Query 027563
Match_columns 222
No_of_seqs 73 out of 75
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 11:47:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027563.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027563hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12046 DUF3529: Protein of u 100.0 2.3E-52 5.1E-57 352.1 14.2 118 101-222 2-122 (173)
2 PRK11198 LysM domain/BON super 94.8 0.04 8.8E-07 44.9 4.2 57 116-178 1-62 (147)
3 PF05140 ResB: ResB-like famil 87.5 8.7 0.00019 36.2 11.2 26 142-167 106-131 (464)
4 COG5375 Uncharacterized protei 81.5 0.93 2E-05 40.8 1.9 22 157-178 188-209 (216)
5 PF09286 Pro-kuma_activ: Pro-k 77.4 3.9 8.5E-05 32.3 4.1 34 144-177 59-95 (143)
6 PF09186 DUF1949: Domain of un 58.8 15 0.00033 24.0 3.3 34 149-182 8-43 (56)
7 PF05211 NLBH: Neuraminyllacto 52.0 6.5 0.00014 36.1 0.8 21 145-165 88-108 (258)
8 TIGR01006 polys_exp_MPA1 polys 50.7 53 0.0011 27.6 6.0 72 130-201 118-195 (226)
9 PF09911 DUF2140: Uncharacteri 50.2 41 0.00089 28.8 5.4 34 143-177 50-89 (187)
10 PRK03094 hypothetical protein; 50.2 12 0.00026 29.0 1.9 17 149-165 10-26 (80)
11 PF05818 TraT: Enterobacterial 45.5 44 0.00096 30.0 5.0 70 132-202 21-101 (215)
12 PF14946 DUF4501: Domain of un 42.5 17 0.00036 32.2 1.8 31 98-128 88-120 (180)
13 PF03698 UPF0180: Uncharacteri 42.0 19 0.00041 27.8 1.9 17 149-165 10-26 (80)
14 COG3317 NlpB Uncharacterized l 41.9 36 0.00078 32.7 4.1 33 130-166 96-129 (342)
15 PRK11152 ilvM acetolactate syn 37.9 24 0.00052 26.6 1.8 22 144-165 12-33 (76)
16 TIGR01167 LPXTG_anchor LPXTG-m 37.6 43 0.00092 20.5 2.7 26 98-124 6-31 (34)
17 CHL00177 ccs1 c-type cytochrom 33.2 1.9E+02 0.0042 28.0 7.5 35 146-180 125-160 (426)
18 PF12123 Amidase02_C: N-acetyl 32.8 55 0.0012 22.9 2.9 18 145-162 25-42 (45)
19 PF04390 LptE: Lipopolysacchar 30.3 1.4E+02 0.0031 22.6 5.1 67 109-176 2-74 (155)
20 PF11666 DUF2933: Protein of u 30.2 29 0.00063 25.1 1.2 14 208-221 21-34 (55)
21 PF10075 PCI_Csn8: COP9 signal 30.2 41 0.00088 26.6 2.1 24 150-173 112-135 (143)
22 COG0314 MoaE Molybdopterin con 30.1 65 0.0014 27.2 3.4 29 146-179 13-41 (149)
23 PF13268 DUF4059: Protein of u 29.9 84 0.0018 24.3 3.6 19 110-128 18-36 (72)
24 COG1970 MscL Large-conductance 28.4 75 0.0016 26.9 3.5 61 99-159 68-130 (130)
25 PRK06737 acetolactate synthase 28.4 41 0.00089 25.4 1.8 22 144-165 11-32 (76)
26 PRK06080 1,4-dihydroxy-2-napht 28.4 1.4E+02 0.0031 26.2 5.3 36 150-185 55-93 (293)
27 PF14991 MLANA: Protein melan- 28.3 19 0.00042 30.0 0.0 45 90-138 20-64 (118)
28 PRK13955 mscL large-conductanc 27.5 85 0.0018 26.2 3.6 62 99-160 64-126 (130)
29 PF13710 ACT_5: ACT domain; PD 27.4 56 0.0012 23.1 2.2 20 146-165 3-22 (63)
30 PF04972 BON: BON domain; Int 27.2 53 0.0011 22.1 2.0 34 147-180 3-38 (64)
31 PF11990 DUF3487: Protein of u 26.8 89 0.0019 25.5 3.6 40 167-212 13-52 (121)
32 PF05620 DUF788: Protein of un 26.6 1.4E+02 0.003 25.0 4.8 34 105-138 48-81 (170)
33 PF05915 DUF872: Eukaryotic pr 26.2 1.4E+02 0.0031 24.1 4.6 26 179-205 43-68 (115)
34 PF11374 DUF3176: Protein of u 25.8 48 0.001 26.3 1.8 44 171-214 7-54 (111)
35 COG4698 Uncharacterized protei 25.8 3.5E+02 0.0076 24.4 7.3 34 144-177 59-97 (197)
36 PF02107 FlgH: Flagellar L-rin 25.7 43 0.00093 28.5 1.6 19 161-179 117-135 (179)
37 TIGR00257 IMPACT_YIGZ uncharac 25.0 2.1E+02 0.0046 25.1 5.8 52 126-182 130-183 (204)
38 PRK13953 mscL large-conductanc 24.6 1E+02 0.0022 25.6 3.6 62 98-160 63-124 (125)
39 PF13829 DUF4191: Domain of un 24.4 1.4E+02 0.003 27.1 4.7 22 185-206 29-50 (224)
40 PF13399 LytR_C: LytR cell env 23.8 77 0.0017 22.9 2.5 22 144-165 13-34 (90)
41 PRK13954 mscL large-conductanc 23.6 1.4E+02 0.003 24.7 4.1 57 101-159 63-119 (119)
42 PRK13562 acetolactate synthase 23.5 58 0.0013 25.4 1.8 21 145-165 12-32 (84)
43 TIGR01118 lacA galactose-6-pho 23.5 79 0.0017 26.5 2.8 26 142-167 8-33 (141)
44 PF08479 POTRA_2: POTRA domain 22.3 1.1E+02 0.0024 21.7 3.0 22 144-165 35-56 (76)
45 TIGR00689 rpiB_lacA_lacB sugar 22.1 86 0.0019 26.3 2.7 25 143-167 7-31 (144)
46 PF11774 Lsr2: Lsr2 ; InterPr 21.9 58 0.0013 26.0 1.6 28 141-168 71-98 (110)
47 PRK12701 flgH flagellar basal 21.8 68 0.0015 28.8 2.2 24 156-179 153-184 (230)
48 TIGR01120 rpiB ribose 5-phosph 21.6 87 0.0019 26.2 2.7 26 142-167 7-32 (143)
49 smart00667 LisH Lissencephaly 21.6 90 0.002 17.9 2.1 21 145-165 3-23 (34)
50 PF01741 MscL: Large-conductan 21.5 44 0.00096 27.4 0.9 57 102-158 71-127 (128)
51 PRK09977 putative Mg(2+) trans 21.2 5.9E+02 0.013 22.6 8.5 36 149-184 156-198 (215)
52 PRK14125 cell division suppres 21.1 3.9E+02 0.0085 21.0 6.1 44 105-150 8-52 (103)
53 PF02502 LacAB_rpiB: Ribose/Ga 21.0 95 0.0021 25.7 2.8 22 144-165 9-30 (140)
54 PRK13952 mscL large-conductanc 21.0 1.5E+02 0.0033 25.0 4.0 57 101-159 85-141 (142)
55 PRK08621 galactose-6-phosphate 20.9 96 0.0021 26.1 2.8 26 142-167 8-33 (142)
56 PF06591 Phage_T4_Ndd: T4-like 20.4 47 0.001 28.8 0.9 53 112-164 34-91 (152)
57 PRK12613 galactose-6-phosphate 20.3 1E+02 0.0022 25.9 2.8 26 142-167 8-33 (141)
58 COG1582 FlgEa Uncharacterized 20.3 1.3E+02 0.0027 23.1 3.0 24 133-160 36-59 (67)
59 COG3771 Predicted membrane pro 20.2 2.6E+02 0.0055 22.8 4.9 39 166-204 24-63 (97)
60 PF04320 DUF469: Protein with 20.1 1.4E+02 0.0031 24.0 3.5 37 143-180 30-66 (101)
No 1
>PF12046 DUF3529: Protein of unknown function (DUF3529); InterPro: IPR021919 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 176 to 190 amino acids in length.
Probab=100.00 E-value=2.3e-52 Score=352.11 Aligned_cols=118 Identities=42% Similarity=0.649 Sum_probs=115.5
Q ss_pred hhhHHHHHHHHHHHhhhHhhhhhhccccceeeeEEEeecCCCCChhHHHHHHHHHhhhcCeeeec---CCeEEEEEEeec
Q 027563 101 LASYYTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGEGESKKAPNQVAGEIFSFFTRNNFVVTD---RGEVITFEGMMV 177 (222)
Q Consensus 101 ~aSyySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~~~s~~p~~evl~~L~~yF~~R~Y~V~~---~~evITFEG~V~ 177 (222)
.++|||||+||+|++||||||||||+||||+++|+++++ |+++++++|++||++|||+|++ ++|+|||||+|+
T Consensus 2 ~~~~~STl~LtlLl~iGL~ffiraS~KdRt~~~~~~s~~----p~~~~~~~l~~yf~~r~y~v~~~d~~~~~itFeG~V~ 77 (173)
T PF12046_consen 2 TASLYSTLLLTLLLAIGLFFFIRASVKDRTEQVTFESPQ----PPDEVLEQLKAYFEQRNYRVAEGDAEGEVITFEGFVA 77 (173)
T ss_pred CchhhHHHHHHHHHHhHHHHHHHHhccccEEEEEEEcCC----CHHHHHHHHHHHHHhcCceecccCccccEEEEEEEec
Confidence 478999999999999999999999999999999999999 9999999999999999999999 679999999999
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHcCCCchHHHHHHHhccCC
Q 027563 178 PSRGQAAFLTFCTCISLASVALVLTITYPDIGNNWFWITILSPLA 222 (222)
Q Consensus 178 pS~fLAiFLTfLaaiGl~CLgLVLsil~P~lG~~~l~L~LLSPLA 222 (222)
||+|||+|||+|+++|++|+||||+|++|++||||++|++|||+|
T Consensus 78 pS~~lA~fLt~l~~~Gl~cl~LVL~~l~P~~g~~~~~L~lLsPlA 122 (173)
T PF12046_consen 78 PSWFLAIFLTFLAAIGLACLGLVLSILFPDLGWWPLLLVLLSPLA 122 (173)
T ss_pred CcHhHHHHHHHHHHHHHHHHHHHHHHHcCCcccHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999997
No 2
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=94.84 E-value=0.04 Score=44.89 Aligned_cols=57 Identities=14% Similarity=0.215 Sum_probs=43.2
Q ss_pred hhHhhhhhhccccceeeeEEEeecCCCCChhHHHHHHHHHhhhcCeeeec-----CCeEEEEEEeecC
Q 027563 116 PGLWSLIKRSVKSKIVQKTFVGEGESKKAPNQVAGEIFSFFTRNNFVVTD-----RGEVITFEGMMVP 178 (222)
Q Consensus 116 iGL~FFIRAS~KDRieqrT~vv~~~s~~p~~evl~~L~~yF~~R~Y~V~~-----~~evITFEG~V~p 178 (222)
.|||+|||-+-|. +-....-+...+++.+.|.+.+++.|+...+ .|.++|+.|.|..
T Consensus 1 ~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s 62 (147)
T PRK11198 1 MGLFSFVKEAGEK------LFDAVTAQADNEDAADALKEHISKQGLGDADVNVQVEDGKATVSGDAAS 62 (147)
T ss_pred CcHHHHHHHHHHH------hcCCCCcccchHHHHHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCC
Confidence 3999999999885 1111111234688889999999999997665 7799999999974
No 3
>PF05140 ResB: ResB-like family ; InterPro: IPR007816 This domain is found in a number of known and suspected cytochrome c biogenesis proteins, including ResB []. Mutations in ResB indicate that they are essential for growth []. ResB is predicted to be a transmembrane protein.
Probab=87.50 E-value=8.7 Score=36.22 Aligned_cols=26 Identities=8% Similarity=0.296 Sum_probs=23.2
Q ss_pred CCChhHHHHHHHHHhhhcCeeeecCC
Q 027563 142 KKAPNQVAGEIFSFFTRNNFVVTDRG 167 (222)
Q Consensus 142 ~~p~~evl~~L~~yF~~R~Y~V~~~~ 167 (222)
+.+++++++.+.+.|++++|+|...+
T Consensus 106 ~~~~~~~~~~~~~~L~~~gyrv~~~~ 131 (464)
T PF05140_consen 106 PGDPEEALERLAALLKKKGYRVRRQE 131 (464)
T ss_pred CCChHHHHHHHHHHHHhCCcEEEEec
Confidence 35999999999999999999998854
No 4
>COG5375 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=81.53 E-value=0.93 Score=40.76 Aligned_cols=22 Identities=41% Similarity=0.788 Sum_probs=19.2
Q ss_pred hhcCeeeecCCeEEEEEEeecC
Q 027563 157 TRNNFVVTDRGEVITFEGMMVP 178 (222)
Q Consensus 157 ~~R~Y~V~~~~evITFEG~V~p 178 (222)
..-+|+|.|.|++|+|||+|+.
T Consensus 188 ~ads~~v~D~G~iivF~g~Vr~ 209 (216)
T COG5375 188 TADSYSVTDKGKIIVFEGNVRT 209 (216)
T ss_pred EeeeeEeecCCcEEEEecceEE
Confidence 3568999999999999999974
No 5
>PF09286 Pro-kuma_activ: Pro-kumamolisin, activation domain ; InterPro: IPR015366 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 is found at the N terminus of peptidases belonging to MEROPS peptidase family S53 (sedolisin, clan SB). The domain adopts a ferredoxin-like fold, with an alpha+beta sandwich. Cleavage of the domain results in activation of the peptidase []. ; GO: 0008236 serine-type peptidase activity; PDB: 1T1E_A 3EDY_A 3EE6_A.
Probab=77.44 E-value=3.9 Score=32.27 Aligned_cols=34 Identities=18% Similarity=0.373 Sum_probs=28.0
Q ss_pred ChhHHHHHHHHHhhhcCeeeec---CCeEEEEEEeec
Q 027563 144 APNQVAGEIFSFFTRNNFVVTD---RGEVITFEGMMV 177 (222)
Q Consensus 144 p~~evl~~L~~yF~~R~Y~V~~---~~evITFEG~V~ 177 (222)
|.++-.+.+.+|++++|..+.. .+..|+++|.|.
T Consensus 59 p~~~~v~~V~~wL~~~G~~~~~~~~~~~~i~~~~tv~ 95 (143)
T PF09286_consen 59 PSPEDVAAVKSWLKSHGLTVVEVSANGDWITVSGTVA 95 (143)
T ss_dssp --HHHHHHHHHHHHHCT-EEEEEETTTTEEEEEEEHH
T ss_pred CCHHHHHHHHHHHHHcCCceeEEeCCCCEEEEEEeHH
Confidence 6677889999999999999888 679999999875
No 6
>PF09186 DUF1949: Domain of unknown function (DUF1949); InterPro: IPR015269 Members of this entry are a set of functionally uncharacterised hypothetical bacterial proteins. They adopt a ferredoxin-like fold, with a beta-alpha-beta-beta-alpha-beta arrangement []. This entry contains the protein Impact, which is a translational regulator that ensures constant high levels of translation under amino acid starvation. It acts by interacting with Gcn1/Gcn1L1, thereby preventing activation of Gcn2 protein kinases (EIF2AK1 to 4) and subsequent down-regulation of protein synthesis. It is evolutionary conserved from eukaryotes to archaea []. ; PDB: 2CVE_A 1VI7_A.
Probab=58.78 E-value=15 Score=23.99 Aligned_cols=34 Identities=12% Similarity=0.229 Sum_probs=28.7
Q ss_pred HHHHHHHhhhcCeeeecCC--eEEEEEEeecCchHH
Q 027563 149 AGEIFSFFTRNNFVVTDRG--EVITFEGMMVPSRGQ 182 (222)
Q Consensus 149 l~~L~~yF~~R~Y~V~~~~--evITFEG~V~pS~fL 182 (222)
.+.++.|++++++.+.+.+ +.|+|...|.++.--
T Consensus 8 ~~~v~~~l~~~~~~i~~~~y~~~V~~~v~v~~~~~~ 43 (56)
T PF09186_consen 8 YGKVERLLEQNGIEIVDEDYTDDVTLTVAVPEEEVE 43 (56)
T ss_dssp HHHHHHHHHHTTTEEEEEEECTTEEEEEEEECCCHH
T ss_pred HHHHHHHHHHCCCEEEcceecceEEEEEEECHHHHH
Confidence 5789999999999999954 559999999988543
No 7
>PF05211 NLBH: Neuraminyllactose-binding hemagglutinin precursor (NLBH); InterPro: IPR007876 This family is comprised of several flagellar sheath adhesin proteins also called neuraminyllactose-binding haemagglutinin precursor (NLBH or HpaA) or N-acetylneuraminyllactose-binding fibrillar haemagglutinin receptor-binding subunits. NLBH is found exclusively in Helicobacter which are gut colonising bacteria and bind to sialic acid rich macromolecules present on the gastric epithelium []. The sialic acid-sensitive agglutination of erythrocytes by certain strains of Helicobacter pylori has been attributed to the NLBH protein [].; GO: 0009279 cell outer membrane, 0019861 flagellum; PDB: 2I9I_A 3BGH_B.
Probab=52.00 E-value=6.5 Score=36.13 Aligned_cols=21 Identities=14% Similarity=0.322 Sum_probs=18.3
Q ss_pred hhHHHHHHHHHhhhcCeeeec
Q 027563 145 PNQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 145 ~~evl~~L~~yF~~R~Y~V~~ 165 (222)
.++++.+|++-|++|||+|..
T Consensus 88 ~~aL~~qIq~IlekrGY~V~~ 108 (258)
T PF05211_consen 88 QKALVNQIQSILEKRGYSVLR 108 (258)
T ss_dssp HHHHHHHHHHHHHCTT-EEEE
T ss_pred HHHHHHHHHHHHHhCCcEEEe
Confidence 478999999999999999985
No 8
>TIGR01006 polys_exp_MPA1 polysaccharide export protein, MPA1 family, Gram-positive type. This family contains members from Low GC Gram-positive bacteria; they are proposed to have a function in the export of complex polysaccharides.
Probab=50.69 E-value=53 Score=27.62 Aligned_cols=72 Identities=13% Similarity=0.186 Sum_probs=41.8
Q ss_pred eeeeEEEeecCCCCChhHHHHHHHHHhhhcCeeeecCCeEEEEE------EeecCchHHHHHHHHHHHHHHHHHHHHH
Q 027563 130 IVQKTFVGEGESKKAPNQVAGEIFSFFTRNNFVVTDRGEVITFE------GMMVPSRGQAAFLTFCTCISLASVALVL 201 (222)
Q Consensus 130 ieqrT~vv~~~s~~p~~evl~~L~~yF~~R~Y~V~~~~evITFE------G~V~pS~fLAiFLTfLaaiGl~CLgLVL 201 (222)
+.--+..+...+++...++++.+.+-|.+...++.+.+++-..+ --+.|+...-+.+.++++++++|...++
T Consensus 118 t~ii~Isv~~~dp~~A~~ian~~~~~~~~~~~~~~~~~~~~vl~~a~~p~~p~~P~~~~~~~~g~~~G~~~~~~~~~~ 195 (226)
T TIGR01006 118 TRLISISVKDKTPQDASKIANSLREVASKKIPKITNVSDVTTLEEAKPATTPSSPNPKRNLLIGFLLGLVVALIIVLL 195 (226)
T ss_pred cEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhCCCCcEEeecCCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444456666677888888887777655554433322222 2346667777777776666655544333
No 9
>PF09911 DUF2140: Uncharacterized protein conserved in bacteria (DUF2140); InterPro: IPR018672 This family of conserved hypothetical proteins has no known function.
Probab=50.21 E-value=41 Score=28.82 Aligned_cols=34 Identities=12% Similarity=0.211 Sum_probs=26.6
Q ss_pred CChhHHHHHHHHHhhhcC------eeeecCCeEEEEEEeec
Q 027563 143 KAPNQVAGEIFSFFTRNN------FVVTDRGEVITFEGMMV 177 (222)
Q Consensus 143 ~p~~evl~~L~~yF~~R~------Y~V~~~~evITFEG~V~ 177 (222)
...+++=.-+..|+++.. |++.- ++.+.|+|.+.
T Consensus 50 ~~k~qlN~li~~YL~~~~k~~~~~y~~~l-~~~v~l~g~~~ 89 (187)
T PF09911_consen 50 TNKEQLNALIASYLKKYQKDEKIKYKFYL-DDQVYLYGTIK 89 (187)
T ss_pred eCHHHHHHHHHHHHHHhcccCCccEEEEe-CCEEEEEEEEE
Confidence 367788888888887754 88888 88888999864
No 10
>PRK03094 hypothetical protein; Provisional
Probab=50.18 E-value=12 Score=29.02 Aligned_cols=17 Identities=6% Similarity=0.219 Sum_probs=15.2
Q ss_pred HHHHHHHhhhcCeeeec
Q 027563 149 AGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 149 l~~L~~yF~~R~Y~V~~ 165 (222)
|..|++||++|||.|.+
T Consensus 10 Ls~i~~~L~~~GYeVv~ 26 (80)
T PRK03094 10 LTDVQQALKQKGYEVVQ 26 (80)
T ss_pred cHHHHHHHHHCCCEEEe
Confidence 67799999999999965
No 11
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=45.49 E-value=44 Score=30.00 Aligned_cols=70 Identities=20% Similarity=0.282 Sum_probs=44.7
Q ss_pred eeEEEeec--CCCCChhHHHHHHHHHhhhcCeeeecC-C-------eEEEEEEeecCchHHHHHH-HHHHHHHHHHHHHH
Q 027563 132 QKTFVGEG--ESKKAPNQVAGEIFSFFTRNNFVVTDR-G-------EVITFEGMMVPSRGQAAFL-TFCTCISLASVALV 200 (222)
Q Consensus 132 qrT~vv~~--~s~~p~~evl~~L~~yF~~R~Y~V~~~-~-------evITFEG~V~pS~fLAiFL-TfLaaiGl~CLgLV 200 (222)
+||..+.. .|+++. .+-.+|.+.++.+||+|.+. + --|.+-|.+.+.-....+= .+=++++.+.+|-.
T Consensus 21 ~rtVyv~vrNTSd~~~-~l~~~i~~~L~~kGY~vv~~P~~A~Y~lq~NVL~~~k~~~~~~~~~l~~G~gga~~Ga~~G~~ 99 (215)
T PF05818_consen 21 QRTVYVQVRNTSDKDI-NLESQIISALQAKGYQVVDDPDEAHYWLQANVLYVGKMDPNAAQSALAGGYGGALAGAATGAA 99 (215)
T ss_pred cceEEEEEecCCCCcc-chHHHHHHHHHHCCCEEecChhhCeEEEEeeehhccCCChhHHHHHhhccchhHHHHhHHhhh
Confidence 46666665 466666 79999999999999999872 2 2345778888877444221 12234444444444
Q ss_pred HH
Q 027563 201 LT 202 (222)
Q Consensus 201 Ls 202 (222)
+.
T Consensus 100 ~g 101 (215)
T PF05818_consen 100 IG 101 (215)
T ss_pred hc
Confidence 44
No 12
>PF14946 DUF4501: Domain of unknown function (DUF4501)
Probab=42.54 E-value=17 Score=32.18 Aligned_cols=31 Identities=16% Similarity=0.133 Sum_probs=23.6
Q ss_pred CcchhhHHHHHHHH--HHHhhhHhhhhhhcccc
Q 027563 98 GYSLASYYTSLGLF--VISVPGLWSLIKRSVKS 128 (222)
Q Consensus 98 g~s~aSyySTLlLT--LLlaiGL~FFIRAS~KD 128 (222)
+...+=+--|||++ |+|-+-.||.+|||.|-
T Consensus 88 ~vAASL~LgTffIS~~LilSvA~FFYLKrs~kL 120 (180)
T PF14946_consen 88 QVAASLFLGTFFISLGLILSVASFFYLKRSSKL 120 (180)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhheeecccccC
Confidence 34344456688877 88889999999999875
No 13
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=41.96 E-value=19 Score=27.75 Aligned_cols=17 Identities=12% Similarity=0.247 Sum_probs=15.8
Q ss_pred HHHHHHHhhhcCeeeec
Q 027563 149 AGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 149 l~~L~~yF~~R~Y~V~~ 165 (222)
+..+++||+++||+|.+
T Consensus 10 Ls~v~~~L~~~GyeVv~ 26 (80)
T PF03698_consen 10 LSNVKEALREKGYEVVD 26 (80)
T ss_pred chHHHHHHHHCCCEEEe
Confidence 67899999999999998
No 14
>COG3317 NlpB Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=41.87 E-value=36 Score=32.67 Aligned_cols=33 Identities=21% Similarity=0.292 Sum_probs=27.4
Q ss_pred eeeeEEEeecCCCCChh-HHHHHHHHHhhhcCeeeecC
Q 027563 130 IVQKTFVGEGESKKAPN-QVAGEIFSFFTRNNFVVTDR 166 (222)
Q Consensus 130 ieqrT~vv~~~s~~p~~-evl~~L~~yF~~R~Y~V~~~ 166 (222)
-++++++++. +++ ++..++..+++.|||++..+
T Consensus 96 Gd~~~lv~~~----~~~~~~Wpqv~~~~qE~gf~i~~~ 129 (342)
T COG3317 96 GDTRWLVVEN----QPAAYLWPQVRRFLQENGFRIASR 129 (342)
T ss_pred CCeeEEEEeC----CchHHhHHHHHHHHHHcCCccccc
Confidence 3468889988 444 59999999999999999883
No 15
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=37.89 E-value=24 Score=26.56 Aligned_cols=22 Identities=14% Similarity=0.221 Sum_probs=19.8
Q ss_pred ChhHHHHHHHHHhhhcCeeeec
Q 027563 144 APNQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 144 p~~evl~~L~~yF~~R~Y~V~~ 165 (222)
....+++++..-|++|||++.+
T Consensus 12 n~pGVL~Ri~~lf~rRGfnI~s 33 (76)
T PRK11152 12 FRPEVLERVLRVVRHRGFQVCS 33 (76)
T ss_pred CCccHHHHHHHHHhcCCeeeee
Confidence 4567999999999999999988
No 16
>TIGR01167 LPXTG_anchor LPXTG-motif cell wall anchor domain. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region.
Probab=37.58 E-value=43 Score=20.48 Aligned_cols=26 Identities=38% Similarity=0.266 Sum_probs=15.7
Q ss_pred CcchhhHHHHHHHHHHHhhhHhhhhhh
Q 027563 98 GYSLASYYTSLGLFVISVPGLWSLIKR 124 (222)
Q Consensus 98 g~s~aSyySTLlLTLLlaiGL~FFIRA 124 (222)
|-.....+...++ ++++.|.+++.|+
T Consensus 6 G~~~~~~~~~~G~-~l~~~~~~~~~~r 31 (34)
T TIGR01167 6 GESGNSLLLLLGL-LLLGLGGLLLRKR 31 (34)
T ss_pred CCcccHHHHHHHH-HHHHHHHHHheec
Confidence 4455666666777 4444466666665
No 17
>CHL00177 ccs1 c-type cytochrome biogenensis protein; Validated
Probab=33.15 E-value=1.9e+02 Score=28.00 Aligned_cols=35 Identities=9% Similarity=0.277 Sum_probs=25.0
Q ss_pred hHHHHHHHHHhhhcCeeeecCCe-EEEEEEeecCch
Q 027563 146 NQVAGEIFSFFTRNNFVVTDRGE-VITFEGMMVPSR 180 (222)
Q Consensus 146 ~evl~~L~~yF~~R~Y~V~~~~e-vITFEG~V~pS~ 180 (222)
++..+++.+.+++++|+|.++++ .--.+|....--
T Consensus 125 ~~~~~~~~~~L~~~gy~v~~~~~~l~A~KG~~gr~G 160 (426)
T CHL00177 125 KFSLSKLAYKLKSKNYSIFQQGNKIYAYKGLIGRIA 160 (426)
T ss_pred hhHHHHHHHHHHHCCeEEEEeCcEEEEecCcchhhh
Confidence 45679999999999999998664 344455554433
No 18
>PF12123 Amidase02_C: N-acetylmuramoyl-l-alanine amidase; InterPro: IPR021976 This domain is found in bacteria and viruses. This domain is about 50 amino acids in length. This domain is classified with the enzyme classification code 3.5.1.28 from EC. This domain is the C-terminal of the enzyme which hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain cell-wall glycopeptides. ; PDB: 2L48_B.
Probab=32.76 E-value=55 Score=22.92 Aligned_cols=18 Identities=0% Similarity=0.154 Sum_probs=13.4
Q ss_pred hhHHHHHHHHHhhhcCee
Q 027563 145 PNQVAGEIFSFFTRNNFV 162 (222)
Q Consensus 145 ~~evl~~L~~yF~~R~Y~ 162 (222)
.+.-++.+.+||.+|||-
T Consensus 25 s~~~L~k~~~wld~rgWw 42 (45)
T PF12123_consen 25 SDAELDKFTAWLDERGWW 42 (45)
T ss_dssp -HHHHHHHHHHHHHTT--
T ss_pred CHHHHHHHHHHHHhcCcE
Confidence 356788999999999984
No 19
>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=30.30 E-value=1.4e+02 Score=22.59 Aligned_cols=67 Identities=12% Similarity=0.016 Sum_probs=30.4
Q ss_pred HHHHHHhhhHhhhhhhcccc----ceeeeEEEeecC-CCCChhHHHHHHHHHhhhcCeeeecCC-eEEEEEEee
Q 027563 109 GLFVISVPGLWSLIKRSVKS----KIVQKTFVGEGE-SKKAPNQVAGEIFSFFTRNNFVVTDRG-EVITFEGMM 176 (222)
Q Consensus 109 lLTLLlaiGL~FFIRAS~KD----RieqrT~vv~~~-s~~p~~evl~~L~~yF~~R~Y~V~~~~-evITFEG~V 176 (222)
++.+|++.|--|-++...+. ...-+++.++.. .+. ...+-+.|.+.|.+++-.....+ ...+++|.+
T Consensus 2 l~~~l~lsgCGy~~~~~~~~~~~~~~~~~~v~i~~~~~~~-~~~l~~~L~~~l~~~~~~~~~~~~~d~~L~~~i 74 (155)
T PF04390_consen 2 LLLLLFLSGCGYHLRGSGAPSGSKPIYLPTVYIEPTPEPR-GSMLTRALRDELQRRGSLKVVDSDADYILEIEI 74 (155)
T ss_dssp -----------------SS-------SS-EEEEEESS-TC-HHHHHHHHHHHHHCTTEEEGCSCTTSEEEEEEE
T ss_pred hHHHHhhCcCeeEEcCCCCccccCccceeEEEEcCCCCcc-HHHHHHHHHHHHHhcCCccccCccccEEEEEEE
Confidence 34444444554555555544 455566666643 344 68999999999999998775532 234455554
No 20
>PF11666 DUF2933: Protein of unknown function (DUF2933); InterPro: IPR021682 This bacterial family of proteins has no known function.
Probab=30.21 E-value=29 Score=25.13 Aligned_cols=14 Identities=21% Similarity=0.484 Sum_probs=12.3
Q ss_pred CchHHHHHHHhccC
Q 027563 208 IGNNWFWITILSPL 221 (222)
Q Consensus 208 lG~~~l~L~LLSPL 221 (222)
+|+++|++.++.|+
T Consensus 21 ~~~lp~l~lL~CPL 34 (55)
T PF11666_consen 21 LGALPYLLLLACPL 34 (55)
T ss_pred HHHHHHHHHHHhHH
Confidence 78999999999886
No 21
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=30.16 E-value=41 Score=26.60 Aligned_cols=24 Identities=17% Similarity=0.306 Sum_probs=13.3
Q ss_pred HHHHHHhhhcCeeeecCCeEEEEE
Q 027563 150 GEIFSFFTRNNFVVTDRGEVITFE 173 (222)
Q Consensus 150 ~~L~~yF~~R~Y~V~~~~evITFE 173 (222)
+++.+|.++|||.+.+++..+.+.
T Consensus 112 ~el~~~~~~~gW~~d~~~~~~~~~ 135 (143)
T PF10075_consen 112 EELEKFIKSRGWTVDGDGVLFPPN 135 (143)
T ss_dssp HHHHHHHHHHT-EE-----EE---
T ss_pred HHHHHHHHHcCCEECCCccEEecC
Confidence 488999999999999877777654
No 22
>COG0314 MoaE Molybdopterin converting factor, large subunit [Coenzyme metabolism]
Probab=30.10 E-value=65 Score=27.22 Aligned_cols=29 Identities=21% Similarity=0.332 Sum_probs=19.1
Q ss_pred hHHHHHHHHHhhhcCeeeecCCeEEEEEEeecCc
Q 027563 146 NQVAGEIFSFFTRNNFVVTDRGEVITFEGMMVPS 179 (222)
Q Consensus 146 ~evl~~L~~yF~~R~Y~V~~~~evITFEG~V~pS 179 (222)
-++.+.|..+-+.. +.|-++||.|.||--
T Consensus 13 ~~~~~~i~~~~~~~-----~~GAivtF~G~VR~~ 41 (149)
T COG0314 13 FDVEELIEALSEPS-----EAGAIVTFVGIVREE 41 (149)
T ss_pred CCHHHHHHHHhCcc-----cCceEEEEEEEEecC
Confidence 33444444444433 789999999999864
No 23
>PF13268 DUF4059: Protein of unknown function (DUF4059)
Probab=29.87 E-value=84 Score=24.30 Aligned_cols=19 Identities=32% Similarity=0.667 Sum_probs=14.5
Q ss_pred HHHHHhhhHhhhhhhcccc
Q 027563 110 LFVISVPGLWSLIKRSVKS 128 (222)
Q Consensus 110 LTLLlaiGL~FFIRAS~KD 128 (222)
++++++-|+|.+.||..|-
T Consensus 18 i~V~~~~~~wi~~Ra~~~~ 36 (72)
T PF13268_consen 18 ILVLLVSGIWILWRALRKK 36 (72)
T ss_pred HHHHHHHHHHHHHHHHHcC
Confidence 3567778999999987653
No 24
>COG1970 MscL Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=28.42 E-value=75 Score=26.90 Aligned_cols=61 Identities=13% Similarity=0.147 Sum_probs=42.4
Q ss_pred cchhhHHHHHHHHHHHhhhHhhhhhhccccceeeeEEEeec-C-CCCChhHHHHHHHHHhhhc
Q 027563 99 YSLASYYTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGEG-E-SKKAPNQVAGEIFSFFTRN 159 (222)
Q Consensus 99 ~s~aSyySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~~-~-s~~p~~evl~~L~~yF~~R 159 (222)
...-.+.++..=|++.+--+|+.+|+--|-|-+.+.-..+. + .+-.+++++.||++-++++
T Consensus 68 i~yG~Fi~~vinFlIiAf~iFl~Vk~inkl~~~~~~~~~e~~~~~~~~e~~LLtEIRDLL~~~ 130 (130)
T COG1970 68 IAYGAFIQAVINFLIIAFAIFLVVKAINKLRRKLEKEEPEAPAPAPPAEEVLLTEIRDLLKKQ 130 (130)
T ss_pred eeHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCCCchHHHHHHHHHHHHhcC
Confidence 44556788899999999999999999887644322113333 1 2234478999999988764
No 25
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=28.42 E-value=41 Score=25.39 Aligned_cols=22 Identities=18% Similarity=0.323 Sum_probs=19.6
Q ss_pred ChhHHHHHHHHHhhhcCeeeec
Q 027563 144 APNQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 144 p~~evl~~L~~yF~~R~Y~V~~ 165 (222)
....+++++..-|.+|||++.+
T Consensus 11 n~pGVL~Ri~~lf~rRgfNI~S 32 (76)
T PRK06737 11 NDPSVLLRISGIFARRGYYISS 32 (76)
T ss_pred cCCCHHHHHHHHHhccCcceEE
Confidence 3467999999999999999987
No 26
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=28.36 E-value=1.4e+02 Score=26.17 Aligned_cols=36 Identities=11% Similarity=-0.109 Sum_probs=18.6
Q ss_pred HHHHHHhhhc-Ceeeec--CCeEEEEEEeecCchHHHHH
Q 027563 150 GEIFSFFTRN-NFVVTD--RGEVITFEGMMVPSRGQAAF 185 (222)
Q Consensus 150 ~~L~~yF~~R-~Y~V~~--~~evITFEG~V~pS~fLAiF 185 (222)
+-+.||++.+ +.+..+ +.+...-+|.+.+.....+.
T Consensus 55 n~~Ndy~D~~~g~D~~~~~~~~r~l~~G~is~~~~~~~~ 93 (293)
T PRK06080 55 NLANDYGDYVKGTDTEDRVGPLRAIGRGGISPKQVKRAA 93 (293)
T ss_pred HHHHhHHHhccCCCcccccCCcccccCCCCCHHHHHHHH
Confidence 4455666653 343222 22334468888777654333
No 27
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=28.29 E-value=19 Score=29.96 Aligned_cols=45 Identities=24% Similarity=0.330 Sum_probs=1.3
Q ss_pred hhhhhccCCcchhhHHHHHHHHHHHhhhHhhhhhhccccceeeeEEEee
Q 027563 90 YLLAESTAGYSLASYYTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGE 138 (222)
Q Consensus 90 ~~~~~~~~g~s~aSyySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~ 138 (222)
++-||.+.|-. .-++.|-+||.+|-|++=|||-=.++..|+..+-
T Consensus 20 yitAEEAaGIG----iL~VILgiLLliGCWYckRRSGYk~L~~k~~~~g 64 (118)
T PF14991_consen 20 YITAEEAAGIG----ILIVILGILLLIGCWYCKRRSGYKTLRDKSLHAG 64 (118)
T ss_dssp --------SSS--------------------------------------
T ss_pred eeeHHHhccce----eHHHHHHHHHHHhheeeeecchhhhhhhcccccc
Confidence 34455443543 4578899999999999999998766655555443
No 28
>PRK13955 mscL large-conductance mechanosensitive channel; Provisional
Probab=27.48 E-value=85 Score=26.24 Aligned_cols=62 Identities=15% Similarity=0.199 Sum_probs=40.6
Q ss_pred cchhhHHHHHHHHHHHhhhHhhhhhhccccceeeeEEEeec-CCCCChhHHHHHHHHHhhhcC
Q 027563 99 YSLASYYTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGEG-ESKKAPNQVAGEIFSFFTRNN 160 (222)
Q Consensus 99 ~s~aSyySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~~-~s~~p~~evl~~L~~yF~~R~ 160 (222)
...-++.+++.=|++.+-=+|+.+|.-.|-|-.++.-..+. +.+-+.++++.+|++-+++|+
T Consensus 64 i~yG~fl~avInFlIiA~vvF~ivk~~nk~~~~~~~~~~~~~~~~~~~~~lL~eIrdlL~~~~ 126 (130)
T PRK13955 64 IMYGNFIQTIFDFLIIAASIFMFVKVFNKLTSKKEEEKEEEIPEPTKEEELLGEIRDLLKQQN 126 (130)
T ss_pred eeHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCChHHHHHHHHHHHHHhcc
Confidence 44456778888888888889999988666432211111111 112235679999999999876
No 29
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=27.44 E-value=56 Score=23.14 Aligned_cols=20 Identities=25% Similarity=0.399 Sum_probs=16.9
Q ss_pred hHHHHHHHHHhhhcCeeeec
Q 027563 146 NQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 146 ~evl~~L~~yF~~R~Y~V~~ 165 (222)
..++.+|..=|++|||++.+
T Consensus 3 ~GvL~Ri~~vf~rRg~nI~s 22 (63)
T PF13710_consen 3 PGVLNRITGVFRRRGFNIES 22 (63)
T ss_dssp TTHHHHHHHHHHTTT-EECE
T ss_pred cHHHHHHHHHHhcCCeEEee
Confidence 35789999999999999987
No 30
>PF04972 BON: BON domain; InterPro: IPR007055 The BON domain is typically ~60 residues long and has an alpha/beta predicted fold. There is a conserved glycine residue and several hydrophobic regions. This pattern of conservation is more suggestive of a binding or structural function rather than a catalytic function. Most proteobacteria seem to possess one or two BON-containing proteins, typically of the OsmY-type proteins; outside of this group the distribution is more disparate. The OsmY protein is an Escherichia coli 20 kDa outer membrane or periplasmic protein that is expressed in response to a variety of stress conditions, in particular, helping to provide protection against osmotic shock. One hypothesis is that OsmY prevents shrinkage of the cytoplasmic compartment by contacting the phospholipid interfaces surrounding the periplasmic space. The domain architecture of two BON domains alone suggests that these domains contact the surfaces of phospholipids, with each domain contacting a membrane [].; PDB: 2L26_A 2KGS_A 2KSM_A.
Probab=27.21 E-value=53 Score=22.13 Aligned_cols=34 Identities=18% Similarity=0.337 Sum_probs=21.4
Q ss_pred HHHHHHHH--HhhhcCeeeecCCeEEEEEEeecCch
Q 027563 147 QVAGEIFS--FFTRNNFVVTDRGEVITFEGMMVPSR 180 (222)
Q Consensus 147 evl~~L~~--yF~~R~Y~V~~~~evITFEG~V~pS~ 180 (222)
++.+.|.. +|...+.+|.-.+++++..|.|...-
T Consensus 3 ~v~~~L~~~~~~~~~~i~v~v~~g~v~L~G~v~s~~ 38 (64)
T PF04972_consen 3 KVRAALRADPWLPDSNISVSVENGVVTLSGEVPSQE 38 (64)
T ss_dssp ----------CTT-TTEEEEEECTEEEEEEEESSCH
T ss_pred ccccccccccccCCCeEEEEEECCEEEEEeeCcHHH
Confidence 34455555 78888889999999999999996543
No 31
>PF11990 DUF3487: Protein of unknown function (DUF3487); InterPro: IPR021877 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 121 to 136 amino acids in length. This protein has a conserved RLN sequence motif.
Probab=26.82 E-value=89 Score=25.47 Aligned_cols=40 Identities=28% Similarity=0.282 Sum_probs=29.1
Q ss_pred CeEEEEEEeecCchHHHHHHHHHHHHHHHHHHHHHHHHcCCCchHH
Q 027563 167 GEVITFEGMMVPSRGQAAFLTFCTCISLASVALVLTITYPDIGNNW 212 (222)
Q Consensus 167 ~evITFEG~V~pS~fLAiFLTfLaaiGl~CLgLVLsil~P~lG~~~ 212 (222)
.|-+.|+|.=.++.+.++.+++.++ +.+|+.++++ .|||.
T Consensus 13 ~ePvV~rGlT~~El~~~a~~~~~~g---~~~gl~la~~---~g~~a 52 (121)
T PF11990_consen 13 REPVVFRGLTADELGLAAGVGFVAG---LVVGLPLALL---TGWWA 52 (121)
T ss_pred CCCCeecCCCHHHHHHHHHHHHHHH---HHHHHHHHHH---HHHHH
Confidence 3667899999999999888766444 5666666666 46663
No 32
>PF05620 DUF788: Protein of unknown function (DUF788); InterPro: IPR008506 This family consists of several eukaryotic proteins of unknown function.
Probab=26.60 E-value=1.4e+02 Score=24.96 Aligned_cols=34 Identities=9% Similarity=0.122 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhhhHhhhhhhccccceeeeEEEee
Q 027563 105 YTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGE 138 (222)
Q Consensus 105 ySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~ 138 (222)
+.-++++.+...+.++++++..|.+.....-.++
T Consensus 48 ~~~~~~~~~~~~~~~~~l~~~~rp~~~~~g~Lv~ 81 (170)
T PF05620_consen 48 WFGYLLFSLPAIFCYYFLEKMARPKYDETGELVD 81 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCcCCCCCeec
Confidence 3447778888889999999999986663333333
No 33
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=26.20 E-value=1.4e+02 Score=24.08 Aligned_cols=26 Identities=27% Similarity=0.295 Sum_probs=16.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHc
Q 027563 179 SRGQAAFLTFCTCISLASVALVLTITY 205 (222)
Q Consensus 179 S~fLAiFLTfLaaiGl~CLgLVLsil~ 205 (222)
+..+|+||.+.|++ +.++|+++..-.
T Consensus 43 ~I~la~~Lli~G~~-li~~g~l~~~~~ 68 (115)
T PF05915_consen 43 SIALAVFLLIFGTV-LIIIGLLLFFGH 68 (115)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHhcc
Confidence 45678888777776 555565555443
No 34
>PF11374 DUF3176: Protein of unknown function (DUF3176); InterPro: IPR021514 This eukaryotic family of proteins has no known function.
Probab=25.85 E-value=48 Score=26.32 Aligned_cols=44 Identities=20% Similarity=0.403 Sum_probs=36.4
Q ss_pred EEEEeecCchHH----HHHHHHHHHHHHHHHHHHHHHHcCCCchHHHH
Q 027563 171 TFEGMMVPSRGQ----AAFLTFCTCISLASVALVLTITYPDIGNNWFW 214 (222)
Q Consensus 171 TFEG~V~pS~fL----AiFLTfLaaiGl~CLgLVLsil~P~lG~~~l~ 214 (222)
.|+|+-.|+|.. ...+++++.++=+|+..+++.-.-++-|.|+.
T Consensus 7 ~~dgk~~~~W~~~isln~~isilsti~~a~l~~~v~~~l~QlkW~~f~ 54 (111)
T PF11374_consen 7 VYDGKPVPSWPFGISLNTLISILSTIAKAALLFPVSEGLSQLKWNWFS 54 (111)
T ss_pred hhCCcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 477888888754 67899999999999999999888887777764
No 35
>COG4698 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.83 E-value=3.5e+02 Score=24.44 Aligned_cols=34 Identities=21% Similarity=0.203 Sum_probs=27.9
Q ss_pred ChhHHHHHHHHHhhh-----cCeeeecCCeEEEEEEeec
Q 027563 144 APNQVAGEIFSFFTR-----NNFVVTDRGEVITFEGMMV 177 (222)
Q Consensus 144 p~~evl~~L~~yF~~-----R~Y~V~~~~evITFEG~V~ 177 (222)
..+++.+-|..|++. -+|+|--.|+.+.|||.+.
T Consensus 59 tr~~LN~li~syl~~~~tee~~YKv~it~~~v~f~a~~k 97 (197)
T COG4698 59 TRSQLNELINSYLEDYQTEEMPYKVYITDEHVEFEANYK 97 (197)
T ss_pred cHHHHHHHHHHHHHHhhhccCCeEEEEecCeEEEEEEhh
Confidence 567777777888865 4799999999999999975
No 36
>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=25.70 E-value=43 Score=28.45 Aligned_cols=19 Identities=21% Similarity=0.452 Sum_probs=14.2
Q ss_pred eeeecCCeEEEEEEeecCc
Q 027563 161 FVVTDRGEVITFEGMMVPS 179 (222)
Q Consensus 161 Y~V~~~~evITFEG~V~pS 179 (222)
.++.++.+.|+++|.|+|.
T Consensus 117 i~vn~e~~~i~lsGiVRp~ 135 (179)
T PF02107_consen 117 IRVNGEEQYIRLSGIVRPE 135 (179)
T ss_pred EEECCCEEEEEEEEEECHH
Confidence 3344466999999999984
No 37
>TIGR00257 IMPACT_YIGZ uncharacterized protein, YigZ family. This uncharacterized protein family includes YigZ, which has been crystallized, from E. coli. YigZ is homologous to the protein product of the mouse IMPACT gene. Crystallography shows a two-domain stucture, and the C-terminal domain is suggested to bind nucleic acids. The function is unknown. Note that the ortholog from E. coli was shown fused to the pepQ gene in GenBank entry X54687. This caused occasional misidentification of this protein as pepQ; this family is found in a number of species that lack pepQ.
Probab=25.03 E-value=2.1e+02 Score=25.14 Aligned_cols=52 Identities=2% Similarity=-0.040 Sum_probs=38.4
Q ss_pred cccceeeeEEEeecCCCCChhHHHHHHHHHhhhcCeeeecCC--eEEEEEEeecCchHH
Q 027563 126 VKSKIVQKTFVGEGESKKAPNQVAGEIFSFFTRNNFVVTDRG--EVITFEGMMVPSRGQ 182 (222)
Q Consensus 126 ~KDRieqrT~vv~~~s~~p~~evl~~L~~yF~~R~Y~V~~~~--evITFEG~V~pS~fL 182 (222)
...++....+.+.. +=..++.+..+++++++++.+.+ +.+++.-.+.++...
T Consensus 130 ~~~~~~~~~~~~~~-----~y~~~~~v~~~l~~~~~~i~~~~y~~~V~~~~~v~~~~~~ 183 (204)
T TIGR00257 130 KEEKLELEILSLHC-----DYKQLDALERELKKFQLEIIKSNFSNNVVLVEISGTKENL 183 (204)
T ss_pred eEEEEEEEEEEEEe-----chhHHHHHHHHHHHCCCEEEeeEecCCEEEEEEECHHHHH
Confidence 34555556666655 23568999999999999998854 669999999877543
No 38
>PRK13953 mscL large-conductance mechanosensitive channel; Provisional
Probab=24.64 E-value=1e+02 Score=25.63 Aligned_cols=62 Identities=11% Similarity=0.113 Sum_probs=39.8
Q ss_pred CcchhhHHHHHHHHHHHhhhHhhhhhhccccceeeeEEEeecCCCCChhHHHHHHHHHhhhcC
Q 027563 98 GYSLASYYTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGEGESKKAPNQVAGEIFSFFTRNN 160 (222)
Q Consensus 98 g~s~aSyySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~~~s~~p~~evl~~L~~yF~~R~ 160 (222)
+...-.+.+++.=|++.+-=+|+.+|+-.|-|-+++. .-+.+.+-|.++++.+|++=+++|+
T Consensus 63 ~i~yG~fl~avinFlIia~vvF~~vk~~nk~~~~~~~-~~~~~~~~~~~~lL~eIrD~L~~~~ 124 (125)
T PRK13953 63 VIQYGAFIQSIVDFLIIAFAIFIFVKVLTSFIKKKEQ-QEEETPVPPTEEYLKEIRDLLKQQQ 124 (125)
T ss_pred ceeHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-CCCCCCCCchHHHHHHHHHHHHhhc
Confidence 3445667788888888888899998886654321111 1111111223789999999998874
No 39
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=24.43 E-value=1.4e+02 Score=27.09 Aligned_cols=22 Identities=9% Similarity=0.295 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHcC
Q 027563 185 FLTFCTCISLASVALVLTITYP 206 (222)
Q Consensus 185 FLTfLaaiGl~CLgLVLsil~P 206 (222)
.+-+++++|...+++++.+++.
T Consensus 29 ~~ml~a~l~~~~v~v~ig~l~~ 50 (224)
T PF13829_consen 29 WLMLGAFLGPIAVFVLIGLLFG 50 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc
Confidence 3444555666677888888887
No 40
>PF13399 LytR_C: LytR cell envelope-related transcriptional attenuator
Probab=23.81 E-value=77 Score=22.93 Aligned_cols=22 Identities=14% Similarity=0.283 Sum_probs=19.5
Q ss_pred ChhHHHHHHHHHhhhcCeeeec
Q 027563 144 APNQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 144 p~~evl~~L~~yF~~R~Y~V~~ 165 (222)
....+++++.++|+.+||.+.+
T Consensus 13 ~~~GlA~~~a~~L~~~Gf~v~~ 34 (90)
T PF13399_consen 13 GVSGLAARVADALRNRGFTVVE 34 (90)
T ss_pred CCcCHHHHHHHHHHHCCCceee
Confidence 4467999999999999999987
No 41
>PRK13954 mscL large-conductance mechanosensitive channel; Provisional
Probab=23.61 E-value=1.4e+02 Score=24.69 Aligned_cols=57 Identities=16% Similarity=0.102 Sum_probs=38.0
Q ss_pred hhhHHHHHHHHHHHhhhHhhhhhhccccceeeeEEEeecCCCCChhHHHHHHHHHhhhc
Q 027563 101 LASYYTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGEGESKKAPNQVAGEIFSFFTRN 159 (222)
Q Consensus 101 ~aSyySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~~~s~~p~~evl~~L~~yF~~R 159 (222)
.-.+.+++.=|++.+-=+|+.+|.-.|-|- +.-.-+.+.+.+..+++.+|++=+++|
T Consensus 63 yG~fl~avinFlIiA~vvF~~vk~~~k~~~--~~~~~~~~~~~~~~~lL~eIrd~L~~~ 119 (119)
T PRK13954 63 YGLFIQSVIDFIIIAFALFIFVKIANTLMK--KEEAEEEAVVEENVVLLTEIRDLLREK 119 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--cccCCCCCCCChHHHHHHHHHHHHhcC
Confidence 356778888888888889999998776432 211111223334567899999988764
No 42
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=23.51 E-value=58 Score=25.39 Aligned_cols=21 Identities=19% Similarity=0.232 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHhhhcCeeeec
Q 027563 145 PNQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 145 ~~evl~~L~~yF~~R~Y~V~~ 165 (222)
..-++.++..-|.||||.+.+
T Consensus 12 ~~GVL~Rit~lFsRRg~NI~S 32 (84)
T PRK13562 12 QVSTLNRITSAFVRLQYNIDT 32 (84)
T ss_pred CCCHHHHHHHHHhccCcCeee
Confidence 346899999999999999988
No 43
>TIGR01118 lacA galactose-6-phosphate isomerase, LacA subunit. This family contains members from low GC gram-positive bacteria. Galactose-6-phosphate isomerase is involved in lactose catabolism by the tagatose-6-phosphate pathway.
Probab=23.49 E-value=79 Score=26.54 Aligned_cols=26 Identities=27% Similarity=0.323 Sum_probs=21.7
Q ss_pred CCChhHHHHHHHHHhhhcCeeeecCC
Q 027563 142 KKAPNQVAGEIFSFFTRNNFVVTDRG 167 (222)
Q Consensus 142 ~~p~~evl~~L~~yF~~R~Y~V~~~~ 167 (222)
+-.--++-+.|++||+++||+|.|-|
T Consensus 8 Dh~G~~lK~~i~~~L~~~G~eV~D~G 33 (141)
T TIGR01118 8 DLAGKRLKDVIKNFLVDNGFEVIDVT 33 (141)
T ss_pred CcchHHHHHHHHHHHHHCCCEEEEcC
Confidence 34557888999999999999999854
No 44
>PF08479 POTRA_2: POTRA domain, ShlB-type; InterPro: IPR013686 The POTRA domain (for polypeptide-transport-associated domain) is found towards the N terminus of ShlB family proteins (IPR005565 from INTERPRO). ShlB is important in the secretion and activation of the haemolysin ShlA. It has been postulated that the POTRA domain has a chaperone-like function over ShlA; it may fold back into the C-terminal beta-barrel channel []. ; PDB: 2X8X_X 2QDZ_A 3NJT_A 3MC8_A 3MC9_B.
Probab=22.26 E-value=1.1e+02 Score=21.71 Aligned_cols=22 Identities=9% Similarity=0.419 Sum_probs=16.9
Q ss_pred ChhHHHHHHHHHhhhcCeeeec
Q 027563 144 APNQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 144 p~~evl~~L~~yF~~R~Y~V~~ 165 (222)
...++++.|.+|+.++||-.+.
T Consensus 35 ~l~~~~~~l~~~y~~~GY~~s~ 56 (76)
T PF08479_consen 35 DLQQLADALTNYYREKGYITSR 56 (76)
T ss_dssp HHHHHHHHHHHHHHHTT-TT-E
T ss_pred HHHHHHHHHHHHHHHcCceEEE
Confidence 4578899999999999997543
No 45
>TIGR00689 rpiB_lacA_lacB sugar-phosphate isomerases, RpiB/LacA/LacB family. Proteins of known function in this family act as sugar (pentose and/or hexose)-phosphate isomerases, including the LacA and LacB subunits of galactose-6-phosphate isomerases from Gram-positive bacteria and RpiB. RpiB is the second ribose phosphate isomerase of E. coli. It lacks homology to RpiA, its inducer is unknown (but is not ribose), and it can be replaced by the homologous galactose-6-phosphate isomerase of Streptococcus mutans, all of which suggests that the ribose phosphate isomerase activity of RpiB is a secondary function. On the other hand, there appear to be a significant number of species which contain rpiB, lack rpiA and seem to require rpi activity in order to copplete the pentose phosphate pathway.
Probab=22.08 E-value=86 Score=26.26 Aligned_cols=25 Identities=24% Similarity=0.339 Sum_probs=20.8
Q ss_pred CChhHHHHHHHHHhhhcCeeeecCC
Q 027563 143 KAPNQVAGEIFSFFTRNNFVVTDRG 167 (222)
Q Consensus 143 ~p~~evl~~L~~yF~~R~Y~V~~~~ 167 (222)
..--++-+.|.+|++++||+|.|-|
T Consensus 7 haG~~lK~~l~~~L~~~g~eV~D~G 31 (144)
T TIGR00689 7 HAGLELKSEIIEHLKQKGHEVIDCG 31 (144)
T ss_pred cchHHHHHHHHHHHHHCCCEEEEcC
Confidence 3446788999999999999999943
No 46
>PF11774 Lsr2: Lsr2 ; InterPro: IPR024412 This entry represents Lsr2, which is a small, basic DNA-bridging protein present in Mycobacterium and related actinomycetes. It is a functional homologue of the H-NS-like proteins []. H-NS proteins play a role in nucleoid organisation and also function as a pleiotropic regulator of gene expression [, ].; PDB: 4E1R_B 4E1P_B 2KNG_A.
Probab=21.94 E-value=58 Score=26.04 Aligned_cols=28 Identities=29% Similarity=0.497 Sum_probs=17.5
Q ss_pred CCCChhHHHHHHHHHhhhcCeeeecCCe
Q 027563 141 SKKAPNQVAGEIFSFFTRNNFVVTDRGE 168 (222)
Q Consensus 141 s~~p~~evl~~L~~yF~~R~Y~V~~~~e 168 (222)
......+-..+|.+|=+.|||.|.+.|.
T Consensus 71 ~~~~~~~~~~~IR~WA~~nG~~Vs~RGR 98 (110)
T PF11774_consen 71 AAAAPREDTAAIREWARENGYEVSDRGR 98 (110)
T ss_dssp G---SSTHHHHHHHHHHHTT----SSS-
T ss_pred cCCCCccchHHHHHHHHHcCCcCCCCCc
Confidence 4456677789999999999999999874
No 47
>PRK12701 flgH flagellar basal body L-ring protein; Reviewed
Probab=21.84 E-value=68 Score=28.80 Aligned_cols=24 Identities=25% Similarity=0.560 Sum_probs=18.0
Q ss_pred hhhcCeeeec--------CCeEEEEEEeecCc
Q 027563 156 FTRNNFVVTD--------RGEVITFEGMMVPS 179 (222)
Q Consensus 156 F~~R~Y~V~~--------~~evITFEG~V~pS 179 (222)
+-.-|+.|.+ ++|.|+|.|.|||.
T Consensus 153 lpNGnL~I~GeK~v~vN~e~e~i~lsGvVRP~ 184 (230)
T PRK12701 153 LANGNMVVQGEKWVRINQGNEFVRLSGIVRPQ 184 (230)
T ss_pred CCCCCEEEEEEEEEEECCCeEEEEEEEEECHH
Confidence 4455666666 55999999999984
No 48
>TIGR01120 rpiB ribose 5-phosphate isomerase B. Involved in the non-oxidative branch of the pentose phospate pathway.
Probab=21.60 E-value=87 Score=26.20 Aligned_cols=26 Identities=27% Similarity=0.363 Sum_probs=21.5
Q ss_pred CCChhHHHHHHHHHhhhcCeeeecCC
Q 027563 142 KKAPNQVAGEIFSFFTRNNFVVTDRG 167 (222)
Q Consensus 142 ~~p~~evl~~L~~yF~~R~Y~V~~~~ 167 (222)
+..--++-+.|++|++++||+|.|-|
T Consensus 7 DhaG~~lK~~l~~~L~~~g~eV~D~G 32 (143)
T TIGR01120 7 DHAGFILKEEIKAFLVERGVKVIDKG 32 (143)
T ss_pred CcchHHHHHHHHHHHHHCCCEEEEeC
Confidence 33557888999999999999999843
No 49
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=21.57 E-value=90 Score=17.92 Aligned_cols=21 Identities=19% Similarity=0.379 Sum_probs=16.7
Q ss_pred hhHHHHHHHHHhhhcCeeeec
Q 027563 145 PNQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 145 ~~evl~~L~~yF~~R~Y~V~~ 165 (222)
..++..-|.+||.++||.-+.
T Consensus 3 ~~~l~~lI~~yL~~~g~~~ta 23 (34)
T smart00667 3 RSELNRLILEYLLRNGYEETA 23 (34)
T ss_pred HHHHHHHHHHHHHHcCHHHHH
Confidence 456777899999999997554
No 50
>PF01741 MscL: Large-conductance mechanosensitive channel, MscL; InterPro: IPR001185 Mechanosensitive ion channels (MscL) play a critical role in transducing physical stresses at the cell membrane into an electrochemical response. MscL is a protein which forms a channel organised as a homopentamer, with each subunit containing two transmembrane regions []. Prokaryotes harbor a large-conductance mechanosensitive channel (gene mscL) that opens in response to stretch forces in the membrane lipid bilayer and may participate in the regulation of osmotic pressure changes within the cell [].; GO: 0005216 ion channel activity, 0006810 transport, 0016021 integral to membrane; PDB: 3HZQ_A 2OAR_A.
Probab=21.53 E-value=44 Score=27.41 Aligned_cols=57 Identities=18% Similarity=0.195 Sum_probs=35.7
Q ss_pred hhHHHHHHHHHHHhhhHhhhhhhccccceeeeEEEeecCCCCChhHHHHHHHHHhhh
Q 027563 102 ASYYTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGEGESKKAPNQVAGEIFSFFTR 158 (222)
Q Consensus 102 aSyySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~~~s~~p~~evl~~L~~yF~~ 158 (222)
-.+.+++.=|++.+.=+|+++|.--|-|-++..-+.+.+.+....+++.||++-+++
T Consensus 71 G~Fl~a~I~FlIiA~vvFlivk~~nk~~~~~~~~~~~~~~~~~~~~ll~eIrdlL~~ 127 (128)
T PF01741_consen 71 GAFLNALINFLIIAFVVFLIVKPINKLKKKEEKEEAEAPAPKTCEELLTEIRDLLKK 127 (128)
T ss_dssp CHHHHHHHHHHHHHHHHHHCHHHHHHCHHTT-S----H--HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCCCCCCchHHHHHHHHHHHhc
Confidence 456677777888888888888776655433333222223344668899999988765
No 51
>PRK09977 putative Mg(2+) transport ATPase; Provisional
Probab=21.16 E-value=5.9e+02 Score=22.59 Aligned_cols=36 Identities=8% Similarity=0.180 Sum_probs=25.1
Q ss_pred HHHHHHHhhhcCeeeec-------CCeEEEEEEeecCchHHHH
Q 027563 149 AGEIFSFFTRNNFVVTD-------RGEVITFEGMMVPSRGQAA 184 (222)
Q Consensus 149 l~~L~~yF~~R~Y~V~~-------~~evITFEG~V~pS~fLAi 184 (222)
.+++.++|+++++++.+ +++.++++-.+.......-
T Consensus 156 ~~~i~~~l~~~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 (215)
T PRK09977 156 VVSMLDWFKQQKIKTDLVSLQENEDHEVVAIDITLHATTSIED 198 (215)
T ss_pred HHHHHHHHHHcCceEEEEEEEecCCCcEEEEEEEECCCCCHHH
Confidence 37788899999988766 2356888887775444333
No 52
>PRK14125 cell division suppressor protein YneA; Provisional
Probab=21.13 E-value=3.9e+02 Score=21.01 Aligned_cols=44 Identities=14% Similarity=0.029 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhhhHhhhhhhccc-cceeeeEEEeecCCCCChhHHHH
Q 027563 105 YTSLGLFVISVPGLWSLIKRSVK-SKIVQKTFVGEGESKKAPNQVAG 150 (222)
Q Consensus 105 ySTLlLTLLlaiGL~FFIRAS~K-DRieqrT~vv~~~s~~p~~evl~ 150 (222)
+.+...+++++.+++++.+++.. +..+-.++.|.. +-..-++++
T Consensus 8 ~~~~ii~~~l~~~~~~~~~~~~~~~~~~~~~~tV~~--GDTLW~IA~ 52 (103)
T PRK14125 8 IHVSIFFVLTALVLLIFVYATVPVDKNQYVEITVQE--GDTLWALAD 52 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHcccccCCCCcEEEEECC--CCCHHHHHH
Confidence 44555666677778888877763 222333444433 333444444
No 53
>PF02502 LacAB_rpiB: Ribose/Galactose Isomerase; InterPro: IPR003500 This entry represents the sugar isomerase enzymes ribose 5-phosphate isomerase B (rpiB), galactose isomerase subunit A (LacA) and galactose isomerase subunit B (LacB). Galactose-6-phosphate isomerase (5.3.1.26 from EC) is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism []. Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacB subunit. Ribose 5-phosphate isomerase (5.3.1.6 from EC) forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology [].; GO: 0005975 carbohydrate metabolic process; PDB: 3HEE_A 3HE8_A 3PH3_B 3PH4_B 3ONO_A 4EM8_B 3S5P_B 1O1X_A 2BES_D 2VVP_D ....
Probab=21.04 E-value=95 Score=25.70 Aligned_cols=22 Identities=18% Similarity=0.308 Sum_probs=19.5
Q ss_pred ChhHHHHHHHHHhhhcCeeeec
Q 027563 144 APNQVAGEIFSFFTRNNFVVTD 165 (222)
Q Consensus 144 p~~evl~~L~~yF~~R~Y~V~~ 165 (222)
.--++-+.|++|++++||+|.+
T Consensus 9 ~g~~lK~~i~~~L~~~g~eV~D 30 (140)
T PF02502_consen 9 AGFELKEAIKEYLEEKGYEVID 30 (140)
T ss_dssp GGHHHHHHHHHHHHHTTEEEEE
T ss_pred HHHHHHHHHHHHHHHCCCEEEE
Confidence 3467889999999999999998
No 54
>PRK13952 mscL large-conductance mechanosensitive channel; Provisional
Probab=21.04 E-value=1.5e+02 Score=25.00 Aligned_cols=57 Identities=14% Similarity=0.146 Sum_probs=38.1
Q ss_pred hhhHHHHHHHHHHHhhhHhhhhhhccccceeeeEEEeecCCCCChhHHHHHHHHHhhhc
Q 027563 101 LASYYTSLGLFVISVPGLWSLIKRSVKSKIVQKTFVGEGESKKAPNQVAGEIFSFFTRN 159 (222)
Q Consensus 101 ~aSyySTLlLTLLlaiGL~FFIRAS~KDRieqrT~vv~~~s~~p~~evl~~L~~yF~~R 159 (222)
.-.+.+++.=|++.+-=+|+.+|.-.|-| ++.-..+.+.+.++++++.+|++=++++
T Consensus 85 yG~fl~avInFlIiA~vvf~ivk~~nk~~--~~~~~~~~~~~~~e~~lL~eIrd~L~~~ 141 (142)
T PRK13952 85 YGNFITVLINFLILAFIIFLMVKAINRLR--RKEEAAPPPAPPEDVVLLREIRDLLKKK 141 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hcccCCCCCCCChHHHHHHHHHHHHhcc
Confidence 34667888888888888899999876643 2211111122334677899999988865
No 55
>PRK08621 galactose-6-phosphate isomerase subunit LacA; Reviewed
Probab=20.94 E-value=96 Score=26.07 Aligned_cols=26 Identities=19% Similarity=0.279 Sum_probs=21.5
Q ss_pred CCChhHHHHHHHHHhhhcCeeeecCC
Q 027563 142 KKAPNQVAGEIFSFFTRNNFVVTDRG 167 (222)
Q Consensus 142 ~~p~~evl~~L~~yF~~R~Y~V~~~~ 167 (222)
+-.--++-+.|.+|++++||+|.|-|
T Consensus 8 DhaG~~lK~~l~~~L~~~G~eV~D~G 33 (142)
T PRK08621 8 DKAGFELKEVVKDYLEDNKYEVVDVT 33 (142)
T ss_pred CcchHHHHHHHHHHHHHCCCEEEECC
Confidence 33456888999999999999999854
No 56
>PF06591 Phage_T4_Ndd: T4-like phage nuclear disruption protein (Ndd); InterPro: IPR009514 This family consists of several nuclear disruption (Ndd) proteins from T4-like phages. Early in a Bacteriophage T4 infection, the phage ndd gene causes the rapid destruction of the structure of the Escherichia coli nucleoid. The targets of Ndd action may be the chromosomal sequences that determine the structure of the nucleoid [].
Probab=20.41 E-value=47 Score=28.77 Aligned_cols=53 Identities=19% Similarity=0.269 Sum_probs=38.1
Q ss_pred HHHhhhHhhhhhhcc-----ccceeeeEEEeecCCCCChhHHHHHHHHHhhhcCeeee
Q 027563 112 VISVPGLWSLIKRSV-----KSKIVQKTFVGEGESKKAPNQVAGEIFSFFTRNNFVVT 164 (222)
Q Consensus 112 LLlaiGL~FFIRAS~-----KDRieqrT~vv~~~s~~p~~evl~~L~~yF~~R~Y~V~ 164 (222)
.+..+|.+||+-++. |.=+.-|.|+-+++++.--++++.+|+.=+.+-+=.+.
T Consensus 34 ~l~~~GFYF~V~~~~~r~~~~~~V~ARFyVG~QRskqGf~~~ls~Ir~~rs~~~~~m~ 91 (152)
T PF06591_consen 34 DLSEPGFYFFVSAGDGRAFSNGVVVARFYVGNQRSKQGFNNTLSHIRQRRSQLARTMA 91 (152)
T ss_pred HhcCCceEEEEecCccccccCceEEEEEEEcchhhhhhHHHHHHHHHhccCcHHHHHH
Confidence 478999999993321 11145699999999999999999999875554443333
No 57
>PRK12613 galactose-6-phosphate isomerase subunit LacA; Provisional
Probab=20.33 E-value=1e+02 Score=25.93 Aligned_cols=26 Identities=19% Similarity=0.245 Sum_probs=21.8
Q ss_pred CCChhHHHHHHHHHhhhcCeeeecCC
Q 027563 142 KKAPNQVAGEIFSFFTRNNFVVTDRG 167 (222)
Q Consensus 142 ~~p~~evl~~L~~yF~~R~Y~V~~~~ 167 (222)
+-.--++-+.|++|+++.||+|.|-|
T Consensus 8 DhaG~~lK~~l~~~L~~~g~eV~D~G 33 (141)
T PRK12613 8 DAHGNALKELIKSFLQEEGYDIIDVT 33 (141)
T ss_pred CcchHHHHHHHHHHHHHCCCEEEEcC
Confidence 34557888999999999999999955
No 58
>COG1582 FlgEa Uncharacterized protein, possibly involved in motility [Cell motility and secretion]
Probab=20.26 E-value=1.3e+02 Score=23.11 Aligned_cols=24 Identities=17% Similarity=0.310 Sum_probs=20.7
Q ss_pred eEEEeecCCCCChhHHHHHHHHHhhhcC
Q 027563 133 KTFVGEGESKKAPNQVAGEIFSFFTRNN 160 (222)
Q Consensus 133 rT~vv~~~s~~p~~evl~~L~~yF~~R~ 160 (222)
+.++|.. +.+||.+.|.+|+++-+
T Consensus 36 kkyvVkE----sveEVi~kI~~y~rkI~ 59 (67)
T COG1582 36 KKYVVKE----SVEEVINKIIEYRRKIG 59 (67)
T ss_pred cEEEEcc----cHHHHHHHHHHHHHHhh
Confidence 6788888 99999999999998744
No 59
>COG3771 Predicted membrane protein [Function unknown]
Probab=20.24 E-value=2.6e+02 Score=22.76 Aligned_cols=39 Identities=13% Similarity=0.110 Sum_probs=27.2
Q ss_pred CCeEEEEEEeecCchH-HHHHHHHHHHHHHHHHHHHHHHH
Q 027563 166 RGEVITFEGMMVPSRG-QAAFLTFCTCISLASVALVLTIT 204 (222)
Q Consensus 166 ~~evITFEG~V~pS~f-LAiFLTfLaaiGl~CLgLVLsil 204 (222)
+|++|+|.=.++-+-| +.-+|..+-++|++|=.+.+...
T Consensus 24 Ndq~v~FNYllAqgef~LSTLla~lF~~G~~lgwli~g~f 63 (97)
T COG3771 24 NDQQVTFNYLLAQGEFRLSTLLATLFAAGFALGWLICGLF 63 (97)
T ss_pred CceEEeeeehhhcchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6799999777766655 34455666778888877766544
No 60
>PF04320 DUF469: Protein with unknown function (DUF469); InterPro: IPR007416 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.
Probab=20.11 E-value=1.4e+02 Score=24.00 Aligned_cols=37 Identities=14% Similarity=0.273 Sum_probs=31.5
Q ss_pred CChhHHHHHHHHHhhhcCeeeecCCeEEEEEEeecCch
Q 027563 143 KAPNQVAGEIFSFFTRNNFVVTDRGEVITFEGMMVPSR 180 (222)
Q Consensus 143 ~p~~evl~~L~~yF~~R~Y~V~~~~evITFEG~V~pS~ 180 (222)
..-+..+++..++.+.||.-..++| .-.|||.|.+.+
T Consensus 30 e~~D~~~D~fId~Ie~~gL~~~Ggg-~~~~eG~vc~~~ 66 (101)
T PF04320_consen 30 EQIDAFVDAFIDVIEPNGLAFGGGG-YEQWEGFVCLQR 66 (101)
T ss_pred HHHHHHHHHHHHHHHhCCCEEecCC-ccCEeEEEEecc
Confidence 3448899999999999999999977 677999998763
Done!