Query 039886
Match_columns 192
No_of_seqs 187 out of 875
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 03:02:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039886.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039886hhsearch_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 5.2E-25 1.1E-29 170.2 8.5 75 8-82 54-129 (129)
2 PF01473 CW_binding_1: Putativ 32.3 33 0.00071 17.4 1.3 9 9-17 7-15 (19)
3 PF05865 Cypo_polyhedrin: Cypo 17.9 1.5E+02 0.0033 24.5 3.3 26 34-59 140-166 (248)
4 COG0616 SppA Periplasmic serin 8.9 1.6E+02 0.0035 26.0 1.0 25 31-55 139-163 (317)
5 COG3100 Uncharacterized protei 7.8 2.9E+02 0.0063 20.6 1.8 15 102-116 10-24 (103)
6 PF08018 Antimicrobial_1: Frog 7.6 72 0.0016 17.8 -1.1 8 103-110 16-23 (24)
7 COG3592 Uncharacterized conser 7.3 2.5E+02 0.0054 19.8 1.2 38 33-78 5-50 (74)
8 PRK10154 hypothetical protein; 7.2 2.5E+02 0.0055 22.0 1.3 20 57-77 81-100 (134)
9 cd08588 PI-PLCc_At5g67130_like 6.6 4.7E+02 0.01 22.6 2.8 26 56-82 149-174 (270)
10 COG5628 Predicted acetyltransf 6.6 5.5E+02 0.012 20.2 2.9 49 35-87 30-79 (143)
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=5.2e-25 Score=170.20 Aligned_cols=75 Identities=61% Similarity=1.229 Sum_probs=58.9
Q ss_pred CCCeEEEeeeccCCCCCCCCCeeecCCcEEEecccceeeec-CCeEEEEEEEEEeeeCCCCCCCccCeEEEEEEeC
Q 039886 8 KEKEFYFFTPRDRKYKNGTRPNRAAGEGYWKATGADKSIKH-NGAVVGFKKTLVFYEGKPPKGDKTFWIMHEYRVN 82 (192)
Q Consensus 8 ge~eWYFFs~r~~k~~~G~R~~R~t~~G~WkatG~~k~I~~-~g~~vG~KktLvFy~gr~p~g~kT~WvMhEYrl~ 82 (192)
++++||||+++.+++.+|.|++|++++|+||++|++++|.. ++.+||+|++|+||.++.+++.+|+|+||||+|.
T Consensus 54 ~~~~~yFF~~~~~~~~~~~r~~R~~~~G~Wk~~g~~~~i~~~~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 54 GDEEWYFFSPRKKKYPNGGRPNRVTGGGYWKSTGKEKPIKDPGGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp -SSEEEEEEE----------S-EEETTEEEEEECEEEEEEE-TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred CCceEEEEEecccccCCcccccccccceEEeecccccccccccceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 57899999999999999999999999999999999999996 9999999999999999889999999999999984
No 2
>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=32.27 E-value=33 Score=17.39 Aligned_cols=9 Identities=22% Similarity=0.910 Sum_probs=6.8
Q ss_pred CCeEEEeee
Q 039886 9 EKEFYFFTP 17 (192)
Q Consensus 9 e~eWYFFs~ 17 (192)
++.||||..
T Consensus 7 ~~~wYy~~~ 15 (19)
T PF01473_consen 7 NGNWYYFDS 15 (19)
T ss_dssp TTEEEEETT
T ss_pred CCEEEEeCC
Confidence 578999943
No 3
>PF05865 Cypo_polyhedrin: Cypovirus polyhedrin protein; InterPro: IPR008464 This family consists of several Cypovirus polyhedrin proteins. Polyhedrin is known to form a crystalline matrix (polyhedra) in infected insect cells [].; PDB: 2OH7_A 2OH5_A 2OH6_A.
Probab=17.93 E-value=1.5e+02 Score=24.46 Aligned_cols=26 Identities=31% Similarity=0.708 Sum_probs=15.7
Q ss_pred CcEEEecc-cceeeecCCeEEEEEEEE
Q 039886 34 EGYWKATG-ADKSIKHNGAVVGFKKTL 59 (192)
Q Consensus 34 ~G~WkatG-~~k~I~~~g~~vG~KktL 59 (192)
+--|.+|| +-+.|..+|++||.-..|
T Consensus 140 shpweatgikyrki~~dgeivgyshyf 166 (248)
T PF05865_consen 140 SHPWEATGIKYRKIHRDGEIVGYSHYF 166 (248)
T ss_dssp --S-B--GGG-EEEEETTEEEEEEEEE
T ss_pred cCCccccCceEEEeeccceEeeeeeee
Confidence 44599999 456777999999986554
No 4
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=8.88 E-value=1.6e+02 Score=25.99 Aligned_cols=25 Identities=36% Similarity=0.554 Sum_probs=20.2
Q ss_pred ecCCcEEEecccceeeecCCeEEEE
Q 039886 31 AAGEGYWKATGADKSIKHNGAVVGF 55 (192)
Q Consensus 31 ~t~~G~WkatG~~k~I~~~g~~vG~ 55 (192)
++-+|||-+...++.|.+...++|-
T Consensus 139 AASGGY~IA~aAd~I~a~p~si~GS 163 (317)
T COG0616 139 AASGGYYIALAADKIVADPSSITGS 163 (317)
T ss_pred ecchhhhhhccCCEEEecCCceeee
Confidence 4679999999999999877666553
No 5
>COG3100 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=7.84 E-value=2.9e+02 Score=20.65 Aligned_cols=15 Identities=33% Similarity=0.676 Sum_probs=11.9
Q ss_pred EEEEEEEEeCCCccc
Q 039886 102 WVLCRIYYKERSDKS 116 (192)
Q Consensus 102 ~VLCrIf~k~~~~~~ 116 (192)
-.||-||++++....
T Consensus 10 ~mlCaIYkS~kk~~t 24 (103)
T COG3100 10 SMLCAIYKSPKKDGT 24 (103)
T ss_pred eeeeeeeecCcCCcc
Confidence 389999998877654
No 6
>PF08018 Antimicrobial_1: Frog antimicrobial peptide ; InterPro: IPR012520 This family includes antimicrobial peptides secreted from skins of frogs. The secretion of antimicrobial peptides from the skins of frogs plays an important role in the self defence of these frogs. Structural characterisation of these peptides showed that they belonged to four known families: the brevinin-1 family, the esculentin-2 family, the ranatuerin-2 family and the temporin family [].; GO: 0005576 extracellular region
Probab=7.61 E-value=72 Score=17.80 Aligned_cols=8 Identities=38% Similarity=0.800 Sum_probs=6.4
Q ss_pred EEEEEEEe
Q 039886 103 VLCRIYYK 110 (192)
Q Consensus 103 VLCrIf~k 110 (192)
++|.|.+|
T Consensus 16 i~C~ItKK 23 (24)
T PF08018_consen 16 IFCAITKK 23 (24)
T ss_pred hHhhhccc
Confidence 78888876
No 7
>COG3592 Uncharacterized conserved protein [Function unknown]
Probab=7.29 E-value=2.5e+02 Score=19.80 Aligned_cols=38 Identities=37% Similarity=0.622 Sum_probs=22.6
Q ss_pred CCcEEEecccceeee--------cCCeEEEEEEEEEeeeCCCCCCCccCeEEEE
Q 039886 33 GEGYWKATGADKSIK--------HNGAVVGFKKTLVFYEGKPPKGDKTFWIMHE 78 (192)
Q Consensus 33 ~~G~WkatG~~k~I~--------~~g~~vG~KktLvFy~gr~p~g~kT~WvMhE 78 (192)
.+||=+-.|....|+ ++..+-|- ..||-.|+.| |+|-+
T Consensus 5 ~~~yr~y~Gekidi~fn~~iC~Hs~nCV~Gn--~~vF~~~rkP------WI~Pd 50 (74)
T COG3592 5 DGGYRKYRGEKIDIYFNTAICAHSGNCVRGN--PKVFNLGRKP------WIMPD 50 (74)
T ss_pred cCCcceeccceEEEEeccceeecccceecCC--HhhcccCCCC------ccCCC
Confidence 356666778777776 22233343 4567666654 99865
No 8
>PRK10154 hypothetical protein; Provisional
Probab=7.21 E-value=2.5e+02 Score=22.00 Aligned_cols=20 Identities=25% Similarity=0.326 Sum_probs=13.6
Q ss_pred EEEEeeeCCCCCCCccCeEEE
Q 039886 57 KTLVFYEGKPPKGDKTFWIMH 77 (192)
Q Consensus 57 ktLvFy~gr~p~g~kT~WvMh 77 (192)
++|.||+. -.+++.|+|+--
T Consensus 81 ~tl~f~~~-lk~~q~T~W~~~ 100 (134)
T PRK10154 81 QSLNIPSE-IKEGQTTDWINI 100 (134)
T ss_pred eEEecchh-hccCCccccEEc
Confidence 67777653 246788999853
No 9
>cd08588 PI-PLCc_At5g67130_like Catalytic domain of Arabidopsis thaliana PI-PLC X domain-containing protein At5g67130 and its uncharacterized homologs. This subfamily corresponds to the catalytic domain present in Arabidopsis thaliana PI-PLC X domain-containing protein At5g67130 and its uncharacterized homologs. Members in this family show high sequence similarity to bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), which participates in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG).
Probab=6.63 E-value=4.7e+02 Score=22.56 Aligned_cols=26 Identities=19% Similarity=0.304 Sum_probs=18.1
Q ss_pred EEEEEeeeCCCCCCCccCeEEEEEEeC
Q 039886 56 KKTLVFYEGKPPKGDKTFWIMHEYRVN 82 (192)
Q Consensus 56 KktLvFy~gr~p~g~kT~WvMhEYrl~ 82 (192)
||.++|+...... ....|+|.|+...
T Consensus 149 kRlvvf~~~~~~~-~~~~~~~~~~~~~ 174 (270)
T cd08588 149 KRLLVFTDNEDVS-TEPPGVMYQFDYT 174 (270)
T ss_pred CEEEEEEecCCCC-CCCCeeeecceeE
Confidence 5677888765332 4678999998843
No 10
>COG5628 Predicted acetyltransferase [General function prediction only]
Probab=6.62 E-value=5.5e+02 Score=20.23 Aligned_cols=49 Identities=16% Similarity=0.219 Sum_probs=33.7
Q ss_pred cEEEecccceeee-cCCeEEEEEEEEEeeeCCCCCCCccCeEEEEEEeCCCCCC
Q 039886 35 GYWKATGADKSIK-HNGAVVGFKKTLVFYEGKPPKGDKTFWIMHEYRVNNDSPP 87 (192)
Q Consensus 35 G~WkatG~~k~I~-~~g~~vG~KktLvFy~gr~p~g~kT~WvMhEYrl~~~~~~ 87 (192)
-||...|..--.. -++.+||+--.| .++-...+.||-|-||-|......
T Consensus 30 ~~w~~~~~~~~~~~~~~~~igf~l~L----~~~~~~~~iD~~~~efFIi~k~~~ 79 (143)
T COG5628 30 TYWRDPVREAWLFRIGGLPVGFALVL----DLAHSPTPIDRAVAEFFIVRKHRR 79 (143)
T ss_pred hhhcCcccceeEEEECCceeeeeeee----cccCCCCcccccchheEeeehhhc
Confidence 4788877554443 788899984433 233344678999999999876543
Done!