Query 046437
Match_columns 125
No_of_seqs 125 out of 710
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 12:05:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046437.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046437hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02365 NAM: No apical merist 99.9 1.9E-26 4.1E-31 166.7 1.4 65 60-125 1-66 (129)
2 smart00265 BH4 BH4 Bcl-2 homol 44.9 23 0.0005 20.3 2.1 20 69-88 4-23 (27)
3 PLN02417 dihydrodipicolinate s 40.5 17 0.00038 29.5 1.6 23 56-79 99-121 (280)
4 TIGR02313 HpaI-NOT-DapA 2,4-di 40.5 18 0.00038 29.7 1.6 26 53-79 95-120 (294)
5 cd00954 NAL N-Acetylneuraminic 36.0 26 0.00056 28.4 1.9 22 57-79 100-121 (288)
6 PF07960 CBP4: CBP4; InterPro 35.6 20 0.00044 27.2 1.2 18 66-83 29-49 (128)
7 PF01473 CW_binding_1: Putativ 34.6 26 0.00056 17.6 1.1 9 114-122 7-15 (19)
8 cd00952 CHBPH_aldolase Trans-o 34.0 24 0.00052 29.2 1.4 24 53-77 103-126 (309)
9 TIGR00674 dapA dihydrodipicoli 33.7 29 0.00062 28.0 1.8 26 53-79 93-118 (285)
10 PHA00692 hypothetical protein 33.0 16 0.00035 25.0 0.3 11 57-67 34-44 (74)
11 cd00950 DHDPS Dihydrodipicolin 31.5 30 0.00065 27.6 1.6 26 53-79 95-120 (284)
12 PF04700 Baculo_gp41: Structur 29.4 52 0.0011 26.6 2.6 21 69-89 6-28 (186)
13 PRK04147 N-acetylneuraminate l 29.3 39 0.00085 27.4 1.9 22 57-79 103-124 (293)
14 PF02180 BH4: Bcl-2 homology r 28.9 45 0.00098 19.2 1.6 20 69-88 4-23 (27)
15 PRK03170 dihydrodipicolinate s 27.9 40 0.00086 27.2 1.7 23 55-78 98-120 (292)
16 COG4472 Uncharacterized protei 27.2 38 0.00082 24.4 1.3 12 70-81 73-84 (88)
17 PF13822 ACC_epsilon: Acyl-CoA 26.0 35 0.00076 22.3 0.9 9 67-75 10-18 (62)
18 cd00408 DHDPS-like Dihydrodipi 22.3 57 0.0012 25.9 1.7 23 56-79 95-117 (281)
19 smart00707 RPEL Repeat in Dros 22.0 61 0.0013 18.3 1.3 12 64-75 7-18 (26)
20 TIGR03249 KdgD 5-dehydro-4-deo 21.9 56 0.0012 26.6 1.6 23 56-79 102-124 (296)
21 COG0442 ProS Prolyl-tRNA synth 21.5 66 0.0014 29.3 2.1 37 64-100 104-141 (500)
22 PF13145 Rotamase_2: PPIC-type 21.1 66 0.0014 21.0 1.5 15 68-82 1-15 (121)
No 1
>PF02365 NAM: No apical meristem (NAM) protein; InterPro: IPR003441 The NAC domain (for Petunia hybrida (Petunia) NAM and for Arabidopsis ATAF1, ATAF2, and CUC2) is an N-terminal module of ~160 amino acids, which is found in proteins of the NAC family of plant-specific transcriptional regulators (no apical meristem (NAM) proteins) []. NAC proteins are involved in developmental processes, including formation of the shoot apical meristem, floral organs and lateral shoots, as well as in plant hormonal control and defence. The NAC domain is accompanied by diverse C-terminal transcriptional activation domains. The NAC domain has been shown to be a DNA-binding domain (DBD) and a dimerization domain [,]. The NAC domain can be subdivided into five subdomains (A-E). Each subdomain is distinguishable by blocks of heterogeneous amino acids or gaps. While the NAC domains were rich in basic amino acids (R, K and H) as a whole, the distribution of positive and negative amino acids in each subdomain were unequal. Subdomains C and D are rich in basic amino acids but poor in acidic amino acids, while subdomain B contains a high proportion of acidic amino acids. Putative nuclear localization signals (NLS) have been detected in subdomains C and D []. The DBD is contained within a 60 amino acid region located within subdomains D and E []. The overall structure of the NAC domain monomer consists of a very twisted antiparallel beta-sheet, which packs against an N-terminal alpha-helix on one side and one shorter helix on the other side surrounded by a few helical elements. The structure suggests that the NAC domain mediates dimerization through conserved interactions including a salt bridge, and DNA binding through the NAC dimer face rich in positive charges [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1UT4_A 3SWM_B 4DUL_B 3SWP_D 1UT7_B 3ULX_A.
Probab=99.92 E-value=1.9e-26 Score=166.71 Aligned_cols=65 Identities=49% Similarity=1.001 Sum_probs=47.4
Q ss_pred CCCCCeeCCChHHHHHHHhhhhhcCCCCCC-CcceeecCCCCCCCccccccCCCCCccEEEecccCC
Q 046437 60 FPPGYRFKPHDIELLVHYLRRKRMNEPLPP-NRIKEVHLYKFNPDTLSEKYKPFGENEWYFFTPRER 125 (125)
Q Consensus 60 LPpGFRF~PTDEELV~~YLr~Ki~G~plp~-~~I~evDVY~~ePWdLp~~~~~~gd~eWYFFspR~R 125 (125)
|||||||+|||+|||.+||++|+.|.+++. .+|.++|||+++||+|+.. ...++.+|||||++++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~-~~~~~~~~yFF~~~~~ 66 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAK-FKGGDEEWYFFSPRKK 66 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHH-SSS-SSEEEEEEE---
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhh-ccCCCceEEEEEeccc
Confidence 799999999999999999999999999887 7999999999999999954 3346779999999863
No 2
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=44.92 E-value=23 Score=20.32 Aligned_cols=20 Identities=25% Similarity=0.336 Sum_probs=16.0
Q ss_pred ChHHHHHHHhhhhhcCCCCC
Q 046437 69 HDIELLVHYLRRKRMNEPLP 88 (125)
Q Consensus 69 TDEELV~~YLr~Ki~G~plp 88 (125)
+-.|||.+|+.-|+.-+-.+
T Consensus 4 ~nRelV~~yv~yKLsQrgy~ 23 (27)
T smart00265 4 DNRELVVDYVTYKLSQNGYE 23 (27)
T ss_pred chHHHHHHHHHHHHhhcCCC
Confidence 45799999999999866543
No 3
>PLN02417 dihydrodipicolinate synthase
Probab=40.49 E-value=17 Score=29.45 Aligned_cols=23 Identities=22% Similarity=0.245 Sum_probs=17.3
Q ss_pred CCCCCCCCCeeCCChHHHHHHHhh
Q 046437 56 FDDNFPPGYRFKPHDIELLVHYLR 79 (125)
Q Consensus 56 ~~~~LPpGFRF~PTDEELV~~YLr 79 (125)
..+.+|| |-|.||++||+.||-.
T Consensus 99 av~~~~P-~y~~~~~~~i~~~f~~ 121 (280)
T PLN02417 99 AALHINP-YYGKTSQEGLIKHFET 121 (280)
T ss_pred EEEEcCC-ccCCCCHHHHHHHHHH
Confidence 3555666 5589999999998843
No 4
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=40.47 E-value=18 Score=29.67 Aligned_cols=26 Identities=27% Similarity=0.397 Sum_probs=19.1
Q ss_pred CCCCCCCCCCCCeeCCChHHHHHHHhh
Q 046437 53 GPEFDDNFPPGYRFKPHDIELLVHYLR 79 (125)
Q Consensus 53 ~~~~~~~LPpGFRF~PTDEELV~~YLr 79 (125)
+-...+.+||-| |.||++||+.||-.
T Consensus 95 Gad~v~v~pP~y-~~~~~~~l~~~f~~ 120 (294)
T TIGR02313 95 GADAAMVIVPYY-NKPNQEALYDHFAE 120 (294)
T ss_pred CCCEEEEcCccC-CCCCHHHHHHHHHH
Confidence 434456666665 89999999998844
No 5
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=35.97 E-value=26 Score=28.40 Aligned_cols=22 Identities=23% Similarity=0.153 Sum_probs=16.1
Q ss_pred CCCCCCCCeeCCChHHHHHHHhh
Q 046437 57 DDNFPPGYRFKPHDIELLVHYLR 79 (125)
Q Consensus 57 ~~~LPpGFRF~PTDEELV~~YLr 79 (125)
.+.+||-| |.||++||+.||..
T Consensus 100 v~~~~P~y-~~~~~~~i~~~~~~ 121 (288)
T cd00954 100 ISAITPFY-YKFSFEEIKDYYRE 121 (288)
T ss_pred EEEeCCCC-CCCCHHHHHHHHHH
Confidence 34456654 78999999998854
No 6
>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=35.64 E-value=20 Score=27.25 Aligned_cols=18 Identities=33% Similarity=0.678 Sum_probs=12.9
Q ss_pred eCCChHHHHHHH---hhhhhc
Q 046437 66 FKPHDIELLVHY---LRRKRM 83 (125)
Q Consensus 66 F~PTDEELV~~Y---Lr~Ki~ 83 (125)
=.||||||+..| |+++.+
T Consensus 29 ~tPTeEeL~~r~sPELrkr~~ 49 (128)
T PF07960_consen 29 TTPTEEELFKRYSPELRKRYL 49 (128)
T ss_pred cCCCHHHHHHhcCHHHHHHHH
Confidence 379999999876 444443
No 7
>PF01473 CW_binding_1: Putative cell wall binding repeat; InterPro: IPR018337 The cell wall-binding repeat (CW) is an about 20 amino acid residue module, essentially found in two bacterial Gram-positive protein families; the choline binding proteins and glucosyltransferases (2.4.1.5 from EC). In choline-binding proteins cell wall binding repeats bind to choline moieties of both teichoic and lipoteichoic acids, two components peculiar to the cell surface of Gram-positive bacteria [, ]. In glucosyltransferases the region spanning the CW repeats is a glucan binding domain []. Several crystal structures of CW have been solved [, ]. In the choline binding protein LytA, the repeats adopt a solenoid fold consisting exclusively of beta-hairpins that stack to form a left-handed superhelix with a boomerang-like shape. The choline groups bind between beta-hairpin 'steps' of the superhelix []. In Cpl-1 CW repeats assemble in two sub-domains: an N-terminal superhelical moiety similar to the LytA one and a C-terminal beta-sheet involved in interactions with the lysozyme domain. Choline is bound between repeats 1 and 2, and, 2 and 3 of the superhelical sub-domain []. Some proteins known to contain cell-wall binding repeats include: Pneumococcal N-acetylmuramoyl-L-alanine amidase (autolysin, lytA) (3.5.1.28 from EC). It is a surface-exposed enzyme that rules the self-destruction of pneumococcal cells through degradation of their peptidoglycan backbone. It mediates the release of toxic substances that damage the host tissues. Pneumococcal endo-beta-N-acetylglucosaminidase (lytB) (3.2.1.96 from EC). It plays an important role in cell wall degradation and cell separation. Pneumococcal teichoic acid phosphorylcholine esterase (pce or cbpE), a cell wall hydrolase important for cellular adhesion and colonisation. Lactobacillales glucosyltransferase. It catalyses the transfer of glucosyl units from the cleavage of sucrose to a growing chain of glucan. Clostridium difficile toxin A (tcdA) and toxin B (tcdb). They are the causative agents of the antibiotic-associated pseudomembranous colitis. They are intracellular acting toxins that reach their targets after receptor-mediated endocytosis. Clostridium acetobutylicum cspA protein. Siphoviridae bacteriophages N-acetylmuramoyl-L-alanine amidase. It lyses the bacterial host cell wall. Podoviridae lysozyme protein (cpl-1). It is capable of digesting the pneumococcal cell wall. The cell wall binding repeats are also known as the choline-binding repeats (ChBr) or the choline-binding domain (ChBD). ; PDB: 1GVM_C 2BML_B 1HCX_A 1OBA_A 1H09_A 2J8F_A 2IXU_A 2J8G_A 2IXV_A 2X8O_A ....
Probab=34.63 E-value=26 Score=17.60 Aligned_cols=9 Identities=33% Similarity=1.357 Sum_probs=6.7
Q ss_pred CccEEEecc
Q 046437 114 ENEWYFFTP 122 (125)
Q Consensus 114 d~eWYFFsp 122 (125)
++.||||..
T Consensus 7 ~~~wYy~~~ 15 (19)
T PF01473_consen 7 NGNWYYFDS 15 (19)
T ss_dssp TTEEEEETT
T ss_pred CCEEEEeCC
Confidence 467999954
No 8
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=34.03 E-value=24 Score=29.19 Aligned_cols=24 Identities=13% Similarity=-0.031 Sum_probs=18.3
Q ss_pred CCCCCCCCCCCCeeCCChHHHHHHH
Q 046437 53 GPEFDDNFPPGYRFKPHDIELLVHY 77 (125)
Q Consensus 53 ~~~~~~~LPpGFRF~PTDEELV~~Y 77 (125)
+....+.+|| |-|.||++||+.||
T Consensus 103 Gad~vlv~~P-~y~~~~~~~l~~yf 126 (309)
T cd00952 103 GADGTMLGRP-MWLPLDVDTAVQFY 126 (309)
T ss_pred CCCEEEECCC-cCCCCCHHHHHHHH
Confidence 3344566777 56899999999988
No 9
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=33.71 E-value=29 Score=28.02 Aligned_cols=26 Identities=27% Similarity=0.271 Sum_probs=19.1
Q ss_pred CCCCCCCCCCCCeeCCChHHHHHHHhh
Q 046437 53 GPEFDDNFPPGYRFKPHDIELLVHYLR 79 (125)
Q Consensus 53 ~~~~~~~LPpGFRF~PTDEELV~~YLr 79 (125)
+-...+.+||-| |.||++||+.||..
T Consensus 93 Gad~v~v~pP~y-~~~~~~~i~~~~~~ 118 (285)
T TIGR00674 93 GADGFLVVTPYY-NKPTQEGLYQHFKA 118 (285)
T ss_pred CCCEEEEcCCcC-CCCCHHHHHHHHHH
Confidence 434455666665 78999999998865
No 10
>PHA00692 hypothetical protein
Probab=33.04 E-value=16 Score=25.03 Aligned_cols=11 Identities=45% Similarity=1.093 Sum_probs=8.9
Q ss_pred CCCCCCCCeeC
Q 046437 57 DDNFPPGYRFK 67 (125)
Q Consensus 57 ~~~LPpGFRF~ 67 (125)
-...||||||-
T Consensus 34 fveyppgfrfg 44 (74)
T PHA00692 34 FVEYPPGFRFG 44 (74)
T ss_pred eEecCCCcccc
Confidence 45789999995
No 11
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=31.47 E-value=30 Score=27.62 Aligned_cols=26 Identities=27% Similarity=0.383 Sum_probs=18.4
Q ss_pred CCCCCCCCCCCCeeCCChHHHHHHHhh
Q 046437 53 GPEFDDNFPPGYRFKPHDIELLVHYLR 79 (125)
Q Consensus 53 ~~~~~~~LPpGFRF~PTDEELV~~YLr 79 (125)
+-...+.+||.| |.||++||+.||-.
T Consensus 95 G~d~v~~~~P~~-~~~~~~~l~~~~~~ 120 (284)
T cd00950 95 GADAALVVTPYY-NKPSQEGLYAHFKA 120 (284)
T ss_pred CCCEEEEccccc-CCCCHHHHHHHHHH
Confidence 333456677755 88999999987743
No 12
>PF04700 Baculo_gp41: Structural glycoprotein p40/gp41 conserved region; InterPro: IPR006790 This is a family of viral structural glycoproteins [] from the baculoviridae.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=29.36 E-value=52 Score=26.65 Aligned_cols=21 Identities=33% Similarity=0.487 Sum_probs=15.4
Q ss_pred ChHHHHHHH--hhhhhcCCCCCC
Q 046437 69 HDIELLVHY--LRRKRMNEPLPP 89 (125)
Q Consensus 69 TDEELV~~Y--Lr~Ki~G~plp~ 89 (125)
+|||||.|| |.+|..|...+.
T Consensus 6 sDe~Li~yY~~L~K~~g~~~~~~ 28 (186)
T PF04700_consen 6 SDEELIEYYANLEKKYGGSDVPS 28 (186)
T ss_pred cHHHHHHHHHHHHHHhCCCCCCc
Confidence 799999999 556666665443
No 13
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=29.26 E-value=39 Score=27.41 Aligned_cols=22 Identities=14% Similarity=-0.054 Sum_probs=15.7
Q ss_pred CCCCCCCCeeCCChHHHHHHHhh
Q 046437 57 DDNFPPGYRFKPHDIELLVHYLR 79 (125)
Q Consensus 57 ~~~LPpGFRF~PTDEELV~~YLr 79 (125)
.+.+||. -|.||++||+.||-.
T Consensus 103 v~v~~P~-y~~~~~~~l~~~f~~ 124 (293)
T PRK04147 103 ISAVTPF-YYPFSFEEICDYYRE 124 (293)
T ss_pred EEEeCCc-CCCCCHHHHHHHHHH
Confidence 4444554 499999999987744
No 14
>PF02180 BH4: Bcl-2 homology region 4; InterPro: IPR003093 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 1AF3_A 2PON_B 1YSN_A 3PL7_B 3R85_A 2O2N_A 2P1L_C 1R2G_A 2O1Y_A 1BXL_A ....
Probab=28.95 E-value=45 Score=19.16 Aligned_cols=20 Identities=20% Similarity=0.235 Sum_probs=15.3
Q ss_pred ChHHHHHHHhhhhhcCCCCC
Q 046437 69 HDIELLVHYLRRKRMNEPLP 88 (125)
Q Consensus 69 TDEELV~~YLr~Ki~G~plp 88 (125)
.-.|||.+|+.-|+.-+-.+
T Consensus 4 ~nR~lV~~yi~yKLsQrgy~ 23 (27)
T PF02180_consen 4 DNRELVEDYISYKLSQRGYV 23 (27)
T ss_dssp HHHHHHHHHHHHHHHHTTST
T ss_pred cHHHHHHHHHHHHhhhcCCC
Confidence 34799999999998765443
No 15
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=27.91 E-value=40 Score=27.18 Aligned_cols=23 Identities=26% Similarity=0.275 Sum_probs=17.1
Q ss_pred CCCCCCCCCCeeCCChHHHHHHHh
Q 046437 55 EFDDNFPPGYRFKPHDIELLVHYL 78 (125)
Q Consensus 55 ~~~~~LPpGFRF~PTDEELV~~YL 78 (125)
...+.+||-| |.|+++||+.||-
T Consensus 98 d~v~~~pP~~-~~~~~~~i~~~~~ 120 (292)
T PRK03170 98 DGALVVTPYY-NKPTQEGLYQHFK 120 (292)
T ss_pred CEEEECCCcC-CCCCHHHHHHHHH
Confidence 3355567765 8999999998873
No 16
>COG4472 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.19 E-value=38 Score=24.36 Aligned_cols=12 Identities=33% Similarity=0.396 Sum_probs=10.1
Q ss_pred hHHHHHHHhhhh
Q 046437 70 DIELLVHYLRRK 81 (125)
Q Consensus 70 DEELV~~YLr~K 81 (125)
-||||.+||+.+
T Consensus 73 vEElvk~YLk~~ 84 (88)
T COG4472 73 VEELVKYYLKGN 84 (88)
T ss_pred HHHHHHHHHhhc
Confidence 489999999865
No 17
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=25.97 E-value=35 Score=22.30 Aligned_cols=9 Identities=44% Similarity=0.615 Sum_probs=7.4
Q ss_pred CCChHHHHH
Q 046437 67 KPHDIELLV 75 (125)
Q Consensus 67 ~PTDEELV~ 75 (125)
+||+|||--
T Consensus 10 nPt~eElAA 18 (62)
T PF13822_consen 10 NPTDEELAA 18 (62)
T ss_pred CCCHHHHHH
Confidence 799999853
No 18
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=22.34 E-value=57 Score=25.88 Aligned_cols=23 Identities=26% Similarity=0.332 Sum_probs=16.3
Q ss_pred CCCCCCCCCeeCCChHHHHHHHhh
Q 046437 56 FDDNFPPGYRFKPHDIELLVHYLR 79 (125)
Q Consensus 56 ~~~~LPpGFRF~PTDEELV~~YLr 79 (125)
..+.+||-| |.||++||+.||-.
T Consensus 95 ~v~v~pP~y-~~~~~~~~~~~~~~ 117 (281)
T cd00408 95 GVLVVPPYY-NKPSQEGIVAHFKA 117 (281)
T ss_pred EEEECCCcC-CCCCHHHHHHHHHH
Confidence 344555554 77999999998744
No 19
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=21.98 E-value=61 Score=18.35 Aligned_cols=12 Identities=25% Similarity=0.199 Sum_probs=10.2
Q ss_pred CeeCCChHHHHH
Q 046437 64 YRFKPHDIELLV 75 (125)
Q Consensus 64 FRF~PTDEELV~ 75 (125)
..++||-||||.
T Consensus 7 l~~RP~~eeLv~ 18 (26)
T smart00707 7 LSQRPTREELEE 18 (26)
T ss_pred HHcCCCHHHHHH
Confidence 467999999996
No 20
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=21.89 E-value=56 Score=26.62 Aligned_cols=23 Identities=17% Similarity=-0.003 Sum_probs=16.7
Q ss_pred CCCCCCCCCeeCCChHHHHHHHhh
Q 046437 56 FDDNFPPGYRFKPHDIELLVHYLR 79 (125)
Q Consensus 56 ~~~~LPpGFRF~PTDEELV~~YLr 79 (125)
..+.+||- -|.|++++|+.||-.
T Consensus 102 av~~~pP~-y~~~s~~~i~~~f~~ 124 (296)
T TIGR03249 102 GYLLLPPY-LINGEQEGLYAHVEA 124 (296)
T ss_pred EEEECCCC-CCCCCHHHHHHHHHH
Confidence 34556664 478999999998744
No 21
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=21.49 E-value=66 Score=29.28 Aligned_cols=37 Identities=14% Similarity=0.204 Sum_probs=28.2
Q ss_pred CeeCCChHHHHHHHhhhhhcCC-CCCCCcceeecCCCC
Q 046437 64 YRFKPHDIELLVHYLRRKRMNE-PLPPNRIKEVHLYKF 100 (125)
Q Consensus 64 FRF~PTDEELV~~YLr~Ki~G~-plp~~~I~evDVY~~ 100 (125)
|-+.||-||+|+.+.+..|.+- .||..+-+=..+|..
T Consensus 104 l~L~PTsEe~it~~~~~~i~SYkdLPl~lYQi~~kfRd 141 (500)
T COG0442 104 LALRPTSEEVITDMFRKWIRSYKDLPLKLYQIQSKFRD 141 (500)
T ss_pred eeeCCCcHHHHHHHHHHHhhhhhhCCcceeeeeeEEec
Confidence 5689999999999999999975 577655544555543
No 22
>PF13145 Rotamase_2: PPIC-type PPIASE domain; PDB: 3NRK_A 2KGJ_A.
Probab=21.10 E-value=66 Score=21.04 Aligned_cols=15 Identities=27% Similarity=0.220 Sum_probs=8.4
Q ss_pred CChHHHHHHHhhhhh
Q 046437 68 PHDIELLVHYLRRKR 82 (125)
Q Consensus 68 PTDEELV~~YLr~Ki 82 (125)
|||+||-.||=.+|-
T Consensus 1 vte~el~~yY~~n~~ 15 (121)
T PF13145_consen 1 VTEEELRAYYEENKD 15 (121)
T ss_dssp --HHHHHHHHHH-HH
T ss_pred CCHHHHHHHHHHHHH
Confidence 577777777766654
Done!