Query psy963
Match_columns 128
No_of_seqs 105 out of 507
Neff 5.3
Searched_HMMs 46136
Date Sat Aug 17 00:38:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy963.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/963hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01101 V_ATP_synt_F vacuola 100.0 7.2E-33 1.6E-37 201.5 13.4 111 4-122 3-113 (115)
2 KOG3432|consensus 100.0 1.6E-33 3.5E-38 203.6 9.8 115 3-125 4-118 (121)
3 PRK01395 V-type ATP synthase s 99.9 1.1E-26 2.3E-31 166.0 11.5 96 7-122 4-99 (104)
4 PRK03957 V-type ATP synthase s 99.9 1.7E-26 3.6E-31 163.6 11.2 94 7-122 1-94 (100)
5 PF01990 ATP-synt_F: ATP synth 99.9 2.4E-26 5.1E-31 160.0 10.1 95 9-120 1-95 (95)
6 PRK02228 V-type ATP synthase s 99.9 3.5E-25 7.6E-30 156.7 11.4 94 7-122 1-94 (100)
7 PRK01189 V-type ATP synthase s 99.9 1.3E-24 2.9E-29 155.4 9.9 95 6-122 2-97 (104)
8 COG1436 NtpG Archaeal/vacuolar 99.9 7.4E-23 1.6E-27 146.7 9.6 97 6-122 2-98 (104)
9 COG4075 Uncharacterized conser 89.5 0.72 1.6E-05 33.4 4.3 48 51-103 53-103 (110)
10 PF10126 Nit_Regul_Hom: Unchar 79.9 4 8.8E-05 29.8 4.4 47 51-102 53-102 (110)
11 PLN00124 succinyl-CoA ligase [ 67.2 31 0.00068 30.2 7.6 63 40-105 319-389 (422)
12 COG0045 SucC Succinyl-CoA synt 63.0 1.1E+02 0.0023 27.0 10.3 84 8-105 257-353 (387)
13 PRK08366 vorA 2-ketoisovalerat 59.1 32 0.0007 29.6 6.2 52 8-73 3-54 (390)
14 PRK09622 porA pyruvate flavodo 58.8 25 0.00054 30.3 5.5 53 6-72 8-60 (407)
15 cd01829 SGNH_hydrolase_peri2 S 58.6 69 0.0015 23.4 7.6 28 75-103 92-119 (200)
16 PF07085 DRTGG: DRTGG domain; 57.4 26 0.00056 23.9 4.4 16 13-28 48-64 (105)
17 cd01841 NnaC_like NnaC (CMP-Ne 57.2 69 0.0015 22.9 7.9 88 7-103 1-101 (174)
18 PF13458 Peripla_BP_6: Peripla 56.3 47 0.001 26.0 6.3 52 42-98 45-98 (343)
19 cd06340 PBP1_ABC_ligand_bindin 55.9 84 0.0018 25.2 7.9 53 42-99 46-100 (347)
20 cd06366 PBP1_GABAb_receptor Li 53.4 1.1E+02 0.0025 24.3 8.2 54 41-99 41-96 (350)
21 PRK06555 pyrophosphate--fructo 53.3 51 0.0011 28.9 6.5 33 44-76 237-269 (403)
22 PRK08659 2-oxoglutarate ferred 50.1 42 0.00092 28.6 5.4 52 6-73 2-53 (376)
23 TIGR03336 IOR_alpha indolepyru 50.0 45 0.00098 30.0 5.8 54 8-75 2-55 (595)
24 PF04536 TPM: TLP18.3, Psb32 a 49.8 36 0.00078 23.1 4.2 27 77-103 7-33 (119)
25 cd06348 PBP1_ABC_ligand_bindin 49.7 1.3E+02 0.0028 23.9 8.1 73 15-101 17-99 (344)
26 PRK07119 2-ketoisovalerate fer 48.2 39 0.00084 28.6 4.9 49 8-72 4-52 (352)
27 PF00549 Ligase_CoA: CoA-ligas 48.1 53 0.0012 24.8 5.2 56 51-106 58-121 (153)
28 PRK08367 porA pyruvate ferredo 47.8 49 0.0011 28.5 5.5 84 7-106 3-112 (394)
29 cd01833 XynB_like SGNH_hydrola 46.5 61 0.0013 22.7 5.1 38 52-89 26-75 (157)
30 PRK09627 oorA 2-oxoglutarate-a 45.9 62 0.0013 27.7 5.8 52 8-73 3-54 (375)
31 TIGR03710 OAFO_sf 2-oxoacid:ac 43.6 83 0.0018 28.3 6.5 85 6-106 191-299 (562)
32 PF03709 OKR_DC_1_N: Orn/Lys/A 42.6 80 0.0017 22.1 5.1 48 52-102 27-76 (115)
33 PF07905 PucR: Purine cataboli 41.0 47 0.001 23.5 3.8 49 52-102 59-107 (123)
34 PF13380 CoA_binding_2: CoA bi 40.8 48 0.001 23.4 3.7 53 57-120 45-100 (116)
35 PF06506 PrpR_N: Propionate ca 40.5 86 0.0019 23.4 5.3 60 4-79 75-138 (176)
36 PF01168 Ala_racemase_N: Alani 40.4 1.3E+02 0.0028 22.6 6.3 65 58-126 79-143 (218)
37 PF09612 HtrL_YibB: Bacterial 39.4 1E+02 0.0023 25.6 6.0 54 50-105 25-79 (271)
38 PLN03194 putative disease resi 38.5 79 0.0017 25.0 4.9 49 52-100 68-119 (187)
39 cd06334 PBP1_ABC_ligand_bindin 38.3 2.1E+02 0.0046 23.3 7.7 70 15-99 17-96 (351)
40 CHL00200 trpA tryptophan synth 37.6 2.2E+02 0.0049 23.1 8.8 93 13-125 107-204 (263)
41 cd06382 PBP1_iGluR_Kainate N-t 37.6 2E+02 0.0044 22.6 7.4 86 8-100 1-94 (327)
42 cd07019 S49_SppA_1 Signal pept 36.4 1.8E+02 0.004 22.3 6.7 52 51-104 23-81 (211)
43 cd06357 PBP1_AmiC Periplasmic 35.8 1.6E+02 0.0034 24.0 6.5 45 42-86 43-89 (360)
44 COG1707 ACT domain-containing 35.7 82 0.0018 25.2 4.6 84 7-97 84-172 (218)
45 PRK11200 grxA glutaredoxin 1; 34.6 1.3E+02 0.0027 19.4 5.1 69 52-124 15-85 (85)
46 PF08747 DUF1788: Domain of un 34.0 1.3E+02 0.0028 22.0 5.2 54 52-105 47-104 (126)
47 PRK13111 trpA tryptophan synth 33.9 2.6E+02 0.0056 22.7 7.6 55 15-86 107-163 (258)
48 PF08937 DUF1863: MTH538 TIR-l 33.9 97 0.0021 21.9 4.5 51 53-105 59-112 (130)
49 cd02067 B12-binding B12 bindin 33.4 1.6E+02 0.0034 20.1 7.4 55 46-105 34-91 (119)
50 PRK15404 leucine ABC transport 33.2 2.7E+02 0.0059 22.8 8.4 87 5-99 24-122 (369)
51 TIGR00706 SppA_dom signal pept 33.0 2E+02 0.0043 22.0 6.4 52 50-104 14-72 (207)
52 PF04392 ABC_sub_bind: ABC tra 31.9 2.3E+02 0.0051 22.5 6.9 81 5-102 130-220 (294)
53 cd06337 PBP1_ABC_ligand_bindin 31.8 1.5E+02 0.0033 24.0 5.8 53 42-99 45-99 (357)
54 TIGR01169 rplA_bact ribosomal 31.8 1.4E+02 0.0031 23.8 5.6 60 4-86 68-127 (227)
55 KOG4175|consensus 31.7 1.2E+02 0.0025 25.1 5.0 45 13-73 111-155 (268)
56 cd06332 PBP1_aromatic_compound 31.6 1.8E+02 0.004 22.5 6.1 54 42-100 41-96 (333)
57 TIGR02717 AcCoA-syn-alpha acet 31.2 3.5E+02 0.0076 23.4 8.6 95 7-120 8-119 (447)
58 PRK00103 rRNA large subunit me 31.2 2.3E+02 0.0049 21.4 6.3 66 53-125 56-125 (157)
59 KOG0816|consensus 31.0 1.9E+02 0.004 23.6 6.0 54 49-102 80-139 (223)
60 cd06356 PBP1_Amide_Urea_BP_lik 30.6 2.2E+02 0.0048 22.7 6.5 52 42-98 43-96 (334)
61 TIGR02706 P_butyryltrans phosp 29.8 3.1E+02 0.0068 22.4 8.6 88 7-106 39-132 (294)
62 PF13419 HAD_2: Haloacid dehal 29.7 1.3E+02 0.0027 20.7 4.4 66 52-120 80-145 (176)
63 PF01886 DUF61: Protein of unk 29.5 1.7E+02 0.0036 21.7 5.2 68 55-122 20-96 (132)
64 CHL00129 rpl1 ribosomal protei 29.4 1.7E+02 0.0036 23.6 5.6 60 4-86 69-128 (229)
65 cd07105 ALDH_SaliADH Salicylal 29.2 2.7E+02 0.0059 23.6 7.1 62 56-122 170-233 (432)
66 PRK03202 6-phosphofructokinase 28.7 1.8E+02 0.004 24.4 5.9 57 44-104 191-250 (320)
67 PF10137 TIR-like: Predicted n 28.5 1.8E+02 0.0039 21.2 5.2 53 52-105 10-64 (125)
68 PTZ00029 60S ribosomal protein 28.5 2E+02 0.0043 22.8 5.8 61 4-86 59-125 (216)
69 PF05872 DUF853: Bacterial pro 28.0 79 0.0017 28.7 3.7 36 52-88 277-323 (502)
70 COG0447 MenB Dihydroxynaphthoi 27.9 69 0.0015 26.6 3.1 24 51-74 48-71 (282)
71 TIGR02329 propionate_PrpR prop 27.9 95 0.0021 27.8 4.3 52 4-71 95-150 (526)
72 cd07022 S49_Sppa_36K_type Sign 27.8 2.7E+02 0.0059 21.4 6.4 50 51-103 27-83 (214)
73 cd01016 TroA Metal binding pro 27.2 1.1E+02 0.0024 24.5 4.3 40 46-86 191-230 (276)
74 cd06331 PBP1_AmiC_like Type I 27.1 3.1E+02 0.0067 21.6 6.8 55 41-100 42-98 (333)
75 COG3616 Predicted amino acid a 26.9 4.2E+02 0.0091 23.0 9.1 88 17-121 77-166 (368)
76 PF05116 S6PP: Sucrose-6F-phos 26.8 2E+02 0.0042 22.7 5.5 37 52-88 18-57 (247)
77 PF06348 DUF1059: Protein of u 26.7 1E+02 0.0023 19.4 3.2 42 42-86 15-56 (57)
78 cd07018 S49_SppA_67K_type Sign 26.7 2.5E+02 0.0055 21.7 6.1 53 48-102 28-87 (222)
79 cd06359 PBP1_Nba_like Type I p 26.5 2.5E+02 0.0054 22.3 6.1 53 42-99 41-95 (333)
80 PRK14166 bifunctional 5,10-met 26.5 2.5E+02 0.0054 23.4 6.2 29 44-72 66-95 (282)
81 cd07014 S49_SppA Signal peptid 26.4 2.7E+02 0.0058 20.6 6.8 51 50-102 23-80 (177)
82 cd06330 PBP1_Arsenic_SBP_like 26.4 3.3E+02 0.0071 21.5 6.9 55 42-101 43-99 (346)
83 KOG1575|consensus 25.6 2.3E+02 0.0049 24.3 6.0 57 21-87 121-179 (336)
84 PF10087 DUF2325: Uncharacteri 25.6 2.1E+02 0.0046 19.1 6.9 42 52-99 36-81 (97)
85 PF01297 TroA: Periplasmic sol 25.6 3.2E+02 0.007 21.2 6.5 71 47-123 181-251 (256)
86 PRK10792 bifunctional 5,10-met 25.2 1.4E+02 0.0031 24.9 4.6 30 44-73 69-99 (285)
87 cd06335 PBP1_ABC_ligand_bindin 25.2 3.4E+02 0.0074 21.7 6.8 55 42-101 43-99 (347)
88 COG0169 AroE Shikimate 5-dehyd 25.1 4E+02 0.0086 22.1 7.9 70 1-85 1-78 (283)
89 TIGR00262 trpA tryptophan synt 24.9 3.7E+02 0.008 21.6 8.6 91 13-123 103-195 (256)
90 cd06328 PBP1_SBP_like_2 Peripl 24.5 2.7E+02 0.006 22.1 6.1 54 42-100 44-99 (333)
91 PRK12702 mannosyl-3-phosphogly 24.5 1.8E+02 0.004 24.6 5.1 44 52-99 21-64 (302)
92 cd02071 MM_CoA_mut_B12_BD meth 24.4 2.5E+02 0.0055 19.5 6.8 53 19-89 21-76 (122)
93 PF12163 HobA: DNA replication 24.3 1.9E+02 0.0041 22.8 4.9 47 54-102 33-82 (180)
94 PRK12562 ornithine carbamoyltr 24.2 2.7E+02 0.0059 23.6 6.2 22 6-27 156-183 (334)
95 cd06344 PBP1_ABC_ligand_bindin 23.9 3.5E+02 0.0077 21.3 6.6 54 42-100 42-97 (332)
96 PRK01018 50S ribosomal protein 23.8 1.9E+02 0.0041 19.9 4.4 39 64-103 30-68 (99)
97 PRK04017 hypothetical protein; 23.4 3.2E+02 0.0069 20.3 6.3 24 63-86 62-91 (132)
98 cd02525 Succinoglycan_BP_ExoA 23.3 2E+02 0.0043 21.1 4.7 37 52-88 13-53 (249)
99 PRK15424 propionate catabolism 23.3 1.2E+02 0.0027 27.3 4.2 52 4-71 105-160 (538)
100 cd06343 PBP1_ABC_ligand_bindin 23.1 3.3E+02 0.0071 21.7 6.3 54 42-100 50-105 (362)
101 PRK05583 ribosomal protein L7A 23.0 2.1E+02 0.0046 20.0 4.5 43 52-99 23-65 (104)
102 cd01973 Nitrogenase_VFe_beta_l 23.0 4E+02 0.0087 23.3 7.2 22 6-27 305-330 (454)
103 COG0616 SppA Periplasmic serin 22.9 3.5E+02 0.0076 22.4 6.6 53 51-106 82-141 (317)
104 COG0081 RplA Ribosomal protein 22.9 2.4E+02 0.0051 23.1 5.3 58 4-82 70-127 (228)
105 PRK05424 rplA 50S ribosomal pr 22.6 2.9E+02 0.0062 22.1 5.8 57 4-82 69-125 (230)
106 cd01575 PBP1_GntR Ligand-bindi 22.6 3.2E+02 0.007 20.2 8.0 81 6-88 116-200 (268)
107 TIGR01016 sucCoAbeta succinyl- 22.3 4.7E+02 0.01 21.9 9.7 59 41-102 285-351 (386)
108 PF13714 PEP_mutase: Phosphoen 21.7 4.2E+02 0.0092 21.2 7.4 99 15-125 88-193 (238)
109 PRK07714 hypothetical protein; 21.6 1.8E+02 0.0038 20.0 3.9 46 52-103 24-69 (100)
110 COG1658 Small primase-like pro 21.5 3.4E+02 0.0074 20.0 7.0 67 7-87 10-78 (127)
111 PRK14177 bifunctional 5,10-met 21.4 1.6E+02 0.0035 24.6 4.2 28 45-72 70-98 (284)
112 cd02974 AhpF_NTD_N Alkyl hydro 21.2 1.8E+02 0.0038 20.0 3.8 35 52-88 8-44 (94)
113 TIGR00705 SppA_67K signal pept 21.2 4.1E+02 0.0088 24.1 7.0 53 51-105 331-390 (584)
114 cd07093 ALDH_F8_HMSADH Human a 21.1 4.1E+02 0.009 22.6 6.8 60 58-122 188-249 (455)
115 PRK00696 sucC succinyl-CoA syn 21.0 3.8E+02 0.0083 22.5 6.5 59 41-102 285-351 (388)
116 cd06327 PBP1_SBP_like_1 Peripl 21.0 4E+02 0.0087 21.0 6.3 54 42-100 42-97 (334)
117 TIGR01279 DPOR_bchN light-inde 20.8 4.3E+02 0.0093 22.5 6.8 18 5-22 273-290 (407)
118 PRK14805 ornithine carbamoyltr 20.1 4E+02 0.0087 22.1 6.3 22 6-27 147-173 (302)
119 PF05193 Peptidase_M16_C: Pept 20.1 2.8E+02 0.006 18.9 4.7 39 50-88 3-41 (184)
120 PF11305 DUF3107: Protein of u 20.1 2.5E+02 0.0054 19.0 4.2 31 44-75 15-45 (74)
121 COG3845 ABC-type uncharacteriz 20.1 2.4E+02 0.0053 25.6 5.3 39 42-80 161-204 (501)
No 1
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=100.00 E-value=7.2e-33 Score=201.50 Aligned_cols=111 Identities=41% Similarity=0.681 Sum_probs=102.8
Q ss_pred ccceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHH
Q psy963 4 EVLQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHT 83 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~ 83 (128)
+.+.+||||||+||++|||||||+++....+ +||++++.+|+.+|++++|++++.++|||||+|||++|+.+++.
T Consensus 3 ~~~~~IaVIGD~Dtv~GF~LaGi~~~~~~~~-----~nf~~v~~~t~~eei~~~~~~~l~~~digIIlIte~~a~~i~~~ 77 (115)
T TIGR01101 3 EKGKLIAVIGDEDTVVGFLLGGIGEINKNRH-----PNFLVVDKNTTVSEIEDCFNRFLKRDDIAIILINQHIAEMIRHA 77 (115)
T ss_pred CCCcEEEEEecHHHHHHHHHhCCCccccccc-----cceeeecCCCCHHHHHHHHHHHhhcCCeEEEEEcHHHHHHhHHH
Confidence 5678899999999999999999998654433 68999999999999999999999999999999999999999999
Q ss_pred HHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhc
Q psy963 84 LDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 84 i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~ 122 (128)
|++|+ +..|+||+|||+.++|++++++|++|++...
T Consensus 78 I~~~~---~~~PaIieIP~k~~~y~~~~d~i~~~~~~~~ 113 (115)
T TIGR01101 78 VDAHT---RSIPAVLEIPSKDHPYDASKDSILRRARGMF 113 (115)
T ss_pred HHhcC---CcCCEEEEECCCCCCCCCcccHHHHHHHHHc
Confidence 99999 8999999999999999999999999999764
No 2
>KOG3432|consensus
Probab=100.00 E-value=1.6e-33 Score=203.56 Aligned_cols=115 Identities=37% Similarity=0.614 Sum_probs=107.8
Q ss_pred cccceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHH
Q psy963 3 EEVLQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRH 82 (128)
Q Consensus 3 ~~~~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~ 82 (128)
.++++.||||||+||++||+|+|++.++.+.+ +||+++++.|+.+|++++|+.+++|+|++||+|++.+|++||+
T Consensus 4 a~~~~liavIgDEDT~tGfLlaGvg~v~~~r~-----~Nf~vv~~~Tt~~eiedaF~~f~~RdDIaIiLInq~~Ae~iR~ 78 (121)
T KOG3432|consen 4 ADKRTLIAVIGDEDTVTGFLLAGVGEVNENRE-----PNFLVVDSKTTVEEIEDAFKSFTARDDIAIILINQFIAEMIRD 78 (121)
T ss_pred cccCcEEEEeccccceeeeeeecccccccCCC-----CCEEEEeccCCHHHHHHHHHhhccccCeEEEEEhHHHHHHHHH
Confidence 46789999999999999999999998865554 7999999999999999999999999999999999999999999
Q ss_pred HHHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhccCC
Q psy963 83 TLDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIATLP 125 (128)
Q Consensus 83 ~i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~~~~ 125 (128)
.++.|+ +..|+|+|||||++||+++++||++.+|.+.+-+
T Consensus 79 ~vD~h~---~~vPAvLeIpSKdhPYd~~kDSiL~R~r~~f~~e 118 (121)
T KOG3432|consen 79 RVDAHT---QAVPAVLEIPSKDHPYDPSKDSILRRARGLFGPE 118 (121)
T ss_pred HHHhcc---ccCCeeEEecCCCCCCCchHHHHHHHHHhccChh
Confidence 999999 8999999999999999999999999999987543
No 3
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=99.94 E-value=1.1e-26 Score=166.04 Aligned_cols=96 Identities=28% Similarity=0.464 Sum_probs=87.7
Q ss_pred eEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHH
Q psy963 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDI 86 (128)
Q Consensus 7 ~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~ 86 (128)
+|||||||+||++||||+|+++ |.++++ +++.++|+++. ++|||||+|||++++.+++++++
T Consensus 4 ~kIaVIGD~dtv~GFrLaGi~~-------------~~v~~~----ee~~~~i~~l~-~~d~gII~Ite~~a~~i~~~i~~ 65 (104)
T PRK01395 4 YKIGVVGDKDSILPFKALGIDV-------------FPVIDE----QEAINTLRKLA-MEDYGIIYITEQIAADIPETIER 65 (104)
T ss_pred eeEEEEECHHHHHHHHHcCCee-------------EEecCh----HHHHHHHHHHh-cCCcEEEEEcHHHHHHhHHHHHH
Confidence 6999999999999999999963 888776 89999999976 88999999999999999999999
Q ss_pred hhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhc
Q psy963 87 RERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 87 ~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~ 122 (128)
++ + +..|+|++|||++|+.+.+.++|.+|+++-+
T Consensus 66 ~~-~-~~~P~Il~IP~~~g~~~~g~~~i~~~v~kAI 99 (104)
T PRK01395 66 YD-N-QVLPAIILIPSNQGSLGIGLSRIQDNVEKAV 99 (104)
T ss_pred hc-C-CCCCEEEEeCCCCCCccccHHHHHHHHHHHh
Confidence 96 3 7999999999999988767889999999865
No 4
>PRK03957 V-type ATP synthase subunit F; Provisional
Probab=99.94 E-value=1.7e-26 Score=163.61 Aligned_cols=94 Identities=28% Similarity=0.515 Sum_probs=85.0
Q ss_pred eEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHH
Q psy963 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDI 86 (128)
Q Consensus 7 ~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~ 86 (128)
+|||||||+||++||||+|++++ |.+.++ +|++++|+++++++|||||++||++++.+++.++
T Consensus 1 mkIaVIgD~dtv~GFrLaGi~~~------------~~v~~~----ee~~~~l~~l~~~~d~gII~ite~~~~~i~~~i~- 63 (100)
T PRK03957 1 MKIAVVGDRDTVTGFRLAGLTEV------------YEVKNP----EEAKNAIKELVENDEIGIIIITERIAEEIRDLIS- 63 (100)
T ss_pred CEEEEEeCHHHHHHHHHcCCCce------------EEeCCH----HHHHHHHHHHhhCCCeEEEEEcHHHHHHHHHHHh-
Confidence 48999999999999999999752 665443 8999999999999999999999999999999887
Q ss_pred hhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhc
Q psy963 87 RERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 87 ~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~ 122 (128)
+..|+|++||+++|+++.+++++.+++|+.+
T Consensus 64 -----~~~P~Ii~IP~~~g~~~~~~~~i~~~v~rai 94 (100)
T PRK03957 64 -----VALPIIVEIPDKSGSIERENDPVKELVRRAI 94 (100)
T ss_pred -----cCCCEEEEECCCCCCCccchHHHHHHHHHHh
Confidence 3569999999999999999999999999987
No 5
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=99.94 E-value=2.4e-26 Score=160.01 Aligned_cols=95 Identities=34% Similarity=0.604 Sum_probs=86.7
Q ss_pred EEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhh
Q psy963 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRE 88 (128)
Q Consensus 9 IaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~ 88 (128)
||||||+|+++||||+|+++ +++. +++++++++|+++++++|+|||++|+++++.+++.+++++
T Consensus 1 IavIGd~~~v~gFrLaGv~~-------------~~~~---~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~~~~~l~~~~ 64 (95)
T PF01990_consen 1 IAVIGDRDTVLGFRLAGVEG-------------VYVN---TDPEEAEEALKELLKDEDVGIIIITEDLAEKIRDELDEYR 64 (95)
T ss_dssp EEEEE-HHHHHHHHHTTSEE-------------EEES---HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTTHHHHHHHHH
T ss_pred CEEEeCHHHHHHHHHcCCCC-------------ccCC---CCHHHHHHHHHHHhcCCCccEEEeeHHHHHHHHHHHHHHH
Confidence 79999999999999999986 6665 2249999999999999999999999999999999999997
Q ss_pred hCCCcccEEEEcCCCCCCCCCCCchHHHHHHh
Q psy963 89 RSNQVYPIVLEIPSALDAFHYTITDEDKQCRN 120 (128)
Q Consensus 89 ~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~ 120 (128)
.+ +..|+|++||+++++++.+.+++.+++|+
T Consensus 65 ~~-~~~P~iv~IP~~~~~~~~~~~~i~~~v~r 95 (95)
T PF01990_consen 65 EE-SSLPLIVEIPSKEGSMGREKDSIRELVKR 95 (95)
T ss_dssp HT-SSSSEEEEESTTCCCTSSCCHHHHHHHHH
T ss_pred hc-cCCceEEEcCCCCCCCCcchHHHHHHhcC
Confidence 66 89999999999999999999999999985
No 6
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=99.93 E-value=3.5e-25 Score=156.74 Aligned_cols=94 Identities=19% Similarity=0.320 Sum_probs=82.8
Q ss_pred eEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHH
Q psy963 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDI 86 (128)
Q Consensus 7 ~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~ 86 (128)
+|||||||+||++||||+|++++ |++.+ ++|++++|++++.++|||||++||++++.+.+.+++
T Consensus 1 mkIaVIGD~dtv~GFrLaGi~~~------------~~~~~----~ee~~~~l~~l~~~~d~gII~Ite~~~~~i~e~i~~ 64 (100)
T PRK02228 1 MEIAVIGSPEFTTGFRLAGIRKV------------YEVPD----DEKLDEAVEEVLEDDDVGILVMHDDDLEKLPRRLRR 64 (100)
T ss_pred CEEEEEeCHHHHHHHHHcCCceE------------EeeCC----HHHHHHHHHHHhhCCCEEEEEEehhHhHhhHHHHHH
Confidence 58999999999999999999862 44533 389999999999899999999999999999999999
Q ss_pred hhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhc
Q psy963 87 RERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 87 ~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~ 122 (128)
+..+ +..|+|++||+..|+ +++.+++++.+
T Consensus 65 ~~~~-~~~P~ii~IP~~~~~-----~~i~~~v~raI 94 (100)
T PRK02228 65 TLEE-SVEPTVVTLGGGGGS-----GGLREKIKRAI 94 (100)
T ss_pred HHhc-CCCCEEEEECCCccc-----hHHHHHHHHHh
Confidence 6555 899999999986664 78999999876
No 7
>PRK01189 V-type ATP synthase subunit F; Provisional
Probab=99.92 E-value=1.3e-24 Score=155.40 Aligned_cols=95 Identities=22% Similarity=0.376 Sum_probs=79.2
Q ss_pred ceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHH-HHH
Q psy963 6 LQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIR-HTL 84 (128)
Q Consensus 6 ~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir-~~i 84 (128)
.+|||||||.||++||||+|++++ |.+.++ +++++ +.+.+.++|||||++||++++.++ +++
T Consensus 2 ~~kIaVvGd~DtilGFrlaGi~~v------------~~~~~~----e~~~~-~~~~l~~~~~gII~iTE~~a~~i~~~~i 64 (104)
T PRK01189 2 MSCITVIGERDVVLGFRLLGIGDT------------IEAEGK----DLVKK-FLEIFNNPKCKYIFVSESTKNMFDKNTL 64 (104)
T ss_pred CceEEEEcCHHHHHHHHHcCCceE------------EEcCCH----HHHHH-HHHHHhcCCeEEEEEEHHHHhhCCHHHH
Confidence 358999999999999999999863 766443 66644 555667899999999999999999 899
Q ss_pred HHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhc
Q psy963 85 DIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 85 ~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~ 122 (128)
++|+ ++..|+||+||.+ |.. +.+++.+|+|+..
T Consensus 65 ~~~~--~~~~P~II~Ipip-g~~--~~~~i~~~ik~ai 97 (104)
T PRK01189 65 RSLE--SSSKPLVVFIPLP-GIS--EEESIEEMAKRIL 97 (104)
T ss_pred HHHh--ccCCCeEEEEeCC-CCc--cchhHHHHHHHHh
Confidence 9999 3899999998877 432 3689999999987
No 8
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=99.89 E-value=7.4e-23 Score=146.71 Aligned_cols=97 Identities=35% Similarity=0.516 Sum_probs=80.3
Q ss_pred ceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHH
Q psy963 6 LQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLD 85 (128)
Q Consensus 6 ~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~ 85 (128)
.++||||||+||++||||+|++++ |++.++ .+++.++++.+.++ |||||+||+++++.+++.++
T Consensus 2 ~~~I~VIGd~dtvtGFrLaGv~~~------------~v~~~~---~~~~~~~~~~l~~~-~~~iIiite~~a~~i~~~i~ 65 (104)
T COG1436 2 MMKIAVIGDRDTVTGFRLAGVRVV------------YVADDE---EDELRAALRVLAED-DVGIILITEDLAEKIREEIR 65 (104)
T ss_pred ceEEEEEEccchhhceeeecceeE------------EEecCh---hHHHHHHHHhhccC-CceEEEEeHHHHhhhHHHHH
Confidence 589999999999999999999862 334333 12688888888755 99999999999999999999
Q ss_pred HhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhc
Q psy963 86 IRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 86 ~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~ 122 (128)
++.++ +..|+|++|||++. .+.+.+.+.+++.+
T Consensus 66 ~~~~~-~~~P~iv~IPs~~~---~~~~~~~~~I~k~v 98 (104)
T COG1436 66 RIIRS-SVLPAIVEIPSPGK---EEEEPLRELIRRAV 98 (104)
T ss_pred HHhhc-cCccEEEEeCCCCC---CccchHHHHHHHHH
Confidence 99876 89999999999722 35577888887765
No 9
>COG4075 Uncharacterized conserved protein, homolog of nitrogen regulatory protein PII [Function unknown]
Probab=89.47 E-value=0.72 Score=33.40 Aligned_cols=48 Identities=17% Similarity=0.305 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhcCCCeEEEE---EehHHHHHHHHHHHHhhhCCCcccEEEEcCCC
Q psy963 51 ADEIEDAFRTLVRRTDVGIVL---ITRLVADRIRHTLDIRERSNQVYPIVLEIPSA 103 (128)
Q Consensus 51 ~eei~~~~~~l~~~~digIIi---Ite~~a~~ir~~i~~~~~~~~~~P~IveIPs~ 103 (128)
+|.+.++++++.++ ++++ +.|..++.|.+.+.+--. +..=+|++||=.
T Consensus 53 pE~aik~i~D~s~~---AVlI~tVV~Ee~vekie~~~~Ekla--~eryTIi~ipI~ 103 (110)
T COG4075 53 PESAIKAIRDLSDK---AVLIGTVVKEEKVEKIEELLKEKLA--NERYTIIEIPIE 103 (110)
T ss_pred HHHHHHHHHHhhhc---eEEEEEecCHHHHHHHHHHHHHHhc--CCceEEEEeeee
Confidence 57777778877632 4444 458888999888777542 445589999853
No 10
>PF10126 Nit_Regul_Hom: Uncharacterized protein, homolog of nitrogen regulatory protein PII; InterPro: IPR019296 This family consists of various hypothetical archaeal proteins. It includes a putative nitrogen regulatory protein PII homolog.
Probab=79.86 E-value=4 Score=29.78 Aligned_cols=47 Identities=13% Similarity=0.256 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhcCCCeEEE---EEehHHHHHHHHHHHHhhhCCCcccEEEEcCC
Q psy963 51 ADEIEDAFRTLVRRTDVGIV---LITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 51 ~eei~~~~~~l~~~~digII---iIte~~a~~ir~~i~~~~~~~~~~P~IveIPs 102 (128)
+|.+.++++++.+ + |++ +++++.++.|.+.+.+-- + ...=+|++||=
T Consensus 53 pe~ai~~I~d~s~--~-aV~I~TVV~~~~~~~i~~~i~ekL-~-~eryTii~iPi 102 (110)
T PF10126_consen 53 PEMAIKAINDLSE--N-AVLIGTVVDEEKVEKIEKLIKEKL-K-NERYTIIEIPI 102 (110)
T ss_pred HHHHHHHHHHhcc--C-cEEEEEEECHHHHHHHHHHHHHHh-c-CCceEEEEeeE
Confidence 4777777776653 2 444 456888899988887743 2 44558888884
No 11
>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional
Probab=67.23 E-value=31 Score=30.17 Aligned_cols=63 Identities=17% Similarity=0.295 Sum_probs=49.8
Q ss_pred ceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--------ehHHHHHHHHHHHHhhhCCCcccEEEEcCCCCC
Q psy963 40 SNVFVVDKETPADEIEDAFRTLVRRTDVGIVLI--------TRLVADRIRHTLDIRERSNQVYPIVLEIPSALD 105 (128)
Q Consensus 40 ~~~~v~~~~t~~eei~~~~~~l~~~~digIIiI--------te~~a~~ir~~i~~~~~~~~~~P~IveIPs~~g 105 (128)
-||.=....++.+.+.++|+-+++++.+-.||| ++.+|+.|-+.+.++. -..|+||-+.+.+-
T Consensus 319 ANFlD~GG~a~~~~v~~a~~ii~~d~~vk~iliNIfGGI~~cd~iA~gii~a~~~~~---~~~pivvRl~Gtn~ 389 (422)
T PLN00124 319 ANFLDVGGNASEQQVVEAFKILTSDDKVKAILVNIFGGIMKCDVIASGIVNAAKQVG---LKVPLVVRLEGTNV 389 (422)
T ss_pred ceeeecCCCCCHHHHHHHHHHHhcCCCCcEEEEEecCCccchHHHHHHHHHHHHhcC---CCCcEEEEcCCCCH
Confidence 478866667788999999999999999999998 4667877766666655 56899998877553
No 12
>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=63.04 E-value=1.1e+02 Score=26.95 Aligned_cols=84 Identities=19% Similarity=0.241 Sum_probs=62.0
Q ss_pred EEEEEech-----hhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--------h
Q psy963 8 LVGLIGDE-----DSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--------R 74 (128)
Q Consensus 8 kIaVIgD~-----dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--------e 74 (128)
.|++|++- .|.-=..+.|-+- -||.=+....+.+.+.++|+-+++++.+-.|||+ +
T Consensus 257 ~IG~ivNGAGLaMaTmDii~~~Gg~P-----------ANFLDvGGgA~~e~v~~a~~~il~d~~vk~IfVNIfGGI~rcD 325 (387)
T COG0045 257 NIGCIVNGAGLAMATMDIVKLYGGKP-----------ANFLDVGGGATAERVKEAFKLILSDPNVKAIFVNIFGGITRCD 325 (387)
T ss_pred cEEEEecChhHHHHHHHHHHHcCCCC-----------cceeecCCCCCHHHHHHHHHHHhcCCCccEEEEEEccCcCccH
Confidence 47777762 1222334456653 3788555666779999999999999999999986 5
Q ss_pred HHHHHHHHHHHHhhhCCCcccEEEEcCCCCC
Q psy963 75 LVADRIRHTLDIRERSNQVYPIVLEIPSALD 105 (128)
Q Consensus 75 ~~a~~ir~~i~~~~~~~~~~P~IveIPs~~g 105 (128)
.+|+.|-..+.++. ...|+||-+-+.+-
T Consensus 326 ~vA~GIi~Al~e~~---~~vPlVVRL~GtN~ 353 (387)
T COG0045 326 EVAEGIIAALKEVG---VNVPLVVRLEGTNV 353 (387)
T ss_pred HHHHHHHHHHHhcC---CCCCEEEEcCCCCH
Confidence 58999988888877 66899998876553
No 13
>PRK08366 vorA 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=59.08 E-value=32 Score=29.63 Aligned_cols=52 Identities=13% Similarity=0.159 Sum_probs=42.8
Q ss_pred EEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe
Q psy963 8 LVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT 73 (128)
Q Consensus 8 kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt 73 (128)
++.+-|++....|.+.+|++ |+.-.+=||..++.+.+.++..+.++++.++.
T Consensus 3 ~~~l~GNeAiA~ga~~ag~~--------------~~a~YPITPsTei~e~la~~~~~G~~~~~~~~ 54 (390)
T PRK08366 3 RKVVSGNYAAAYAALHARVQ--------------VVAAYPITPQTSIIEKIAEFIANGEADIQYVP 54 (390)
T ss_pred cEEeeHHHHHHHHHHHhCCC--------------EEEEECCCChhHHHHHHHHHhhCCCCCeEEEE
Confidence 56789999999999999997 44445567779999999999976677777776
No 14
>PRK09622 porA pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed
Probab=58.77 E-value=25 Score=30.29 Aligned_cols=53 Identities=13% Similarity=0.107 Sum_probs=41.8
Q ss_pred ceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE
Q psy963 6 LQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLI 72 (128)
Q Consensus 6 ~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiI 72 (128)
..++.+-|++....|...||++ |+.-.+=||..|+.+.+.+++.+..++..++
T Consensus 8 ~~~~~~~GNeAiA~ga~~Ag~~--------------~~a~YPITPsTeI~e~la~~~~~g~~~~~~v 60 (407)
T PRK09622 8 QEIEVWDGNTAASNALRQAQID--------------VVAAYPITPSTPIVQNYGSFKANGYVDGEFV 60 (407)
T ss_pred ceeeecchHHHHHHHHHHhCCC--------------EEEEECCCCccHHHHHHHHHhhCCCcCcEEE
Confidence 4678899999999999999997 4444556777899999999987655555554
No 15
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=58.60 E-value=69 Score=23.35 Aligned_cols=28 Identities=21% Similarity=0.278 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHhhhCCCcccEEEEcCCC
Q psy963 75 LVADRIRHTLDIRERSNQVYPIVLEIPSA 103 (128)
Q Consensus 75 ~~a~~ir~~i~~~~~~~~~~P~IveIPs~ 103 (128)
.+.+.++..++..+.. ....+++.+|..
T Consensus 92 ~~~~~l~~lv~~~~~~-~~~vili~~pp~ 119 (200)
T cd01829 92 EYRQRIDELLNVARAK-GVPVIWVGLPAM 119 (200)
T ss_pred HHHHHHHHHHHHHHhC-CCcEEEEcCCCC
Confidence 3455566666666632 333455555544
No 16
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=57.36 E-value=26 Score=23.90 Aligned_cols=16 Identities=38% Similarity=0.555 Sum_probs=9.0
Q ss_pred ec-hhhHHHHHhhCccc
Q psy963 13 GD-EDSVVGFLLGGIGH 28 (128)
Q Consensus 13 gD-~dtv~GFrLaGi~~ 28 (128)
|| .|.+.....+|+.+
T Consensus 48 gdR~di~~~a~~~~i~~ 64 (105)
T PF07085_consen 48 GDREDIQLAAIEAGIAC 64 (105)
T ss_dssp TT-HHHHHHHCCTTECE
T ss_pred CCcHHHHHHHHHhCCCE
Confidence 55 55555555555554
No 17
>cd01841 NnaC_like NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases. E. coli NnaC appears to be involved in polysaccharide synthesis.
Probab=57.20 E-value=69 Score=22.87 Aligned_cols=88 Identities=10% Similarity=0.111 Sum_probs=44.2
Q ss_pred eEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHH-HHHh-cCCCeEEEEEe----------h
Q psy963 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAF-RTLV-RRTDVGIVLIT----------R 74 (128)
Q Consensus 7 ~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~-~~l~-~~~digIIiIt----------e 74 (128)
++|.++||+-|- |+.+.+..+. . ...-|.-+.. .|+ +++.+.+ ..+. .++|+-+|++. +
T Consensus 1 ~~iv~~GdS~t~-~~~~~~~~~~----~--~~v~n~g~~G-~t~-~~~~~~~~~~~~~~~pd~v~i~~G~ND~~~~~~~~ 71 (174)
T cd01841 1 KNIVFIGDSLFE-GWPLYEAEGK----G--KTVNNLGIAG-ISS-RQYLEHIEPQLIQKNPSKVFLFLGTNDIGKEVSSN 71 (174)
T ss_pred CCEEEEcchhhh-cCchhhhccC----C--CeEEeccccc-ccH-HHHHHHHHHHHHhcCCCEEEEEeccccCCCCCCHH
Confidence 478999998764 5555444210 0 0001112222 233 4555556 3343 35677666654 2
Q ss_pred HHHHHHHHHHHHhhhCCCccc-EEEEcCCC
Q psy963 75 LVADRIRHTLDIRERSNQVYP-IVLEIPSA 103 (128)
Q Consensus 75 ~~a~~ir~~i~~~~~~~~~~P-~IveIPs~ 103 (128)
.+.+.++..++.++......+ +++.+|-.
T Consensus 72 ~~~~~~~~l~~~~~~~~p~~~vi~~~~~p~ 101 (174)
T cd01841 72 QFIKWYRDIIEQIREEFPNTKIYLLSVLPV 101 (174)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEEeeCCc
Confidence 356667777877763211223 44555543
No 18
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=56.28 E-value=47 Score=26.03 Aligned_cols=52 Identities=17% Similarity=0.195 Sum_probs=37.1
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--ehHHHHHHHHHHHHhhhCCCcccEEE
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLI--TRLVADRIRHTLDIRERSNQVYPIVL 98 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiI--te~~a~~ir~~i~~~~~~~~~~P~Iv 98 (128)
+.+.|...+++.+.+++++++.++++-+|+- +...+..+.+.+.+.+ .|.|.
T Consensus 45 l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~~~~~~~~~~~~~~-----ip~i~ 98 (343)
T PF13458_consen 45 LVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSAQAEAVAPIAEEAG-----IPYIS 98 (343)
T ss_dssp EEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHHHHHHHHHHHHHHT------EEEE
T ss_pred eeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcHHHHHHHHHHHhcC-----cEEEE
Confidence 4466667778999999999998788877765 4566777777777743 58877
No 19
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=55.89 E-value=84 Score=25.23 Aligned_cols=53 Identities=13% Similarity=0.079 Sum_probs=36.5
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--ehHHHHHHHHHHHHhhhCCCcccEEEE
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLI--TRLVADRIRHTLDIRERSNQVYPIVLE 99 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiI--te~~a~~ir~~i~~~~~~~~~~P~Ive 99 (128)
+++.|...+++...++++++++++++-+|+= +...+..+...++.+ ..|.|..
T Consensus 46 lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~-----~ip~i~~ 100 (347)
T cd06340 46 LVFGDSQGNPDIGATEAERLITEEGVVALVGAYQSAVTLAASQVAERY-----GVPFVVD 100 (347)
T ss_pred EEEecCCCCHHHHHHHHHHHhccCCceEEecccchHhHHHHHHHHHHh-----CCCEEec
Confidence 4566777778899999999998767766653 344556666666663 4687754
No 20
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=53.42 E-value=1.1e+02 Score=24.27 Aligned_cols=54 Identities=15% Similarity=0.084 Sum_probs=36.9
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--ehHHHHHHHHHHHHhhhCCCcccEEEE
Q psy963 41 NVFVVDKETPADEIEDAFRTLVRRTDVGIVLI--TRLVADRIRHTLDIRERSNQVYPIVLE 99 (128)
Q Consensus 41 ~~~v~~~~t~~eei~~~~~~l~~~~digIIiI--te~~a~~ir~~i~~~~~~~~~~P~Ive 99 (128)
.+.+.|...++..+.++.++|+.++.+-.|+= +...+..+....+. ...|.|-.
T Consensus 41 ~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~a~~~~~~~-----~~ip~i~~ 96 (350)
T cd06366 41 VLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQCSSVAEFVAEVANE-----WNVPVLSF 96 (350)
T ss_pred EEEecCCCCCHHHHHHHHHHHhccCCceEEECCCcHHHHHHHHHHhhc-----CCeeEEec
Confidence 35667777788999999999997767666664 34455566665555 34677664
No 21
>PRK06555 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated
Probab=53.27 E-value=51 Score=28.87 Aligned_cols=33 Identities=0% Similarity=0.057 Sum_probs=25.4
Q ss_pred EeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHH
Q psy963 44 VVDKETPADEIEDAFRTLVRRTDVGIVLITRLV 76 (128)
Q Consensus 44 v~~~~t~~eei~~~~~~l~~~~digIIiIte~~ 76 (128)
+-+.+.+.+++.+.+++.+++..++||+++|.+
T Consensus 237 IPE~~~~~e~~~~~ik~~~~~k~~~iIvVaEG~ 269 (403)
T PRK06555 237 LPEMAFDLEAEAERLKAVMDEVGNVNIFLSEGA 269 (403)
T ss_pred ccCCCCCHHHHHHHHHHHHHhCCCEEEEEeCCC
Confidence 334445567777888888878999999999886
No 22
>PRK08659 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated
Probab=50.11 E-value=42 Score=28.63 Aligned_cols=52 Identities=27% Similarity=0.342 Sum_probs=41.0
Q ss_pred ceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe
Q psy963 6 LQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT 73 (128)
Q Consensus 6 ~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt 73 (128)
++++.+-|++....|.+.+|++ |+.-.+=||..++.+.|.++..+ ++..++.
T Consensus 2 ~~~~~~~GNeAiA~ga~~ag~~--------------~~a~YPITPsTei~e~la~~~~~--~~~~~vq 53 (376)
T PRK08659 2 TKVDFLQGNEACAEGAIAAGCR--------------FFAGYPITPSTEIAEVMARELPK--VGGVFIQ 53 (376)
T ss_pred CceEEeehHHHHHHHHHHhCCC--------------EEEEcCCCChHHHHHHHHHhhhh--hCCEEEE
Confidence 3578899999999999999997 45556667889999999988754 5555554
No 23
>TIGR03336 IOR_alpha indolepyruvate ferredoxin oxidoreductase, alpha subunit. Indolepyruvate ferredoxin oxidoreductase (IOR) is an alpha 2/beta 2 tetramer related to ketoacid oxidoreductases for pyruvate (1.2.7.1, POR), 2-ketoglutarate (1.2.7.3, KOR), and 2-oxoisovalerate (1.2.7.7, VOR). These multi-subunit enzymes typically are found in anaerobes and are inactiviated by oxygen. IOR in Pyrococcus acts in fermentation of all three aromatic amino acids, following removal of the amino group by transamination. In Methanococcus maripaludis, by contrast, IOR acts in the opposite direction, in pathways of amino acid biosynthesis from phenylacetate, indoleacetate, and p-hydroxyphenylacetate. In M. maripaludis and many other species, iorA and iorB are found next to an apparent phenylacetate-CoA ligase.
Probab=49.95 E-value=45 Score=29.97 Aligned_cols=54 Identities=28% Similarity=0.345 Sum_probs=42.4
Q ss_pred EEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehH
Q psy963 8 LVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRL 75 (128)
Q Consensus 8 kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~ 75 (128)
|+.+-|++....|.+.+|++ |+.-.+=||..|+.+.|.+++.+.++-.+....+
T Consensus 2 ~~~~~GneA~A~g~~~ag~~--------------~~~~YPiTP~t~i~e~l~~~~~~~~~~~~~~~~E 55 (595)
T TIGR03336 2 KELLLGNEAIARGALEAGVG--------------VAAAYPGTPSSEITDTLAKVAKRAGVYFEWSVNE 55 (595)
T ss_pred ceeecHHHHHHHHHHHcCCE--------------EEEecCCCCHHHHHHHHHHhhhhccEEEEECcCH
Confidence 56789999999999999996 5555667788999999999886665555555544
No 24
>PF04536 TPM: TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; InterPro: IPR007621 This is a family of uncharacterised proteins. They are found in both eukarya and eubacteria. In eubacteria the region is towards the N-terminal of the protein and is accompanied by an N-terminal signal sequence. The C-terminal of eubacterial proteins typically contains one or more putative transmembrane regions. In eukaryotes the region is not accompanied by a signal sequence.; PDB: 3PTJ_A 3PW9_A 3PVH_A 2KPT_A 2KW7_A.
Probab=49.79 E-value=36 Score=23.07 Aligned_cols=27 Identities=26% Similarity=0.445 Sum_probs=9.3
Q ss_pred HHHHHHHHHHhhhCCCcccEEEEcCCC
Q psy963 77 ADRIRHTLDIRERSNQVYPIVLEIPSA 103 (128)
Q Consensus 77 a~~ir~~i~~~~~~~~~~P~IveIPs~ 103 (128)
.+.+.+.+.++....+..-.|+.+|+.
T Consensus 7 ~~~l~~~l~~~~~~t~~~i~Vvtv~~~ 33 (119)
T PF04536_consen 7 RERLNQALAKLEKKTGVQIVVVTVPSL 33 (119)
T ss_dssp HHHHHHHHHHHHHHC--EEEEEEESB-
T ss_pred HHHHHHHHHHHHHhhCCEEEEEEEcCC
Confidence 333444444433322222334444443
No 25
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=49.70 E-value=1.3e+02 Score=23.87 Aligned_cols=73 Identities=19% Similarity=0.254 Sum_probs=45.8
Q ss_pred hhhHHHHHhh--------CccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--ehHHHHHHHHHH
Q psy963 15 EDSVVGFLLG--------GIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLI--TRLVADRIRHTL 84 (128)
Q Consensus 15 ~dtv~GFrLa--------Gi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiI--te~~a~~ir~~i 84 (128)
++...|++|+ |+.|. + -.+.+.|....++.+.++.++|+.++.+-+|+= +...+..+....
T Consensus 17 ~~~~~g~~~a~~~iNa~ggi~G~----~-----v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~~a~~~~~ 87 (344)
T cd06348 17 QEQLAGLKLAEDRFNQAGGVNGR----P-----IKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQAFAADPIA 87 (344)
T ss_pred HhHHHHHHHHHHHHhhcCCcCCc----E-----EEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHHHhhhHHH
Confidence 4677788875 56552 1 135677777788999999999997666655542 223334444444
Q ss_pred HHhhhCCCcccEEEEcC
Q psy963 85 DIRERSNQVYPIVLEIP 101 (128)
Q Consensus 85 ~~~~~~~~~~P~IveIP 101 (128)
++ ...|.|..-.
T Consensus 88 ~~-----~~ip~i~~~~ 99 (344)
T cd06348 88 ER-----AGVPVVGPSN 99 (344)
T ss_pred Hh-----CCCCEEeccC
Confidence 33 4578886543
No 26
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=48.21 E-value=39 Score=28.57 Aligned_cols=49 Identities=22% Similarity=0.276 Sum_probs=38.5
Q ss_pred EEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE
Q psy963 8 LVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLI 72 (128)
Q Consensus 8 kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiI 72 (128)
++.+.|++....|.+.+|++ |+.-.+=||.-++.+.|.++.. +++.+++
T Consensus 4 ~~~~~GNeAiA~ga~~ag~~--------------~~a~YPiTPsTeI~e~la~~~~--~~~~~~v 52 (352)
T PRK07119 4 KVLMKGNEAIAEAAIRAGCR--------------CYFGYPITPQSEIPEYMSRRLP--EVGGVFV 52 (352)
T ss_pred eeeehHHHHHHHHHHHhCCC--------------EEEEeCCCCchHHHHHHHHHHH--HhCCEEE
Confidence 67899999999999999997 4545556777899999998875 4544553
No 27
>PF00549 Ligase_CoA: CoA-ligase; InterPro: IPR005811 This entry represents a domain found in both the alpha and beta chains of succinyl-CoA synthase (6.2.1.4 from EC (GDP-forming) and 6.2.1.5 from EC (ADP-forming)) [, ]. This domain can also be found in ATP citrate synthase (2.3.3.8 from EC) and malate-CoA ligase (6.2.1.9 from EC). Some members of the domain utilise ATP others use GTP.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3DMY_B 3MWE_B 3PFF_A 3MWD_B 2YV1_A 1EUC_A 2FP4_A 1EUD_A 2FPI_A 2FPG_A ....
Probab=48.13 E-value=53 Score=24.81 Aligned_cols=56 Identities=11% Similarity=0.183 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHhcCCCeEEEEEehH-----HHHHHHHHHHHhhhC---CCcccEEEEcCCCCCC
Q psy963 51 ADEIEDAFRTLVRRTDVGIVLITRL-----VADRIRHTLDIRERS---NQVYPIVLEIPSALDA 106 (128)
Q Consensus 51 ~eei~~~~~~l~~~~digIIiIte~-----~a~~ir~~i~~~~~~---~~~~P~IveIPs~~g~ 106 (128)
++...++|..+.+++++++|++.=. ..+.....+..++.. +...|+|+.+=+.+..
T Consensus 58 ~~~~~~~l~~~~~Dp~v~vIlvd~~~G~g~~~~~A~~l~~a~~~~~~~~~~~pvVa~v~GT~~d 121 (153)
T PF00549_consen 58 PSTRNEALEIEAADPEVKVILVDIVGGIGSCEDPAAGLIPAIKEAKAEGRKKPVVARVCGTNAD 121 (153)
T ss_dssp SSHHHHHHHHHHTSTTESEEEEEEESSSSSHHHHHHHHHHHHSHCTHTTT-SEEEEEEESTTCH
T ss_pred HHHHHHHHHHHhcCCCccEEEEEeccccCchHHHHHHHHHHHHhccccCCCCcEEEEeeeecCC
Confidence 4788999999999999999999833 233333444444432 2567999999765553
No 28
>PRK08367 porA pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=47.77 E-value=49 Score=28.55 Aligned_cols=84 Identities=15% Similarity=0.113 Sum_probs=58.8
Q ss_pred eEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--hHH--------
Q psy963 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--RLV-------- 76 (128)
Q Consensus 7 ~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--e~~-------- 76 (128)
.++.+-|++....|.+.||++ |+.-.+=||.-++.+.+.+++.+.+++..++. ...
T Consensus 3 ~~~~~~GNeAvA~aa~~Ag~~--------------v~a~YPITPsTei~e~la~~~~~g~~~~~~v~~EsE~aA~~~~~G 68 (394)
T PRK08367 3 IRTVMKANEAAAWAAKLAKPK--------------VIAAFPITPSTLVPEKISEFVANGELDAEFIKVESEHSAISACVG 68 (394)
T ss_pred eeEeccHHHHHHHHHHHhCCC--------------EEEEECCCCccHHHHHHHHHhhcCCcCeEEEEeCCHHHHHHHHHH
Confidence 367899999999999999997 34445556778999999999986677777776 221
Q ss_pred ----------------HHHHHHHHHHhhhCCCcccEEEEcCCCCCC
Q psy963 77 ----------------ADRIRHTLDIRERSNQVYPIVLEIPSALDA 106 (128)
Q Consensus 77 ----------------a~~ir~~i~~~~~~~~~~P~IveIPs~~g~ 106 (128)
.....+.+-..- ....|+|+.+..+..+
T Consensus 69 As~aGaRa~TaTS~~Gl~lm~E~l~~aa--g~~lP~V~vv~~R~~~ 112 (394)
T PRK08367 69 ASAAGVRTFTATASQGLALMHEVLFIAA--GMRLPIVMAIGNRALS 112 (394)
T ss_pred HHhhCCCeEeeeccchHHHHhhHHHHHH--HccCCEEEEECCCCCC
Confidence 112333343333 2678999998665543
No 29
>cd01833 XynB_like SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=46.47 E-value=61 Score=22.71 Aligned_cols=38 Identities=26% Similarity=0.347 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhc--CCCeEEEEEe----------hHHHHHHHHHHHHhhh
Q psy963 52 DEIEDAFRTLVR--RTDVGIVLIT----------RLVADRIRHTLDIRER 89 (128)
Q Consensus 52 eei~~~~~~l~~--~~digIIiIt----------e~~a~~ir~~i~~~~~ 89 (128)
.++.+.+.+.+. +.|+-||.+. +...+.++..++.++.
T Consensus 26 ~~~~~~~~~~~~~~~pd~vvi~~G~ND~~~~~~~~~~~~~~~~~i~~i~~ 75 (157)
T cd01833 26 DQIAAAAADWVLAAKPDVVLLHLGTNDLVLNRDPDTAPDRLRALIDQMRA 75 (157)
T ss_pred HHHHHHhhhccccCCCCEEEEeccCcccccCCCHHHHHHHHHHHHHHHHH
Confidence 566666655554 4455555443 2346777778887773
No 30
>PRK09627 oorA 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed
Probab=45.92 E-value=62 Score=27.72 Aligned_cols=52 Identities=17% Similarity=0.148 Sum_probs=40.0
Q ss_pred EEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe
Q psy963 8 LVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT 73 (128)
Q Consensus 8 kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt 73 (128)
++.+.|++....|...+|++ |+.-.+=||..|+.+.|.++..+-+..++-..
T Consensus 3 ~~~~~GNeAiA~ga~~ag~~--------------~~a~YPITPsTeI~e~la~~~~~~g~~~vq~E 54 (375)
T PRK09627 3 EIISTGNELVAKAAIECGCR--------------FFGGYPITPSSEIAHEMSVLLPKCGGTFIQME 54 (375)
T ss_pred ceEechHHHHHHHHHHhCCC--------------EEEEeCCCChhHHHHHHHHHHHHcCCEEEEcC
Confidence 67889999999999999997 55556677778999999988765443334333
No 31
>TIGR03710 OAFO_sf 2-oxoacid:acceptor oxidoreductase, alpha subunit. The genes for this enzyme in Prevotella intermedia 17, Persephonella marina EX-H1 and Picrophilus torridus DSM 9790 are in close proximity to a variety of TCA cycle genes. Persephonella marina and P. torridus are believed to encode complete TCA cycles, and none of these contains the lipoate-based 2-oxoglutarate dehydrogenase (E1/E2/E3) system. That system is presumed to be replaced by this one. In fact, the lipoate system is absent in most organisms possessing a member of this family, providing additional circumstantial evidence that many of these enzymes are capable of acting as 2-oxoglutarate dehydrogenases and supporting flux through TCA cycles in either the forward or reverse directions.
Probab=43.55 E-value=83 Score=28.26 Aligned_cols=85 Identities=16% Similarity=0.213 Sum_probs=57.1
Q ss_pred ceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHH--------
Q psy963 6 LQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVA-------- 77 (128)
Q Consensus 6 ~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a-------- 77 (128)
..++.+-|++....|.+.||++ |+.-.+=||..|+.+.|.++..+-++-++-...+.+
T Consensus 191 ~~~~~l~GNeAvA~ga~~ag~~--------------~~~~YPiTPsTei~e~la~~~~~~~~~~~q~E~E~aA~~~a~GA 256 (562)
T TIGR03710 191 GDRILISGNEAIALGAIAAGLR--------------FYAAYPITPASDILEFLAKHLKKFGVVVVQAEDEIAAINMAIGA 256 (562)
T ss_pred CcEEEeehHHHHHHHHHHhCCc--------------eecccCCCChhHHHHHHHHhhhhhCcEEEeeccHHHHHHHHHhH
Confidence 4568899999999999999997 444455677789999999887654444443333321
Q ss_pred ----------------HHHHHHHHHhhhCCCcccEEEEcCCCCCC
Q psy963 78 ----------------DRIRHTLDIRERSNQVYPIVLEIPSALDA 106 (128)
Q Consensus 78 ----------------~~ir~~i~~~~~~~~~~P~IveIPs~~g~ 106 (128)
....+.+.-.- ....|+||..=++.|+
T Consensus 257 s~aG~Ra~taTSg~Gl~lm~E~l~~a~--~~~~P~Vi~~~~R~gp 299 (562)
T TIGR03710 257 SYAGARAMTATSGPGFALMTEALGLAG--MTETPLVIVDVQRGGP 299 (562)
T ss_pred HhcCCceeecCCCCChhHhHHHHhHHH--hccCCEEEEEcccCCC
Confidence 12333332222 1557999999888765
No 32
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=42.55 E-value=80 Score=22.11 Aligned_cols=48 Identities=23% Similarity=0.219 Sum_probs=27.1
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehH--HHHHHHHHHHHhhhCCCcccEEEEcCC
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRL--VADRIRHTLDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~--~a~~ir~~i~~~~~~~~~~P~IveIPs 102 (128)
+++...++ +..+++-|+++-+ ..+...+.++..+..+...|+.+-...
T Consensus 27 dd~~~~i~---~~~~i~avvi~~d~~~~~~~~~ll~~i~~~~~~iPVFl~~~~ 76 (115)
T PF03709_consen 27 DDALAIIE---SFTDIAAVVISWDGEEEDEAQELLDKIRERNFGIPVFLLAER 76 (115)
T ss_dssp HHHHHHHH---CTTTEEEEEEECHHHHHHHHHHHHHHHHHHSTT-EEEEEESC
T ss_pred HHHHHHHH---hCCCeeEEEEEcccccchhHHHHHHHHHHhCCCCCEEEEecC
Confidence 55555444 5678999999933 122222333333333478998887663
No 33
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=40.98 E-value=47 Score=23.48 Aligned_cols=49 Identities=22% Similarity=0.329 Sum_probs=34.1
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEEcCC
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~IveIPs 102 (128)
++..+.++++.+..--|+++-+.+..+.+.+++-++-.+ ..+|+| +||.
T Consensus 59 ~~~~~~i~~L~~~~~agL~i~~~~~~~~iP~~~i~~A~~-~~lPli-~ip~ 107 (123)
T PF07905_consen 59 EELREFIRELAEKGAAGLGIKTGRYLDEIPEEIIELADE-LGLPLI-EIPW 107 (123)
T ss_pred HHHHHHHHHHHHCCCeEEEEeccCccccCCHHHHHHHHH-cCCCEE-EeCC
Confidence 568999999998888888887765555665544444332 667864 6776
No 34
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=40.81 E-value=48 Score=23.36 Aligned_cols=53 Identities=13% Similarity=0.094 Sum_probs=26.3
Q ss_pred HHHHHh---cCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHh
Q psy963 57 AFRTLV---RRTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRN 120 (128)
Q Consensus 57 ~~~~l~---~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~ 120 (128)
.+..+. ..-|+.+|++.......+=+++.+. ....++.+|+ ...+.+.+++++
T Consensus 45 ~y~sl~e~p~~iDlavv~~~~~~~~~~v~~~~~~-----g~~~v~~~~g------~~~~~~~~~a~~ 100 (116)
T PF13380_consen 45 CYPSLAEIPEPIDLAVVCVPPDKVPEIVDEAAAL-----GVKAVWLQPG------AESEELIEAARE 100 (116)
T ss_dssp -BSSGGGCSST-SEEEE-S-HHHHHHHHHHHHHH-----T-SEEEE-TT------S--HHHHHHHHH
T ss_pred eeccccCCCCCCCEEEEEcCHHHHHHHHHHHHHc-----CCCEEEEEcc------hHHHHHHHHHHH
Confidence 555555 3568888888866443333333332 2568999998 233555566665
No 35
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=40.47 E-value=86 Score=23.39 Aligned_cols=60 Identities=17% Similarity=0.186 Sum_probs=38.2
Q ss_pred ccceEEEEEechhhHHHH----HhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHH
Q psy963 4 EVLQLVGLIGDEDSVVGF----LLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADR 79 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GF----rLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ 79 (128)
....+||++|-+..+.++ .+.|++= ..|.+.+ .+|++..++++. ++++.+|+=.....+.
T Consensus 75 ~~~~~Iavv~~~~~~~~~~~~~~ll~~~i-----------~~~~~~~----~~e~~~~i~~~~-~~G~~viVGg~~~~~~ 138 (176)
T PF06506_consen 75 KYGPKIAVVGYPNIIPGLESIEELLGVDI-----------KIYPYDS----EEEIEAAIKQAK-AEGVDVIVGGGVVCRL 138 (176)
T ss_dssp CCTSEEEEEEESS-SCCHHHHHHHHT-EE-----------EEEEESS----HHHHHHHHHHHH-HTT--EEEESHHHHHH
T ss_pred hcCCcEEEEecccccHHHHHHHHHhCCce-----------EEEEECC----HHHHHHHHHHHH-HcCCcEEECCHHHHHH
Confidence 455899999987776554 4567753 2355544 499999999988 4668887766655433
No 36
>PF01168 Ala_racemase_N: Alanine racemase, N-terminal domain; InterPro: IPR001608 Alanine racemase plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine. Proteins containing this domain are found in both prokaryotes and eukaryotes [,]. The molecular structure of alanine racemase from Bacillus stearothermophilus was determined by X-ray crystallography to a resolution of 1.9 A []. The alanine racemase monomer is composed of two domains, an eight-stranded alpha/beta barrel at the N terminus, and a C-terminal domain essentially composed of beta-strands. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the mouth of the alpha/beta barrel and is covalently linked via an aldimine linkage to a lysine residue, which is at the C terminus of the first beta-strand of the alpha/beta barrel. This domain is also found in the PROSC (proline synthetase co-transcribed bacterial homolog) family of proteins, which are not known to have alanine racemase activity.; PDB: 3KW3_A 1B54_A 1CT5_A 2ODO_B 2RJG_A 3B8V_D 2RJH_D 3B8T_D 3B8W_B 3B8U_A ....
Probab=40.39 E-value=1.3e+02 Score=22.59 Aligned_cols=65 Identities=9% Similarity=0.157 Sum_probs=48.5
Q ss_pred HHHHhcCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhccCCC
Q psy963 58 FRTLVRRTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIATLPK 126 (128)
Q Consensus 58 ~~~l~~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~~~~~ 126 (128)
+..+++. ++-+.+=+...++.+.+...+.. ...++.|.|=...+..|-..+.+.+.++.+..+|.
T Consensus 79 ~~~~~~~-~~~~~v~s~~~~~~l~~~~~~~~---~~~~v~l~vdtG~~R~G~~~~~~~~l~~~i~~~~~ 143 (218)
T PF01168_consen 79 LEELVEY-NIIPTVDSLEQLEALSKAAKKQG---KPLKVHLKVDTGMGRLGVRPEELEELAEAIKALPN 143 (218)
T ss_dssp HHHHHHT-TEEEEE-SHHHHHHHHHHHHHHT---STEEEEEEBESSSSSSSBECHHHHHHHHHHHHTTT
T ss_pred HHHHhhC-cEEEEEchhhHHHHHHHHHHHcC---CceEEEEeecccccccCCCHHHHHHHHHHHhcCCC
Confidence 3334444 77777777778888888777654 77899999988888887787888888888887663
No 37
>PF09612 HtrL_YibB: Bacterial protein of unknown function (HtrL_YibB); InterPro: IPR011735 The protein from this rare, uncharacterised protein family is designated HtrL or YibB in Escherichia coli, where its gene is found in a region of LPS core biosynthesis genes []. Homologs are found in Shigella flexneri, Campylobacter jejuni, and Caenorhabditis elegans only. The htrL gene may represent an insertion to the LPS core biosynthesis region, rather than an LPS biosynthetic protein.
Probab=39.40 E-value=1e+02 Score=25.63 Aligned_cols=54 Identities=7% Similarity=0.024 Sum_probs=42.8
Q ss_pred CHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccE-EEEcCCCCC
Q psy963 50 PADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRERSNQVYPI-VLEIPSALD 105 (128)
Q Consensus 50 ~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~-IveIPs~~g 105 (128)
+.+.-.+-|+.+++=+..=||+.++..++.+++.-.++.+ ...|. |+.++=+.-
T Consensus 25 ~~~~Y~~yf~~la~L~N~mVIfTd~~~~e~I~~iR~~~~L--~~Ktt~Ii~~dl~~~ 79 (271)
T PF09612_consen 25 TNETYFEYFEFLAKLKNNMVIFTDESSKEFIKKIRKKHGL--EDKTTVIITIDLKDF 79 (271)
T ss_pred cHHHHHHHHHHHHhhcCCEEEEEChHHHHHHHHHHHhcCc--CCCceEEEEecHHHh
Confidence 3478888899999878889999999999999998887776 35676 777765443
No 38
>PLN03194 putative disease resistance protein; Provisional
Probab=38.53 E-value=79 Score=24.98 Aligned_cols=49 Identities=22% Similarity=0.412 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehHHHH--HHHHHHHHhhhC-CCcccEEEEc
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRLVAD--RIRHTLDIRERS-NQVYPIVLEI 100 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~~a~--~ir~~i~~~~~~-~~~~P~IveI 100 (128)
+.+...+.+.++...++|++++++.++ ...+++...... ...+|+...+
T Consensus 68 ~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~~I~e~~~~ViPIFY~V 119 (187)
T PLN03194 68 DKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELALIMESKKRVIPIFCDV 119 (187)
T ss_pred CcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHHHHHHcCCEEEEEEecC
Confidence 566667777788889999999998765 455555555422 1244444444
No 39
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=38.31 E-value=2.1e+02 Score=23.30 Aligned_cols=70 Identities=10% Similarity=0.027 Sum_probs=43.3
Q ss_pred hhhHHHHHhh--------CccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEeh--HHHHHHHHHH
Q psy963 15 EDSVVGFLLG--------GIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITR--LVADRIRHTL 84 (128)
Q Consensus 15 ~dtv~GFrLa--------Gi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte--~~a~~ir~~i 84 (128)
.+...|++|+ ||.|.. =.+++.|...+++...++.++|+.++++.+|+ .- .....+.+.+
T Consensus 17 ~~~~~g~~la~~~iNa~GGI~Gr~---------ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~~~a~~~~~ 86 (351)
T cd06334 17 IPYAAGFADYFKYINEDGGINGVK---------LEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGITEALIPKI 86 (351)
T ss_pred hhHHHHHHHHHHHHHHcCCcCCeE---------EEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHHHHHhhHHH
Confidence 4466777764 665521 12456677778899999999999876766543 32 2233344444
Q ss_pred HHhhhCCCcccEEEE
Q psy963 85 DIRERSNQVYPIVLE 99 (128)
Q Consensus 85 ~~~~~~~~~~P~Ive 99 (128)
++ ...|+|..
T Consensus 87 ~~-----~~vp~i~~ 96 (351)
T cd06334 87 AA-----DKIPLMSG 96 (351)
T ss_pred hh-----cCCcEEec
Confidence 44 45687764
No 40
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=37.60 E-value=2.2e+02 Score=23.12 Aligned_cols=93 Identities=11% Similarity=0.119 Sum_probs=51.8
Q ss_pred echhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEE-EEehHH-HHHHHHHHHHhhhC
Q psy963 13 GDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIV-LITRLV-ADRIRHTLDIRERS 90 (128)
Q Consensus 13 gD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digII-iIte~~-a~~ir~~i~~~~~~ 90 (128)
|-+.++-=+.=+|++| +.+.|- |.||..+.++.+. +.++..| +++... .++++...+. -
T Consensus 107 G~e~F~~~~~~aGvdg-------------viipDL--P~ee~~~~~~~~~-~~gi~~I~lv~PtT~~eri~~i~~~-a-- 167 (263)
T CHL00200 107 GINKFIKKISQAGVKG-------------LIIPDL--PYEESDYLISVCN-LYNIELILLIAPTSSKSRIQKIARA-A-- 167 (263)
T ss_pred CHHHHHHHHHHcCCeE-------------EEecCC--CHHHHHHHHHHHH-HcCCCEEEEECCCCCHHHHHHHHHh-C--
Confidence 4456677778899987 466665 5688877666554 4555544 445444 4566654333 2
Q ss_pred CCcccEEEEcCCCCCCCCCCCchHH---HHHHhhccCC
Q psy963 91 NQVYPIVLEIPSALDAFHYTITDED---KQCRNIATLP 125 (128)
Q Consensus 91 ~~~~P~IveIPs~~g~~~~~~~~i~---k~~~~~~~~~ 125 (128)
..+=-+|..|+..|....-.+.+. +.+|.+..+|
T Consensus 168 -~gFIY~vS~~GvTG~~~~~~~~~~~~i~~ir~~t~~P 204 (263)
T CHL00200 168 -PGCIYLVSTTGVTGLKTELDKKLKKLIETIKKMTNKP 204 (263)
T ss_pred -CCcEEEEcCCCCCCCCccccHHHHHHHHHHHHhcCCC
Confidence 223345566777775322223344 4444444444
No 41
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=37.55 E-value=2e+02 Score=22.62 Aligned_cols=86 Identities=14% Similarity=0.141 Sum_probs=47.5
Q ss_pred EEEEEec----hhhHHHHHhhCccccccCCCCccccc-eEEEeCCC-CCHHHHHHHHHHHhcCCCeEEEE--EehHHHHH
Q psy963 8 LVGLIGD----EDSVVGFLLGGIGHQTITPPLQTVTS-NVFVVDKE-TPADEIEDAFRTLVRRTDVGIVL--ITRLVADR 79 (128)
Q Consensus 8 kIaVIgD----~dtv~GFrLaGi~~~~~~~~~~~~~~-~~~v~~~~-t~~eei~~~~~~l~~~~digIIi--Ite~~a~~ 79 (128)
+|+.|-+ .....||+|| |+.++.+.....|.+ .+.+.+.. .++.++.++..+++.+ ++..|+ .+...+..
T Consensus 1 ~iG~i~~~~~g~~~~~a~~lA-v~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~-~V~aiiG~~~S~~~~a 78 (327)
T cd06382 1 RIGAIFDDDDDSGEELAFRYA-IDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQ-GVAAIFGPSSSEASSI 78 (327)
T ss_pred CeEEEecCCCchHHHHHHHHH-HHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhc-CcEEEECCCChhHHHH
Confidence 3566644 7778899887 344433221111111 23344433 4567888889999865 555555 23445555
Q ss_pred HHHHHHHhhhCCCcccEEEEc
Q psy963 80 IRHTLDIRERSNQVYPIVLEI 100 (128)
Q Consensus 80 ir~~i~~~~~~~~~~P~IveI 100 (128)
+.+..+. ...|.|-.-
T Consensus 79 v~~~~~~-----~~vP~Is~~ 94 (327)
T cd06382 79 VQSICDA-----KEIPHIQTR 94 (327)
T ss_pred HHHHHhc-----cCCCceecc
Confidence 5555555 346877643
No 42
>cd07019 S49_SppA_1 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppAs in this subfamily are found in all three domains of life and are involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-te
Probab=36.36 E-value=1.8e+02 Score=22.29 Aligned_cols=52 Identities=17% Similarity=0.195 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHhcCCCeEEEEEehH-------HHHHHHHHHHHhhhCCCcccEEEEcCCCC
Q psy963 51 ADEIEDAFRTLVRRTDVGIVLITRL-------VADRIRHTLDIRERSNQVYPIVLEIPSAL 104 (128)
Q Consensus 51 ~eei~~~~~~l~~~~digIIiIte~-------~a~~ir~~i~~~~~~~~~~P~IveIPs~~ 104 (128)
-+++.++|+++.+++++..|+++-. -.+.+++.+..++. ...|+|..+-+.-
T Consensus 23 ~~~l~~~l~~a~~d~~v~~ivL~~~s~Gg~~~~~~~~~~~l~~~~~--~~kpVia~v~g~a 81 (211)
T cd07019 23 GDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARA--AGKPVVVSAGGAA 81 (211)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEEcCCCcCHHHHHHHHHHHHHHHh--CCCCEEEEECCee
Confidence 4799999999999999988888622 23456677777663 5679999987653
No 43
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=35.82 E-value=1.6e+02 Score=23.97 Aligned_cols=45 Identities=11% Similarity=0.094 Sum_probs=32.5
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--hHHHHHHHHHHHH
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--RLVADRIRHTLDI 86 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--e~~a~~ir~~i~~ 86 (128)
+++.|...+++...++.++|+.++++-.|+=. ...+..+...+++
T Consensus 43 lv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~~a~~~~~~~ 89 (360)
T cd06357 43 PVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSRKAVLPVVER 89 (360)
T ss_pred EEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHHHHHHHHHHh
Confidence 56777777889999999999988888777733 3334455555555
No 44
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=35.75 E-value=82 Score=25.18 Aligned_cols=84 Identities=18% Similarity=0.303 Sum_probs=54.6
Q ss_pred eEEEEEechhhHHHHHhhCccccccCCCCccc----cceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHH-HHHHH
Q psy963 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTV----TSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLV-ADRIR 81 (128)
Q Consensus 7 ~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~----~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~-a~~ir 81 (128)
+++.+||.-..|.-....-|...+ .|...| .++.+++.. |++.++.+....-+-+||+++.-.+ --+|-
T Consensus 84 KRvIiiGGGAqVsqVA~GAIsEAD--RHNiRGERISvDTiPlVGE----E~laEAVkAV~rLpRv~iLVLAGslMGGkIt 157 (218)
T COG1707 84 KRVIIIGGGAQVSQVARGAISEAD--RHNIRGERISVDTIPLVGE----EELAEAVKAVARLPRVGILVLAGSLMGGKIT 157 (218)
T ss_pred cEEEEECCchhHHHHHHhhcchhh--hcccccceeeeecccccCh----HHHHHHHHHHhccccceeEEEecccccchHH
Confidence 567777776666555444443211 111111 234455565 8999999988888889999998775 45677
Q ss_pred HHHHHhhhCCCcccEE
Q psy963 82 HTLDIRERSNQVYPIV 97 (128)
Q Consensus 82 ~~i~~~~~~~~~~P~I 97 (128)
+.+.+++.+ ...|+|
T Consensus 158 eaVk~lr~~-hgI~VI 172 (218)
T COG1707 158 EAVKELREE-HGIPVI 172 (218)
T ss_pred HHHHHHHHh-cCCeEE
Confidence 778888765 667765
No 45
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=34.64 E-value=1.3e+02 Score=19.39 Aligned_cols=69 Identities=10% Similarity=0.048 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhcC-CCeEEEEEehHHHHHHHHHHHHhhhC-CCcccEEEEcCCCCCCCCCCCchHHHHHHhhccC
Q psy963 52 DEIEDAFRTLVRR-TDVGIVLITRLVADRIRHTLDIRERS-NQVYPIVLEIPSALDAFHYTITDEDKQCRNIATL 124 (128)
Q Consensus 52 eei~~~~~~l~~~-~digIIiIte~~a~~ir~~i~~~~~~-~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~~~ 124 (128)
..+.+.|+++... .++....+.-..-..-++++.++... ....|.|+ |-++. -.+-+.+.++.++..+|
T Consensus 15 ~~a~~~L~~l~~~~~~i~~~~idi~~~~~~~~el~~~~~~~~~~vP~if-i~g~~---igg~~~~~~~~~~~~~~ 85 (85)
T PRK11200 15 VRAKELAEKLSEERDDFDYRYVDIHAEGISKADLEKTVGKPVETVPQIF-VDQKH---IGGCTDFEAYVKENLGL 85 (85)
T ss_pred HHHHHHHHhhcccccCCcEEEEECCCChHHHHHHHHHHCCCCCcCCEEE-ECCEE---EcCHHHHHHHHHHhccC
Confidence 6788888887643 46666655433211123334444311 14679876 54433 34668888888887665
No 46
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=33.97 E-value=1.3e+02 Score=21.97 Aligned_cols=54 Identities=19% Similarity=0.292 Sum_probs=35.8
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehH--HHH--HHHHHHHHhhhCCCcccEEEEcCCCCC
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRL--VAD--RIRHTLDIRERSNQVYPIVLEIPSALD 105 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~--~a~--~ir~~i~~~~~~~~~~P~IveIPs~~g 105 (128)
+.+.+.+.+-...++-.||+||.- ++- +....++.+...-...|+|+.-|+.-.
T Consensus 47 ~~i~~~i~~~~~~~~~~vv~ltGvG~l~P~~R~h~lL~~l~~~~~~~plv~FyPG~y~ 104 (126)
T PF08747_consen 47 EKIAEYIQEELEDDDRDVVFLTGVGSLFPFIRSHELLNNLQPKFGNVPLVVFYPGEYD 104 (126)
T ss_pred HHHHHHHHHhccCCCCcEEEEeCcchhcchhhHHHHHHHHHHHhcCCeEEEECCceec
Confidence 666677776655667788999954 322 344466666543246899999998654
No 47
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=33.88 E-value=2.6e+02 Score=22.69 Aligned_cols=55 Identities=13% Similarity=0.311 Sum_probs=33.9
Q ss_pred hhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEE-EehHH-HHHHHHHHHH
Q psy963 15 EDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVL-ITRLV-ADRIRHTLDI 86 (128)
Q Consensus 15 ~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIi-Ite~~-a~~ir~~i~~ 86 (128)
+.++-=.+=+|+.| ..+.| -+.||+++.++.+. ..++..|+ ++... .++++. +.+
T Consensus 107 e~f~~~~~~aGvdG-------------viipD--Lp~ee~~~~~~~~~-~~gl~~I~lvap~t~~eri~~-i~~ 163 (258)
T PRK13111 107 ERFAADAAEAGVDG-------------LIIPD--LPPEEAEELRAAAK-KHGLDLIFLVAPTTTDERLKK-IAS 163 (258)
T ss_pred HHHHHHHHHcCCcE-------------EEECC--CCHHHHHHHHHHHH-HcCCcEEEEeCCCCCHHHHHH-HHH
Confidence 34445556788987 45644 36788888777665 45666665 66665 355554 444
No 48
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=33.88 E-value=97 Score=21.87 Aligned_cols=51 Identities=22% Similarity=0.359 Sum_probs=32.8
Q ss_pred HHHHHHHHHhcCCCeEEEEEehHH--HHHHHHHHHHhhhCCCcccEE-EEcCCCCC
Q psy963 53 EIEDAFRTLVRRTDVGIVLITRLV--ADRIRHTLDIRERSNQVYPIV-LEIPSALD 105 (128)
Q Consensus 53 ei~~~~~~l~~~~digIIiIte~~--a~~ir~~i~~~~~~~~~~P~I-veIPs~~g 105 (128)
.+.+.+++-++..++-||+++.+. ...++.||+.-.. ...|+| |-+|+..+
T Consensus 59 ~ik~~I~~~i~~s~~~IVLig~~T~~s~wV~~EI~~A~~--~~~~Ii~V~~~~~~~ 112 (130)
T PF08937_consen 59 YIKRKIRERIKNSSVTIVLIGPNTAKSKWVNWEIEYALK--KGKPIIGVYLPGLKD 112 (130)
T ss_dssp THHHHHHHHHHTEEEEEEE--TT----HHHHHHHHHHTT--T---EEEEETT--SG
T ss_pred HHHHHHHHHHhcCCEEEEEeCCCcccCcHHHHHHHHHHH--CCCCEEEEECCCCCC
Confidence 688999999999999999999886 6678888887552 677855 55555544
No 49
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=33.40 E-value=1.6e+02 Score=20.11 Aligned_cols=55 Identities=13% Similarity=0.073 Sum_probs=31.1
Q ss_pred CCCCCHHHHHHHHHHHhcCCCeEEEEEe-hHHHHHHHHHHHHhhhCCCccc--EEEEcCCCCC
Q psy963 46 DKETPADEIEDAFRTLVRRTDVGIVLIT-RLVADRIRHTLDIRERSNQVYP--IVLEIPSALD 105 (128)
Q Consensus 46 ~~~t~~eei~~~~~~l~~~~digIIiIt-e~~a~~ir~~i~~~~~~~~~~P--~IveIPs~~g 105 (128)
...++.+++.+++.+. +.|+-.|-.+ ..-...+++.++.++.. .| ..+-+.+..-
T Consensus 34 g~~~~~~~l~~~~~~~--~pdvV~iS~~~~~~~~~~~~~i~~l~~~---~~~~~~i~vGG~~~ 91 (119)
T cd02067 34 GVDVPPEEIVEAAKEE--DADAIGLSGLLTTHMTLMKEVIEELKEA---GLDDIPVLVGGAIV 91 (119)
T ss_pred CCCCCHHHHHHHHHHc--CCCEEEEeccccccHHHHHHHHHHHHHc---CCCCCeEEEECCCC
Confidence 3556778877776643 4454333333 44567777777777743 33 4455555443
No 50
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=33.19 E-value=2.7e+02 Score=22.82 Aligned_cols=87 Identities=7% Similarity=-0.006 Sum_probs=49.4
Q ss_pred cceEEEEEec---------hhhHHHHHhhCccccccCCCCccccc-eEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe-
Q psy963 5 VLQLVGLIGD---------EDSVVGFLLGGIGHQTITPPLQTVTS-NVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT- 73 (128)
Q Consensus 5 ~~~kIaVIgD---------~dtv~GFrLaGi~~~~~~~~~~~~~~-~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt- 73 (128)
..-+|++++. .+...|++++ ++.++.... +.|.+ .+++.|...+++...++.++|++ +++-.|+-.
T Consensus 24 ~~I~IG~l~plSG~~a~~G~~~~~g~~~a-v~~iNa~GG-i~G~~ielv~~D~~~~p~~a~~~~~~Li~-~~V~~iiG~~ 100 (369)
T PRK15404 24 DDIKIAIVGPMSGPVAQYGDMEFTGARQA-IEDINAKGG-IKGDKLEGVEYDDACDPKQAVAVANKVVN-DGIKYVIGHL 100 (369)
T ss_pred CceEEEEeecCCCcchhcCHhHHHHHHHH-HHHHHhcCC-CCCeEEEEEeecCCCCHHHHHHHHHHHHh-CCceEEEcCC
Confidence 3567887754 2467777776 322211000 11111 35566777788999999999995 566666543
Q ss_pred -hHHHHHHHHHHHHhhhCCCcccEEEE
Q psy963 74 -RLVADRIRHTLDIRERSNQVYPIVLE 99 (128)
Q Consensus 74 -e~~a~~ir~~i~~~~~~~~~~P~Ive 99 (128)
......+.+..++ ...|+|.+
T Consensus 101 ~s~~~~a~~~~~~~-----~~ip~i~~ 122 (369)
T PRK15404 101 CSSSTQPASDIYED-----EGILMITP 122 (369)
T ss_pred CchhHHHhHHHHHH-----CCCeEEec
Confidence 3334444444444 44577654
No 51
>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type. The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.
Probab=33.01 E-value=2e+02 Score=22.02 Aligned_cols=52 Identities=10% Similarity=0.235 Sum_probs=38.0
Q ss_pred CHHHHHHHHHHHhcCCCeEEEEEehH-------HHHHHHHHHHHhhhCCCcccEEEEcCCCC
Q psy963 50 PADEIEDAFRTLVRRTDVGIVLITRL-------VADRIRHTLDIRERSNQVYPIVLEIPSAL 104 (128)
Q Consensus 50 ~~eei~~~~~~l~~~~digIIiIte~-------~a~~ir~~i~~~~~~~~~~P~IveIPs~~ 104 (128)
+.+++.++|+++.+++++.-|++.=. ..+.+.+.+.+++ +..|+|..+.+..
T Consensus 14 s~~~l~~~l~~a~~d~~i~~vvl~~~s~Gg~~~~~~~l~~~i~~~~---~~kpvia~v~g~a 72 (207)
T TIGR00706 14 SPEDFDKKIKRIKDDKSIKALLLRINSPGGTVVASEEIYEKLKKLK---AKKPVVASMGGVA 72 (207)
T ss_pred CHHHHHHHHHHHhhCCCccEEEEEecCCCCCHHHHHHHHHHHHHhc---CCCCEEEEECCcc
Confidence 34899999999998888866666432 3566777777766 4579999997654
No 52
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=31.92 E-value=2.3e+02 Score=22.47 Aligned_cols=81 Identities=15% Similarity=0.167 Sum_probs=39.4
Q ss_pred cceEEEEEechhhHHH------HH----hhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEeh
Q psy963 5 VLQLVGLIGDEDSVVG------FL----LGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITR 74 (128)
Q Consensus 5 ~~~kIaVIgD~dtv~G------Fr----LaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte 74 (128)
..++|+|+-|..+..+ ++ -.|++-+ .+.+.+. +++.++++.+..+.| ++++++.
T Consensus 130 ~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~-----------~~~v~~~----~~~~~~~~~l~~~~d-a~~~~~~ 193 (294)
T PF04392_consen 130 DAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELV-----------EIPVPSS----EDLEQALEALAEKVD-ALYLLPD 193 (294)
T ss_dssp T--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEE-----------EEEESSG----GGHHHHHHHHCTT-S-EEEE-S-
T ss_pred CCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEE-----------EEecCcH----hHHHHHHHHhhccCC-EEEEECC
Confidence 4578988887554322 21 2355421 2345333 789999998876656 5555555
Q ss_pred HHHHHHHHHHHHhhhCCCcccEEEEcCC
Q psy963 75 LVADRIRHTLDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 75 ~~a~~ir~~i~~~~~~~~~~P~IveIPs 102 (128)
.....-...+...-.. ...|++-.-+.
T Consensus 194 ~~~~~~~~~i~~~~~~-~~iPv~~~~~~ 220 (294)
T PF04392_consen 194 NLVDSNFEAILQLANE-AKIPVFGSSDF 220 (294)
T ss_dssp HHHHHTHHHHHHHCCC-TT--EEESSHH
T ss_pred cchHhHHHHHHHHHHh-cCCCEEECCHH
Confidence 5433333333333322 67898876554
No 53
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=31.78 E-value=1.5e+02 Score=23.96 Aligned_cols=53 Identities=11% Similarity=0.183 Sum_probs=37.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEeh--HHHHHHHHHHHHhhhCCCcccEEEE
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLITR--LVADRIRHTLDIRERSNQVYPIVLE 99 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiIte--~~a~~ir~~i~~~~~~~~~~P~Ive 99 (128)
+++.|...+++....+.++|+.++++-+|+-.. .....+.+.+++ ...|+|..
T Consensus 45 lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~~~~a~~~~~~~-----~~ip~i~~ 99 (357)
T cd06337 45 IIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPDTTNPVSDQCEA-----NGVPCIST 99 (357)
T ss_pred EEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcchhhHHHHHHHH-----hCCCeEEe
Confidence 567787788999999999999888887777433 234444555554 45687764
No 54
>TIGR01169 rplA_bact ribosomal protein L1, bacterial/chloroplast. This model describes bacterial (and chloroplast) ribosomal protein L1. The apparent mitochondrial L1 is sufficiently diverged to be the subject of a separate model.
Probab=31.76 E-value=1.4e+02 Score=23.78 Aligned_cols=60 Identities=13% Similarity=0.157 Sum_probs=44.7
Q ss_pred ccceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHH
Q psy963 4 EVLQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHT 83 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~ 83 (128)
....+|+|++|.+...==+-+|+. +| +. +|+.+.++... .++-.++-+.++...+. .
T Consensus 68 gk~~kV~Vfa~~~~~~~Ak~aGa~---------------~v-g~----~eLi~~ik~~~--~~fd~~iat~~~m~~l~-~ 124 (227)
T TIGR01169 68 GKTVRVAVFAKGEKAEEAKAAGAD---------------YV-GS----DDLIEKIKKGW--LDFDVVIATPDMMRVVG-K 124 (227)
T ss_pred CCCcEEEEEcCchhHHHHHHcCCC---------------Ee-CH----HHHHHHHHcCC--ccCCEEEECHHHHHHHH-H
Confidence 345799999998887777889985 23 43 78888777664 56777899998888777 4
Q ss_pred HHH
Q psy963 84 LDI 86 (128)
Q Consensus 84 i~~ 86 (128)
+.+
T Consensus 125 Lg~ 127 (227)
T TIGR01169 125 LGR 127 (227)
T ss_pred hcc
Confidence 444
No 55
>KOG4175|consensus
Probab=31.72 E-value=1.2e+02 Score=25.06 Aligned_cols=45 Identities=24% Similarity=0.393 Sum_probs=33.2
Q ss_pred echhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe
Q psy963 13 GDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT 73 (128)
Q Consensus 13 gD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt 73 (128)
|++.++.--+=+|++| |.++|- |+||++. |+.-.++..+..|.+.
T Consensus 111 G~e~~iq~ak~aGanG-------------fiivDl--PpEEa~~-~Rne~~k~gislvpLv 155 (268)
T KOG4175|consen 111 GVENYIQVAKNAGANG-------------FIIVDL--PPEEAET-LRNEARKHGISLVPLV 155 (268)
T ss_pred hHHHHHHHHHhcCCCc-------------eEeccC--ChHHHHH-HHHHHHhcCceEEEee
Confidence 5677777788899987 788776 6788776 5555556778877765
No 56
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=31.60 E-value=1.8e+02 Score=22.52 Aligned_cols=54 Identities=24% Similarity=0.158 Sum_probs=34.7
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--ehHHHHHHHHHHHHhhhCCCcccEEEEc
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLI--TRLVADRIRHTLDIRERSNQVYPIVLEI 100 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiI--te~~a~~ir~~i~~~~~~~~~~P~IveI 100 (128)
+.+.|...+++.+.+.+++|+.++.+-.|+. +......+...+++ ...|.|..-
T Consensus 41 l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~~~~~~~~-----~~ip~v~~~ 96 (333)
T cd06332 41 VVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALAVVPSLTE-----SGTFLISPN 96 (333)
T ss_pred EEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHHHHHHHhh-----cCCeEEecC
Confidence 4455666677889999999997666766665 33444444444444 446877653
No 57
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=31.22 E-value=3.5e+02 Score=23.45 Aligned_cols=95 Identities=15% Similarity=0.169 Sum_probs=49.1
Q ss_pred eEEEEEechhhH--HHHH------hhCccccccCCCCccccceEEEeCCCCCHHHH-----HHHHHHHhcCCCeEEEEEe
Q psy963 7 QLVGLIGDEDSV--VGFL------LGGIGHQTITPPLQTVTSNVFVVDKETPADEI-----EDAFRTLVRRTDVGIVLIT 73 (128)
Q Consensus 7 ~kIaVIgD~dtv--~GFr------LaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei-----~~~~~~l~~~~digIIiIt 73 (128)
++|+|||-.+.- .|.+ -.|+.| +.|.|.... +++ -..+.++-...|++||++.
T Consensus 8 ~siavvGaS~~~~~~g~~~~~~l~~~gf~g-----------~v~~Vnp~~---~~i~G~~~~~sl~~lp~~~Dlavi~vp 73 (447)
T TIGR02717 8 KSVAVIGASRDPGKVGYAIMKNLIEGGYKG-----------KIYPVNPKA---GEILGVKAYPSVLEIPDPVDLAVIVVP 73 (447)
T ss_pred CEEEEEccCCCCCchHHHHHHHHHhCCCCC-----------cEEEECCCC---CccCCccccCCHHHCCCCCCEEEEecC
Confidence 679999885421 2322 246644 346664332 221 1234555456699999998
Q ss_pred hHHHHHHHHHHHHhhhCCCcccEEEEcCCCCCCCCCC----CchHHHHHHh
Q psy963 74 RLVADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYT----ITDEDKQCRN 120 (128)
Q Consensus 74 e~~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~~~~~----~~~i~k~~~~ 120 (128)
......+ ++++-. ...+.++-|.+..+..+.+ ++.+.+++|+
T Consensus 74 ~~~~~~~---l~e~~~--~gv~~~vi~s~gf~e~g~~g~~~~~~l~~~a~~ 119 (447)
T TIGR02717 74 AKYVPQV---VEECGE--KGVKGAVVITAGFKEVGEEGAELEQELVEIARK 119 (447)
T ss_pred HHHHHHH---HHHHHh--cCCCEEEEECCCccccCcchHHHHHHHHHHHHH
Confidence 6653333 333321 2345677776655443321 2445555554
No 58
>PRK00103 rRNA large subunit methyltransferase; Provisional
Probab=31.19 E-value=2.3e+02 Score=21.42 Aligned_cols=66 Identities=11% Similarity=0.114 Sum_probs=40.9
Q ss_pred HHHHHHHHHhcCCCeEEEEEehH----HHHHHHHHHHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhccCC
Q psy963 53 EIEDAFRTLVRRTDVGIVLITRL----VADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIATLP 125 (128)
Q Consensus 53 ei~~~~~~l~~~~digIIiIte~----~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~~~~ 125 (128)
|.+..++ .+...++ +|+++++ -.+.+.+.+.++... ...-++..|.+..|- + +.+.+.+....||.
T Consensus 56 E~~~il~-~l~~~~~-~i~LDe~Gk~~sS~~fA~~l~~~~~~-g~~~i~F~IGGa~G~---~-~~v~~~a~~~lSLS 125 (157)
T PRK00103 56 EGERILA-ALPKGAR-VIALDERGKQLSSEEFAQELERWRDD-GRSDVAFVIGGADGL---S-PAVKKRADQSLSLS 125 (157)
T ss_pred HHHHHHh-hCCCCCE-EEEEcCCCCcCCHHHHHHHHHHHHhc-CCccEEEEEcCcccc---C-HHHHHhcCceEEec
Confidence 3344444 3444554 7778766 355666666666543 333588889888773 3 66778787776654
No 59
>KOG0816|consensus
Probab=30.97 E-value=1.9e+02 Score=23.59 Aligned_cols=54 Identities=22% Similarity=0.383 Sum_probs=40.3
Q ss_pred CCHHHHHHHHHHHhc--CCCeEEEEEe---hHHHHHHHHH-HHHhhhCCCcccEEEEcCC
Q psy963 49 TPADEIEDAFRTLVR--RTDVGIVLIT---RLVADRIRHT-LDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 49 t~~eei~~~~~~l~~--~~digIIiIt---e~~a~~ir~~-i~~~~~~~~~~P~IveIPs 102 (128)
+..||.++.+.++.+ +.++|++|-+ +.+-+..+.. -+.|-+.+..-|.-+.||-
T Consensus 80 ~~~dE~~~~l~klskll~G~~GLlFTd~~keeV~e~f~sy~~~DyaR~g~vA~~Tv~ip~ 139 (223)
T KOG0816|consen 80 SREDEYKENLYKLSKLLKGSVGLLFTDMSKEEVIEWFRSYVEEDYARAGDVAPETVTIPE 139 (223)
T ss_pred CchhhHHHHHHHhhhhccCceEEEecCCCHHHHHHHHHHHHHHhhhccCCcCcceEeecC
Confidence 445888888888765 6799999998 7777777763 3455656688898888875
No 60
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=30.61 E-value=2.2e+02 Score=22.70 Aligned_cols=52 Identities=13% Similarity=0.142 Sum_probs=36.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--ehHHHHHHHHHHHHhhhCCCcccEEE
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLI--TRLVADRIRHTLDIRERSNQVYPIVL 98 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiI--te~~a~~ir~~i~~~~~~~~~~P~Iv 98 (128)
+++.|...+++...++.++|+.++++-.|+= +......+.+.+++ ...|.|.
T Consensus 43 lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~-----~~vp~i~ 96 (334)
T cd06356 43 LVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASREAIRPIMDR-----TKQLYFY 96 (334)
T ss_pred EEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHHHHHHHHHHh-----cCceEEe
Confidence 5567777788999999999998777777663 33345556666655 3456665
No 61
>TIGR02706 P_butyryltrans phosphate butyryltransferase. Members of this family are phosphate butyryltransferase, also called phosphotransbutyrylase. In general, this enzyme is found in butyrate-producing anaerobic bacteria, encoded next to the gene for butyrate kinase. Together, these two enzymes represent what may be the less common of two pathways for butyrate production from butyryl-CoA. The alternative is transfer of the CoA group to acetate by butyryl-CoA:acetate CoA transferase. Cutoffs for this model are set such that the homolog from Thermotoga maritima, whose activity on butyryl-CoA is only 30 % of its activity with acetyl-CoA, scores in the zone between trusted and noice cutoffs.
Probab=29.82 E-value=3.1e+02 Score=22.44 Aligned_cols=88 Identities=22% Similarity=0.248 Sum_probs=50.5
Q ss_pred eEEEEEechhhHHHH-HhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEeh-HHHHHHHHHH
Q psy963 7 QLVGLIGDEDSVVGF-LLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITR-LVADRIRHTL 84 (128)
Q Consensus 7 ~kIaVIgD~dtv~GF-rLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte-~~a~~ir~~i 84 (128)
-++.++||++.+.-+ .-.|+.. ..|.+++.+...+.+..+++ ++++.+.-.++=.- .....++..+
T Consensus 39 ~~~iLvG~~~~I~~~~~~~~l~~-----------~~ieIi~~~~~~~s~~~a~~-lv~~G~aD~~vsg~~~T~a~l~~~l 106 (294)
T TIGR02706 39 ARAILVGDEEKINEIAKKIGMNL-----------DDVEIVNAPSPKKAALLAVR-LVSTGKADMLMKGLVDTATFLRSVL 106 (294)
T ss_pred ceEEEECCHHHHHHHHHHcCCCc-----------cCcEEECCCCcHHHHHHHHH-HHHCCCCCEEEeCCcCHHHHHHHHh
Confidence 467889999987663 2334431 13667777666777777777 55555555444333 3456666666
Q ss_pred HHhhh-CC-CcccE--EEEcCCCCCC
Q psy963 85 DIRER-SN-QVYPI--VLEIPSALDA 106 (128)
Q Consensus 85 ~~~~~-~~-~~~P~--IveIPs~~g~ 106 (128)
.+..- +. ..... ++++|+.++.
T Consensus 107 ~~~~Gi~~~~~~s~~~~~~~P~~~~~ 132 (294)
T TIGR02706 107 NKEVGLRTGKVLSHVAVFEVPGFDRL 132 (294)
T ss_pred hhccCCCCCCcceeeEEEEecCCCCc
Confidence 54431 00 11222 5569987663
No 62
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=29.75 E-value=1.3e+02 Score=20.68 Aligned_cols=66 Identities=8% Similarity=0.146 Sum_probs=45.0
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHh
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRN 120 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~ 120 (128)
.++.+.|+.+- +..+-+.++|..-.+.++..+..+... ..++.|+.- +..+...+..+.+.+.++.
T Consensus 80 ~~~~~~L~~l~-~~~~~~~i~Sn~~~~~~~~~l~~~~~~-~~f~~i~~~-~~~~~~Kp~~~~~~~~~~~ 145 (176)
T PF13419_consen 80 PGVRELLERLK-AKGIPLVIVSNGSRERIERVLERLGLD-DYFDEIISS-DDVGSRKPDPDAYRRALEK 145 (176)
T ss_dssp TTHHHHHHHHH-HTTSEEEEEESSEHHHHHHHHHHTTHG-GGCSEEEEG-GGSSSSTTSHHHHHHHHHH
T ss_pred hhhhhhhhhcc-cccceeEEeecCCcccccccccccccc-ccccccccc-chhhhhhhHHHHHHHHHHH
Confidence 46778888775 468999999999999999989988764 455566644 3344344554444444443
No 63
>PF01886 DUF61: Protein of unknown function DUF61; InterPro: IPR002746 The proteins in this entry are functionally uncharacterised.
Probab=29.51 E-value=1.7e+02 Score=21.68 Aligned_cols=68 Identities=24% Similarity=0.352 Sum_probs=41.1
Q ss_pred HHHHHHHhcCCCeEEEE-------EehHHHHHHHHHHHHhhhCCCcccEEEEc-CCC-CCCCCCCCchHHHHHHhhc
Q psy963 55 EDAFRTLVRRTDVGIVL-------ITRLVADRIRHTLDIRERSNQVYPIVLEI-PSA-LDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 55 ~~~~~~l~~~~digIIi-------Ite~~a~~ir~~i~~~~~~~~~~P~IveI-Ps~-~g~~~~~~~~i~k~~~~~~ 122 (128)
...|.++++.++-.|+. +..+--+.+.+.+..+..+.-.+|.|+++ |+. .|.+--....--+-++.+.
T Consensus 20 rktL~eLL~ee~P~i~lrdG~~h~f~k~ELe~L~~~lp~~~~~~lrLPIile~~~~~~~g~~~V~g~~e~k~i~~il 96 (132)
T PF01886_consen 20 RKTLKELLEEEKPSIILRDGSRHRFDKEELERLAEILPEYEWSKLRLPIILEIDPTLGEGSYRVRGKEEVKAISKIL 96 (132)
T ss_pred hhhHHHHHhCCCCeEEecCCCEEEEcHHHHHHHHHhCCHHHHhceeccEEEEEeccCCCceEEEeCHHHHHHHHHHh
Confidence 46688899766666665 34445667777776663333678999999 774 3544333333224444443
No 64
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=29.40 E-value=1.7e+02 Score=23.56 Aligned_cols=60 Identities=12% Similarity=0.188 Sum_probs=45.5
Q ss_pred ccceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHH
Q psy963 4 EVLQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHT 83 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~ 83 (128)
....+|+|+++.+...==+-+|.+ ++ .. +|+.+.++... .++-.++-|.+++..+..
T Consensus 69 gk~~kV~Vfa~~~~~~eAk~aGad---------------~v-g~----edLi~~ik~~~--~~fd~~iAt~d~m~~l~k- 125 (229)
T CHL00129 69 GKTIRIAVLTNEEKITEAKNAGAD---------------IV-GS----DDLIEEITKGN--LDFDLLIATPDMMPKLAK- 125 (229)
T ss_pred CCCcEEEEECChHhHHHHHHcCCC---------------Ee-CH----HHHHHHHHcCc--ccCCEEEECHHHHHHHHH-
Confidence 355799999998887777889985 23 44 78888887754 578889999999888865
Q ss_pred HHH
Q psy963 84 LDI 86 (128)
Q Consensus 84 i~~ 86 (128)
+-.
T Consensus 126 Lgr 128 (229)
T CHL00129 126 LGR 128 (229)
T ss_pred hcC
Confidence 443
No 65
>cd07105 ALDH_SaliADH Salicylaldehyde dehydrogenase, DoxF-like. Salicylaldehyde dehydrogenase (DoxF, SaliADH, EC=1.2.1.65) involved in the upper naphthalene catabolic pathway of Pseudomonas strain C18 and other similar sequences are present in this CD.
Probab=29.17 E-value=2.7e+02 Score=23.64 Aligned_cols=62 Identities=21% Similarity=0.210 Sum_probs=44.5
Q ss_pred HHHHHHhcCCCeEEEEEehH--HHHHHHHHHHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhc
Q psy963 56 DAFRTLVRRTDVGIVLITRL--VADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 56 ~~~~~l~~~~digIIiIte~--~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~ 122 (128)
.....++..+++..|..|-. ....+...... ...|+++|.++++..+=....++++.++.++
T Consensus 170 ~~~~~l~~~~~v~~v~ftGs~~~g~~i~~~aa~-----~~~~~~lElgGk~p~iV~~dadl~~aa~~i~ 233 (432)
T cd07105 170 EVVEALIAHPAVRKVNFTGSTRVGRIIAETAAK-----HLKPVLLELGGKAPAIVLEDADLDAAANAAL 233 (432)
T ss_pred HHHHHHhcCCCCCEEEEECCHHHHHHHHHHHHh-----cCCeEEEeCCCCCceEECCCCCHHHHHHHHH
Confidence 34556777788888888854 34445443332 5679999999999877666678999998887
No 66
>PRK03202 6-phosphofructokinase; Provisional
Probab=28.65 E-value=1.8e+02 Score=24.38 Aligned_cols=57 Identities=11% Similarity=0.198 Sum_probs=36.8
Q ss_pred EeCCCCCHHHHHHHHHHHhcC-CCeEEEEEehHH--HHHHHHHHHHhhhCCCcccEEEEcCCCC
Q psy963 44 VVDKETPADEIEDAFRTLVRR-TDVGIVLITRLV--ADRIRHTLDIRERSNQVYPIVLEIPSAL 104 (128)
Q Consensus 44 v~~~~t~~eei~~~~~~l~~~-~digIIiIte~~--a~~ir~~i~~~~~~~~~~P~IveIPs~~ 104 (128)
+-+...+.+++.+.+++-.++ .+++||+++|.+ .+.+.+.+++.- . ..+-..+|+.-
T Consensus 191 iPE~~~~~~~l~~~i~~r~~~g~~~~vivvsEg~~~~~~l~~~i~~~~---~-~~~r~~~lG~~ 250 (320)
T PRK03202 191 IPEVPFDIEELCAKIKKGRERGKKHAIIVVAEGVMPAEELAKEIEERT---G-LETRVTVLGHI 250 (320)
T ss_pred eCCCCCCHHHHHHHHHHHHHhcCCcEEEEEeCCCCCHHHHHHHHHHHh---C-CceEEcccchh
Confidence 434445577888878777765 889999999985 344555555533 1 34556666643
No 67
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=28.49 E-value=1.8e+02 Score=21.21 Aligned_cols=53 Identities=15% Similarity=0.208 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehHH--HHHHHHHHHHhhhCCCcccEEEEcCCCCC
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRLV--ADRIRHTLDIRERSNQVYPIVLEIPSALD 105 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~~--a~~ir~~i~~~~~~~~~~P~IveIPs~~g 105 (128)
..++++++.+++.-++-.++.++.. ...+-+.+++...+ ..+-+++-=|+-.+
T Consensus 10 ~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~-~~faIvl~TpDD~~ 64 (125)
T PF10137_consen 10 LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADS-VDFAIVLFTPDDIG 64 (125)
T ss_pred HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhcc-CCEEEEEEcccccc
Confidence 4556666666654555566665542 22222333333221 34445555555444
No 68
>PTZ00029 60S ribosomal protein L10a; Provisional
Probab=28.45 E-value=2e+02 Score=22.76 Aligned_cols=61 Identities=16% Similarity=0.179 Sum_probs=42.3
Q ss_pred ccceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHH------HHHHhcCCCeEEEEEehHHH
Q psy963 4 EVLQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDA------FRTLVRRTDVGIVLITRLVA 77 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~------~~~l~~~~digIIiIte~~a 77 (128)
....+|+|++|.+...=-+-+|++ ++ .. +++.+. .+.+. .++-+++-+.++.
T Consensus 59 gk~~~v~V~a~~~~~~~Ak~aGa~---------------vv-g~----edL~~~~k~~k~~kkl~--~~fD~flA~~~im 116 (216)
T PTZ00029 59 KPNLKVCVLGDAVHCDEAKKLGLD---------------FM-DI----EGLKKFNKNKKLVKKLA--KKYDAFLASQSLL 116 (216)
T ss_pred CCCcEEEEECCcHHHHHHHHcCCC---------------Ee-cH----HHHHHhhhhHHHHhccc--ccCCEEEECHHHH
Confidence 345789999999988888999985 22 33 677653 33333 3577788999988
Q ss_pred HHHHHHHHH
Q psy963 78 DRIRHTLDI 86 (128)
Q Consensus 78 ~~ir~~i~~ 86 (128)
..+...|-.
T Consensus 117 ~~l~riLGp 125 (216)
T PTZ00029 117 PQIPRLLGP 125 (216)
T ss_pred HHHHHHhcc
Confidence 877654444
No 69
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=27.96 E-value=79 Score=28.66 Aligned_cols=36 Identities=36% Similarity=0.649 Sum_probs=24.0
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehH-----------HHHHHHHHHHHhh
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRL-----------VADRIRHTLDIRE 88 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~-----------~a~~ir~~i~~~~ 88 (128)
+.++...+ +++.+.+||.|+|+. +-.+|++.+..|.
T Consensus 277 ~~ieqvvr-LIRSKGVGv~fvTQ~P~DiP~~VL~QLGnrIQHaLRAfT 323 (502)
T PF05872_consen 277 DKIEQVVR-LIRSKGVGVYFVTQNPTDIPDDVLGQLGNRIQHALRAFT 323 (502)
T ss_pred HHHHHHHH-HhhccCceEEEEeCCCCCCCHHHHHhhhhHHHHHHhcCC
Confidence 34444333 677899999999987 4556666665543
No 70
>COG0447 MenB Dihydroxynaphthoic acid synthase [Coenzyme metabolism]
Probab=27.90 E-value=69 Score=26.64 Aligned_cols=24 Identities=38% Similarity=0.621 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHhcCCCeEEEEEeh
Q psy963 51 ADEIEDAFRTLVRRTDVGIVLITR 74 (128)
Q Consensus 51 ~eei~~~~~~l~~~~digIIiIte 74 (128)
..|+-++|.....+.+||+|++|-
T Consensus 48 V~Em~~Af~~Ar~d~~vGvi~lTG 71 (282)
T COG0447 48 VDEMIDAFADARDDPNVGVILLTG 71 (282)
T ss_pred HHHHHHHHHhhhcCCCccEEEEec
Confidence 588999999888899999999994
No 71
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=27.86 E-value=95 Score=27.85 Aligned_cols=52 Identities=12% Similarity=0.212 Sum_probs=37.3
Q ss_pred ccceEEEEEechhhHHHHHh----hCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEE
Q psy963 4 EVLQLVGLIGDEDSVVGFLL----GGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVL 71 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GFrL----aGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIi 71 (128)
....+|||||=+.++.|++. .|++- ..|.+++. +|++..++++.+ ..+.+|+
T Consensus 95 ~~~~~ia~vg~~~~~~~~~~~~~ll~~~i-----------~~~~~~~~----~e~~~~~~~l~~-~G~~~vi 150 (526)
T TIGR02329 95 RIASSIGVVTHQDTPPALRRFQAAFNLDI-----------VQRSYVTE----EDARSCVNDLRA-RGIGAVV 150 (526)
T ss_pred hcCCcEEEEecCcccHHHHHHHHHhCCce-----------EEEEecCH----HHHHHHHHHHHH-CCCCEEE
Confidence 34578999999999999873 46652 23555554 899999998874 5655554
No 72
>cd07022 S49_Sppa_36K_type Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 36K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily are all bacterial and include sohB peptidase and protein C. These are sometimes referred to as 36K type since they contain only one domain, unlike E. coli SppA that also contains an amino-terminal domain. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases.
Probab=27.76 E-value=2.7e+02 Score=21.36 Aligned_cols=50 Identities=16% Similarity=0.171 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhcCCCeEEEEEeh-------HHHHHHHHHHHHhhhCCCcccEEEEcCCC
Q psy963 51 ADEIEDAFRTLVRRTDVGIVLITR-------LVADRIRHTLDIRERSNQVYPIVLEIPSA 103 (128)
Q Consensus 51 ~eei~~~~~~l~~~~digIIiIte-------~~a~~ir~~i~~~~~~~~~~P~IveIPs~ 103 (128)
-+++.++|+++.+++++..|+++- ...+.+.+.+.+++ ...|+|.-+.+.
T Consensus 27 ~~~l~~~l~~a~~d~~i~~Vvl~~~s~gg~~~~~~~l~~~l~~~~---~~KpViA~v~g~ 83 (214)
T cd07022 27 YEGIAAAIRAALADPDVRAIVLDIDSPGGEVAGVFELADAIRAAR---AGKPIVAFVNGL 83 (214)
T ss_pred HHHHHHHHHHHhhCCCCcEEEEEEeCCCCcHHHHHHHHHHHHHHh---cCCCEEEEECCc
Confidence 489999999999888897777742 13556777787776 357999988764
No 73
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=27.17 E-value=1.1e+02 Score=24.53 Aligned_cols=40 Identities=15% Similarity=0.270 Sum_probs=26.1
Q ss_pred CCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHH
Q psy963 46 DKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDI 86 (128)
Q Consensus 46 ~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~ 86 (128)
+.+.++.++.+..+ +++..++..||.......+.-+.|.+
T Consensus 191 ~~eps~~~l~~l~~-~ik~~~v~~if~e~~~~~~~~~~l~~ 230 (276)
T cd01016 191 DSEAGLRDINELVD-LIVERKIKAIFVESSVNQKSIEALQD 230 (276)
T ss_pred ccCCCHHHHHHHHH-HHHHcCCCEEEEeCCCCHHHHHHHHH
Confidence 33445677777555 66678999999987665544444433
No 74
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=27.08 E-value=3.1e+02 Score=21.64 Aligned_cols=55 Identities=15% Similarity=0.099 Sum_probs=37.7
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--hHHHHHHHHHHHHhhhCCCcccEEEEc
Q psy963 41 NVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--RLVADRIRHTLDIRERSNQVYPIVLEI 100 (128)
Q Consensus 41 ~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--e~~a~~ir~~i~~~~~~~~~~P~IveI 100 (128)
.+.+.|...+++...+++++|++++++.+|+=. ......+.+.+++ ...|+|...
T Consensus 42 ~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~-----~~vp~i~~~ 98 (333)
T cd06331 42 ELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASRKAVLPVVER-----GRGLLFYPT 98 (333)
T ss_pred EEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHHHHHHHHHHh-----cCceEEeCC
Confidence 356777777889999999999977787776644 3334445555554 446877643
No 75
>COG3616 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]
Probab=26.86 E-value=4.2e+02 Score=22.96 Aligned_cols=88 Identities=14% Similarity=0.130 Sum_probs=59.4
Q ss_pred hHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCC-eEEEEEehHHHHHHHHHHHHhhhCCCccc
Q psy963 17 SVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTD-VGIVLITRLVADRIRHTLDIRERSNQVYP 95 (128)
Q Consensus 17 tv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~d-igIIiIte~~a~~ir~~i~~~~~~~~~~P 95 (128)
..--|.-+||..+ ++- .+ .......++|.++.++.+ +.+++=+..-++.+.+...+.. ..+.
T Consensus 77 eae~~a~aGi~dI------------l~a-~p-~~~~~~~~~L~~l~~~~~~~~~~iDs~~~~~~l~~~~~~~~---~pl~ 139 (368)
T COG3616 77 EAEVFADAGIDDI------------LLA-YP-LPGRAALAALAELLADPPRISVLIDSVEQLDALAALARDAG---KPLR 139 (368)
T ss_pred HHHHHHccCccce------------EEe-cC-CCchhHHHHHHHhcCCCCceEEEeCCHHHHHHHHHHHHhcC---CCee
Confidence 3444666777653 332 32 244777788999988888 8888888888888888777655 7788
Q ss_pred EEEEcCCCCCCCCCCCchHH-HHHHhh
Q psy963 96 IVLEIPSALDAFHYTITDED-KQCRNI 121 (128)
Q Consensus 96 ~IveIPs~~g~~~~~~~~i~-k~~~~~ 121 (128)
+.|||-+..+-.+-....+- ..++.+
T Consensus 140 v~iE~D~G~~R~Gv~t~~~~~~La~~~ 166 (368)
T COG3616 140 VLIEIDSGLHRSGVRTPEVAEALAAEI 166 (368)
T ss_pred EEEEeCCCCCccCcCChHHHHHHHHhh
Confidence 99999886665554443332 344444
No 76
>PF05116 S6PP: Sucrose-6F-phosphate phosphohydrolase; InterPro: IPR006380 This family of sequences represent sucrose phosphate phosphohydrolase (SPP) from plants and cyanobacteria []. SPP is a member of the Class IIB subfamily of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. SPP catalyzes the final step in the biosynthesis of sucrose, a critically important molecule for plants. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.; PDB: 1TJ5_A 2B1Q_A 1TJ4_A 1S2O_A 1U2T_A 2D2V_A 1TJ3_A 1U2S_A 2B1R_A 3GYG_B ....
Probab=26.79 E-value=2e+02 Score=22.72 Aligned_cols=37 Identities=19% Similarity=0.235 Sum_probs=27.9
Q ss_pred HHHHHHHHHHhc---CCCeEEEEEehHHHHHHHHHHHHhh
Q psy963 52 DEIEDAFRTLVR---RTDVGIVLITRLVADRIRHTLDIRE 88 (128)
Q Consensus 52 eei~~~~~~l~~---~~digIIiIte~~a~~ir~~i~~~~ 88 (128)
......|.++++ +.++.++++|-+-.+.+++.+.++.
T Consensus 18 ~~~~~~l~~~l~~~~~~~~~~v~~TGRs~~~~~~~~~~~~ 57 (247)
T PF05116_consen 18 DEALARLEELLEQQARPEILFVYVTGRSLESVLRLLREYN 57 (247)
T ss_dssp HHHHHHHHHHHHHHHCCGEEEEEE-SS-HHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHHhhCCCceEEEECCCCHHHHHHHHHhCC
Confidence 445566666665 8999999999999999999888765
No 77
>PF06348 DUF1059: Protein of unknown function (DUF1059); InterPro: IPR009409 This entry consists of short hypothetical archaeal and bacterial proteins of unknown function.
Probab=26.74 E-value=1e+02 Score=19.35 Aligned_cols=42 Identities=19% Similarity=0.278 Sum_probs=31.8
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHH
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDI 86 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~ 86 (128)
|.+..+ +.+|+.+.+.+=+ +..-|+--+++.+.+.||..|.+
T Consensus 15 ~~~~a~--tedEll~~~~~Ha-~~~Hg~~~~~~el~~~ir~~I~~ 56 (57)
T PF06348_consen 15 FVIRAE--TEDELLEAVVEHA-REVHGMTEIPEELREKIRSAIKD 56 (57)
T ss_pred eEEeeC--CHHHHHHHHHHHH-HHhcCCccCCHHHHHHHHHHhhc
Confidence 565432 4588888888777 56778888999999999987643
No 78
>cd07018 S49_SppA_67K_type Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 67K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily contain an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown that members in this subfamily, mostly bacterial, are serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys
Probab=26.73 E-value=2.5e+02 Score=21.68 Aligned_cols=53 Identities=9% Similarity=0.148 Sum_probs=41.0
Q ss_pred CCCHHHHHHHHHHHhcCCCeEEEEEehH-------HHHHHHHHHHHhhhCCCcccEEEEcCC
Q psy963 48 ETPADEIEDAFRTLVRRTDVGIVLITRL-------VADRIRHTLDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 48 ~t~~eei~~~~~~l~~~~digIIiIte~-------~a~~ir~~i~~~~~~~~~~P~IveIPs 102 (128)
.++-+++.+.|+++.++++|.-|+|.=. ..+.+++.+.+++. ...|+|.-+.+
T Consensus 28 ~~~~~~l~~~l~~a~~d~~ik~vvL~~~s~gg~~~~~~el~~~i~~~~~--~~kpVia~~~~ 87 (222)
T cd07018 28 ELSLRDLLEALEKAAEDDRIKGIVLDLDGLSGGLAKLEELRQALERFRA--SGKPVIAYADG 87 (222)
T ss_pred CccHHHHHHHHHHHhcCCCeEEEEEECCCCCCCHHHHHHHHHHHHHHHH--hCCeEEEEeCC
Confidence 3456899999999998889998888843 46778888888873 45798887764
No 79
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=26.54 E-value=2.5e+02 Score=22.25 Aligned_cols=53 Identities=19% Similarity=0.053 Sum_probs=36.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--ehHHHHHHHHHHHHhhhCCCcccEEEE
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLI--TRLVADRIRHTLDIRERSNQVYPIVLE 99 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiI--te~~a~~ir~~i~~~~~~~~~~P~Ive 99 (128)
+.+.|...+++.+.+..++|+.++++-.|+= +...+..+.+.+++ ...|.|-.
T Consensus 41 l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a~~~~~~~-----~~ip~i~~ 95 (333)
T cd06359 41 VVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLAVVPPVLE-----SGTFYIST 95 (333)
T ss_pred EEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHHHHHHHHH-----cCCeEEec
Confidence 4555666678899999999997767776663 34455566666665 44687754
No 80
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.48 E-value=2.5e+02 Score=23.39 Aligned_cols=29 Identities=24% Similarity=0.379 Sum_probs=20.7
Q ss_pred EeCCCCCHHHHHHHHHHHhcCCCe-EEEEE
Q psy963 44 VVDKETPADEIEDAFRTLVRRTDV-GIVLI 72 (128)
Q Consensus 44 v~~~~t~~eei~~~~~~l~~~~di-gIIiI 72 (128)
..+++++++|+.+.++++-+++++ |||+-
T Consensus 66 ~l~~~~t~~~l~~~I~~lN~D~~V~GIivq 95 (282)
T PRK14166 66 HLNENTTQNELLALINTLNHDDSVHGILVQ 95 (282)
T ss_pred ECCCCCCHHHHHHHHHHHhCCCCCCEEEEe
Confidence 335556778888888888777776 66654
No 81
>cd07014 S49_SppA Signal peptide peptidase A. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p
Probab=26.44 E-value=2.7e+02 Score=20.56 Aligned_cols=51 Identities=16% Similarity=0.150 Sum_probs=38.1
Q ss_pred CHHHHHHHHHHHhcCCCeEEEEEehH-------HHHHHHHHHHHhhhCCCcccEEEEcCC
Q psy963 50 PADEIEDAFRTLVRRTDVGIVLITRL-------VADRIRHTLDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 50 ~~eei~~~~~~l~~~~digIIiIte~-------~a~~ir~~i~~~~~~~~~~P~IveIPs 102 (128)
+-+++.++|+++.+++++..|+|+=+ ..+.+++.+..++. ...|+|--+.+
T Consensus 23 ~~~~l~~~l~~a~~d~~v~~vvl~~~~~gg~~~~~~~~~~~i~~~~~--~~kpVia~v~G 80 (177)
T cd07014 23 SGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARA--AGKPVVASGGG 80 (177)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEeeCCCcCHHHHHHHHHHHHHHHh--CCCCEEEEECC
Confidence 45899999999998899987777632 24566777777763 56799988863
No 82
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=26.44 E-value=3.3e+02 Score=21.53 Aligned_cols=55 Identities=22% Similarity=0.208 Sum_probs=37.7
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEE--EehHHHHHHHHHHHHhhhCCCcccEEEEcC
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVL--ITRLVADRIRHTLDIRERSNQVYPIVLEIP 101 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIi--Ite~~a~~ir~~i~~~~~~~~~~P~IveIP 101 (128)
+.+.|...+++.+.++.++++.++++-.|+ ++......+.+.++. ...|+|..-+
T Consensus 43 ~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~~~~~~~~~~-----~~ip~i~~~s 99 (346)
T cd06330 43 LVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVALAVAPVAEE-----LKVFFIATDP 99 (346)
T ss_pred EEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHHHHHHHHHHH-----cCCeEEEcCC
Confidence 556676667788999999999876776665 345555566665655 4468877543
No 83
>KOG1575|consensus
Probab=25.61 E-value=2.3e+02 Score=24.34 Aligned_cols=57 Identities=18% Similarity=0.141 Sum_probs=45.8
Q ss_pred HHhhCccccccCCCCccccceEEEe--CCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHh
Q psy963 21 FLLGGIGHQTITPPLQTVTSNVFVV--DKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIR 87 (128)
Q Consensus 21 FrLaGi~~~~~~~~~~~~~~~~~v~--~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~ 87 (128)
.|+.|++.+ +-|.++ |..+|-||.-++|+.+++...+.-|=+++--++.|++.-..+
T Consensus 121 ~~rl~~~~I----------Dl~q~Hr~D~~~piee~m~aL~~lve~Gki~yiGlSe~sa~~I~~a~~~~ 179 (336)
T KOG1575|consen 121 LRRLQTDYI----------DLLQVHRWDPMVPIEETMRALTDLVEQGKIRYWGLSEWSAEEIREAHAVA 179 (336)
T ss_pred HHhcCCCee----------EEEEEcccCCCCCHHHHHHHHHHHHhcCceEEEEeccCCHHHHHHHHHhc
Confidence 456667665 445554 778899999999999999999999999999999998865553
No 84
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=25.60 E-value=2.1e+02 Score=19.12 Aligned_cols=42 Identities=12% Similarity=0.339 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehHH----HHHHHHHHHHhhhCCCcccEEEE
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRLV----ADRIRHTLDIRERSNQVYPIVLE 99 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~~----a~~ir~~i~~~~~~~~~~P~Ive 99 (128)
+.-...|...+.+-|+ ||++|..+ +..+++.-.+ ...|++..
T Consensus 36 ~~~~~~l~~~i~~aD~-VIv~t~~vsH~~~~~vk~~akk-----~~ip~~~~ 81 (97)
T PF10087_consen 36 EKKASRLPSKIKKADL-VIVFTDYVSHNAMWKVKKAAKK-----YGIPIIYS 81 (97)
T ss_pred ccchhHHHHhcCCCCE-EEEEeCCcChHHHHHHHHHHHH-----cCCcEEEE
Confidence 3434457778878885 55666554 4444443333 45687764
No 85
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=25.58 E-value=3.2e+02 Score=21.19 Aligned_cols=71 Identities=10% Similarity=0.157 Sum_probs=40.4
Q ss_pred CCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhcc
Q psy963 47 KETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIAT 123 (128)
Q Consensus 47 ~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~~ 123 (128)
.+.++.++.+..+ .++..++.+||.........-+.|.+- ...|+ +.+....+....+.+++.-+-+++-+
T Consensus 181 ~~ps~~~l~~l~~-~ik~~~v~~i~~e~~~~~~~~~~la~~----~g~~v-v~ld~l~~~~~~~~~y~~~~~~n~~~ 251 (256)
T PF01297_consen 181 EEPSPKDLAELIK-LIKENKVKCIFTEPQFSSKLAEALAKE----TGVKV-VYLDPLGGGIPDGDSYLDMMEQNLDT 251 (256)
T ss_dssp SSS-HHHHHHHHH-HHHHTT-SEEEEETTS-THHHHHHHHC----CT-EE-EESSTTCSTTSSTTSHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHH-HhhhcCCcEEEecCCCChHHHHHHHHH----cCCcE-EEeCCCcCCCCCcCCHHHHHHHHHHH
Confidence 3445677777555 556789999999888777766666441 23455 55555533344455555555555433
No 86
>PRK10792 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=25.19 E-value=1.4e+02 Score=24.86 Aligned_cols=30 Identities=17% Similarity=0.221 Sum_probs=21.8
Q ss_pred EeCCCCCHHHHHHHHHHHhcCCCe-EEEEEe
Q psy963 44 VVDKETPADEIEDAFRTLVRRTDV-GIVLIT 73 (128)
Q Consensus 44 v~~~~t~~eei~~~~~~l~~~~di-gIIiIt 73 (128)
..+.+++++|+.+.++++-+++++ |||+--
T Consensus 69 ~l~~~~s~~el~~~I~~lN~d~~V~GIlvql 99 (285)
T PRK10792 69 DLPETTSEAELLALIDELNADPTIDGILVQL 99 (285)
T ss_pred ECCCCCCHHHHHHHHHHHhCCCCCCEEEEeC
Confidence 335567788999999988777776 666643
No 87
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=25.17 E-value=3.4e+02 Score=21.67 Aligned_cols=55 Identities=15% Similarity=-0.008 Sum_probs=37.7
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--hHHHHHHHHHHHHhhhCCCcccEEEEcC
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--RLVADRIRHTLDIRERSNQVYPIVLEIP 101 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--e~~a~~ir~~i~~~~~~~~~~P~IveIP 101 (128)
+++.|...+++.+.+..++|+++++|-.|+=. ...+..+.+.+++ ...|+|-+..
T Consensus 43 lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~-----~~vp~i~~~~ 99 (347)
T cd06335 43 LVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVALANLEFIQQ-----NKIPLIGPWA 99 (347)
T ss_pred EEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHHHhhhHHHHh-----cCCcEEecCC
Confidence 56777777789999999999987777666643 3344445555555 4478886543
No 88
>COG0169 AroE Shikimate 5-dehydrogenase [Amino acid transport and metabolism]
Probab=25.12 E-value=4e+02 Score=22.06 Aligned_cols=70 Identities=20% Similarity=0.274 Sum_probs=44.8
Q ss_pred CccccceEEEEEec--hhh------HHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE
Q psy963 1 MAEEVLQLVGLIGD--EDS------VVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLI 72 (128)
Q Consensus 1 ~~~~~~~kIaVIgD--~dt------v~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiI 72 (128)
|++...++.+|||+ ..+ -..|+..|++++ |...+- +++++..++..+....-.| .=+
T Consensus 1 ~~~~~t~~~~viG~Pi~HS~SP~~Hn~~~~~lGl~~~------------Y~a~~v--~~~~l~~~v~~~~~~g~~G-~NV 65 (283)
T COG0169 1 MMNGKTKLFGVIGNPISHSLSPRMHNAAFRALGLDYV------------YLAFEV--PPEDLPEAVSGIRALGFRG-LNV 65 (283)
T ss_pred CCCCCceEEEEEcCCcccCcCHHHHHHHHHHcCCCce------------EEEeec--CHHHHHHHHHHHHhcCCCe-eEE
Confidence 55667789999999 333 357899999874 665443 4689999998886433344 555
Q ss_pred ehHHHHHHHHHHH
Q psy963 73 TRLVADRIRHTLD 85 (128)
Q Consensus 73 te~~a~~ir~~i~ 85 (128)
|=-.-+.+-+.+|
T Consensus 66 TiP~Ke~~~~~lD 78 (283)
T COG0169 66 TIPFKEAALPLLD 78 (283)
T ss_pred CCccHHHHHHHHh
Confidence 5433333333333
No 89
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=24.88 E-value=3.7e+02 Score=21.60 Aligned_cols=91 Identities=16% Similarity=0.224 Sum_probs=50.3
Q ss_pred echhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeE-EEEEehHH-HHHHHHHHHHhhhC
Q psy963 13 GDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG-IVLITRLV-ADRIRHTLDIRERS 90 (128)
Q Consensus 13 gD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~dig-IIiIte~~-a~~ir~~i~~~~~~ 90 (128)
|-++.+--+.-+|+.+ +.+.|. +.+|..+.++.+- ..++. |++++... .++++...+..
T Consensus 103 G~e~f~~~~~~aGvdg-------------viipDl--p~ee~~~~~~~~~-~~gl~~i~lv~P~T~~eri~~i~~~~--- 163 (256)
T TIGR00262 103 GVEEFYAKCKEVGVDG-------------VLVADL--PLEESGDLVEAAK-KHGVKPIFLVAPNADDERLKQIAEKS--- 163 (256)
T ss_pred hHHHHHHHHHHcCCCE-------------EEECCC--ChHHHHHHHHHHH-HCCCcEEEEECCCCCHHHHHHHHHhC---
Confidence 4467788889999987 466564 4477777666554 44555 45676665 45666644431
Q ss_pred CCcccEEEEcCCCCCCCCCCCchHHHHHHhhcc
Q psy963 91 NQVYPIVLEIPSALDAFHYTITDEDKQCRNIAT 123 (128)
Q Consensus 91 ~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~~ 123 (128)
..+=.+|..-+..|....-...+..+++++-.
T Consensus 164 -~gfiy~vs~~G~TG~~~~~~~~~~~~i~~lr~ 195 (256)
T TIGR00262 164 -QGFVYLVSRAGVTGARNRAASALNELVKRLKA 195 (256)
T ss_pred -CCCEEEEECCCCCCCcccCChhHHHHHHHHHh
Confidence 11224445444444311122345555555543
No 90
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=24.48 E-value=2.7e+02 Score=22.15 Aligned_cols=54 Identities=19% Similarity=0.135 Sum_probs=38.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEE--ehHHHHHHHHHHHHhhhCCCcccEEEEc
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLI--TRLVADRIRHTLDIRERSNQVYPIVLEI 100 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiI--te~~a~~ir~~i~~~~~~~~~~P~IveI 100 (128)
+.+.|...+++....+.++|+.++++-.|+= +......+...+++ ...|.|...
T Consensus 44 lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~~~a~~~~~~~-----~~ip~i~~~ 99 (333)
T cd06328 44 VIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGVALAVLPVAEE-----NKKILIVEP 99 (333)
T ss_pred EEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHHHHHHHHHHHH-----hCCcEEecC
Confidence 4566778888999999999998878777663 44455556565555 446888644
No 91
>PRK12702 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=24.45 E-value=1.8e+02 Score=24.61 Aligned_cols=44 Identities=18% Similarity=0.234 Sum_probs=35.5
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEE
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLE 99 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~Ive 99 (128)
+...++++++. +..+-||+.|-+.+..++....++.. ..|.|++
T Consensus 21 ~~a~~aL~~Lk-~~GI~vVlaTGRt~~ev~~l~~~Lgl---~~p~I~e 64 (302)
T PRK12702 21 GAARQALAALE-RRSIPLVLYSLRTRAQLEHLCRQLRL---EHPFICE 64 (302)
T ss_pred HHHHHHHHHHH-HCCCEEEEEcCCCHHHHHHHHHHhCC---CCeEEEe
Confidence 56788898887 57999999999999999988888773 3487754
No 92
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=24.40 E-value=2.5e+02 Score=19.55 Aligned_cols=53 Identities=11% Similarity=0.101 Sum_probs=32.1
Q ss_pred HHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe---hHHHHHHHHHHHHhhh
Q psy963 19 VGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT---RLVADRIRHTLDIRER 89 (128)
Q Consensus 19 ~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt---e~~a~~ir~~i~~~~~ 89 (128)
.-|+..|++- ..-...+|.+++.++..+. +.-+|.|+ +...+.+++.++.++.
T Consensus 21 ~~l~~~G~~v--------------i~lG~~vp~e~~~~~a~~~----~~d~V~iS~~~~~~~~~~~~~~~~L~~ 76 (122)
T cd02071 21 RALRDAGFEV--------------IYTGLRQTPEEIVEAAIQE----DVDVIGLSSLSGGHMTLFPEVIELLRE 76 (122)
T ss_pred HHHHHCCCEE--------------EECCCCCCHHHHHHHHHHc----CCCEEEEcccchhhHHHHHHHHHHHHh
Confidence 3467778863 2223346667776666543 33344444 5567778888888874
No 93
>PF12163 HobA: DNA replication regulator; InterPro: IPR021011 This family of proteins is found exclusively in epsilon-proteobacteria. Proteins in this family are approximately 180 amino acids in length. The crystal structure of HobA from Helicobacter pylori has been reported at 1.7A resolution; HobA represents a modified Rossmann fold consisting of a five-stranded parallel beta-sheet (beta1-5) flanked on one side by alpha-2, alpha-3 and alpha-6 helices and alpha-4 and alpha-5 on the other. The alpha-1 helix is extended away from and has minimal interaction with the globular part of the protein. Four monomers interact to form a tetrameric molecule. Four calcium atoms bind to the tetramer and these binding sites may have functional relevance. The closest structural homologue of HobA is a sugar isomerase (SIS) domain containing protein, the phosphoheptose isomerase from Pseudomonas aeruginosa. The SIS proteins share strong sequence homology with DiaA from Escherichia coli; yet, HobA and DiaA share no sequence homology []. HobA is a novel protein essential for initiation of H. pylori chromosome replication. It interacts specifically via DnaA with the oriC-DnaA complex. It is possible that HobA is essential for the correct formation and stabilisation of the orisome by facilitating the spatial positioning of DnaA at oriC [].; PDB: 2UVP_D 2WP0_A.
Probab=24.34 E-value=1.9e+02 Score=22.83 Aligned_cols=47 Identities=19% Similarity=0.272 Sum_probs=28.3
Q ss_pred HHHHHHHHhcCCCeEEEEEehHHHHHHHH-HHHHhhhCCCccc--EEEEcCC
Q psy963 54 IEDAFRTLVRRTDVGIVLITRLVADRIRH-TLDIRERSNQVYP--IVLEIPS 102 (128)
Q Consensus 54 i~~~~~~l~~~~digIIiIte~~a~~ir~-~i~~~~~~~~~~P--~IveIPs 102 (128)
+.++++.++ +...+|++|+.--+...+ .+..++..+...| =|+.|++
T Consensus 33 ~a~~l~~il--~G~s~iliTD~~R~WF~~Yil~~IN~~~~~RP~lPi~~l~~ 82 (180)
T PF12163_consen 33 IASALSHIL--NGGSFILITDEEREWFEEYILSNINNSHKNRPLLPIFSLKS 82 (180)
T ss_dssp HHHHHHHHH--TT-EEEEEE-GGGHHHHHHHHHHHS-SSTTS----EEESTT
T ss_pred HHHHHHHHh--CCCeEEEEeCchhHHHHHHHHHhcCcccCCCCcceEEeccc
Confidence 567888888 378999999987666666 3455553336677 2445555
No 94
>PRK12562 ornithine carbamoyltransferase subunit F; Provisional
Probab=24.17 E-value=2.7e+02 Score=23.56 Aligned_cols=22 Identities=18% Similarity=0.188 Sum_probs=16.6
Q ss_pred ceEEEEEech------hhHHHHHhhCcc
Q psy963 6 LQLVGLIGDE------DSVVGFLLGGIG 27 (128)
Q Consensus 6 ~~kIaVIgD~------dtv~GFrLaGi~ 27 (128)
..+|+++||- ..+.++...|++
T Consensus 156 gl~va~vGD~~~~v~~S~~~~~~~~G~~ 183 (334)
T PRK12562 156 EMTLVYAGDARNNMGNSMLEAAALTGLD 183 (334)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHcCCE
Confidence 4799999993 346677777885
No 95
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=23.87 E-value=3.5e+02 Score=21.34 Aligned_cols=54 Identities=7% Similarity=-0.003 Sum_probs=37.0
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEeh--HHHHHHHHHHHHhhhCCCcccEEEEc
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLITR--LVADRIRHTLDIRERSNQVYPIVLEI 100 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiIte--~~a~~ir~~i~~~~~~~~~~P~IveI 100 (128)
+++.|...+++...++.++|+.++.+-+|+=.- ..+..+.+.+++ ...|.|...
T Consensus 42 lv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~a~~~~~~~-----~~ip~i~~~ 97 (332)
T cd06344 42 VVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATLAALDIYQK-----AKLVLISPT 97 (332)
T ss_pred EEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHHHHHHHHhh-----cCceEEccC
Confidence 567788888899999999999877776665432 244455566655 446777643
No 96
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=23.76 E-value=1.9e+02 Score=19.92 Aligned_cols=39 Identities=10% Similarity=0.140 Sum_probs=29.7
Q ss_pred CCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEEcCCC
Q psy963 64 RTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPSA 103 (128)
Q Consensus 64 ~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~IveIPs~ 103 (128)
+.....|||.+++.+..+..+..+-.. ...|++...+++
T Consensus 30 ~gkaklViiA~D~~~~~~~~i~~~c~~-~~Ip~~~~~~tk 68 (99)
T PRK01018 30 LGKAKLVIVASNCPKDIKEDIEYYAKL-SGIPVYEYEGSS 68 (99)
T ss_pred cCCceEEEEeCCCCHHHHHHHHHHHHH-cCCCEEEECCCH
Confidence 577999999999988888888777544 567887655554
No 97
>PRK04017 hypothetical protein; Provisional
Probab=23.36 E-value=3.2e+02 Score=20.35 Aligned_cols=24 Identities=13% Similarity=0.234 Sum_probs=15.0
Q ss_pred cCCCeEEEEEeh------HHHHHHHHHHHH
Q psy963 63 RRTDVGIVLITR------LVADRIRHTLDI 86 (128)
Q Consensus 63 ~~~digIIiIte------~~a~~ir~~i~~ 86 (128)
....-+||++|. +++..+.+.+..
T Consensus 62 a~~~r~VIILTD~D~~GekIr~~l~~~l~~ 91 (132)
T PRK04017 62 ASRGKEVIILTDFDRKGEELAKKLSEYLQG 91 (132)
T ss_pred HhcCCeEEEEECCCcchHHHHHHHHHHHHh
Confidence 346669999997 455555554443
No 98
>cd02525 Succinoglycan_BP_ExoA ExoA is involved in the biosynthesis of succinoglycan. Succinoglycan Biosynthesis Protein ExoA catalyzes the formation of a beta-1,3 linkage of the second sugar (glucose) of the succinoglycan with the galactose on the lipid carrie. Succinoglycan is an acidic exopolysaccharide that is important for invasion of the nodules. Succinoglycan is a high-molecular-weight polymer composed of repeating octasaccharide units. These units are synthesized on membrane-bound isoprenoid lipid carriers, beginning with galactose followed by seven glucose molecules, and modified by the addition of acetate, succinate, and pyruvate. ExoA is a membrane protein with a transmembrance domain at c-terminus.
Probab=23.27 E-value=2e+02 Score=21.06 Aligned_cols=37 Identities=16% Similarity=0.260 Sum_probs=17.8
Q ss_pred HHHHHHHHHHhcC----CCeEEEEEehHHHHHHHHHHHHhh
Q psy963 52 DEIEDAFRTLVRR----TDVGIVLITRLVADRIRHTLDIRE 88 (128)
Q Consensus 52 eei~~~~~~l~~~----~digIIiIte~~a~~ir~~i~~~~ 88 (128)
+.+.+.|+.+.+. .++-||++...-.+...+.+..+.
T Consensus 13 ~~l~~~l~sl~~q~~~~~~~evivvd~~s~d~~~~~~~~~~ 53 (249)
T cd02525 13 KYIEELLESLLNQSYPKDLIEIIVVDGGSTDGTREIVQEYA 53 (249)
T ss_pred hhHHHHHHHHHhccCCCCccEEEEEeCCCCccHHHHHHHHH
Confidence 4555555555432 244566665444444444444443
No 99
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=23.27 E-value=1.2e+02 Score=27.28 Aligned_cols=52 Identities=8% Similarity=0.196 Sum_probs=37.7
Q ss_pred ccceEEEEEechhhHHHHH----hhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEE
Q psy963 4 EVLQLVGLIGDEDSVVGFL----LGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVL 71 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GFr----LaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIi 71 (128)
....+|||||=..++.|++ +.|++= ..|..++. +|++..++++.+ ..|.+|+
T Consensus 105 ~~~~~iavv~~~~~~~~~~~~~~~l~~~i-----------~~~~~~~~----~e~~~~v~~lk~-~G~~~vv 160 (538)
T PRK15424 105 KLTSSIGVVTYQETIPALVAFQKTFNLRI-----------EQRSYVTE----EDARGQINELKA-NGIEAVV 160 (538)
T ss_pred hcCCcEEEEecCcccHHHHHHHHHhCCce-----------EEEEecCH----HHHHHHHHHHHH-CCCCEEE
Confidence 3457899999999999987 346652 23555554 899999998874 6666665
No 100
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=23.10 E-value=3.3e+02 Score=21.72 Aligned_cols=54 Identities=15% Similarity=0.140 Sum_probs=36.5
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--hHHHHHHHHHHHHhhhCCCcccEEEEc
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--RLVADRIRHTLDIRERSNQVYPIVLEI 100 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--e~~a~~ir~~i~~~~~~~~~~P~IveI 100 (128)
+.+.|...+++...+..++++.++++-.|+=. ...+..+.+.+++ ...|+|-+-
T Consensus 50 l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~~s~~~~~~~~~~~~-----~~ip~i~~~ 105 (362)
T cd06343 50 LIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGLGTPTNLAVQKYLNE-----KKVPQLFPA 105 (362)
T ss_pred EEEecCCCChHHHHHHHHHHHhhcCeEEEEecCCcHHHHHhHHHHHh-----cCCceEecc
Confidence 45667777788899999999977776666632 4445555555555 447887753
No 101
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=23.02 E-value=2.1e+02 Score=20.05 Aligned_cols=43 Identities=12% Similarity=0.268 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEE
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLE 99 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~Ive 99 (128)
+.++++++ +..+.+|++.+++++..++.+..+-.. ...|.+..
T Consensus 23 ~~v~~aik----~gk~~lVI~A~D~s~~~kkki~~~~~~-~~vp~~~~ 65 (104)
T PRK05583 23 NKCEEAIK----KKKVYLIIISNDISENSKNKFKNYCNK-YNIPYIEG 65 (104)
T ss_pred HHHHHHHH----cCCceEEEEeCCCCHhHHHHHHHHHHH-cCCCEEEe
Confidence 55555544 567999999999999999988876322 45676655
No 102
>cd01973 Nitrogenase_VFe_beta_like Nitrogenase_VFe_beta -like: Nitrogenase VFe protein, beta subunit like. This group contains proteins similar to the beta subunits of the VFe protein of the vanadium-dependent (V-) nitrogenase. Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V-nitrogenase there is a molybdenum (Mo)-dependent nitrogenase and an iron only (Fe-) nitrogenase. The Mo-nitrogenase is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe p
Probab=22.99 E-value=4e+02 Score=23.26 Aligned_cols=22 Identities=23% Similarity=0.329 Sum_probs=18.1
Q ss_pred ceEEEEEechhhHHHHHh----hCcc
Q psy963 6 LQLVGLIGDEDSVVGFLL----GGIG 27 (128)
Q Consensus 6 ~~kIaVIgD~dtv~GFrL----aGi~ 27 (128)
.+|+++.||++.+.|+.= .|++
T Consensus 305 Gkrv~i~g~~~~~~~l~~fl~elGm~ 330 (454)
T cd01973 305 NKKVAIFGHPDLVIGLAEFCLEVEMK 330 (454)
T ss_pred CCeEEEEcCHHHHHHHHHHHHHCCCe
Confidence 578999999999988765 6776
No 103
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=22.94 E-value=3.5e+02 Score=22.43 Aligned_cols=53 Identities=19% Similarity=0.286 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhcCC-CeEEEEEehH------HHHHHHHHHHHhhhCCCcccEEEEcCCCCCC
Q psy963 51 ADEIEDAFRTLVRRT-DVGIVLITRL------VADRIRHTLDIRERSNQVYPIVLEIPSALDA 106 (128)
Q Consensus 51 ~eei~~~~~~l~~~~-digIIiIte~------~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~ 106 (128)
.+.+.+.|+.+..++ .=||++.=+. .++.|.++|.+++.+ + |+++.+|+---|
T Consensus 82 ~~~~~~~l~~~~~~~~vk~vvL~inSPGG~v~as~~i~~~l~~l~~~-~--PV~v~v~~~AAS 141 (317)
T COG0616 82 GDDIEEILRAARADPSVKAVVLRINSPGGSVVASELIARALKRLRAK-K--PVVVSVGGYAAS 141 (317)
T ss_pred HHHHHHHHHHHhcCCCCceEEEEEECcCCchhHHHHHHHHHHHHhhc-C--CEEEEECCeecc
Confidence 378888899888755 3455554332 688999999999854 2 999999986544
No 104
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=22.87 E-value=2.4e+02 Score=23.07 Aligned_cols=58 Identities=9% Similarity=0.078 Sum_probs=43.5
Q ss_pred ccceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHH
Q psy963 4 EVLQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRH 82 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~ 82 (128)
+...||+|++|.+.+.-=+-||.+ |+. . ||+.+..+.-- ..|+-+++.|.++...++.
T Consensus 70 gk~vrV~Vfa~g~~~~~A~~AGad--------------~Vg-~-----edl~e~ik~~r-~~~fD~~IAtpdmM~~v~~ 127 (228)
T COG0081 70 GKTVRVAVFADGEKAEEAKAAGAD--------------YVG-G-----EDLIELIKNGR-AKDFDVFIATPDMMPLVGK 127 (228)
T ss_pred CCccEEEEEcChHhHHHHHHcCCC--------------Eec-H-----HHHHHHHhCcc-hhcCCEEEECchHHHHHHH
Confidence 556899999999999999999997 443 1 56665555431 3578889999998888844
No 105
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=22.61 E-value=2.9e+02 Score=22.10 Aligned_cols=57 Identities=11% Similarity=0.144 Sum_probs=41.9
Q ss_pred ccceEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHH
Q psy963 4 EVLQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRH 82 (128)
Q Consensus 4 ~~~~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~~a~~ir~ 82 (128)
....+|+|+||.+...==+-+|+. ++ +. +|+.+.+++= .-+|-.++-|.++...+..
T Consensus 69 gk~~kI~Vfa~~~~~~~Ak~aGa~---------------~v-g~----eeLi~~ik~~--~~~fd~~iat~~~m~~l~~ 125 (230)
T PRK05424 69 GKTVRVAVFAKGEKAEEAKAAGAD---------------IV-GG----EDLIEKIKGG--WLDFDVVIATPDMMGKVGK 125 (230)
T ss_pred CCCcEEEEECChHhHHHHHHcCCC---------------Ee-CH----HHHHHHHhcC--CCcCCEEEECHHHHHHHHH
Confidence 355799999998888777889985 23 43 7777766532 3368888999988887765
No 106
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=22.60 E-value=3.2e+02 Score=20.16 Aligned_cols=81 Identities=14% Similarity=0.078 Sum_probs=41.4
Q ss_pred ceEEEEEechhh--HHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcC-CC-eEEEEEehHHHHHHH
Q psy963 6 LQLVGLIGDEDS--VVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRR-TD-VGIVLITRLVADRIR 81 (128)
Q Consensus 6 ~~kIaVIgD~dt--v~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~-~d-igIIiIte~~a~~ir 81 (128)
.++|+++++... ...-|..|+...=..... .. ..+.+.....+.++..+++++++++ ++ -||+..+...+..+-
T Consensus 116 ~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~ 193 (268)
T cd01575 116 YRRIGFLGARMDDTRAQQRLEGFRAALRAAGL-DP-PLVVTTPEPSSFALGRELLAELLARWPDLDAVFCSNDDLALGAL 193 (268)
T ss_pred CCcEEEecCCCCcccHHHHHHHHHHHHHHcCC-CC-CceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHH
Confidence 467999988542 333445444321000000 00 1122222223456778888888854 23 466666667776666
Q ss_pred HHHHHhh
Q psy963 82 HTLDIRE 88 (128)
Q Consensus 82 ~~i~~~~ 88 (128)
..+.+..
T Consensus 194 ~~l~~~g 200 (268)
T cd01575 194 FECQRRG 200 (268)
T ss_pred HHHHHhC
Confidence 6565543
No 107
>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit. This family contains a split seen both in a maximum parsimony tree (which ignores gaps) and in the gap pattern near position 85 of the seed alignment. Eukaryotic and most bacterial sequences are longer and contain a region similar to TXQTXXXG. Sequences from Deinococcus radiodurans, Mycobacterium tuberculosis, Streptomyces coelicolor, and the Archaea are 6 amino acids shorter in that region and contain a motif resembling [KR]G
Probab=22.33 E-value=4.7e+02 Score=21.93 Aligned_cols=59 Identities=22% Similarity=0.375 Sum_probs=37.8
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--------hHHHHHHHHHHHHhhhCCCcccEEEEcCC
Q psy963 41 NVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--------RLVADRIRHTLDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 41 ~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--------e~~a~~ir~~i~~~~~~~~~~P~IveIPs 102 (128)
||+=.....+++.+.++|+.+++++++..|++. +.+++.+.+...++. ...|+++-+.+
T Consensus 285 NplDlgg~a~~~~~~~al~~l~~dp~vd~ilv~i~gg~~~~~~va~~i~~a~~~~~---~~kPvvv~~~g 351 (386)
T TIGR01016 285 NFLDVGGGASAERVREALKLVLSDKSVKVVFINIFGGITRCDLVAKGLVEALKEVG---VNVPVVVRLEG 351 (386)
T ss_pred CcEEecCCCCHHHHHHHHHHHHcCCCCCEEEEECCCCCCCHHHHHHHHHHHHHhcC---CCCcEEEEeCC
Confidence 556223346679999999999999999888863 124444444333322 23698887743
No 108
>PF13714 PEP_mutase: Phosphoenolpyruvate phosphomutase; PDB: 1ZLP_A 3EOO_C 1UJQ_D 1O5Q_A 2DUA_A 2HJP_A 2HRW_A 2QIW_A 3KZ2_B 3IH1_B ....
Probab=21.71 E-value=4.2e+02 Score=21.18 Aligned_cols=99 Identities=12% Similarity=0.126 Sum_probs=55.6
Q ss_pred hhhHHHHHhhCccccccCCCCc-cccceEEEeCCCCCHHHHHHHHHHHhc---CCCeEEEEEehHH---HHHHHHHHHHh
Q psy963 15 EDSVVGFLLGGIGHQTITPPLQ-TVTSNVFVVDKETPADEIEDAFRTLVR---RTDVGIVLITRLV---ADRIRHTLDIR 87 (128)
Q Consensus 15 ~dtv~GFrLaGi~~~~~~~~~~-~~~~~~~v~~~~t~~eei~~~~~~l~~---~~digIIiIte~~---a~~ir~~i~~~ 87 (128)
..||..|--+|+-|+...-|+. |... -+ .+.+|....++...+ +.++-|+.=|+-+ ...+.+.|++.
T Consensus 88 ~~tv~~~~~aG~agi~IEDq~~~~~~~--~l----~~~ee~~~kI~Aa~~a~~~~~~~I~ARTDa~~~~~~~~deaI~R~ 161 (238)
T PF13714_consen 88 ARTVRELERAGAAGINIEDQRCGHGGK--QL----VSPEEMVAKIRAAVDARRDPDFVIIARTDAFLRAEEGLDEAIERA 161 (238)
T ss_dssp HHHHHHHHHCT-SEEEEESBSTTTSTT---B------HHHHHHHHHHHHHHHSSTTSEEEEEECHHCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCcEEEeeccccCCCCC--ce----eCHHHHHHHHHHHHHhccCCeEEEEEeccccccCCCCHHHHHHHH
Confidence 5678888899998753222200 1111 11 145888888887763 4566555556664 46777777766
Q ss_pred hhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhccCC
Q psy963 88 ERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIATLP 125 (128)
Q Consensus 88 ~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~~~~ 125 (128)
+.=...--=.+.||+... .+.+.+.++++ ..|
T Consensus 162 ~aY~eAGAD~ifi~~~~~-----~~~i~~~~~~~-~~P 193 (238)
T PF13714_consen 162 KAYAEAGADMIFIPGLQS-----EEEIERIVKAV-DGP 193 (238)
T ss_dssp HHHHHTT-SEEEETTSSS-----HHHHHHHHHHH-SSE
T ss_pred HHHHHcCCCEEEeCCCCC-----HHHHHHHHHhc-CCC
Confidence 531011223666887744 25577888877 554
No 109
>PRK07714 hypothetical protein; Provisional
Probab=21.56 E-value=1.8e+02 Score=19.98 Aligned_cols=46 Identities=9% Similarity=0.101 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhhhCCCcccEEEEcCCC
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPSA 103 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~~~~~~~P~IveIPs~ 103 (128)
+++.++++ +....++|+.+++.+..++.+..+-.. ...|.+. .+++
T Consensus 24 ~~v~~al~----~g~~~lViiA~D~s~~~~~ki~~~~~~-~~vp~~~-~~sk 69 (100)
T PRK07714 24 ELVLKEVR----SGKAKLVLLSEDASVNTTKKITDKCTY-YNVPMRK-VENR 69 (100)
T ss_pred HHHHHHHH----hCCceEEEEeCCCCHHHHHHHHHHHHh-cCCCEEE-eCCH
Confidence 55555544 567899999999999998888775322 4568764 4554
No 110
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=21.51 E-value=3.4e+02 Score=20.02 Aligned_cols=67 Identities=15% Similarity=0.164 Sum_probs=39.4
Q ss_pred eEEEEEechhhHHHHHhhCccccccCCCCccccceEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEehH--HHHHHHHHH
Q psy963 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRL--VADRIRHTL 84 (128)
Q Consensus 7 ~kIaVIgD~dtv~GFrLaGi~~~~~~~~~~~~~~~~~v~~~~t~~eei~~~~~~l~~~~digIIiIte~--~a~~ir~~i 84 (128)
..+-|+=..+-..-.+-+|+.++ |.+........+..+.++... ..-|||++|+. --++||..+
T Consensus 10 ~~vIVVEGK~D~~~l~~~~~~~~------------i~~~g~~i~~~~~ie~i~~~~--~~k~VIILTD~D~~Ge~Irk~l 75 (127)
T COG1658 10 KEVIVVEGKDDTASLKRLGDAGV------------IITNGSAINSLETIELIKKAQ--KYKGVIILTDPDRKGERIRKKL 75 (127)
T ss_pred CceEEEeCCcHHHHHHHhcCCce------------EEEcCCccchHHHHHHHHHhh--ccCCEEEEeCCCcchHHHHHHH
Confidence 34556666666777888888763 666555434344444455444 45678888854 244555544
Q ss_pred HHh
Q psy963 85 DIR 87 (128)
Q Consensus 85 ~~~ 87 (128)
.+|
T Consensus 76 ~~~ 78 (127)
T COG1658 76 KEY 78 (127)
T ss_pred HHH
Confidence 444
No 111
>PRK14177 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.36 E-value=1.6e+02 Score=24.58 Aligned_cols=28 Identities=25% Similarity=0.420 Sum_probs=19.7
Q ss_pred eCCCCCHHHHHHHHHHHhcCCCe-EEEEE
Q psy963 45 VDKETPADEIEDAFRTLVRRTDV-GIVLI 72 (128)
Q Consensus 45 ~~~~t~~eei~~~~~~l~~~~di-gIIiI 72 (128)
.++.++++|+.+.++++-+++++ |||+-
T Consensus 70 l~~~~s~~el~~~I~~lN~D~~V~GIlvq 98 (284)
T PRK14177 70 LKEQTTTEELLGVIDKLNLDPNVDGILLQ 98 (284)
T ss_pred CCCCCCHHHHHHHHHHHhCCCCCCeEEEc
Confidence 35556678888888888777776 66654
No 112
>cd02974 AhpF_NTD_N Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction of hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD forming two contiguous TRX-fold subdomain similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The N-terminal TRX-fold subdomain of AhpF NTD is redox inactive, but is proposed to contain an important residue that aids in the catalytic function of the redox-active CXXC motif contained in the C-terminal TRX-
Probab=21.19 E-value=1.8e+02 Score=20.01 Aligned_cols=35 Identities=11% Similarity=0.123 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhcCCCeEEEEEeh--HHHHHHHHHHHHhh
Q psy963 52 DEIEDAFRTLVRRTDVGIVLITR--LVADRIRHTLDIRE 88 (128)
Q Consensus 52 eei~~~~~~l~~~~digIIiIte--~~a~~ir~~i~~~~ 88 (128)
++++..|.++ ...|-+++-+. ...+.+++.++++.
T Consensus 8 ~qL~~~f~~l--~~pV~l~~f~~~~~~~~e~~~ll~e~a 44 (94)
T cd02974 8 QQLKAYLERL--ENPVELVASLDDSEKSAELLELLEEIA 44 (94)
T ss_pred HHHHHHHHhC--CCCEEEEEEeCCCcchHHHHHHHHHHH
Confidence 4555555543 35677766653 45666677666665
No 113
>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type. E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.
Probab=21.17 E-value=4.1e+02 Score=24.14 Aligned_cols=53 Identities=15% Similarity=0.302 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhcCCCeEEEEEe-------hHHHHHHHHHHHHhhhCCCcccEEEEcCCCCC
Q psy963 51 ADEIEDAFRTLVRRTDVGIVLIT-------RLVADRIRHTLDIRERSNQVYPIVLEIPSALD 105 (128)
Q Consensus 51 ~eei~~~~~~l~~~~digIIiIt-------e~~a~~ir~~i~~~~~~~~~~P~IveIPs~~g 105 (128)
.+.+.+.|+++..++++.-|++. -..++.|+++|..++. ...|+|..+-+.-.
T Consensus 331 ~~~~~~~l~~a~~D~~VkaIVLrinSpGGs~~ase~i~~~i~~~~~--~gKPVva~~~g~aa 390 (584)
T TIGR00705 331 GDTVAALLRVARSDPDIKAVVLRINSPGGSVFASEIIRRELARAQA--RGKPVIVSMGAMAA 390 (584)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEecCCCCCHHHHHHHHHHHHHHHh--CCCcEEEEECCccc
Confidence 47888999999888888777776 2468889999998874 34899998866443
No 114
>cd07093 ALDH_F8_HMSADH Human aldehyde dehydrogenase family 8 member A1-like. In humans, the aldehyde dehydrogenase family 8 member A1 (ALDH8A1) protein functions to convert 9-cis-retinal to 9-cis-retinoic acid and has a preference for NAD+. Also included in this CD is the 2-hydroxymuconic semialdehyde dehydrogenase (HMSADH) which catalyzes the conversion of 2-hydroxymuconic semialdehyde to 4-oxalocrotonate, a step in the meta cleavage pathway of aromatic hydrocarbons in bacteria. Such HMSADHs seen here are: XylG of the TOL plasmid pWW0 of Pseudomonas putida, TomC of Burkholderia cepacia G4, and AphC of Comamonas testosterone.
Probab=21.11 E-value=4.1e+02 Score=22.56 Aligned_cols=60 Identities=18% Similarity=0.211 Sum_probs=42.1
Q ss_pred HHHHhcCCCeEEEEEehH--HHHHHHHHHHHhhhCCCcccEEEEcCCCCCCCCCCCchHHHHHHhhc
Q psy963 58 FRTLVRRTDVGIVLITRL--VADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYTITDEDKQCRNIA 122 (128)
Q Consensus 58 ~~~l~~~~digIIiIte~--~a~~ir~~i~~~~~~~~~~P~IveIPs~~g~~~~~~~~i~k~~~~~~ 122 (128)
-..|+..+++..|+.|-. ....+.....+ ...|+++|.++++-.+=....++++.++.|+
T Consensus 188 ~~~L~~~~~i~~V~ftGs~~~g~~v~~~aa~-----~~~~~~lelgG~~~~iV~~dAdl~~a~~~i~ 249 (455)
T cd07093 188 GAALVAHPDVDLISFTGETATGRTIMRAAAP-----NLKPVSLELGGKNPNIVFADADLDRAVDAAV 249 (455)
T ss_pred HHHHhcCCCccEEEEECCHHHHHHHHHHHhh-----cccceEeecCCCCceEECCCCCHHHHHHHHH
Confidence 344666778888888854 45555544333 4579999999988766555567888888876
No 115
>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional
Probab=21.01 E-value=3.8e+02 Score=22.50 Aligned_cols=59 Identities=19% Similarity=0.395 Sum_probs=35.7
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--------hHHHHHHHHHHHHhhhCCCcccEEEEcCC
Q psy963 41 NVFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--------RLVADRIRHTLDIRERSNQVYPIVLEIPS 102 (128)
Q Consensus 41 ~~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--------e~~a~~ir~~i~~~~~~~~~~P~IveIPs 102 (128)
|++=.....+++....+++.+++++++..|++. +.+++.+.+...+.. ...|+++.+.+
T Consensus 285 NPvDl~g~~~~e~~~~aL~~l~~d~~vd~vlv~~~~~~~~~~~va~~i~~~~~~~~---~~kPvv~~~~g 351 (388)
T PRK00696 285 NFLDVGGGATAERVAEAFKIILSDPNVKAILVNIFGGITRCDVIAEGIIAAVKEVG---VTVPLVVRLEG 351 (388)
T ss_pred CeEEecCCCCHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCHHHHHHHHHHHHHhcC---CCCcEEEEeCC
Confidence 445213335679999999999998888777642 234444443332211 35688777644
No 116
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=20.96 E-value=4e+02 Score=21.00 Aligned_cols=54 Identities=17% Similarity=0.161 Sum_probs=36.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHhcCCCeEEEEEe--hHHHHHHHHHHHHhhhCCCcccEEEEc
Q psy963 42 VFVVDKETPADEIEDAFRTLVRRTDVGIVLIT--RLVADRIRHTLDIRERSNQVYPIVLEI 100 (128)
Q Consensus 42 ~~v~~~~t~~eei~~~~~~l~~~~digIIiIt--e~~a~~ir~~i~~~~~~~~~~P~IveI 100 (128)
+.+.|...+++...++.++|+.++++-+|+=. ......+.+.+++ ...|+|..-
T Consensus 42 l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~~a~~~~~~~-----~~vp~i~~~ 97 (334)
T cd06327 42 LVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVALAVQEVARE-----KKKIYIVTG 97 (334)
T ss_pred EEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHHHHHHHHHHH-----hCceEEecC
Confidence 55667777788999999999987777766653 3344455555555 446777643
No 117
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=20.79 E-value=4.3e+02 Score=22.51 Aligned_cols=18 Identities=11% Similarity=-0.014 Sum_probs=14.6
Q ss_pred cceEEEEEechhhHHHHH
Q psy963 5 VLQLVGLIGDEDSVVGFL 22 (128)
Q Consensus 5 ~~~kIaVIgD~dtv~GFr 22 (128)
..+++++.||.+.+.++.
T Consensus 273 ~Gkrv~i~gd~~~~~~l~ 290 (407)
T TIGR01279 273 RGKKIFFFGDNLLELPLA 290 (407)
T ss_pred CCCEEEEECCchHHHHHH
Confidence 358899999998887764
No 118
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=20.14 E-value=4e+02 Score=22.07 Aligned_cols=22 Identities=18% Similarity=0.252 Sum_probs=17.3
Q ss_pred ceEEEEEec-----hhhHHHHHhhCcc
Q psy963 6 LQLVGLIGD-----EDSVVGFLLGGIG 27 (128)
Q Consensus 6 ~~kIaVIgD-----~dtv~GFrLaGi~ 27 (128)
..+|+++|| ...+.++...|++
T Consensus 147 g~kva~vGD~~~v~~S~~~~~~~~g~~ 173 (302)
T PRK14805 147 KVKLAYVGDGNNVTHSLMYGAAILGAT 173 (302)
T ss_pred CcEEEEEcCCCccHHHHHHHHHHcCCE
Confidence 478999999 4557777778886
No 119
>PF05193 Peptidase_M16_C: Peptidase M16 inactive domain; InterPro: IPR007863 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. These metallopeptidases belong to MEROPS peptidase family M16 (clan ME). They include proteins, which are classified as non-peptidase homologues either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. The peptidases in this group of sequences include: Insulinase, insulin-degrading enzyme (3.4.24.56 from EC) Mitochondrial processing peptidase alpha subunit, (Alpha-MPP, 3.4.24.64 from EC) Pitrlysin, Protease III precursor (3.4.24.55 from EC) Nardilysin, (3.4.24.61 from EC) Ubiquinol-cytochrome C reductase complex core protein I,mitochondrial precursor (1.10.2.2 from EC) Coenzyme PQQ synthesis protein F (3.4.99 from EC) These proteins do not share many regions of sequence similarity; the most noticeable is in the N-terminal section. This region includes a conserved histidine followed, two residues later by a glutamate and another histidine. In pitrilysin, it has been shown [] that this H-x-x-E-H motif is involved in enzymatic activity; the two histidines bind zinc and the glutamate is necessary for catalytic activity. The mitochondrial processing peptidase consists of two structurally related domains. One is the active peptidase whereas the other, the C-terminal region, is inactive. The two domains hold the substrate like a clamp [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 1BE3_B 1PP9_B 2A06_B 1SQB_B 1SQP_B 1L0N_B 1SQX_B 1NU1_B 1L0L_B 2FYU_B ....
Probab=20.13 E-value=2.8e+02 Score=18.92 Aligned_cols=39 Identities=8% Similarity=0.325 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHHhcCCCeEEEEEehHHHHHHHHHHHHhh
Q psy963 50 PADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDIRE 88 (128)
Q Consensus 50 ~~eei~~~~~~l~~~~digIIiIte~~a~~ir~~i~~~~ 88 (128)
+.+++.+.++++.......++++..--.+.+...++++-
T Consensus 3 t~e~l~~f~~~~y~p~n~~l~i~Gd~~~~~~~~~i~~~~ 41 (184)
T PF05193_consen 3 TLEDLRAFYKKFYRPSNMTLVIVGDIDPDELEKLIEKYF 41 (184)
T ss_dssp -HHHHHHHHHHHSSGGGEEEEEEESSGHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHhcCccceEEEEEcCccHHHHHHHHHhhh
Confidence 348999999999987788888888555555555555543
No 120
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=20.12 E-value=2.5e+02 Score=18.98 Aligned_cols=31 Identities=26% Similarity=0.467 Sum_probs=22.5
Q ss_pred EeCCCCCHHHHHHHHHHHhcCCCeEEEEEehH
Q psy963 44 VVDKETPADEIEDAFRTLVRRTDVGIVLITRL 75 (128)
Q Consensus 44 v~~~~t~~eei~~~~~~l~~~~digIIiIte~ 75 (128)
+.+.+.+.||+.+++.+.+...+ +++-+++.
T Consensus 15 ~ies~~s~dev~~~v~~Al~~~~-~~l~LtD~ 45 (74)
T PF11305_consen 15 VIESDQSADEVEAAVTDALADGS-GVLTLTDE 45 (74)
T ss_pred EEecCCCHHHHHHHHHHHHhCCC-ceEEEEeC
Confidence 33445578999999999997554 77777653
No 121
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=20.08 E-value=2.4e+02 Score=25.62 Aligned_cols=39 Identities=21% Similarity=0.417 Sum_probs=27.6
Q ss_pred EEEeCCCCC---HHHHHHHHHHHh--cCCCeEEEEEehHHHHHH
Q psy963 42 VFVVDKETP---ADEIEDAFRTLV--RRTDVGIVLITRLVADRI 80 (128)
Q Consensus 42 ~~v~~~~t~---~eei~~~~~~l~--~~~digIIiIte~~a~~i 80 (128)
+.+-|++|. |.|+++.|+.+- .++..+|||||-++.|-.
T Consensus 161 iLILDEPTaVLTP~E~~~lf~~l~~l~~~G~tIi~ITHKL~Ev~ 204 (501)
T COG3845 161 LLILDEPTAVLTPQEADELFEILRRLAAEGKTIIFITHKLKEVM 204 (501)
T ss_pred EEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeccHHHHH
Confidence 566666664 677777666553 478999999999886543
Done!