutamates are ligated in M. jannaschii, but five to six in the Mycobacterium lineage. In M. jannaschii, CofE catalyzes the GTP-dependent addition of two L-glutamates.
Probab=31.04 E-value=45 Score=26.62 Aligned_cols=29 Identities=28% Similarity=0.618 Sum_probs=23.6
Q ss_pred hhhhhcccccEeEEEeeCCCCCcccCCCC
Q 044532 39 SELVTLTGSEIAILVFSQSGKPFSFGHPS 67 (147)
Q Consensus 39 ~ELs~LC~~~v~~iv~sp~gk~~~~~~ps 67 (147)
.+|.-.+|++|+|||+.+.|.+|-.+.+.
T Consensus 133 ~~l~~~~g~~v~VIItDt~gr~~R~G~~g 161 (243)
T TIGR01916 133 RGLRELTGVDVGVIITDTNGRPFREGQVG 161 (243)
T ss_pred HHHHHHHCCCEEEEEECCCCCccccCCCC
Confidence 34667799999999999999988776654
No 29
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=29.38 E-value=40 Score=24.63 Aligned_cols=77 Identities=17% Similarity=0.241 Sum_probs=39.7
Q ss_pred hhhcccccEeEEEeeCCCCCcccC----CCCCCCCcccCCC-chH--HHHHHHHHHHH--hCCCccC-CCCCCCCHHHHH
Q 044532 41 LVTLTGSEIAILVFSQSGKPFSFG----HPSIEAPVNDNTH-PLV--EAHRQMRRGKE--TQPRWWE-TPVNELNHQELL 110 (147)
Q Consensus 41 Ls~LC~~~v~~iv~sp~gk~~~~~----~psv~~vi~ry~~-~l~--~~~~kL~~e~~--~~~~~~~-~~l~~l~~~eL~ 110 (147)
+.++||++|-+++-+-+.+...|+ .+-++.+|.--.+ .|- +....-+.... .....+. ..+|.-++++|.
T Consensus 59 ~tt~~dadvi~~v~~and~~s~f~p~f~~~~~k~vIgvVTK~DLaed~dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~ 138 (148)
T COG4917 59 ITTLQDADVIIYVHAANDPESRFPPGFLDIGVKKVIGVVTKADLAEDADISLVKRWLREAGAEPIFETSAVDNQGVEELV 138 (148)
T ss_pred HHHhhccceeeeeecccCccccCCcccccccccceEEEEecccccchHhHHHHHHHHHHcCCcceEEEeccCcccHHHHH
Confidence 688999999999999887644442 2223333322211 122 12222222222 2223332 346667777777
Q ss_pred HHHHHHH
Q 044532 111 QMDATID 117 (147)
Q Consensus 111 ~l~~~Le 117 (147)
.+...++
T Consensus 139 ~~L~~~e 145 (148)
T COG4917 139 DYLASLE 145 (148)
T ss_pred HHHHhhc
Confidence 7766554
No 30
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.46 E-value=3e+02 Score=23.88 Aligned_cols=34 Identities=21% Similarity=0.231 Sum_probs=27.1
Q ss_pred CCCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHhcc
Q 044532 101 VNELNHQELLQMDAT---IDNLHKTFLARLNEKTAAA 134 (147)
Q Consensus 101 l~~l~~~eL~~l~~~---Le~~l~~v~~r~~~l~~~~ 134 (147)
-++++..||+++-+- |..-+..+..+..+++..+
T Consensus 313 yEs~~~Relrqi~egQn~i~~~l~ql~rql~~il~~Q 349 (497)
T KOG3838|consen 313 YESLGHRELRQILEGQNAIHKQLAQLERQLDKILGPQ 349 (497)
T ss_pred hhccchHHHHHHHhhhhHHHHHHHHHHHHHHHHhCcc
Confidence 467788999988665 8888888888888887655
No 31
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=26.52 E-value=97 Score=25.22 Aligned_cols=36 Identities=14% Similarity=0.257 Sum_probs=28.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 044532 99 TPVNELNHQELLQMDATIDNLHKTFLARLNEKTAAA 134 (147)
Q Consensus 99 ~~l~~l~~~eL~~l~~~Le~~l~~v~~r~~~l~~~~ 134 (147)
+.++.|+.+||.+|...|-..+..|-+-+..+..+.
T Consensus 214 EeL~~Mt~~EL~qL~~~L~~qIq~vfeeLt~~vQEK 249 (285)
T PF06937_consen 214 EELNSMTLDELKQLNEKLLQQIQDVFEELTQQVQEK 249 (285)
T ss_pred HHhhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999888888877776655444
No 32
>PF10210 MRP-S32: Mitochondrial 28S ribosomal protein S32; InterPro: IPR019346 This entry represents a family of short proteins; each approximately 100 amino acid residues in length. They are identified as the mitochondrial 28S ribosomal proteins S32.
Probab=25.69 E-value=64 Score=22.03 Aligned_cols=17 Identities=18% Similarity=0.571 Sum_probs=11.4
Q ss_pred eEEEeeCCCC-CcccCCC
Q 044532 50 AILVFSQSGK-PFSFGHP 66 (147)
Q Consensus 50 ~~iv~sp~gk-~~~~~~p 66 (147)
.+|||+|.-. ||+++-|
T Consensus 14 tIVcwHP~~~fPYEhTKP 31 (96)
T PF10210_consen 14 TIVCWHPEKDFPYEHTKP 31 (96)
T ss_pred EEEEeCCCCCCCcccccC
Confidence 4588999754 6666554
No 33
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=25.55 E-value=47 Score=27.40 Aligned_cols=36 Identities=14% Similarity=0.389 Sum_probs=25.9
Q ss_pred hhcccccEeEEEeeCCC--CCcc-cCCCCCCCCcccCCC
Q 044532 42 VTLTGSEIAILVFSQSG--KPFS-FGHPSIEAPVNDNTH 77 (147)
Q Consensus 42 s~LC~~~v~~iv~sp~g--k~~~-~~~psv~~vi~ry~~ 77 (147)
+++-|..+|+++|+++| |.|+ ||.+.-..|+-|+.+
T Consensus 83 ~~l~G~n~~i~ayGqtGSGKT~Tm~G~~~~~Gli~r~~~ 121 (356)
T cd01365 83 HAFEGYNVCLFAYGQTGSGKSYTMMGYKEEKGIIPRLCE 121 (356)
T ss_pred HHhCCCceEEEEecCCCCCCeEEecCCCCCCchHHHHHH
Confidence 36789999999999985 6663 355555666666643
No 34
>PRK00295 hypothetical protein; Provisional
Probab=25.08 E-value=1.8e+02 Score=18.22 Aligned_cols=32 Identities=13% Similarity=0.010 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHhcccCCCCCCCCCC
Q 044532 114 ATIDNLHKTFLARLNEKTAAASSSMAPPMYFH 145 (147)
Q Consensus 114 ~~Le~~l~~v~~r~~~l~~~~~ss~~~~~~~~ 145 (147)
..|...+..+..|+..+..+.........|+|
T Consensus 36 ~~L~~ql~~L~~rl~~~~~~~~~~~~e~~PPH 67 (68)
T PRK00295 36 ERLQLQMAALIKRQEEMVGQFGSFEEEAPPPH 67 (68)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCCCcCC
Confidence 34444555556666665532233344445665
No 35
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=24.72 E-value=52 Score=22.64 Aligned_cols=29 Identities=31% Similarity=0.401 Sum_probs=21.5
Q ss_pred hhhhhhhhcccccEeEEEeeCCCCCcccCC
Q 044532 36 KKASELVTLTGSEIAILVFSQSGKPFSFGH 65 (147)
Q Consensus 36 KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~ 65 (147)
.|..||--+-||-+| =.|||+|++.+|-.
T Consensus 3 ekLdeLlqi~Gv~AA-Gefs~DGkLv~Ykg 31 (109)
T COG4831 3 EKLDELLQIKGVMAA-GEFSPDGKLVEYKG 31 (109)
T ss_pred hhHHHHhCccceeEe-ceeCCCCceEEeeC
Confidence 356677777777555 78999999887744
No 36
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=24.28 E-value=29 Score=24.82 Aligned_cols=40 Identities=20% Similarity=0.302 Sum_probs=27.3
Q ss_pred ecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCc
Q 044532 17 IENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPF 61 (147)
Q Consensus 17 I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~ 61 (147)
|.++.....||.=.-..+..+.-+|+.+ |++.|+|+|+.+
T Consensus 41 v~~k~~ytktF~V~vaN~s~~~idLsk~-----Cf~a~~~~gk~f 80 (124)
T PF14263_consen 41 VGGKSFYTKTFDVTVANLSDKDIDLSKM-----CFKAYSPDGKEF 80 (124)
T ss_dssp ETTEEEEEEEEEEEEEE-SSS-EE-TT------EEEEEETTS-EE
T ss_pred ecCccceEEEEEEEEecCCCCccccccc-----hhhhccccCCEE
Confidence 4455666777777888888888888887 799999999854
No 37
>PF11944 DUF3461: Protein of unknown function (DUF3461); InterPro: IPR020911 This entry describes proteins of unknown function.
Probab=23.84 E-value=1.1e+02 Score=21.84 Aligned_cols=25 Identities=8% Similarity=0.169 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 044532 106 HQELLQMDATIDNLHKTFLARLNEK 130 (147)
Q Consensus 106 ~~eL~~l~~~Le~~l~~v~~r~~~l 130 (147)
++||+-|+..+...+..|++.++.|
T Consensus 101 L~dL~HLE~Vv~~KIaEIe~dlekL 125 (125)
T PF11944_consen 101 LDDLRHLEKVVNSKIAEIERDLEKL 125 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6889999999999999999888754
No 38
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=23.83 E-value=99 Score=18.51 Aligned_cols=21 Identities=29% Similarity=0.219 Sum_probs=15.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHH
Q 044532 101 VNELNHQELLQMDATIDNLHK 121 (147)
Q Consensus 101 l~~l~~~eL~~l~~~Le~~l~ 121 (147)
|..+|.+||++....|+.-+.
T Consensus 5 Lk~ls~~eL~~rl~~LD~~ME 25 (49)
T PF11629_consen 5 LKFLSYEELQQRLASLDPEME 25 (49)
T ss_dssp GGGS-HHHHHHHHHHHHHHHH
T ss_pred HhhCCHHHHHHHHHhCCHHHH
Confidence 567899999998888776443
No 39
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=23.56 E-value=43 Score=26.55 Aligned_cols=20 Identities=30% Similarity=0.483 Sum_probs=16.7
Q ss_pred hhcccccEeEEEeeCCCCCc
Q 044532 42 VTLTGSEIAILVFSQSGKPF 61 (147)
Q Consensus 42 s~LC~~~v~~iv~sp~gk~~ 61 (147)
||=+|-+.|.-+|||+|..|
T Consensus 3 sIGtGyDls~s~fSpdGrvf 22 (254)
T KOG0184|consen 3 SIGTGYDLSASTFSPDGRVF 22 (254)
T ss_pred cccccccccceeeCCCCcee
Confidence 45567899999999999976
No 40
>PRK00064 recF recombination protein F; Reviewed
Probab=23.19 E-value=1.5e+02 Score=24.54 Aligned_cols=78 Identities=13% Similarity=0.184 Sum_probs=39.9
Q ss_pred EEEeeCCCCCcccCCCCC-CCCcccCCC-------chHHHHHHHHHHHHhCCCccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 044532 51 ILVFSQSGKPFSFGHPSI-EAPVNDNTH-------PLVEAHRQMRRGKETQPRWWETPVNELNHQELLQMDATIDNLHKT 122 (147)
Q Consensus 51 ~iv~sp~gk~~~~~~psv-~~vi~ry~~-------~l~~~~~kL~~e~~~~~~~~~~~l~~l~~~eL~~l~~~Le~~l~~ 122 (147)
+|+|+|++-....++|+. ...+|++.. ..+.+|+++.++......-.....-+.=.++|.++-..|......
T Consensus 114 ~v~~~p~~~~l~~~~p~~RR~fLD~~~~~~~~~y~~~~~~y~k~lkqrn~lLk~~~~~~l~~w~~~l~~~g~~I~~~R~~ 193 (361)
T PRK00064 114 VVLFTPEDLRLVKGGPSERRRFLDRLLFQIEPVYASALSQYERALKQRNALLKQADYAWLDVWDEQLAELGAAIAAARLE 193 (361)
T ss_pred EEEEccchhhhhcCCHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHHHHH
Confidence 799999887666678873 344444432 345666666555442221111100001125555555555555555
Q ss_pred HHHHHH
Q 044532 123 FLARLN 128 (147)
Q Consensus 123 v~~r~~ 128 (147)
.-+++.
T Consensus 194 ~~~~L~ 199 (361)
T PRK00064 194 YLERLA 199 (361)
T ss_pred HHHHHH
Confidence 444443
No 41
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=22.93 E-value=59 Score=26.64 Aligned_cols=46 Identities=13% Similarity=0.182 Sum_probs=31.5
Q ss_pred ceeEEecCCCCcceeccccccchhhhhhhhhhcccccEeEEEeeCCCCCcccCCCCCCCCcccCCC
Q 044532 12 IQMKRIENEDGRLITFSKRRSGIYKKASELVTLTGSEIAILVFSQSGKPFSFGHPSIEAPVNDNTH 77 (147)
Q Consensus 12 i~ik~I~~~~~R~~Tf~KRk~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~~~psv~~vi~ry~~ 77 (147)
-++.+|.|.+.|..+=++ .||..+.+ |+|. | ..-|.++.|++.|..
T Consensus 24 yn~~li~n~tqr~t~~sR-------------~L~Ecel~---~~p~---Y-~nDpEmK~iid~~n~ 69 (295)
T TIGR01478 24 YNVSYIQNNTQMTSTKSR-------------LLAEIQRP---KNPH---Y-HNDPELKEIIDKLNE 69 (295)
T ss_pred cceecccCccccccccce-------------ehhhhccc---cCCC---C-CCcHHHHHHHHHHhH
Confidence 367789999998886332 47887775 4441 1 134788889888865
No 42
>cd00468 HIT_like HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified in the literacture into three major branches: the Hint branch, which consists of adenosine 5' -monophosphoramide hydrolases, the Fhit branch, that consists of diadenosine polyphosphate hydrolases, and the GalT branch consisting of specific nucloside monophosphate transferases. Further sequence analysis reveals several new closely related, yet uncharacterized subgroups.
Probab=22.70 E-value=1.6e+02 Score=18.28 Aligned_cols=26 Identities=12% Similarity=0.164 Sum_probs=19.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHH
Q 044532 99 TPVNELNHQELLQMDATIDNLHKTFL 124 (147)
Q Consensus 99 ~~l~~l~~~eL~~l~~~Le~~l~~v~ 124 (147)
.++.+|+.+++.++...+....+.+.
T Consensus 30 ~~~~~l~~~~~~~l~~~~~~~~~~l~ 55 (86)
T cd00468 30 ETLPDLDEALLADLVITAQRVAAELE 55 (86)
T ss_pred CChhHCCHHHHHHHHHHHHHHHHHHH
Confidence 45678899999888888777766654
No 43
>PF06020 Roughex: Drosophila roughex protein; InterPro: IPR009259 This family consists of several roughex (RUX) proteins specific to Drosophila species. Roughex can influence the intracellular distribution of cyclin A and is therefore defined as a distinct and specialised cell cycle inhibitor for cyclin A-dependent kinase activity []. Rux is though to regulate the metaphase to anaphase transition during development [].
Probab=22.38 E-value=43 Score=27.58 Aligned_cols=16 Identities=25% Similarity=0.503 Sum_probs=13.2
Q ss_pred hhcccccEeEEEeeCC
Q 044532 42 VTLTGSEIAILVFSQS 57 (147)
Q Consensus 42 s~LC~~~v~~iv~sp~ 57 (147)
.-+||++||++||--.
T Consensus 183 ~~~~~~EICLavYek~ 198 (334)
T PF06020_consen 183 GQVSGFEICLAVYEKG 198 (334)
T ss_pred CccccceEEeeehhhh
Confidence 4579999999999763
No 44
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=21.11 E-value=63 Score=26.05 Aligned_cols=36 Identities=25% Similarity=0.485 Sum_probs=25.5
Q ss_pred hhcccccEeEEEeeCC--CCCcc-cCCCCCCCCcccCCC
Q 044532 42 VTLTGSEIAILVFSQS--GKPFS-FGHPSIEAPVNDNTH 77 (147)
Q Consensus 42 s~LC~~~v~~iv~sp~--gk~~~-~~~psv~~vi~ry~~ 77 (147)
+++.|..+|+++|+++ ||.|+ ||.+.-..|+-+..+
T Consensus 73 ~~~~G~~~~i~~yG~tgSGKT~tl~G~~~~~Gli~~~~~ 111 (328)
T cd00106 73 SVLEGYNGTIFAYGQTGSGKTYTMFGSPKDPGIIPRALE 111 (328)
T ss_pred HHhCCCceeEEEecCCCCCCeEEecCCCCCCchHHHHHH
Confidence 3467999999999998 56664 466655667766643
No 45
>TIGR02420 dksA RNA polymerase-binding protein DksA. The model that is the basis for this family describes a small, pleiotropic protein, DksA (DnaK suppressor A), originally named as a multicopy suppressor of temperature sensitivity of dnaKJ mutants. DksA mutants are defective in quorum sensing, virulence, etc. DksA is now understood to bind RNA polymerase directly and modulate its response to small molecules to control the level of transcription of rRNA. Nearly all members of this family are in the Proteobacteria. Whether the closest homologs outside the Proteobacteria function equivalently is unknown. The low value set for the noise cutoff allows identification of possible DksA proteins from outside the proteobacteria. TIGR02419 describes a closely related family of short sequences usually found in prophage regions of proteobacterial genomes or in known phage.
Probab=21.08 E-value=2.5e+02 Score=19.07 Aligned_cols=29 Identities=7% Similarity=0.187 Sum_probs=22.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044532 104 LNHQELLQMDATIDNLHKTFLARLNEKTA 132 (147)
Q Consensus 104 l~~~eL~~l~~~Le~~l~~v~~r~~~l~~ 132 (147)
|+.+++..|...|...+..+..++.....
T Consensus 1 M~~~~l~~~k~~L~~~~~~L~~~i~~~~~ 29 (110)
T TIGR02420 1 MSEAQLEHFRKILLRWKQELLEEADKTLE 29 (110)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788899999999988888887766643
No 46
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=20.97 E-value=71 Score=25.90 Aligned_cols=40 Identities=23% Similarity=0.502 Sum_probs=27.1
Q ss_pred hhcccccEeEEEeeCC--CCCccc-CCCCCCCCcccCCCchHH
Q 044532 42 VTLTGSEIAILVFSQS--GKPFSF-GHPSIEAPVNDNTHPLVE 81 (147)
Q Consensus 42 s~LC~~~v~~iv~sp~--gk~~~~-~~psv~~vi~ry~~~l~~ 81 (147)
+++-|..+|+++|+++ ||.|+. |.+.-..++-|+.+.|-+
T Consensus 72 ~~~~G~~~~i~ayG~tgSGKT~tl~G~~~~~Gli~r~~~~lf~ 114 (329)
T cd01366 72 SALDGYNVCIFAYGQTGSGKTYTMEGPPENPGIIPRALEQLFN 114 (329)
T ss_pred HHhCCCceEEEEeCCCCCCCcEEecCCCCCCCcHHHHHHHHHH
Confidence 4567999999999997 566644 555555677666444433
No 47
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion. Such a region is also found in other proteins [, ]: Yeast cytosine deaminase (3.5.4.1 from EC) (gene FCY1) which transforms cytosine into uracil. Mammalian apolipoprotein B mRNA editing protein, responsible for the postranscriptional editing of a CAA codon into a UAA (stop) codon in the APOB mRNA. Riboflavin biosynthesis protein ribG, which converts 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate. Bacillus cereus blasticidin-S deaminase (3.5.4.23 from EC), which catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S. Bacillus subtilis protein comEB. This protein is required for the binding and uptake of transforming DNA. B. subtilis hypothetical protein yaaJ. Escherichia coli hypothetical protein yfhC. Yeast hypothetical protein YJL035c. ; GO: 0008270 zinc ion binding, 0016787 hydrolase activity; PDB: 3MPZ_C 3R2N_C 1WKQ_A 1TIY_B 2B3J_C 2O7P_B 2OBC_A 2G6V_B 2D30_B 2D5N_B ....
Probab=20.69 E-value=59 Score=21.25 Aligned_cols=31 Identities=19% Similarity=0.308 Sum_probs=21.7
Q ss_pred hhhhhhhhhhcc----cccEeEEEeeCCCCCcccC
Q 044532 34 IYKKASELVTLT----GSEIAILVFSQSGKPFSFG 64 (147)
Q Consensus 34 L~KKa~ELs~LC----~~~v~~iv~sp~gk~~~~~ 64 (147)
+++.|.+++... ...|+.+|++++|+....+
T Consensus 7 ~m~~a~~~a~~s~~~~~~~vgaviv~~~~~~i~~g 41 (102)
T PF00383_consen 7 FMRIAIELAKRSRPCGNFPVGAVIVDPDGKIIATG 41 (102)
T ss_dssp HHHHHHHHHHTHBTTTSSSEEEEEEETTTEEEEEE
T ss_pred HHHHHHHHHHhccccCCCCEEEEEEeccCccEEEE
Confidence 456666665555 8899999999877654433
No 48
>PRK00736 hypothetical protein; Provisional
Probab=20.60 E-value=2.3e+02 Score=17.74 Aligned_cols=31 Identities=10% Similarity=0.052 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCCCCCCCC
Q 044532 115 TIDNLHKTFLARLNEKTAAASSSMAPPMYFH 145 (147)
Q Consensus 115 ~Le~~l~~v~~r~~~l~~~~~ss~~~~~~~~ 145 (147)
.|...+..+..|+.....+.+.......|+|
T Consensus 37 ~L~~ql~~L~~rl~~~~~~~~~~~~~~~PPH 67 (68)
T PRK00736 37 QMRKKLDALTERFLSLEEQAAPDVPVTKPPH 67 (68)
T ss_pred HHHHHHHHHHHHHHHhccccCCCCCCCCcCC
Confidence 3344444555555554433332333445555
No 49
>PF04120 Iron_permease: Low affinity iron permease ; InterPro: IPR007251 Although originally identified as a low-affinity iron(II) permease [, ], Fet4 has since been shown to import several other transition metal ions, including copper [, ] and zinc []. Copper, cobalt, and cadmium inhibit Fet4 [, ]. Fet4 is an integral protein of the plasma membrane [, ]. FET4 is not essential, not even in fet3 fet4 double mutants []. Over expression of FET4 improves growth under alkaline conditions []. Transcription of FET4 is induced by Aft1 in response to low levels of iron [, , ] or by Zap1 in response to low zinc [, ], but not in response to low copper []. When the high-affinity iron permease component Fet3 is deleted, FET4 is induced by the addition of copper, zinc, cobalt, or manganese []. It is also induced under anaerobic conditions [, , ] and repressed by Rox1 in aerobic conditions [, ]. Rox1 attenuates the activation of FET4 by Aft1 or Zap1 []. ; GO: 0055085 transmembrane transport
Probab=20.49 E-value=1.7e+02 Score=21.03 Aligned_cols=29 Identities=17% Similarity=0.290 Sum_probs=23.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 044532 99 TPVNELNHQELLQMDATIDNLHKTFLARL 127 (147)
Q Consensus 99 ~~l~~l~~~eL~~l~~~Le~~l~~v~~r~ 127 (147)
-++++++.+||.++...++..-..-+.+.
T Consensus 90 i~iE~l~~~el~~~~~~~~~~~~~~~~~~ 118 (132)
T PF04120_consen 90 IDIEDLTEEELEEIRKRYERLAEQARERH 118 (132)
T ss_pred CCcccCCHHHHHHHHHHHHHHHHHhhhhc
Confidence 47899999999999999888766655544
No 50
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=20.34 E-value=36 Score=24.43 Aligned_cols=31 Identities=23% Similarity=0.307 Sum_probs=20.9
Q ss_pred ccccEeEEEeeCCCCCcccCCCC-CCCCcccC
Q 044532 45 TGSEIAILVFSQSGKPFSFGHPS-IEAPVNDN 75 (147)
Q Consensus 45 C~~~v~~iv~sp~gk~~~~~~ps-v~~vi~ry 75 (147)
|+...++-|..++|.+..|.+|- +.+|+..|
T Consensus 12 ~~~~~~vkvv~~~G~v~~~~~pv~a~evm~~~ 43 (181)
T PF14009_consen 12 SSSAATVKVVHPDGKVEEFKRPVTAAEVMLEN 43 (181)
T ss_pred cCCCceEEEEcCCCcEEEeCCCcCHHHHHHHC
Confidence 44555555566899999998873 55666555
No 51
>PRK09458 pspB phage shock protein B; Provisional
Probab=20.29 E-value=2.6e+02 Score=18.21 Aligned_cols=30 Identities=10% Similarity=0.203 Sum_probs=21.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044532 101 VNELNHQELLQMDATIDNLHKTFLARLNEKT 131 (147)
Q Consensus 101 l~~l~~~eL~~l~~~Le~~l~~v~~r~~~l~ 131 (147)
-.+||.+|.+.|++..+. -+..++|++.|.
T Consensus 33 ~~~Ls~~d~~~L~~L~~~-A~rm~~RI~tLE 62 (75)
T PRK09458 33 SQGLSQEEQQRLAQLTEK-AERMRERIQALE 62 (75)
T ss_pred CCCCCHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 357899888777665544 567888888775
No 52
>PRK09555 feoA ferrous iron transport protein A; Reviewed
Probab=20.21 E-value=1.1e+02 Score=19.62 Aligned_cols=32 Identities=22% Similarity=0.337 Sum_probs=28.2
Q ss_pred cchhhhhhhhhhcccccEeEEEeeCCCCCccc
Q 044532 32 SGIYKKASELVTLTGSEIAILVFSQSGKPFSF 63 (147)
Q Consensus 32 ~GL~KKa~ELs~LC~~~v~~iv~sp~gk~~~~ 63 (147)
.++..+-.+|-++.|++|-++-.+|.|.|..+
T Consensus 20 ~~~~~rL~~mGl~pG~~V~v~~~aP~gdPi~i 51 (74)
T PRK09555 20 PAYRQKLLSLGMLPGSSFNVVRVAPLGDPIHI 51 (74)
T ss_pred hHHHHHHHHcCCCCCCEEEEEEECCCCCCEEE
Confidence 45788899999999999999999999988765
Done!