Query 040009
Match_columns 70
No_of_seqs 61 out of 63
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 04:11:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040009.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040009hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00213 predicted protein; Pr 99.9 1.3E-23 2.9E-28 142.7 4.4 58 1-63 53-111 (118)
2 PF05617 Prolamin_like: Prolam 99.8 2.1E-20 4.5E-25 111.6 4.3 58 2-59 8-70 (70)
3 PLN00214 putative protein; Pro 84.6 1.1 2.5E-05 30.7 2.9 39 5-45 46-88 (115)
4 PF09585 Lin0512_fam: Conserve 58.4 7.8 0.00017 26.3 1.8 29 20-48 17-46 (113)
5 cd04660 nsLTP_like nsLTP_like: 58.0 8.5 0.00018 22.9 1.8 18 20-37 23-40 (73)
6 cd00010 AAI_LTSS AAI_LTSS: Alp 53.7 17 0.00037 20.4 2.5 22 13-34 6-28 (63)
7 cd01960 nsLTP1 nsLTP1: Non-spe 46.1 17 0.00038 22.0 1.9 22 13-34 15-37 (89)
8 PF14368 LTP_2: Probable lipid 42.0 10 0.00023 22.5 0.4 52 13-64 34-93 (96)
9 PF07064 RIC1: RIC1; InterPro 41.4 13 0.00029 27.5 1.0 21 28-49 163-183 (258)
10 PF00234 Tryp_alpha_amyl: Prot 29.2 39 0.00084 20.0 1.5 25 13-37 20-45 (90)
11 smart00499 AAI Plant lipid tra 28.2 68 0.0015 17.5 2.3 42 20-61 23-73 (79)
12 PF04109 APG9: Autophagy prote 20.6 60 0.0013 25.7 1.4 27 2-28 330-359 (370)
No 1
>PLN00213 predicted protein; Provisional
Probab=99.88 E-value=1.3e-23 Score=142.66 Aligned_cols=58 Identities=24% Similarity=0.579 Sum_probs=54.7
Q ss_pred CCcchhHHHHHHHHHcCccc-cChhhHHHHHHhhhcchhhhhccCCCCcchhhhhhcccccCCC
Q 040009 1 MELKSCSNDIFIFFFNNQVD-ICPDCCRAIDIITRNCWPAMLTSLGFTAEEGNILRGYCDVSSA 63 (70)
Q Consensus 1 ~~l~~C~~EI~~fflnGq~~-iG~~CC~Ai~~I~~~CWP~Mf~~~gft~~e~~~Lkg~C~~~~~ 63 (70)
++++||+.||++++++||++ ||++|||||...+ +|||+| |++|||| ++||+.|++++.
T Consensus 53 ~~vpGCv~EI~~si~~gkf~~Ig~aCCKAf~~~d-nCwP~~-P~~P~fP---p~LK~~Cs~i~~ 111 (118)
T PLN00213 53 MDIPGCIAEISQSIFTGKFGNLGPACCKAFLDAD-NCIPKI-PFIPFFP---PMLKEQCSRVAG 111 (118)
T ss_pred cCCcchHHHHHHHHHhchhcccchHHHHHHHhhh-ccccCC-cCCCccc---hHHHHHHhcccC
Confidence 58999999999999999997 9999999999977 999996 9999999 999999999943
No 2
>PF05617 Prolamin_like: Prolamin-like; InterPro: IPR008502 This entry consists of several proteins of unknown function found exclusively in Arabidopsis thaliana.
Probab=99.81 E-value=2.1e-20 Score=111.63 Aligned_cols=58 Identities=33% Similarity=0.755 Sum_probs=50.0
Q ss_pred CcchhHHHHHHHHHcCc-cccChhhHHHHHHhhhcchhhhhccCCCCcchhh----hhhcccc
Q 040009 2 ELKSCSNDIFIFFFNNQ-VDICPDCCRAIDIITRNCWPAMLTSLGFTAEEGN----ILRGYCD 59 (70)
Q Consensus 2 ~l~~C~~EI~~fflnGq-~~iG~~CC~Ai~~I~~~CWP~Mf~~~gft~~e~~----~Lkg~C~ 59 (70)
++++|+.||+.+|++|+ ..||++||+||+.++++|||+|+..+|++|.+.+ .|+++|+
T Consensus 8 ~~~~C~~eI~~~~~~g~~~~i~~~CC~~i~~~g~~C~~~l~~~~~~~p~~~~~~r~~l~~~C~ 70 (70)
T PF05617_consen 8 KSPGCGDEIFNSFFNGNKKNIGPECCKAINKMGKDCHPALFKMFPFTPFFKPLLRDLLWNHCS 70 (70)
T ss_pred CccchHHHHHHHHHcCCCCCCChHHHHHHHHHhHhHHHHHHHHccCCCCccchhHHHHHhhcC
Confidence 57999999999999999 5699999999999999999995555555555557 9999996
No 3
>PLN00214 putative protein; Provisional
Probab=84.57 E-value=1.1 Score=30.66 Aligned_cols=39 Identities=21% Similarity=0.468 Sum_probs=31.6
Q ss_pred hhHHHHHHHHH-cCccccChhhHHHHHHhhhcc---hhhhhccCC
Q 040009 5 SCSNDIFIFFF-NNQVDICPDCCRAIDIITRNC---WPAMLTSLG 45 (70)
Q Consensus 5 ~C~~EI~~ffl-nGq~~iG~~CC~Ai~~I~~~C---WP~Mf~~~g 45 (70)
-|..||+..++ ||.+ -..||+-|-..+.+| |=+++.+-|
T Consensus 46 KCa~EI~a~i~~N~t~--s~~CC~~LVk~GK~CH~~LiK~i~~~p 88 (115)
T PLN00214 46 KCALDIIAVVFENGTL--IDPCCNDLVKEGKVCHDTLIKYIADKP 88 (115)
T ss_pred hhHHHHHHHHHcCCCC--chHHHHHHHHHhhHHHHHHHHHHHcch
Confidence 58999999988 6655 789999999999999 666665443
No 4
>PF09585 Lin0512_fam: Conserved hypothetical protein (Lin0512_fam); InterPro: IPR011719 This family consists of few members, broadly distributed. It occurs so far in several Firmicutes (twice in Oceanobacillus), one Cyanobacterium, one alpha Proteobacterium, and (with a long prefix) in plants. The function is unknown. The alignment includes a perfectly conserved motif GxGxDxHG near the N terminus.
Probab=58.37 E-value=7.8 Score=26.29 Aligned_cols=29 Identities=31% Similarity=0.563 Sum_probs=24.0
Q ss_pred ccChhhHHHH-HHhhhcchhhhhccCCCCc
Q 040009 20 DICPDCCRAI-DIITRNCWPAMLTSLGFTA 48 (70)
Q Consensus 20 ~iG~~CC~Ai-~~I~~~CWP~Mf~~~gft~ 48 (70)
+.-.++.+|+ ++|.|+|=|.|+..+|+..
T Consensus 17 D~TkAA~RAv~DAI~~nslp~l~~~~~~~~ 46 (113)
T PF09585_consen 17 DYTKAAVRAVRDAISHNSLPGLFEILGLDL 46 (113)
T ss_pred cHHHHHHHHHHHHHhhcchHHHHHHcCCCh
Confidence 3556788888 4899999999999999955
No 5
>cd04660 nsLTP_like nsLTP_like: Non-specific lipid-transfer protein (nsLTP)-like subfamily; composed of predominantly uncharacterized proteins with similarity to nsLTPs, including Medicago truncatula MtN5, the root-specific Phaseolus vulgaris PVR3, Antirrhinum majus FIL1, and Lilium longiflorum LIM3. Plant nsLTPs are small, soluble proteins that facilitate the transfer of fatty acids, phospholipids, glycolipids, and steroids between membranes. The MtN5 gene is induced during root nodule development. FIL1 is thought to be important in petal and stamen formation. The LIM3 gene is induced during the early prophase stage of meiosis in lily microsporocytes.
Probab=58.04 E-value=8.5 Score=22.91 Aligned_cols=18 Identities=22% Similarity=0.564 Sum_probs=14.5
Q ss_pred ccChhhHHHHHHhhhcch
Q 040009 20 DICPDCCRAIDIITRNCW 37 (70)
Q Consensus 20 ~iG~~CC~Ai~~I~~~CW 37 (70)
.-..+||.+|+..+..|=
T Consensus 23 ~Ps~~CC~~vk~~~~~C~ 40 (73)
T cd04660 23 PPSRECCAALRRADLPCL 40 (73)
T ss_pred CCCHHHHHHHHcCCcCCE
Confidence 367789999999887773
No 6
>cd00010 AAI_LTSS AAI_LTSS: Alpha-Amylase Inhibitors (AAI), Lipid Transfer (LT) and Seed Storage (SS) Protein family; a protein family unique to higher plants that includes cereal-type alpha-amylase inhibitors, lipid transfer proteins, seed storage proteins, and similar proteins. Proteins in this family are known to play important roles, in defending plants from insects and pathogens, lipid transport between intracellular membranes, and nutrient storage. Many proteins of this family have been identified as allergens in humans. These proteins contain a common pattern of eight cysteines that form four disulfide bridges.
Probab=53.67 E-value=17 Score=20.36 Aligned_cols=22 Identities=14% Similarity=0.516 Sum_probs=16.6
Q ss_pred HHHcCcc-ccChhhHHHHHHhhh
Q 040009 13 FFFNNQV-DICPDCCRAIDIITR 34 (70)
Q Consensus 13 fflnGq~-~iG~~CC~Ai~~I~~ 34 (70)
.|++|.. ...+.||.+++.+.+
T Consensus 6 ~y~~~~~~~Ps~~CC~~l~~~~~ 28 (63)
T cd00010 6 SYLTGGATAPPSDCCSGLKSVVK 28 (63)
T ss_pred HHHcCCCCCCChHHHHHHHHHHh
Confidence 4556664 488899999999964
No 7
>cd01960 nsLTP1 nsLTP1: Non-specific lipid-transfer protein type 1 (nsLTP1) subfamily; Plant nsLTPs are small, soluble proteins that facilitate the transfer of fatty acids, phospholipids, glycolipids, and steroids between membranes. In addition to lipid transport and assembly, nsLTPs also play a key role in the defense of plants against pathogens. There are two closely-related types of nsLTPs, types 1 and 2, which differ in protein sequence, molecular weight, and biological properties. nsLTPs contain an internal hydrophobic cavity, which serves as the binding site for lipids. The hydrophobic cavity accommodates various fatty acid ligands containing from ten to 18 carbon atoms. In general, the cavity is larger in nsLTP1 than in nsLTP2. nsLTP1 proteins are located in extracellular layers and in vacuolar structures. They may be involved in the formation of cutin layers on plant surfaces by transporting cutin monomers. Many nsLTP1 proteins have been characterized as allergens in humans.
Probab=46.14 E-value=17 Score=22.03 Aligned_cols=22 Identities=14% Similarity=0.455 Sum_probs=16.5
Q ss_pred HHHcCccc-cChhhHHHHHHhhh
Q 040009 13 FFFNNQVD-ICPDCCRAIDIITR 34 (70)
Q Consensus 13 fflnGq~~-iG~~CC~Ai~~I~~ 34 (70)
.|++|... -.+.||.+++.+-.
T Consensus 15 ~y~~g~~~~Ps~~CC~~v~~l~~ 37 (89)
T cd01960 15 GYLTGGGPAPSPACCSGVKSLNG 37 (89)
T ss_pred HHHhCCCCCCChHHhhhhHHHhh
Confidence 45666554 88999999998753
No 8
>PF14368 LTP_2: Probable lipid transfer; PDB: 2RKN_A 1N89_A 1TUK_A.
Probab=42.03 E-value=10 Score=22.49 Aligned_cols=52 Identities=21% Similarity=0.458 Sum_probs=27.3
Q ss_pred HHHcCccccChhhHHHHHHh---hhcchhhhhccC-----CCCcchhhhhhcccccCCCC
Q 040009 13 FFFNNQVDICPDCCRAIDII---TRNCWPAMLTSL-----GFTAEEGNILRGYCDVSSAP 64 (70)
Q Consensus 13 fflnGq~~iG~~CC~Ai~~I---~~~CWP~Mf~~~-----gft~~e~~~Lkg~C~~~~~p 64 (70)
-+.++....-+.||.+++.+ +.+|==+++... |+..+-.-.|=..|....+|
T Consensus 34 ~~~~~~~~Ps~~CC~~l~~~~~~~~~ClC~~~~~~~~~~~~in~~~a~~Lp~~Cg~~~~~ 93 (96)
T PF14368_consen 34 CYVTGGPAPSAACCSALKSVVQADPPCLCQLLNSPGAPGFGINVTRALALPAACGVPVPP 93 (96)
T ss_dssp HHHCC-----HHHHHHHCC----HCCHHHCCCC-CCHCHHCCTCHHHHHHHHHCTSS-S-
T ss_pred hccCCCCCCCHHHHHHHHHhccCCCCCHHHhcCccccccCCcCHHHHHHHHHHcCCCCCC
Confidence 36677777999999999997 777754444443 34444445555566554433
No 9
>PF07064 RIC1: RIC1; InterPro: IPR009771 This entry represents RIC1 (Ribosomal control protein1) and has been identified in yeast as a Golgi protein involved in retrograde transport to the cis-Golgi network. It forms a heterodimer with Rgp1 and functions as a guanyl-nucleotide exchange factor [] which activates YPT6 by exchanging bound GDP for free GTP. RIC1 is thereby required for efficient fusion of endosome-derived vesicles with the Golgi. The RIC1-RGP1 complex participates in the recycling of SNC1, presumably by mediating fusion of endosomal vesicles with the Golgi compartment and may also be indirectly involved in the transcription of both ribosomal protein genes and ribosomal RNA [, , ].
Probab=41.45 E-value=13 Score=27.49 Aligned_cols=21 Identities=19% Similarity=0.472 Sum_probs=18.5
Q ss_pred HHHHhhhcchhhhhccCCCCcc
Q 040009 28 AIDIITRNCWPAMLTSLGFTAE 49 (70)
Q Consensus 28 Ai~~I~~~CWP~Mf~~~gft~~ 49 (70)
..|.++..-||.+|+.+| +|.
T Consensus 163 C~RKtE~~~W~~LF~~lg-~P~ 183 (258)
T PF07064_consen 163 CARKTEVRYWPYLFDYLG-SPR 183 (258)
T ss_pred HHHhhHHHHHHHHHHhcC-CHH
Confidence 378999999999999999 883
No 10
>PF00234 Tryp_alpha_amyl: Protease inhibitor/seed storage/LTP family This is a small subfamily; InterPro: IPR003612 This domain is found is several proteins, including plant lipid transfer proteins [], seed storage proteins [] and trypsin-alpha amylase inhibitors [, ]. The domain forms a four-helical bundle in a right-handed superhelix with a folded leaf topology, which is stabilised by disulphide bonds, and which has an internal cavity. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; PDB: 1BFA_A 1BEA_A 1MID_A 1BE2_A 1LIP_A 3GSH_A 1JTB_A 1UVC_B 1BV2_A 1UVB_A ....
Probab=29.23 E-value=39 Score=20.00 Aligned_cols=25 Identities=12% Similarity=0.533 Sum_probs=19.3
Q ss_pred HHHcCccc-cChhhHHHHHHhhhcch
Q 040009 13 FFFNNQVD-ICPDCCRAIDIITRNCW 37 (70)
Q Consensus 13 fflnGq~~-iG~~CC~Ai~~I~~~CW 37 (70)
.++.|... .-..||..++.|+..|.
T Consensus 20 ~~~~~~~~~~~~~CC~~L~~l~~~C~ 45 (90)
T PF00234_consen 20 PYLQGGCQQPSQQCCQQLRQLDPQCR 45 (90)
T ss_dssp HHHTTSSSHHHHHHHHHHHHHHHHHH
T ss_pred HHHhcccccchHHHhHHHHHHhHHhh
Confidence 45566554 77789999999999884
No 11
>smart00499 AAI Plant lipid transfer protein / seed storage protein / trypsin-alpha amylase inhibitor domain family.
Probab=28.23 E-value=68 Score=17.53 Aligned_cols=42 Identities=21% Similarity=0.447 Sum_probs=26.1
Q ss_pred ccChhhHHHHHHh-hhcchhhhhcc-----CC---CCcchhhhhhcccccC
Q 040009 20 DICPDCCRAIDII-TRNCWPAMLTS-----LG---FTAEEGNILRGYCDVS 61 (70)
Q Consensus 20 ~iG~~CC~Ai~~I-~~~CWP~Mf~~-----~g---ft~~e~~~Lkg~C~~~ 61 (70)
.....||.+++.+ ...|.=..+.. .. ....-+..|-..|...
T Consensus 23 ~p~~~CC~~l~~~~~~~C~C~~~~~~~~~~~~~~~~~~~~a~~lp~~C~~~ 73 (79)
T smart00499 23 PPSQQCCSQLRGLNSAQCRCLALRAAVLGILEIPGVNAQNAASLPSACGVP 73 (79)
T ss_pred CCchHHHHHHHHhcccCCcchhhhcccccccchhhhhHHHHHhhHHhcCCC
Confidence 4678899999999 88886433322 21 1344445566666543
No 12
>PF04109 APG9: Autophagy protein Apg9 ; InterPro: IPR007241 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg9 plays a direct role in the formation of the cytoplasm to vacuole targeting and autophagic vesicles, possibly serving as a marker for a specialised compartment essential for these vesicle-mediated alternative targeting pathways [].
Probab=20.57 E-value=60 Score=25.65 Aligned_cols=27 Identities=30% Similarity=0.492 Sum_probs=21.8
Q ss_pred CcchhHHHHHHHHHcCccc---cChhhHHH
Q 040009 2 ELKSCSNDIFIFFFNNQVD---ICPDCCRA 28 (70)
Q Consensus 2 ~l~~C~~EI~~fflnGq~~---iG~~CC~A 28 (70)
.++.|+.||+.||.+=.++ +|.-|--|
T Consensus 330 ~Lp~~a~~IvdF~r~~TV~V~GvG~VCsfA 359 (370)
T PF04109_consen 330 SLPKCADEIVDFFREFTVHVDGVGYVCSFA 359 (370)
T ss_pred cccccHHHHHHHHHhceeecCCCCCeeeec
Confidence 4788999999999988875 78777544
Done!