Query 034253
Match_columns 100
No_of_seqs 17 out of 19
Neff 1.8
Searched_HMMs 46136
Date Fri Mar 29 11:27:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034253.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034253hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13679 Methyltransf_32: Meth 64.0 2.7 5.9E-05 28.5 0.4 12 68-79 125-136 (141)
2 PF14511 RE_EcoO109I: Type II 61.9 3.4 7.4E-05 32.1 0.6 14 65-78 140-153 (200)
3 PF03885 DUF327: Protein of un 48.3 10 0.00022 27.0 1.2 23 41-63 58-80 (147)
4 PF00919 UPF0004: Uncharacteri 48.3 13 0.00029 24.9 1.7 26 59-84 60-85 (98)
5 PF01858 RB_A: Retinoblastoma- 46.7 9.1 0.0002 28.5 0.8 13 72-84 115-127 (194)
6 TIGR00726 uncharacterized prot 38.4 14 0.0003 27.8 0.7 10 71-80 134-143 (221)
7 COG3216 Uncharacterized protei 38.2 13 0.00028 29.2 0.4 20 64-83 89-108 (184)
8 cd00928 Cyt_c_Oxidase_VIIa Cyt 35.4 7.3 0.00016 25.1 -1.1 22 63-84 33-54 (55)
9 PF11743 DUF3301: Protein of u 34.9 16 0.00036 24.6 0.5 30 66-95 1-30 (97)
10 PRK10299 PhoPQ regulatory prot 34.9 6.5 0.00014 25.2 -1.3 23 62-85 2-24 (47)
11 PRK08178 acetolactate synthase 34.4 31 0.00068 24.1 1.9 46 24-75 28-83 (96)
12 PF04390 LptE: Lipopolysacchar 31.7 16 0.00034 23.7 0.0 16 67-82 2-17 (155)
13 PF11275 DUF3077: Protein of u 31.2 18 0.00038 24.5 0.2 22 72-93 35-56 (79)
14 PF02107 FlgH: Flagellar L-rin 30.5 19 0.00042 26.5 0.3 15 60-74 23-37 (179)
15 COG0828 RpsU Ribosomal protein 29.6 20 0.00043 24.0 0.2 9 45-53 13-21 (67)
16 COG5328 Uncharacterized protei 29.0 28 0.0006 26.9 1.0 32 3-34 95-127 (160)
17 smart00302 GED Dynamin GTPase 28.1 38 0.00082 22.2 1.4 29 40-68 60-89 (92)
18 PRK12698 flgH flagellar basal 27.0 28 0.00061 27.0 0.7 15 59-73 61-75 (224)
19 PF05026 DCP2: Dcp2, box A dom 26.5 23 0.00051 23.9 0.2 11 45-55 75-85 (85)
20 PF08439 Peptidase_M3_N: Oligo 26.5 27 0.00058 21.2 0.4 23 39-61 11-33 (70)
21 CHL00073 chlN photochlorophyll 26.3 70 0.0015 27.3 2.9 55 26-88 63-122 (457)
22 PRK11152 ilvM acetolactate syn 25.0 25 0.00055 23.1 0.1 40 25-70 24-73 (76)
23 PRK10723 hypothetical protein; 24.8 17 0.00037 27.9 -0.9 10 72-81 156-165 (243)
24 COG2063 FlgH Flagellar basal b 24.2 29 0.00064 27.7 0.3 14 59-72 69-82 (230)
25 PRK12697 flgH flagellar basal 24.1 32 0.00068 27.0 0.5 14 60-73 67-80 (226)
26 PF08780 NTase_sub_bind: Nucle 24.0 41 0.00088 23.3 1.0 37 49-85 1-47 (124)
27 PF06112 Herpes_capsid: Gammah 23.9 37 0.0008 25.8 0.8 15 71-85 51-65 (147)
28 PRK11440 putative hydrolase; P 23.8 1.2E+02 0.0026 21.2 3.3 34 57-91 111-144 (188)
29 COG1335 PncA Amidases related 23.0 86 0.0019 21.8 2.5 25 66-90 131-155 (205)
30 PF04869 Uso1_p115_head: Uso1 22.3 20 0.00044 28.7 -0.9 39 41-79 183-231 (312)
31 PRK12699 flgH flagellar basal 22.0 36 0.00079 27.0 0.5 15 59-73 85-99 (246)
32 PLN02621 nicotinamidase 21.9 74 0.0016 22.7 2.0 30 60-91 121-150 (197)
33 PF11239 DUF3040: Protein of u 21.7 36 0.00079 21.9 0.4 16 38-53 15-31 (82)
34 KOG2651 rRNA adenine N-6-methy 21.4 33 0.00071 30.4 0.1 11 70-80 279-289 (476)
35 PF08374 Protocadherin: Protoc 21.2 50 0.0011 26.6 1.1 24 8-31 153-176 (221)
36 TIGR00778 ahpD_dom alkylhydrop 20.9 34 0.00075 19.1 0.1 18 68-85 13-30 (50)
37 PRK12696 flgH flagellar basal 20.7 49 0.0011 25.9 1.0 14 60-73 64-77 (236)
38 PF00857 Isochorismatase: Isoc 20.3 57 0.0012 21.7 1.1 64 26-91 62-135 (174)
39 PRK12407 flgH flagellar basal 20.0 41 0.00089 26.2 0.4 14 60-73 63-76 (221)
No 1
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=64.01 E-value=2.7 Score=28.46 Aligned_cols=12 Identities=33% Similarity=1.007 Sum_probs=9.2
Q ss_pred eeeeeeechhHH
Q 034253 68 LTIVVVAGCCYE 79 (100)
Q Consensus 68 LT~vVvagCcYE 79 (100)
...+|+.||||=
T Consensus 125 ~~~l~~vpCCyh 136 (141)
T PF13679_consen 125 ARFLVLVPCCYH 136 (141)
T ss_pred CCEEEEcCCccc
Confidence 356788999993
No 2
>PF14511 RE_EcoO109I: Type II restriction endonuclease EcoO109I; PDB: 1WTD_A 1WTE_A.
Probab=61.91 E-value=3.4 Score=32.13 Aligned_cols=14 Identities=43% Similarity=0.873 Sum_probs=10.6
Q ss_pred cceeeeeeeechhH
Q 034253 65 GDVLTIVVVAGCCY 78 (100)
Q Consensus 65 g~vLT~vVvagCcY 78 (100)
-++..+.+|.||||
T Consensus 140 ~~~~~~~~v~G~~Y 153 (200)
T PF14511_consen 140 KSGQNIDAVNGCCY 153 (200)
T ss_dssp -GGG-SEEEEEESS
T ss_pred ccccccceeeEEEe
Confidence 56777888999999
No 3
>PF03885 DUF327: Protein of unknown function (DUF327); InterPro: IPR005585 The proteins in this family are around 140-170 residues in length. The proteins contain many conserved residues, with the most conserved motifs found in the central and C-terminal region. The function of these proteins is unknown. ; PDB: 2P61_A 2QUP_A.
Probab=48.33 E-value=10 Score=26.95 Aligned_cols=23 Identities=30% Similarity=0.430 Sum_probs=18.4
Q ss_pred ccccchhhhhhhhhHHHHHHHHH
Q 034253 41 LLADDPVLKRFKSHKKSVWRLKR 63 (100)
Q Consensus 41 LL~ED~aLKrFKSyK~sv~~~~~ 63 (100)
-|++.|.+..++.||+.|++.-+
T Consensus 58 ~L~~~~t~~~l~~YK~~Vk~Fl~ 80 (147)
T PF03885_consen 58 RLAESPTLENLKRYKELVKQFLK 80 (147)
T ss_dssp HHHHH--HHHHHHHHHHHHHHHH
T ss_pred HHhhCCCHHHHHHHHHHHHHHHH
Confidence 57889999999999999998754
No 4
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=48.29 E-value=13 Score=24.87 Aligned_cols=26 Identities=27% Similarity=0.463 Sum_probs=16.6
Q ss_pred HHHHHhcceeeeeeeechhHHHHHHH
Q 034253 59 WRLKRMGDVLTIVVVAGCCYEIYVKA 84 (100)
Q Consensus 59 ~~~~~~g~vLT~vVvagCcYEIyv~a 84 (100)
.++.+..+--..|||+||--+.+-..
T Consensus 60 ~~l~~~~~~~~~ivv~GC~aq~~~~~ 85 (98)
T PF00919_consen 60 RKLKKLKKPGAKIVVTGCMAQRYGEE 85 (98)
T ss_pred HHHHHhcCCCCEEEEEeCccccChHH
Confidence 33333333447899999987776543
No 5
>PF01858 RB_A: Retinoblastoma-associated protein A domain; InterPro: IPR002720 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and Simian virus 40 (SV40) large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion appears to be required for the stable folding of the B box (see IPR002719 from INTERPRO). Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the A-box is on N-terminal side of the B-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1O9K_A 3POM_A 1GH6_B 1N4M_A 4ELL_B 1AD6_A 1GUX_A 2R7G_C 4ELJ_A.
Probab=46.70 E-value=9.1 Score=28.51 Aligned_cols=13 Identities=31% Similarity=0.749 Sum_probs=10.5
Q ss_pred eeechhHHHHHHH
Q 034253 72 VVAGCCYEIYVKA 84 (100)
Q Consensus 72 VvagCcYEIyv~a 84 (100)
-|.+||+||...+
T Consensus 115 sL~ACclEiVl~s 127 (194)
T PF01858_consen 115 SLLACCLEIVLFS 127 (194)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4679999998765
No 6
>TIGR00726 uncharacterized protein, YfiH family. PSI-BLAST converges on members of this family of uncharacterized bacterial proteins and shows no significant similarity to any characterized protein. No completed genome to date has two members. Members of the family have been crystallized but the function is unknown.
Probab=38.42 E-value=14 Score=27.79 Aligned_cols=10 Identities=50% Similarity=1.531 Sum_probs=8.0
Q ss_pred eeeechhHHH
Q 034253 71 VVVAGCCYEI 80 (100)
Q Consensus 71 vVvagCcYEI 80 (100)
--+.+||||+
T Consensus 134 P~I~~~cYEV 143 (221)
T TIGR00726 134 PAIGGCCYEV 143 (221)
T ss_pred CccCCcceeE
Confidence 3467899998
No 7
>COG3216 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.22 E-value=13 Score=29.24 Aligned_cols=20 Identities=25% Similarity=0.400 Sum_probs=17.4
Q ss_pred hcceeeeeeeechhHHHHHH
Q 034253 64 MGDVLTIVVVAGCCYEIYVK 83 (100)
Q Consensus 64 ~g~vLT~vVvagCcYEIyv~ 83 (100)
+-|-||+.++.||.||+-.-
T Consensus 89 l~NPlT~P~I~~~tyelG~~ 108 (184)
T COG3216 89 LANPLTMPFIWGATYELGAW 108 (184)
T ss_pred hcCCcccceeeeeeHhhhhH
Confidence 55999999999999998654
No 8
>cd00928 Cyt_c_Oxidase_VIIa Cytochrome c oxidase subunit VIIa. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIIa has two tissue-specific isoforms that are expressed in a developmental manner. VIIa-H is expressed in heart and skeletal muscle but not smooth muscle. VIIa-L is expressed in liver and non-muscle tissues.
Probab=35.35 E-value=7.3 Score=25.15 Aligned_cols=22 Identities=27% Similarity=0.372 Sum_probs=17.5
Q ss_pred HhcceeeeeeeechhHHHHHHH
Q 034253 63 RMGDVLTIVVVAGCCYEIYVKA 84 (100)
Q Consensus 63 ~~g~vLT~vVvagCcYEIyv~a 84 (100)
++-=+||+|-+.+|+|.||.-+
T Consensus 33 r~Tm~L~~vG~~~~~~~l~~~~ 54 (55)
T cd00928 33 RLTMALTVVGTGYSLYLLYMLS 54 (55)
T ss_pred HHHHHHHHHhHHHHHHHHHHHh
Confidence 3444689999999999999754
No 9
>PF11743 DUF3301: Protein of unknown function (DUF3301); InterPro: IPR021732 This family is conserved in Proteobacteria, but the function is not known.
Probab=34.92 E-value=16 Score=24.58 Aligned_cols=30 Identities=27% Similarity=0.315 Sum_probs=24.8
Q ss_pred ceeeeeeeechhHHHHHHHHHHHHHHHHhc
Q 034253 66 DVLTIVVVAGCCYEIYVKAVMREEARRQAR 95 (100)
Q Consensus 66 ~vLT~vVvagCcYEIyv~a~mreear~~a~ 95 (100)
|++++.++++.||-..-.--++|-|...|+
T Consensus 1 dLl~llll~~~~~~~w~~~~~~E~A~~~a~ 30 (97)
T PF11743_consen 1 DLLLLLLLALVGWFWWQSRRQRERALQAAR 30 (97)
T ss_pred CHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 677888899999988888888888887754
No 10
>PRK10299 PhoPQ regulatory protein; Provisional
Probab=34.89 E-value=6.5 Score=25.16 Aligned_cols=23 Identities=26% Similarity=0.530 Sum_probs=17.9
Q ss_pred HHhcceeeeeeeechhHHHHHHHH
Q 034253 62 KRMGDVLTIVVVAGCCYEIYVKAV 85 (100)
Q Consensus 62 ~~~g~vLT~vVvagCcYEIyv~a~ 85 (100)
+|++=++.+++++.|.+ +|..|+
T Consensus 2 kk~rwiili~iv~~Cl~-lyl~al 24 (47)
T PRK10299 2 KKFRWVVLVVVVLACLL-LWAQVF 24 (47)
T ss_pred ceeeehHHHHHHHHHHH-HHHHHH
Confidence 56666778888999998 887764
No 11
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=34.37 E-value=31 Score=24.13 Aligned_cols=46 Identities=22% Similarity=0.364 Sum_probs=32.5
Q ss_pred cccccccccc---cCcchhhccccchhhhhh-------hhhHHHHHHHHHhcceeeeeeeec
Q 034253 24 ALSRRGYHVE---LGPREKALLADDPVLKRF-------KSHKKSVWRLKRMGDVLTIVVVAG 75 (100)
Q Consensus 24 ~~~rRgfHvE---~GaREKALL~ED~aLKrF-------KSyK~sv~~~~~~g~vLT~vVvag 75 (100)
+.+||||.|| -|+=| ||.+.|+ ..-.+-+|||.|.-||+-+..+..
T Consensus 28 lFsRRgyNIeSLtvg~te------~~~iSRmtivv~~~~~i~Qi~kQL~KLidVikV~~l~~ 83 (96)
T PRK08178 28 LFARRAFNVEGILCLPIQ------DGDKSRIWLLVNDDQRLEQMISQIEKLEDVLKVRRNQS 83 (96)
T ss_pred HHhcCCcCeeeEEEeecC------CCCceEEEEEEcCchHHHHHHHHHhCCcCEEEEEECCC
Confidence 3799999998 34433 3333333 356788999999999998877654
No 12
>PF04390 LptE: Lipopolysaccharide-assembly; InterPro: IPR007485 The cell envelope of Gram-negative bacteria consists of an inner (IM) and an outer membrane (OM) separated by an aqueous compartment, the periplasm, which contains the peptidoglycan layer. The OM is an asymmetric bilayer, with phospholipids in the inner leaflet and lipopolysaccharides (LPS) facing outward [, ]. The OM is an effective permeability barrier that protects the cells from toxic compounds, such as antibiotics and detergents, thus allowing bacteria to inhabit several different and often hostile environments. LPS is responsible for the permeability properties of the OM. LPS consists of the lipid A moiety (a glucosamine-based phospholipid) linked to the short core oligosaccharide and the distal O-antigen polysaccharide chain. The core oligosaccharide can be further divided into an inner core, composed of 3-deoxy-D-mannooctulosanate (KDO) and heptose, and an outer core, which has a somewhat variable structure. LPS is essential in most Gram-negative bacteria, with the notable exception of Neisseria meningitidis. The biogenesis of the OM implies that the individual components are transported from the site of synthesis to their final destination outside the IM by crossing both hydrophilic and hydrophobic compartments. The machinery and the energy source that drive this process are not yet fully understood. The lipid A-core moiety and the O-antigen repeat units are synthesized at the cytoplasmic face of the IM and are separately exported via two independent transport systems, namely, the O-antigen transporter Wzx (RfbX) [, ] and the ATP binding cassette (ABC) transporter MsbA that flips the lipid A-core moiety from the inner leaflet to the outer leaflet of the IM [, , ]. O-antigen repeat units are then polymerised in the periplasm by the Wzy polymerase and ligated to the lipid A-core moiety by the WaaL ligase [see, , ]. The LPS transport machinery is composed of LptA, LptB, LptC, LptD, LptE. This supported by the fact, that depletion of any of one of these proteins blocks the LPS assembly pathway and results in very similar OM biogenesis defects. Moreover, the location of at least one of these five proteins in every cellular compartment suggests a model for how the LPS assembly pathway is organised and ordered in space []. LptE forms a complex with LptD, which is involved in the assembly of LPS in the outer leaflet of the outer membrane. Essential for envelope biogenesis [, , ].; GO: 0016044 cellular membrane organization, 0043165 Gram-negative-bacterium-type cell outer membrane assembly; PDB: 3BF2_A 2JXP_A 2R76_A.
Probab=31.74 E-value=16 Score=23.71 Aligned_cols=16 Identities=25% Similarity=0.710 Sum_probs=0.0
Q ss_pred eeeeeeeechhHHHHH
Q 034253 67 VLTIVVVAGCCYEIYV 82 (100)
Q Consensus 67 vLT~vVvagCcYEIyv 82 (100)
++.+.+++||-|-+.-
T Consensus 2 l~~~l~lsgCGy~~~~ 17 (155)
T PF04390_consen 2 LLLLLFLSGCGYHLRG 17 (155)
T ss_dssp ----------------
T ss_pred hHHHHhhCcCeeEEcC
Confidence 3567788999887654
No 13
>PF11275 DUF3077: Protein of unknown function (DUF3077); InterPro: IPR021427 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=31.19 E-value=18 Score=24.47 Aligned_cols=22 Identities=41% Similarity=0.668 Sum_probs=18.0
Q ss_pred eeechhHHHHHHHHHHHHHHHH
Q 034253 72 VVAGCCYEIYVKAVMREEARRQ 93 (100)
Q Consensus 72 VvagCcYEIyv~a~mreear~~ 93 (100)
++.||.+++-..+.|+++.+..
T Consensus 35 ~LL~ca~~lt~~a~~~~~~~~~ 56 (79)
T PF11275_consen 35 VLLGCARHLTYEAAMSEEDRRM 56 (79)
T ss_pred HHHHHHHHHHHHHHccCcchhH
Confidence 5789999999999998665544
No 14
>PF02107 FlgH: Flagellar L-ring protein; InterPro: IPR000527 The flgH, flgI and fliF genes of Salmonella typhimurium encode the major proteins for the L, P and M rings of the flagellar basal body []. In fact, the basal body consists of four rings (L,P,S and M) surrounding the flagellar rod, which is believed to transmit motor rotation to the filament []. The M ring is integral to the inner membrane of the cell, and may be connected to the rod via the S (supramembrane) ring, which lies just distal to it. The L and P rings reside in the outer membrane and periplasmic space, respectively. FlgH and FlgI, which are exported across the cell membrane to their destinations in the outer membrane and periplasmic space, have typical N-terminal cleaved signal-peptide sequences. FlgH is predicted to have an extensive beta-sheet structure, in keeping with other outer membrane proteins [].; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0009427 bacterial-type flagellum basal body, distal rod, L ring
Probab=30.46 E-value=19 Score=26.46 Aligned_cols=15 Identities=47% Similarity=0.913 Sum_probs=11.9
Q ss_pred HHHHhcceeeeeeee
Q 034253 60 RLKRMGDVLTIVVVA 74 (100)
Q Consensus 60 ~~~~~g~vLT~vVva 74 (100)
+-.++||++||+|.-
T Consensus 23 rA~~VGDiiTV~v~E 37 (179)
T PF02107_consen 23 RARRVGDIITVVVSE 37 (179)
T ss_pred cccCCCCEEEEEEEE
Confidence 345899999999863
No 15
>COG0828 RpsU Ribosomal protein S21 [Translation, ribosomal structure and biogenesis]
Probab=29.56 E-value=20 Score=23.98 Aligned_cols=9 Identities=56% Similarity=0.947 Sum_probs=7.6
Q ss_pred chhhhhhhh
Q 034253 45 DPVLKRFKS 53 (100)
Q Consensus 45 D~aLKrFKS 53 (100)
|.||++||-
T Consensus 13 d~ALrrFKr 21 (67)
T COG0828 13 DKALRRFKR 21 (67)
T ss_pred HHHHHHHHH
Confidence 679999984
No 16
>COG5328 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.04 E-value=28 Score=26.91 Aligned_cols=32 Identities=31% Similarity=0.442 Sum_probs=24.2
Q ss_pred hhhhhhhhhhhccCCccccccc-cccccccccc
Q 034253 3 YLLKTSIASHLRSHTQEKREDA-LSRRGYHVEL 34 (100)
Q Consensus 3 fll~ssi~S~lRS~s~~~~~~~-~~rRgfHvE~ 34 (100)
|++--|.-+-.||.+|++-+.. -.|||.|-|-
T Consensus 95 fmICeSYY~AIRsstPsqIEAiDMGRRGlHNeG 127 (160)
T COG5328 95 FMICESYYQAIRSSTPSQIEAIDMGRRGLHNEG 127 (160)
T ss_pred HHHHHHHHHHHHhCCHhhhhHhhhccccccccc
Confidence 3444677778899888876665 8999999874
No 17
>smart00302 GED Dynamin GTPase effector domain.
Probab=28.13 E-value=38 Score=22.21 Aligned_cols=29 Identities=31% Similarity=0.472 Sum_probs=22.5
Q ss_pred hccccchhhh-hhhhhHHHHHHHHHhccee
Q 034253 40 ALLADDPVLK-RFKSHKKSVWRLKRMGDVL 68 (100)
Q Consensus 40 ALL~ED~aLK-rFKSyK~sv~~~~~~g~vL 68 (100)
.||+|||... +=+.-++.++.|+++.++|
T Consensus 60 ~LL~E~~~i~~kR~~~~~~l~~L~~A~~~l 89 (92)
T smart00302 60 ELLEEDPEIASKRKELKKRLELLKKARQII 89 (92)
T ss_pred HHHcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5899999763 4466788888888887776
No 18
>PRK12698 flgH flagellar basal body L-ring protein; Reviewed
Probab=27.03 E-value=28 Score=27.00 Aligned_cols=15 Identities=27% Similarity=0.687 Sum_probs=12.2
Q ss_pred HHHHHhcceeeeeee
Q 034253 59 WRLKRMGDVLTIVVV 73 (100)
Q Consensus 59 ~~~~~~g~vLT~vVv 73 (100)
+|-.++||++||++.
T Consensus 61 ~rA~~VGDivTV~i~ 75 (224)
T PRK12698 61 IKAHKVGDIITVVLK 75 (224)
T ss_pred cccccCCCeEEEEEE
Confidence 345689999999985
No 19
>PF05026 DCP2: Dcp2, box A domain; InterPro: IPR007722 This presumed domain is always found to the N-terminal side of the NUDIX hydrolase domain IPR000086 from INTERPRO. This domain appears to be specific to mRNA decapping protein 2 P53550 from SWISSPROT and its close homologues. This region has been termed Box A [].; GO: 0003723 RNA binding, 0016787 hydrolase activity, 0030145 manganese ion binding; PDB: 2QKM_H 2A6T_B 2QKL_B.
Probab=26.52 E-value=23 Score=23.95 Aligned_cols=11 Identities=55% Similarity=0.773 Sum_probs=8.3
Q ss_pred chhhhhhhhhH
Q 034253 45 DPVLKRFKSHK 55 (100)
Q Consensus 45 D~aLKrFKSyK 55 (100)
|.++++|++||
T Consensus 75 ~~~~~~f~~YK 85 (85)
T PF05026_consen 75 DEALKKFKKYK 85 (85)
T ss_dssp HHHHHHHHHHS
T ss_pred HHHHHHHHccC
Confidence 56778888886
No 20
>PF08439 Peptidase_M3_N: Oligopeptidase F; InterPro: IPR013647 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This domain is found towards the N terminus of metallopeptidases belonging to MEROPS peptidase subfamily M3B (oligopeptidase F, clan MA). An example protein is Lactococcus lactisPepF []. The function of this N-terminal domain is unknown.; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2QR4_B 3CE2_A.
Probab=26.49 E-value=27 Score=21.19 Aligned_cols=23 Identities=26% Similarity=0.547 Sum_probs=14.4
Q ss_pred hhccccchhhhhhhhhHHHHHHH
Q 034253 39 KALLADDPVLKRFKSHKKSVWRL 61 (100)
Q Consensus 39 KALL~ED~aLKrFKSyK~sv~~~ 61 (100)
++++++||.|+.|+-|=+.+++.
T Consensus 11 ~~~~~~~~~l~~y~~~l~~i~r~ 33 (70)
T PF08439_consen 11 ESLIKEDPELKEYRFYLEEIRRY 33 (70)
T ss_dssp HHHHHH-CCCGGGHHHHHHHHGG
T ss_pred HHHHhcCccHHHHHHHHHHHHHh
Confidence 35677888888777665555443
No 21
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=26.33 E-value=70 Score=27.28 Aligned_cols=55 Identities=22% Similarity=0.343 Sum_probs=40.4
Q ss_pred cccccccccCcchhhccccchh--hhhhhhhHHHHHHHHHhcceeeeeeeechhHHHH---HHHHHHH
Q 034253 26 SRRGYHVELGPREKALLADDPV--LKRFKSHKKSVWRLKRMGDVLTIVVVAGCCYEIY---VKAVMRE 88 (100)
Q Consensus 26 ~rRgfHvE~GaREKALL~ED~a--LKrFKSyK~sv~~~~~~g~vLT~vVvagCcYEIy---v~a~mre 88 (100)
+|-|| -++. |-|.+ +---|.-++.+.++.+--|.=.|+|+.+|--||. +.++-++
T Consensus 63 ~r~~~-tdl~-------E~Di~~~~g~~~~L~~~i~ei~~~~~p~~ifv~~TC~t~iIGdDle~va~~ 122 (457)
T CHL00073 63 PRYAM-AELE-------EGDISAQLNDYEELKRLCLQIKKDRNPSVIVWIGTCTTEIIKMDLEGMAPK 122 (457)
T ss_pred cccee-cccC-------chhhhhhcCCHHHHHHHHHHHHHhCCCCEEEEEccCcHHhhccCHHHHHHH
Confidence 66666 5544 33555 5556667789999999999999999999999986 4444443
No 22
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=24.96 E-value=25 Score=23.11 Aligned_cols=40 Identities=18% Similarity=0.274 Sum_probs=24.0
Q ss_pred ccccccccc---cCcchhhccccchhhhhh-------hhhHHHHHHHHHhcceeee
Q 034253 25 LSRRGYHVE---LGPREKALLADDPVLKRF-------KSHKKSVWRLKRMGDVLTI 70 (100)
Q Consensus 25 ~~rRgfHvE---~GaREKALL~ED~aLKrF-------KSyK~sv~~~~~~g~vLT~ 70 (100)
.++|||+|+ .|+-| |+.+-|- ..-..-++||.|.=||+-+
T Consensus 24 f~rRGfnI~sl~v~~t~------~~~~sriti~v~~~~~i~ql~kQL~KL~dV~~V 73 (76)
T PRK11152 24 VRHRGFQVCSMNMTQNT------DAQNINIELTVASERPIDLLSSQLNKLVDVAHV 73 (76)
T ss_pred HhcCCeeeeeEEeeecC------CCCEEEEEEEECCCchHHHHHHHHhcCcCeEEE
Confidence 799999987 34432 2222221 1234567888888887654
No 23
>PRK10723 hypothetical protein; Provisional
Probab=24.75 E-value=17 Score=27.91 Aligned_cols=10 Identities=10% Similarity=0.268 Sum_probs=8.1
Q ss_pred eeechhHHHH
Q 034253 72 VVAGCCYEIY 81 (100)
Q Consensus 72 VvagCcYEIy 81 (100)
-+.+||||+-
T Consensus 156 ~I~~~cYEV~ 165 (243)
T PRK10723 156 AIGPQAFEVG 165 (243)
T ss_pred ccCcccceEC
Confidence 4689999984
No 24
>COG2063 FlgH Flagellar basal body L-ring protein [Cell motility and secretion]
Probab=24.19 E-value=29 Score=27.68 Aligned_cols=14 Identities=50% Similarity=0.840 Sum_probs=11.4
Q ss_pred HHHHHhcceeeeee
Q 034253 59 WRLKRMGDVLTIVV 72 (100)
Q Consensus 59 ~~~~~~g~vLT~vV 72 (100)
+|-.++||+|||++
T Consensus 69 ~RA~~vGDilTV~i 82 (230)
T COG2063 69 RRASNVGDILTIVI 82 (230)
T ss_pred cccccCCCEEEEEE
Confidence 34568999999986
No 25
>PRK12697 flgH flagellar basal body L-ring protein; Reviewed
Probab=24.09 E-value=32 Score=27.05 Aligned_cols=14 Identities=50% Similarity=0.916 Sum_probs=11.7
Q ss_pred HHHHhcceeeeeee
Q 034253 60 RLKRMGDVLTIVVV 73 (100)
Q Consensus 60 ~~~~~g~vLT~vVv 73 (100)
|-.++||+|||++.
T Consensus 67 RA~~VGDiiTV~i~ 80 (226)
T PRK12697 67 RPRNVGDILTIVIA 80 (226)
T ss_pred ccccCCCEEEEEEE
Confidence 45689999999885
No 26
>PF08780 NTase_sub_bind: Nucleotidyltransferase substrate binding protein like; InterPro: IPR010235 The member of this family from Haemophilus influenzae, HI0074, has been shown by crystal structure to resemble nucleotidyltransferase substrate binding proteins []. It forms a complex with HI0073 (P43933 from SWISSPROT), encoded by the adjacent gene, which contains a nucleotidyltransferase nucleotide binding domain (IPR002934 from INTERPRO). Double- and single-stranded DNA binding assays showed no evidence of DNA binding to HI0074 or to HI0073/HI0074 complex despite the suggestive shape of the putative binding cleft formed by the HI0074 dimer []. ; PDB: 1WWP_A 1JOG_A 1WTY_C 2YWA_B.
Probab=24.04 E-value=41 Score=23.26 Aligned_cols=37 Identities=24% Similarity=0.371 Sum_probs=24.5
Q ss_pred hhhhhhHHHHHHHHHhcc----eeeeeeeech------hHHHHHHHH
Q 034253 49 KRFKSHKKSVWRLKRMGD----VLTIVVVAGC------CYEIYVKAV 85 (100)
Q Consensus 49 KrFKSyK~sv~~~~~~g~----vLT~vVvagC------cYEIyv~a~ 85 (100)
.||.++++++.+|..+=+ .+.-.+..|| |||+.-|++
T Consensus 1 q~l~~~~kAl~~L~ea~~~~~~~~~~~~~dg~IqrFE~t~ElaWK~l 47 (124)
T PF08780_consen 1 QRLENFKKALSRLEEALEKYEDPLSELERDGVIQRFEFTFELAWKTL 47 (124)
T ss_dssp --HHHHHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 367888888888877654 4555556665 788877754
No 27
>PF06112 Herpes_capsid: Gammaherpesvirus capsid protein; InterPro: IPR009299 This family consists of several Gammaherpesvirus capsid proteins. The exact function of this family is unknown.; GO: 0019028 viral capsid
Probab=23.95 E-value=37 Score=25.75 Aligned_cols=15 Identities=33% Similarity=0.855 Sum_probs=12.3
Q ss_pred eeeechhHHHHHHHH
Q 034253 71 VVVAGCCYEIYVKAV 85 (100)
Q Consensus 71 vVvagCcYEIyv~a~ 85 (100)
...+=||||-||+.+
T Consensus 51 FL~Aq~~Yd~yv~~~ 65 (147)
T PF06112_consen 51 FLIAQHCYDQYVRRT 65 (147)
T ss_pred hhhHHHHHHHHHHHH
Confidence 456789999999875
No 28
>PRK11440 putative hydrolase; Provisional
Probab=23.83 E-value=1.2e+02 Score=21.21 Aligned_cols=34 Identities=18% Similarity=0.174 Sum_probs=24.5
Q ss_pred HHHHHHHhcceeeeeeeechhHHHHHHHHHHHHHH
Q 034253 57 SVWRLKRMGDVLTIVVVAGCCYEIYVKAVMREEAR 91 (100)
Q Consensus 57 sv~~~~~~g~vLT~vVvagCcYEIyv~a~mreear 91 (100)
....+-+..++ .=++|+|++-++-|.++.|....
T Consensus 111 ~L~~~L~~~gi-~~lii~Gv~T~~CV~~Ta~~A~~ 144 (188)
T PRK11440 111 DLELQLRRRGI-DTIVLCGISTNIGVESTARNAWE 144 (188)
T ss_pred CHHHHHHHCCC-CEEEEeeechhHHHHHHHHHHHH
Confidence 44444555555 45688999999999999887654
No 29
>COG1335 PncA Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.98 E-value=86 Score=21.75 Aligned_cols=25 Identities=32% Similarity=0.321 Sum_probs=22.0
Q ss_pred ceeeeeeeechhHHHHHHHHHHHHH
Q 034253 66 DVLTIVVVAGCCYEIYVKAVMREEA 90 (100)
Q Consensus 66 ~vLT~vVvagCcYEIyv~a~mreea 90 (100)
+...-++|+|++-++-|++++|...
T Consensus 131 ~~i~~l~v~G~~td~CV~~T~~~A~ 155 (205)
T COG1335 131 LGIDTVVVCGIATDICVLATARDAF 155 (205)
T ss_pred CCCCEEEEeeeehhHHHHHHHHHHH
Confidence 5677789999999999999999865
No 30
>PF04869 Uso1_p115_head: Uso1 / p115 like vesicle tethering protein, head region; InterPro: IPR006953 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associated protein (TAP) or Vesicle docking protein, this myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the head region. The head region is highly conserved, but its function is unknown. It does not seem to be essential for vesicle tethering []. The N-terminal part of the head region contains context-detected Armadillo/beta-catenin-like repeats.; GO: 0006886 intracellular protein transport, 0048280 vesicle fusion with Golgi apparatus, 0000139 Golgi membrane, 0005737 cytoplasm; PDB: 2W3C_A 3GRL_A 3GQ2_A.
Probab=22.29 E-value=20 Score=28.72 Aligned_cols=39 Identities=31% Similarity=0.514 Sum_probs=24.4
Q ss_pred ccccch-hhhhhhhhHHHHHHHHHhc------cee---eeeeeechhHH
Q 034253 41 LLADDP-VLKRFKSHKKSVWRLKRMG------DVL---TIVVVAGCCYE 79 (100)
Q Consensus 41 LL~ED~-aLKrFKSyK~sv~~~~~~g------~vL---T~vVvagCcYE 79 (100)
.|.||| |.+.|=+-...+.-|-... |++ ...+|.|||||
T Consensus 183 WL~e~p~AV~~FL~~~s~l~~Li~~~~~~~~~~~~VqGL~A~LLGicye 231 (312)
T PF04869_consen 183 WLFECPDAVNDFLSEGSNLQSLIEFSNQSSSEDVLVQGLCAFLLGICYE 231 (312)
T ss_dssp HHTT-HHHHHHHHCSTTHHHHHHHHHS--TCCCHHHHHHHHHHHHHHHH
T ss_pred HHhCCHHHHHHHHcCcchHHHHHHHhhcCCCCcchHHHHHHHHHHHHHH
Confidence 355665 6788877766666655531 222 24678999999
No 31
>PRK12699 flgH flagellar basal body L-ring protein; Reviewed
Probab=21.99 E-value=36 Score=27.02 Aligned_cols=15 Identities=20% Similarity=0.592 Sum_probs=12.1
Q ss_pred HHHHHhcceeeeeee
Q 034253 59 WRLKRMGDVLTIVVV 73 (100)
Q Consensus 59 ~~~~~~g~vLT~vVv 73 (100)
+|-.++||+|||++.
T Consensus 85 ~RA~~VGDiiTV~i~ 99 (246)
T PRK12699 85 RRARQIGDTIIVLLN 99 (246)
T ss_pred cccccCCCEEEEEEE
Confidence 345689999999985
No 32
>PLN02621 nicotinamidase
Probab=21.92 E-value=74 Score=22.70 Aligned_cols=30 Identities=30% Similarity=0.519 Sum_probs=21.9
Q ss_pred HHHHhcceeeeeeeechhHHHHHHHHHHHHHH
Q 034253 60 RLKRMGDVLTIVVVAGCCYEIYVKAVMREEAR 91 (100)
Q Consensus 60 ~~~~~g~vLT~vVvagCcYEIyv~a~mreear 91 (100)
.|+..| + .-+||+|++-++.|..+.+....
T Consensus 121 ~L~~~g-i-~~lvi~Gv~T~~CV~~Ta~~a~~ 150 (197)
T PLN02621 121 RLRKIG-V-KEVIVTGVMTNLCCETTAREAFV 150 (197)
T ss_pred HHHHCC-C-CEEEEEecccchhHHHHHHHHHH
Confidence 344433 3 56689999999999999876544
No 33
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=21.75 E-value=36 Score=21.86 Aligned_cols=16 Identities=50% Similarity=0.802 Sum_probs=11.9
Q ss_pred hhhccccchhhh-hhhh
Q 034253 38 EKALLADDPVLK-RFKS 53 (100)
Q Consensus 38 EKALL~ED~aLK-rFKS 53 (100)
|..|.+|||.+. ++++
T Consensus 15 Er~L~~~DP~fa~~l~~ 31 (82)
T PF11239_consen 15 ERQLRADDPRFAARLRS 31 (82)
T ss_pred HHHHHhcCcHHHHHhcc
Confidence 778999999874 3444
No 34
>KOG2651 consensus rRNA adenine N-6-methyltransferase [RNA processing and modification]
Probab=21.43 E-value=33 Score=30.37 Aligned_cols=11 Identities=45% Similarity=1.186 Sum_probs=8.4
Q ss_pred eeeeechhHHH
Q 034253 70 IVVVAGCCYEI 80 (100)
Q Consensus 70 ~vVvagCcYEI 80 (100)
.+|..||||-.
T Consensus 279 alvsvGCCYh~ 289 (476)
T KOG2651|consen 279 ALVSVGCCYHK 289 (476)
T ss_pred hhheecchhhh
Confidence 36788999954
No 35
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=21.19 E-value=50 Score=26.57 Aligned_cols=24 Identities=13% Similarity=0.112 Sum_probs=17.9
Q ss_pred hhhhhhccCCcccccccccccccc
Q 034253 8 SIASHLRSHTQEKREDALSRRGYH 31 (100)
Q Consensus 8 si~S~lRS~s~~~~~~~~~rRgfH 31 (100)
.|..|++|.||+|+-.+||--..+
T Consensus 153 DLarHYkS~SPqPa~qlqP~tP~~ 176 (221)
T PF08374_consen 153 DLARHYKSASPQPAFQLQPETPTA 176 (221)
T ss_pred chhhhcccCCCCCceeccCCCCCc
Confidence 588999999999766666654443
No 36
>TIGR00778 ahpD_dom alkylhydroperoxidase AhpD family core domain. Members of the family include the alkylhydroperoxidase AhpD of Mycobacterium tuberculosis, a macrophage infectivity potentiator peptide of Legionella pneumophila, and an uncharacterized peptide in the tetrachloroethene reductive dehalogenase operon of Dehalospirillum multivorans. We suggest that many peptides containing this domain may have alkylhydroperoxidase or related antioxidant activity.
Probab=20.88 E-value=34 Score=19.09 Aligned_cols=18 Identities=17% Similarity=0.506 Sum_probs=13.3
Q ss_pred eeeeeeechhHHHHHHHH
Q 034253 68 LTIVVVAGCCYEIYVKAV 85 (100)
Q Consensus 68 LT~vVvagCcYEIyv~a~ 85 (100)
|.+.++.||.|++-.-..
T Consensus 13 l~~s~~~~C~yc~~~H~~ 30 (50)
T TIGR00778 13 IAVSQINGCGYCLDAHTK 30 (50)
T ss_pred HHHHHHcCCHHHHHHHHH
Confidence 556678899999976543
No 37
>PRK12696 flgH flagellar basal body L-ring protein; Reviewed
Probab=20.73 E-value=49 Score=25.92 Aligned_cols=14 Identities=36% Similarity=0.840 Sum_probs=11.6
Q ss_pred HHHHhcceeeeeee
Q 034253 60 RLKRMGDVLTIVVV 73 (100)
Q Consensus 60 ~~~~~g~vLT~vVv 73 (100)
|-.++||+||++|.
T Consensus 64 RA~~VGDivTV~i~ 77 (236)
T PRK12696 64 RARRVGDIVLVKIV 77 (236)
T ss_pred ccccCCCEEEEEEE
Confidence 44689999999985
No 38
>PF00857 Isochorismatase: Isochorismatase family; InterPro: IPR000868 This is a family of hydrolase enzymes. Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate (3.3.2.1 from EC).; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1XN4_A 3KL2_F 1YZV_A 3IRV_A 1IM5_A 1ILW_A 3PL1_A 1NF9_A 1NF8_A 1X9G_A ....
Probab=20.33 E-value=57 Score=21.74 Aligned_cols=64 Identities=19% Similarity=0.295 Sum_probs=39.9
Q ss_pred cccccccccCcchhhccccc------hhhh-h-hhhh-HH-HHHHHHHhcceeeeeeeechhHHHHHHHHHHHHHH
Q 034253 26 SRRGYHVELGPREKALLADD------PVLK-R-FKSH-KK-SVWRLKRMGDVLTIVVVAGCCYEIYVKAVMREEAR 91 (100)
Q Consensus 26 ~rRgfHvE~GaREKALL~ED------~aLK-r-FKSy-K~-sv~~~~~~g~vLT~vVvagCcYEIyv~a~mreear 91 (100)
...+.|..+|.++-+++.+- ..+. . +..+ .. --..|++.| + .-++|+|++-++-|.+++|....
T Consensus 62 ~~~~~~~~~g~~~~~l~~~l~~~~~~~vi~K~~~saf~~t~L~~~L~~~g-i-~~vil~G~~t~~CV~~Ta~~a~~ 135 (174)
T PF00857_consen 62 KPWPPHCIPGSPGAELVPELAPQPGDPVIEKNRYSAFFGTDLDEILRKRG-I-DTVILCGVATDVCVLATARDAFD 135 (174)
T ss_dssp SCHTSCSBTTSGGGSBHGGGHCHTTSEEEEESSSSTTTTSSHHHHHHHTT-E-SEEEEEEESTTTHHHHHHHHHHH
T ss_pred ccccccccCCCCccceeeEeecccccceEEeecccccccccccccccccc-c-ceEEEcccccCcEEehhHHHHHH
Confidence 34566888888888876653 3222 1 2222 22 233344433 3 56788999999999999987654
No 39
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=20.01 E-value=41 Score=26.17 Aligned_cols=14 Identities=43% Similarity=0.802 Sum_probs=11.7
Q ss_pred HHHHhcceeeeeee
Q 034253 60 RLKRMGDVLTIVVV 73 (100)
Q Consensus 60 ~~~~~g~vLT~vVv 73 (100)
|-.++||+|||++.
T Consensus 63 rA~~VGDiiTV~i~ 76 (221)
T PRK12407 63 RAYRVGDILTVILD 76 (221)
T ss_pred cccCCCCEEEEEEE
Confidence 45689999999986
Done!