Query 035202
Match_columns 70
No_of_seqs 111 out of 320
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 10:02:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035202.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035202hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00280 potato_inhibit: Potat 100.0 6.8E-35 1.5E-39 168.0 5.4 63 8-70 1-63 (63)
2 PF11720 Inhibitor_I78: Peptid 99.7 1.8E-18 3.8E-23 98.3 2.7 56 7-66 2-57 (60)
3 PF03793 PASTA: PASTA domain; 81.1 1.4 3E-05 23.8 1.9 18 12-29 4-21 (63)
4 cd06573 PASTA PASTA domain. Th 72.8 8.1 0.00018 19.2 3.3 17 12-28 3-19 (53)
5 cd06577 PASTA_pknB PASTA domai 66.5 5.3 0.00011 20.3 1.8 18 12-29 3-20 (62)
6 smart00740 PASTA PASTA domain. 56.0 10 0.00022 19.5 1.8 20 10-29 6-25 (66)
7 cd06575 PASTA_Pbp2x-like_2 PAS 55.7 11 0.00024 18.7 1.8 18 12-29 3-20 (54)
8 PF13103 TonB_2: TonB C termin 54.3 15 0.00033 20.6 2.4 18 49-66 26-43 (85)
9 PF03413 PepSY: Peptidase prop 53.6 31 0.00068 17.8 3.9 48 18-65 3-62 (64)
10 cd06576 PASTA_Pbp2x-like_1 PAS 53.1 12 0.00026 18.7 1.7 18 12-29 3-20 (55)
11 PF06241 DUF1012: Protein of u 51.6 18 0.00039 25.1 2.8 22 9-34 97-118 (206)
12 KOG0912 Thiol-disulfide isomer 50.6 19 0.00041 27.0 2.9 34 19-52 35-93 (375)
13 PF06691 DUF1189: Protein of u 49.8 34 0.00074 23.4 4.0 43 22-64 58-102 (250)
14 cd03477 Rieske_YhfW_C YhfW fam 48.7 25 0.00054 20.7 2.8 28 38-65 8-35 (91)
15 PF03544 TonB_C: Gram-negative 44.0 22 0.00048 19.3 2.0 15 52-66 19-33 (79)
16 TIGR01352 tonB_Cterm TonB fami 42.8 26 0.00057 18.8 2.1 16 52-67 13-28 (74)
17 PF08482 HrpB_C: ATP-dependent 42.6 23 0.00051 22.9 2.1 46 5-52 6-60 (133)
18 PF04355 SmpA_OmlA: SmpA / Oml 38.1 42 0.00092 18.4 2.5 19 48-66 52-70 (71)
19 cd03474 Rieske_T4moC Toluene-4 37.7 44 0.00094 19.7 2.7 29 38-66 10-38 (108)
20 TIGR00638 Mop molybdenum-pteri 37.5 19 0.0004 19.3 0.9 20 39-58 50-69 (69)
21 PF00367 PTS_EIIB: phosphotran 36.5 16 0.00035 18.2 0.5 20 44-63 15-34 (35)
22 cd03531 Rieske_RO_Alpha_KSH Th 33.1 63 0.0014 19.5 2.9 28 39-66 12-39 (115)
23 cd04337 Rieske_RO_Alpha_Cao Ca 32.8 65 0.0014 20.0 3.0 29 38-66 27-55 (129)
24 PRK11548 outer membrane biogen 32.7 50 0.0011 20.2 2.4 17 50-66 88-104 (113)
25 COG0391 Uncharacterized conser 31.4 47 0.001 24.5 2.4 24 19-46 180-203 (323)
26 cd03469 Rieske_RO_Alpha_N Ries 31.3 71 0.0015 18.8 2.9 26 40-65 13-38 (118)
27 PHA02087 hypothetical protein 31.2 61 0.0013 19.2 2.5 22 47-68 38-61 (83)
28 PRK13320 pantothenate kinase; 29.9 63 0.0014 22.4 2.8 38 11-48 92-129 (244)
29 PF01436 NHL: NHL repeat; Int 29.8 59 0.0013 14.9 1.9 20 37-56 9-28 (28)
30 COG2815 Uncharacterized protei 29.5 81 0.0017 22.9 3.4 21 8-28 92-112 (303)
31 PRK03760 hypothetical protein; 29.5 45 0.00097 20.8 1.8 13 54-66 63-75 (117)
32 cd00340 GSH_Peroxidase Glutath 28.7 63 0.0014 20.0 2.5 16 51-66 123-138 (152)
33 PF14326 DUF4384: Domain of un 28.7 63 0.0014 18.4 2.3 29 38-66 3-35 (83)
34 PF02643 DUF192: Uncharacteriz 28.6 48 0.001 20.1 1.8 13 54-66 52-64 (108)
35 KOG2819 Uncharacterized conser 28.6 1.3E+02 0.0029 22.8 4.4 54 6-59 12-71 (413)
36 PRK13328 pantothenate kinase; 28.1 61 0.0013 22.6 2.5 38 12-49 97-134 (255)
37 PF11396 DUF2874: Protein of u 27.6 1E+02 0.0022 16.1 3.8 43 22-64 12-61 (61)
38 cd03530 Rieske_NirD_small_Baci 27.2 85 0.0018 18.0 2.7 27 39-65 11-37 (98)
39 COG1596 Wza Periplasmic protei 27.2 60 0.0013 22.4 2.3 41 13-56 89-130 (239)
40 COG1430 Uncharacterized conser 27.1 54 0.0012 21.0 1.9 13 54-66 66-78 (126)
41 PRK14584 hmsS hemin storage sy 27.0 73 0.0016 21.2 2.6 19 48-66 119-137 (153)
42 PF08882 Acetone_carb_G: Aceto 26.8 27 0.00059 22.1 0.5 18 34-51 85-102 (112)
43 PF13994 PgaD: PgaD-like prote 25.9 51 0.0011 20.8 1.6 16 49-64 122-137 (138)
44 PF06519 TolA: TolA C-terminal 25.7 63 0.0014 19.5 1.9 17 50-66 38-54 (96)
45 PRK11251 DNA-binding transcrip 25.7 80 0.0017 19.7 2.4 17 50-66 77-93 (109)
46 PF00899 ThiF: ThiF family; I 25.2 1.5E+02 0.0032 18.0 3.6 31 12-42 50-81 (135)
47 COG1264 PtsG Phosphotransferas 24.8 51 0.0011 19.5 1.4 20 44-63 18-37 (88)
48 PF05380 Peptidase_A17: Pao re 24.5 58 0.0013 20.8 1.7 58 2-60 32-89 (159)
49 PRK00522 tpx lipid hydroperoxi 23.4 81 0.0018 20.1 2.3 17 50-66 130-146 (167)
50 PRK13321 pantothenate kinase; 22.9 95 0.0021 21.3 2.6 38 12-49 103-140 (256)
51 PRK09510 tolA cell envelope in 22.7 78 0.0017 23.9 2.3 17 50-66 327-343 (387)
52 COG1225 Bcp Peroxiredoxin [Pos 22.5 88 0.0019 20.7 2.3 18 49-66 118-135 (157)
53 PF02575 YbaB_DNA_bd: YbaB/Ebf 22.1 82 0.0018 18.1 1.9 15 52-66 31-45 (93)
54 PF12357 PLD_C: Phospholipase 22.0 84 0.0018 18.5 1.9 13 55-67 45-57 (74)
55 TIGR01819 F420_cofD LPPG:FO 2- 21.9 88 0.0019 22.8 2.4 24 19-46 173-196 (297)
56 cd00212 PTS_IIB_glc PTS_IIB, P 21.8 76 0.0016 18.1 1.7 19 45-63 19-37 (78)
57 PF06633 DUF1155: Protein of u 21.7 27 0.00059 18.2 -0.2 14 39-52 20-35 (42)
58 PF08402 TOBE_2: TOBE domain; 21.7 37 0.0008 17.9 0.3 16 40-55 59-74 (75)
59 TIGR00671 baf pantothenate kin 20.8 1E+02 0.0023 21.2 2.5 38 11-49 95-132 (243)
60 KOG0544 FKBP-type peptidyl-pro 20.6 1.9E+02 0.0041 18.1 3.4 27 32-58 2-28 (108)
61 cd03480 Rieske_RO_Alpha_PaO Ri 20.5 1.1E+02 0.0024 19.1 2.4 27 39-65 28-55 (138)
62 TIGR02540 gpx7 putative glutat 20.3 1.1E+02 0.0024 18.9 2.4 16 51-66 120-135 (153)
63 COG0810 TonB Periplasmic prote 20.0 1.1E+02 0.0023 21.0 2.4 28 39-66 169-197 (244)
64 PRK09437 bcp thioredoxin-depen 20.0 1.1E+02 0.0024 18.7 2.3 15 52-66 121-135 (154)
No 1
>PF00280 potato_inhibit: Potato inhibitor I family; InterPro: IPR000864 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. This family of proteinase inhibitors belong to MEROPS inhibitor family I13, clan IG. They inhibit peptidases of the S1 (IPR001254 from INTERPRO) and S8 (IPR000209 from INTERPRO) families []. Potato inhibitor type I sequences are not solely restricted to potatoes but are found in other plant species for example: barley endosperm chymotrypsin inhibitor [], and pumpkin trypsin inhibitor. Exceptions are found in leech's, e.g.Hirudo medicinalis (Medicinal leech), but not other metazoa []. In general, the proteins have retained a specificity towards chymotrypsin-like and elastase-like proteases []. Structurally these inhibitors are small (60 to 90 residues) and in contrast with other families of protease inhibitors, they lack disulphide bonds. The inhibitor is a wedge-shaped molecule, its pointed edge formed by the protease-binding loop, which contains the scissile bond. The loop binds tightly to the protease active site, subsequent cleavage of the scissile bond causing inhibition of the enzyme []. The inhibitors (designated type I and II) are synthesised in potato tubers, increasing in concentration as the tuber develops. Synthesis of the inhibitors throughout the plant is also induced by leaf damage; this systemic response being triggered by the release of a putative plant hormone []. Examples found in the bacteria and archaea are probable false positives.; GO: 0004867 serine-type endopeptidase inhibitor activity, 0009611 response to wounding; PDB: 1TEC_I 1SBN_I 1ACB_I 1EGP_A 3TEC_I 2SEC_I 1EGL_A 2TEC_I 1SIB_I 1MEE_I ....
Probab=100.00 E-value=6.8e-35 Score=167.95 Aligned_cols=63 Identities=56% Similarity=0.915 Sum_probs=59.4
Q ss_pred CCCCccccCcchHHHHHHHHhhCCCCcEEEeeCCCccccCCCCCeeEEEECCCCcEEEcCccC
Q 035202 8 KSSWPELLGAQGVEAAATVESDNPLVNAQIVLEGSFVTGDFLCTRVRVWVNTRGTVTRVPTIG 70 (70)
Q Consensus 8 k~~WpelVG~~~~~A~~~I~~d~p~~~v~vl~pg~~vT~Df~~~RV~v~vD~~g~V~~vP~vG 70 (70)
|+|||||||+++++|+++|++|||+++++++++|+++|+|||||||+||+|++|+|+++|+||
T Consensus 1 K~sWPELVG~~~~~A~~~I~~e~P~v~v~vlp~gs~vt~df~~~RVrv~vd~~~~V~~~P~iG 63 (63)
T PF00280_consen 1 KTSWPELVGKSGEEAKAIIERENPDVTVVVLPEGSPVTMDFRCDRVRVFVDSNGIVVRVPRIG 63 (63)
T ss_dssp -SB-GGGTTSBHHHHHHHHHHHSTTSEEEEEETTSEEESSBETTEEEEEEETTSBBES-SEEE
T ss_pred CCCCchhcCCCHHHHHHHHHHHCCCCeEEEEeCCCCcCCCcCCCEEEEEECCCCeEEeCCCcC
Confidence 799999999999999999999999999999999999999999999999999999999999998
No 2
>PF11720 Inhibitor_I78: Peptidase inhibitor I78 family; InterPro: IPR021719 This family includes Aspergillus elastase inhibitor and belongs to MEROPS peptidase inhibitor family I78.
Probab=99.73 E-value=1.8e-18 Score=98.31 Aligned_cols=56 Identities=27% Similarity=0.353 Sum_probs=46.3
Q ss_pred CCCCCccccCcchHHHHHHHHhhCCCCcEEEeeCCCccccCCCCCeeEEEECCCCcEEEc
Q 035202 7 GKSSWPELLGAQGVEAAATVESDNPLVNAQIVLEGSFVTGDFLCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 7 ~k~~WpelVG~~~~~A~~~I~~d~p~~~v~vl~pg~~vT~Df~~~RV~v~vD~~g~V~~v 66 (70)
+.+....|||++++++...-. ...+||++||+++|||||+|||||++|++|+|+++
T Consensus 2 ~A~~~q~lvGq~~~~~~~~~~----~~~~Rvi~Pg~~vTmDyr~dRLnv~~D~~g~I~~v 57 (60)
T PF11720_consen 2 GAAAAQSLVGQPASAAEREEL----AETVRVIRPGDAVTMDYRPDRLNVEVDDDGVITRV 57 (60)
T ss_pred CHHHHHHhhCCCccccccccc----ccceEEeCCCCcCcccCCCCcEEEEECCCCcEEEE
Confidence 455566899999876654322 33789999999999999999999999999999875
No 3
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=81.14 E-value=1.4 Score=23.81 Aligned_cols=18 Identities=33% Similarity=0.508 Sum_probs=15.0
Q ss_pred ccccCcchHHHHHHHHhh
Q 035202 12 PELLGAQGVEAAATVESD 29 (70)
Q Consensus 12 pelVG~~~~~A~~~I~~d 29 (70)
|+|+|++..+|+..++..
T Consensus 4 Pd~~g~~~~~a~~~l~~~ 21 (63)
T PF03793_consen 4 PDLVGMTYDEAKSILEAA 21 (63)
T ss_dssp -TTTTSBHHHHHHHHHHT
T ss_pred CCcCCCcHHHHHHHHHHC
Confidence 899999999999877763
No 4
>cd06573 PASTA PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain.
Probab=72.78 E-value=8.1 Score=19.17 Aligned_cols=17 Identities=18% Similarity=0.401 Sum_probs=14.8
Q ss_pred ccccCcchHHHHHHHHh
Q 035202 12 PELLGAQGVEAAATVES 28 (70)
Q Consensus 12 pelVG~~~~~A~~~I~~ 28 (70)
|.++|++..+|...++.
T Consensus 3 p~~~g~~~~~a~~~l~~ 19 (53)
T cd06573 3 PDLVGISKKDLEEQLYD 19 (53)
T ss_pred CcccCCcHHHHHHHHHc
Confidence 78999999999888775
No 5
>cd06577 PASTA_pknB PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis. PknB is a receptor-like transmembrane protein with an extracellular signal sensor domain (containing multiple PASTA domains) and an intracellular, eukaryotic serine/threonine kinase-like domain. The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain.
Probab=66.47 E-value=5.3 Score=20.28 Aligned_cols=18 Identities=33% Similarity=0.506 Sum_probs=15.2
Q ss_pred ccccCcchHHHHHHHHhh
Q 035202 12 PELLGAQGVEAAATVESD 29 (70)
Q Consensus 12 pelVG~~~~~A~~~I~~d 29 (70)
|.|+|++..+|...++..
T Consensus 3 p~~~g~~~~~a~~~l~~~ 20 (62)
T cd06577 3 PDVVGMTLDEAKAALEAA 20 (62)
T ss_pred CCcCCCCHHHHHHHHHHC
Confidence 789999999999877654
No 6
>smart00740 PASTA PASTA domain.
Probab=56.00 E-value=10 Score=19.50 Aligned_cols=20 Identities=20% Similarity=0.320 Sum_probs=16.0
Q ss_pred CCccccCcchHHHHHHHHhh
Q 035202 10 SWPELLGAQGVEAAATVESD 29 (70)
Q Consensus 10 ~WpelVG~~~~~A~~~I~~d 29 (70)
.=|+|+|++..+|...++..
T Consensus 6 ~vp~~~g~~~~~a~~~l~~~ 25 (66)
T smart00740 6 EVPDVIGLSKEEAKKLLKAL 25 (66)
T ss_pred eCCCcCCCCHHHHHHHHHHC
Confidence 45799999999998877643
No 7
>cd06575 PASTA_Pbp2x-like_2 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by acylating the active site serine. PBPs catalyze key steps in the synthesis of the peptidoglycan, such as the interconnecting of glycan chains (polymers of N-glucosamine and N-acetylmuramic acid residues) and the cross-linking (transpeptidation) of short stem peptides, which are attached to glycan chains. Peptidoglycan is essential in cell division and protects bacteria from osmotic shock and lysis. PBP2x is one of the two monofunctional high molecular mass PBPs in Streptococcus pneumoniae and has been seen as the primary PBP target in beta-lactam-resistant strains. The PASTA domain is found at the C-termini of several PBPs and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine
Probab=55.65 E-value=11 Score=18.68 Aligned_cols=18 Identities=28% Similarity=0.272 Sum_probs=14.9
Q ss_pred ccccCcchHHHHHHHHhh
Q 035202 12 PELLGAQGVEAAATVESD 29 (70)
Q Consensus 12 pelVG~~~~~A~~~I~~d 29 (70)
|+++|++.++|...+...
T Consensus 3 p~~~g~~~~~a~~~l~~~ 20 (54)
T cd06575 3 PDLTGWSKRDALKLLELL 20 (54)
T ss_pred CCcCCCCHHHHHHHHHHC
Confidence 789999999998877543
No 8
>PF13103 TonB_2: TonB C terminal; PDB: 1LR0_A.
Probab=54.27 E-value=15 Score=20.58 Aligned_cols=18 Identities=33% Similarity=0.540 Sum_probs=12.3
Q ss_pred CCCeeEEEECCCCcEEEc
Q 035202 49 LCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 49 ~~~RV~v~vD~~g~V~~v 66 (70)
..-.|.|.+|.+|.|..+
T Consensus 26 ~~~~V~i~i~~dG~v~~~ 43 (85)
T PF13103_consen 26 LSVTVRITIDPDGRVISV 43 (85)
T ss_dssp --EEEEEEE-TTSBEEEE
T ss_pred cEEEEEEEECCCCCEEEE
Confidence 345688999999999654
No 9
>PF03413 PepSY: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR005075 This signature, PepSY, is found in the propeptide of members of the MEROPS peptidase family M4 (clan MA(E)), which contains the thermostable thermolysins (3.4.24.27 from EC), and related thermolabile neutral proteases (bacillolysins) (3.4.24.28 from EC) from various species of Bacillus. It is also in many non-peptidase proteins, including Bacillus subtilis YpeB protein - a regulator of SleB spore cortex lytic enzyme - and a large number of eubacterial and archaeal cell wall-associated and secreted proteins which are mostly annotated as 'hypothetical protein'. Many extracellular bacterial proteases are produced as proenzymes. The propeptides usually have a dual function, i.e. they function as an intramolecular chaperone required for the folding of the polypeptide and as an inhibitor preventing premature activation of the enzyme. Analysis of the propeptide region of the M4 family of peptidases reveals two regions of conservation, the PepSY domain and a second domain, proximate to the N terminus, the FTP domain (IPR011096 from INTERPRO), which is also found in isolation in the propeptide of eukaryotic peptidases belong to MEROPS peptidase family M36. Propeptide domain swapping experiments, for example swapping the propeptide domain of PA protease with that of vibrolysin, both propeptides contain the FTP and PepSY domains, allows the PA protease domain to fold correctly and inhibits the C-terminal autoprocessing activity. However, swapping the propeptide of PA protease for the thermolysin propeptide, does not facilitate the correct folding nor the processing of the chimaeric protein into an active peptidase []. Mutational analysis of the Pseudomonas aeruginosa elastase gene revealed two mutations in the propeptide which resulted in the loss of inhibitory activity but not chaperone activity: A-15V and T-153I (where +1 is defined as the first residue of the mature peptidase). Both mutations resulted in peptidase activity, the T-153V mutation being much less effective than the A-15I mutation [] in activating peptidase activity. The T-153V mutation lies N-terminal to the FTP domain while the A-15I mutation is C-terminal to the PepSY domain. Given the diverse range of other proteins, both domains occur in in isolation, the exact function of each is still unclear; though it has been proposed that the PepSY domain primarily has inhibitory activity and in conjunction with the FTP domain in chaperone activity. ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0005576 extracellular region; PDB: 2GU3_A 3NQZ_A 3NQY_A 2KGY_A.
Probab=53.57 E-value=31 Score=17.84 Aligned_cols=48 Identities=15% Similarity=0.049 Sum_probs=26.0
Q ss_pred chHHHHHHHHhhCCCCcEEE-eeCC-Cc-----cccCC----CCCeeEEEECC-CCcEEE
Q 035202 18 QGVEAAATVESDNPLVNAQI-VLEG-SF-----VTGDF----LCTRVRVWVNT-RGTVTR 65 (70)
Q Consensus 18 ~~~~A~~~I~~d~p~~~v~v-l~pg-~~-----vT~Df----~~~RV~v~vD~-~g~V~~ 65 (70)
+.++|..+.++..|+....+ +.+. .. +.... ......++||+ +|.|.+
T Consensus 3 s~~~A~~~A~~~~~~~~~~~~~~~~~~~~~~Y~v~~~~~~~~~~~~~~v~VDa~tG~Il~ 62 (64)
T PF03413_consen 3 SEEQAVEIALKQYPGKVISVELEEDENGRLVYEVEVVSDDDPDGGEYEVYVDAYTGEILS 62 (64)
T ss_dssp -HHHHHHHHHCCCCCEEEEEEEECC-TCEEEEEEEEEBTTSTTTEEEEEEEETTT--EEE
T ss_pred CHHHHHHHHHHHCCCCEEEEEEccccCCcEEEEEEEEEEecCCCCEEEEEEECCCCeEEE
Confidence 45688888888888875553 3443 11 22222 23335666997 477764
No 10
>cd06576 PASTA_Pbp2x-like_1 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by acylating the active site serine. PBPs catalyze key steps in the synthesis of the peptidoglycan, such as the interconnecting of glycan chains (polymers of N-glucosamine and N-acetylmuramic acid residues) and the cross-linking (transpeptidation) of short stem peptides, which are connected to glycan chains. Peptidoglycan is essential in cell division and protects bacteria from osmotic shock and lysis. PBP2x is one of the two monofunctional high molecular mass PBPs in Streptococcus pneumoniae and has been seen as the primary PBP target in beta-lactam-resistant strains. The PASTA domain is found at the C-termini of several PBPs and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine
Probab=53.13 E-value=12 Score=18.75 Aligned_cols=18 Identities=22% Similarity=0.372 Sum_probs=14.9
Q ss_pred ccccCcchHHHHHHHHhh
Q 035202 12 PELLGAQGVEAAATVESD 29 (70)
Q Consensus 12 pelVG~~~~~A~~~I~~d 29 (70)
|.++|++..+|.+.+...
T Consensus 3 p~~~g~~~~~a~~~l~~~ 20 (55)
T cd06576 3 PDVTGKSVEEAKKELKEA 20 (55)
T ss_pred CcccCCCHHHHHHHHHHC
Confidence 689999999998777654
No 11
>PF06241 DUF1012: Protein of unknown function (DUF1012); InterPro: IPR010420 This entry represents the CASTOR/POLLUX/SYM8 family of ion channels, which are found in plants. They have been implicated in modulating the nuclear membrane envelope potential [].
Probab=51.64 E-value=18 Score=25.11 Aligned_cols=22 Identities=23% Similarity=0.406 Sum_probs=15.8
Q ss_pred CCCccccCcchHHHHHHHHhhCCCCc
Q 035202 9 SSWPELLGAQGVEAAATVESDNPLVN 34 (70)
Q Consensus 9 ~~WpelVG~~~~~A~~~I~~d~p~~~ 34 (70)
.+||+|-|..+.+. ....|++-
T Consensus 97 ~~~P~L~Gm~y~dv----r~~Fpdav 118 (206)
T PF06241_consen 97 KRWPQLDGMKYRDV----RRSFPDAV 118 (206)
T ss_pred ecCcccCCcCHHHH----HhcCCcce
Confidence 47999999999854 44455543
No 12
>KOG0912 consensus Thiol-disulfide isomerase and thioredoxin [Posttranslational modification, protein turnover, chaperones; Energy production and conversion]
Probab=50.64 E-value=19 Score=26.98 Aligned_cols=34 Identities=21% Similarity=0.248 Sum_probs=22.4
Q ss_pred hHHHHHHHHhhCCCCcEE-------------------------EeeCCCccccCCCCCe
Q 035202 19 GVEAAATVESDNPLVNAQ-------------------------IVLEGSFVTGDFLCTR 52 (70)
Q Consensus 19 ~~~A~~~I~~d~p~~~v~-------------------------vl~pg~~vT~Df~~~R 52 (70)
.++|.+.++++.|+..++ +++-|.+++.+||..|
T Consensus 35 F~EAa~~~~~e~P~~kvvwg~VDcd~e~~ia~ky~I~KyPTlKvfrnG~~~~rEYRg~R 93 (375)
T KOG0912|consen 35 FEEAAAKFKQEFPEGKVVWGKVDCDKEDDIADKYHINKYPTLKVFRNGEMMKREYRGQR 93 (375)
T ss_pred HHHHHHHHHHhCCCcceEEEEcccchhhHHhhhhccccCceeeeeeccchhhhhhccch
Confidence 567777777777753333 4456777777777766
No 13
>PF06691 DUF1189: Protein of unknown function (DUF1189); InterPro: IPR009574 This family consists of several hypothetical bacterial proteins of around 260 residues in length. The function of this family is unknown.
Probab=49.81 E-value=34 Score=23.40 Aligned_cols=43 Identities=14% Similarity=0.139 Sum_probs=34.9
Q ss_pred HHHHHHhhCCCCcEE--EeeCCCccccCCCCCeeEEEECCCCcEE
Q 035202 22 AAATVESDNPLVNAQ--IVLEGSFVTGDFLCTRVRVWVNTRGTVT 64 (70)
Q Consensus 22 A~~~I~~d~p~~~v~--vl~pg~~vT~Df~~~RV~v~vD~~g~V~ 64 (70)
....+.++-|+-+++ .+.-++..+.+++.+...+..|++|.+.
T Consensus 58 ~~~~i~~~iP~F~I~nG~L~~~~~~~i~~~~~~~~i~~D~~~~~~ 102 (250)
T PF06691_consen 58 DQQKIENDIPDFTIENGKLTSDQSEPIIYQTNNFIIIFDPTGKVT 102 (250)
T ss_pred hhhHHHhhCCCeEEECCcEecCCCCceEecCCcEEEEECCCCCcc
Confidence 345788899998877 7766777778899999999999998765
No 14
>cd03477 Rieske_YhfW_C YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. It is commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes. YhfW is found in bacteria, some eukaryotes and archaea.
Probab=48.71 E-value=25 Score=20.65 Aligned_cols=28 Identities=14% Similarity=0.158 Sum_probs=20.1
Q ss_pred eeCCCccccCCCCCeeEEEECCCCcEEE
Q 035202 38 VLEGSFVTGDFLCTRVRVWVNTRGTVTR 65 (70)
Q Consensus 38 l~pg~~vT~Df~~~RV~v~vD~~g~V~~ 65 (70)
|++|+..+..+....|-|+.+.+|.+..
T Consensus 8 l~~g~~~~~~~~g~~v~v~r~~~g~~~A 35 (91)
T cd03477 8 LAPGEGGVVNIGGKRLAVYRDEDGVLHT 35 (91)
T ss_pred cCCCCeEEEEECCEEEEEEECCCCCEEE
Confidence 4677777777777777777776666654
No 15
>PF03544 TonB_C: Gram-negative bacterial TonB protein C-terminal; InterPro: IPR006260 The sequences in this set all contain a conserved C-terminal domain which is characteristic of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria []. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetitive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to span the periplasm. Iron is essential for growth in both bacteria and mammals. Controlling the amount of free iron in solution is often used as a tactic by hosts to limit invasion of pathogenic microbes; binding iron tightly within protein molecules can accomplish this. Some bacteria express surface receptors to capture eukaryotic iron-binding compounds, while others have evolved siderophores to scavenge iron from iron-binding host proteins []. The absence of free iron molecules in the surrounding environment triggers transcription of gene clusters that encode both siderophore-synthesis ezymes, and receptors that recognise iron-bound siderophores []. An example of the latter is Escherichia coli fepA, which resides in the outer envelope and captures iron-bound enterobactin []. To complete transport of bound iron across the inner membrane, a second receptor complex is needed. The major component of this is tonB, a 27kDa protein that facilitates energy transfer from the proton motive force to outer receptors. B-12 and colicin receptors also make use of the tonB system to drive active transport at the outer membrane.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016020 membrane, 0030288 outer membrane-bounded periplasmic space; PDB: 1U07_B 1IHR_A 2GRX_C 2GSK_B 1QXX_A 1XX3_A 2K9K_A.
Probab=43.98 E-value=22 Score=19.32 Aligned_cols=15 Identities=27% Similarity=0.399 Sum_probs=12.0
Q ss_pred eeEEEECCCCcEEEc
Q 035202 52 RVRVWVNTRGTVTRV 66 (70)
Q Consensus 52 RV~v~vD~~g~V~~v 66 (70)
.|.+.+|.+|.|..+
T Consensus 19 ~v~~~I~~~G~v~~~ 33 (79)
T PF03544_consen 19 VVEFTIDPDGRVSDV 33 (79)
T ss_dssp EEEEEEETTTEEEEE
T ss_pred EEEEEEeCCCCEEEE
Confidence 467889999988864
No 16
>TIGR01352 tonB_Cterm TonB family C-terminal domain. This model represents the C-terminal of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to help span the periplasm.
Probab=42.84 E-value=26 Score=18.77 Aligned_cols=16 Identities=44% Similarity=0.511 Sum_probs=12.4
Q ss_pred eeEEEECCCCcEEEcC
Q 035202 52 RVRVWVNTRGTVTRVP 67 (70)
Q Consensus 52 RV~v~vD~~g~V~~vP 67 (70)
.|.+.+|.+|.|..+.
T Consensus 13 ~v~~~i~~~G~v~~~~ 28 (74)
T TIGR01352 13 VVRFTVDADGRVTSVS 28 (74)
T ss_pred EEEEEECCCCCEEEEE
Confidence 4677899999888754
No 17
>PF08482 HrpB_C: ATP-dependent helicase C-terminal; InterPro: IPR013689 This domain is found near the C terminus of bacterial ATP-dependent helicases such as HrpB.
Probab=42.59 E-value=23 Score=22.90 Aligned_cols=46 Identities=17% Similarity=0.101 Sum_probs=32.7
Q ss_pred CCCCCCCccccCcchHHHH---------HHHHhhCCCCcEEEeeCCCccccCCCCCe
Q 035202 5 CRGKSSWPELLGAQGVEAA---------ATVESDNPLVNAQIVLEGSFVTGDFLCTR 52 (70)
Q Consensus 5 c~~k~~WpelVG~~~~~A~---------~~I~~d~p~~~v~vl~pg~~vT~Df~~~R 52 (70)
|.|.++..+|-..+..+|. ..+.+..|. ...+|-|+.+..||..+.
T Consensus 6 l~g~~s~~~l~~~~l~~~L~~~L~~~~~~~Ld~~aP~--~~~~PsG~~~~I~Y~~~~ 60 (133)
T PF08482_consen 6 LSGVTSLKDLKKLDLLEALRSLLSWEQQQWLDRLAPE--HITLPSGRRIRIDYSDDG 60 (133)
T ss_pred HcCCCCHHHHhcCCHHHHHHHHCCHHHHHHHHHhCCC--eEEcCCCCEEEEEECCCC
Confidence 5566777777777776664 345555555 346788999999998887
No 18
>PF04355 SmpA_OmlA: SmpA / OmlA family; InterPro: IPR007450 This is a bacterial outer membrane lipoprotein, possibly involved in maintaining the structural integrity of the cell envelope []. The lipid attachment site is a conserved N-terminal cysteine residue sometimes found adjacent to the OmpA domain (IPR006665 from INTERPRO).; GO: 0019867 outer membrane; PDB: 4DM5_C 2PXG_A 2YH9_B 2KXX_A 2KM7_A.
Probab=38.14 E-value=42 Score=18.39 Aligned_cols=19 Identities=16% Similarity=0.352 Sum_probs=15.8
Q ss_pred CCCCeeEEEECCCCcEEEc
Q 035202 48 FLCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 48 f~~~RV~v~vD~~g~V~~v 66 (70)
....++.|+.|++++|..+
T Consensus 52 ~~~~~l~V~Fd~~~~v~~~ 70 (71)
T PF04355_consen 52 NEQRQLKVYFDDDGVVKSI 70 (71)
T ss_dssp SCEEEEEEEECTTSBEEEE
T ss_pred cEEEEEEEEEcCCCEEEEe
Confidence 4477899999999999864
No 19
>cd03474 Rieske_T4moC Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent hydroxylation of toluene to form p-cresol. T4mo consists of an NADH oxidoreductase (T4moF), a diiron hydroxylase (T4moH), a catalytic effector protein (T4moD), and a Rieske ferredoxin (T4moC). T4moC contains a Rieske domain and functions as an obligate electron carrier between T4moF and T4moH. Rieske ferredoxins are found as subunits of membrane oxidase complexes, cis-dihydrodiol-forming aromatic dioxygenases, bacterial assimilatory nitrite reductases, and arsenite oxidase. Rieske ferredoxins are also found as soluble electron carriers in bacterial dioxygenase and monooxygenase complexes.
Probab=37.68 E-value=44 Score=19.67 Aligned_cols=29 Identities=21% Similarity=0.137 Sum_probs=19.1
Q ss_pred eeCCCccccCCCCCeeEEEECCCCcEEEc
Q 035202 38 VLEGSFVTGDFLCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 38 l~pg~~vT~Df~~~RV~v~vD~~g~V~~v 66 (70)
|++|.+.+..+...++-|+.+.+|.+..+
T Consensus 10 l~~g~~~~~~~~~~~~~~~~~~~g~~~A~ 38 (108)
T cd03474 10 VWEGEMELVDVDGEEVLLVAPEGGEFRAF 38 (108)
T ss_pred cCCCceEEEEECCeEEEEEEccCCeEEEE
Confidence 45677666666666677777777766543
No 20
>TIGR00638 Mop molybdenum-pterin binding domain. This model describes a multigene family of molybdenum-pterin binding proteins of about 70 amino acids in Clostridium pasteurianum, as a tandemly-repeated domain C-terminal to an unrelated domain in ModE, a molybdate transport gene repressor of E. coli, and in single or tandemly paired domains in several related proteins.
Probab=37.48 E-value=19 Score=19.33 Aligned_cols=20 Identities=20% Similarity=0.036 Sum_probs=12.7
Q ss_pred eCCCccccCCCCCeeEEEEC
Q 035202 39 LEGSFVTGDFLCTRVRVWVN 58 (70)
Q Consensus 39 ~pg~~vT~Df~~~RV~v~vD 58 (70)
.+|+.+..-|.+..+.++.|
T Consensus 50 ~~G~~v~~~ik~~~v~l~~~ 69 (69)
T TIGR00638 50 KPGKEVYAVIKAPWVILAVD 69 (69)
T ss_pred CCCCEEEEEEECcEEEEecC
Confidence 46666666666666666544
No 21
>PF00367 PTS_EIIB: phosphotransferase system, EIIB; InterPro: IPR018113 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to enzyme-I (EI) of PTS which in turn transfers it to a phosphoryl carrier protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease which consists of at least three structurally distinct domains (IIA, IIB, and IIC) [] which can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA) carries the first permease-specific phoshorylation site, a histidine, which is phosphorylated by phospho-HPr. The second domain (IIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the permease. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate in a process catalyzed by the IIC domain; this process is coupled to the transmembrane transport of the sugar. This entry covers the phosphorylation site of EIIB domains. ; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity; PDB: 3IPJ_B 3BP3_A 1O2F_B 3BP8_C 1IBA_A.
Probab=36.47 E-value=16 Score=18.25 Aligned_cols=20 Identities=25% Similarity=0.177 Sum_probs=14.8
Q ss_pred cccCCCCCeeEEEECCCCcE
Q 035202 44 VTGDFLCTRVRVWVNTRGTV 63 (70)
Q Consensus 44 vT~Df~~~RV~v~vD~~g~V 63 (70)
...+++.-|+|+.+.+...|
T Consensus 15 ~~v~~C~TRLR~~v~d~~~V 34 (35)
T PF00367_consen 15 KSVTNCATRLRFTVKDDSKV 34 (35)
T ss_dssp EEEEE-SSEEEEEESTGGGS
T ss_pred HHHhcCcceEEEEecChhhC
Confidence 35678889999999887654
No 22
>cd03531 Rieske_RO_Alpha_KSH The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway, catalyzing the 9 alpha-hydroxylation of 4-androstene-3,17-dione (AD) and 1,4-androstadiene-3,17-dione (ADD). KSH is a two-component class IA monooxygenase, with terminal oxygenase (KshA) and oxygenase reductase (KshB) components. KSH activity has been found in many actino- and proteo- bacterial genera including Rhodococcus, Nocardia, Arthrobacter, Mycobacterium, and Burkholderia.
Probab=33.12 E-value=63 Score=19.53 Aligned_cols=28 Identities=14% Similarity=0.266 Sum_probs=19.2
Q ss_pred eCCCccccCCCCCeeEEEECCCCcEEEc
Q 035202 39 LEGSFVTGDFLCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 39 ~pg~~vT~Df~~~RV~v~vD~~g~V~~v 66 (70)
++|++.+.+.....+.|+-+.+|.+..+
T Consensus 12 ~~g~~~~~~~~g~~i~l~r~~~g~~~a~ 39 (115)
T cd03531 12 RDGKPHGVEAFGTKLVVFADSDGALNVL 39 (115)
T ss_pred CCCCeEEEEECCeEEEEEECCCCCEEEE
Confidence 5667776676667777777777766543
No 23
>cd04337 Rieske_RO_Alpha_Cao Cao (chlorophyll a oxygenase) is a rieske non-heme iron-sulfur protein located within the plastid-envelope inner and thylakoid membranes, that catalyzes the conversion of chlorophyllide a to chlorophyllide b. CAO is found not only in plants but also in chlorophytes and prochlorophytes. This domain represents the N-terminal rieske domain of the oxygenase alpha subunit. ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Cao is closely related to several other plant RO's including Tic 55, a 55 kDa protein associated with protein transport through the inner
Probab=32.85 E-value=65 Score=20.00 Aligned_cols=29 Identities=10% Similarity=0.125 Sum_probs=20.7
Q ss_pred eeCCCccccCCCCCeeEEEECCCCcEEEc
Q 035202 38 VLEGSFVTGDFLCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 38 l~pg~~vT~Df~~~RV~v~vD~~g~V~~v 66 (70)
|++|++.+.+.....+-|+-+++|.+.-+
T Consensus 27 l~~g~~~~~~v~g~~l~l~r~~~g~v~A~ 55 (129)
T cd04337 27 LKMDTMVPFELFGQPWVLFRDEDGTPGCI 55 (129)
T ss_pred CCCCCeEEEEECCcEEEEEECCCCcEEEE
Confidence 46777777777777788887777766543
No 24
>PRK11548 outer membrane biogenesis protein BamE; Provisional
Probab=32.70 E-value=50 Score=20.21 Aligned_cols=17 Identities=18% Similarity=0.331 Sum_probs=14.2
Q ss_pred CCeeEEEECCCCcEEEc
Q 035202 50 CTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 50 ~~RV~v~vD~~g~V~~v 66 (70)
..++.|+.|++|+|.++
T Consensus 88 ~~~l~V~Fd~~g~V~~i 104 (113)
T PRK11548 88 QQTLTLTFNSSGVLTNI 104 (113)
T ss_pred EEEEEEEECCCCeEEec
Confidence 45789999999999876
No 25
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=31.36 E-value=47 Score=24.48 Aligned_cols=24 Identities=21% Similarity=0.332 Sum_probs=18.0
Q ss_pred hHHHHHHHHhhCCCCcEEEeeCCCcccc
Q 035202 19 GVEAAATVESDNPLVNAQIVLEGSFVTG 46 (70)
Q Consensus 19 ~~~A~~~I~~d~p~~~v~vl~pg~~vT~ 46 (70)
..+|.++|++. ..+++.||+++|-
T Consensus 180 ~~eaveAI~~A----D~IviGPgSl~TS 203 (323)
T COG0391 180 APEAVEAIKEA----DLIVIGPGSLFTS 203 (323)
T ss_pred CHHHHHHHHhC----CEEEEcCCccHhh
Confidence 45666777764 5889999999873
No 26
>cd03469 Rieske_RO_Alpha_N Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable microorganisms to tolerate and even exclusively utilize aromatic compounds for growth. ROs consist of two or three components: reductase, oxygenase, and ferredoxin (in some cases) components. The oxygenase component may contain alpha and beta subunits, with the beta subunit having a purely structural function. Some oxygenase components contain only an alpha subunit. The oxygenase alpha subunit has two domains, an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from the reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Reduced pyridine nucleotide is used as the i
Probab=31.26 E-value=71 Score=18.81 Aligned_cols=26 Identities=19% Similarity=0.236 Sum_probs=15.5
Q ss_pred CCCccccCCCCCeeEEEECCCCcEEE
Q 035202 40 EGSFVTGDFLCTRVRVWVNTRGTVTR 65 (70)
Q Consensus 40 pg~~vT~Df~~~RV~v~vD~~g~V~~ 65 (70)
+|+..+..+....+.|+-+.+|.+..
T Consensus 13 ~g~~~~~~~~~~~i~v~r~~~g~~~a 38 (118)
T cd03469 13 PGDYVTLELGGEPLVLVRDRDGEVRA 38 (118)
T ss_pred CCCEEEEEECCccEEEEECCCCCEEE
Confidence 55555555555667777666665544
No 27
>PHA02087 hypothetical protein
Probab=31.24 E-value=61 Score=19.16 Aligned_cols=22 Identities=18% Similarity=0.335 Sum_probs=16.4
Q ss_pred CCCCCeeEE--EECCCCcEEEcCc
Q 035202 47 DFLCTRVRV--WVNTRGTVTRVPT 68 (70)
Q Consensus 47 Df~~~RV~v--~vD~~g~V~~vP~ 68 (70)
.|++|.+.= .||.+|++..+|-
T Consensus 38 ~~d~nk~v~y~lvdsdg~~ielpe 61 (83)
T PHA02087 38 KFDPNKLVQYMLVDSDGVKIELPE 61 (83)
T ss_pred cCCCccceeEEEEcCCCcEEECCc
Confidence 466776654 4899999998883
No 28
>PRK13320 pantothenate kinase; Reviewed
Probab=29.92 E-value=63 Score=22.36 Aligned_cols=38 Identities=29% Similarity=0.243 Sum_probs=27.6
Q ss_pred CccccCcchHHHHHHHHhhCCCCcEEEeeCCCccccCC
Q 035202 11 WPELLGAQGVEAAATVESDNPLVNAQIVLEGSFVTGDF 48 (70)
Q Consensus 11 WpelVG~~~~~A~~~I~~d~p~~~v~vl~pg~~vT~Df 48 (70)
=|+-+|.+--.+.....+..++-.+.|+.-|++.|.|+
T Consensus 92 ~p~~lG~DR~~~~~aa~~~~~~~~~lVID~GTA~Tid~ 129 (244)
T PRK13320 92 TPETLGADRLALCAGARYLFPGKNVLAIDAGTAITYDV 129 (244)
T ss_pred ChhhcchhHHHHHHHHHHhcCCCCEEEEEcCCceEEEE
Confidence 35678888766654444445555678999999999996
No 29
>PF01436 NHL: NHL repeat; InterPro: IPR001258 The NHL repeat, named after NCL-1, HT2A and Lin-41, is found largely in a large number of eukaryotic and prokaryotic proteins. For example, the repeat is found in a variety of enzymes of the copper type II, ascorbate-dependent monooxygenase family which catalyse the C terminus alpha-amidation of biological peptides []. In many it occurs in tandem arrays, for example in the ringfinger beta-box, coiled-coil (RBCC) eukaryotic growth regulators []. The 'Brain Tumor' protein (Brat) is one such growth regulator that contains a 6-bladed NHL-repeat beta-propeller [, ]. The NHL repeats are also found in serine/threonine protein kinase (STPK) in diverse range of pathogenic bacteria. These STPK are transmembrane receptors with a intracellular N-terminal kinase domain and extracellular C-terminal sensor domain. In the STPK, PknD, from Mycobacterium tuberculosis, the sensor domain forms a rigid, six-bladed b-propeller composed of NHL repeats with a flexible tether to the transmembrane domain.; GO: 0005515 protein binding; PDB: 3FVZ_A 3FW0_A 1RWL_A 1RWI_A 1Q7F_A.
Probab=29.84 E-value=59 Score=14.87 Aligned_cols=20 Identities=25% Similarity=0.346 Sum_probs=15.0
Q ss_pred EeeCCCccccCCCCCeeEEE
Q 035202 37 IVLEGSFVTGDFLCTRVRVW 56 (70)
Q Consensus 37 vl~pg~~vT~Df~~~RV~v~ 56 (70)
+-+.|.....|+...||.+|
T Consensus 9 v~~~g~i~VaD~~n~rV~vf 28 (28)
T PF01436_consen 9 VDSDGNIYVADSGNHRVQVF 28 (28)
T ss_dssp EETTSEEEEEECCCTEEEEE
T ss_pred EeCCCCEEEEECCCCEEEEC
Confidence 44667777788888888775
No 30
>COG2815 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.54 E-value=81 Score=22.90 Aligned_cols=21 Identities=24% Similarity=0.328 Sum_probs=18.6
Q ss_pred CCCCccccCcchHHHHHHHHh
Q 035202 8 KSSWPELLGAQGVEAAATVES 28 (70)
Q Consensus 8 k~~WpelVG~~~~~A~~~I~~ 28 (70)
+..=|+++|.+.+||.+.+++
T Consensus 92 ~~~vpdv~Gl~~~eA~~~L~~ 112 (303)
T COG2815 92 YITVPDVVGLTIEEAVAKLKA 112 (303)
T ss_pred ceecCcccCCcHHHHHHHHHH
Confidence 457799999999999998887
No 31
>PRK03760 hypothetical protein; Provisional
Probab=29.52 E-value=45 Score=20.79 Aligned_cols=13 Identities=8% Similarity=0.322 Sum_probs=11.6
Q ss_pred EEEECCCCcEEEc
Q 035202 54 RVWVNTRGTVTRV 66 (70)
Q Consensus 54 ~v~vD~~g~V~~v 66 (70)
-+|+|++|+|+.+
T Consensus 63 iiFld~~g~Vv~i 75 (117)
T PRK03760 63 VIFLDSNRRVVDF 75 (117)
T ss_pred EEEECCCCeEEEE
Confidence 7899999999876
No 32
>cd00340 GSH_Peroxidase Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per subunit, which is involved in catalysis. Different isoenzymes are known in mammals,which are involved in protection against reactive oxygen species, redox regulation of many metabolic processes, peroxinitrite scavenging, and modulation of inflammatory processes.
Probab=28.74 E-value=63 Score=20.02 Aligned_cols=16 Identities=19% Similarity=0.316 Sum_probs=13.3
Q ss_pred CeeEEEECCCCcEEEc
Q 035202 51 TRVRVWVNTRGTVTRV 66 (70)
Q Consensus 51 ~RV~v~vD~~g~V~~v 66 (70)
+|-.+++|.+|+|+..
T Consensus 123 ~~ttflId~~G~i~~~ 138 (152)
T cd00340 123 NFTKFLVDRDGEVVKR 138 (152)
T ss_pred ccEEEEECCCCcEEEE
Confidence 4579999999999863
No 33
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=28.66 E-value=63 Score=18.40 Aligned_cols=29 Identities=21% Similarity=0.276 Sum_probs=16.1
Q ss_pred eeCCCccccCCCCCe---eEE-EECCCCcEEEc
Q 035202 38 VLEGSFVTGDFLCTR---VRV-WVNTRGTVTRV 66 (70)
Q Consensus 38 l~pg~~vT~Df~~~R---V~v-~vD~~g~V~~v 66 (70)
++.|+.+...++.+| |.| .+|.+|.|+.+
T Consensus 3 ~~~Ge~v~~~~~~~~~~Yl~l~~~~~~G~v~~L 35 (83)
T PF14326_consen 3 YRVGERVRFRVTSNRDGYLYLFYIDADGKVTLL 35 (83)
T ss_pred ccCCCEEEEEEEeCCCeEEEEEEECCCCCEEEE
Confidence 345555555555544 333 36777777663
No 34
>PF02643 DUF192: Uncharacterized ACR, COG1430; InterPro: IPR003795 This entry describes proteins of unknown function.; PDB: 3M7A_B 3PJY_B.
Probab=28.59 E-value=48 Score=20.07 Aligned_cols=13 Identities=15% Similarity=0.567 Sum_probs=10.4
Q ss_pred EEEECCCCcEEEc
Q 035202 54 RVWVNTRGTVTRV 66 (70)
Q Consensus 54 ~v~vD~~g~V~~v 66 (70)
-+|+|.+|+|+.+
T Consensus 52 i~fld~~g~Vv~i 64 (108)
T PF02643_consen 52 IAFLDSDGRVVKI 64 (108)
T ss_dssp EEEE-TTSBEEEE
T ss_pred EEEECCCCeEEEE
Confidence 7799999999875
No 35
>KOG2819 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.58 E-value=1.3e+02 Score=22.82 Aligned_cols=54 Identities=17% Similarity=0.317 Sum_probs=36.1
Q ss_pred CCCCCCccccCcchHHHHHHHHhhCCCCcE-EEe-eCCCccc----cCCCCCeeEEEECC
Q 035202 6 RGKSSWPELLGAQGVEAAATVESDNPLVNA-QIV-LEGSFVT----GDFLCTRVRVWVNT 59 (70)
Q Consensus 6 ~~k~~WpelVG~~~~~A~~~I~~d~p~~~v-~vl-~pg~~vT----~Df~~~RV~v~vD~ 59 (70)
.|-+.|+=.+|.+..+|.++|++.---.+. .|+ ..-++.. ..+-.+=++++.|+
T Consensus 12 lg~~~~eF~lGMpi~qaiAiiqqh~riik~VqvlYsd~~Pl~~DiIinl~qdGirL~FD~ 71 (413)
T KOG2819|consen 12 LGSSQWEFVLGMPIAQAIAIIQQHPRIIKNVQVLYSDQDPLSHDIIINLPQDGIRLMFDP 71 (413)
T ss_pred cCCccceeEecChHHHHHHHHHhCccceeeEEEEEecCCCcceeEEEecCCCceEEEech
Confidence 367889999999999999988886444443 354 3333433 34556666666665
No 36
>PRK13328 pantothenate kinase; Reviewed
Probab=28.10 E-value=61 Score=22.59 Aligned_cols=38 Identities=24% Similarity=0.173 Sum_probs=28.9
Q ss_pred ccccCcchHHHHHHHHhhCCCCcEEEeeCCCccccCCC
Q 035202 12 PELLGAQGVEAAATVESDNPLVNAQIVLEGSFVTGDFL 49 (70)
Q Consensus 12 pelVG~~~~~A~~~I~~d~p~~~v~vl~pg~~vT~Df~ 49 (70)
|+=+|.+---|.....+..|+-...|+.-|++.|.|+=
T Consensus 97 p~~LG~DR~~a~vaA~~~~~~~~~lViD~GTA~TiD~v 134 (255)
T PRK13328 97 PAQLGSDRWAGLIGARAAFPGEHLLIATFGTATTLDAL 134 (255)
T ss_pred hhhccHHHHHHHHHHHHhcCCCCEEEEEcCCceEEEEE
Confidence 56789887777655555566656789999999999954
No 37
>PF11396 DUF2874: Protein of unknown function (DUF2874); InterPro: IPR021533 This bacterial family of proteins are probable periplasmic proteins with unknown function. There are between one and four copies of this domain per sequence. ; PDB: 3DUE_A 3U1W_B 3DB7_A 4DSD_A 3ELG_A.
Probab=27.56 E-value=1e+02 Score=16.07 Aligned_cols=43 Identities=14% Similarity=0.136 Sum_probs=28.6
Q ss_pred HHHHHHhhCCCCcEE-EeeC---C---CccccCCCCCeeEEEECCCCcEE
Q 035202 22 AAATVESDNPLVNAQ-IVLE---G---SFVTGDFLCTRVRVWVNTRGTVT 64 (70)
Q Consensus 22 A~~~I~~d~p~~~v~-vl~p---g---~~vT~Df~~~RV~v~vD~~g~V~ 64 (70)
++..|.+..|+.++. +-.. + --+-+.-+.+...|++|.+|.+.
T Consensus 12 v~~~i~~~yp~~~i~~v~~~~~~~~~~Y~v~l~~~~~~~~v~fd~~G~~l 61 (61)
T PF11396_consen 12 VKNAIKKNYPGAKIKEVEKETDPGGKYYEVELKKGGNEYEVYFDANGNWL 61 (61)
T ss_dssp HHHHHHHHSTTSEEEEEEEEEETTEEEEEEEETETTTSEEEEEETTS-EE
T ss_pred HHHHHHHHCCCCeEEEEEEEEcCCCCEEEEEEEEeCCeEEEEEcCCCCCC
Confidence 467888889998755 2222 1 12444566788999999999763
No 38
>cd03530 Rieske_NirD_small_Bacillus Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium.
Probab=27.23 E-value=85 Score=17.98 Aligned_cols=27 Identities=7% Similarity=-0.125 Sum_probs=14.0
Q ss_pred eCCCccccCCCCCeeEEEECCCCcEEE
Q 035202 39 LEGSFVTGDFLCTRVRVWVNTRGTVTR 65 (70)
Q Consensus 39 ~pg~~vT~Df~~~RV~v~vD~~g~V~~ 65 (70)
++|......+....+-|+-+++|.+..
T Consensus 11 ~~~~~~~~~~~g~~i~l~r~~~g~~~A 37 (98)
T cd03530 11 PPRGARKVQTGGGEIAVFRTADDEVFA 37 (98)
T ss_pred CCCCcEEEEECCEEEEEEEeCCCCEEE
Confidence 344444444445556666666555543
No 39
>COG1596 Wza Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]
Probab=27.18 E-value=60 Score=22.38 Aligned_cols=41 Identities=15% Similarity=-0.003 Sum_probs=30.3
Q ss_pred cccCcchHHHHHHHHhhCCCCcEEEeeCCCcccc-CCCCCeeEEE
Q 035202 13 ELLGAQGVEAAATVESDNPLVNAQIVLEGSFVTG-DFLCTRVRVW 56 (70)
Q Consensus 13 elVG~~~~~A~~~I~~d~p~~~v~vl~pg~~vT~-Df~~~RV~v~ 56 (70)
...|++..+....|...... ....|...+++ .||+.+|.|-
T Consensus 89 ~vaG~T~~el~~~I~~~L~~---~~~~P~v~V~v~~~rp~~v~V~ 130 (239)
T COG1596 89 PVAGKTLEELQSEIADRLAG---YLVNPQVSVEVAQYRPQKVFVS 130 (239)
T ss_pred EecCCCHHHHHHHHHHHHHh---hccCCCeEEEEcccCCcEEEEe
Confidence 46788999988888877655 44567777777 5899877774
No 40
>COG1430 Uncharacterized conserved protein [Function unknown]
Probab=27.14 E-value=54 Score=20.99 Aligned_cols=13 Identities=15% Similarity=0.600 Sum_probs=11.0
Q ss_pred EEEECCCCcEEEc
Q 035202 54 RVWVNTRGTVTRV 66 (70)
Q Consensus 54 ~v~vD~~g~V~~v 66 (70)
-+|+|++|+|+.+
T Consensus 66 iiFid~dg~i~~i 78 (126)
T COG1430 66 IIFIDSDGRVVDI 78 (126)
T ss_pred EEEEcCCCCEEEE
Confidence 5689999999875
No 41
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=27.02 E-value=73 Score=21.17 Aligned_cols=19 Identities=11% Similarity=0.209 Sum_probs=15.9
Q ss_pred CCCCeeEEEECCCCcEEEc
Q 035202 48 FLCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 48 f~~~RV~v~vD~~g~V~~v 66 (70)
=.+..+.|+.|++|.|..+
T Consensus 119 r~~kiltVh~De~G~Ii~V 137 (153)
T PRK14584 119 KSGSCLTLYNDEHGHIIDV 137 (153)
T ss_pred HhCCeEEEEECCCCCEEEe
Confidence 3567889999999999886
No 42
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=26.77 E-value=27 Score=22.13 Aligned_cols=18 Identities=17% Similarity=0.006 Sum_probs=14.5
Q ss_pred cEEEeeCCCccccCCCCC
Q 035202 34 NAQIVLEGSFVTGDFLCT 51 (70)
Q Consensus 34 ~v~vl~pg~~vT~Df~~~ 51 (70)
.++.++||.+++-||-+|
T Consensus 85 evE~~~Pg~P~~hD~epD 102 (112)
T PF08882_consen 85 EVEAPPPGYPPIHDFEPD 102 (112)
T ss_pred EEccCCCCCCceEecccC
Confidence 355788999999998776
No 43
>PF13994 PgaD: PgaD-like protein
Probab=25.93 E-value=51 Score=20.84 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=13.2
Q ss_pred CCCeeEEEECCCCcEE
Q 035202 49 LCTRVRVWVNTRGTVT 64 (70)
Q Consensus 49 ~~~RV~v~vD~~g~V~ 64 (70)
++..+.|+.|++|.|+
T Consensus 122 ~~k~~~V~~d~~G~I~ 137 (138)
T PF13994_consen 122 QAKVLTVHHDDHGRII 137 (138)
T ss_pred hCCeEEEEeCCCCCcC
Confidence 4677889999999875
No 44
>PF06519 TolA: TolA C-terminal; InterPro: IPR014161 TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cut-offs are based largely on conserved operon structure. The Tol-Pal complex is required for maintaining outer membrane integrity, and is also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins OmpC, PhoE and LamB.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2X9A_D 3QDP_A 3QDR_A 1TOL_A 1S62_A.
Probab=25.71 E-value=63 Score=19.48 Aligned_cols=17 Identities=35% Similarity=0.446 Sum_probs=13.7
Q ss_pred CCeeEEEECCCCcEEEc
Q 035202 50 CTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 50 ~~RV~v~vD~~g~V~~v 66 (70)
.-+|+|.+..+|.|..+
T Consensus 38 ~C~v~i~l~~dG~v~~v 54 (96)
T PF06519_consen 38 ECRVRIRLAPDGLVLSV 54 (96)
T ss_dssp -EEEEEEEETTSEEEEE
T ss_pred EEEEEEEECCCCcEEEe
Confidence 45789999999998876
No 45
>PRK11251 DNA-binding transcriptional activator OsmE; Provisional
Probab=25.66 E-value=80 Score=19.65 Aligned_cols=17 Identities=18% Similarity=0.129 Sum_probs=14.4
Q ss_pred CCeeEEEECCCCcEEEc
Q 035202 50 CTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 50 ~~RV~v~vD~~g~V~~v 66 (70)
..++.|+.|++|+|.+.
T Consensus 77 ~~~~tV~Fd~~G~V~~~ 93 (109)
T PRK11251 77 AQTYFVSFDDTGHVDNK 93 (109)
T ss_pred eEEEEEEECCCCCEEec
Confidence 56789999999999874
No 46
>PF00899 ThiF: ThiF family; InterPro: IPR000594 Ubiquitin-activating enzyme (E1 enzyme) [, ] activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free AMP. Later the ubiquitin moiety is transferred to a cysteine residue on one of the many forms of ubiquitin- conjugating enzymes (E2). The family of ubiquitin-activating enzymes shares in its catalytic domain significant similarity with a large family of NAD/FAD-binding proteins. This domain is based on the common NAD/FAD-binding fold and finds members of several families, including UBA ubiquitin activating enzymes; the hesA/moeB/thiF family; NADH peroxidases; the LDH family; sarcosin oxidase; phytoene dehydrogenases; alanine dehydrogenases; hydroxyacyl-CoA dehydrogenases and many other NAD/FAD dependent dehydrogenases and oxidases.; GO: 0003824 catalytic activity; PDB: 1ZKM_D 1ZUD_3 1ZFN_D 1R4M_G 2NVU_A 1R4N_C 3DBR_A 3DBH_C 3DBL_G 1YOV_A ....
Probab=25.17 E-value=1.5e+02 Score=17.98 Aligned_cols=31 Identities=26% Similarity=0.284 Sum_probs=22.9
Q ss_pred ccccCcchHHH-HHHHHhhCCCCcEEEeeCCC
Q 035202 12 PELLGAQGVEA-AATVESDNPLVNAQIVLEGS 42 (70)
Q Consensus 12 pelVG~~~~~A-~~~I~~d~p~~~v~vl~pg~ 42 (70)
++-+|++-.+| +..+.+.+|.+++..++..-
T Consensus 50 ~~~vG~~Ka~~~~~~l~~~np~~~v~~~~~~~ 81 (135)
T PF00899_consen 50 EEDVGKNKAEAAKERLQEINPDVEVEAIPEKI 81 (135)
T ss_dssp GGGTTSBHHHHHHHHHHHHSTTSEEEEEESHC
T ss_pred cccchhHHHHHHHHHHHHhcCceeeeeeeccc
Confidence 45789885555 56999999999988765533
No 47
>COG1264 PtsG Phosphotransferase system IIB components [Carbohydrate transport and metabolism]
Probab=24.80 E-value=51 Score=19.54 Aligned_cols=20 Identities=40% Similarity=0.456 Sum_probs=16.9
Q ss_pred cccCCCCCeeEEEECCCCcE
Q 035202 44 VTGDFLCTRVRVWVNTRGTV 63 (70)
Q Consensus 44 vT~Df~~~RV~v~vD~~g~V 63 (70)
...|++.-|||+.+.+...|
T Consensus 18 ~~~~~C~TRLR~~v~D~s~V 37 (88)
T COG1264 18 VSVDHCATRLRVTVKDESKV 37 (88)
T ss_pred hhhhcCcceEEEEEcChhhc
Confidence 56789999999999887766
No 48
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=24.53 E-value=58 Score=20.80 Aligned_cols=58 Identities=9% Similarity=0.104 Sum_probs=36.7
Q ss_pred CCCCCCCCCCccccCcchHHHHHHHHhhCCCCcEEEeeCCCccccCCCCCeeEEEECCC
Q 035202 2 ASECRGKSSWPELLGAQGVEAAATVESDNPLVNAQIVLEGSFVTGDFLCTRVRVWVNTR 60 (70)
Q Consensus 2 ~~~c~~k~~WpelVG~~~~~A~~~I~~d~p~~~v~vl~pg~~vT~Df~~~RV~v~vD~~ 60 (70)
+..|..+.+|-+.+.......-..+.++...++-.-+| -.....+++.-.+.+|.|++
T Consensus 32 q~lw~~~l~WD~~lp~el~~~w~~~~~~l~~~~~i~iP-R~i~~~~~~~~~L~~F~DAS 89 (159)
T PF05380_consen 32 QKLWQSKLDWDDPLPDELRKEWKKWLKELESLSPIRIP-RCIPISDYRSVELHVFCDAS 89 (159)
T ss_pred HhhhccccchhhhhhHHHHHHHHHHHHHHhhcccccCC-cccccccccceeeeEeeccc
Confidence 34466678899888877776666666666554322222 22222456677889999986
No 49
>PRK00522 tpx lipid hydroperoxide peroxidase; Provisional
Probab=23.36 E-value=81 Score=20.07 Aligned_cols=17 Identities=12% Similarity=0.094 Sum_probs=14.1
Q ss_pred CCeeEEEECCCCcEEEc
Q 035202 50 CTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 50 ~~RV~v~vD~~g~V~~v 66 (70)
+.|-.+.+|.+|+|..+
T Consensus 130 ~~r~tfvId~~G~I~~~ 146 (167)
T PRK00522 130 LARAVFVLDENNKVVYS 146 (167)
T ss_pred eeeEEEEECCCCeEEEE
Confidence 35788999999999875
No 50
>PRK13321 pantothenate kinase; Reviewed
Probab=22.91 E-value=95 Score=21.31 Aligned_cols=38 Identities=26% Similarity=0.217 Sum_probs=25.5
Q ss_pred ccccCcchHHHHHHHHhhCCCCcEEEeeCCCccccCCC
Q 035202 12 PELLGAQGVEAAATVESDNPLVNAQIVLEGSFVTGDFL 49 (70)
Q Consensus 12 pelVG~~~~~A~~~I~~d~p~~~v~vl~pg~~vT~Df~ 49 (70)
|+-+|.+--.+.....+..++-.+.|+.-|++.|.|+=
T Consensus 103 P~~lG~DR~a~~~aa~~~~~~~~~lvid~GTA~T~d~v 140 (256)
T PRK13321 103 PREVGADRIVNAVAARRLYPDRNLIVVDFGTATTFDCV 140 (256)
T ss_pred hhhccHHHHHHHHHHHHHcCCCCEEEEECCCceEEEEE
Confidence 56788884444433334344435789999999999953
No 51
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=22.67 E-value=78 Score=23.94 Aligned_cols=17 Identities=18% Similarity=0.366 Sum_probs=14.4
Q ss_pred CCeeEEEECCCCcEEEc
Q 035202 50 CTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 50 ~~RV~v~vD~~g~V~~v 66 (70)
.-+|+|.++++|.|+.+
T Consensus 327 tc~VrI~LapDG~V~sV 343 (387)
T PRK09510 327 TCTLRIKLAPDGTLLDI 343 (387)
T ss_pred eEEEEEEEcCCCcEEee
Confidence 35689999999999876
No 52
>COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=22.46 E-value=88 Score=20.67 Aligned_cols=18 Identities=17% Similarity=0.218 Sum_probs=15.8
Q ss_pred CCCeeEEEECCCCcEEEc
Q 035202 49 LCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 49 ~~~RV~v~vD~~g~V~~v 66 (70)
-..|..+.+|++|+|..+
T Consensus 118 ~~~R~TfvId~dG~I~~~ 135 (157)
T COG1225 118 GIERSTFVIDPDGKIRYV 135 (157)
T ss_pred cccceEEEECCCCeEEEE
Confidence 478999999999999874
No 53
>PF02575 YbaB_DNA_bd: YbaB/EbfC DNA-binding family; InterPro: IPR004401 The function of this protein is unknown. It is restricted to bacteria and a few plants, such as Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A crystal structure of one member, YbaB from Haemophilus influenzae, revealed a core structure consisting of two layers, alpha/beta; YbaB forms a tight dimer with a 3-layer structure, beta/alpha/beta []. YbaB is co-transcribed with RecR, which appears to protect DNA strands of the replilcation fork when it is blocked by DNA damage. A deletion of the YbaB operon resulted in increased sensitivity to DNA-damaging agents compared with the wild-type strain.; PDB: 1PUG_B 3F42_B 1YBX_B 1J8B_A.
Probab=22.10 E-value=82 Score=18.09 Aligned_cols=15 Identities=40% Similarity=0.446 Sum_probs=10.6
Q ss_pred eeEEEECCCCcEEEc
Q 035202 52 RVRVWVNTRGTVTRV 66 (70)
Q Consensus 52 RV~v~vD~~g~V~~v 66 (70)
-|.|.+|.+|.|..+
T Consensus 31 ~V~V~v~g~g~v~~i 45 (93)
T PF02575_consen 31 LVTVTVNGNGEVVDI 45 (93)
T ss_dssp TEEEEEETTS-EEEE
T ss_pred EEEEEEecCceEEEE
Confidence 577888888887764
No 54
>PF12357 PLD_C: Phospholipase D C terminal ; InterPro: IPR024632 Phospholipase D (PLD) catalyses the hydrolysis of the phosphodiester bond of glycerophospholipids to generate phosphatidic acid and a free head group. Phospholipase D activities have been detected in simple to complex organisms from viruses and bacteria to yeast, plants, and mammals []. In higher organisms, PLD specifically catalyzes the hydrolysis of phosphatidylcholine (PC) to phosphatidic acid (PA) and choline and is activated in response to stimulators of vesicle transport, endocytosis, exocytosis, cell migration, and mitosis. This entry represents the C-terminal domain of eukaryotic phospholipase D. The domain is approximately 70 amino acids in length and contains a conserved FPD sequence motif.
Probab=22.03 E-value=84 Score=18.47 Aligned_cols=13 Identities=46% Similarity=0.690 Sum_probs=10.9
Q ss_pred EEECCCCcEEEcC
Q 035202 55 VWVNTRGTVTRVP 67 (70)
Q Consensus 55 v~vD~~g~V~~vP 67 (70)
|.|+.+|.|..+|
T Consensus 45 v~V~~dG~V~~Lp 57 (74)
T PF12357_consen 45 VQVDRDGKVTPLP 57 (74)
T ss_pred eEEcCCCCEeeCC
Confidence 6688999999876
No 55
>TIGR01819 F420_cofD LPPG:FO 2-phospho-L-lactate transferase. This model represents LPPG:Fo 2-phospho-L-lactate transferase, which catalyses the fourth step in the biosynthesis of coenzyme F420, a flavin derivative found in methanogens, the Mycobacteria, and several other lineages. This enzyme is characterized so far in Methanococcus jannaschii but appears restricted to F420-containing species and is predicted to carry out the same function in these other species. The clade represented by this model is one of two major divisions of proteins in pfam model pfam01933.
Probab=21.91 E-value=88 Score=22.83 Aligned_cols=24 Identities=4% Similarity=0.144 Sum_probs=17.3
Q ss_pred hHHHHHHHHhhCCCCcEEEeeCCCcccc
Q 035202 19 GVEAAATVESDNPLVNAQIVLEGSFVTG 46 (70)
Q Consensus 19 ~~~A~~~I~~d~p~~~v~vl~pg~~vT~ 46 (70)
..+|.++|++. ..++|.||++.|-
T Consensus 173 ~peal~AI~~A----D~IIlGPgsp~TS 196 (297)
T TIGR01819 173 APKVLEAIRKE----DNILIGPSNPITS 196 (297)
T ss_pred CHHHHHHHHhC----CEEEECCCccHHH
Confidence 44556677664 4889999999873
No 56
>cd00212 PTS_IIB_glc PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation
Probab=21.84 E-value=76 Score=18.06 Aligned_cols=19 Identities=32% Similarity=0.373 Sum_probs=14.6
Q ss_pred ccCCCCCeeEEEECCCCcE
Q 035202 45 TGDFLCTRVRVWVNTRGTV 63 (70)
Q Consensus 45 T~Df~~~RV~v~vD~~g~V 63 (70)
..+.+..|+|+.+++...|
T Consensus 19 ~v~~c~TRLRv~l~d~~~v 37 (78)
T cd00212 19 SLDHCATRLRLTVKDESKV 37 (78)
T ss_pred cccccccEEEEEEeCchhc
Confidence 4577889999998876554
No 57
>PF06633 DUF1155: Protein of unknown function (DUF1155); InterPro: IPR009536 This family consists of several Cucumber mosaic virus ORF IIB proteins. The function of this family is unknown.
Probab=21.72 E-value=27 Score=18.22 Aligned_cols=14 Identities=29% Similarity=0.145 Sum_probs=10.1
Q ss_pred eCCC--ccccCCCCCe
Q 035202 39 LEGS--FVTGDFLCTR 52 (70)
Q Consensus 39 ~pg~--~vT~Df~~~R 52 (70)
.||. +.||||+.+-
T Consensus 20 ~pg~wfa~t~df~k~~ 35 (42)
T PF06633_consen 20 EPGTWFADTMDFRKKH 35 (42)
T ss_pred CCCchhhhhhhhhhhh
Confidence 4554 7899998763
No 58
>PF08402 TOBE_2: TOBE domain; InterPro: IPR013611 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. Probably involved in the recognition of small ligands such as molybdenum (e.g. P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT). Found in ABC transporters immediately after the ATPase domain. A strong RPE motif is found at the presumed N terminus of the domain. ; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1Q12_A 1Q1B_C 2AWN_D 3RLF_B 3PUX_B 2R6G_B 3PUV_B 1Q1E_A 3PV0_B 2AWO_A ....
Probab=21.70 E-value=37 Score=17.88 Aligned_cols=16 Identities=19% Similarity=0.050 Sum_probs=7.3
Q ss_pred CCCccccCCCCCeeEE
Q 035202 40 EGSFVTGDFLCTRVRV 55 (70)
Q Consensus 40 pg~~vT~Df~~~RV~v 55 (70)
+|+.+..-|+++++.+
T Consensus 59 ~G~~v~l~~~~~~~~v 74 (75)
T PF08402_consen 59 PGDEVRLSWDPDDAHV 74 (75)
T ss_dssp TTSEEEEEEEGGGEEE
T ss_pred CCCEEEEEECcccEEe
Confidence 4444444444444443
No 59
>TIGR00671 baf pantothenate kinase, type III. This model describes a family of proteins found in a single copy in at least ten different early completed bacterial genomes. The only characterized member of the family is Bvg accessory factor (Baf), a protein required, in addition to the regulatory operon bvgAS, for heterologous transcription of the Bordetella pertussis toxin operon (ptx) in E. coli.
Probab=20.79 E-value=1e+02 Score=21.19 Aligned_cols=38 Identities=26% Similarity=0.250 Sum_probs=28.3
Q ss_pred CccccCcchHHHHHHHHhhCCCCcEEEeeCCCccccCCC
Q 035202 11 WPELLGAQGVEAAATVESDNPLVNAQIVLEGSFVTGDFL 49 (70)
Q Consensus 11 WpelVG~~~~~A~~~I~~d~p~~~v~vl~pg~~vT~Df~ 49 (70)
=|+-+|.+--.|.....+..++ .+.|+.-|++.|.|+-
T Consensus 95 ~p~~LG~DR~a~~~aA~~~~~~-~~lViD~GTA~Tid~v 132 (243)
T TIGR00671 95 SPKELGIDRVANALAAIKFYGF-NVVVVDAGTALTIDLV 132 (243)
T ss_pred ChhhccHHHHHHHHHHHHHcCC-CEEEEEcCCceEEEEE
Confidence 3567898877776555555555 6789999999999963
No 60
>KOG0544 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=20.63 E-value=1.9e+02 Score=18.13 Aligned_cols=27 Identities=22% Similarity=0.001 Sum_probs=22.5
Q ss_pred CCcEEEeeCCCccccCCCCCeeEEEEC
Q 035202 32 LVNAQIVLEGSFVTGDFLCTRVRVWVN 58 (70)
Q Consensus 32 ~~~v~vl~pg~~vT~Df~~~RV~v~vD 58 (70)
+++..+|.||+-.|.-=+-+.|.+++-
T Consensus 2 Gv~~~~i~~Gdg~tfpK~Gqtvt~hYt 28 (108)
T KOG0544|consen 2 GVEKQVISPGDGRTFPKKGQTVTVHYT 28 (108)
T ss_pred CceeEEeeCCCCcccCCCCCEEEEEEE
Confidence 356779999999999989999998753
No 61
>cd03480 Rieske_RO_Alpha_PaO Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic cyanobacterial photosynthesizers including LLS1 (lethal leaf spot 1, also known as PaO) and ACD1 (accelerated cell death 1). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PaO expression increases upon physical wounding of plant leaves and is thought to catalyze a key step in chlorophyll degradation. The
Probab=20.48 E-value=1.1e+02 Score=19.15 Aligned_cols=27 Identities=7% Similarity=0.030 Sum_probs=14.6
Q ss_pred eCCCccccCCCCCeeEEEECC-CCcEEE
Q 035202 39 LEGSFVTGDFLCTRVRVWVNT-RGTVTR 65 (70)
Q Consensus 39 ~pg~~vT~Df~~~RV~v~vD~-~g~V~~ 65 (70)
++|++.+.++.-..+-|+-|. +|.+.-
T Consensus 28 ~~g~~~~~~~~g~~i~v~r~~~dG~~~A 55 (138)
T cd03480 28 DPSRPTPFTLLGRDLVIWWDRNSQQWRA 55 (138)
T ss_pred CCCCcEEEEECCeeEEEEEECCCCEEEE
Confidence 445555555555556666553 555543
No 62
>TIGR02540 gpx7 putative glutathione peroxidase Gpx7. This model represents one of several families of known and probable glutathione peroxidases. This family is restricted to animals and designated GPX7.
Probab=20.32 E-value=1.1e+02 Score=18.86 Aligned_cols=16 Identities=25% Similarity=0.337 Sum_probs=13.3
Q ss_pred CeeEEEECCCCcEEEc
Q 035202 51 TRVRVWVNTRGTVTRV 66 (70)
Q Consensus 51 ~RV~v~vD~~g~V~~v 66 (70)
+|-.+.+|.+|+|...
T Consensus 120 ~~~tflID~~G~v~~~ 135 (153)
T TIGR02540 120 NFWKYLVNPEGQVVKF 135 (153)
T ss_pred ccEEEEEcCCCcEEEE
Confidence 5668999999999864
No 63
>COG0810 TonB Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]
Probab=20.03 E-value=1.1e+02 Score=20.99 Aligned_cols=28 Identities=18% Similarity=0.227 Sum_probs=18.1
Q ss_pred eCCCccccCC-CCCeeEEEECCCCcEEEc
Q 035202 39 LEGSFVTGDF-LCTRVRVWVNTRGTVTRV 66 (70)
Q Consensus 39 ~pg~~vT~Df-~~~RV~v~vD~~g~V~~v 66 (70)
.|-.+.-+.. -.-+|.+.+|.+|.|..+
T Consensus 169 YP~~A~~~g~~G~V~V~f~i~~~G~v~~v 197 (244)
T COG0810 169 YPAQARARGIEGTVKVKFTIDPDGNVTNV 197 (244)
T ss_pred CcHHHHhcCCCceEEEEEEECCCCCEeee
Confidence 3445555554 233566679999998875
No 64
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=20.00 E-value=1.1e+02 Score=18.73 Aligned_cols=15 Identities=20% Similarity=0.585 Sum_probs=12.8
Q ss_pred eeEEEECCCCcEEEc
Q 035202 52 RVRVWVNTRGTVTRV 66 (70)
Q Consensus 52 RV~v~vD~~g~V~~v 66 (70)
|..+.+|.+|+|...
T Consensus 121 ~~~~lid~~G~i~~~ 135 (154)
T PRK09437 121 RISFLIDADGKIEHV 135 (154)
T ss_pred eEEEEECCCCEEEEE
Confidence 677899999999875
Done!