Query 034429
Match_columns 95
No_of_seqs 122 out of 864
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 02:46:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034429.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034429hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00415 HSF heat shock fact 100.0 2.2E-32 4.7E-37 180.7 6.1 79 16-94 1-89 (105)
2 PF00447 HSF_DNA-bind: HSF-typ 100.0 6.7E-33 1.4E-37 181.9 3.5 76 19-94 1-84 (103)
3 COG5169 HSF1 Heat shock transc 100.0 3.8E-31 8.3E-36 200.6 5.7 85 10-94 3-96 (282)
4 KOG0627 Heat shock transcripti 100.0 1.5E-30 3.2E-35 196.9 5.6 82 13-94 8-90 (304)
5 PF00178 Ets: Ets-domain; Int 97.7 2.4E-05 5.2E-10 50.3 2.3 59 20-78 4-64 (85)
6 smart00413 ETS erythroblast tr 97.2 0.00051 1.1E-08 44.5 3.9 59 21-79 5-65 (87)
7 KOG3806 Predicted transcriptio 96.9 0.0029 6.4E-08 45.7 5.6 69 10-78 61-131 (177)
8 KOG3805 ERG and related ETS tr 89.8 0.69 1.5E-05 36.5 4.7 70 12-81 267-339 (361)
9 PF07676 PD40: WD40-like Beta 88.4 0.19 4.2E-06 26.5 0.6 24 26-49 3-26 (39)
10 PF09793 AD: Anticodon-binding 68.3 9.2 0.0002 24.3 3.5 33 14-50 29-61 (91)
11 PF04004 Leo1: Leo1-like prote 55.1 9.7 0.00021 26.9 2.0 20 32-51 65-84 (171)
12 KOG2394 WD40 protein DMR-N9 [G 54.0 8.7 0.00019 32.6 1.8 21 35-55 336-356 (636)
13 PF08675 RNA_bind: RNA binding 52.8 16 0.00035 23.7 2.5 39 34-72 34-77 (87)
14 KOG1407 WD40 repeat protein [F 45.4 22 0.00047 27.8 2.7 26 33-58 108-133 (313)
15 PF12657 TFIIIC_delta: Transcr 43.6 24 0.00052 24.4 2.5 20 31-50 4-23 (173)
16 PF02879 PGM_PMM_II: Phosphogl 43.5 36 0.00079 21.2 3.2 34 19-52 70-103 (104)
17 PF10416 IBD: Transcription-in 43.4 14 0.0003 24.8 1.2 64 13-84 23-96 (128)
18 PF08662 eIF2A: Eukaryotic tra 39.8 25 0.00054 24.8 2.1 15 35-49 63-77 (194)
19 KOG4497 Uncharacterized conser 37.8 23 0.0005 28.7 1.8 61 21-82 164-244 (447)
20 KOG3330 Transport protein part 36.0 47 0.001 24.0 3.0 26 33-58 92-118 (183)
21 PF14420 Clr5: Clr5 domain 35.4 12 0.00026 21.5 -0.1 18 65-82 37-54 (54)
22 KOG3741 Poly(A) ribonuclease s 34.0 18 0.0004 30.9 0.8 36 19-57 555-590 (655)
23 KOG4497 Uncharacterized conser 33.6 39 0.00084 27.4 2.5 23 33-57 93-115 (447)
24 KOG3804 Transcription factor N 30.7 1.7E+02 0.0038 23.6 5.8 66 13-78 289-357 (390)
25 PF04051 TRAPP: Transport prot 30.1 74 0.0016 21.7 3.2 63 18-81 58-128 (152)
26 KOG0284 Polyadenylation factor 29.8 37 0.00081 28.0 1.8 20 35-54 100-120 (464)
27 PF13331 DUF4093: Domain of un 28.5 17 0.00037 23.1 -0.2 20 63-82 60-79 (87)
28 cd05800 PGM_like2 This PGM-lik 28.0 1.4E+02 0.003 23.8 4.8 39 14-52 216-254 (461)
29 PF10949 DUF2777: Protein of u 27.3 36 0.00077 24.9 1.2 44 41-84 78-121 (185)
30 cd00266 MADS_SRF_like SRF-like 27.0 65 0.0014 20.0 2.3 40 27-68 36-75 (83)
31 cd00139 PIPKc Phosphatidylinos 25.8 23 0.0005 27.5 0.0 50 35-85 101-155 (313)
32 cd05803 PGM_like4 This PGM-lik 25.5 1.8E+02 0.0038 23.2 5.0 35 18-52 219-253 (445)
33 cd00250 CAS_like Clavaminic ac 25.5 76 0.0016 23.0 2.7 32 19-51 204-235 (262)
34 cd03087 PGM_like1 This archaea 25.2 2E+02 0.0042 22.8 5.2 37 16-52 209-245 (439)
35 KOG1009 Chromatin assembly com 24.7 34 0.00074 28.0 0.8 23 35-57 346-368 (434)
36 cd03089 PMM_PGM The phosphoman 24.7 1.8E+02 0.0038 23.1 4.9 35 18-52 211-245 (443)
37 COG3386 Gluconolactonase [Carb 24.7 47 0.001 25.6 1.5 26 27-52 157-183 (307)
38 PF13184 KH_5: NusA-like KH do 24.2 66 0.0014 19.4 1.9 32 20-60 29-60 (69)
39 PF00930 DPPIV_N: Dipeptidyl p 23.9 80 0.0017 24.1 2.7 45 15-63 88-134 (353)
40 KOG2919 Guanine nucleotide-bin 23.6 55 0.0012 26.4 1.7 18 35-52 53-70 (406)
41 PLN03185 phosphatidylinositol 23.5 36 0.00078 29.8 0.8 50 35-85 449-502 (765)
42 COG3920 Signal transduction hi 22.8 1.6E+02 0.0035 21.4 4.0 34 16-49 178-212 (221)
43 PF11042 DUF2750: Protein of u 22.5 1.3E+02 0.0027 19.2 3.1 39 18-57 64-102 (104)
44 cd00265 MADS_MEF2_like MEF2 (m 21.9 78 0.0017 19.4 1.9 35 27-64 36-70 (77)
45 PF11767 SET_assoc: Histone ly 21.8 50 0.0011 20.0 1.0 22 65-86 11-32 (66)
46 KOG0973 Histone transcription 21.6 61 0.0013 29.2 1.8 29 24-52 62-90 (942)
47 KOG0294 WD40 repeat-containing 21.0 86 0.0019 25.1 2.3 20 32-51 169-188 (362)
No 1
>smart00415 HSF heat shock factor.
Probab=99.97 E-value=2.2e-32 Score=180.74 Aligned_cols=79 Identities=54% Similarity=0.973 Sum_probs=74.3
Q ss_pred CCCcHHHHHHHhccCCCCCceeEEecCCCeEEEeCchhhHHhhcccccCCcCchhhhhccccCCceEeccC---------
Q 034429 16 GPAPFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPPEFARLLLPTYFKHNNFSSFIRQLNTYVQIIINKS--------- 86 (95)
Q Consensus 16 ~~~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~vLp~~F~~~~~~SF~RqLn~YGF~kv~~~--------- 86 (95)
+++.|+.|||+||+|+++++||+|++||++|+|+|++.|++.|||+||+|++|+||+||||+|||+|+...
T Consensus 1 ~~~~F~~kL~~~l~~~~~~~iI~W~~~G~~f~I~d~~~f~~~vLp~~Fk~~~~~SF~RqLn~yGF~k~~~~~~~~~~~~~ 80 (105)
T smart00415 1 QPPPFLTKLYLLVEDPSTDKIISWSPSGKSFVIWDPEEFAKNLLPRYFKHNNFSSFVRQLNMYGFRKVDPEFQGILYNFT 80 (105)
T ss_pred CCCcHHHHHHHHHhCCCCCCEEEECCCCCEEEEcCHHHHHHHHHHHhcCCCCHHHHHHHHHhcCCEEeccccccccccCC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999873
Q ss_pred -CCCccCCC
Q 034429 87 -FLWNHDNA 94 (95)
Q Consensus 87 -~~~~~~~~ 94 (95)
..|+|.|.
T Consensus 81 ~~~~~F~h~ 89 (105)
T smart00415 81 SDQWEFANP 89 (105)
T ss_pred CCceEEECc
Confidence 57888775
No 2
>PF00447 HSF_DNA-bind: HSF-type DNA-binding; InterPro: IPR000232 Heat shock factor (HSF) is a transcriptional activator of heat shock genes []: it binds specifically to heat shock promoter elements, which are palindromic sequences rich with repetitive purine and pyrimidine motifs []. Under normal conditions, HSF is a homo-trimeric cytoplasmic protein, but heat shock activation results in relocalisation to the nucleus []. Each HSF monomer contains one C-terminal and three N-terminal leucine zipper repeats []. Point mutations in these regions result in disruption of cellular localisation, rendering the protein constitutively nuclear []. Two sequences flanking the N-terminal zippers fit the consensus of a bi- partite nuclear localisation signal (NLS). Interaction between the N- and C-terminal zippers may result in a structure that masks the NLS sequences: following activation of HSF, these may then be unmasked, resulting in relocalisation of the protein to the nucleus []. The DNA-binding component of HSF lies to the N terminus of the first NLS region, and is referred to as the HSF domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1FBQ_B 1FYL_B 1FBS_A 1FYM_B 3HTS_B 2HTS_A 3HSF_A 1FBU_B 1FYK_A 2LDU_A ....
Probab=99.97 E-value=6.7e-33 Score=181.88 Aligned_cols=76 Identities=41% Similarity=0.823 Sum_probs=67.8
Q ss_pred cHHHHHHHhccCCCCCceeEEecCCCeEEEeCchhhHHhhcccccCCcCchhhhhccccCCceEeccCCC--------Cc
Q 034429 19 PFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPPEFARLLLPTYFKHNNFSSFIRQLNTYVQIIINKSFL--------WN 90 (95)
Q Consensus 19 ~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~vLp~~F~~~~~~SF~RqLn~YGF~kv~~~~~--------~~ 90 (95)
+|+.|||+||++++++++|+|++||++|||+|+++|+++|||+||+|++|+||+||||+|||+|+..... |+
T Consensus 1 ~F~~kL~~~l~~~~~~~~I~W~~~G~~fiI~d~~~f~~~vLp~~F~~~~~~SF~RQLn~yGF~k~~~~~~~~~~~~~~~~ 80 (103)
T PF00447_consen 1 KFLSKLYEMLEDPENSDIIRWSPDGDSFIIHDPEEFEKEVLPKYFKHSNFSSFVRQLNMYGFKKVSSDSNQSSLSSNIWE 80 (103)
T ss_dssp HHHHHHHHHHCTTTTTTTCEECTTSSEEEES-HHHHHHHTHHHHSST--HHHHHHHHHHTTEEECC-SSCTTSSTTTTEE
T ss_pred ChHHHHHHHHcCCCCCCEEEEeCCCCEEEEeecHHHhhhccccccCccccceeeeEeeeeeeEEEecCccccccCCCCeE
Confidence 5999999999999999999999999999999999999999999999999999999999999999998753 77
Q ss_pred cCCC
Q 034429 91 HDNA 94 (95)
Q Consensus 91 ~~~~ 94 (95)
|.|+
T Consensus 81 f~h~ 84 (103)
T PF00447_consen 81 FYHP 84 (103)
T ss_dssp EEET
T ss_pred ECCc
Confidence 7774
No 3
>COG5169 HSF1 Heat shock transcription factor [Transcription]
Probab=99.97 E-value=3.8e-31 Score=200.57 Aligned_cols=85 Identities=36% Similarity=0.736 Sum_probs=77.8
Q ss_pred CCCCCCCCCcHHHHHHHhccCCCCCceeEEecCCCeEEEeCchhhHHhhcccccCCcCchhhhhccccCCceEec-cC--
Q 034429 10 PGGLGGGPAPFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPPEFARLLLPTYFKHNNFSSFIRQLNTYVQIIIN-KS-- 86 (95)
Q Consensus 10 ~~~~~~~~~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~vLp~~F~~~~~~SF~RqLn~YGF~kv~-~~-- 86 (95)
.++...++..|+.|||.||++|++.++|+|+|||++|+|.|++.|.+.|||+||+|++|+||+||||+|||+||. .+
T Consensus 3 ~s~~~~~~~~FV~KLy~iLe~~e~~k~I~Ws~~G~sfvI~~~~~F~~~iLpr~FKh~NfaSFVRQLN~YgFhKv~h~~~~ 82 (282)
T COG5169 3 MSSRWSQPKEFVHKLYQILEEPEYYKLIQWSPDGRSFVILDPEEFTKVILPRYFKHGNFASFVRQLNKYGFHKVSHKSGQ 82 (282)
T ss_pred CCcCCCchhHHHHHHHHHhcCcccCCceEECCCCCEEEEeCcchhhhhhhhhhhcccCHHHHHHHHHhcCcEeccCCccc
Confidence 355677788999999999999999999999999999999999999999999999999999999999999999999 32
Q ss_pred ------CCCccCCC
Q 034429 87 ------FLWNHDNA 94 (95)
Q Consensus 87 ------~~~~~~~~ 94 (95)
..|||.|.
T Consensus 83 ~~~~n~~~wef~~~ 96 (282)
T COG5169 83 RSYYNENVWEFGNK 96 (282)
T ss_pred ccccchhheeecCc
Confidence 34998874
No 4
>KOG0627 consensus Heat shock transcription factor [Transcription]
Probab=99.96 E-value=1.5e-30 Score=196.94 Aligned_cols=82 Identities=61% Similarity=1.053 Sum_probs=77.4
Q ss_pred CCCCCCcHHHHHHHhccCCCCCceeEEecCCCeEEEeCchhhHHhhcccccCCcCchhhhhccccCCceEec-cCCCCcc
Q 034429 13 LGGGPAPFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPPEFARLLLPTYFKHNNFSSFIRQLNTYVQIIIN-KSFLWNH 91 (95)
Q Consensus 13 ~~~~~~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~vLp~~F~~~~~~SF~RqLn~YGF~kv~-~~~~~~~ 91 (95)
....+++|+.|||+||+||+++++|+|+++|++|||+|+.+|.+.+||+||+|+||+||+||||+|||+|+. ....|||
T Consensus 8 ~~~~~~~Fl~K~y~~v~Dps~~~iisWs~~g~sFvv~d~~~F~~~~Lp~~FKh~NfsSFvRQLN~YgFrKv~~~~~~wEF 87 (304)
T KOG0627|consen 8 EASGPPPFLEKLYEMVEDPSTDEIISWSPSGNSFVIWNPEEFAKVLLPLYFKHNNFSSFVRQLNMYGFRKVDFKSDRWEF 87 (304)
T ss_pred ccCCCCcHHHHHHHHhcCCCCCCceEECCCCCccccCCHHHHHHHHhHHhccccCccceeeeecccceeecCCCCCceee
Confidence 344899999999999999999999999999999999999999999999999999999999999999999999 4558999
Q ss_pred CCC
Q 034429 92 DNA 94 (95)
Q Consensus 92 ~~~ 94 (95)
.|.
T Consensus 88 ~n~ 90 (304)
T KOG0627|consen 88 SNP 90 (304)
T ss_pred cCh
Confidence 885
No 5
>PF00178 Ets: Ets-domain; InterPro: IPR000418 Transcription factors are protein molecules that bind to specific DNA sequences in the genome, resulting in the induction or inhibition of gene transcription []. The ets oncogene is such a factor, possessing a region of 85-90 amino acids known as the ETS (erythroblast transformation specific) domain [, , ]. This domain is rich in positively-charged and aromatic residues, and binds to purine-rich segments of DNA. The ETS domain has been identified in other transcription factors such as PU.1, human erg, human elf-1, human elk-1, GA binding protein, and a number of others [, , ]. It is generally localized at the C terminus of the protein, with the exception of ELF-1, ELK-1, ELK-3, ELK-4 and ERF where it is found at the N terminus. NMR-analysis of the structure of the Ets domains revealed that it contains three alpha-helixes (1-3) and four-stranded beta-sheets (1-4) arranged in the order alpha1-beta1-beta2-alpha2-alpha3-beta3-beta4 forming a winged helix-turn-helix (wHTH) topology []. The third alpha-helix is responsive to contact to the major groove of the DNA. Different members of the Ets family proteins display distinct DNA binding specificities. The Ets domains and the flanking amino acid sequences of the proteins influence the binding affinity, and the alteration of a single amino acid in the Ets domain can change its DNA binding specificities. Avian leukemia virus E26 is a replication defective retrovirus that induces a mixed erythroid/myeloid leukemia in chickens.This virus carries two distinct oncogenes: v-myb and v-ets. The ets portion of this oncogene is required for the induction of erythroblastosis. V-ets and c-ets-1, its cellular progenitor, have been shown [] to be nuclear DNA-binding proteins. Ets-1 differs slightly from v-ets at its carboxy-terminal region. In most species where it has been sequenced, c-ets-1 exists in various isoforms generated by alternative splicing and differential phosphorylation.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1DUX_F 4AVP_B 1HBX_G 1BC7_C 1K6O_A 1BC8_C 1PUE_E 1FLI_A 2DAO_A 1WWX_A ....
Probab=97.71 E-value=2.4e-05 Score=50.26 Aligned_cols=59 Identities=22% Similarity=0.440 Sum_probs=45.4
Q ss_pred HHHHHHHhccCCCCCceeEEec-CCCeEEEeCchhhHHhhc-ccccCCcCchhhhhccccC
Q 034429 20 FLIKTYDMVDDSSTDEIVSWSD-NKNSFVVWNPPEFARLLL-PTYFKHNNFSSFIRQLNTY 78 (95)
Q Consensus 20 F~~kL~~ml~~~~~~~iI~W~~-~G~sfiI~d~~~f~~~vL-p~~F~~~~~~SF~RqLn~Y 78 (95)
+-.=|.++|+|+++.++|+|++ ++..|.|.|++++++.=- -+-=..-+|.++.|-|..|
T Consensus 4 Lw~FLl~LL~d~~~~~~I~Wt~~~~~eFki~d~~~vA~lWG~~k~~~~m~yeklsR~LR~y 64 (85)
T PF00178_consen 4 LWQFLLELLEDPSNSDIIAWTGKRGGEFKIVDPEAVARLWGKHKNRPNMNYEKLSRALRYY 64 (85)
T ss_dssp HHHHHHHHHHSGGGTTTEEEEETSTTEEEESSHHHHHHHHHHHTTSTT-SHHHHHHHHHHH
T ss_pred HHHHHHHHhcCccCCCeeEeeccCCCeEEecCHHHHHHHHHHHcCCccccHHHHHHHHHHH
Confidence 4455788999999999999999 999999999999986311 1112345789999988776
No 6
>smart00413 ETS erythroblast transformation specific domain. variation of the helix-turn-helix motif
Probab=97.23 E-value=0.00051 Score=44.50 Aligned_cols=59 Identities=25% Similarity=0.428 Sum_probs=44.9
Q ss_pred HHHHHHhccCCCCCceeEEec-CCCeEEEeCchhhHHhhccc-ccCCcCchhhhhccccCC
Q 034429 21 LIKTYDMVDDSSTDEIVSWSD-NKNSFVVWNPPEFARLLLPT-YFKHNNFSSFIRQLNTYV 79 (95)
Q Consensus 21 ~~kL~~ml~~~~~~~iI~W~~-~G~sfiI~d~~~f~~~vLp~-~F~~~~~~SF~RqLn~YG 79 (95)
.+=|.++|.||++.++|+|++ ++..|.+.|+++.++.=-.+ -=..-+|..+.|-|.+|-
T Consensus 5 w~FL~~LL~d~~~~~~I~W~~k~~g~Fkl~~~~~vA~lWG~~Knk~~M~YeklSRaLRyyy 65 (87)
T smart00413 5 WQFLLDLLLDPENGDIIRWTDRDGGEFKLVDPEEVARLWGQRKNKPNMNYEKLSRALRYYY 65 (87)
T ss_pred HHHHHHHHcCccCCCeEEeeCCCCCEEEecCHHHHHHHHhhhcCCCCCCHHHHHHHHHHHH
Confidence 455889999999999999998 68899999998877642211 113357888889888764
No 7
>KOG3806 consensus Predicted transcription factor [Transcription]
Probab=96.88 E-value=0.0029 Score=45.70 Aligned_cols=69 Identities=23% Similarity=0.402 Sum_probs=51.3
Q ss_pred CCCCCCCCCcHHHHHHHhccCCCCCceeEEec-CCCeEEEeCchhhHHhhcccc-cCCcCchhhhhccccC
Q 034429 10 PGGLGGGPAPFLIKTYDMVDDSSTDEIVSWSD-NKNSFVVWNPPEFARLLLPTY-FKHNNFSSFIRQLNTY 78 (95)
Q Consensus 10 ~~~~~~~~~~F~~kL~~ml~~~~~~~iI~W~~-~G~sfiI~d~~~f~~~vLp~~-F~~~~~~SF~RqLn~Y 78 (95)
.+..+++.....+=|.++|+|+++.++|.|+. +|--|.+.|+++.++.=-.+= =-.=||.-.-|-|.+|
T Consensus 61 ~s~~~sg~iqLwqFLleLl~d~~~~~~I~Wtg~~g~EFkl~dp~eVArlWG~rK~kp~MNYdKLSRaLRyy 131 (177)
T KOG3806|consen 61 ESTSGSGQIQLWQFLLELLQDESNAHIIAWTGKDGLEFKLVDPDEVARLWGARKNKPNMNYDKLSRALRYY 131 (177)
T ss_pred ccCCCCchhhHHHHHHHHHhCcccCCeeEEeCCCCceEEecCHHHHHHHHhhhhCCCCCCHHHHHHHHHHH
Confidence 34445557777888889999999999999998 788899999999887533221 1224677777777665
No 8
>KOG3805 consensus ERG and related ETS transcription factors [Transcription]
Probab=89.79 E-value=0.69 Score=36.52 Aligned_cols=70 Identities=20% Similarity=0.287 Sum_probs=49.6
Q ss_pred CCCCCCCcHHHHHHHhccCCC-CCceeEEec-CCCeEEEeCchhhHHhhccc-ccCCcCchhhhhccccCCce
Q 034429 12 GLGGGPAPFLIKTYDMVDDSS-TDEIVSWSD-NKNSFVVWNPPEFARLLLPT-YFKHNNFSSFIRQLNTYVQI 81 (95)
Q Consensus 12 ~~~~~~~~F~~kL~~ml~~~~-~~~iI~W~~-~G~sfiI~d~~~f~~~vLp~-~F~~~~~~SF~RqLn~YGF~ 81 (95)
|.+...-..-+-|.++|..|. +.++|+|-+ |-..|-|.+.+++++.=--+ .=+.-||.-..|-|..||=+
T Consensus 267 g~~kk~IhLwQFLkELL~sP~~~~~~IrWVDkdKGiFkiess~~lArlWG~RKNR~~MnYdKlsRslRqYyKk 339 (361)
T KOG3805|consen 267 GKGKKKIHLWQFLKELLYSPEQMGSCIRWVDKDKGIFKIESSEKLARLWGIRKNRKAMNYDKLSRSLRQYYKK 339 (361)
T ss_pred CCCcceeeHHHHHHHHHhChhhhchheEeeccCCceEEeecHHHHHHHhhhhcccccccHHHHHHHHHHHhhc
Confidence 334556667777889999997 899999965 66778888876665532111 12446788888999888754
No 9
>PF07676 PD40: WD40-like Beta Propeller Repeat; InterPro: IPR011659 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This region appears to be related to the IPR001680 from INTERPRO repeat. This model is likely to miss copies within a sequence.; PDB: 2HQS_D 1C5K_A 2IVZ_A 2W8B_D 3IAX_A 1CRZ_A 1N6F_D 1N6D_C 1N6E_C 1K32_A ....
Probab=88.37 E-value=0.19 Score=26.48 Aligned_cols=24 Identities=13% Similarity=0.291 Sum_probs=17.4
Q ss_pred HhccCCCCCceeEEecCCCeEEEe
Q 034429 26 DMVDDSSTDEIVSWSDNKNSFVVW 49 (95)
Q Consensus 26 ~ml~~~~~~~iI~W~~~G~sfiI~ 49 (95)
.+++.+..+....|+|||+.|+-.
T Consensus 3 ~~t~~~~~~~~p~~SpDGk~i~f~ 26 (39)
T PF07676_consen 3 QLTNSPGDDGSPAWSPDGKYIYFT 26 (39)
T ss_dssp EES-SSSSEEEEEE-TTSSEEEEE
T ss_pred CcccCCccccCEEEecCCCEEEEE
Confidence 456777777888999999988764
No 10
>PF09793 AD: Anticodon-binding domain; InterPro: IPR019181 Sm and Sm-like proteins of the Lsm (like Sm) domain family are generally involved in essential RNA-processing tasks []. All the LSM proteins are evolutionarily conserved in eukaryotes with an N-terminal Lsm domain to bind nucleic acids, followed by an as yet uncharacterised C-terminal region, some of which have a C-terminal methyltransferase domain. This entry represents the central region of approximately 100 residues, which is conserved from plants to humans and is frequently found in association with Lsm domain-containing proteins.
Probab=68.30 E-value=9.2 Score=24.27 Aligned_cols=33 Identities=24% Similarity=0.485 Sum_probs=25.7
Q ss_pred CCCCCcHHHHHHHhccCCCCCceeEEecCCCeEEEeC
Q 034429 14 GGGPAPFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWN 50 (95)
Q Consensus 14 ~~~~~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d 50 (95)
+.++++--++||+.|.-. . +-++| +|+.|+|.|
T Consensus 29 ~~~vs~egQ~lF~~l~Kt-~-~dv~W--~g~~IiV~d 61 (91)
T PF09793_consen 29 GPGVSPEGQKLFDALSKT-I-PDVRW--DGKNIIVLD 61 (91)
T ss_pred CCCcCHHHHHHHHHHHhh-C-CCCEE--CCCeEEEeC
Confidence 456778889999999985 3 44789 555999988
No 11
>PF04004 Leo1: Leo1-like protein; InterPro: IPR007149 Members of this family are part of the Paf1/RNA polymerase II complex [, ]. The Paf1 complex probably functions during the elongation phase of transcription [].
Probab=55.11 E-value=9.7 Score=26.92 Aligned_cols=20 Identities=40% Similarity=0.554 Sum_probs=17.0
Q ss_pred CCCceeEEecCCCeEEEeCc
Q 034429 32 STDEIVSWSDNKNSFVVWNP 51 (95)
Q Consensus 32 ~~~~iI~W~~~G~sfiI~d~ 51 (95)
+|..||+|++..-++.|-|+
T Consensus 65 SNAriVrWsDGS~sL~iG~E 84 (171)
T PF04004_consen 65 SNARIVRWSDGSLSLHIGNE 84 (171)
T ss_pred cccEEEEEcCCceEEEeccE
Confidence 57789999999999998873
No 12
>KOG2394 consensus WD40 protein DMR-N9 [General function prediction only]
Probab=53.97 E-value=8.7 Score=32.58 Aligned_cols=21 Identities=19% Similarity=0.314 Sum_probs=17.5
Q ss_pred ceeEEecCCCeEEEeCchhhH
Q 034429 35 EIVSWSDNKNSFVVWNPPEFA 55 (95)
Q Consensus 35 ~iI~W~~~G~sfiI~d~~~f~ 55 (95)
-+++|+|||+-|++--++.+.
T Consensus 336 LCvcWSPDGKyIvtGGEDDLV 356 (636)
T KOG2394|consen 336 LCVCWSPDGKYIVTGGEDDLV 356 (636)
T ss_pred EEEEEcCCccEEEecCCcceE
Confidence 489999999999987776654
No 13
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=52.82 E-value=16 Score=23.65 Aligned_cols=39 Identities=18% Similarity=0.520 Sum_probs=27.5
Q ss_pred CceeEEecCCCeEEEeCchhhHHhhcccc-----cCCcCchhhh
Q 034429 34 DEIVSWSDNKNSFVVWNPPEFARLLLPTY-----FKHNNFSSFI 72 (95)
Q Consensus 34 ~~iI~W~~~G~sfiI~d~~~f~~~vLp~~-----F~~~~~~SF~ 72 (95)
.=.|+|-+|..+||+.....-.+.|+..+ |+-.+|..|+
T Consensus 34 ~I~VsWi~dTSAfV~l~~r~~~~~v~~~~~~~~~y~i~tY~ey~ 77 (87)
T PF08675_consen 34 QIYVSWINDTSAFVALHNRDQAKVVMNTLKKNSSYRIQTYAEYQ 77 (87)
T ss_dssp CEEEEEECTTEEEEEECCCHHHHHHHHHHTT-SSSEEEEHHHHH
T ss_pred cEEEEEEcCCcEEEEeecHHHHHHHHHHhccCCceEEEEHHHHH
Confidence 45799999999999988777777665432 4445555554
No 14
>KOG1407 consensus WD40 repeat protein [Function unknown]
Probab=45.42 E-value=22 Score=27.84 Aligned_cols=26 Identities=15% Similarity=0.300 Sum_probs=20.1
Q ss_pred CCceeEEecCCCeEEEeCchhhHHhh
Q 034429 33 TDEIVSWSDNKNSFVVWNPPEFARLL 58 (95)
Q Consensus 33 ~~~iI~W~~~G~sfiI~d~~~f~~~v 58 (95)
.+-+|.|+|+|..+++.+.+.....+
T Consensus 108 eni~i~wsp~g~~~~~~~kdD~it~i 133 (313)
T KOG1407|consen 108 ENINITWSPDGEYIAVGNKDDRITFI 133 (313)
T ss_pred cceEEEEcCCCCEEEEecCcccEEEE
Confidence 34678899999999998877655443
No 15
>PF12657 TFIIIC_delta: Transcription factor IIIC subunit delta N-term; InterPro: IPR024761 This entry represents a domain found towards the N terminus of the 90 kDa subunit of transcription factor IIIC (also known as subunit 9 in yeast []). The whole subunit is involved in RNA polymerase III-mediated transcription. It is possible that this N-terminal domain interacts with TFIIIC subunit 8 [].
Probab=43.57 E-value=24 Score=24.43 Aligned_cols=20 Identities=20% Similarity=0.357 Sum_probs=14.4
Q ss_pred CCCCceeEEecCCCeEEEeC
Q 034429 31 SSTDEIVSWSDNKNSFVVWN 50 (95)
Q Consensus 31 ~~~~~iI~W~~~G~sfiI~d 50 (95)
|...+.|.||+||+--|+.+
T Consensus 4 ps~~~~l~WS~Dg~laV~t~ 23 (173)
T PF12657_consen 4 PSCPNALAWSEDGQLAVATG 23 (173)
T ss_pred CCCCcCeeECCCCCEEEEcC
Confidence 45568899999997655543
No 16
>PF02879 PGM_PMM_II: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II; InterPro: IPR005845 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain II found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 2F7L_A 3PDK_B 1KFQ_B 1KFI_A 1C47_A 1VKL_B 1LXT_A 1JDY_B 3PMG_A 1C4G_B ....
Probab=43.46 E-value=36 Score=21.24 Aligned_cols=34 Identities=15% Similarity=0.212 Sum_probs=26.1
Q ss_pred cHHHHHHHhccCCCCCceeEEecCCCeEEEeCch
Q 034429 19 PFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPP 52 (95)
Q Consensus 19 ~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~ 52 (95)
.=+..|.+++.....+-.+..++|++.+++.|++
T Consensus 70 ~~l~~~~~~v~~~~ad~g~~~DgDaDRl~~vd~~ 103 (104)
T PF02879_consen 70 ESLQRLIKIVRESGADLGIAFDGDADRLGVVDEN 103 (104)
T ss_dssp TTTHHHHHHHHHSTTSEEEEE-TTSSBEEEEETT
T ss_pred chhHHHHHHhhccCceEEEEECCcCceeEEECCC
Confidence 4567777777776677888999999999998754
No 17
>PF10416 IBD: Transcription-initiator DNA-binding domain IBD; InterPro: IPR018845 In Trichomonas vaginalis, thought to be the earliest extant eukaryote, the sole initiator element for control of the start of transcription is Inr, and this is recognised by the initiator binding protein IBP39. IBP39 contains an N-terminal Inr binding domain (IBD, represented by this entry) connected via a flexible, proteolytically sensitive, linker (residues 127-145) to a C-terminal domain. The IBD structure reveals a winged-helix-wing conformation with each element binding to DNA, the central helix-turn-helix contributing the majority of the specificity-determining contacts with the Inr core motif TCAPy(T/A). The binding of IBP39 to the Inr directly recruits RNA polymerase II and in this way initiates transcription []. ; PDB: 1PP8_O 1PP7_U.
Probab=43.37 E-value=14 Score=24.81 Aligned_cols=64 Identities=17% Similarity=0.092 Sum_probs=38.6
Q ss_pred CCCCCCcHHHHHHHhccCCCCCc----------eeEEecCCCeEEEeCchhhHHhhcccccCCcCchhhhhccccCCceE
Q 034429 13 LGGGPAPFLIKTYDMVDDSSTDE----------IVSWSDNKNSFVVWNPPEFARLLLPTYFKHNNFSSFIRQLNTYVQII 82 (95)
Q Consensus 13 ~~~~~~~F~~kL~~ml~~~~~~~----------iI~W~~~G~sfiI~d~~~f~~~vLp~~F~~~~~~SF~RqLn~YGF~k 82 (95)
.......|..+|+.++.=...++ =|.|.++|. +..|...|.. +|.+ +=+|-...|..+||.-
T Consensus 23 rn~~~~~F~~~L~~il~~~~~~~~~d~~r~lvcGi~W~~~~~--iaINt~qL~~-llgk-----~kssiNg~l~~lGf~~ 94 (128)
T PF10416_consen 23 RNKRNSRFQEKLENILKFCIRGPEDDWKRCLVCGICWLDDGV--IAINTRQLKL-LLGK-----CKSSINGSLQKLGFEE 94 (128)
T ss_dssp -SSGGGSHHHHHHHHHHHHTT-HH----HHHHHTEEESSSSE--EEEEHHHHHH-HTTS------HHHHHHHHHHTT-E-
T ss_pred cCcccchHHHHHHHHHHHHHcCCchhhhhhheeeEEEeCCce--EEEeHHHHHH-HHhh-----hhhhhcCchhhCCCcc
Confidence 35667889999999987332223 278999976 4456788875 4544 2334555667778875
Q ss_pred ec
Q 034429 83 IN 84 (95)
Q Consensus 83 v~ 84 (95)
+.
T Consensus 95 ~~ 96 (128)
T PF10416_consen 95 IP 96 (128)
T ss_dssp --
T ss_pred cc
Confidence 53
No 18
>PF08662 eIF2A: Eukaryotic translation initiation factor eIF2A; InterPro: IPR013979 This entry contains beta propellor domains found in eukaryotic translation initiation factors and TolB domain-containing proteins.
Probab=39.83 E-value=25 Score=24.80 Aligned_cols=15 Identities=47% Similarity=0.716 Sum_probs=12.7
Q ss_pred ceeEEecCCCeEEEe
Q 034429 35 EIVSWSDNKNSFVVW 49 (95)
Q Consensus 35 ~iI~W~~~G~sfiI~ 49 (95)
..+.|+|+|+.|.|.
T Consensus 63 ~~~~WsP~g~~favi 77 (194)
T PF08662_consen 63 HDVAWSPNGNEFAVI 77 (194)
T ss_pred EEEEECcCCCEEEEE
Confidence 678899999999765
No 19
>KOG4497 consensus Uncharacterized conserved protein WDR8, contains WD repeats [General function prediction only]
Probab=37.77 E-value=23 Score=28.68 Aligned_cols=61 Identities=15% Similarity=0.274 Sum_probs=38.0
Q ss_pred HHHHHHhccCC----CCCceeEEecCCCeEEEeCchhhHHhhc----------------ccccCCcCchhhhhccccCCc
Q 034429 21 LIKTYDMVDDS----STDEIVSWSDNKNSFVVWNPPEFARLLL----------------PTYFKHNNFSSFIRQLNTYVQ 80 (95)
Q Consensus 21 ~~kL~~ml~~~----~~~~iI~W~~~G~sfiI~d~~~f~~~vL----------------p~~F~~~~~~SF~RqLn~YGF 80 (95)
..+-|.+|..= ..-.-|.|+|||..+.|+|.-.=. .|+ .++..-..|...+|-||..-+
T Consensus 164 ~c~~W~ll~~f~~dT~DltgieWsPdg~~laVwd~~Ley-kv~aYe~~lG~k~v~wsP~~qflavGsyD~~lrvlnh~tW 242 (447)
T KOG4497|consen 164 SCKAWILLKEFKLDTIDLTGIEWSPDGNWLAVWDNVLEY-KVYAYERGLGLKFVEWSPCNQFLAVGSYDQMLRVLNHFTW 242 (447)
T ss_pred hhHHHHHHHhcCCCcccccCceECCCCcEEEEecchhhh-eeeeeeeccceeEEEeccccceEEeeccchhhhhhceeee
Confidence 34456666532 223568899999999999854322 222 133344677777888887655
Q ss_pred eE
Q 034429 81 II 82 (95)
Q Consensus 81 ~k 82 (95)
+-
T Consensus 243 k~ 244 (447)
T KOG4497|consen 243 KP 244 (447)
T ss_pred ee
Confidence 43
No 20
>KOG3330 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.99 E-value=47 Score=24.03 Aligned_cols=26 Identities=27% Similarity=0.544 Sum_probs=17.8
Q ss_pred CCceeEEecCCCeEEE-eCchhhHHhh
Q 034429 33 TDEIVSWSDNKNSFVV-WNPPEFARLL 58 (95)
Q Consensus 33 ~~~iI~W~~~G~sfiI-~d~~~f~~~v 58 (95)
...|-+|+++|+.|.| .+..-+..-|
T Consensus 92 tpsitswss~~~efsliLe~NPL~efV 118 (183)
T KOG3330|consen 92 TPSITSWSSDGNEFSLILEDNPLVEFV 118 (183)
T ss_pred ccceeeecCCCCEEEEEecCCcHHHHH
Confidence 3478899999999987 4444444433
No 21
>PF14420 Clr5: Clr5 domain
Probab=35.43 E-value=12 Score=21.52 Aligned_cols=18 Identities=6% Similarity=0.063 Sum_probs=14.5
Q ss_pred CcCchhhhhccccCCceE
Q 034429 65 HNNFSSFIRQLNTYVQII 82 (95)
Q Consensus 65 ~~~~~SF~RqLn~YGF~k 82 (95)
..+-..+.++|..|||+|
T Consensus 37 ~at~rqy~~r~~~Wg~~K 54 (54)
T PF14420_consen 37 KATKRQYKRRFKKWGFRK 54 (54)
T ss_pred CcCHHHHHHHHHHcCCCC
Confidence 345778889999999986
No 22
>KOG3741 consensus Poly(A) ribonuclease subunit [RNA processing and modification]
Probab=34.02 E-value=18 Score=30.89 Aligned_cols=36 Identities=19% Similarity=0.340 Sum_probs=29.3
Q ss_pred cHHHHHHHhccCCCCCceeEEecCCCeEEEeCchhhHHh
Q 034429 19 PFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPPEFARL 57 (95)
Q Consensus 19 ~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~ 57 (95)
.-+.||-.|.+.+++...+.|++.|+.|.| ..|.+.
T Consensus 555 Rll~Kln~I~dR~e~~~D~~WSesG~~fmi---~LFRDY 590 (655)
T KOG3741|consen 555 RLLLKLNFIDDRPEYVDDPDWSESGDRFMI---KLFRDY 590 (655)
T ss_pred HHHHHHhhhccCcccccCCcchhccceehH---HHHHHh
Confidence 457788889999999999999999999986 455543
No 23
>KOG4497 consensus Uncharacterized conserved protein WDR8, contains WD repeats [General function prediction only]
Probab=33.61 E-value=39 Score=27.44 Aligned_cols=23 Identities=22% Similarity=0.385 Sum_probs=15.4
Q ss_pred CCceeEEecCCCeEEEeCchhhHHh
Q 034429 33 TDEIVSWSDNKNSFVVWNPPEFARL 57 (95)
Q Consensus 33 ~~~iI~W~~~G~sfiI~d~~~f~~~ 57 (95)
.=..|+|+|||+.+.. -.+|..+
T Consensus 93 gls~~~WSPdgrhiL~--tseF~lr 115 (447)
T KOG4497|consen 93 GLSSISWSPDGRHILL--TSEFDLR 115 (447)
T ss_pred cceeeeECCCcceEee--eecceeE
Confidence 3367999999996554 4455443
No 24
>KOG3804 consensus Transcription factor NERF and related proteins, contain ETS domain [Transcription]
Probab=30.71 E-value=1.7e+02 Score=23.64 Aligned_cols=66 Identities=18% Similarity=0.226 Sum_probs=41.4
Q ss_pred CCCCCCcHHHHHHHhccCCCCCc-eeEEec-CCCeEEEeCchhhHHhhc-ccccCCcCchhhhhccccC
Q 034429 13 LGGGPAPFLIKTYDMVDDSSTDE-IVSWSD-NKNSFVVWNPPEFARLLL-PTYFKHNNFSSFIRQLNTY 78 (95)
Q Consensus 13 ~~~~~~~F~~kL~~ml~~~~~~~-iI~W~~-~G~sfiI~d~~~f~~~vL-p~~F~~~~~~SF~RqLn~Y 78 (95)
.......-.+-|+.+|.|+.+.. .|.|.+ +-.-|.|.|++...+.=- .+-=..-+|...-|-|.+|
T Consensus 289 ~~~~~t~LWefl~~lL~d~~~~p~~IkWedr~~GVFrvVds~a~arlWG~~Kn~~~MtYekmsRAlRyY 357 (390)
T KOG3804|consen 289 RPLSGTGLWEFLRQLLLDPNYNPGFIKWEDREKGVFRVVDSEALARLWGMHKNNSSMTYEKMSRALRYY 357 (390)
T ss_pred CCcccchHHHHHHHHhcCCCcCCccccccccCCCeeEEecccHHHHHhcCcCCCCCcCHHHHhHHhhhh
Confidence 34444556666778889988766 899965 445788999888776321 1111223455555766665
No 25
>PF04051 TRAPP: Transport protein particle (TRAPP) component; InterPro: IPR007194 TRAPP plays a key role in the targeting and/or fusion of ER-to-Golgi transport vesicles with their acceptor compartment. TRAPP is a large multimeric protein that contains at least 10 subunits. This family contains many TRAPP family proteins. The Bet3 subunit is one of the better characterised TRAPP proteins and has a dimeric structure [] with hydrophobic channels. The channel entrances are located on a putative membrane-interacting surface that is distinctively flat, wide and decorated with positively charged residues. Bet3 is proposed to localise TRAPP to the Golgi [].; PDB: 2J3R_A 1WC9_A 2J3T_A 2PWN_A 2J3W_E 1WC8_A 3CUE_N 2C0J_B 3KXC_A 2CFH_A ....
Probab=30.11 E-value=74 Score=21.67 Aligned_cols=63 Identities=14% Similarity=0.260 Sum_probs=37.8
Q ss_pred CcHHHH-HHHhccCCCCCceeEEecCCCeEEEeCch-hhHHh-hcccccCCcCchhhhh-----ccccCCce
Q 034429 18 APFLIK-TYDMVDDSSTDEIVSWSDNKNSFVVWNPP-EFARL-LLPTYFKHNNFSSFIR-----QLNTYVQI 81 (95)
Q Consensus 18 ~~F~~k-L~~ml~~~~~~~iI~W~~~G~sfiI~d~~-~f~~~-vLp~~F~~~~~~SF~R-----qLn~YGF~ 81 (95)
.+|+.| +|.++=.. ..+.+.|+.+...++|.|.+ .+.+. -+|.-...-+|.+|.- -|..-||.
T Consensus 58 ~~fI~k~~W~~~fgk-~~d~l~~n~~~~~y~i~d~~~~~~~~v~~p~~~~~l~~~~f~~GiIrGaL~~lg~~ 128 (152)
T PF04051_consen 58 LKFICKDFWKMLFGK-QADNLKTNHDRGEYVITDNDFPLNQFVSLPEEYEGLNYLAFPCGIIRGALESLGFP 128 (152)
T ss_dssp HHHHHHHHHHHHHSS---SEEEEETTSTEEEEEEST-CCCTTSTTCGCGTTSHTTHHHHHHHHHHHHHTTEE
T ss_pred HHHHHHHHHHHHhCC-CCccccccCCCCeEEEecCccchhhhhccchhhccCchhhhHHHHHHHHHHHCCCc
Confidence 457877 88888775 44899999944456666542 23222 1344445567777762 26666765
No 26
>KOG0284 consensus Polyadenylation factor I complex, subunit PFS2 [RNA processing and modification]
Probab=29.75 E-value=37 Score=27.96 Aligned_cols=20 Identities=20% Similarity=0.534 Sum_probs=15.1
Q ss_pred ceeEEecCCCeEEEe-Cchhh
Q 034429 35 EIVSWSDNKNSFVVW-NPPEF 54 (95)
Q Consensus 35 ~iI~W~~~G~sfiI~-d~~~f 54 (95)
.+|+|+|+|+.+++. +..+|
T Consensus 100 ~~v~WtPeGRRLltgs~SGEF 120 (464)
T KOG0284|consen 100 NVVRWTPEGRRLLTGSQSGEF 120 (464)
T ss_pred eeEEEcCCCceeEeecccccE
Confidence 689999999998874 33444
No 27
>PF13331 DUF4093: Domain of unknown function (DUF4093)
Probab=28.55 E-value=17 Score=23.14 Aligned_cols=20 Identities=15% Similarity=0.218 Sum_probs=17.3
Q ss_pred cCCcCchhhhhccccCCceE
Q 034429 63 FKHNNFSSFIRQLNTYVQII 82 (95)
Q Consensus 63 F~~~~~~SF~RqLn~YGF~k 82 (95)
..+.|=..|.++||+||+.+
T Consensus 60 iGy~N~KqllkrLN~f~it~ 79 (87)
T PF13331_consen 60 IGYGNAKQLLKRLNMFGITR 79 (87)
T ss_pred CCCCCHHHHHHHHHHcCCCH
Confidence 37788899999999999865
No 28
>cd05800 PGM_like2 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other members of this superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four structural domains (subdomains) with a centrally located active site formed by four loops, one from each subdomain. All four subdomains are included in this alignment model.
Probab=27.95 E-value=1.4e+02 Score=23.81 Aligned_cols=39 Identities=8% Similarity=-0.045 Sum_probs=29.9
Q ss_pred CCCCCcHHHHHHHhccCCCCCceeEEecCCCeEEEeCch
Q 034429 14 GGGPAPFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPP 52 (95)
Q Consensus 14 ~~~~~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~ 52 (95)
....+.-+..|-+++.....+=.|..++||+.+.|.|++
T Consensus 216 p~p~~~~l~~l~~~v~~~~ad~Gia~D~DgDR~~vvd~~ 254 (461)
T cd05800 216 PEPIEKNLGELAEAVKEGGADLGLATDGDADRIGAVDEK 254 (461)
T ss_pred CCCCHHHHHHHHHHHHhcCCCEEEEECCCCCeEEEEeCC
Confidence 333446777788888877677788899999999998764
No 29
>PF10949 DUF2777: Protein of unknown function (DUF2777); InterPro: IPR024488 This family of proteins with unknown function appears to be restricted to Bacillaceae.
Probab=27.33 E-value=36 Score=24.88 Aligned_cols=44 Identities=16% Similarity=0.072 Sum_probs=26.3
Q ss_pred cCCCeEEEeCchhhHHhhcccccCCcCchhhhhccccCCceEec
Q 034429 41 DNKNSFVVWNPPEFARLLLPTYFKHNNFSSFIRQLNTYVQIIIN 84 (95)
Q Consensus 41 ~~G~sfiI~d~~~f~~~vLp~~F~~~~~~SF~RqLn~YGF~kv~ 84 (95)
.+|+++.|..+....=..|-.--....|-.|+..||.+||..-.
T Consensus 78 ~~ge~IRi~K~l~~~y~~lL~eL~d~~f~~F~~~Ln~~gfS~yD 121 (185)
T PF10949_consen 78 SNGESIRIRKKLFDPYEILLNELDDEAFLHFEQTLNSLGFSHYD 121 (185)
T ss_pred CCCCEEEEeeccccHHHHHHHhcCHHHHHHHHHHHHHcCCceEE
Confidence 34555555443332222222223567899999999999997543
No 30
>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=26.97 E-value=65 Score=20.01 Aligned_cols=40 Identities=10% Similarity=0.278 Sum_probs=28.0
Q ss_pred hccCCCCCceeEEecCCCeEEEeCchhhHHhhcccccCCcCc
Q 034429 27 MVDDSSTDEIVSWSDNKNSFVVWNPPEFARLLLPTYFKHNNF 68 (95)
Q Consensus 27 ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~vLp~~F~~~~~ 68 (95)
+|.+-. -.+|.++|+|.....+.+.. ...+|-+|.....+
T Consensus 36 ~Lc~~~-v~~iv~sp~~~~~~~~~~~~-~~~~l~~~~~~~~~ 75 (83)
T cd00266 36 TLCGAE-VAVIVYSPSGKLYVFWPSSE-VEGVISRFEVLSAL 75 (83)
T ss_pred HhhCCc-EEEEEECCCCCcceecCcHH-HHHHHHHHhhcCHh
Confidence 345543 36777999999999887776 66678777655443
No 31
>cd00139 PIPKc Phosphatidylinositol phosphate kinases (PIPK) catalyze the phosphorylation of phosphatidylinositol phosphate on the fourth or fifth hydroxyl of the inositol ring, to form phosphatidylinositol bisphosphate. CD alignment includes type II phosphatidylinositol phosphate kinases (PIPKII-beta), type I andII PIPK (-alpha, -beta, and -gamma) kinases and related yeast Fab1p and Mss4p kinases. Signaling by phosphorylated species of phosphatidylinositol regulates secretion, vesicular trafficking, membrane translocation, cell adhesion, chemotaxis, DNA synthesis, and cell cycling. The catalytic core domains of PIPKs are structurally similar to PI3K, PI4K, and cAMP-dependent protein kinases (PKA), the dimerization region is a unique feature of the PIPKs.
Probab=25.84 E-value=23 Score=27.52 Aligned_cols=50 Identities=10% Similarity=0.069 Sum_probs=28.4
Q ss_pred ceeEEecCCCeEEEe----CchhhHHhhcccccCCcCchhhhhc-cccCCceEecc
Q 034429 35 EIVSWSDNKNSFVVW----NPPEFARLLLPTYFKHNNFSSFIRQ-LNTYVQIIINK 85 (95)
Q Consensus 35 ~iI~W~~~G~sfiI~----d~~~f~~~vLp~~F~~~~~~SF~Rq-Ln~YGF~kv~~ 85 (95)
...--+.|++ |+|- .+.++...+||.||.|-.-..+-.. ...||..++.-
T Consensus 101 s~F~~T~D~r-fiIKti~~~E~~~l~~~Lp~Y~~~~~~n~~~TLL~k~~Gl~~i~~ 155 (313)
T cd00139 101 SFFYKTLDDR-FIIKTVSHSEIESLLKFLPNYYEYITQNPQNTLLPKFFGLYRVKV 155 (313)
T ss_pred CEEEEecCCc-EEEEecCHHHHHHHHHHHHHHHHHHHhCCCCcchhhheEEEEEEE
Confidence 4454556655 5553 2345666789999988443332222 25577766643
No 32
>cd05803 PGM_like4 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this superfamily include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=25.50 E-value=1.8e+02 Score=23.16 Aligned_cols=35 Identities=11% Similarity=0.111 Sum_probs=29.2
Q ss_pred CcHHHHHHHhccCCCCCceeEEecCCCeEEEeCch
Q 034429 18 APFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPP 52 (95)
Q Consensus 18 ~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~ 52 (95)
+.-+..|.++|.....+=.|.+++||+.+.|.|++
T Consensus 219 ~~~l~~l~~~v~~~~adlgi~~D~DgDR~~ivd~~ 253 (445)
T cd05803 219 PENLTQLCAAVKESGADVGFAVDPDADRLALVDED 253 (445)
T ss_pred hHHHHHHHHHHHhcCCCEEEeeCCCCceEEEECCC
Confidence 46688888888887677788899999999998864
No 33
>cd00250 CAS_like Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases catalyze a hydroxylation reaction, which leads to the incorporation of an oxygen atom from dioxygen into a hydroxyl group and conversion of 2OG to succinate and CO2
Probab=25.48 E-value=76 Score=23.05 Aligned_cols=32 Identities=13% Similarity=0.162 Sum_probs=23.8
Q ss_pred cHHHHHHHhccCCCCCceeEEecCCCeEEEeCc
Q 034429 19 PFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNP 51 (95)
Q Consensus 19 ~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~ 51 (95)
.-+.+|.+++.+|++.--++|.+ |+.+++-|.
T Consensus 204 ~al~~l~~~~~~~~~~~~~~l~~-Gdivi~DN~ 235 (262)
T cd00250 204 EALAELVALIEDPDNQLTVKLEP-GDLLIFDNR 235 (262)
T ss_pred HHHHHHHHHHcChhhEEEEEcCC-CCEEEEech
Confidence 34788889999988877888866 676666553
No 34
>cd03087 PGM_like1 This archaeal PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this superfamily include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=25.17 E-value=2e+02 Score=22.76 Aligned_cols=37 Identities=11% Similarity=0.118 Sum_probs=28.6
Q ss_pred CCCcHHHHHHHhccCCCCCceeEEecCCCeEEEeCch
Q 034429 16 GPAPFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPP 52 (95)
Q Consensus 16 ~~~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~ 52 (95)
..+.-+..|.+++.....+=.|..++||+.+.+.|.+
T Consensus 209 p~~~~l~~l~~~v~~~~adlgia~D~DgDR~~~vd~~ 245 (439)
T cd03087 209 PTPENLSELMELVRATGADLGIAHDGDADRAVFVDEK 245 (439)
T ss_pred CCHHHHHHHHHHHHhcCCCEEEEEcCCCceEEEECCC
Confidence 3356677888888776677788899999999988754
No 35
>KOG1009 consensus Chromatin assembly complex 1 subunit B/CAC2 (contains WD40 repeats) [Chromatin structure and dynamics; Replication, recombination and repair]
Probab=24.75 E-value=34 Score=28.04 Aligned_cols=23 Identities=26% Similarity=0.538 Sum_probs=19.2
Q ss_pred ceeEEecCCCeEEEeCchhhHHh
Q 034429 35 EIVSWSDNKNSFVVWNPPEFARL 57 (95)
Q Consensus 35 ~iI~W~~~G~sfiI~d~~~f~~~ 57 (95)
..|+|++||....|...+.|+.-
T Consensus 346 TDiaws~dg~~l~vSS~DGyCS~ 368 (434)
T KOG1009|consen 346 TDIAWSDDGSVLLVSSTDGFCSL 368 (434)
T ss_pred cceeecCCCcEEEEeccCCceEE
Confidence 45889999999999888888764
No 36
>cd03089 PMM_PGM The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a bisphosphorylated sugar intermediate. The reaction involves two phosphoryl transfers, with an intervening 180 degree reorientation of the reaction intermediate during catalysis. Reorientation of the intermediate occurs without dissociation from the active site of the enzyme and is thus, a simple example of processivity, as defined by multiple rounds of catalysis without release of substrate. Glucose-6-phosphate and glucose-1-phosphate are known to be utilized for energy metabolism and cell surface construction, respectively. PMM/PGM belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other membe
Probab=24.71 E-value=1.8e+02 Score=23.08 Aligned_cols=35 Identities=11% Similarity=0.131 Sum_probs=29.1
Q ss_pred CcHHHHHHHhccCCCCCceeEEecCCCeEEEeCch
Q 034429 18 APFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPP 52 (95)
Q Consensus 18 ~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~ 52 (95)
+.-+..|.+++.....+=.|..++||+.+.|.|++
T Consensus 211 ~~~l~~l~~~v~~~~adlgia~D~DaDR~~ivd~~ 245 (443)
T cd03089 211 PENLEDLIAAVKENGADLGIAFDGDGDRLGVVDEK 245 (443)
T ss_pred HHHHHHHHHHHHHcCCCEEEEecCCcceeEEECCC
Confidence 46678888888877677888999999999998864
No 37
>COG3386 Gluconolactonase [Carbohydrate transport and metabolism]
Probab=24.67 E-value=47 Score=25.60 Aligned_cols=26 Identities=19% Similarity=0.392 Sum_probs=19.4
Q ss_pred hccC-CCCCceeEEecCCCeEEEeCch
Q 034429 27 MVDD-SSTDEIVSWSDNKNSFVVWNPP 52 (95)
Q Consensus 27 ml~~-~~~~~iI~W~~~G~sfiI~d~~ 52 (95)
++.+ -...+-|.|||||+.+.+.|..
T Consensus 157 l~~~~~~~~NGla~SpDg~tly~aDT~ 183 (307)
T COG3386 157 LLDDDLTIPNGLAFSPDGKTLYVADTP 183 (307)
T ss_pred eecCcEEecCceEECCCCCEEEEEeCC
Confidence 3444 4456789999999999998763
No 38
>PF13184 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW_A 1K0R_B 2ASB_A.
Probab=24.22 E-value=66 Score=19.43 Aligned_cols=32 Identities=22% Similarity=0.432 Sum_probs=21.2
Q ss_pred HHHHHHHhccCCCCCceeEEecCCCeEEEeCchhhHHhhcc
Q 034429 20 FLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPPEFARLLLP 60 (95)
Q Consensus 20 F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~vLp 60 (95)
-++.|-+-|++... ++|.|++| +.+|.+..|.
T Consensus 29 rik~i~~~L~gekI-dvV~~s~d--------~~~fI~nal~ 60 (69)
T PF13184_consen 29 RIKAISEELNGEKI-DVVEYSDD--------PKEFIKNALS 60 (69)
T ss_dssp CHHHHHHHTTT-EE-EEEE--SS--------HHHHHHHHTT
T ss_pred HHHHHHHHhCCCeE-EEEEcCCC--------HHHHHHHhCC
Confidence 46778888876544 89999986 7788877664
No 39
>PF00930 DPPIV_N: Dipeptidyl peptidase IV (DPP IV) N-terminal region; InterPro: IPR002469 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain defines serine peptidases belonging to MEROPS peptidase family S9 (clan SC), subfamily S9B (dipeptidyl-peptidase IV). The protein fold of the peptidase domain for members of this family resembles that of serine carboxypeptidase D, the type example of clan SC. This domain is an alignment of the region to the N-terminal side of the active site, which is found in IPR001375 from INTERPRO. CD26 (3.4.14.5 from EC) is also called adenosine deaminase-binding protein (ADA-binding protein) or dipeptidylpeptidase IV (DPP IV ectoenzyme). The exopeptidase cleaves off N-terminal X-Pro or X-Ala dipeptides from polypeptides (dipeptidyl peptidase IV activity). CD26 serves as the costimulatory molecule in T cell activation and is an associated marker of autoimmune diseases, adenosine deaminase-deficiency and HIV pathogenesis. Dipeptidyl peptidase IV (DPP IV) is responsible for the removal of N-terminal dipeptides sequentially from polypeptides having unsubstituted N termini, provided that the penultimate residue is proline. The enzyme catalyses the reaction: Dipeptidyl-Polypeptide + H(2)O = Dipeptide + Polypeptide It is a type II membrane protein that forms a homodimer. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0006508 proteolysis, 0016020 membrane; PDB: 2RIP_A 3Q8W_B 2AJL_I 1TKR_B 1TK3_B 3C45_A 2G5P_A 3G0C_D 1R9M_C 1RWQ_A ....
Probab=23.93 E-value=80 Score=24.06 Aligned_cols=45 Identities=20% Similarity=0.400 Sum_probs=23.3
Q ss_pred CCCCcHHHHHHHhccCCCCCceeEEecCCCeEEEe--CchhhHHhhccccc
Q 034429 15 GGPAPFLIKTYDMVDDSSTDEIVSWSDNKNSFVVW--NPPEFARLLLPTYF 63 (95)
Q Consensus 15 ~~~~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~--d~~~f~~~vLp~~F 63 (95)
.+.+.++-. -+|++. ...++|+|||+.+... |..+....-++.|-
T Consensus 88 nG~~dwvye-EEv~~~---~~~~~WSpd~~~la~~~~d~~~v~~~~~~~~~ 134 (353)
T PF00930_consen 88 NGVPDWVYE-EEVFDR---RSAVWWSPDSKYLAFLRFDEREVPEYPLPDYS 134 (353)
T ss_dssp ESB--HHHH-HHTSSS---SBSEEE-TTSSEEEEEEEE-TTS-EEEEEEES
T ss_pred cCccceecc-cccccc---ccceEECCCCCEEEEEEECCcCCceEEeeccC
Confidence 444555433 245555 3679999999987663 44444444455443
No 40
>KOG2919 consensus Guanine nucleotide-binding protein [General function prediction only]
Probab=23.55 E-value=55 Score=26.44 Aligned_cols=18 Identities=11% Similarity=0.287 Sum_probs=13.5
Q ss_pred ceeEEecCCCeEEEeCch
Q 034429 35 EIVSWSDNKNSFVVWNPP 52 (95)
Q Consensus 35 ~iI~W~~~G~sfiI~d~~ 52 (95)
.--.|+|||.+|.....+
T Consensus 53 kgckWSPDGSciL~~sed 70 (406)
T KOG2919|consen 53 KGCKWSPDGSCILSLSED 70 (406)
T ss_pred ccceeCCCCceEEeeccc
Confidence 345799999999876443
No 41
>PLN03185 phosphatidylinositol phosphate kinase; Provisional
Probab=23.52 E-value=36 Score=29.82 Aligned_cols=50 Identities=14% Similarity=0.143 Sum_probs=27.2
Q ss_pred ceeEEecCCCeEEEe----CchhhHHhhcccccCCcCchhhhhccccCCceEecc
Q 034429 35 EIVSWSDNKNSFVVW----NPPEFARLLLPTYFKHNNFSSFIRQLNTYVQIIINK 85 (95)
Q Consensus 35 ~iI~W~~~G~sfiI~----d~~~f~~~vLp~~F~~~~~~SF~RqLn~YGF~kv~~ 85 (95)
...--+.|++ |||- .+.++...+||.||.|-+-..=.=....||..++..
T Consensus 449 S~Fy~S~D~r-FiIKTI~k~E~~~l~~iLp~Y~~hv~~n~~TLL~kf~Gl~~i~~ 502 (765)
T PLN03185 449 SVFFLSQDDR-FMIKTLRKSEVKVLLRMLPDYHHHVKTYENTLITKFFGLHRIKP 502 (765)
T ss_pred CeEEEecCCc-EEEEecCHHHHHHHHHHHHHHHHHHhhCCCcchhhheEEEEEEe
Confidence 3444455554 5653 234455678999998843221111235577777753
No 42
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=22.85 E-value=1.6e+02 Score=21.43 Aligned_cols=34 Identities=9% Similarity=0.095 Sum_probs=28.5
Q ss_pred CCCcHHHHHHHhcc-CCCCCceeEEecCCCeEEEe
Q 034429 16 GPAPFLIKTYDMVD-DSSTDEIVSWSDNKNSFVVW 49 (95)
Q Consensus 16 ~~~~F~~kL~~ml~-~~~~~~iI~W~~~G~sfiI~ 49 (95)
....|-.+|.+.|- +.-...+..|.++|..|.|.
T Consensus 178 ~~~g~G~~Lv~~lv~~q~~g~~~~~~~~Gt~~~i~ 212 (221)
T COG3920 178 SRGGFGLQLVERLVPEQLGGELEDERPDGTEFRLR 212 (221)
T ss_pred CCCCcHHHHHHHHHHHHcCCeEEEEcCCCEEEEEE
Confidence 67889899888888 66667888899999999884
No 43
>PF11042 DUF2750: Protein of unknown function (DUF2750); InterPro: IPR021284 This family is conserved in Proteobacteria. The function is not known.
Probab=22.48 E-value=1.3e+02 Score=19.19 Aligned_cols=39 Identities=18% Similarity=0.079 Sum_probs=26.5
Q ss_pred CcHHHHHHHhccCCCCCceeEEecCCCeEEEeCchhhHHh
Q 034429 18 APFLIKTYDMVDDSSTDEIVSWSDNKNSFVVWNPPEFARL 57 (95)
Q Consensus 18 ~~F~~kL~~ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~ 57 (95)
..|+.+...-|.+....--|-|++++.+++| ++.+|.++
T Consensus 64 ~~Fle~wl~~L~~d~~~vgv~~~~~~~g~~v-~p~el~~~ 102 (104)
T PF11042_consen 64 DEFLEEWLPGLQEDGVLVGVFPNPDLEGIEV-EPEELAED 102 (104)
T ss_pred HHHHHHHhHhHHHCCCEEEEecCCCCcEEEE-cHHHHHHh
Confidence 4577765555555555566889999977665 57777765
No 44
>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=21.88 E-value=78 Score=19.37 Aligned_cols=35 Identities=14% Similarity=0.321 Sum_probs=22.2
Q ss_pred hccCCCCCceeEEecCCCeEEEeCchhhHHhhcccccC
Q 034429 27 MVDDSSTDEIVSWSDNKNSFVVWNPPEFARLLLPTYFK 64 (95)
Q Consensus 27 ml~~~~~~~iI~W~~~G~sfiI~d~~~f~~~vLp~~F~ 64 (95)
+|.|.+- .+|-|+|+|+.+....+.. ..||-+|-+
T Consensus 36 ~Lc~~~v-~lvv~sp~gk~~~f~s~s~--~~vl~ry~~ 70 (77)
T cd00265 36 VLCDAEV-ALIIFSSSGKLYEFSSPSM--EKIIERYQK 70 (77)
T ss_pred eccCCce-eEEEEcCCCceEEecCCCH--HHHHHHHHh
Confidence 4555433 5666999998766655442 667777643
No 45
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=21.77 E-value=50 Score=19.98 Aligned_cols=22 Identities=18% Similarity=0.205 Sum_probs=17.8
Q ss_pred CcCchhhhhccccCCceEeccC
Q 034429 65 HNNFSSFIRQLNTYVQIIINKS 86 (95)
Q Consensus 65 ~~~~~SF~RqLn~YGF~kv~~~ 86 (95)
.....-|-++|+.|+|.+|-.+
T Consensus 11 ~~~v~d~K~~Lr~y~~~~I~~d 32 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRWDRIRDD 32 (66)
T ss_pred CccHHHHHHHHhcCCcceEEec
Confidence 3456778899999999988765
No 46
>KOG0973 consensus Histone transcription regulator HIRA, WD repeat superfamily [Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=21.61 E-value=61 Score=29.18 Aligned_cols=29 Identities=14% Similarity=0.106 Sum_probs=20.1
Q ss_pred HHHhccCCCCCceeEEecCCCeEEEeCch
Q 034429 24 TYDMVDDSSTDEIVSWSDNKNSFVVWNPP 52 (95)
Q Consensus 24 L~~ml~~~~~~~iI~W~~~G~sfiI~d~~ 52 (95)
|..|.+.-..-.+|+|++||..+-+-..+
T Consensus 62 l~~m~~h~~sv~CVR~S~dG~~lAsGSDD 90 (942)
T KOG0973|consen 62 LCTMDDHDGSVNCVRFSPDGSYLASGSDD 90 (942)
T ss_pred heeeccccCceeEEEECCCCCeEeeccCc
Confidence 34444444556899999999987765444
No 47
>KOG0294 consensus WD40 repeat-containing protein [Function unknown]
Probab=21.02 E-value=86 Score=25.14 Aligned_cols=20 Identities=35% Similarity=0.605 Sum_probs=16.2
Q ss_pred CCCceeEEecCCCeEEEeCc
Q 034429 32 STDEIVSWSDNKNSFVVWNP 51 (95)
Q Consensus 32 ~~~~iI~W~~~G~sfiI~d~ 51 (95)
.+..+|+|++.|+.|+|.-+
T Consensus 169 ~~at~v~w~~~Gd~F~v~~~ 188 (362)
T KOG0294|consen 169 NKATLVSWSPQGDHFVVSGR 188 (362)
T ss_pred CcceeeEEcCCCCEEEEEec
Confidence 35678999999999988643
Done!