Query 037034
Match_columns 130
No_of_seqs 109 out of 526
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 07:56:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037034.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037034hhsearch_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 4.6E-35 1E-39 211.5 13.6 113 9-121 2-114 (115)
2 KOG3432 Vacuolar H+-ATPase V1 100.0 2E-35 4.3E-40 211.0 10.7 115 8-122 3-117 (121)
3 PRK03957 V-type ATP synthase s 100.0 1.1E-31 2.4E-36 189.1 11.9 99 13-125 1-99 (100)
4 PRK01395 V-type ATP synthase s 100.0 2E-31 4.4E-36 189.3 12.2 100 13-125 4-104 (104)
5 PRK02228 V-type ATP synthase s 100.0 4.3E-30 9.2E-35 181.0 11.5 98 13-126 1-100 (100)
6 PRK01189 V-type ATP synthase s 100.0 1.1E-28 2.4E-33 175.3 10.4 97 13-124 3-101 (104)
7 PF01990 ATP-synt_F: ATP synth 99.9 1.9E-26 4E-31 160.0 9.9 93 15-118 1-95 (95)
8 COG1436 NtpG Archaeal/vacuolar 99.9 1.9E-26 4.2E-31 164.0 8.7 99 12-125 2-103 (104)
9 COG4075 Uncharacterized conser 93.5 0.12 2.6E-06 36.9 3.9 71 24-100 28-102 (110)
10 PF10126 Nit_Regul_Hom: Unchar 89.2 0.76 1.6E-05 33.2 4.2 46 52-100 53-102 (110)
11 PLN00124 succinyl-CoA ligase [ 82.5 8.3 0.00018 33.5 8.0 62 41-102 319-388 (422)
12 cd02067 B12-binding B12 bindin 76.3 17 0.00037 25.0 6.7 84 26-127 22-108 (119)
13 PF00549 Ligase_CoA: CoA-ligas 72.7 9.7 0.00021 28.6 5.0 53 52-104 58-121 (153)
14 PRK06555 pyrophosphate--fructo 69.9 13 0.00027 32.4 5.7 35 44-78 236-270 (403)
15 COG0045 SucC Succinyl-CoA synt 69.3 34 0.00073 29.8 8.1 83 14-102 257-352 (387)
16 COG2074 2-phosphoglycerate kin 67.8 36 0.00078 28.5 7.6 36 90-128 86-121 (299)
17 PF07085 DRTGG: DRTGG domain; 64.5 13 0.00027 25.4 3.9 21 67-87 61-83 (105)
18 PRK14046 malate--CoA ligase su 63.4 66 0.0014 27.5 8.8 60 41-100 284-351 (392)
19 CHL00129 rpl1 ribosomal protei 62.9 44 0.00096 26.7 7.2 64 6-87 65-128 (229)
20 TIGR01169 rplA_bact ribosomal 62.8 43 0.00093 26.6 7.1 64 6-87 64-127 (227)
21 cd06340 PBP1_ABC_ligand_bindin 62.7 63 0.0014 25.9 8.2 71 21-97 17-100 (347)
22 cd06366 PBP1_GABAb_receptor Li 60.4 82 0.0018 25.1 8.5 70 21-96 15-95 (350)
23 PRK04203 rpl1P 50S ribosomal p 60.0 82 0.0018 24.7 8.2 65 8-88 54-124 (215)
24 PF13458 Peripla_BP_6: Peripla 59.5 55 0.0012 25.6 7.2 70 22-97 20-99 (343)
25 cd06332 PBP1_aromatic_compound 59.5 58 0.0013 25.4 7.3 70 22-97 18-95 (333)
26 cd06348 PBP1_ABC_ligand_bindin 58.8 90 0.0019 24.8 8.4 72 21-98 17-98 (344)
27 PF06506 PrpR_N: Propionate ca 58.0 55 0.0012 24.4 6.7 85 11-120 76-164 (176)
28 PLN02225 1-deoxy-D-xylulose-5- 56.6 6.5 0.00014 36.4 1.6 44 7-51 207-252 (701)
29 PRK09622 porA pyruvate flavodo 56.4 29 0.00063 29.7 5.5 54 12-74 8-61 (407)
30 TIGR01016 sucCoAbeta succinyl- 55.7 1.2E+02 0.0025 25.5 8.9 82 13-100 257-351 (386)
31 CHL00200 trpA tryptophan synth 55.7 1.1E+02 0.0024 24.8 8.5 74 19-104 107-182 (263)
32 PRK05424 rplA 50S ribosomal pr 55.5 60 0.0013 25.8 6.8 64 6-87 65-128 (230)
33 PRK14484 phosphotransferase ma 54.3 65 0.0014 23.4 6.3 51 68-119 2-55 (124)
34 cd06360 PBP1_alkylbenzenes_lik 53.8 91 0.002 24.4 7.6 53 43-97 41-95 (336)
35 PRK08366 vorA 2-ketoisovalerat 53.6 45 0.00097 28.6 6.1 52 14-74 3-54 (390)
36 cd02071 MM_CoA_mut_B12_BD meth 53.2 76 0.0016 22.2 7.2 56 25-91 21-77 (122)
37 PF01886 DUF61: Protein of unk 53.0 48 0.001 24.4 5.5 71 55-125 19-101 (132)
38 COG0157 NadC Nicotinate-nucleo 52.9 53 0.0011 27.3 6.2 66 52-129 198-263 (280)
39 PRK15404 leucine ABC transport 52.0 1.3E+02 0.0027 24.8 8.4 83 10-96 23-121 (369)
40 PRK00696 sucC succinyl-CoA syn 51.5 1.5E+02 0.0032 24.9 9.3 82 13-100 257-351 (388)
41 PF13419 HAD_2: Haloacid dehal 50.3 40 0.00086 23.3 4.6 68 53-123 80-149 (176)
42 PTZ00029 60S ribosomal protein 50.0 82 0.0018 24.8 6.7 63 8-87 57-125 (216)
43 KOG4175 Tryptophan synthase al 49.9 1.4E+02 0.0031 24.3 8.7 92 19-124 111-209 (268)
44 COG1154 Dxs Deoxyxylulose-5-ph 49.7 7.9 0.00017 35.4 1.0 50 5-54 131-182 (627)
45 PLN03194 putative disease resi 48.7 31 0.00067 27.0 4.0 36 53-88 68-105 (187)
46 PF13380 CoA_binding_2: CoA bi 48.7 31 0.00068 24.2 3.8 53 58-118 45-100 (116)
47 cd02070 corrinoid_protein_B12- 48.7 70 0.0015 24.4 6.1 81 25-127 104-190 (201)
48 COG0647 NagD Predicted sugar p 47.7 1.6E+02 0.0034 24.2 8.8 92 13-128 92-189 (269)
49 cd06382 PBP1_iGluR_Kainate N-t 46.2 1.4E+02 0.0031 23.5 7.7 80 14-97 1-93 (327)
50 TIGR03710 OAFO_sf 2-oxoacid:ac 46.0 79 0.0017 28.3 6.7 59 9-76 188-246 (562)
51 cd06353 PBP1_BmpA_Med_like Per 45.8 62 0.0014 25.5 5.5 63 11-75 119-187 (258)
52 cd01833 XynB_like SGNH_hydrola 45.5 85 0.0018 21.9 5.7 38 53-90 26-75 (157)
53 TIGR00706 SppA_dom signal pept 45.5 96 0.0021 23.7 6.4 52 51-102 14-72 (207)
54 PLN02235 ATP citrate (pro-S)-l 45.1 1.6E+02 0.0034 25.9 8.2 64 40-103 298-381 (423)
55 TIGR03336 IOR_alpha indolepyru 44.1 63 0.0014 28.9 5.8 54 14-76 2-55 (595)
56 cd01973 Nitrogenase_VFe_beta_l 43.2 1.3E+02 0.0027 26.2 7.4 24 11-34 304-331 (454)
57 PRK08367 porA pyruvate ferredo 42.4 62 0.0014 27.8 5.3 53 13-74 3-55 (394)
58 cd06335 PBP1_ABC_ligand_bindin 42.0 1.3E+02 0.0027 24.2 6.9 57 40-98 40-98 (347)
59 TIGR02836 spore_IV_A stage IV 41.9 97 0.0021 27.8 6.4 72 51-123 128-211 (492)
60 cd06358 PBP1_NHase Type I peri 41.7 1.2E+02 0.0026 24.1 6.6 55 40-97 40-96 (333)
61 cd06331 PBP1_AmiC_like Type I 41.7 1.3E+02 0.0028 23.8 6.8 75 21-98 17-98 (333)
62 cd00403 Ribosomal_L1 Ribosomal 41.5 1.5E+02 0.0032 22.5 6.8 88 11-121 51-144 (208)
63 PRK07896 nicotinate-nucleotide 41.5 94 0.002 25.8 6.1 64 53-128 210-274 (289)
64 cd06326 PBP1_STKc_like Type I 41.4 1.7E+02 0.0037 22.8 8.7 52 44-97 45-98 (336)
65 COG3412 Uncharacterized protei 41.2 1.5E+02 0.0032 22.0 6.5 51 68-118 3-55 (129)
66 cd07019 S49_SppA_1 Signal pept 40.6 1.2E+02 0.0026 23.3 6.2 51 51-101 22-80 (211)
67 PRK06696 uridine kinase; Valid 40.5 77 0.0017 24.3 5.2 41 77-120 6-46 (223)
68 COG5623 CLP1 Predicted GTPase 40.2 1.1E+02 0.0024 26.5 6.3 60 53-114 235-296 (424)
69 TIGR02364 dha_pts dihydroxyace 39.8 1.1E+02 0.0025 21.9 5.7 12 77-88 44-55 (125)
70 TIGR02717 AcCoA-syn-alpha acet 39.7 1.9E+02 0.004 25.0 7.9 72 49-127 352-432 (447)
71 cd06334 PBP1_ABC_ligand_bindin 39.7 2.1E+02 0.0045 23.3 8.1 71 21-97 17-96 (351)
72 cd06356 PBP1_Amide_Urea_BP_lik 39.1 1.5E+02 0.0033 23.6 6.9 70 21-96 17-96 (334)
73 PF01791 DeoC: DeoC/LacD famil 38.2 39 0.00085 26.2 3.2 56 50-106 15-71 (236)
74 PF09612 HtrL_YibB: Bacterial 38.1 1.3E+02 0.0028 24.9 6.3 52 52-103 26-79 (271)
75 PF08937 DUF1863: MTH538 TIR-l 37.4 56 0.0012 23.0 3.7 51 53-103 58-112 (130)
76 PRK06106 nicotinate-nucleotide 37.2 95 0.0021 25.6 5.4 63 52-128 204-266 (281)
77 PF05872 DUF853: Bacterial pro 37.1 51 0.0011 29.6 4.0 35 53-88 277-322 (502)
78 PF03709 OKR_DC_1_N: Orn/Lys/A 36.8 90 0.0019 21.7 4.6 44 53-99 27-75 (115)
79 PF01729 QRPTase_C: Quinolinat 36.8 56 0.0012 24.8 3.8 65 52-128 90-155 (169)
80 PRK09627 oorA 2-oxoglutarate-a 36.4 1E+02 0.0022 26.3 5.7 54 14-76 3-56 (375)
81 cd06357 PBP1_AmiC Periplasmic 36.1 1.7E+02 0.0037 23.7 6.8 70 21-96 17-96 (360)
82 TIGR01664 DNA-3'-Pase DNA 3'-p 36.0 1E+02 0.0022 22.8 5.0 59 4-76 7-67 (166)
83 PRK08659 2-oxoglutarate ferred 35.9 1.4E+02 0.003 25.4 6.4 51 13-74 3-53 (376)
84 cd07022 S49_Sppa_36K_type Sign 35.8 1.8E+02 0.004 22.2 6.6 50 52-101 27-83 (214)
85 PTZ00225 60S ribosomal protein 35.7 1.6E+02 0.0034 23.2 6.3 62 9-87 56-123 (214)
86 TIGR01334 modD putative molybd 35.2 1.3E+02 0.0029 24.7 6.0 65 52-128 198-263 (277)
87 PF11965 DUF3479: Domain of un 35.2 1.4E+02 0.003 22.8 5.7 44 57-100 49-94 (164)
88 PRK04115 hypothetical protein; 35.0 1.3E+02 0.0028 22.5 5.4 69 55-124 22-102 (137)
89 cd07014 S49_SppA Signal peptid 34.6 1.8E+02 0.0039 21.4 6.2 50 51-100 23-80 (177)
90 PRK07119 2-ketoisovalerate fer 33.9 79 0.0017 26.6 4.6 49 14-73 4-52 (352)
91 TIGR01286 nifK nitrogenase mol 33.7 2.1E+02 0.0046 25.4 7.4 58 12-78 363-427 (515)
92 cd06343 PBP1_ABC_ligand_bindin 33.6 1.8E+02 0.0039 23.2 6.5 56 40-97 47-104 (362)
93 PF09547 Spore_IV_A: Stage IV 33.2 1.9E+02 0.0041 26.0 6.9 100 24-125 98-213 (492)
94 cd06328 PBP1_SBP_like_2 Peripl 33.1 1.6E+02 0.0035 23.4 6.2 55 41-97 42-98 (333)
95 PRK12702 mannosyl-3-phosphogly 33.0 1.1E+02 0.0023 25.8 5.2 43 53-96 21-63 (302)
96 PF00185 OTCace: Aspartate/orn 32.8 1.2E+02 0.0025 22.4 4.9 22 12-33 2-29 (158)
97 cd06301 PBP1_rhizopine_binding 32.8 2E+02 0.0044 21.5 6.4 52 44-96 34-86 (272)
98 cd06330 PBP1_Arsenic_SBP_like 32.5 2.4E+02 0.0053 22.2 7.1 54 43-98 43-98 (346)
99 PRK12562 ornithine carbamoyltr 32.4 1.5E+02 0.0033 24.9 6.0 23 11-33 155-183 (334)
100 cd06344 PBP1_ABC_ligand_bindin 32.1 2.3E+02 0.0051 22.3 6.9 56 40-97 39-96 (332)
101 TIGR02370 pyl_corrinoid methyl 31.9 1.5E+02 0.0033 22.6 5.6 82 26-127 107-192 (197)
102 COG0081 RplA Ribosomal protein 31.9 1.5E+02 0.0033 23.9 5.7 59 8-82 68-126 (228)
103 cd06327 PBP1_SBP_like_1 Peripl 31.8 2.1E+02 0.0045 22.6 6.6 71 21-97 18-96 (334)
104 cd06355 PBP1_FmdD_like Peripla 31.8 2E+02 0.0042 23.2 6.5 71 21-97 17-97 (348)
105 TIGR03669 urea_ABC_arch urea A 31.3 2E+02 0.0043 23.8 6.6 69 22-96 19-97 (374)
106 cd06359 PBP1_Nba_like Type I p 31.0 1.7E+02 0.0037 23.1 6.0 71 21-97 17-95 (333)
107 PRK09029 O-succinylbenzoic aci 29.9 2E+02 0.0044 23.7 6.3 43 77-122 411-457 (458)
108 cd01575 PBP1_GntR Ligand-bindi 29.4 2.4E+02 0.0051 20.9 8.6 78 11-88 115-199 (268)
109 PRK06096 molybdenum transport 29.1 2E+02 0.0043 23.8 6.1 65 52-128 199-264 (284)
110 cd07018 S49_SppA_67K_type Sign 28.6 2.1E+02 0.0046 22.0 5.9 51 50-100 29-87 (222)
111 TIGR02329 propionate_PrpR prop 28.5 1.1E+02 0.0023 27.4 4.7 50 12-72 97-150 (526)
112 PF08484 Methyltransf_14: C-me 28.4 32 0.0007 25.8 1.2 34 65-99 126-160 (160)
113 PRK14166 bifunctional 5,10-met 28.1 2.4E+02 0.0051 23.3 6.4 52 15-73 35-95 (282)
114 PRK03202 6-phosphofructokinase 28.1 1.4E+02 0.0031 24.8 5.2 58 44-102 190-250 (320)
115 cd04195 GT2_AmsE_like GT2_AmsE 27.9 2E+02 0.0043 20.5 5.4 51 53-103 13-67 (201)
116 PRK04220 2-phosphoglycerate ki 27.9 1.1E+02 0.0023 25.6 4.4 31 90-123 89-119 (301)
117 cd04179 DPM_DPG-synthase_like 27.9 1.4E+02 0.003 20.9 4.5 65 53-121 10-80 (185)
118 PRK04175 rpl7ae 50S ribosomal 27.4 2.3E+02 0.0051 20.2 7.8 31 44-74 50-80 (122)
119 TIGR01170 rplA_mito ribosomal 27.3 2.6E+02 0.0056 20.6 7.6 63 8-88 48-112 (141)
120 PRK14805 ornithine carbamoyltr 27.1 2.2E+02 0.0049 23.4 6.1 23 11-33 146-173 (302)
121 cd00363 PFK Phosphofructokinas 27.0 1.8E+02 0.0038 24.4 5.5 51 51-102 205-265 (338)
122 cd06349 PBP1_ABC_ligand_bindin 26.9 3.2E+02 0.0069 21.6 8.3 72 21-98 17-98 (340)
123 COG2083 Uncharacterized protei 26.9 2E+02 0.0044 21.5 5.2 70 54-124 24-105 (140)
124 PF03796 DnaB_C: DnaB-like hel 26.5 1.2E+02 0.0027 23.6 4.3 32 43-74 105-137 (259)
125 PF14639 YqgF: Holliday-juncti 26.5 1.1E+02 0.0023 22.8 3.7 37 52-88 48-90 (150)
126 cd02525 Succinoglycan_BP_ExoA 26.5 2.1E+02 0.0046 20.9 5.4 49 53-101 13-65 (249)
127 COG1609 PurR Transcriptional r 26.1 3.4E+02 0.0074 22.1 7.0 81 12-93 175-264 (333)
128 PRK09875 putative hydrolase; P 26.0 3.7E+02 0.0081 22.1 8.4 84 23-115 39-143 (292)
129 PRK07200 aspartate/ornithine c 25.9 2.2E+02 0.0048 24.6 6.0 23 11-33 186-220 (395)
130 COG0218 Predicted GTPase [Gene 25.8 3.4E+02 0.0073 21.5 6.7 75 43-120 111-196 (200)
131 cd06337 PBP1_ABC_ligand_bindin 25.7 2.5E+02 0.0055 22.6 6.2 54 42-97 44-99 (357)
132 PF04989 CmcI: Cephalosporin h 25.6 28 0.0006 27.6 0.5 43 80-125 23-69 (206)
133 TIGR01452 PGP_euk phosphoglyco 25.5 3.4E+02 0.0074 21.4 9.2 102 12-123 85-196 (279)
134 CHL00076 chlB photochlorophyll 25.3 4.2E+02 0.0091 23.5 7.8 24 11-34 304-332 (513)
135 PF01297 TroA: Periplasmic sol 25.2 1.6E+02 0.0036 22.8 4.8 50 49-101 182-231 (256)
136 TIGR02014 BchZ chlorophyllide 24.9 1.2E+02 0.0027 26.7 4.4 54 12-76 280-341 (468)
137 PF00578 AhpC-TSA: AhpC/TSA fa 24.7 2.1E+02 0.0046 18.8 5.6 43 54-97 47-89 (124)
138 PF02585 PIG-L: GlcNAc-PI de-N 24.6 1.5E+02 0.0033 20.3 4.1 41 77-120 88-128 (128)
139 PRK10792 bifunctional 5,10-met 24.5 1.5E+02 0.0032 24.6 4.6 41 27-74 58-99 (285)
140 cd06368 PBP1_iGluR_non_NMDA_li 24.5 3.4E+02 0.0074 21.1 8.2 82 14-99 1-94 (324)
141 PF06309 Torsin: Torsin; Inte 24.2 1.2E+02 0.0027 22.2 3.6 61 53-120 17-77 (127)
142 PRK12549 shikimate 5-dehydroge 24.0 3.6E+02 0.0078 21.7 6.7 71 8-86 1-82 (284)
143 PRK02102 ornithine carbamoyltr 24.0 2.5E+02 0.0055 23.6 5.9 23 11-33 154-182 (331)
144 PRK15424 propionate catabolism 23.7 1.4E+02 0.0031 26.8 4.6 50 12-72 107-160 (538)
145 cd07393 MPP_DR1119 Deinococcus 23.5 2.7E+02 0.0058 21.4 5.7 63 53-118 29-97 (232)
146 PF12163 HobA: DNA replication 23.4 2E+02 0.0043 22.5 4.8 45 54-100 32-82 (180)
147 PRK07232 bifunctional malic en 23.2 1.8E+02 0.0039 27.4 5.3 77 9-89 59-149 (752)
148 PRK10653 D-ribose transporter 23.1 3.6E+02 0.0077 20.8 7.2 85 11-97 25-113 (295)
149 PRK01018 50S ribosomal protein 23.1 1.7E+02 0.0037 20.0 4.0 37 64-100 29-67 (99)
150 cd02069 methionine_synthase_B1 23.1 1.6E+02 0.0035 22.9 4.3 87 25-127 110-200 (213)
151 COG0036 Rpe Pentose-5-phosphat 23.0 4E+02 0.0087 21.4 7.9 74 44-129 114-198 (220)
152 PRK12749 quinate/shikimate deh 22.7 2.6E+02 0.0056 22.7 5.6 67 10-86 5-79 (288)
153 PHA02591 hypothetical protein; 22.7 1.4E+02 0.0029 20.6 3.3 42 10-64 16-57 (83)
154 PF04392 ABC_sub_bind: ABC tra 22.7 3.4E+02 0.0073 21.5 6.2 77 12-99 131-219 (294)
155 COG0561 Cof Predicted hydrolas 22.7 1.8E+02 0.004 22.4 4.6 44 52-96 22-65 (264)
156 PRK14071 6-phosphofructokinase 22.7 1.8E+02 0.004 24.6 4.9 34 44-77 205-239 (360)
157 PRK14072 6-phosphofructokinase 22.6 2.2E+02 0.0047 24.7 5.4 29 50-78 220-248 (416)
158 cd01016 TroA Metal binding pro 22.6 1.4E+02 0.003 23.9 3.9 36 49-85 193-228 (276)
159 PRK14177 bifunctional 5,10-met 22.4 1.5E+02 0.0032 24.6 4.1 41 26-73 57-98 (284)
160 cd01841 NnaC_like NnaC (CMP-Ne 22.3 2.9E+02 0.0063 19.5 8.6 69 13-89 1-85 (174)
161 cd01974 Nitrogenase_MoFe_beta 22.2 3.8E+02 0.0082 22.9 6.8 46 11-65 302-351 (435)
162 cd01971 Nitrogenase_VnfN_like 22.2 3E+02 0.0066 23.4 6.2 55 12-74 293-354 (427)
163 TIGR01997 sufA_proteo FeS asse 22.1 1.5E+02 0.0033 20.3 3.6 20 69-88 1-20 (107)
164 PF03770 IPK: Inositol polypho 22.0 76 0.0017 24.2 2.3 44 23-67 48-95 (197)
165 COG0169 AroE Shikimate 5-dehyd 21.8 4.5E+02 0.0098 21.6 7.8 106 8-123 2-123 (283)
166 cd06300 PBP1_ABC_sugar_binding 21.8 3.2E+02 0.0069 20.5 5.7 53 44-97 38-91 (272)
167 TIGR03472 HpnI hopanoid biosyn 21.7 2.9E+02 0.0063 22.8 5.8 37 52-88 53-91 (373)
168 PRK08385 nicotinate-nucleotide 21.3 2.9E+02 0.0063 22.7 5.7 65 52-128 192-259 (278)
169 PF02310 B12-binding: B12 bind 21.3 2.6E+02 0.0057 18.6 5.6 56 45-104 33-92 (121)
170 COG3616 Predicted amino acid a 21.2 5.4E+02 0.012 22.2 8.9 74 20-102 74-148 (368)
171 PRK10703 DNA-binding transcrip 21.2 4.1E+02 0.009 20.8 6.9 87 9-96 56-144 (341)
172 PRK03515 ornithine carbamoyltr 21.1 2.4E+02 0.0052 23.7 5.3 23 11-33 155-183 (336)
173 cd03466 Nitrogenase_NifN_2 Nit 21.1 4.3E+02 0.0094 22.5 6.9 55 11-74 299-357 (429)
174 PRK13780 phosphocarrier protei 21.0 2.2E+02 0.0047 19.1 4.2 44 19-67 42-85 (88)
175 PF07905 PucR: Purine cataboli 21.0 1.4E+02 0.0031 20.8 3.4 48 52-100 58-107 (123)
176 PF12367 PFO_beta_C: Pyruvate 21.0 1.6E+02 0.0036 19.1 3.4 38 49-88 23-62 (67)
177 COG5476 Uncharacterized conser 21.0 1.5E+02 0.0033 26.5 4.1 69 57-125 48-133 (488)
178 PF01012 ETF: Electron transfe 21.0 1.9E+02 0.0041 20.8 4.1 57 13-76 35-99 (164)
179 TIGR00705 SppA_67K signal pept 20.9 3.6E+02 0.0077 24.4 6.6 50 52-101 331-388 (584)
180 TIGR02931 anfK_nitrog Fe-only 20.9 5.4E+02 0.012 22.4 7.5 23 11-33 311-337 (461)
181 PF08747 DUF1788: Domain of un 20.9 3.3E+02 0.0072 19.6 5.7 50 53-102 47-103 (126)
182 PF05193 Peptidase_M16_C: Pept 20.9 2E+02 0.0044 19.6 4.1 37 51-87 3-39 (184)
183 COG1658 Small primase-like pro 20.8 3.5E+02 0.0075 19.8 7.7 65 14-87 11-77 (127)
184 PF05116 S6PP: Sucrose-6F-phos 20.8 1.8E+02 0.0039 22.8 4.2 41 53-93 18-61 (247)
185 PRK14192 bifunctional 5,10-met 20.8 1.4E+02 0.0029 24.5 3.6 53 15-74 38-98 (283)
186 PRK08576 hypothetical protein; 20.7 4.5E+02 0.0097 23.1 7.0 65 52-119 39-104 (438)
187 cd06304 PBP1_BmpA_like Peripla 20.5 3.8E+02 0.0083 20.2 7.0 45 51-96 41-85 (260)
188 COG0616 SppA Periplasmic serin 20.4 2.8E+02 0.0061 22.9 5.5 53 52-104 82-141 (317)
189 TIGR02483 PFK_mixed phosphofru 20.4 3.4E+02 0.0073 22.7 6.0 35 44-78 191-226 (324)
190 TIGR01279 DPOR_bchN light-inde 20.2 3.2E+02 0.007 23.2 5.9 66 11-89 273-343 (407)
191 TIGR01487 SPP-like sucrose-pho 20.1 2.2E+02 0.0048 21.2 4.5 42 53-95 21-62 (215)
192 TIGR00262 trpA tryptophan synt 20.1 4.6E+02 0.0099 20.9 9.2 58 19-87 103-162 (256)
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=4.6e-35 Score=211.47 Aligned_cols=113 Identities=53% Similarity=0.927 Sum_probs=108.3
Q ss_pred CCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhh
Q 037034 9 TKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSY 88 (130)
Q Consensus 9 ~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~ 88 (130)
...+.+||||||+||++||+||||+.+..++++||++++++|+.+|++++|+++++++|||||+|||++|+.+++.|++|
T Consensus 2 ~~~~~~IaVIGD~Dtv~GF~LaGi~~~~~~~~~nf~~v~~~t~~eei~~~~~~~l~~~digIIlIte~~a~~i~~~I~~~ 81 (115)
T TIGR01101 2 AEKGKLIAVIGDEDTVVGFLLGGIGEINKNRHPNFLVVDKNTTVSEIEDCFNRFLKRDDIAIILINQHIAEMIRHAVDAH 81 (115)
T ss_pred CCCCcEEEEEecHHHHHHHHHhCCCccccccccceeeecCCCCHHHHHHHHHHHhhcCCeEEEEEcHHHHHHhHHHHHhc
Confidence 45678999999999999999999999988888999999999999999999999999999999999999999999999999
Q ss_pred CCCCcEEEEcCCCCCCCChhhhHHHHHHHHhcC
Q 037034 89 NKPIPAILEIPSKDHPYDPAHDSVLSRVKNLFS 121 (130)
Q Consensus 89 ~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiG 121 (130)
++..|+|++|||+.++|++++|+|+++|++++|
T Consensus 82 ~~~~PaIieIP~k~~~y~~~~d~i~~~~~~~~~ 114 (115)
T TIGR01101 82 TRSIPAVLEIPSKDHPYDASKDSILRRARGMFN 114 (115)
T ss_pred CCcCCEEEEECCCCCCCCCcccHHHHHHHHHcC
Confidence 999999999999999999999999999999987
No 2
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=100.00 E-value=2e-35 Score=210.96 Aligned_cols=115 Identities=61% Similarity=0.989 Sum_probs=111.6
Q ss_pred CCCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHh
Q 037034 8 PTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDS 87 (130)
Q Consensus 8 ~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~ 87 (130)
+..+++.||||||+||++||+|+|++.++.++++||+++++.|+.++++.+|+++++|+|++||+|++.+|+++|+.|+.
T Consensus 3 ~a~~~~liavIgDEDT~tGfLlaGvg~v~~~r~~Nf~vv~~~Tt~~eiedaF~~f~~RdDIaIiLInq~~Ae~iR~~vD~ 82 (121)
T KOG3432|consen 3 SADKRTLIAVIGDEDTVTGFLLAGVGEVNENREPNFLVVDSKTTVEEIEDAFKSFTARDDIAIILINQFIAEMIRDRVDA 82 (121)
T ss_pred ccccCcEEEEeccccceeeeeeecccccccCCCCCEEEEeccCCHHHHHHHHHhhccccCeEEEEEhHHHHHHHHHHHHh
Confidence 55678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCCcEEEEcCCCCCCCChhhhHHHHHHHHhcCC
Q 037034 88 YNKPIPAILEIPSKDHPYDPAHDSVLSRVKNLFSA 122 (130)
Q Consensus 88 ~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGv 122 (130)
|++..|+|++||||+.||++++|+|.+++++.+|-
T Consensus 83 h~~~vPAvLeIpSKdhPYd~~kDSiL~R~r~~f~~ 117 (121)
T KOG3432|consen 83 HTQAVPAVLEIPSKDHPYDPSKDSILRRARGLFGP 117 (121)
T ss_pred ccccCCeeEEecCCCCCCCchHHHHHHHHHhccCh
Confidence 99999999999999999999999999999999885
No 3
>PRK03957 V-type ATP synthase subunit F; Provisional
Probab=99.97 E-value=1.1e-31 Score=189.10 Aligned_cols=99 Identities=34% Similarity=0.572 Sum_probs=91.6
Q ss_pred cEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCC
Q 037034 13 ALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPI 92 (130)
Q Consensus 13 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~ 92 (130)
+|||||||+||++||||+|++++ |++.++ +|++++|++++++++||||++||++++.+++.++ +..
T Consensus 1 mkIaVIgD~dtv~GFrLaGi~~~-------~~v~~~----ee~~~~l~~l~~~~d~gII~ite~~~~~i~~~i~---~~~ 66 (100)
T PRK03957 1 MKIAVVGDRDTVTGFRLAGLTEV-------YEVKNP----EEAKNAIKELVENDEIGIIIITERIAEEIRDLIS---VAL 66 (100)
T ss_pred CEEEEEeCHHHHHHHHHcCCCce-------EEeCCH----HHHHHHHHHHhhCCCeEEEEEcHHHHHHHHHHHh---cCC
Confidence 48999999999999999999754 665444 9999999999999999999999999999999998 778
Q ss_pred cEEEEcCCCCCCCChhhhHHHHHHHHhcCCCcc
Q 037034 93 PAILEIPSKDHPYDPAHDSVLSRVKNLFSAESV 125 (130)
Q Consensus 93 P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~ 125 (130)
|+|++||+++|+++.++++|+++|+||+|+|||
T Consensus 67 P~Ii~IP~~~g~~~~~~~~i~~~v~raiG~dI~ 99 (100)
T PRK03957 67 PIIVEIPDKSGSIERENDPVKELVRRAIGVEMK 99 (100)
T ss_pred CEEEEECCCCCCCccchHHHHHHHHHHhCcccc
Confidence 999999999999999889999999999999997
No 4
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=99.97 E-value=2e-31 Score=189.28 Aligned_cols=100 Identities=20% Similarity=0.405 Sum_probs=92.5
Q ss_pred cEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhC-CC
Q 037034 13 ALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYN-KP 91 (130)
Q Consensus 13 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~-~~ 91 (130)
+|||||||+||++||||+|+++ |+++++ ++++++++++. ++|||||++||++++.+++.+++|+ +.
T Consensus 4 ~kIaVIGD~dtv~GFrLaGi~~--------~~v~~~----ee~~~~i~~l~-~~d~gII~Ite~~a~~i~~~i~~~~~~~ 70 (104)
T PRK01395 4 YKIGVVGDKDSILPFKALGIDV--------FPVIDE----QEAINTLRKLA-MEDYGIIYITEQIAADIPETIERYDNQV 70 (104)
T ss_pred eeEEEEECHHHHHHHHHcCCee--------EEecCh----HHHHHHHHHHh-cCCcEEEEEcHHHHHHhHHHHHHhcCCC
Confidence 7999999999999999999973 788776 99999999876 8999999999999999999999996 68
Q ss_pred CcEEEEcCCCCCCCChhhhHHHHHHHHhcCCCcc
Q 037034 92 IPAILEIPSKDHPYDPAHDSVLSRVKNLFSAESV 125 (130)
Q Consensus 92 ~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~ 125 (130)
.|+|++|||++|+.+.+.++|+++|+||||+||+
T Consensus 71 ~P~Il~IP~~~g~~~~g~~~i~~~v~kAIG~~i~ 104 (104)
T PRK01395 71 LPAIILIPSNQGSLGIGLSRIQDNVEKAVGQNIL 104 (104)
T ss_pred CCEEEEeCCCCCCccccHHHHHHHHHHHhCcccC
Confidence 9999999999998876688999999999999985
No 5
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=99.97 E-value=4.3e-30 Score=180.96 Aligned_cols=98 Identities=18% Similarity=0.325 Sum_probs=87.7
Q ss_pred cEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHh-h-CC
Q 037034 13 ALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDS-Y-NK 90 (130)
Q Consensus 13 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~-~-~~ 90 (130)
+|||||||+||++||||+|++++ |++.+ ++|++++|+++++++|||||++||++++.+.+.+++ + ++
T Consensus 1 mkIaVIGD~dtv~GFrLaGi~~~-------~~~~~----~ee~~~~l~~l~~~~d~gII~Ite~~~~~i~e~i~~~~~~~ 69 (100)
T PRK02228 1 MEIAVIGSPEFTTGFRLAGIRKV-------YEVPD----DEKLDEAVEEVLEDDDVGILVMHDDDLEKLPRRLRRTLEES 69 (100)
T ss_pred CEEEEEeCHHHHHHHHHcCCceE-------EeeCC----HHHHHHHHHHHhhCCCEEEEEEehhHhHhhHHHHHHHHhcC
Confidence 58999999999999999999864 55544 389999999999999999999999999999999998 4 48
Q ss_pred CCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCCccc
Q 037034 91 PIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAESVA 126 (130)
Q Consensus 91 ~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~ 126 (130)
..|+|++||+..|+ ++|+++|+||||+|||-
T Consensus 70 ~~P~ii~IP~~~~~-----~~i~~~v~raIG~di~~ 100 (100)
T PRK02228 70 VEPTVVTLGGGGGS-----GGLREKIKRAIGVDLWK 100 (100)
T ss_pred CCCEEEEECCCccc-----hHHHHHHHHHhCccccC
Confidence 99999999986654 78999999999999983
No 6
>PRK01189 V-type ATP synthase subunit F; Provisional
Probab=99.96 E-value=1.1e-28 Score=175.30 Aligned_cols=97 Identities=19% Similarity=0.321 Sum_probs=82.7
Q ss_pred cEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHH-HHHHhhC-C
Q 037034 13 ALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIR-FLVDSYN-K 90 (130)
Q Consensus 13 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~-~~I~~~~-~ 90 (130)
+|||||||+||++||||+|++++ |++.++ +++++.++ .+++++||||++||.+++.+. +++++|+ +
T Consensus 3 ~kIaVvGd~DtilGFrlaGi~~v-------~~~~~~----e~~~~~~~-~l~~~~~gII~iTE~~a~~i~~~~i~~~~~~ 70 (104)
T PRK01189 3 SCITVIGERDVVLGFRLLGIGDT-------IEAEGK----DLVKKFLE-IFNNPKCKYIFVSESTKNMFDKNTLRSLESS 70 (104)
T ss_pred ceEEEEcCHHHHHHHHHcCCceE-------EEcCCH----HHHHHHHH-HHhcCCeEEEEEEHHHHhhCCHHHHHHHhcc
Confidence 78999999999999999999876 776553 77755555 667999999999999999999 7999996 8
Q ss_pred CCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCCc
Q 037034 91 PIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAES 124 (130)
Q Consensus 91 ~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi 124 (130)
..|+||+||.+ |..+ +++|+++|++|||+|+
T Consensus 71 ~~P~II~Ipip-g~~~--~~~i~~~ik~aiGvd~ 101 (104)
T PRK01189 71 SKPLVVFIPLP-GISE--EESIEEMAKRILGIDI 101 (104)
T ss_pred CCCeEEEEeCC-CCcc--chhHHHHHHHHhcccc
Confidence 99999987776 3332 5799999999999998
No 7
>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=1.9e-26 Score=159.98 Aligned_cols=93 Identities=41% Similarity=0.613 Sum_probs=84.7
Q ss_pred EEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhh--CCCC
Q 037034 15 IAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSY--NKPI 92 (130)
Q Consensus 15 IaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~--~~~~ 92 (130)
||||||+|+++||||+|+++ |++. +++++++++|+++++++++|||++|+++++.+++.++++ ++..
T Consensus 1 IavIGd~~~v~gFrLaGv~~--------~~~~---~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~~~~~l~~~~~~~~~ 69 (95)
T PF01990_consen 1 IAVIGDRDTVLGFRLAGVEG--------VYVN---TDPEEAEEALKELLKDEDVGIIIITEDLAEKIRDELDEYREESSL 69 (95)
T ss_dssp EEEEE-HHHHHHHHHTTSEE--------EEES---HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTTHHHHHHHHHHTSSS
T ss_pred CEEEeCHHHHHHHHHcCCCC--------ccCC---CCHHHHHHHHHHHhcCCCccEEEeeHHHHHHHHHHHHHHHhccCC
Confidence 79999999999999999996 4564 124999999999999999999999999999999999999 5899
Q ss_pred cEEEEcCCCCCCCChhhhHHHHHHHH
Q 037034 93 PAILEIPSKDHPYDPAHDSVLSRVKN 118 (130)
Q Consensus 93 P~Iv~IPs~~g~~~~~~d~i~~~V~~ 118 (130)
|+|++||+++++++.+.++|+++|+|
T Consensus 70 P~iv~IP~~~~~~~~~~~~i~~~v~r 95 (95)
T PF01990_consen 70 PLIVEIPSKEGSMGREKDSIRELVKR 95 (95)
T ss_dssp SEEEEESTTCCCTSSCCHHHHHHHHH
T ss_pred ceEEEcCCCCCCCCcchHHHHHHhcC
Confidence 99999999999988889999999986
No 8
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=99.94 E-value=1.9e-26 Score=164.01 Aligned_cols=99 Identities=32% Similarity=0.499 Sum_probs=85.2
Q ss_pred CcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHH-HHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhh--
Q 037034 12 SALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVK-AIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSY-- 88 (130)
Q Consensus 12 ~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~e-e~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~-- 88 (130)
.++||||||+||++||+|+|++++ |++.++ + ++.++++.+.+ ++||||+|||++++++++.++++
T Consensus 2 ~~~I~VIGd~dtvtGFrLaGv~~~-------~v~~~~----~~~~~~~~~~l~~-~~~~iIiite~~a~~i~~~i~~~~~ 69 (104)
T COG1436 2 MMKIAVIGDRDTVTGFRLAGVRVV-------YVADDE----EDELRAALRVLAE-DDVGIILITEDLAEKIREEIRRIIR 69 (104)
T ss_pred ceEEEEEEccchhhceeeecceeE-------EEecCh----hHHHHHHHHhhcc-CCceEEEEeHHHHhhhHHHHHHHhh
Confidence 479999999999999999999865 545544 4 68888888874 59999999999999999999998
Q ss_pred CCCCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCCcc
Q 037034 89 NKPIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAESV 125 (130)
Q Consensus 89 ~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~ 125 (130)
.+..|+|++|||++. . +.+.++++|+|+||+++|
T Consensus 70 ~~~~P~iv~IPs~~~-~--~~~~~~~~I~k~vG~~i~ 103 (104)
T COG1436 70 SSVLPAIVEIPSPGK-E--EEEPLRELIRRAVGVDIG 103 (104)
T ss_pred ccCccEEEEeCCCCC-C--ccchHHHHHHHHHhhhhc
Confidence 488999999999722 2 357899999999999987
No 9
>COG4075 Uncharacterized conserved protein, homolog of nitrogen regulatory protein PII [Function unknown]
Probab=93.55 E-value=0.12 Score=36.87 Aligned_cols=71 Identities=20% Similarity=0.331 Sum_probs=43.2
Q ss_pred HHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEE---EehHHHHHHHHHHHh-hCCCCcEEEEcC
Q 037034 24 VTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVL---ISQYVANMIRFLVDS-YNKPIPAILEIP 99 (130)
Q Consensus 24 v~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~---Ite~~a~~i~~~I~~-~~~~~P~Iv~IP 99 (130)
+|||-|.--.|+++.+-.||...+ ++|.+-++++++..+ ++++ +.|..++++.+.+.+ +.+..=+|++||
T Consensus 28 iTGFfl~eYrGvsPd~wkgf~~~E---DpE~aik~i~D~s~~---AVlI~tVV~Ee~vekie~~~~Ekla~eryTIi~ip 101 (110)
T COG4075 28 ITGFFLHEYRGVSPDKWKGFSKEE---DPESAIKAIRDLSDK---AVLIGTVVKEEKVEKIEELLKEKLANERYTIIEIP 101 (110)
T ss_pred cceEEEEEecCcChhHhcCccccc---CHHHHHHHHHHhhhc---eEEEEEecCHHHHHHHHHHHHHHhcCCceEEEEee
Confidence 455555544444443333454432 257777777777532 4444 458888888888876 345556889888
Q ss_pred C
Q 037034 100 S 100 (130)
Q Consensus 100 s 100 (130)
=
T Consensus 102 I 102 (110)
T COG4075 102 I 102 (110)
T ss_pred e
Confidence 5
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=89.17 E-value=0.76 Score=33.16 Aligned_cols=46 Identities=17% Similarity=0.304 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhcCCCeeEE---EEehHHHHHHHHHHHh-hCCCCcEEEEcCC
Q 037034 52 VKAIEDAFKEFTTKEDIAIV---LISQYVANMIRFLVDS-YNKPIPAILEIPS 100 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII---~Ite~~a~~i~~~I~~-~~~~~P~Iv~IPs 100 (130)
++.+-++++++..+ ||+ +++++.++.|.+.+.+ +++..=+|++||=
T Consensus 53 pe~ai~~I~d~s~~---aV~I~TVV~~~~~~~i~~~i~ekL~~eryTii~iPi 102 (110)
T PF10126_consen 53 PEMAIKAINDLSEN---AVLIGTVVDEEKVEKIEKLIKEKLKNERYTIIEIPI 102 (110)
T ss_pred HHHHHHHHHHhccC---cEEEEEEECHHHHHHHHHHHHHHhcCCceEEEEeeE
Confidence 46666666666422 444 4668889999998877 4555668888874
No 11
>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional
Probab=82.46 E-value=8.3 Score=33.53 Aligned_cols=62 Identities=18% Similarity=0.373 Sum_probs=51.1
Q ss_pred ceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--------ehHHHHHHHHHHHhhCCCCcEEEEcCCCC
Q 037034 41 TNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--------SQYVANMIRFLVDSYNKPIPAILEIPSKD 102 (130)
Q Consensus 41 ~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--------te~~a~~i~~~I~~~~~~~P~Iv~IPs~~ 102 (130)
.||.-..-..+.+.+.++|+-+++++++-+||| |+.+|+-+-+.+.++.-..|.||-+.+.+
T Consensus 319 ANFlD~GG~a~~~~v~~a~~ii~~d~~vk~iliNIfGGI~~cd~iA~gii~a~~~~~~~~pivvRl~Gtn 388 (422)
T PLN00124 319 ANFLDVGGNASEQQVVEAFKILTSDDKVKAILVNIFGGIMKCDVIASGIVNAAKQVGLKVPLVVRLEGTN 388 (422)
T ss_pred ceeeecCCCCCHHHHHHHHHHHhcCCCCcEEEEEecCCccchHHHHHHHHHHHHhcCCCCcEEEEcCCCC
Confidence 578777666778999999999999999999998 56678777777777767799999987765
No 12
>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=76.29 E-value=17 Score=25.02 Aligned_cols=84 Identities=10% Similarity=-0.008 Sum_probs=46.7
Q ss_pred HHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe-hHHHHHHHHHHHhhCCCCc--EEEEcCCCC
Q 037034 26 GFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS-QYVANMIRFLVDSYNKPIP--AILEIPSKD 102 (130)
Q Consensus 26 GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It-e~~a~~i~~~I~~~~~~~P--~Iv~IPs~~ 102 (130)
-|+..|++.+ .-..+++.+++.+++.+. +.++=.|-.+ ..-...+++.++.+++..| ..+-+.+..
T Consensus 22 ~l~~~G~~V~---------~lg~~~~~~~l~~~~~~~--~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~ 90 (119)
T cd02067 22 ALRDAGFEVI---------DLGVDVPPEEIVEAAKEE--DADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAI 90 (119)
T ss_pred HHHHCCCEEE---------ECCCCCCHHHHHHHHHHc--CCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCC
Confidence 4566777632 224567778888777644 4553333333 5555677777777764445 445665554
Q ss_pred CCCChhhhHHHHHHHHhcCCCcccc
Q 037034 103 HPYDPAHDSVLSRVKNLFSAESVAS 127 (130)
Q Consensus 103 g~~~~~~d~i~~~V~~AiGvdi~~~ 127 (130)
-...+ ..-+..|+|-+..
T Consensus 91 ~~~~~-------~~~~~~G~D~~~~ 108 (119)
T cd02067 91 VTRDF-------KFLKEIGVDAYFG 108 (119)
T ss_pred CChhH-------HHHHHcCCeEEEC
Confidence 33211 1345778876543
No 13
>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=72.66 E-value=9.7 Score=28.64 Aligned_cols=53 Identities=8% Similarity=0.154 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEe--------hHHHHHHHHHHHhhC---CCCcEEEEcCCCCCC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLIS--------QYVANMIRFLVDSYN---KPIPAILEIPSKDHP 104 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~It--------e~~a~~i~~~I~~~~---~~~P~Iv~IPs~~g~ 104 (130)
++...+.|+.+.+++++++|++. ++.+..+-+.+.+.+ ...|+|+.+=+.+..
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 47888999999999999999998 444555555555544 568999999776644
No 14
>PRK06555 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated
Probab=69.91 E-value=13 Score=32.37 Aligned_cols=35 Identities=9% Similarity=0.112 Sum_probs=26.6
Q ss_pred EEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHH
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVA 78 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a 78 (130)
++-+...+.+++.+.+++.+++++++||+++|.+.
T Consensus 236 lIPE~~~~~e~~~~~ik~~~~~k~~~iIvVaEG~~ 270 (403)
T PRK06555 236 YLPEMAFDLEAEAERLKAVMDEVGNVNIFLSEGAG 270 (403)
T ss_pred EccCCCCCHHHHHHHHHHHHHhCCCEEEEEeCCCC
Confidence 34444455677778888888789999999999873
No 15
>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=69.30 E-value=34 Score=29.76 Aligned_cols=83 Identities=19% Similarity=0.293 Sum_probs=63.0
Q ss_pred EEEEEcchh-----hHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--------hHHHHH
Q 037034 14 LIAMIADED-----TVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--------QYVANM 80 (130)
Q Consensus 14 kIaVIGD~d-----tv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--------e~~a~~ 80 (130)
.|++|++-. |.-=-.+.|-+- .||.-+.-..+.+.+.++|+-+++++++-.|||+ +.+|+-
T Consensus 257 ~IG~ivNGAGLaMaTmDii~~~Gg~P------ANFLDvGGgA~~e~v~~a~~~il~d~~vk~IfVNIfGGI~rcD~vA~G 330 (387)
T COG0045 257 NIGCIVNGAGLAMATMDIVKLYGGKP------ANFLDVGGGATAERVKEAFKLILSDPNVKAIFVNIFGGITRCDEVAEG 330 (387)
T ss_pred cEEEEecChhHHHHHHHHHHHcCCCC------cceeecCCCCCHHHHHHHHHHHhcCCCccEEEEEEccCcCccHHHHHH
Confidence 577777621 222234445543 4687776666779999999999999999999986 568888
Q ss_pred HHHHHHhhCCCCcEEEEcCCCC
Q 037034 81 IRFLVDSYNKPIPAILEIPSKD 102 (130)
Q Consensus 81 i~~~I~~~~~~~P~Iv~IPs~~ 102 (130)
+-..+.++....|+||.+-+.+
T Consensus 331 Ii~Al~e~~~~vPlVVRL~GtN 352 (387)
T COG0045 331 IIAALKEVGVNVPLVVRLEGTN 352 (387)
T ss_pred HHHHHHhcCCCCCEEEEcCCCC
Confidence 8888888888899999997765
No 16
>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=67.81 E-value=36 Score=28.50 Aligned_cols=36 Identities=17% Similarity=0.177 Sum_probs=29.4
Q ss_pred CCCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCCccccC
Q 037034 90 KPIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAESVASG 128 (130)
Q Consensus 90 ~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~ 128 (130)
...|+||.|.+..|. ++.+|...+-+-+|+++..|.
T Consensus 86 ~~~p~IILIGGasGV---GkStIA~ElA~rLgI~~visT 121 (299)
T COG2074 86 MKRPLIILIGGASGV---GKSTIAGELARRLGIRSVIST 121 (299)
T ss_pred cCCCeEEEecCCCCC---ChhHHHHHHHHHcCCceeecc
Confidence 667999999987775 578888888888888887764
No 17
>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=64.54 E-value=13 Score=25.36 Aligned_cols=21 Identities=14% Similarity=0.170 Sum_probs=8.7
Q ss_pred CeeEEEEehH--HHHHHHHHHHh
Q 037034 67 DIAIVLISQY--VANMIRFLVDS 87 (130)
Q Consensus 67 digII~Ite~--~a~~i~~~I~~ 87 (130)
+++-|++|.. ..+.+.+..++
T Consensus 61 ~i~~iIltg~~~~~~~v~~la~~ 83 (105)
T PF07085_consen 61 GIACIILTGGLEPSEEVLELAKE 83 (105)
T ss_dssp TECEEEEETT----HHHHHHHHH
T ss_pred CCCEEEEeCCCCCCHHHHHHHHH
Confidence 3555555543 22344444443
No 18
>PRK14046 malate--CoA ligase subunit beta; Provisional
Probab=63.43 E-value=66 Score=27.48 Aligned_cols=60 Identities=15% Similarity=0.351 Sum_probs=40.0
Q ss_pred ceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--------hHHHHHHHHHHHhhCCCCcEEEEcCC
Q 037034 41 TNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--------QYVANMIRFLVDSYNKPIPAILEIPS 100 (130)
Q Consensus 41 ~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--------e~~a~~i~~~I~~~~~~~P~Iv~IPs 100 (130)
.||+-.....+++.+..+|+.+++++++..|++. +.+++.+.+...+.+...|+++.+.+
T Consensus 284 aNPlDlgg~a~~e~~~~aL~~ll~Dp~VdaVlv~i~ggi~~~~~vA~~Ii~a~~~~~~~kPvvv~l~G 351 (392)
T PRK14046 284 ANFLDVGGGASPERVAKAFRLVLSDRNVKAILVNIFAGINRCDWVAEGVVQAAREVGIDVPLVVRLAG 351 (392)
T ss_pred cCCEEecCCCCHHHHHHHHHHHHcCCCCCEEEEEcCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEcCC
Confidence 3565554445679999999999999999888863 22444444444432245788887744
No 19
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=62.93 E-value=44 Score=26.69 Aligned_cols=64 Identities=14% Similarity=0.184 Sum_probs=48.5
Q ss_pred CCCCCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHH
Q 037034 6 QIPTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLV 85 (130)
Q Consensus 6 ~~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I 85 (130)
|-...+..+|+|++|.+...==+-+|.+ | + .. +|+.+.+++.. .+|-.++-|.++...+.. +
T Consensus 65 P~~~gk~~kV~Vfa~~~~~~eAk~aGad---------~-v-g~----edLi~~ik~~~--~~fd~~iAt~d~m~~l~k-L 126 (229)
T CHL00129 65 PKGTGKTIRIAVLTNEEKITEAKNAGAD---------I-V-GS----DDLIEEITKGN--LDFDLLIATPDMMPKLAK-L 126 (229)
T ss_pred CCCCCCCcEEEEECChHhHHHHHHcCCC---------E-e-CH----HHHHHHHHcCc--ccCCEEEECHHHHHHHHH-h
Confidence 3334566899999998887777889996 2 2 33 88888887764 578889999999888876 5
Q ss_pred Hh
Q 037034 86 DS 87 (130)
Q Consensus 86 ~~ 87 (130)
-.
T Consensus 127 gr 128 (229)
T CHL00129 127 GR 128 (229)
T ss_pred cC
Confidence 54
No 20
>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=62.83 E-value=43 Score=26.64 Aligned_cols=64 Identities=16% Similarity=0.207 Sum_probs=47.9
Q ss_pred CCCCCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHH
Q 037034 6 QIPTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLV 85 (130)
Q Consensus 6 ~~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I 85 (130)
|-......+|+|++|.+.+.==+-+|.+ | + .. +|+.+.+++.. .+|-.++-|.++...+. .+
T Consensus 64 P~~~gk~~kV~Vfa~~~~~~~Ak~aGa~---------~-v-g~----~eLi~~ik~~~--~~fd~~iat~~~m~~l~-~L 125 (227)
T TIGR01169 64 PHGTGKTVRVAVFAKGEKAEEAKAAGAD---------Y-V-GS----DDLIEKIKKGW--LDFDVVIATPDMMRVVG-KL 125 (227)
T ss_pred CCCCCCCcEEEEEcCchhHHHHHHcCCC---------E-e-CH----HHHHHHHHcCC--ccCCEEEECHHHHHHHH-Hh
Confidence 3344566899999998888777889996 2 2 33 88888777663 57888999999888877 55
Q ss_pred Hh
Q 037034 86 DS 87 (130)
Q Consensus 86 ~~ 87 (130)
-.
T Consensus 126 g~ 127 (227)
T TIGR01169 126 GR 127 (227)
T ss_pred cc
Confidence 54
No 21
>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=62.67 E-value=63 Score=25.95 Aligned_cols=71 Identities=17% Similarity=0.246 Sum_probs=48.0
Q ss_pred hhhHHHHHHh-----------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHh
Q 037034 21 EDTVTGFLLA-----------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDS 87 (130)
Q Consensus 21 ~dtv~GFrLa-----------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~ 87 (130)
.+...|++|+ |+.| ++..+++.|...+++...+++++|++++++-+|+= +...+..+...+++
T Consensus 17 ~~~~~g~~lA~~~iN~~GGi~~i~G----~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~ 92 (347)
T cd06340 17 QQCKAGAELAVEEINAAGGIKSLGG----AKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQSAVTLAASQVAER 92 (347)
T ss_pred HHHHHHHHHHHHHHHhcCCccCCCC----ceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccchHhHHHHHHHHHH
Confidence 4557788887 2333 23446666776778889999999998767766663 44556677777776
Q ss_pred hCCCCcEEEE
Q 037034 88 YNKPIPAILE 97 (130)
Q Consensus 88 ~~~~~P~Iv~ 97 (130)
+ ..|.|..
T Consensus 93 ~--~ip~i~~ 100 (347)
T cd06340 93 Y--GVPFVVD 100 (347)
T ss_pred h--CCCEEec
Confidence 4 4676653
No 22
>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=60.44 E-value=82 Score=25.06 Aligned_cols=70 Identities=11% Similarity=0.175 Sum_probs=46.8
Q ss_pred hhhHHHHHHh---------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhC
Q 037034 21 EDTVTGFLLA---------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYN 89 (130)
Q Consensus 21 ~dtv~GFrLa---------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~ 89 (130)
.+...|++|| |+.| .+..+++.|...++....++.++|+.++++-.|+= +...+..+.+..+++
T Consensus 15 ~~~~~~~~lAv~~iN~~gg~~~g----~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~a~~~~~~~~- 89 (350)
T cd06366 15 KAALPAIEMALEDVNADNSILPG----YRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQCSSVAEFVAEVANEW- 89 (350)
T ss_pred HHHHHHHHHHHHHHhcCCCcCCC----cEEEEEecCCCCCHHHHHHHHHHHhccCCceEEECCCcHHHHHHHHHHhhcC-
Confidence 4567788876 2322 23446777777778899999999998777776665 455666666766653
Q ss_pred CCCcEEE
Q 037034 90 KPIPAIL 96 (130)
Q Consensus 90 ~~~P~Iv 96 (130)
..|.|-
T Consensus 90 -~ip~i~ 95 (350)
T cd06366 90 -NVPVLS 95 (350)
T ss_pred -CeeEEe
Confidence 366655
No 23
>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed
Probab=60.05 E-value=82 Score=24.68 Aligned_cols=65 Identities=17% Similarity=0.217 Sum_probs=47.1
Q ss_pred CCCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHH------HHHhcCCCeeEEEEehHHHHHH
Q 037034 8 PTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAF------KEFTTKEDIAIVLISQYVANMI 81 (130)
Q Consensus 8 ~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~------~~l~~~~digII~Ite~~a~~i 81 (130)
......+|+|+++.+...--+-+|++ |++ .. +++++.. +++. .+|-+++.|.++...+
T Consensus 54 ~~~k~~~V~vf~~~~~~~~Ak~aGa~---------~v~-~~----e~L~~i~~~~k~~rkl~--~~fD~~lA~~~im~~l 117 (215)
T PRK04203 54 GRGKEVKIAVIAKGELALQAKEAGAD---------YVI-TR----EELEELGGDKRAAKKLA--NEYDFFIAEADLMPLI 117 (215)
T ss_pred CCCCCcEEEEEcChHhHHHHHHcCCC---------EEe-CH----HHHHHHhcChHHHhhhh--hcCCEEEECHHHHHHH
Confidence 34456899999998888888899997 444 32 6665533 2333 4688899999999988
Q ss_pred HHHHHhh
Q 037034 82 RFLVDSY 88 (130)
Q Consensus 82 ~~~I~~~ 88 (130)
...+-..
T Consensus 118 ~k~LGk~ 124 (215)
T PRK04203 118 GRYLGPV 124 (215)
T ss_pred HHHHhhh
Confidence 8877663
No 24
>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=59.50 E-value=55 Score=25.64 Aligned_cols=70 Identities=20% Similarity=0.252 Sum_probs=47.2
Q ss_pred hhHHHHHHh--------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhCCC
Q 037034 22 DTVTGFLLA--------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYNKP 91 (130)
Q Consensus 22 dtv~GFrLa--------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~~~ 91 (130)
+...|++|+ |+.|+ +..+++.|...+++...++.++|+.++++-+|+- +...+..+.+.+++ ..
T Consensus 20 ~~~~g~~~a~~~~N~~ggi~G~----~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~~~~~~~~~~~~--~~ 93 (343)
T PF13458_consen 20 DFLRGAELAVDEINAAGGINGR----KIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSAQAEAVAPIAEE--AG 93 (343)
T ss_dssp HHHHHHHHHHHHHHHTTEETTE----EEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHHHHHHHHHHHHH--HT
T ss_pred HHHHHHHHHHHHHHHhCCcCCc----cceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcHHHHHHHHHHHh--cC
Confidence 455666665 44443 3446666766678999999999998788877775 46677788888877 34
Q ss_pred CcEEEE
Q 037034 92 IPAILE 97 (130)
Q Consensus 92 ~P~Iv~ 97 (130)
.|.|.+
T Consensus 94 ip~i~~ 99 (343)
T PF13458_consen 94 IPYISP 99 (343)
T ss_dssp -EEEES
T ss_pred cEEEEe
Confidence 677773
No 25
>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=59.45 E-value=58 Score=25.38 Aligned_cols=70 Identities=19% Similarity=0.203 Sum_probs=44.3
Q ss_pred hhHHHHHHh------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhCCCCc
Q 037034 22 DTVTGFLLA------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYNKPIP 93 (130)
Q Consensus 22 dtv~GFrLa------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~~~~P 93 (130)
+...|++++ |+.| ++..+.+.|...+++...+++++|+.++++-.|+. +......+.+.+++ ...|
T Consensus 18 ~~~~g~~~a~~~~~~~i~G----~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~~~~~~~~--~~ip 91 (333)
T cd06332 18 DIRDGFELALKQLGGKLGG----RPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALAVVPSLTE--SGTF 91 (333)
T ss_pred HHHHHHHHHHHHhCCCcCC----eEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHHHHHHHhh--cCCe
Confidence 456777776 3332 22335666666677888999999997767766666 44444555566655 4467
Q ss_pred EEEE
Q 037034 94 AILE 97 (130)
Q Consensus 94 ~Iv~ 97 (130)
.|..
T Consensus 92 ~v~~ 95 (333)
T cd06332 92 LISP 95 (333)
T ss_pred EEec
Confidence 6664
No 26
>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=58.78 E-value=90 Score=24.78 Aligned_cols=72 Identities=18% Similarity=0.248 Sum_probs=47.8
Q ss_pred hhhHHHHHHh--------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhCC
Q 037034 21 EDTVTGFLLA--------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYNK 90 (130)
Q Consensus 21 ~dtv~GFrLa--------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~~ 90 (130)
++...|++|+ |+.|. +..+++.|....++.+.++.++|+.++++-+|+= +...+..+....++ .
T Consensus 17 ~~~~~g~~~a~~~iNa~ggi~G~----~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~~a~~~~~~~--~ 90 (344)
T cd06348 17 QEQLAGLKLAEDRFNQAGGVNGR----PIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQAFAADPIAER--A 90 (344)
T ss_pred HhHHHHHHHHHHHHhhcCCcCCc----EEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHHHhhhHHHHh--C
Confidence 5677788875 56542 3447777777778999999999997767765552 23344445555554 4
Q ss_pred CCcEEEEc
Q 037034 91 PIPAILEI 98 (130)
Q Consensus 91 ~~P~Iv~I 98 (130)
..|.|.+-
T Consensus 91 ~ip~i~~~ 98 (344)
T cd06348 91 GVPVVGPS 98 (344)
T ss_pred CCCEEecc
Confidence 57877643
No 27
>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=58.05 E-value=55 Score=24.37 Aligned_cols=85 Identities=19% Similarity=0.276 Sum_probs=53.3
Q ss_pred CCcEEEEEcchhhHHHH----HHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHH
Q 037034 11 SSALIAMIADEDTVTGF----LLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVD 86 (130)
Q Consensus 11 ~~~kIaVIGD~dtv~GF----rLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~ 86 (130)
...+||++|-+..+.++ .+.|++-. .|.+.+ .+|++..++++. +.++.+|+=.....+.. .
T Consensus 76 ~~~~Iavv~~~~~~~~~~~~~~ll~~~i~------~~~~~~----~~e~~~~i~~~~-~~G~~viVGg~~~~~~A----~ 140 (176)
T PF06506_consen 76 YGPKIAVVGYPNIIPGLESIEELLGVDIK------IYPYDS----EEEIEAAIKQAK-AEGVDVIVGGGVVCRLA----R 140 (176)
T ss_dssp CTSEEEEEEESS-SCCHHHHHHHHT-EEE------EEEESS----HHHHHHHHHHHH-HTT--EEEESHHHHHHH----H
T ss_pred cCCcEEEEecccccHHHHHHHHHhCCceE------EEEECC----HHHHHHHHHHHH-HcCCcEEECCHHHHHHH----H
Confidence 34899999997776654 45687632 144443 599999999887 56799888777654443 2
Q ss_pred hhCCCCcEEEEcCCCCCCCChhhhHHHHHHHHhc
Q 037034 87 SYNKPIPAILEIPSKDHPYDPAHDSVLSRVKNLF 120 (130)
Q Consensus 87 ~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~Ai 120 (130)
+ ...|.++.- .+.++|++-+.+|+
T Consensus 141 ~--~gl~~v~i~--------sg~esi~~Al~eA~ 164 (176)
T PF06506_consen 141 K--LGLPGVLIE--------SGEESIRRALEEAL 164 (176)
T ss_dssp H--TTSEEEESS----------HHHHHHHHHHHH
T ss_pred H--cCCcEEEEE--------ecHHHHHHHHHHHH
Confidence 2 446764432 13688888888874
No 28
>PLN02225 1-deoxy-D-xylulose-5-phosphate synthase
Probab=56.60 E-value=6.5 Score=36.43 Aligned_cols=44 Identities=20% Similarity=0.351 Sum_probs=31.0
Q ss_pred CCCCCCcEEEEEcchhhHHHHHHhcccccccCCcceE--EEecCCCc
Q 037034 7 IPTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNY--LIVDSKTT 51 (130)
Q Consensus 7 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~--~v~~~~t~ 51 (130)
++..+++-||||||-...-|+-+-++...-..+ .|. ++.|++++
T Consensus 207 l~g~~~~vvaVIGDGaltgGma~EaLN~~g~~~-~~livILNDN~mS 252 (701)
T PLN02225 207 IKGKRDRVVAVIDNATITAGQAYEAMSNAGYLD-SNMIVILNDSRHS 252 (701)
T ss_pred hcCCCCcEEEEEcCcchhhhhHHHHHhhhhccC-CCEEEEEeCCCCC
Confidence 455667889999999999999999998654322 334 33455444
No 29
>PRK09622 porA pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed
Probab=56.37 E-value=29 Score=29.75 Aligned_cols=54 Identities=7% Similarity=0.068 Sum_probs=43.1
Q ss_pred CcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe
Q 037034 12 SALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS 74 (130)
Q Consensus 12 ~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It 74 (130)
..++.+-|++....|...+|++ |+.-.|=|+.-|+-+.+.+++.+..++..++.
T Consensus 8 ~~~~~~~GNeAiA~ga~~Ag~~---------~~a~YPITPsTeI~e~la~~~~~g~~~~~~vq 61 (407)
T PRK09622 8 QEIEVWDGNTAASNALRQAQID---------VVAAYPITPSTPIVQNYGSFKANGYVDGEFVM 61 (407)
T ss_pred ceeeecchHHHHHHHHHHhCCC---------EEEEECCCCccHHHHHHHHHhhCCCcCcEEEe
Confidence 4678899999999999999998 45556667778999999999876666555543
No 30
>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=55.68 E-value=1.2e+02 Score=25.53 Aligned_cols=82 Identities=17% Similarity=0.283 Sum_probs=50.2
Q ss_pred cEEEEEcch-----hhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--------hHHHH
Q 037034 13 ALIAMIADE-----DTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--------QYVAN 79 (130)
Q Consensus 13 ~kIaVIGD~-----dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--------e~~a~ 79 (130)
-.|++|++- -|.--+...|..- .||+-.....+.+.+.++|+.+++++++..|++. +.+++
T Consensus 257 G~i~~i~nG~Gl~~~t~D~~~~~g~~~------aNplDlgg~a~~~~~~~al~~l~~dp~vd~ilv~i~gg~~~~~~va~ 330 (386)
T TIGR01016 257 GNIGCMVNGAGLAMATMDIIKLYGGEP------ANFLDVGGGASAERVREALKLVLSDKSVKVVFINIFGGITRCDLVAK 330 (386)
T ss_pred CcEEEEECCccHHHHHHHHHHHcCCCC------CCcEEecCCCCHHHHHHHHHHHHcCCCCCEEEEECCCCCCCHHHHHH
Confidence 357777762 1222334455542 3565554445679999999999999999888863 22444
Q ss_pred HHHHHHHhhCCCCcEEEEcCC
Q 037034 80 MIRFLVDSYNKPIPAILEIPS 100 (130)
Q Consensus 80 ~i~~~I~~~~~~~P~Iv~IPs 100 (130)
.+-+...++....|+++.+.+
T Consensus 331 ~i~~a~~~~~~~kPvvv~~~g 351 (386)
T TIGR01016 331 GLVEALKEVGVNVPVVVRLEG 351 (386)
T ss_pred HHHHHHHhcCCCCcEEEEeCC
Confidence 444444443333788887743
No 31
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=55.67 E-value=1.1e+02 Score=24.79 Aligned_cols=74 Identities=12% Similarity=0.098 Sum_probs=43.2
Q ss_pred cchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEE-EEehHH-HHHHHHHHHhhCCCCcEEE
Q 037034 19 ADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIV-LISQYV-ANMIRFLVDSYNKPIPAIL 96 (130)
Q Consensus 19 GD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII-~Ite~~-a~~i~~~I~~~~~~~P~Iv 96 (130)
|-+..+-=+.-+|++|+ .+.|- +.+|....++.+ ++.++..| +++... .++++...+. ...+=-.|
T Consensus 107 G~e~F~~~~~~aGvdgv--------iipDL--P~ee~~~~~~~~-~~~gi~~I~lv~PtT~~eri~~i~~~-a~gFIY~v 174 (263)
T CHL00200 107 GINKFIKKISQAGVKGL--------IIPDL--PYEESDYLISVC-NLYNIELILLIAPTSSKSRIQKIARA-APGCIYLV 174 (263)
T ss_pred CHHHHHHHHHHcCCeEE--------EecCC--CHHHHHHHHHHH-HHcCCCEEEEECCCCCHHHHHHHHHh-CCCcEEEE
Confidence 44556666778999985 55444 568888766655 45665554 445444 3566665553 22222344
Q ss_pred EcCCCCCC
Q 037034 97 EIPSKDHP 104 (130)
Q Consensus 97 ~IPs~~g~ 104 (130)
..|+..|.
T Consensus 175 S~~GvTG~ 182 (263)
T CHL00200 175 STTGVTGL 182 (263)
T ss_pred cCCCCCCC
Confidence 56666665
No 32
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=55.46 E-value=60 Score=25.85 Aligned_cols=64 Identities=13% Similarity=0.125 Sum_probs=46.1
Q ss_pred CCCCCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHH
Q 037034 6 QIPTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLV 85 (130)
Q Consensus 6 ~~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I 85 (130)
|-......+|+|++|.+.+.==+-+|.+ | + .. +|+.+.+++= .-+|-.++-|.++...+.. +
T Consensus 65 P~~~gk~~kI~Vfa~~~~~~~Ak~aGa~---------~-v-g~----eeLi~~ik~~--~~~fd~~iat~~~m~~l~~-L 126 (230)
T PRK05424 65 PHGTGKTVRVAVFAKGEKAEEAKAAGAD---------I-V-GG----EDLIEKIKGG--WLDFDVVIATPDMMGKVGK-L 126 (230)
T ss_pred CCCCCCCcEEEEECChHhHHHHHHcCCC---------E-e-CH----HHHHHHHhcC--CCcCCEEEECHHHHHHHHH-h
Confidence 4444566899999999888777889996 2 2 32 7777666533 2378889999998888765 5
Q ss_pred Hh
Q 037034 86 DS 87 (130)
Q Consensus 86 ~~ 87 (130)
-.
T Consensus 127 g~ 128 (230)
T PRK05424 127 GR 128 (230)
T ss_pred cc
Confidence 44
No 33
>PRK14484 phosphotransferase mannnose-specific family component IIA; Provisional
Probab=54.28 E-value=65 Score=23.41 Aligned_cols=51 Identities=16% Similarity=0.284 Sum_probs=27.3
Q ss_pred eeEEEEeh--HHHHHHHHHHHhhCCCCcEEEEcCCCC-CCCChhhhHHHHHHHHh
Q 037034 68 IAIVLISQ--YVANMIRFLVDSYNKPIPAILEIPSKD-HPYDPAHDSVLSRVKNL 119 (130)
Q Consensus 68 igII~Ite--~~a~~i~~~I~~~~~~~P~Iv~IPs~~-g~~~~~~d~i~~~V~~A 119 (130)
+|||+++- ++++.+.+.++... ...-|+.++... ++.+...+.|++.++++
T Consensus 2 vGIVlVSHs~~lA~gl~~~~~~i~-~~~~i~~~gg~~d~~~gt~~~~i~~ai~~~ 55 (124)
T PRK14484 2 VGIVIVSHSKKIAEGVKDLIKQMA-PDVPIIYAGGTEDGRIGTSFDQIQEAIEKN 55 (124)
T ss_pred eeEEEEeCcHHHHHHHHHHHHHhh-CCCCEEEecCCCCCCccchHHHHHHHHHhc
Confidence 46666662 46666666666654 334555555433 33444445555555554
No 34
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=53.83 E-value=91 Score=24.42 Aligned_cols=53 Identities=9% Similarity=0.165 Sum_probs=33.3
Q ss_pred EEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--hHHHHHHHHHHHhhCCCCcEEEE
Q 037034 43 YLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--QYVANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 43 ~~v~~~~t~~ee~~~~~~~l~~~~digII~It--e~~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
+++.|...+++...+++++|+.++++..|+-. ......+.+.+++ ...|.|..
T Consensus 41 l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~~~~~~~~~~--~~ip~v~~ 95 (336)
T cd06360 41 FVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEALAMVKVLRE--PGTPLINP 95 (336)
T ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhHHHHHHHHHh--cCceEEec
Confidence 55556666678888999999876777665543 2233344455554 45676653
No 35
>PRK08366 vorA 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=53.56 E-value=45 Score=28.63 Aligned_cols=52 Identities=15% Similarity=0.120 Sum_probs=43.4
Q ss_pred EEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe
Q 037034 14 LIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS 74 (130)
Q Consensus 14 kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It 74 (130)
++.+-|++....|.+++|++ |+.-.|=|+.-++-+.+.++..+.++++.++.
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 56789999999999999998 45556667778999999999876677777776
No 36
>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=53.23 E-value=76 Score=22.17 Aligned_cols=56 Identities=14% Similarity=0.102 Sum_probs=33.8
Q ss_pred HHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCC-eeEEEEehHHHHHHHHHHHhhCCC
Q 037034 25 TGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKED-IAIVLISQYVANMIRFLVDSYNKP 91 (130)
Q Consensus 25 ~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~d-igII~Ite~~a~~i~~~I~~~~~~ 91 (130)
.-|+..|++.+ ....+++.+++.++..+. +.+ ++|-...+...+.+++.++.+++.
T Consensus 21 ~~l~~~G~~vi---------~lG~~vp~e~~~~~a~~~--~~d~V~iS~~~~~~~~~~~~~~~~L~~~ 77 (122)
T cd02071 21 RALRDAGFEVI---------YTGLRQTPEEIVEAAIQE--DVDVIGLSSLSGGHMTLFPEVIELLREL 77 (122)
T ss_pred HHHHHCCCEEE---------ECCCCCCHHHHHHHHHHc--CCCEEEEcccchhhHHHHHHHHHHHHhc
Confidence 44777888743 224456678777766644 233 333334466777888888887644
No 37
>PF01886 DUF61: Protein of unknown function DUF61; InterPro: IPR002746 The proteins in this entry are functionally uncharacterised.
Probab=53.04 E-value=48 Score=24.38 Aligned_cols=71 Identities=20% Similarity=0.344 Sum_probs=45.8
Q ss_pred HHHHHHHHhcCCCeeEEE-------EehHHHHHHHHHHHhh---CCCCcEEEEc-CCCC-CCCChhhhHHHHHHHHhcCC
Q 037034 55 IEDAFKEFTTKEDIAIVL-------ISQYVANMIRFLVDSY---NKPIPAILEI-PSKD-HPYDPAHDSVLSRVKNLFSA 122 (130)
Q Consensus 55 ~~~~~~~l~~~~digII~-------Ite~~a~~i~~~I~~~---~~~~P~Iv~I-Ps~~-g~~~~~~d~i~~~V~~AiGv 122 (130)
-...|.+|++.++-.|+. +..+-.+.+.+.+..+ +-.+|.|+++ |+.+ |.+-.....=.+-|++++|.
T Consensus 19 ~rktL~eLL~ee~P~i~lrdG~~h~f~k~ELe~L~~~lp~~~~~~lrLPIile~~~~~~~g~~~V~g~~e~k~i~~ilg~ 98 (132)
T PF01886_consen 19 ERKTLKELLEEEKPSIILRDGSRHRFDKEELERLAEILPEYEWSKLRLPIILEIDPTLGEGSYRVRGKEEVKAISKILGK 98 (132)
T ss_pred hhhhHHHHHhCCCCeEEecCCCEEEEcHHHHHHHHHhCCHHHHhceeccEEEEEeccCCCceEEEeCHHHHHHHHHHhCC
Confidence 356788899777766666 3344556677766654 3569999999 7753 44333222245678888887
Q ss_pred Ccc
Q 037034 123 ESV 125 (130)
Q Consensus 123 di~ 125 (130)
+..
T Consensus 99 ~~~ 101 (132)
T PF01886_consen 99 ERE 101 (132)
T ss_pred Ccc
Confidence 754
No 38
>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]
Probab=52.87 E-value=53 Score=27.34 Aligned_cols=66 Identities=12% Similarity=0.176 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCCccccCC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAESVASGR 129 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~~ 129 (130)
.+|++++++ -..-||++.+.-.+.+++.++.+.....+++|.. .+...+.+..+. ..|+|...+|.
T Consensus 198 le~~~eAl~-----agaDiImLDNm~~e~~~~av~~l~~~~~~~lEaS-----GgIt~~ni~~yA--~tGVD~IS~ga 263 (280)
T COG0157 198 LEEAEEALE-----AGADIIMLDNMSPEELKEAVKLLGLAGRALLEAS-----GGITLENIREYA--ETGVDVISVGA 263 (280)
T ss_pred HHHHHHHHH-----cCCCEEEecCCCHHHHHHHHHHhccCCceEEEEe-----CCCCHHHHHHHh--hcCCCEEEeCc
Confidence 466666554 3445899999999999999998754457888884 345568899888 78899887763
No 39
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=51.96 E-value=1.3e+02 Score=24.77 Aligned_cols=83 Identities=14% Similarity=0.091 Sum_probs=52.0
Q ss_pred CCCcEEEEEcch---------hhHHHHHHhcccccc-----cCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe-
Q 037034 10 KSSALIAMIADE---------DTVTGFLLAGVGNVD-----LRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS- 74 (130)
Q Consensus 10 ~~~~kIaVIGD~---------dtv~GFrLaGi~~~~-----~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It- 74 (130)
.+.-+|++++.. +...|++++ ++.+| .+++..+++.|...+++...++.++|+. +++-.|+-.
T Consensus 23 ~~~I~IG~l~plSG~~a~~G~~~~~g~~~a-v~~iNa~GGi~G~~ielv~~D~~~~p~~a~~~~~~Li~-~~V~~iiG~~ 100 (369)
T PRK15404 23 ADDIKIAIVGPMSGPVAQYGDMEFTGARQA-IEDINAKGGIKGDKLEGVEYDDACDPKQAVAVANKVVN-DGIKYVIGHL 100 (369)
T ss_pred CCceEEEEeecCCCcchhcCHhHHHHHHHH-HHHHHhcCCCCCeEEEEEeecCCCCHHHHHHHHHHHHh-CCceEEEcCC
Confidence 345788888642 467777776 33222 1234557777776778899999999995 666666653
Q ss_pred -hHHHHHHHHHHHhhCCCCcEEE
Q 037034 75 -QYVANMIRFLVDSYNKPIPAIL 96 (130)
Q Consensus 75 -e~~a~~i~~~I~~~~~~~P~Iv 96 (130)
......+.+..++ ...|+|.
T Consensus 101 ~s~~~~a~~~~~~~--~~ip~i~ 121 (369)
T PRK15404 101 CSSSTQPASDIYED--EGILMIT 121 (369)
T ss_pred CchhHHHhHHHHHH--CCCeEEe
Confidence 3344455555555 3456555
No 40
>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional
Probab=51.50 E-value=1.5e+02 Score=24.94 Aligned_cols=82 Identities=20% Similarity=0.307 Sum_probs=48.3
Q ss_pred cEEEEEcchh-----hHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--------hHHHH
Q 037034 13 ALIAMIADED-----TVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--------QYVAN 79 (130)
Q Consensus 13 ~kIaVIGD~d-----tv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--------e~~a~ 79 (130)
.+|++|++-- +.-.+...|..- .|++-.....+.+....+++.+++++++..|++. +.+++
T Consensus 257 ~~i~ii~ng~G~~~~~~D~l~~~g~~~------~NPvDl~g~~~~e~~~~aL~~l~~d~~vd~vlv~~~~~~~~~~~va~ 330 (388)
T PRK00696 257 GNIGCMVNGAGLAMATMDIIKLYGGEP------ANFLDVGGGATAERVAEAFKIILSDPNVKAILVNIFGGITRCDVIAE 330 (388)
T ss_pred CcEEEEECCchHHHHHHHHHHHcCCCc------CCeEEecCCCCHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCHHHHHH
Confidence 5788888731 112222344421 3455444445679999999999999988777752 23444
Q ss_pred HHHHHHHhhCCCCcEEEEcCC
Q 037034 80 MIRFLVDSYNKPIPAILEIPS 100 (130)
Q Consensus 80 ~i~~~I~~~~~~~P~Iv~IPs 100 (130)
.+.+...+.+...|+++...+
T Consensus 331 ~i~~~~~~~~~~kPvv~~~~g 351 (388)
T PRK00696 331 GIIAAVKEVGVTVPLVVRLEG 351 (388)
T ss_pred HHHHHHHhcCCCCcEEEEeCC
Confidence 444443332245788777644
No 41
>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=50.32 E-value=40 Score=23.29 Aligned_cols=68 Identities=10% Similarity=0.216 Sum_probs=44.9
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhC--CCCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCC
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYN--KPIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAE 123 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~--~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvd 123 (130)
+++.+.|+.+- +.++-+.++|..-.+.++..+..+. ...+.|+.- +..+...+..+.++..+++ +|++
T Consensus 80 ~~~~~~L~~l~-~~~~~~~i~Sn~~~~~~~~~l~~~~~~~~f~~i~~~-~~~~~~Kp~~~~~~~~~~~-~~~~ 149 (176)
T PF13419_consen 80 PGVRELLERLK-AKGIPLVIVSNGSRERIERVLERLGLDDYFDEIISS-DDVGSRKPDPDAYRRALEK-LGIP 149 (176)
T ss_dssp TTHHHHHHHHH-HTTSEEEEEESSEHHHHHHHHHHTTHGGGCSEEEEG-GGSSSSTTSHHHHHHHHHH-HTSS
T ss_pred hhhhhhhhhcc-cccceeEEeecCCccccccccccccccccccccccc-chhhhhhhHHHHHHHHHHH-cCCC
Confidence 56778888774 5699999999998888888888875 334555533 3334444545555544444 4554
No 42
>PTZ00029 60S ribosomal protein L10a; Provisional
Probab=50.03 E-value=82 Score=24.78 Aligned_cols=63 Identities=16% Similarity=0.214 Sum_probs=44.5
Q ss_pred CCCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHH------HHHHHhcCCCeeEEEEehHHHHHH
Q 037034 8 PTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIED------AFKEFTTKEDIAIVLISQYVANMI 81 (130)
Q Consensus 8 ~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~------~~~~l~~~~digII~Ite~~a~~i 81 (130)
......+|||++|.+...=-+-+|++ ++ .. +++.+ ..++++ .+|-+++-+.++...+
T Consensus 57 ~~gk~~~v~V~a~~~~~~~Ak~aGa~----------vv-g~----edL~~~~k~~k~~kkl~--~~fD~flA~~~im~~l 119 (216)
T PTZ00029 57 VPKPNLKVCVLGDAVHCDEAKKLGLD----------FM-DI----EGLKKFNKNKKLVKKLA--KKYDAFLASQSLLPQI 119 (216)
T ss_pred CCCCCcEEEEECCcHHHHHHHHcCCC----------Ee-cH----HHHHHhhhhHHHHhccc--ccCCEEEECHHHHHHH
Confidence 34456899999999988888999986 22 32 66665 334443 3577899999988877
Q ss_pred HHHHHh
Q 037034 82 RFLVDS 87 (130)
Q Consensus 82 ~~~I~~ 87 (130)
...+-.
T Consensus 120 ~riLGp 125 (216)
T PTZ00029 120 PRLLGP 125 (216)
T ss_pred HHHhcc
Confidence 765544
No 43
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=49.87 E-value=1.4e+02 Score=24.31 Aligned_cols=92 Identities=17% Similarity=0.173 Sum_probs=53.5
Q ss_pred cchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehH-HHHHHHHHHHhhCCCCcEEEE
Q 037034 19 ADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQY-VANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 19 GD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~-~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
|++.++.--+=+|..| |.++|- ++||++. |+.-+++..+..+.++-- .-++=-+.+.+... ..+-
T Consensus 111 G~e~~iq~ak~aGanG--------fiivDl--PpEEa~~-~Rne~~k~gislvpLvaPsTtdeRmell~~~ad---sFiY 176 (268)
T KOG4175|consen 111 GVENYIQVAKNAGANG--------FIIVDL--PPEEAET-LRNEARKHGISLVPLVAPSTTDERMELLVEAAD---SFIY 176 (268)
T ss_pred hHHHHHHHHHhcCCCc--------eEeccC--ChHHHHH-HHHHHHhcCceEEEeeCCCChHHHHHHHHHhhc---ceEE
Confidence 5667777778889987 677664 6788776 666777888888877632 22221222222111 2333
Q ss_pred cCCCCCCCCh------hhhHHHHHHHHhcCCCc
Q 037034 98 IPSKDHPYDP------AHDSVLSRVKNLFSAES 124 (130)
Q Consensus 98 IPs~~g~~~~------~~d~i~~~V~~AiGvdi 124 (130)
+=|+.|..+- ..+++.++||++-|-.-
T Consensus 177 vVSrmG~TG~~~svn~~l~~L~qrvrk~t~dtP 209 (268)
T KOG4175|consen 177 VVSRMGVTGTRESVNEKLQSLLQRVRKATGDTP 209 (268)
T ss_pred EEEeccccccHHHHHHHHHHHHHHHHHhcCCCc
Confidence 3344443322 34567788888765433
No 44
>COG1154 Dxs Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]
Probab=49.69 E-value=7.9 Score=35.45 Aligned_cols=50 Identities=16% Similarity=0.350 Sum_probs=34.8
Q ss_pred CCCCCCCCcEEEEEcchhhHHHHHHhcccccccCCcceE--EEecCCCcHHH
Q 037034 5 AQIPTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNY--LIVDSKTTVKA 54 (130)
Q Consensus 5 ~~~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~--~v~~~~t~~ee 54 (130)
......+++-||||||-..--|+-+-++...-...+.|+ +++|++||..+
T Consensus 131 ~~~~g~~~~vvaVIGDGAlt~GmA~EALN~ag~~~~~~~iVILNDNeMSIs~ 182 (627)
T COG1154 131 RDLKGEDRNVVAVIGDGALTGGMAFEALNNAGADLKSNLIVILNDNEMSISP 182 (627)
T ss_pred HHhcCCCCcEEEEECCccccchHHHHHHhhhhhccCCCEEEEEeCCCcccCC
Confidence 456677788999999999999999988876531112334 44566666443
No 45
>PLN03194 putative disease resistance protein; Provisional
Probab=48.74 E-value=31 Score=27.04 Aligned_cols=36 Identities=6% Similarity=0.046 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehHHHH--HHHHHHHhh
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQYVAN--MIRFLVDSY 88 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~~a~--~i~~~I~~~ 88 (130)
+.+...+.+.+....++|+++++++++ ++.+++...
T Consensus 68 ~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~~I 105 (187)
T PLN03194 68 DKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELALI 105 (187)
T ss_pred CcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHHHH
Confidence 566666777788899999999999885 777777665
No 46
>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=48.71 E-value=31 Score=24.17 Aligned_cols=53 Identities=11% Similarity=0.182 Sum_probs=27.7
Q ss_pred HHHHHh---cCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHHHHHH
Q 037034 58 AFKEFT---TKEDIAIVLISQYVANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLSRVKN 118 (130)
Q Consensus 58 ~~~~l~---~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~ 118 (130)
++..+. ..-|+.+|++.......+-+++.+ .....++..|+ . ..+.+.+..++
T Consensus 45 ~y~sl~e~p~~iDlavv~~~~~~~~~~v~~~~~--~g~~~v~~~~g---~---~~~~~~~~a~~ 100 (116)
T PF13380_consen 45 CYPSLAEIPEPIDLAVVCVPPDKVPEIVDEAAA--LGVKAVWLQPG---A---ESEELIEAARE 100 (116)
T ss_dssp -BSSGGGCSST-SEEEE-S-HHHHHHHHHHHHH--HT-SEEEE-TT---S-----HHHHHHHHH
T ss_pred eeccccCCCCCCCEEEEEcCHHHHHHHHHHHHH--cCCCEEEEEcc---h---HHHHHHHHHHH
Confidence 555555 356888888886654433333333 34679999998 2 23557777665
No 47
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=48.70 E-value=70 Score=24.35 Aligned_cols=81 Identities=14% Similarity=0.135 Sum_probs=45.8
Q ss_pred HHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe---hHHHHHHHHHHHhhCCCCc---EEEEc
Q 037034 25 TGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS---QYVANMIRFLVDSYNKPIP---AILEI 98 (130)
Q Consensus 25 ~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It---e~~a~~i~~~I~~~~~~~P---~Iv~I 98 (130)
.-|+..|++.+ | -..+++.+++.++.++. +.+ +|.++ ..-...+++.++.++...| .-|-+
T Consensus 104 ~~l~~~G~~vi-------~--lG~~~p~~~l~~~~~~~--~~d--~v~lS~~~~~~~~~~~~~i~~lr~~~~~~~~~i~v 170 (201)
T cd02070 104 TMLEANGFEVI-------D--LGRDVPPEEFVEAVKEH--KPD--ILGLSALMTTTMGGMKEVIEALKEAGLRDKVKVMV 170 (201)
T ss_pred HHHHHCCCEEE-------E--CCCCCCHHHHHHHHHHc--CCC--EEEEeccccccHHHHHHHHHHHHHCCCCcCCeEEE
Confidence 45677788632 1 23566788888877644 344 44444 3445677777777753333 33444
Q ss_pred CCCCCCCChhhhHHHHHHHHhcCCCcccc
Q 037034 99 PSKDHPYDPAHDSVLSRVKNLFSAESVAS 127 (130)
Q Consensus 99 Ps~~g~~~~~~d~i~~~V~~AiGvdi~~~ 127 (130)
-+..- .. ...+.+|+|-++.
T Consensus 171 GG~~~----~~-----~~~~~~GaD~~~~ 190 (201)
T cd02070 171 GGAPV----NQ-----EFADEIGADGYAE 190 (201)
T ss_pred ECCcC----CH-----HHHHHcCCcEEEC
Confidence 33221 11 2566779998764
No 48
>COG0647 NagD Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]
Probab=47.74 E-value=1.6e+02 Score=24.18 Aligned_cols=92 Identities=14% Similarity=0.177 Sum_probs=59.0
Q ss_pred cEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehH-HHHHHHHHHHhhCCC
Q 037034 13 ALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQY-VANMIRFLVDSYNKP 91 (130)
Q Consensus 13 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~-~a~~i~~~I~~~~~~ 91 (130)
.||.+||......-+..+|++-+ .+. +.. +.++-++-.++. -++++.+.+..+.+.
T Consensus 92 ~kv~viG~~~l~~~l~~~G~~~~----------~~~----~~~---------~~d~Vv~g~d~~~~~e~l~~a~~~i~~g 148 (269)
T COG0647 92 KKVYVIGEEGLKEELEGAGFELV----------DEE----EPA---------RVDAVVVGLDRTLTYEKLAEALLAIAAG 148 (269)
T ss_pred CEEEEECCcchHHHHHhCCcEEe----------ccC----CCC---------cccEEEEecCCCCCHHHHHHHHHHHHcC
Confidence 79999999999999999998632 221 000 134445555444 346666666665555
Q ss_pred CcEEEE-----cCCCCCCCChhhhHHHHHHHHhcCCCccccC
Q 037034 92 IPAILE-----IPSKDHPYDPAHDSVLSRVKNLFSAESVASG 128 (130)
Q Consensus 92 ~P~Iv~-----IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~ 128 (130)
.|.|-. +|...| .-++..+|...++.+-|.+....|
T Consensus 149 ~~fI~tNpD~~~p~~~g-~~pgaGai~~~~~~~tg~~~~~~G 189 (269)
T COG0647 149 APFIATNPDLTVPTERG-LRPGAGAIAALLEQATGREPTVIG 189 (269)
T ss_pred CcEEEeCCCccccCCCC-CccCcHHHHHHHHHhhCCcccccC
Confidence 777764 444455 335678888999988888774443
No 49
>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=46.24 E-value=1.4e+02 Score=23.49 Aligned_cols=80 Identities=18% Similarity=0.243 Sum_probs=47.0
Q ss_pred EEEEEcc----hhhHHHHHHhcccccccC------CcceEEEecCC-CcHHHHHHHHHHHhcCCCeeEEE--EehHHHHH
Q 037034 14 LIAMIAD----EDTVTGFLLAGVGNVDLR------RKTNYLIVDSK-TTVKAIEDAFKEFTTKEDIAIVL--ISQYVANM 80 (130)
Q Consensus 14 kIaVIGD----~dtv~GFrLaGi~~~~~~------~~~n~~v~~~~-t~~ee~~~~~~~l~~~~digII~--Ite~~a~~ 80 (130)
+|+.|-+ .....||+|| ++.+|.+ ++-.+.+.+.+ .++.++.++..+|+.+ ++..|+ .+...+..
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 3555544 7778899886 3444322 22224444433 4457788888989865 666565 34455566
Q ss_pred HHHHHHhhCCCCcEEEE
Q 037034 81 IRFLVDSYNKPIPAILE 97 (130)
Q Consensus 81 i~~~I~~~~~~~P~Iv~ 97 (130)
+.+..+++ ..|.|.+
T Consensus 79 v~~~~~~~--~vP~Is~ 93 (327)
T cd06382 79 VQSICDAK--EIPHIQT 93 (327)
T ss_pred HHHHHhcc--CCCceec
Confidence 66666654 3666653
No 50
>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=46.05 E-value=79 Score=28.27 Aligned_cols=59 Identities=17% Similarity=0.204 Sum_probs=44.2
Q ss_pred CCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehH
Q 037034 9 TKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQY 76 (130)
Q Consensus 9 ~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~ 76 (130)
.....++.+-|++....|.+.+|++ |+.-.|=|+--++-+.+.+++.+.++-++-...+
T Consensus 188 ~~~~~~~~l~GNeAvA~ga~~ag~~---------~~~~YPiTPsTei~e~la~~~~~~~~~~~q~E~E 246 (562)
T TIGR03710 188 PKDGDRILISGNEAIALGAIAAGLR---------FYAAYPITPASDILEFLAKHLKKFGVVVVQAEDE 246 (562)
T ss_pred CCCCcEEEeehHHHHHHHHHHhCCc---------eecccCCCChhHHHHHHHHhhhhhCcEEEeeccH
Confidence 3445678999999999999999998 5555666777889999998876555444444443
No 51
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=45.78 E-value=62 Score=25.46 Aligned_cols=63 Identities=11% Similarity=0.140 Sum_probs=39.0
Q ss_pred CCcEEEEEcch------hhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEeh
Q 037034 11 SSALIAMIADE------DTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQ 75 (130)
Q Consensus 11 ~~~kIaVIGD~------dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite 75 (130)
++.+|++||.. +...||.. |+.-++++-+..+.....-.+++...++-+.++ +.+.-||+-.-
T Consensus 119 ~t~kVG~I~g~~~~~~~~~~~gF~~-G~~~~~p~~~v~~~~~g~~~D~~~a~~~a~~l~-~~G~DvI~~~~ 187 (258)
T cd06353 119 KTNKVGYVAAFPIPEVVRGINAFAL-GARSVNPDATVKVIWTGSWFDPAKEKEAALALI-DQGADVIYQHT 187 (258)
T ss_pred cCCcEEEEcCcccHHHHHHHHHHHH-HHHHHCCCcEEEEEEecCCCCcHHHHHHHHHHH-HCCCcEEEecC
Confidence 45799999986 56678885 887555443321222222223466677777777 45777887764
No 52
>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=45.48 E-value=85 Score=21.92 Aligned_cols=38 Identities=18% Similarity=0.316 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhcCCCeeEEEEe------------hHHHHHHHHHHHhhCC
Q 037034 53 KAIEDAFKEFTTKEDIAIVLIS------------QYVANMIRFLVDSYNK 90 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~It------------e~~a~~i~~~I~~~~~ 90 (130)
.++.+.+.+.+...+..+++|. +.+.+.++..|+.++.
T Consensus 26 ~~~~~~~~~~~~~~~pd~vvi~~G~ND~~~~~~~~~~~~~~~~~i~~i~~ 75 (157)
T cd01833 26 DQIAAAAADWVLAAKPDVVLLHLGTNDLVLNRDPDTAPDRLRALIDQMRA 75 (157)
T ss_pred HHHHHHhhhccccCCCCEEEEeccCcccccCCCHHHHHHHHHHHHHHHHH
Confidence 6667777666655555555552 2344666667776653
No 53
>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=45.46 E-value=96 Score=23.71 Aligned_cols=52 Identities=10% Similarity=0.167 Sum_probs=39.2
Q ss_pred cHHHHHHHHHHHhcCCCeeEEEEehH-------HHHHHHHHHHhhCCCCcEEEEcCCCC
Q 037034 51 TVKAIEDAFKEFTTKEDIAIVLISQY-------VANMIRFLVDSYNKPIPAILEIPSKD 102 (130)
Q Consensus 51 ~~ee~~~~~~~l~~~~digII~Ite~-------~a~~i~~~I~~~~~~~P~Iv~IPs~~ 102 (130)
+.+++.++|+++.+++++.-|+++-+ ..+.+.+.|.++++..|++..+.+..
T Consensus 14 s~~~l~~~l~~a~~d~~i~~vvl~~~s~Gg~~~~~~~l~~~i~~~~~~kpvia~v~g~a 72 (207)
T TIGR00706 14 SPEDFDKKIKRIKDDKSIKALLLRINSPGGTVVASEEIYEKLKKLKAKKPVVASMGGVA 72 (207)
T ss_pred CHHHHHHHHHHHhhCCCccEEEEEecCCCCCHHHHHHHHHHHHHhcCCCCEEEEECCcc
Confidence 35899999999988888876666532 34667777877766789999887654
No 54
>PLN02235 ATP citrate (pro-S)-lyase
Probab=45.07 E-value=1.6e+02 Score=25.93 Aligned_cols=64 Identities=11% Similarity=-0.018 Sum_probs=44.1
Q ss_pred cceEEEecCCCcHHHHHHHHHHHh----cCCCeeEEEEe--------hHHH---HHHHHHHHhhC-----CCCcEEEEcC
Q 037034 40 KTNYLIVDSKTTVKAIEDAFKEFT----TKEDIAIVLIS--------QYVA---NMIRFLVDSYN-----KPIPAILEIP 99 (130)
Q Consensus 40 ~~n~~v~~~~t~~ee~~~~~~~l~----~~~digII~It--------e~~a---~~i~~~I~~~~-----~~~P~Iv~IP 99 (130)
-.||.-+.-..+.+.+.++|+-++ +++++-.|+|. ..+| +-+-+.+.++. ...|.||-+.
T Consensus 298 pANFlDvGG~a~~e~v~~a~~iil~~~~~~~~vk~ilvnIfGGI~rcd~VA~tf~GIi~A~~e~~~kl~~~~vpivVRl~ 377 (423)
T PLN02235 298 LGNYAEYSGAPNEEEVLQYARVVIDCATANPDGRKRALLIGGGIANFTDVAATFNGIIRALREKESKLKAARMHIFVRRG 377 (423)
T ss_pred CceeeecCCCCCHHHHHHHHHHHHhhhhcCCCCcEEEEEEecccccchhhhhhhhHHHHHHHHhhhccccCCccEEEECC
Confidence 357877766677899999999887 67776555443 5566 55555555443 3589999988
Q ss_pred CCCC
Q 037034 100 SKDH 103 (130)
Q Consensus 100 s~~g 103 (130)
+.+.
T Consensus 378 GtN~ 381 (423)
T PLN02235 378 GPNY 381 (423)
T ss_pred CCCH
Confidence 7663
No 55
>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=44.13 E-value=63 Score=28.92 Aligned_cols=54 Identities=19% Similarity=0.216 Sum_probs=43.2
Q ss_pred EEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehH
Q 037034 14 LIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQY 76 (130)
Q Consensus 14 kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~ 76 (130)
|+.+-|++....|.+.+|++ |+.-.|=|+.-++-+.|.+++++.++-++...++
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 46788999999999999997 6666777888999999999887666655555544
No 56
>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=43.20 E-value=1.3e+02 Score=26.24 Aligned_cols=24 Identities=17% Similarity=0.260 Sum_probs=19.3
Q ss_pred CCcEEEEEcchhhHHHHHH----hcccc
Q 037034 11 SSALIAMIADEDTVTGFLL----AGVGN 34 (130)
Q Consensus 11 ~~~kIaVIGD~dtv~GFrL----aGi~~ 34 (130)
..+++++.||++.+.|+.= .|++-
T Consensus 304 ~Gkrv~i~g~~~~~~~l~~fl~elGm~~ 331 (454)
T cd01973 304 ANKKVAIFGHPDLVIGLAEFCLEVEMKP 331 (454)
T ss_pred CCCeEEEEcCHHHHHHHHHHHHHCCCeE
Confidence 3589999999999988765 68763
No 57
>PRK08367 porA pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=42.35 E-value=62 Score=27.75 Aligned_cols=53 Identities=17% Similarity=0.149 Sum_probs=44.0
Q ss_pred cEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe
Q 037034 13 ALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS 74 (130)
Q Consensus 13 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It 74 (130)
.++.+-|++....|.+.+|++ |+.-.|=|+.-++-+.+.+++.+.+++..++.
T Consensus 3 ~~~~~~GNeAvA~aa~~Ag~~---------v~a~YPITPsTei~e~la~~~~~g~~~~~~v~ 55 (394)
T PRK08367 3 IRTVMKANEAAAWAAKLAKPK---------VIAAFPITPSTLVPEKISEFVANGELDAEFIK 55 (394)
T ss_pred eeEeccHHHHHHHHHHHhCCC---------EEEEECCCCccHHHHHHHHHhhcCCcCeEEEE
Confidence 367889999999999999998 45556667778999999999987677777776
No 58
>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=42.03 E-value=1.3e+02 Score=24.16 Aligned_cols=57 Identities=19% Similarity=0.109 Sum_probs=40.9
Q ss_pred cceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--hHHHHHHHHHHHhhCCCCcEEEEc
Q 037034 40 KTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--QYVANMIRFLVDSYNKPIPAILEI 98 (130)
Q Consensus 40 ~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--e~~a~~i~~~I~~~~~~~P~Iv~I 98 (130)
+..+++.|...+++.+.+..++|+.++++-.|+=. ...+..+.+.+++ ...|+|-+.
T Consensus 40 ~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~--~~vp~i~~~ 98 (347)
T cd06335 40 KLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVALANLEFIQQ--NKIPLIGPW 98 (347)
T ss_pred EEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHHHhhhHHHHh--cCCcEEecC
Confidence 44577777777789999999999987788777653 3345556677776 457777644
No 59
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=41.86 E-value=97 Score=27.78 Aligned_cols=72 Identities=11% Similarity=0.281 Sum_probs=45.4
Q ss_pred cHHHHHHH-HHHHhc-CCCeeEEEEehH---------HHHHHHHHHHhhC-CCCcEEEEcCCCCCCCChhhhHHHHHHHH
Q 037034 51 TVKAIEDA-FKEFTT-KEDIAIVLISQY---------VANMIRFLVDSYN-KPIPAILEIPSKDHPYDPAHDSVLSRVKN 118 (130)
Q Consensus 51 ~~ee~~~~-~~~l~~-~~digII~Ite~---------~a~~i~~~I~~~~-~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~ 118 (130)
+-+++.+. =++.+. ..++||++.|.. +.+.-...|++++ ...|.|+.+-+.+ |+..+...+.+.+++
T Consensus 128 PF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~~kPfiivlN~~d-p~~~et~~l~~~l~e 206 (492)
T TIGR02836 128 PFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEELKELNKPFIILLNSTH-PYHPETEALRQELEE 206 (492)
T ss_pred chhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHHHhcCCCEEEEEECcC-CCCchhHHHHHHHHH
Confidence 34444432 334555 789999998743 5555666777775 7789999987766 232334556666677
Q ss_pred hcCCC
Q 037034 119 LFSAE 123 (130)
Q Consensus 119 AiGvd 123 (130)
..|+-
T Consensus 207 ky~vp 211 (492)
T TIGR02836 207 KYDVP 211 (492)
T ss_pred HhCCc
Confidence 66654
No 60
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=41.75 E-value=1.2e+02 Score=24.08 Aligned_cols=55 Identities=15% Similarity=0.247 Sum_probs=39.6
Q ss_pred cceEEEecCCCcHHHHHHHHHHHhcCCCeeEEE--EehHHHHHHHHHHHhhCCCCcEEEE
Q 037034 40 KTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVL--ISQYVANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 40 ~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~--Ite~~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
+..+.+.|...+++...++.++|+.++++-.|+ .+...+..+.+.++ ...|.|..
T Consensus 40 ~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a~a~~~~~~---~~vp~i~~ 96 (333)
T cd06358 40 EVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVRNAVAPVVA---GRVPYVYT 96 (333)
T ss_pred EEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHHHHHHHHHh---cCceEEeC
Confidence 344666666666788899999999887777777 44566667777776 55777764
No 61
>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=41.74 E-value=1.3e+02 Score=23.78 Aligned_cols=75 Identities=11% Similarity=0.102 Sum_probs=47.8
Q ss_pred hhhHHHHHHhccccccc-----CCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--hHHHHHHHHHHHhhCCCCc
Q 037034 21 EDTVTGFLLAGVGNVDL-----RRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--QYVANMIRFLVDSYNKPIP 93 (130)
Q Consensus 21 ~dtv~GFrLaGi~~~~~-----~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--e~~a~~i~~~I~~~~~~~P 93 (130)
.....|++++ ++.+|. +++..+++.|...+++...++.++|+.++++.+|+=. ......+.+.+++ ...|
T Consensus 17 ~~~~~g~~~a-~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~--~~vp 93 (333)
T cd06331 17 PSLRNAALLA-IEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASRKAVLPVVER--GRGL 93 (333)
T ss_pred HHHHHHHHHH-HHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHHHHHHHHHHh--cCce
Confidence 3555677654 222211 1234567777777889999999999977788777754 3344556677776 4567
Q ss_pred EEEEc
Q 037034 94 AILEI 98 (130)
Q Consensus 94 ~Iv~I 98 (130)
.|.+.
T Consensus 94 ~i~~~ 98 (333)
T cd06331 94 LFYPT 98 (333)
T ss_pred EEeCC
Confidence 77643
No 62
>cd00403 Ribosomal_L1 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds its own mRNA. Like several other large ribosomal subunit proteins, L1 displays RNA chaperone activity. L1 is one of the largest ribosomal proteins. It is composed of two domains that cycle between open and closed conformations via a hinge motion. The RNA-binding site of L1 is highly conserved, with both mRNA and rRNA binding the same binding site.
Probab=41.48 E-value=1.5e+02 Score=22.52 Aligned_cols=88 Identities=11% Similarity=0.200 Sum_probs=56.3
Q ss_pred CCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcC---CCeeEEEEehHHHHHHHHHHHh
Q 037034 11 SSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTK---EDIAIVLISQYVANMIRFLVDS 87 (130)
Q Consensus 11 ~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~---~digII~Ite~~a~~i~~~I~~ 87 (130)
+..+|+|+.+.+...==+.+|.+ ++ . .+++.+.++..-.+ .+|-+++.+..+...+...+-.
T Consensus 51 ~~~~i~v~~~d~~~~~a~~~~a~----------vi-g----~~~L~~~~~~~~~~~l~~~~D~fla~~~~~~~~~~~lgk 115 (208)
T cd00403 51 KDVKVCVFAKDEQAKEAKAAGAD----------VV-G----GEDLKKKIKNGEAKKLAKDFDLFLADPRIMMLLPKLLGK 115 (208)
T ss_pred CCeEEEEEcChHhHHHHHHcCCC----------EE-c----HHHHHHHhhcchhhhhhhcCCEEEECHHHHHHHHHHhcc
Confidence 56899999997766555666775 23 2 26777666544321 6788888888888877777765
Q ss_pred h---CCCCcEEEEcCCCCCCCChhhhHHHHHHHHhcC
Q 037034 88 Y---NKPIPAILEIPSKDHPYDPAHDSVLSRVKNLFS 121 (130)
Q Consensus 88 ~---~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiG 121 (130)
. ++..|..+. +. ..+.+.+.|+++.+
T Consensus 116 ~~~~k~k~P~~~~-----~t---~~~~l~~~i~~~~~ 144 (208)
T cd00403 116 VLGPRGKMPNPKT-----GT---VTEDLAKAIEEAKS 144 (208)
T ss_pred ccccCCCCCcCCC-----CC---CcccHHHHHHHHHh
Confidence 3 345444332 11 12457778888776
No 63
>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=41.48 E-value=94 Score=25.78 Aligned_cols=64 Identities=16% Similarity=0.235 Sum_probs=45.5
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCc-EEEEcCCCCCCCChhhhHHHHHHHHhcCCCccccC
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIP-AILEIPSKDHPYDPAHDSVLSRVKNLFSAESVASG 128 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P-~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~ 128 (130)
+|+++++ ....-+|.++..-.+.+++.+..++...| ..++. +.+...+.+.+|. ..|+|+..+|
T Consensus 210 ~ea~eal-----~~gaDiI~LDnm~~e~vk~av~~~~~~~~~v~iea-----SGGI~~~ni~~yA--~tGvD~Is~g 274 (289)
T PRK07896 210 EQLDEVL-----AEGAELVLLDNFPVWQTQEAVQRRDARAPTVLLES-----SGGLTLDTAAAYA--ETGVDYLAVG 274 (289)
T ss_pred HHHHHHH-----HcCCCEEEeCCCCHHHHHHHHHHHhccCCCEEEEE-----ECCCCHHHHHHHH--hcCCCEEEeC
Confidence 5555543 35578999999999999999987654455 44555 3334568899998 6888887665
No 64
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=41.42 E-value=1.7e+02 Score=22.84 Aligned_cols=52 Identities=6% Similarity=0.060 Sum_probs=31.3
Q ss_pred EEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--hHHHHHHHHHHHhhCCCCcEEEE
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--QYVANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~~digII~It--e~~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
...|...+++...+.+++|+.++.+..|+.. ......+.+.+.+ ...|+|..
T Consensus 45 ~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~~~~~~~~~~~~--~~iP~i~~ 98 (336)
T cd06326 45 VTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTPTTAAALPLLEE--AGVPLVGP 98 (336)
T ss_pred EEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCchhHHHHHHHHHH--cCCeEEEe
Confidence 3344444567888999999875465555543 3334445555554 45787765
No 65
>COG3412 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.19 E-value=1.5e+02 Score=22.04 Aligned_cols=51 Identities=14% Similarity=0.296 Sum_probs=29.8
Q ss_pred eeEEEEe--hHHHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHHHHHH
Q 037034 68 IAIVLIS--QYVANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLSRVKN 118 (130)
Q Consensus 68 igII~It--e~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~ 118 (130)
|||++++ .++++-+.+.+.+.....|++--=...+|..+..-+.|.+.|.+
T Consensus 3 vgiVIVSHS~~lAeGv~~li~em~~dv~i~~~gGtddg~iGTs~~~I~~aI~~ 55 (129)
T COG3412 3 VGIVIVSHSKELAEGVAELIREMAGDVPITYAGGTDDGQIGTSFEKIMEAIEK 55 (129)
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHhCCCceEEecCCCCCCcCcCHHHHHHHHHh
Confidence 6677776 45777777777776555555443333444444445556666554
No 66
>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=40.62 E-value=1.2e+02 Score=23.27 Aligned_cols=51 Identities=6% Similarity=0.130 Sum_probs=38.6
Q ss_pred cHHHHHHHHHHHhcCCCeeEEEEehH-------HHHHHHHHHHhhC-CCCcEEEEcCCC
Q 037034 51 TVKAIEDAFKEFTTKEDIAIVLISQY-------VANMIRFLVDSYN-KPIPAILEIPSK 101 (130)
Q Consensus 51 ~~ee~~~~~~~l~~~~digII~Ite~-------~a~~i~~~I~~~~-~~~P~Iv~IPs~ 101 (130)
+-+++.++|+++..++++..|+++-+ -.+.+++.+..++ ...|+|..+.+.
T Consensus 22 ~~~~l~~~l~~a~~d~~v~~ivL~~~s~Gg~~~~~~~~~~~l~~~~~~~kpVia~v~g~ 80 (211)
T cd07019 22 GGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVSAGGA 80 (211)
T ss_pred CHHHHHHHHHHHhhCCCceEEEEEEcCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECCe
Confidence 34899999999999999999998632 2345666666664 678999998765
No 67
>PRK06696 uridine kinase; Validated
Probab=40.50 E-value=77 Score=24.27 Aligned_cols=41 Identities=7% Similarity=0.052 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHHHHHHhc
Q 037034 77 VANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLSRVKNLF 120 (130)
Q Consensus 77 ~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~Ai 120 (130)
+.+.|-+.+.......|.||-|-+..|+ |+.++.+.+.+++
T Consensus 6 ~~~~la~~~~~~~~~~~~iI~I~G~sgs---GKSTlA~~L~~~l 46 (223)
T PRK06696 6 LIKELAEHILTLNLTRPLRVAIDGITAS---GKTTFADELAEEI 46 (223)
T ss_pred HHHHHHHHHHHhCCCCceEEEEECCCCC---CHHHHHHHHHHHH
Confidence 3444555554434567899999887776 6888888888887
No 68
>COG5623 CLP1 Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]
Probab=40.22 E-value=1.1e+02 Score=26.50 Aligned_cols=60 Identities=13% Similarity=0.180 Sum_probs=39.5
Q ss_pred HHHHHHHHHHhcCCCeeEEE--EehHHHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHH
Q 037034 53 KAIEDAFKEFTTKEDIAIVL--ISQYVANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLS 114 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~--Ite~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~ 114 (130)
|...+.++.++++-++.|++ =+|.+...++..-+... .-.|+.||+.+|-.+.+++..+.
T Consensus 235 Enla~~~htiI~~f~vnivvVlgsErLy~s~k~~~~~~~--~n~iffiskldG~~~ve~e~~rs 296 (424)
T COG5623 235 ENLAAFYHTIIKRFEVNIVVVLGSERLYHSLKVIAEKLM--INRIFFISKLDGFVEVEKEVGRS 296 (424)
T ss_pred HHHHHHHHHHHHheeeeEEEEEcchHHHHHHHHHHhHHh--hhheeeecccCCeeehHHHHHHH
Confidence 45556666677666655554 46888888887776642 12399999999887655554433
No 69
>TIGR02364 dha_pts dihydroxyacetone kinase, phosphotransfer subunit. In E. coli and many other bacteria, unlike the yeasts and a few bacteria such as Citrobacter freundii, the dihydroxyacetone kinase (also called glycerone kinase) transfers a phosphate from a phosphoprotein rather than from ATP and contains multiple subunits. This protein, which resembles proteins of PTS transport systems, is found with its gene adjacent to
Probab=39.80 E-value=1.1e+02 Score=21.92 Aligned_cols=12 Identities=8% Similarity=0.011 Sum_probs=6.2
Q ss_pred HHHHHHHHHHhh
Q 037034 77 VANMIRFLVDSY 88 (130)
Q Consensus 77 ~a~~i~~~I~~~ 88 (130)
..+++++.|+++
T Consensus 44 ~~~~I~~ai~~~ 55 (125)
T TIGR02364 44 SPDKIIEAIEKA 55 (125)
T ss_pred hHHHHHHHHHHh
Confidence 345555555554
No 70
>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=39.74 E-value=1.9e+02 Score=25.03 Aligned_cols=72 Identities=14% Similarity=0.069 Sum_probs=42.1
Q ss_pred CCcHHHHHHHHHHHhcCCCeeEEEEeh---------HHHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHHHHHHh
Q 037034 49 KTTVKAIEDAFKEFTTKEDIAIVLISQ---------YVANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLSRVKNL 119 (130)
Q Consensus 49 ~t~~ee~~~~~~~l~~~~digII~Ite---------~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~A 119 (130)
..+++....+++.+++++++..+++.- .+++.+.+...+. ...|+++..++... .+..++..+++
T Consensus 352 ~~~~~~~~~al~~l~~dp~vd~Vlv~~~~~~~~~~~~~a~~l~~~~~~~-~~KPvv~~~~gg~~-----~~~~~~~L~~~ 425 (447)
T TIGR02717 352 DATPERYAKALKTVAEDENVDGVVVVLTPTAMTDPEEVAKGIIEGAKKS-NEKPVVAGFMGGKS-----VDPAKRILEEN 425 (447)
T ss_pred CCCHHHHHHHHHHHHcCCCCCEEEEEccCCccCCHHHHHHHHHHHHHhc-CCCcEEEEecCCcc-----HHHHHHHHHhC
Confidence 345789999999999998987776431 2334444433332 25798777644211 23345545443
Q ss_pred cCCCcccc
Q 037034 120 FSAESVAS 127 (130)
Q Consensus 120 iGvdi~~~ 127 (130)
|+-.|.+
T Consensus 426 -Gip~f~~ 432 (447)
T TIGR02717 426 -GIPNYTF 432 (447)
T ss_pred -CCCccCC
Confidence 6655544
No 71
>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=39.73 E-value=2.1e+02 Score=23.31 Aligned_cols=71 Identities=14% Similarity=0.160 Sum_probs=45.3
Q ss_pred hhhHHHHHHh--------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE-ehHHHHHHHHHHHhhCCC
Q 037034 21 EDTVTGFLLA--------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI-SQYVANMIRFLVDSYNKP 91 (130)
Q Consensus 21 ~dtv~GFrLa--------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I-te~~a~~i~~~I~~~~~~ 91 (130)
.+...|++|+ ||.|. +..+++.|...+++...++.++|+.++++.+|+- +......+.+.+++ ..
T Consensus 17 ~~~~~g~~la~~~iNa~GGI~Gr----~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~~~~S~~~~a~~~~~~~--~~ 90 (351)
T cd06334 17 IPYAAGFADYFKYINEDGGINGV----KLEWEECDTGYEVPRGVECYERLKGEDGAVAFQGWSTGITEALIPKIAA--DK 90 (351)
T ss_pred hhHHHHHHHHHHHHHHcCCcCCe----EEEEEEecCCCCcHHHHHHHHHHhccCCcEEEecCcHHHHHHhhHHHhh--cC
Confidence 4566777775 66543 3346677777778999999999997767665532 12233445555655 45
Q ss_pred CcEEEE
Q 037034 92 IPAILE 97 (130)
Q Consensus 92 ~P~Iv~ 97 (130)
.|.|.+
T Consensus 91 vp~i~~ 96 (351)
T cd06334 91 IPLMSG 96 (351)
T ss_pred CcEEec
Confidence 777763
No 72
>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=39.10 E-value=1.5e+02 Score=23.61 Aligned_cols=70 Identities=16% Similarity=0.176 Sum_probs=47.8
Q ss_pred hhhHHHHHHh--------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhCC
Q 037034 21 EDTVTGFLLA--------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYNK 90 (130)
Q Consensus 21 ~dtv~GFrLa--------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~~ 90 (130)
.+...|++|+ ||.| ++..+++.|...+++....+.++|+.++++-+|+= +......+.+.+++.
T Consensus 17 ~~~~~g~~la~~~iNa~gGi~G----r~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~-- 90 (334)
T cd06356 17 TPKVHATQLAVDEINASGGILG----REVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASREAIRPIMDRT-- 90 (334)
T ss_pred HHHHHHHHHHHHHHHhcCCCCC----ceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHHHHHHHHHHhc--
Confidence 3556666653 6654 34457777777788999999999998777777774 344556677777764
Q ss_pred CCcEEE
Q 037034 91 PIPAIL 96 (130)
Q Consensus 91 ~~P~Iv 96 (130)
..|.|.
T Consensus 91 ~vp~i~ 96 (334)
T cd06356 91 KQLYFY 96 (334)
T ss_pred CceEEe
Confidence 366654
No 73
>PF01791 DeoC: DeoC/LacD family aldolase; InterPro: IPR002915 This family includes the enzyme deoxyribose-phosphate aldolase, which is involved in nucleotide metabolism. 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde The family also includes a group of related bacterial proteins of unknown function, see examples Q57843 from SWISSPROT and P76143 from SWISSPROT.; GO: 0016829 lyase activity; PDB: 2A4A_A 1VCV_B 1P1X_A 1KTN_B 1JCL_A 1JCJ_A 1MZH_A 3GKF_D 3GLC_L 3GND_N ....
Probab=38.17 E-value=39 Score=26.24 Aligned_cols=56 Identities=11% Similarity=0.076 Sum_probs=43.6
Q ss_pred CcHH-HHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEEEcCCCCCCCC
Q 037034 50 TTVK-AIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAILEIPSKDHPYD 106 (130)
Q Consensus 50 t~~e-e~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~ 106 (130)
++.. ++++.+++.+ ...+.=|+++..+....++.+....-..++|+-.|.......
T Consensus 15 ~~~~~~~~~~~~~a~-~~~~~av~v~p~~~~~~~~~~~~~~~~~~~vi~fp~g~~~~~ 71 (236)
T PF01791_consen 15 MTGEEDIKKLCREAI-EYGFDAVCVTPGYVKPAAELLAGSGVKVGLVIGFPFGTSTTE 71 (236)
T ss_dssp HHHHHHHHHHHHHHH-HHTSSEEEEEGGGHHHHHHHSTTSTSEEEEEESTTTSSSTHH
T ss_pred CCchhhHHHHHHHHH-HhCCCEEEECHHHHHHHHHHhhccccccceEEEeCCCCCccc
Confidence 3444 8999999887 458888889999999888877754446789999998776543
No 74
>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=38.11 E-value=1.3e+02 Score=24.92 Aligned_cols=52 Identities=12% Similarity=0.176 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhC-CCCcE-EEEcCCCCC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYN-KPIPA-ILEIPSKDH 103 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~-~~~P~-Iv~IPs~~g 103 (130)
.+.-.+-|+.|++=++-=||+.+++..+.+++.-.++. ...|. |+.++=+.-
T Consensus 26 ~~~Y~~yf~~la~L~N~mVIfTd~~~~e~I~~iR~~~~L~~Ktt~Ii~~dl~~~ 79 (271)
T PF09612_consen 26 NETYFEYFEFLAKLKNNMVIFTDESSKEFIKKIRKKHGLEDKTTVIITIDLKDF 79 (271)
T ss_pred HHHHHHHHHHHHhhcCCEEEEEChHHHHHHHHHHHhcCcCCCceEEEEecHHHh
Confidence 47788888888887888999999999999999888876 66776 777765543
No 75
>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=37.44 E-value=56 Score=23.03 Aligned_cols=51 Identities=22% Similarity=0.317 Sum_probs=33.4
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehHHH--HHHHHHHHhh-CCCCcEEE-EcCCCCC
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQYVA--NMIRFLVDSY-NKPIPAIL-EIPSKDH 103 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~~a--~~i~~~I~~~-~~~~P~Iv-~IPs~~g 103 (130)
+.+.+.+++-+++.++-|++++++.. +.++-+|+.- +...|+|. .+|+...
T Consensus 58 ~~ik~~I~~~i~~s~~~IVLig~~T~~s~wV~~EI~~A~~~~~~Ii~V~~~~~~~ 112 (130)
T PF08937_consen 58 EYIKRKIRERIKNSSVTIVLIGPNTAKSKWVNWEIEYALKKGKPIIGVYLPGLKD 112 (130)
T ss_dssp TTHHHHHHHHHHTEEEEEEE--TT----HHHHHHHHHHTTT---EEEEETT--SG
T ss_pred HHHHHHHHHHHhcCCEEEEEeCCCcccCcHHHHHHHHHHHCCCCEEEEECCCCCC
Confidence 37889999999999999999999875 5888899874 57788655 5555543
No 76
>PRK06106 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=37.17 E-value=95 Score=25.64 Aligned_cols=63 Identities=13% Similarity=0.152 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCCccccC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAESVASG 128 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~ 128 (130)
.+|+++++ +.+.-+|.++..-.+.+++.++..+...| ++. +.+...+.+.++. ..|+|...+|
T Consensus 204 leea~ea~-----~~gaDiI~LDn~s~e~l~~av~~~~~~~~--lea-----SGGI~~~ni~~yA--~tGVD~Is~G 266 (281)
T PRK06106 204 LDQLEEAL-----ELGVDAVLLDNMTPDTLREAVAIVAGRAI--TEA-----SGRITPETAPAIA--ASGVDLISVG 266 (281)
T ss_pred HHHHHHHH-----HcCCCEEEeCCCCHHHHHHHHHHhCCCce--EEE-----ECCCCHHHHHHHH--hcCCCEEEeC
Confidence 35555544 35678999999999999999997664444 554 3345568899998 6799987665
No 77
>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=37.14 E-value=51 Score=29.59 Aligned_cols=35 Identities=14% Similarity=0.419 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehH-----------HHHHHHHHHHhh
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQY-----------VANMIRFLVDSY 88 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~-----------~a~~i~~~I~~~ 88 (130)
+.++.+.+ |+..+.+||.|+|+. +-.+++|.+..|
T Consensus 277 ~~ieqvvr-LIRSKGVGv~fvTQ~P~DiP~~VL~QLGnrIQHaLRAf 322 (502)
T PF05872_consen 277 DKIEQVVR-LIRSKGVGVYFVTQNPTDIPDDVLGQLGNRIQHALRAF 322 (502)
T ss_pred HHHHHHHH-HhhccCceEEEEeCCCCCCCHHHHHhhhhHHHHHHhcC
Confidence 45555555 778899999999987 445677766554
No 78
>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=36.82 E-value=90 Score=21.71 Aligned_cols=44 Identities=25% Similarity=0.138 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehH-----HHHHHHHHHHhhCCCCcEEEEcC
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQY-----VANMIRFLVDSYNKPIPAILEIP 99 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~-----~a~~i~~~I~~~~~~~P~Iv~IP 99 (130)
+++...++ +..+++-++++-+ ....+-+.+.+.+...|+.+...
T Consensus 27 dd~~~~i~---~~~~i~avvi~~d~~~~~~~~~ll~~i~~~~~~iPVFl~~~ 75 (115)
T PF03709_consen 27 DDALAIIE---SFTDIAAVVISWDGEEEDEAQELLDKIRERNFGIPVFLLAE 75 (115)
T ss_dssp HHHHHHHH---CTTTEEEEEEECHHHHHHHHHHHHHHHHHHSTT-EEEEEES
T ss_pred HHHHHHHH---hCCCeeEEEEEcccccchhHHHHHHHHHHhCCCCCEEEEec
Confidence 66666555 5679999999943 55566666666678899888765
No 79
>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....
Probab=36.77 E-value=56 Score=24.77 Aligned_cols=65 Identities=11% Similarity=0.220 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCc-EEEEcCCCCCCCChhhhHHHHHHHHhcCCCccccC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIP-AILEIPSKDHPYDPAHDSVLSRVKNLFSAESVASG 128 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P-~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~ 128 (130)
.+|++++++ .+.-+|.++..-.+.+++.++.++...| +.++.- .+...+.+.++. ..|+|...+|
T Consensus 90 ~ee~~ea~~-----~g~d~I~lD~~~~~~~~~~v~~l~~~~~~v~ie~S-----GGI~~~ni~~ya--~~gvD~isvg 155 (169)
T PF01729_consen 90 LEEAEEALE-----AGADIIMLDNMSPEDLKEAVEELRELNPRVKIEAS-----GGITLENIAEYA--KTGVDVISVG 155 (169)
T ss_dssp HHHHHHHHH-----TT-SEEEEES-CHHHHHHHHHHHHHHTTTSEEEEE-----SSSSTTTHHHHH--HTT-SEEEEC
T ss_pred HHHHHHHHH-----hCCCEEEecCcCHHHHHHHHHHHhhcCCcEEEEEE-----CCCCHHHHHHHH--hcCCCEEEcC
Confidence 467666555 4577999999988999988886642233 555653 334457788888 6778876544
No 80
>PRK09627 oorA 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed
Probab=36.45 E-value=1e+02 Score=26.27 Aligned_cols=54 Identities=11% Similarity=0.043 Sum_probs=41.1
Q ss_pred EEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehH
Q 037034 14 LIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQY 76 (130)
Q Consensus 14 kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~ 76 (130)
++.+-|++....|...+|++ |+.-.|=|+--++-+.+.+.+.+.+..++-...+
T Consensus 3 ~~~~~GNeAiA~ga~~ag~~---------~~a~YPITPsTeI~e~la~~~~~~g~~~vq~E~E 56 (375)
T PRK09627 3 EIISTGNELVAKAAIECGCR---------FFGGYPITPSSEIAHEMSVLLPKCGGTFIQMEDE 56 (375)
T ss_pred ceEechHHHHHHHHHHhCCC---------EEEEeCCCChhHHHHHHHHHHHHcCCEEEEcCCH
Confidence 67889999999999999998 5666777777899998888876544434444433
No 81
>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=36.06 E-value=1.7e+02 Score=23.70 Aligned_cols=70 Identities=14% Similarity=0.123 Sum_probs=46.5
Q ss_pred hhhHHHHHHh--------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--hHHHHHHHHHHHhhCC
Q 037034 21 EDTVTGFLLA--------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--QYVANMIRFLVDSYNK 90 (130)
Q Consensus 21 ~dtv~GFrLa--------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--e~~a~~i~~~I~~~~~ 90 (130)
.+...|++|+ ||.| ++..+++.|...+++...++.++|+.++++-.|+=+ ...+..+.+.+++.
T Consensus 17 ~~~~~g~~la~~~iN~~GGi~G----~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~~a~~~~~~~~-- 90 (360)
T cd06357 17 RSQRNGALLAIEEINAAGGVLG----RELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSRKAVLPVVERH-- 90 (360)
T ss_pred HHHHHHHHHHHHHHhhcCCCCC----eEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHHHHHHHHHHhc--
Confidence 5566777763 4443 234467777767789999999999988888888743 33445566677663
Q ss_pred CCcEEE
Q 037034 91 PIPAIL 96 (130)
Q Consensus 91 ~~P~Iv 96 (130)
..|.+.
T Consensus 91 ~~~~~~ 96 (360)
T cd06357 91 DALLWY 96 (360)
T ss_pred CceEEe
Confidence 355554
No 82
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase. The central phosphatase domain is a member of the IIIA subfamily (TIGR01662) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the ususal site which may indicate slightly different fold in this region.
Probab=36.03 E-value=1e+02 Score=22.82 Aligned_cols=59 Identities=19% Similarity=0.193 Sum_probs=32.9
Q ss_pred CCCCCCCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCC--cHHHHHHHHHHHhcCCCeeEEEEehH
Q 037034 4 RAQIPTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKT--TVKAIEDAFKEFTTKEDIAIVLISQY 76 (130)
Q Consensus 4 ~~~~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t--~~ee~~~~~~~l~~~~digII~Ite~ 76 (130)
|.|+|. +|++++ |.|-++- ..-. ..+ |...-.+. .-+.+.++|++|. ..++-+.++|..
T Consensus 7 ~~~~~~---~k~~~~-D~Dgtl~---~~~~-----~~~-~~~~~~~~~~~~pgv~e~L~~Lk-~~G~~l~I~TN~ 67 (166)
T TIGR01664 7 DGPKPQ---SKVAAF-DLDGTLI---TTRS-----GKV-FPTSASDWRFLYPEIPAKLQELD-DEGYKIVIFTNQ 67 (166)
T ss_pred CCCCCc---CcEEEE-eCCCceE---ecCC-----CCc-ccCChHHeEEecCCHHHHHHHHH-HCCCEEEEEeCC
Confidence 678886 678777 8775532 1000 111 21110000 0145678888775 678999999964
No 83
>PRK08659 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated
Probab=35.89 E-value=1.4e+02 Score=25.37 Aligned_cols=51 Identities=18% Similarity=0.204 Sum_probs=41.2
Q ss_pred cEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe
Q 037034 13 ALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS 74 (130)
Q Consensus 13 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It 74 (130)
+++.+-|++....|.+.+|++ |+.-.|=|+.-++-+.|.++..+ ++..++.
T Consensus 3 ~~~~~~GNeAiA~ga~~ag~~---------~~a~YPITPsTei~e~la~~~~~--~~~~~vq 53 (376)
T PRK08659 3 KVDFLQGNEACAEGAIAAGCR---------FFAGYPITPSTEIAEVMARELPK--VGGVFIQ 53 (376)
T ss_pred ceEEeehHHHHHHHHHHhCCC---------EEEEcCCCChHHHHHHHHHhhhh--hCCEEEE
Confidence 678899999999999999998 56667777789999999888754 5555554
No 84
>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=35.84 E-value=1.8e+02 Score=22.22 Aligned_cols=50 Identities=8% Similarity=0.064 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEeh-------HHHHHHHHHHHhhCCCCcEEEEcCCC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQ-------YVANMIRFLVDSYNKPIPAILEIPSK 101 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite-------~~a~~i~~~I~~~~~~~P~Iv~IPs~ 101 (130)
..++.++|+++.+++++..|+++- .-.+.+.+.+.++++..|+|..+.+.
T Consensus 27 ~~~l~~~l~~a~~d~~i~~Vvl~~~s~gg~~~~~~~l~~~l~~~~~~KpViA~v~g~ 83 (214)
T cd07022 27 YEGIAAAIRAALADPDVRAIVLDIDSPGGEVAGVFELADAIRAARAGKPIVAFVNGL 83 (214)
T ss_pred HHHHHHHHHHHhhCCCCcEEEEEEeCCCCcHHHHHHHHHHHHHHhcCCCEEEEECCc
Confidence 589999999999888997777752 12456777777775578999888764
No 85
>PTZ00225 60S ribosomal protein L10a; Provisional
Probab=35.72 E-value=1.6e+02 Score=23.25 Aligned_cols=62 Identities=13% Similarity=0.186 Sum_probs=41.0
Q ss_pred CCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHH------HHHHhcCCCeeEEEEehHHHHHHH
Q 037034 9 TKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDA------FKEFTTKEDIAIVLISQYVANMIR 82 (130)
Q Consensus 9 ~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~------~~~l~~~~digII~Ite~~a~~i~ 82 (130)
.....+|+|++|.+...=-+-+|++- + .. +++.+. .++|+ .+|-+.+-|.++...+.
T Consensus 56 ~gk~~kV~v~~~~~~~~~Ak~aGad~----------v-~~----e~l~~l~k~~~~~kkl~--~~fD~fiA~~~~m~~lg 118 (214)
T PTZ00225 56 CRPRMTVCLLCDLVHEDIAKKEGVPT----------M-NQ----EELKKLNKNKKLVKKMC--NQYDAFLCSESIIKTVP 118 (214)
T ss_pred CCCCcEEEEECChHHHHHHHHCCCCE----------E-CH----HHHHHHHhccHHHHHHH--hhCCEEEECHHHHHhhh
Confidence 34568999999988887778899972 2 22 555432 33333 45777888888877765
Q ss_pred HHHHh
Q 037034 83 FLVDS 87 (130)
Q Consensus 83 ~~I~~ 87 (130)
..+-.
T Consensus 119 k~LGp 123 (214)
T PTZ00225 119 RLVGP 123 (214)
T ss_pred hhcCC
Confidence 54443
No 86
>TIGR01334 modD putative molybdenum utilization protein ModD. The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.
Probab=35.22 E-value=1.3e+02 Score=24.66 Aligned_cols=65 Identities=5% Similarity=0.060 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCc-EEEEcCCCCCCCChhhhHHHHHHHHhcCCCccccC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIP-AILEIPSKDHPYDPAHDSVLSRVKNLFSAESVASG 128 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P-~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~ 128 (130)
.+++++++ +-..-+|+++..-.+.+++.+..+++..| ..++. +.+...+.+..+. ..|+|+..+|
T Consensus 198 leea~ea~-----~~GaDiI~lDn~~~e~l~~~v~~l~~~~~~~~lea-----sGGI~~~ni~~ya--~~GvD~is~g 263 (277)
T TIGR01334 198 IEQALTVL-----QASPDILQLDKFTPQQLHHLHERLKFFDHIPTLAA-----AGGINPENIADYI--EAGIDLFITS 263 (277)
T ss_pred HHHHHHHH-----HcCcCEEEECCCCHHHHHHHHHHHhccCCCEEEEE-----ECCCCHHHHHHHH--hcCCCEEEeC
Confidence 45555533 34578999999889999999987754444 56676 3344568888888 6788886554
No 87
>PF11965 DUF3479: Domain of unknown function (DUF3479); InterPro: IPR022571 This functionally uncharacterised domain, found N-terminal to PF02514 from PFAM, occurs in magnesium chelatase subunit H, which is involved in chlorophyll biosynthesis. It is found in bacteria, green plants and archaea. It is around 160 amino acids in length.; GO: 0016851 magnesium chelatase activity
Probab=35.16 E-value=1.4e+02 Score=22.80 Aligned_cols=44 Identities=11% Similarity=0.160 Sum_probs=33.0
Q ss_pred HHHHHHhcCCC--eeEEEEehHHHHHHHHHHHhhCCCCcEEEEcCC
Q 037034 57 DAFKEFTTKED--IAIVLISQYVANMIRFLVDSYNKPIPAILEIPS 100 (130)
Q Consensus 57 ~~~~~l~~~~d--igII~Ite~~a~~i~~~I~~~~~~~P~Iv~IPs 100 (130)
+.+++-+++-| +|=.+-.|+.++.+.+.++..+...|+++-.+|
T Consensus 49 ~~~~~aia~ADii~~smlF~ed~v~~l~~~L~~~r~~~~a~i~~~s 94 (164)
T PF11965_consen 49 EECEAAIARADIIFGSMLFIEDHVRPLLPALEARRDHCPAMIIFES 94 (164)
T ss_pred HHHHHHHHhCCEEEeehhhhHHHHHHHHHHHHHHHccCCEEEEEcC
Confidence 44555666667 444555688889999999988778898888888
No 88
>PRK04115 hypothetical protein; Provisional
Probab=35.03 E-value=1.3e+02 Score=22.49 Aligned_cols=69 Identities=17% Similarity=0.268 Sum_probs=44.2
Q ss_pred HHHHHHHHhcCCCeeEEE-------EehHHHHHHHHHHHhh--CCCCcEEEEcCCCC--CCCCh-hhhHHHHHHHHhcCC
Q 037034 55 IEDAFKEFTTKEDIAIVL-------ISQYVANMIRFLVDSY--NKPIPAILEIPSKD--HPYDP-AHDSVLSRVKNLFSA 122 (130)
Q Consensus 55 ~~~~~~~l~~~~digII~-------Ite~~a~~i~~~I~~~--~~~~P~Iv~IPs~~--g~~~~-~~d~i~~~V~~AiGv 122 (130)
-...|.++++.++-.|++ +..+=.+.+++.++.+ +-..|.|+++-+.. |.+-. ++. =-+-|++++|.
T Consensus 22 ~rktL~eLL~e~~P~i~lrdGs~h~~kr~ELe~L~~~l~~~~~~lrLPIile~~~~~~~g~~~VrG~~-evk~IskiLg~ 100 (137)
T PRK04115 22 KRKTLCELLKEDKPHVILRDGSRHRIKRRELEFLKELLDEDACRLRLPIILEIDSSLGEGAIVVRGKE-EVKVISKILGK 100 (137)
T ss_pred HHHHHHHHHhCCCCeEEecCCceEEecHHHHHHHHHhccchhhheeeeEEEEEecCCCceEEEEcCHH-HHHHHHHHhCc
Confidence 357788999766666666 3334456666766654 35699999887755 33322 222 34578889998
Q ss_pred Cc
Q 037034 123 ES 124 (130)
Q Consensus 123 di 124 (130)
+.
T Consensus 101 ~~ 102 (137)
T PRK04115 101 ED 102 (137)
T ss_pred cc
Confidence 74
No 89
>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=34.61 E-value=1.8e+02 Score=21.45 Aligned_cols=50 Identities=6% Similarity=0.108 Sum_probs=37.7
Q ss_pred cHHHHHHHHHHHhcCCCeeEEEEehH-------HHHHHHHHHHhhC-CCCcEEEEcCC
Q 037034 51 TVKAIEDAFKEFTTKEDIAIVLISQY-------VANMIRFLVDSYN-KPIPAILEIPS 100 (130)
Q Consensus 51 ~~ee~~~~~~~l~~~~digII~Ite~-------~a~~i~~~I~~~~-~~~P~Iv~IPs 100 (130)
+.+++.++|+++.+++++..|+++=+ ..+.+++.+.+++ ...|+|..+.+
T Consensus 23 ~~~~l~~~l~~a~~d~~v~~vvl~~~~~gg~~~~~~~~~~~i~~~~~~~kpVia~v~G 80 (177)
T cd07014 23 SGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVASGGG 80 (177)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEeeCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECC
Confidence 45899999999998999988887733 2345666777764 67899988863
No 90
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=33.92 E-value=79 Score=26.58 Aligned_cols=49 Identities=14% Similarity=0.139 Sum_probs=38.5
Q ss_pred EEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE
Q 037034 14 LIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI 73 (130)
Q Consensus 14 kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I 73 (130)
++.+-|++....|.+.+|++ |+.-.|=|+--++-+.+.++.+ +++.+++
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 67889999999999999998 4555666777888888888875 4544554
No 91
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain. This model represents the majority of known sequences of the nitrogenase molybdenum-iron protein beta subunit. A distinct clade in a phylogenetic tree contains molybdenum-iron, vanadium-iron, and iron-iron forms of nitrogenase beta subunit and is excluded from this model. Nitrogenase, also called dinitrogenase, is responsible for nitrogen fixation. Note: the trusted cutoff score has recently been lowered to include an additional family in which the beta subunit is shorter by about 50 amino acids at the N-terminus. In species with the shorter form of the beta subunit, the alpha subunit has a novel insert of similar length.
Probab=33.65 E-value=2.1e+02 Score=25.43 Aligned_cols=58 Identities=22% Similarity=0.261 Sum_probs=35.1
Q ss_pred CcEEEEEcchhhHHHH----HHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCe---eEEEEehHHH
Q 037034 12 SALIAMIADEDTVTGF----LLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDI---AIVLISQYVA 78 (130)
Q Consensus 12 ~~kIaVIGD~dtv~GF----rLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~di---gII~Ite~~a 78 (130)
.+|+||.||+|.+.|+ .=.|++-+ .++... ...+.++.++.+++...+ +.++...++.
T Consensus 363 GKrvaI~gdpd~~~~l~~fL~ElGmepv-------~v~~~~--~~~~~~~~l~~ll~~~~~~~~~~v~~~~Dl~ 427 (515)
T TIGR01286 363 GKRFAIYGDPDFVMGLVRFVLELGCEPV-------HILCTN--GTKRWKAEMKALLAASPYGQNATVWIGKDLW 427 (515)
T ss_pred CceEEEECCHHHHHHHHHHHHHCCCEEE-------EEEeCC--CCHHHHHHHHHHHhcCCCCCccEEEeCCCHH
Confidence 4899999999999994 33455422 333322 236667778888754433 3444443433
No 92
>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=33.57 E-value=1.8e+02 Score=23.24 Aligned_cols=56 Identities=7% Similarity=0.196 Sum_probs=38.5
Q ss_pred cceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhCCCCcEEEE
Q 037034 40 KTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 40 ~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
+..+++.|...+++...+..++|+.++++-.|+= +...+..+.+.+++ ...|+|-+
T Consensus 47 ~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~~s~~~~~~~~~~~~--~~ip~i~~ 104 (362)
T cd06343 47 KIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGLGTPTNLAVQKYLNE--KKVPQLFP 104 (362)
T ss_pred EEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecCCcHHHHHhHHHHHh--cCCceEec
Confidence 3446777776777888999999997777766663 34455566666666 34777664
No 93
>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=33.24 E-value=1.9e+02 Score=25.98 Aligned_cols=100 Identities=11% Similarity=0.264 Sum_probs=64.6
Q ss_pred HHHHHHhcccccccCCcceEEEe----cCCCcHHHHHHH-HHHHhcC-CCeeEEEEehH---------HHHHHHHHHHhh
Q 037034 24 VTGFLLAGVGNVDLRRKTNYLIV----DSKTTVKAIEDA-FKEFTTK-EDIAIVLISQY---------VANMIRFLVDSY 88 (130)
Q Consensus 24 v~GFrLaGi~~~~~~~~~n~~v~----~~~t~~ee~~~~-~~~l~~~-~digII~Ite~---------~a~~i~~~I~~~ 88 (130)
+.||..-|.-|...+.++ -.|. +.+.+-+++.+. =++.+.+ ..+||++-|+. +.+.=...|+++
T Consensus 98 CVGy~V~gA~Gy~e~~~p-RmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~EL 176 (492)
T PF09547_consen 98 CVGYMVEGALGYEEEEGP-RMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEEL 176 (492)
T ss_pred ecceeecCccccccCCCc-eeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHH
Confidence 678888888776665555 3343 224445555443 2344443 46999998843 455555677777
Q ss_pred C-CCCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCCcc
Q 037034 89 N-KPIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAESV 125 (130)
Q Consensus 89 ~-~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~ 125 (130)
+ -..|.||.+=+.+ |+..+...+.+.+++-.|+-..
T Consensus 177 k~igKPFvillNs~~-P~s~et~~L~~eL~ekY~vpVl 213 (492)
T PF09547_consen 177 KEIGKPFVILLNSTK-PYSEETQELAEELEEKYDVPVL 213 (492)
T ss_pred HHhCCCEEEEEeCCC-CCCHHHHHHHHHHHHHhCCcEE
Confidence 5 5689999998877 5555666788888877776543
No 94
>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=33.08 E-value=1.6e+02 Score=23.43 Aligned_cols=55 Identities=15% Similarity=0.143 Sum_probs=40.0
Q ss_pred ceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhCCCCcEEEE
Q 037034 41 TNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 41 ~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
..+++.|...+++....+.++|+.++++-.|+= +......+.+.+++ ...|.|..
T Consensus 42 i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~~~a~~~~~~~--~~ip~i~~ 98 (333)
T cd06328 42 IEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGVALAVLPVAEE--NKKILIVE 98 (333)
T ss_pred EEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHHHHHHHHHHHH--hCCcEEec
Confidence 346677777788999999999998878777763 45566666667765 44777764
No 95
>PRK12702 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=33.03 E-value=1.1e+02 Score=25.77 Aligned_cols=43 Identities=21% Similarity=0.252 Sum_probs=35.5
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEE
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAIL 96 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv 96 (130)
+...++++++. +.++-||+.|-+....+....+++.-..|.|+
T Consensus 21 ~~a~~aL~~Lk-~~GI~vVlaTGRt~~ev~~l~~~Lgl~~p~I~ 63 (302)
T PRK12702 21 GAARQALAALE-RRSIPLVLYSLRTRAQLEHLCRQLRLEHPFIC 63 (302)
T ss_pred HHHHHHHHHHH-HCCCEEEEEcCCCHHHHHHHHHHhCCCCeEEE
Confidence 66888899886 67999999999999888888888765558775
No 96
>PF00185 OTCace: Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; InterPro: IPR006131 This family contains two related enzymes: Aspartate carbamoyltransferase (2.1.3.2 from EC) (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides []. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals []) that also catalyzes other steps of the biosynthesis of pyrimidines. Ornithine carbamoyltransferase (2.1.3.3 from EC) (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [] (the arginine deaminase pathway). It has been shown [] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [], to be implicated in binding the phosphoryl group of carbamoyl phosphate and is described by IPR006132 from INTERPRO. The carboxyl-terminal, aspartate/ornithine-binding domain is connected to the amino-terminal domain by two alpha-helices, which comprise a hinge between domains [].; GO: 0016597 amino acid binding, 0016743 carboxyl- or carbamoyltransferase activity, 0006520 cellular amino acid metabolic process; PDB: 1ML4_A 4EP1_B 3Q98_A 3E2P_A 2RGW_E 4EKN_B 2G7M_E 3D6N_B 3M4J_A 3L06_A ....
Probab=32.78 E-value=1.2e+02 Score=22.41 Aligned_cols=22 Identities=18% Similarity=0.190 Sum_probs=16.5
Q ss_pred CcEEEEEcch------hhHHHHHHhccc
Q 037034 12 SALIAMIADE------DTVTGFLLAGVG 33 (130)
Q Consensus 12 ~~kIaVIGD~------dtv~GFrLaGi~ 33 (130)
..+|++|||. ..+.++...|++
T Consensus 2 gl~i~~vGD~~~rv~~Sl~~~~~~~g~~ 29 (158)
T PF00185_consen 2 GLKIAYVGDGHNRVAHSLIELLAKFGME 29 (158)
T ss_dssp TEEEEEESSTTSHHHHHHHHHHHHTTSE
T ss_pred CCEEEEECCCCChHHHHHHHHHHHcCCE
Confidence 5799999994 345677777886
No 97
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=32.76 E-value=2e+02 Score=21.53 Aligned_cols=52 Identities=17% Similarity=0.203 Sum_probs=26.8
Q ss_pred EEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhh-CCCCcEEE
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSY-NKPIPAIL 96 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~-~~~~P~Iv 96 (130)
++.+...+.+...+.++.+++..-=|||+..-. .....+.+..+ +...|+|.
T Consensus 34 ~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~-~~~~~~~~~~l~~~~iPvv~ 86 (272)
T cd06301 34 QFEDAKNDVATQLSQVENFIAQGVDAIIVVPVD-TAATAPIVKAANAAGIPLVY 86 (272)
T ss_pred EEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCc-hhhhHHHHHHHHHCCCeEEE
Confidence 443433345666778888876443345544322 22223334443 25678775
No 98
>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=32.46 E-value=2.4e+02 Score=22.22 Aligned_cols=54 Identities=15% Similarity=0.143 Sum_probs=38.4
Q ss_pred EEEecCCCcHHHHHHHHHHHhcCCCeeEEE--EehHHHHHHHHHHHhhCCCCcEEEEc
Q 037034 43 YLIVDSKTTVKAIEDAFKEFTTKEDIAIVL--ISQYVANMIRFLVDSYNKPIPAILEI 98 (130)
Q Consensus 43 ~~v~~~~t~~ee~~~~~~~l~~~~digII~--Ite~~a~~i~~~I~~~~~~~P~Iv~I 98 (130)
+.+.|...+++...++.++|+.++++-.|+ .+......+.+.+++ ...|+|..-
T Consensus 43 ~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~~~~~~~~~~--~~ip~i~~~ 98 (346)
T cd06330 43 LVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVALAVAPVAEE--LKVFFIATD 98 (346)
T ss_pred EEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHHHHHHHHHHH--cCCeEEEcC
Confidence 666676667788899999999876776666 355566667777765 457877643
No 99
>PRK12562 ornithine carbamoyltransferase subunit F; Provisional
Probab=32.36 E-value=1.5e+02 Score=24.94 Aligned_cols=23 Identities=13% Similarity=0.261 Sum_probs=17.4
Q ss_pred CCcEEEEEcch------hhHHHHHHhccc
Q 037034 11 SSALIAMIADE------DTVTGFLLAGVG 33 (130)
Q Consensus 11 ~~~kIaVIGD~------dtv~GFrLaGi~ 33 (130)
+..+|+++||- ..+.++...|++
T Consensus 155 ~gl~va~vGD~~~~v~~S~~~~~~~~G~~ 183 (334)
T PRK12562 155 NEMTLVYAGDARNNMGNSMLEAAALTGLD 183 (334)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHcCCE
Confidence 35899999993 446677778886
No 100
>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=32.06 E-value=2.3e+02 Score=22.34 Aligned_cols=56 Identities=9% Similarity=-0.014 Sum_probs=38.5
Q ss_pred cceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEeh--HHHHHHHHHHHhhCCCCcEEEE
Q 037034 40 KTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQ--YVANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 40 ~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite--~~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
+..+++.|...+++...++.++|+.++++-+|+=.. .....+.+.+++ ...|.|..
T Consensus 39 ~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~a~~~~~~~--~~ip~i~~ 96 (332)
T cd06344 39 LLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATLAALDIYQK--AKLVLISP 96 (332)
T ss_pred eEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHHHHHHHHhh--cCceEEcc
Confidence 344777777778899999999999877776666433 344456677766 34666653
No 101
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=31.89 E-value=1.5e+02 Score=22.56 Aligned_cols=82 Identities=7% Similarity=0.016 Sum_probs=44.6
Q ss_pred HHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCC-eeEEEEehHHHHHHHHHHHhhCCC-Cc--EEEEcCCC
Q 037034 26 GFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKED-IAIVLISQYVANMIRFLVDSYNKP-IP--AILEIPSK 101 (130)
Q Consensus 26 GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~d-igII~Ite~~a~~i~~~I~~~~~~-~P--~Iv~IPs~ 101 (130)
=|+..|++.+ .-..+++.+++.+++++. +.| +++=+........+++.++.+++. .| .-+-+-+.
T Consensus 107 ~l~~~G~~vi---------~LG~~vp~e~~v~~~~~~--~pd~v~lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 107 MLRANGFDVI---------DLGRDVPIDTVVEKVKKE--KPLMLTGSALMTTTMYGQKDINDKLKEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHHhCCcEEE---------ECCCCCCHHHHHHHHHHc--CCCEEEEccccccCHHHHHHHHHHHHHcCCCCCCEEEEECh
Confidence 4667787733 235677889888877744 344 233223234455677777776522 21 23333321
Q ss_pred CCCCChhhhHHHHHHHHhcCCCcccc
Q 037034 102 DHPYDPAHDSVLSRVKNLFSAESVAS 127 (130)
Q Consensus 102 ~g~~~~~~d~i~~~V~~AiGvdi~~~ 127 (130)
. +.....+.+|+|-++.
T Consensus 176 ~---------~~~~~~~~~gad~~~~ 192 (197)
T TIGR02370 176 P---------VTQDWADKIGADVYGE 192 (197)
T ss_pred h---------cCHHHHHHhCCcEEeC
Confidence 1 1123445679998775
No 102
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=31.88 E-value=1.5e+02 Score=23.92 Aligned_cols=59 Identities=15% Similarity=0.217 Sum_probs=44.1
Q ss_pred CCCCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHH
Q 037034 8 PTKSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIR 82 (130)
Q Consensus 8 ~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~ 82 (130)
-..+..+|+|++|.+.+.==+-||.+ |+.. +|+.+.++.-- ..++-+++.|.++...++
T Consensus 68 g~gk~vrV~Vfa~g~~~~~A~~AGad---------~Vg~------edl~e~ik~~r-~~~fD~~IAtpdmM~~v~ 126 (228)
T COG0081 68 GTGKTVRVAVFADGEKAEEAKAAGAD---------YVGG------EDLIELIKNGR-AKDFDVFIATPDMMPLVG 126 (228)
T ss_pred CCCCccEEEEEcChHhHHHHHHcCCC---------EecH------HHHHHHHhCcc-hhcCCEEEECchHHHHHH
Confidence 34566899999999999999999998 5442 56555444331 357899999999888773
No 103
>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=31.83 E-value=2.1e+02 Score=22.59 Aligned_cols=71 Identities=15% Similarity=0.236 Sum_probs=45.7
Q ss_pred hhhHHHHHH------hcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--hHHHHHHHHHHHhhCCCC
Q 037034 21 EDTVTGFLL------AGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--QYVANMIRFLVDSYNKPI 92 (130)
Q Consensus 21 ~dtv~GFrL------aGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--e~~a~~i~~~I~~~~~~~ 92 (130)
.+...|++| .|+.| ++..+++.|...+++...+..++|+.++++-+|+=. ......+.+.+++ ...
T Consensus 18 ~~~~~g~~la~~~iNggi~G----~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~~a~~~~~~~--~~v 91 (334)
T cd06327 18 KGSVEAAELAVEDFGGGVLG----RPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVALAVQEVARE--KKK 91 (334)
T ss_pred HHHHHHHHHHHHHhcCCccC----eEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHHHHHHHHHHH--hCc
Confidence 344555655 45544 234467777766778999999999987787777753 4455566666666 345
Q ss_pred cEEEE
Q 037034 93 PAILE 97 (130)
Q Consensus 93 P~Iv~ 97 (130)
|+|.+
T Consensus 92 p~i~~ 96 (334)
T cd06327 92 IYIVT 96 (334)
T ss_pred eEEec
Confidence 66553
No 104
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=31.76 E-value=2e+02 Score=23.17 Aligned_cols=71 Identities=15% Similarity=0.155 Sum_probs=45.1
Q ss_pred hhhHHHHHHh--------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhCC
Q 037034 21 EDTVTGFLLA--------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYNK 90 (130)
Q Consensus 21 ~dtv~GFrLa--------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~~ 90 (130)
+....|++|+ ||.| ++..++..|...++++..++.++|+.++++-+|+= +......+...+++ .
T Consensus 17 ~~~~~g~~la~~~iN~~GGi~G----~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~~a~~~~~~~--~ 90 (348)
T cd06355 17 TTLKDAELLAIEEINAAGGVLG----RKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASRKAVLPVFER--H 90 (348)
T ss_pred hhHHHHHHHHHHHHHhcCCCCC----cEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhHHHHHHHHhc--c
Confidence 5566677653 5544 33446666666678999999999998777766663 34444556666665 3
Q ss_pred CCcEEEE
Q 037034 91 PIPAILE 97 (130)
Q Consensus 91 ~~P~Iv~ 97 (130)
..|++.+
T Consensus 91 ~~~~i~~ 97 (348)
T cd06355 91 NGLLFYP 97 (348)
T ss_pred CCceecC
Confidence 3565543
No 105
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=31.27 E-value=2e+02 Score=23.85 Aligned_cols=69 Identities=13% Similarity=0.185 Sum_probs=47.3
Q ss_pred hhHHHHHHh--------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEE--EehHHHHHHHHHHHhhCCC
Q 037034 22 DTVTGFLLA--------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVL--ISQYVANMIRFLVDSYNKP 91 (130)
Q Consensus 22 dtv~GFrLa--------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~--Ite~~a~~i~~~I~~~~~~ 91 (130)
+...|++|+ ||.| ++..+++.|...+++...++.++|+.++++-+|+ .+......+.+.+++ ..
T Consensus 19 ~~~~G~~lAv~~iNa~GGi~G----r~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~~~A~~~~~~~--~~ 92 (374)
T TIGR03669 19 PKWHASQLAIEEINKSGGILG----RQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSATREAIRPIIDR--NE 92 (374)
T ss_pred HHHHHHHHHHHHHHhcCCCCC----ceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHHHHHHHHHHHh--cC
Confidence 566777764 4433 3455777777778899999999999877777766 345555566666665 44
Q ss_pred CcEEE
Q 037034 92 IPAIL 96 (130)
Q Consensus 92 ~P~Iv 96 (130)
.|.|.
T Consensus 93 ~~~i~ 97 (374)
T TIGR03669 93 QLYFY 97 (374)
T ss_pred ceEEc
Confidence 67665
No 106
>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=31.03 E-value=1.7e+02 Score=23.12 Aligned_cols=71 Identities=17% Similarity=0.144 Sum_probs=46.7
Q ss_pred hhhHHHHHHh------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEE--ehHHHHHHHHHHHhhCCCC
Q 037034 21 EDTVTGFLLA------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLI--SQYVANMIRFLVDSYNKPI 92 (130)
Q Consensus 21 ~dtv~GFrLa------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~I--te~~a~~i~~~I~~~~~~~ 92 (130)
.+...|++|+ |+.|. +..++..|...+++...+..++|+.++++-+|+= +...+..+.+.+++ ...
T Consensus 17 ~~~~~g~~lAv~~inggi~G~----~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a~~~~~~~--~~i 90 (333)
T cd06359 17 QDMRDGFQLALKQLGGKLGGL----PVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLAVVPPVLE--SGT 90 (333)
T ss_pred HHHHHHHHHHHHHhCCccCCE----EEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHHHHHHHHH--cCC
Confidence 3455677652 55442 3446666666677889999999997777777773 44556667777776 446
Q ss_pred cEEEE
Q 037034 93 PAILE 97 (130)
Q Consensus 93 P~Iv~ 97 (130)
|.|-.
T Consensus 91 p~i~~ 95 (333)
T cd06359 91 FYIST 95 (333)
T ss_pred eEEec
Confidence 76653
No 107
>PRK09029 O-succinylbenzoic acid--CoA ligase; Provisional
Probab=29.92 E-value=2e+02 Score=23.68 Aligned_cols=43 Identities=12% Similarity=0.113 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhhCCCCc-EEEE---cCCCCCCCChhhhHHHHHHHHhcCC
Q 037034 77 VANMIRFLVDSYNKPIP-AILE---IPSKDHPYDPAHDSVLSRVKNLFSA 122 (130)
Q Consensus 77 ~a~~i~~~I~~~~~~~P-~Iv~---IPs~~g~~~~~~d~i~~~V~~AiGv 122 (130)
+.+.+++.+..|+ .| .++. +| +..+....+..|++.++.+.+-
T Consensus 411 l~~~~~~~l~~~~--~P~~~~~~~~~p-~t~~gKi~r~~L~~~~~~~~~~ 457 (458)
T PRK09029 411 LAEWLQDKLARFQ--QPVAYYLLPPEL-KNGGIKISRQALKEWVAQQLGN 457 (458)
T ss_pred HHHHHHhhchhcc--CCeEEEEecccc-cCcCCCcCHHHHHHHHHhccCC
Confidence 4455555555554 55 3333 55 4444444556788888877653
No 108
>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=29.44 E-value=2.4e+02 Score=20.91 Aligned_cols=78 Identities=10% Similarity=-0.006 Sum_probs=40.6
Q ss_pred CCcEEEEEcchhh--HHHHHHhcccccc-cCC-c-ceEEEecCCCcHHHHHHHHHHHhcCC-C-eeEEEEehHHHHHHHH
Q 037034 11 SSALIAMIADEDT--VTGFLLAGVGNVD-LRR-K-TNYLIVDSKTTVKAIEDAFKEFTTKE-D-IAIVLISQYVANMIRF 83 (130)
Q Consensus 11 ~~~kIaVIGD~dt--v~GFrLaGi~~~~-~~~-~-~n~~v~~~~t~~ee~~~~~~~l~~~~-d-igII~Ite~~a~~i~~ 83 (130)
..++|++|++... ...-|..|+...- .++ . ..+.....+.+.++..+++++++++. + -||+..+..++..+-.
T Consensus 115 g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~ 194 (268)
T cd01575 115 GYRRIGFLGARMDDTRAQQRLEGFRAALRAAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFCSNDDLALGALF 194 (268)
T ss_pred CCCcEEEecCCCCcccHHHHHHHHHHHHHHcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHH
Confidence 4578999998542 2333444432210 000 0 11222222334567788888888543 3 4566666666666666
Q ss_pred HHHhh
Q 037034 84 LVDSY 88 (130)
Q Consensus 84 ~I~~~ 88 (130)
.+.+.
T Consensus 195 ~l~~~ 199 (268)
T cd01575 195 ECQRR 199 (268)
T ss_pred HHHHh
Confidence 55554
No 109
>PRK06096 molybdenum transport protein ModD; Provisional
Probab=29.09 E-value=2e+02 Score=23.80 Aligned_cols=65 Identities=6% Similarity=0.048 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCc-EEEEcCCCCCCCChhhhHHHHHHHHhcCCCccccC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIP-AILEIPSKDHPYDPAHDSVLSRVKNLFSAESVASG 128 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P-~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~ 128 (130)
.++++++++ -+.-+|++...-.+.+++.+...+...| ..++. +.+...+.+.++. ..|+|+..+|
T Consensus 199 leqa~ea~~-----agaDiI~LDn~~~e~l~~av~~~~~~~~~~~lea-----SGGI~~~ni~~yA--~tGvD~Is~g 264 (284)
T PRK06096 199 PKEAIAALR-----AQPDVLQLDKFSPQQATEIAQIAPSLAPHCTLSL-----AGGINLNTLKNYA--DCGIRLFITS 264 (284)
T ss_pred HHHHHHHHH-----cCCCEEEECCCCHHHHHHHHHHhhccCCCeEEEE-----ECCCCHHHHHHHH--hcCCCEEEEC
Confidence 455555443 4577899998888999998876653334 55666 3344568899998 6788886543
No 110
>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=28.60 E-value=2.1e+02 Score=22.02 Aligned_cols=51 Identities=10% Similarity=0.201 Sum_probs=40.2
Q ss_pred CcHHHHHHHHHHHhcCCCeeEEEEehH-------HHHHHHHHHHhhC-CCCcEEEEcCC
Q 037034 50 TTVKAIEDAFKEFTTKEDIAIVLISQY-------VANMIRFLVDSYN-KPIPAILEIPS 100 (130)
Q Consensus 50 t~~ee~~~~~~~l~~~~digII~Ite~-------~a~~i~~~I~~~~-~~~P~Iv~IPs 100 (130)
++.+++.+.|+++.+++++..|+++=+ -.+.+++.|..++ ...|+|..+.+
T Consensus 29 ~~~~~l~~~l~~a~~d~~ik~vvL~~~s~gg~~~~~~el~~~i~~~~~~~kpVia~~~~ 87 (222)
T cd07018 29 LSLRDLLEALEKAAEDDRIKGIVLDLDGLSGGLAKLEELRQALERFRASGKPVIAYADG 87 (222)
T ss_pred ccHHHHHHHHHHHhcCCCeEEEEEECCCCCCCHHHHHHHHHHHHHHHHhCCeEEEEeCC
Confidence 346899999999998999999998843 3467888888776 67898887664
No 111
>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=28.46 E-value=1.1e+02 Score=27.39 Aligned_cols=50 Identities=14% Similarity=0.209 Sum_probs=36.4
Q ss_pred CcEEEEEcchhhHHHHHH----hcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEE
Q 037034 12 SALIAMIADEDTVTGFLL----AGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVL 72 (130)
Q Consensus 12 ~~kIaVIGD~dtv~GFrL----aGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~ 72 (130)
..+|||||=+.++.|++. .|++-. . |.+++. +|++..++++. +.+|.+|+
T Consensus 97 ~~~ia~vg~~~~~~~~~~~~~ll~~~i~-----~-~~~~~~----~e~~~~~~~l~-~~G~~~vi 150 (526)
T TIGR02329 97 ASSIGVVTHQDTPPALRRFQAAFNLDIV-----Q-RSYVTE----EDARSCVNDLR-ARGIGAVV 150 (526)
T ss_pred CCcEEEEecCcccHHHHHHHHHhCCceE-----E-EEecCH----HHHHHHHHHHH-HCCCCEEE
Confidence 468999999999999873 466522 1 444444 99999999886 56666654
No 112
>PF08484 Methyltransf_14: C-methyltransferase C-terminal domain; InterPro: IPR013691 This domain is found in bacterial C-methyltransferase proteins, often together with other methyltransferase domains such as IPR013216 from INTERPRO or IPR013217 from INTERPRO. ; PDB: 4E2X_A 3NDJ_A 3NDI_A 4E32_A 4E33_A 4E31_A 4E2Y_A 4E2W_A 4E2Z_A 4E30_A.
Probab=28.40 E-value=32 Score=25.78 Aligned_cols=34 Identities=18% Similarity=0.244 Sum_probs=21.9
Q ss_pred CCCeeEEEEehHHHHHHHHHHHhhC-CCCcEEEEcC
Q 037034 65 KEDIAIVLISQYVANMIRFLVDSYN-KPIPAILEIP 99 (130)
Q Consensus 65 ~~digII~Ite~~a~~i~~~I~~~~-~~~P~Iv~IP 99 (130)
.+|+ ||++.-.+.+.|.+.+.++. ...-.|+++|
T Consensus 126 ~pd~-vivlaw~y~~EI~~~~~~~~~~gg~fi~plP 160 (160)
T PF08484_consen 126 KPDY-VIVLAWNYKDEIIEKLREYLERGGKFIVPLP 160 (160)
T ss_dssp --SE-EEES-GGGHHHHHHHTHHHHHTT-EEEE-SS
T ss_pred CCCE-EEEcChhhHHHHHHHHHHHHhcCCEEEEeCC
Confidence 3566 66677888888888888763 5566888887
No 113
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.14 E-value=2.4e+02 Score=23.35 Aligned_cols=52 Identities=10% Similarity=0.289 Sum_probs=33.9
Q ss_pred EEEEcchhhHHHH--------HHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCe-eEEEE
Q 037034 15 IAMIADEDTVTGF--------LLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDI-AIVLI 73 (130)
Q Consensus 15 IaVIGD~dtv~GF--------rLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~di-gII~I 73 (130)
|..+||...-..+ .-.|++.. .+.-.++++++++.+.+++|=+++++ |||+-
T Consensus 35 ii~vg~d~as~~Yv~~k~k~a~~~Gi~~~-------~~~l~~~~t~~~l~~~I~~lN~D~~V~GIivq 95 (282)
T PRK14166 35 VILVGDNPASQTYVKSKAKACEECGIKSL-------VYHLNENTTQNELLALINTLNHDDSVHGILVQ 95 (282)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHHcCCEEE-------EEECCCCCCHHHHHHHHHHHhCCCCCCEEEEe
Confidence 5566774444333 33588743 23335567789999999999878887 55554
No 114
>PRK03202 6-phosphofructokinase; Provisional
Probab=28.08 E-value=1.4e+02 Score=24.85 Aligned_cols=58 Identities=10% Similarity=0.147 Sum_probs=37.9
Q ss_pred EEecCCCcHHHHHHHHHHHhcC-CCeeEEEEehHHH--HHHHHHHHhhCCCCcEEEEcCCCC
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTK-EDIAIVLISQYVA--NMIRFLVDSYNKPIPAILEIPSKD 102 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~-~digII~Ite~~a--~~i~~~I~~~~~~~P~Iv~IPs~~ 102 (130)
++-+...+.+++.+.+++..++ +++++|+++|.+. +.+.+.+++.-. ..+-..+|+.-
T Consensus 190 liPE~~~~~~~l~~~i~~r~~~g~~~~vivvsEg~~~~~~l~~~i~~~~~-~~~r~~~lG~~ 250 (320)
T PRK03202 190 LIPEVPFDIEELCAKIKKGRERGKKHAIIVVAEGVMPAEELAKEIEERTG-LETRVTVLGHI 250 (320)
T ss_pred EeCCCCCCHHHHHHHHHHHHHhcCCcEEEEEeCCCCCHHHHHHHHHHHhC-CceEEcccchh
Confidence 3444455678888888777765 8899999999854 345666655322 34566666643
No 115
>cd04195 GT2_AmsE_like GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis. AmsE is a glycosyltransferase involved in exopolysaccharide amylovora biosynthesis in Erwinia amylovora. Amylovara is one of the three exopolysaccharide produced by E. amylovora. Amylovara-deficient mutants are non-pathogenic. It is a subfamily of Glycosyltransferase Family GT2, which includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds.
Probab=27.92 E-value=2e+02 Score=20.52 Aligned_cols=51 Identities=8% Similarity=0.300 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhcCC--CeeEEEEehHH-HHHHHHHHHhhCCCCc-EEEEcCCCCC
Q 037034 53 KAIEDAFKEFTTKE--DIAIVLISQYV-ANMIRFLVDSYNKPIP-AILEIPSKDH 103 (130)
Q Consensus 53 ee~~~~~~~l~~~~--digII~Ite~~-a~~i~~~I~~~~~~~P-~Iv~IPs~~g 103 (130)
+-++++++++++.. +.-||++.+.- -+...+.++++....| .++..|...|
T Consensus 13 ~~l~~~l~Sl~~q~~~~~eiiivdd~ss~d~t~~~~~~~~~~~~i~~i~~~~n~G 67 (201)
T cd04195 13 EFLREALESILKQTLPPDEVVLVKDGPVTQSLNEVLEEFKRKLPLKVVPLEKNRG 67 (201)
T ss_pred HHHHHHHHHHHhcCCCCcEEEEEECCCCchhHHHHHHHHHhcCCeEEEEcCcccc
Confidence 46777777777543 46677775543 3445555555543344 3334444333
No 116
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=27.88 E-value=1.1e+02 Score=25.59 Aligned_cols=31 Identities=10% Similarity=0.121 Sum_probs=24.8
Q ss_pred CCCcEEEEcCCCCCCCChhhhHHHHHHHHhcCCC
Q 037034 90 KPIPAILEIPSKDHPYDPAHDSVLSRVKNLFSAE 123 (130)
Q Consensus 90 ~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvd 123 (130)
...|.++.|-+..|+ |+.++-..+.+.+|..
T Consensus 89 ~~~p~iIlI~G~sgs---GKStlA~~La~~l~~~ 119 (301)
T PRK04220 89 SKEPIIILIGGASGV---GTSTIAFELASRLGIR 119 (301)
T ss_pred CCCCEEEEEECCCCC---CHHHHHHHHHHHhCCC
Confidence 468999999888876 5777888888887766
No 117
>cd04179 DPM_DPG-synthase_like DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily. DPM1 is the catalytic subunit of eukaryotic dolichol-phosphate mannose (DPM) synthase. DPM synthase is required for synthesis of the glycosylphosphatidylinositol (GPI) anchor, N-glycan precursor, protein O-mannose, and C-mannose. In higher eukaryotes,the enzyme has three subunits, DPM1, DPM2 and DPM3. DPM is synthesized from dolichol phosphate and GDP-Man on the cytosolic surface of the ER membrane by DPM synthase and then is flipped onto the luminal side and used as a donor substrate. In lower eukaryotes, such as Saccharomyces cerevisiae and Trypanosoma brucei, DPM synthase consists of a single component (Dpm1p and TbDpm1, respectively) that possesses one predicted transmembrane region near the C terminus for anchoring to the ER membrane. In contrast, the Dpm1 homologues of higher eukaryotes, namely fission yeast, fungi, and animals, have no transmembrane region, suggesting the ex
Probab=27.86 E-value=1.4e+02 Score=20.87 Aligned_cols=65 Identities=9% Similarity=0.134 Sum_probs=34.7
Q ss_pred HHHHHHHHHHhcC----CCeeEEEEehHHHHHHHHHHHhhCCCCc--EEEEcCCCCCCCChhhhHHHHHHHHhcC
Q 037034 53 KAIEDAFKEFTTK----EDIAIVLISQYVANMIRFLVDSYNKPIP--AILEIPSKDHPYDPAHDSVLSRVKNLFS 121 (130)
Q Consensus 53 ee~~~~~~~l~~~----~digII~Ite~~a~~i~~~I~~~~~~~P--~Iv~IPs~~g~~~~~~d~i~~~V~~AiG 121 (130)
+.+.++++++.+. ..+-||++...-.+...+.++++....| .++.-+...|. ...+..-++.|-|
T Consensus 10 ~~l~~~l~sl~~~~~~~~~~eiivvd~~s~d~~~~~~~~~~~~~~~~~~~~~~~n~G~----~~a~n~g~~~a~g 80 (185)
T cd04179 10 ENIPELVERLLAVLEEGYDYEIIVVDDGSTDGTAEIARELAARVPRVRVIRLSRNFGK----GAAVRAGFKAARG 80 (185)
T ss_pred hhHHHHHHHHHHHhccCCCEEEEEEcCCCCCChHHHHHHHHHhCCCeEEEEccCCCCc----cHHHHHHHHHhcC
Confidence 5666777777654 3688888876654455555554432233 33333333332 1335555566655
No 118
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=27.42 E-value=2.3e+02 Score=20.20 Aligned_cols=31 Identities=10% Similarity=0.240 Sum_probs=15.3
Q ss_pred EEecCCCcHHHHHHHHHHHhcCCCeeEEEEe
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS 74 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~~digII~It 74 (130)
++...|.++.++...|..+++..++-++++.
T Consensus 50 VilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~ 80 (122)
T PRK04175 50 VVIAEDVDPEEIVAHLPLLCEEKKIPYVYVP 80 (122)
T ss_pred EEEeCCCChHHHHHHHHHHHHHcCCCEEEEC
Confidence 3334444444554555555555555554444
No 119
>TIGR01170 rplA_mito ribosomal protein L1, mitochondrial. This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1.
Probab=27.28 E-value=2.6e+02 Score=20.65 Aligned_cols=63 Identities=10% Similarity=0.147 Sum_probs=43.1
Q ss_pred CCCCCcEEEEEcchhh-HHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCC-eeEEEEehHHHHHHHHHH
Q 037034 8 PTKSSALIAMIADEDT-VTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKED-IAIVLISQYVANMIRFLV 85 (130)
Q Consensus 8 ~~~~~~kIaVIGD~dt-v~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~d-igII~Ite~~a~~i~~~I 85 (130)
...+..+|+|+++.+. ..=-+-+|.+ ++ .. +|+.+.|++ .+.+ |-.++-|.++...+. .+
T Consensus 48 ~~~k~~kV~Vf~~~~~~~~~Ak~aGa~----------~v-g~----edLi~~i~~--g~~~~fd~~iA~~~~m~~l~-~L 109 (141)
T TIGR01170 48 PFGKEPKIAVFTKGASEVEEAREAGAD----------YV-GG----DDLIKKIED--GEIKPFDYLIAHPDIVPELA-QL 109 (141)
T ss_pred CCCCCCEEEEECCChHHHHHHHHcCCC----------Ee-CH----HHHHHHHhc--CCcccccEEEECHHHHHHHH-Hh
Confidence 3445689999999877 5667888986 22 32 666444431 2335 677999999998888 66
Q ss_pred Hhh
Q 037034 86 DSY 88 (130)
Q Consensus 86 ~~~ 88 (130)
-..
T Consensus 110 g~i 112 (141)
T TIGR01170 110 RRL 112 (141)
T ss_pred hcc
Confidence 653
No 120
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=27.06 E-value=2.2e+02 Score=23.44 Aligned_cols=23 Identities=22% Similarity=0.338 Sum_probs=18.4
Q ss_pred CCcEEEEEcc-----hhhHHHHHHhccc
Q 037034 11 SSALIAMIAD-----EDTVTGFLLAGVG 33 (130)
Q Consensus 11 ~~~kIaVIGD-----~dtv~GFrLaGi~ 33 (130)
+..||+++|| ...+.++...|++
T Consensus 146 ~g~kva~vGD~~~v~~S~~~~~~~~g~~ 173 (302)
T PRK14805 146 SKVKLAYVGDGNNVTHSLMYGAAILGAT 173 (302)
T ss_pred CCcEEEEEcCCCccHHHHHHHHHHcCCE
Confidence 4589999999 5557788888887
No 121
>cd00363 PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases. Some members evolved by gene duplication and thus have a large C-terminal/N-terminal extension comprising a second PFK domain. Generally, ATP-PFKs are allosteric homotetramers, and PPi-PFKs are dimeric and nonallosteric except for plant PPi-PFKs which are allosteric heterotetramers.
Probab=26.96 E-value=1.8e+02 Score=24.38 Aligned_cols=51 Identities=12% Similarity=0.126 Sum_probs=33.3
Q ss_pred cHHHHHHHHHHHhcC-CCeeEEEEehHHH---------HHHHHHHHhhCCCCcEEEEcCCCC
Q 037034 51 TVKAIEDAFKEFTTK-EDIAIVLISQYVA---------NMIRFLVDSYNKPIPAILEIPSKD 102 (130)
Q Consensus 51 ~~ee~~~~~~~l~~~-~digII~Ite~~a---------~~i~~~I~~~~~~~P~Iv~IPs~~ 102 (130)
..+++.+.+++-.++ +.++||+++|.+. ..+.+.|++.- ...+...+|+..
T Consensus 205 ~~~~~~~~i~~r~~~~~~~~vivvsEG~~~~~~~~~~~~~l~~~i~~~~-~~~~r~~~lGy~ 265 (338)
T cd00363 205 WEEEMVDVIKKRRERGKRHGIVIVAEGAIDFIPKPITEKLLAKLVEERL-GFDTRATVLGHV 265 (338)
T ss_pred CHHHHHHHHHHHHHhcCCeEEEEEeCCCccccccCchHHHHHHHHHHHc-CCceEEeecCcc
Confidence 346666666655543 7899999999855 56777776642 244556667744
No 122
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. 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 the 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=26.92 E-value=3.2e+02 Score=21.55 Aligned_cols=72 Identities=22% Similarity=0.215 Sum_probs=47.5
Q ss_pred hhhHHHHHHh--------cccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe--hHHHHHHHHHHHhhCC
Q 037034 21 EDTVTGFLLA--------GVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS--QYVANMIRFLVDSYNK 90 (130)
Q Consensus 21 ~dtv~GFrLa--------Gi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It--e~~a~~i~~~I~~~~~ 90 (130)
.....|++|+ ||.| ++..+.+.|...+++...+..++|+.++++-+|+=. ......+.+.+++ .
T Consensus 17 ~~~~~g~~~a~~~iN~~ggi~G----~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~~~a~~~~~~~--~ 90 (340)
T cd06349 17 TQWKRAFDLALDEINAAGGVGG----RPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGVSMAASPIYQR--A 90 (340)
T ss_pred ccHHHHHHHHHHHHHhhCCcCC----eEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHhHHHhHHHHHh--C
Confidence 4556677765 5544 234467777777788999999999988777766542 3445566666665 4
Q ss_pred CCcEEEEc
Q 037034 91 PIPAILEI 98 (130)
Q Consensus 91 ~~P~Iv~I 98 (130)
..|.|.+-
T Consensus 91 ~vp~i~~~ 98 (340)
T cd06349 91 GLVQLSPT 98 (340)
T ss_pred CCeEEecC
Confidence 46666543
No 123
>COG2083 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.90 E-value=2e+02 Score=21.50 Aligned_cols=70 Identities=16% Similarity=0.235 Sum_probs=43.2
Q ss_pred HHHHHHHHHhcCCCeeEEEE--ehHH-----HHHHHHHHHhh---CCCCcEEEEcCCCCC-CCCh-hhhHHHHHHHHhcC
Q 037034 54 AIEDAFKEFTTKEDIAIVLI--SQYV-----ANMIRFLVDSY---NKPIPAILEIPSKDH-PYDP-AHDSVLSRVKNLFS 121 (130)
Q Consensus 54 e~~~~~~~l~~~~digII~I--te~~-----a~~i~~~I~~~---~~~~P~Iv~IPs~~g-~~~~-~~d~i~~~V~~AiG 121 (130)
...+.|++|++.++--|..= |+++ .+.+.+.+++. +-.+|.+++|-|..+ ..-. ++- =-+-|++++|
T Consensus 24 r~rktL~ELL~ee~P~V~~rDG~~hyfkr~ELE~La~~ldE~e~~rlrlPivlEi~s~~~~~i~Irgk~-evkvI~kvlG 102 (140)
T COG2083 24 RKRKTLEELLREERPHVTLRDGTEHYFKRRELEFLAQILDEDEIPRLRLPIVLEISSGERGAIYIRGKV-EVKVIKKVLG 102 (140)
T ss_pred hhhhHHHHHHhccCCeEEccCCceeeeeHHHHHHHHhhcchhhhhhccccEEEEeccCCCceEEEecch-hhhhHHHHhc
Confidence 36788999997777666654 2333 34566666664 356999999998332 1111 211 2346788999
Q ss_pred CCc
Q 037034 122 AES 124 (130)
Q Consensus 122 vdi 124 (130)
.+.
T Consensus 103 ~e~ 105 (140)
T COG2083 103 FEE 105 (140)
T ss_pred chh
Confidence 775
No 124
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=26.50 E-value=1.2e+02 Score=23.55 Aligned_cols=32 Identities=19% Similarity=0.443 Sum_probs=24.1
Q ss_pred EEEecCCCcHHHHHHHHHHHhcC-CCeeEEEEe
Q 037034 43 YLIVDSKTTVKAIEDAFKEFTTK-EDIAIVLIS 74 (130)
Q Consensus 43 ~~v~~~~t~~ee~~~~~~~l~~~-~digII~It 74 (130)
|+...++++.+++++.++++..+ .++.+|+|.
T Consensus 105 ~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~ID 137 (259)
T PF03796_consen 105 YIEDTPSLTIDDIESKIRRLKREGKKVDVVFID 137 (259)
T ss_dssp EEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEE
T ss_pred EEECCCCCCHHHHHHHHHHHHhhccCCCEEEec
Confidence 55556677788888888888766 788888887
No 125
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=26.49 E-value=1.1e+02 Score=22.81 Aligned_cols=37 Identities=16% Similarity=0.277 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhcCCCeeEEEE------ehHHHHHHHHHHHhh
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLI------SQYVANMIRFLVDSY 88 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~I------te~~a~~i~~~I~~~ 88 (130)
.++..+.|++|+.+...-+|.| +..+.+.+++.+.+.
T Consensus 48 ~~~~~~~l~~~i~~~kP~vI~v~g~~~~s~~l~~~v~~~v~~~ 90 (150)
T PF14639_consen 48 KEEDMERLKKFIEKHKPDVIAVGGNSRESRKLYDDVRDIVEEL 90 (150)
T ss_dssp SHHHHHHHHHHHHHH--SEEEE--SSTHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHcCCeEEEEcCCChhHHHHHHHHHHHHHHh
Confidence 3667777888998888889999 566778888888775
No 126
>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=26.48 E-value=2.1e+02 Score=20.92 Aligned_cols=49 Identities=22% Similarity=0.304 Sum_probs=25.7
Q ss_pred HHHHHHHHHHhcC----CCeeEEEEehHHHHHHHHHHHhhCCCCcEEEEcCCC
Q 037034 53 KAIEDAFKEFTTK----EDIAIVLISQYVANMIRFLVDSYNKPIPAILEIPSK 101 (130)
Q Consensus 53 ee~~~~~~~l~~~----~digII~Ite~~a~~i~~~I~~~~~~~P~Iv~IPs~ 101 (130)
+.+.++|+.+.+. .++-||++...-.+...+.++.+....|.|..+...
T Consensus 13 ~~l~~~l~sl~~q~~~~~~~evivvd~~s~d~~~~~~~~~~~~~~~v~~i~~~ 65 (249)
T cd02525 13 KYIEELLESLLNQSYPKDLIEIIVVDGGSTDGTREIVQEYAAKDPRIRLIDNP 65 (249)
T ss_pred hhHHHHHHHHHhccCCCCccEEEEEeCCCCccHHHHHHHHHhcCCeEEEEeCC
Confidence 5566666666543 345677776554444444444443334545555443
No 127
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=26.12 E-value=3.4e+02 Score=22.14 Aligned_cols=81 Identities=12% Similarity=0.116 Sum_probs=48.2
Q ss_pred CcEEEEEcch--hhHHHHHHhcccccc-cCC-c--ceEEEecCCCcHHHHHHHHHHHhcCCC---eeEEEEehHHHHHHH
Q 037034 12 SALIAMIADE--DTVTGFLLAGVGNVD-LRR-K--TNYLIVDSKTTVKAIEDAFKEFTTKED---IAIVLISQYVANMIR 82 (130)
Q Consensus 12 ~~kIaVIGD~--dtv~GFrLaGi~~~~-~~~-~--~n~~v~~~~t~~ee~~~~~~~l~~~~d---igII~Ite~~a~~i~ 82 (130)
.++|++|+.. ....--|+.|+...- .++ . ..++. ..+.+.++..+++++++.... -||+..++.+|-.+-
T Consensus 175 ~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~i~-~~~~~~~~g~~~~~~ll~~~~~~ptAif~~nD~~Alg~l 253 (333)
T COG1609 175 HRRIAFIGGPLDSSASRERLEGYRAALREAGLPINPEWIV-EGDFSEESGYEAAERLLARGEPRPTAIFCANDLMALGAL 253 (333)
T ss_pred CceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCCcceEE-ecCCChHHHHHHHHHHHhcCCCCCcEEEEcCcHHHHHHH
Confidence 5789999986 234344444442110 000 0 11333 333456888889999996553 488888888887777
Q ss_pred HHHHhhCCCCc
Q 037034 83 FLVDSYNKPIP 93 (130)
Q Consensus 83 ~~I~~~~~~~P 93 (130)
..+.+..-..|
T Consensus 254 ~~~~~~g~~vP 264 (333)
T COG1609 254 RALRELGLRVP 264 (333)
T ss_pred HHHHHcCCCCC
Confidence 76666543355
No 128
>PRK09875 putative hydrolase; Provisional
Probab=25.97 E-value=3.7e+02 Score=22.05 Aligned_cols=84 Identities=17% Similarity=0.207 Sum_probs=49.2
Q ss_pred hHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe-----------------hHHHHHHHHHH
Q 037034 23 TVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS-----------------QYVANMIRFLV 85 (130)
Q Consensus 23 tv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It-----------------e~~a~~i~~~I 85 (130)
-+.-|+-+|...+ .-+....+.++ -+.++++.+..++-||.-| +.+++.+-++|
T Consensus 39 el~~~~~~Gg~ti-------Vd~T~~g~GRd--~~~l~~is~~tgv~Iv~~TG~y~~~~~p~~~~~~~~e~la~~~i~ei 109 (292)
T PRK09875 39 EMNDLMTRGVRNV-------IEMTNRYMGRN--AQFMLDVMRETGINVVACTGYYQDAFFPEHVATRSVQELAQEMVDEI 109 (292)
T ss_pred HHHHHHHhCCCeE-------EecCCCccCcC--HHHHHHHHHHhCCcEEEcCcCCCCccCCHHHhcCCHHHHHHHHHHHH
Confidence 3567999998732 11111111111 2456777777888898877 34566666666
Q ss_pred Hhh---CCCCcEEE-EcCCCCCCCChhhhHHHHH
Q 037034 86 DSY---NKPIPAIL-EIPSKDHPYDPAHDSVLSR 115 (130)
Q Consensus 86 ~~~---~~~~P~Iv-~IPs~~g~~~~~~d~i~~~ 115 (130)
.+. +...|-+| +|.+..+...+....+.+.
T Consensus 110 ~~Gi~gt~ikaGvIGeiG~~~~~it~~E~kvl~A 143 (292)
T PRK09875 110 EQGIDGTELKAGIIAEIGSSEGKITPLEEKVFIA 143 (292)
T ss_pred HHhhccCCCcccEEEEEecCCCCCCHHHHHHHHH
Confidence 664 36688888 9988765433333334433
No 129
>PRK07200 aspartate/ornithine carbamoyltransferase family protein; Validated
Probab=25.94 E-value=2.2e+02 Score=24.61 Aligned_cols=23 Identities=17% Similarity=0.105 Sum_probs=16.7
Q ss_pred CCcEEEEEcc------------hhhHHHHHHhccc
Q 037034 11 SSALIAMIAD------------EDTVTGFLLAGVG 33 (130)
Q Consensus 11 ~~~kIaVIGD------------~dtv~GFrLaGi~ 33 (130)
+..||+++|| ...+.++...|++
T Consensus 186 ~g~kVaivg~~~~~~g~~~~Va~Sl~~~~~~lG~~ 220 (395)
T PRK07200 186 KGKKIAMTWAYSPSYGKPLSVPQGIIGLMTRFGMD 220 (395)
T ss_pred CCCEEEEEeccccccCCcchHHHHHHHHHHHcCCE
Confidence 3479999987 3446677777886
No 130
>COG0218 Predicted GTPase [General function prediction only]
Probab=25.78 E-value=3.4e+02 Score=21.47 Aligned_cols=75 Identities=13% Similarity=0.191 Sum_probs=43.6
Q ss_pred EEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHH---H----HHHHHHHH-hhC---CCCcEEEEcCCCCCCCChhhhH
Q 037034 43 YLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYV---A----NMIRFLVD-SYN---KPIPAILEIPSKDHPYDPAHDS 111 (130)
Q Consensus 43 ~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~---a----~~i~~~I~-~~~---~~~P~Iv~IPs~~g~~~~~~d~ 111 (130)
|++.|....+++....+-+++...++.++++-..+ . .+.-+.+. ++. ...|.++..|+..+- +.+.
T Consensus 111 vlliD~r~~~~~~D~em~~~l~~~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~~~~~~~~~~ss~~k~---Gi~~ 187 (200)
T COG0218 111 VLLIDARHPPKDLDREMIEFLLELGIPVIVVLTKADKLKKSERNKQLNKVAEELKKPPPDDQWVVLFSSLKKK---GIDE 187 (200)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEccccCChhHHHHHHHHHHHHhcCCCCccceEEEEeccccc---CHHH
Confidence 56677766777777667777777888887776543 1 11112222 222 233347777776653 2466
Q ss_pred HHHHHHHhc
Q 037034 112 VLSRVKNLF 120 (130)
Q Consensus 112 i~~~V~~Ai 120 (130)
+++.+.+.+
T Consensus 188 l~~~i~~~~ 196 (200)
T COG0218 188 LKAKILEWL 196 (200)
T ss_pred HHHHHHHHh
Confidence 776666554
No 131
>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=25.74 E-value=2.5e+02 Score=22.59 Aligned_cols=54 Identities=13% Similarity=0.221 Sum_probs=38.2
Q ss_pred eEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEeh--HHHHHHHHHHHhhCCCCcEEEE
Q 037034 42 NYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQ--YVANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 42 n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite--~~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
.+++.|...+++...++.++|+.++++-+|+-+. .....+.+.+++ ...|.|..
T Consensus 44 ~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~~~~a~~~~~~~--~~ip~i~~ 99 (357)
T cd06337 44 EIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPDTTNPVSDQCEA--NGVPCIST 99 (357)
T ss_pred EEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcchhhHHHHHHHH--hCCCeEEe
Confidence 3667777678899999999999888887777433 344455566665 45777763
No 132
>PF04989 CmcI: Cephalosporin hydroxylase; InterPro: IPR007072 This entry contains Rhamnosyl O-methyltransferase which catalyses the O-methylation of the hydroxyl group located on C-2 of the first rhamnosyl residue linked to the phenolic group of glycosylated phenolphthiocerol dimycocerosates (PGL) and p-hydroxybenzoic acid derivatives (p-HBAD) []. Members of this family are about 220 amino acids long. It also includes the CmcI protein O85726 from SWISSPROT, which is presumed to represent the cephalosporin-7--hydroxylase []. However this has not been experimentally verified.; GO: 0008168 methyltransferase activity, 0008610 lipid biosynthetic process; PDB: 2BR4_B 2BR3_E 2BR5_E 2BM8_J 2BM9_E.
Probab=25.61 E-value=28 Score=27.59 Aligned_cols=43 Identities=14% Similarity=0.039 Sum_probs=24.8
Q ss_pred HHHHHHHhhCCCCc-EEEEcCCCCCCCChhhhHHHHHH---HHhcCCCcc
Q 037034 80 MIRFLVDSYNKPIP-AILEIPSKDHPYDPAHDSVLSRV---KNLFSAESV 125 (130)
Q Consensus 80 ~i~~~I~~~~~~~P-~Iv~IPs~~g~~~~~~d~i~~~V---~~AiGvdi~ 125 (130)
.+++.|-+++ | +|+|+...+|..-.-..++.++. .+.+|+||-
T Consensus 23 ~~qeli~~~k---Pd~IIE~Gi~~GGSli~~A~ml~~~~~~~~VigiDId 69 (206)
T PF04989_consen 23 AYQELIWELK---PDLIIETGIAHGGSLIFWASMLELLGGKGKVIGIDID 69 (206)
T ss_dssp HHHHHHHHH-----SEEEEE--TTSHHHHHHHHHHHHTT---EEEEEES-
T ss_pred HHHHHHHHhC---CCeEEEEecCCCchHHHHHHHHHHhCCCceEEEEeCC
Confidence 3455555444 6 99999998865333334566666 788999983
No 133
>TIGR01452 PGP_euk phosphoglycolate/pyridoxal phosphate phosphatase family. This model is closely related to a family of bacterial sequences including the E. coli NagD and B. subtilus AraL genes which are characterized by the ability to hydrolyze para-nitrophenylphosphate (pNPPases or NPPases). The chlamydomonas PGPase does not catalyze this reaction and so presumably these two groups have different functions and substrate specificities. Many of the genes in this alignment have been annotated as pNPPases due to this association.
Probab=25.47 E-value=3.4e+02 Score=21.41 Aligned_cols=102 Identities=13% Similarity=0.094 Sum_probs=50.5
Q ss_pred CcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCc-HHHHHHHHHHHhcCCCeeEEEEehH---HHHHHHHHHHh
Q 037034 12 SALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTT-VKAIEDAFKEFTTKEDIAIVLISQY---VANMIRFLVDS 87 (130)
Q Consensus 12 ~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~-~ee~~~~~~~l~~~~digII~Ite~---~a~~i~~~I~~ 87 (130)
..++.++|++....-|+-.|+.-+ ..++.. .............+++++++++..+ -++.+++.++.
T Consensus 85 ~~~v~~iG~~~~~~~l~~~g~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~Vvv~~d~~~~y~~i~~~l~~ 154 (279)
T TIGR01452 85 PKAVYVIGEEGLRAELDAAGIRLA----------GDPSAGDGAAPRGSGAFMKLEENVGAVVVGYDEHFSYAKLREACAH 154 (279)
T ss_pred CCEEEEEcCHHHHHHHHHCCCEEe----------cCcccccccchhhcccccccCCCCCEEEEecCCCCCHHHHHHHHHH
Confidence 367999999988888888888621 111000 0000000000111345666666543 35667777766
Q ss_pred hC-CCCcEEEEcCCCCCC-----CChhhhHHHHHHHHhcCCC
Q 037034 88 YN-KPIPAILEIPSKDHP-----YDPAHDSVLSRVKNLFSAE 123 (130)
Q Consensus 88 ~~-~~~P~Iv~IPs~~g~-----~~~~~d~i~~~V~~AiGvd 123 (130)
++ +..+.|..=|+..-+ .-.+...+...+..+.|.+
T Consensus 155 L~~~g~~~i~Tn~d~~~~~~~~~~~~~~g~~~~~i~~~~g~~ 196 (279)
T TIGR01452 155 LREPGCLFVATNRDPWHPLSDGSRTPGTGSLVAAIETASGRQ 196 (279)
T ss_pred HhcCCCEEEEeCCCCCCCCcCCCcccChHHHHHHHHHHhCCc
Confidence 64 233455544443211 1123344555666665544
No 134
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=25.31 E-value=4.2e+02 Score=23.46 Aligned_cols=24 Identities=17% Similarity=0.286 Sum_probs=19.3
Q ss_pred CCcEEEEEcchhhHHHHH--Hh---cccc
Q 037034 11 SSALIAMIADEDTVTGFL--LA---GVGN 34 (130)
Q Consensus 11 ~~~kIaVIGD~dtv~GFr--La---Gi~~ 34 (130)
..++++|+||.+.+.|+. |. |++.
T Consensus 304 ~Gkrv~I~gd~~~a~~l~~~L~~ELGm~v 332 (513)
T CHL00076 304 TGKKAVVFGDATHAASMTKILAREMGIRV 332 (513)
T ss_pred CCCEEEEEcCchHHHHHHHHHHHhCCCEE
Confidence 458999999999999974 44 8863
No 135
>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=25.23 E-value=1.6e+02 Score=22.77 Aligned_cols=50 Identities=4% Similarity=0.123 Sum_probs=30.2
Q ss_pred CCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEEEcCCC
Q 037034 49 KTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAILEIPSK 101 (130)
Q Consensus 49 ~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv~IPs~ 101 (130)
+-+..++.+..+ .+++.++.+||.........-+.|.+- ...|. +.+...
T Consensus 182 ~ps~~~l~~l~~-~ik~~~v~~i~~e~~~~~~~~~~la~~-~g~~v-v~ld~l 231 (256)
T PF01297_consen 182 EPSPKDLAELIK-LIKENKVKCIFTEPQFSSKLAEALAKE-TGVKV-VYLDPL 231 (256)
T ss_dssp SS-HHHHHHHHH-HHHHTT-SEEEEETTS-THHHHHHHHC-CT-EE-EESSTT
T ss_pred CCCHHHHHHHHH-HhhhcCCcEEEecCCCChHHHHHHHHH-cCCcE-EEeCCC
Confidence 345688877665 667899999999888777766666541 22454 444444
No 136
>TIGR02014 BchZ chlorophyllide reductase subunit Z. This model represents the Z subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase.
Probab=24.94 E-value=1.2e+02 Score=26.65 Aligned_cols=54 Identities=19% Similarity=0.246 Sum_probs=33.1
Q ss_pred CcEEEEEcchhhHHHH---HH--hcccccccCCcceEEEecC---CCcHHHHHHHHHHHhcCCCeeEEEEehH
Q 037034 12 SALIAMIADEDTVTGF---LL--AGVGNVDLRRKTNYLIVDS---KTTVKAIEDAFKEFTTKEDIAIVLISQY 76 (130)
Q Consensus 12 ~~kIaVIGD~dtv~GF---rL--aGi~~~~~~~~~n~~v~~~---~t~~ee~~~~~~~l~~~~digII~Ite~ 76 (130)
.+++||.||+|.+.|+ .. .|+..+ |.+... .++..++++ .+++.+..+||=|+.
T Consensus 280 ~k~vaI~gd~d~~~gl~~fL~~ElGm~~~-------~~~t~~v~~~~D~~~i~~----~i~~~~p~ll~Gss~ 341 (468)
T TIGR02014 280 TARFGIVASETYARGIRHVLEDELGLPCL-------FSLARKAGSKTDNNAVRK----EIVQKQPLVLYGSMN 341 (468)
T ss_pred CceEEEEcCHHHHHHHHHHHHHHCCCceE-------EEeecceeecCCHHHHHH----HHhhcCCCEEEEChH
Confidence 3689999999999998 33 577633 433221 123355554 444556777776664
No 137
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=24.66 E-value=2.1e+02 Score=18.81 Aligned_cols=43 Identities=16% Similarity=0.487 Sum_probs=32.2
Q ss_pred HHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEEE
Q 037034 54 AIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAILE 97 (130)
Q Consensus 54 e~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv~ 97 (130)
++.+..+++ ++.++.+|.|+.+-.+.+++.++++.-..|.+.-
T Consensus 47 ~l~~~~~~~-~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 47 ELNELYKKY-KDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp HHHHHHHHH-HTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred HHHHHhhhh-ccceEEeeecccccccchhhhhhhhccccccccC
Confidence 344444433 4779999999999988888888887767777665
No 138
>PF02585 PIG-L: GlcNAc-PI de-N-acetylase; InterPro: IPR003737 A number of the members of this family have been characterised as a probable N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase, (3.5.1.89 from EC) that catalyses the second step in glycosylphosphatidylinositol (GPI) biosynthesis [, ]. The family also includes a number of thiol biosynthesis proteins. ; PDB: 2XAD_C 2X9L_A 3DFK_A 3DFM_A 3DFF_A 2IXD_A 1UAN_A 1Q74_B 1Q7T_B 3DFI_A.
Probab=24.62 E-value=1.5e+02 Score=20.26 Aligned_cols=41 Identities=20% Similarity=0.311 Sum_probs=23.1
Q ss_pred HHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHHHHHHhc
Q 037034 77 VANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLSRVKNLF 120 (130)
Q Consensus 77 ~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~Ai 120 (130)
+.+.+.+.+. +..|-+|..|+..+..-+....+.+.+++|+
T Consensus 88 ~~~~l~~~i~---~~~p~~V~t~~~~~~gH~DH~~~~~av~~A~ 128 (128)
T PF02585_consen 88 LVRDLEDLIR---EFRPDVVFTPDPDDGGHPDHRAVARAVREAL 128 (128)
T ss_dssp HHHHHHHHHH---HH-ESEEEEE-STTS-SHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHH---HcCCCEEEECCCCCCCcHHHHHHHHHHHHHC
Confidence 3344444444 3448788888877652355666777776663
No 139
>PRK10792 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.54 E-value=1.5e+02 Score=24.56 Aligned_cols=41 Identities=12% Similarity=0.069 Sum_probs=28.5
Q ss_pred HHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCe-eEEEEe
Q 037034 27 FLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDI-AIVLIS 74 (130)
Q Consensus 27 FrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~di-gII~It 74 (130)
+.-.|++.. .+.-.++++++|+.+.++++=+++++ |||+--
T Consensus 58 a~~~Gi~~~-------~~~l~~~~s~~el~~~I~~lN~d~~V~GIlvql 99 (285)
T PRK10792 58 CEEVGFVSR-------SYDLPETTSEAELLALIDELNADPTIDGILVQL 99 (285)
T ss_pred HHHcCCEEE-------EEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeC
Confidence 445688743 23335567889999999999877777 666543
No 140
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. 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. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=24.50 E-value=3.4e+02 Score=21.09 Aligned_cols=82 Identities=17% Similarity=0.184 Sum_probs=46.7
Q ss_pred EEEEEcch---hhHHHHHHhcccccccCCc------ceEEEecC-CCcHHHHHHHHHHHhcCCCeeEEEEe--hHHHHHH
Q 037034 14 LIAMIADE---DTVTGFLLAGVGNVDLRRK------TNYLIVDS-KTTVKAIEDAFKEFTTKEDIAIVLIS--QYVANMI 81 (130)
Q Consensus 14 kIaVIGD~---dtv~GFrLaGi~~~~~~~~------~n~~v~~~-~t~~ee~~~~~~~l~~~~digII~It--e~~a~~i 81 (130)
+|+.|=+. ....||+|| ++.+|.... -.+.+.+. ..++..+..+..+|+. +++..|+=. ...+..+
T Consensus 1 ~iG~i~~~~~~~~~~a~~lA-v~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~-~~V~aiiG~~~S~~~~av 78 (324)
T cd06368 1 RIGAIFDEDARQEELAFRFA-IDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS-QGVAAIFGPSSSSSANTV 78 (324)
T ss_pred CEEEEeCCCChHHHHHHHHH-HHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh-cCcEEEECCCCHHHHHHH
Confidence 36666554 588899987 555543221 11333332 2456788888899986 566555543 3344455
Q ss_pred HHHHHhhCCCCcEEEEcC
Q 037034 82 RFLVDSYNKPIPAILEIP 99 (130)
Q Consensus 82 ~~~I~~~~~~~P~Iv~IP 99 (130)
.+..++ ...|.|-+-+
T Consensus 79 ~~i~~~--~~ip~is~~~ 94 (324)
T cd06368 79 QSICDA--LEIPHITTSW 94 (324)
T ss_pred HHHHhc--cCCCcEEecC
Confidence 555555 3467776543
No 141
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=24.20 E-value=1.2e+02 Score=22.19 Aligned_cols=61 Identities=15% Similarity=0.139 Sum_probs=38.8
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHHHHHHHHhc
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSVLSRVKNLF 120 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~Ai 120 (130)
+.++..|++-+ +|==+..+.+.+.+++.+...+...|+|+..=+..| -|+..+.+.|-+++
T Consensus 17 ~~L~~~L~~~l----~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tG---tGKn~v~~liA~~l 77 (127)
T PF06309_consen 17 TGLEKDLQRNL----FGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTG---TGKNFVSRLIAEHL 77 (127)
T ss_pred HHHHHHHHHHc----cCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCC---CcHHHHHHHHHHHH
Confidence 66666666554 332233444555666666555577899997755444 47888888887763
No 142
>PRK12549 shikimate 5-dehydrogenase; Reviewed
Probab=23.97 E-value=3.6e+02 Score=21.73 Aligned_cols=71 Identities=17% Similarity=0.187 Sum_probs=44.9
Q ss_pred CCCCCcEEEEEcch--hhH------HHHHHhcccccccCCcceEEEecCC---CcHHHHHHHHHHHhcCCCeeEEEEehH
Q 037034 8 PTKSSALIAMIADE--DTV------TGFLLAGVGNVDLRRKTNYLIVDSK---TTVKAIEDAFKEFTTKEDIAIVLISQY 76 (130)
Q Consensus 8 ~~~~~~kIaVIGD~--dtv------~GFrLaGi~~~~~~~~~n~~v~~~~---t~~ee~~~~~~~l~~~~digII~Ite~ 76 (130)
|++..+++++||++ .+. ..|+..|++.+ |...+-+ .+++++.++++.+. ..++.=+-||=-
T Consensus 1 ~~~~~~~~~liG~Pi~hS~SP~ihn~~f~~~gl~~~-------Y~~~~v~~~~v~~~~l~~~~~~l~-~~~~~G~nVTiP 72 (284)
T PRK12549 1 MSRPSFLAGLIGAGIQASLSPAMHEAEGDAQGLRYV-------YRLIDLDALGLTADALPELLDAAE-RMGFAGLNITHP 72 (284)
T ss_pred CCccceEEEEECCCcccccCHHHHHHHHHHcCCCeE-------EEEEeeccccCCHHHHHHHHHHHH-hcCCCEEEECcC
Confidence 45566899999996 443 56899999875 7655421 12578888888774 345555556644
Q ss_pred HHHHHHHHHH
Q 037034 77 VANMIRFLVD 86 (130)
Q Consensus 77 ~a~~i~~~I~ 86 (130)
.-+.+-+.+|
T Consensus 73 ~K~~v~~~~D 82 (284)
T PRK12549 73 CKQAVIPHLD 82 (284)
T ss_pred CHHHHHHHhc
Confidence 4333333333
No 143
>PRK02102 ornithine carbamoyltransferase; Validated
Probab=23.97 E-value=2.5e+02 Score=23.57 Aligned_cols=23 Identities=17% Similarity=0.229 Sum_probs=16.2
Q ss_pred CCcEEEEEcch------hhHHHHHHhccc
Q 037034 11 SSALIAMIADE------DTVTGFLLAGVG 33 (130)
Q Consensus 11 ~~~kIaVIGD~------dtv~GFrLaGi~ 33 (130)
+..+||++||- ..+.++...|++
T Consensus 154 ~g~~va~vGd~~~~v~~Sl~~~~~~~g~~ 182 (331)
T PRK02102 154 KGLKLAYVGDGRNNMANSLMVGGAKLGMD 182 (331)
T ss_pred CCCEEEEECCCcccHHHHHHHHHHHcCCE
Confidence 45899999993 335556666775
No 144
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=23.66 E-value=1.4e+02 Score=26.76 Aligned_cols=50 Identities=12% Similarity=0.193 Sum_probs=36.8
Q ss_pred CcEEEEEcchhhHHHHH----HhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEE
Q 037034 12 SALIAMIADEDTVTGFL----LAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVL 72 (130)
Q Consensus 12 ~~kIaVIGD~dtv~GFr----LaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~ 72 (130)
..+|||||=+.++.|++ +.|++-. . |..++ .+|++..++++. ..+|.+|+
T Consensus 107 ~~~iavv~~~~~~~~~~~~~~~l~~~i~-----~-~~~~~----~~e~~~~v~~lk-~~G~~~vv 160 (538)
T PRK15424 107 TSSIGVVTYQETIPALVAFQKTFNLRIE-----Q-RSYVT----EEDARGQINELK-ANGIEAVV 160 (538)
T ss_pred CCcEEEEecCcccHHHHHHHHHhCCceE-----E-EEecC----HHHHHHHHHHHH-HCCCCEEE
Confidence 47899999999999987 3466521 1 44444 499999999886 56777765
No 145
>cd07393 MPP_DR1119 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain. DR1119 is an uncharacterized Deinococcus radiodurans protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordinat
Probab=23.53 E-value=2.7e+02 Score=21.43 Aligned_cols=63 Identities=10% Similarity=0.110 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehHHHH-----HHHHHHHhhC-CCCcEEEEcCCCCCCCChhhhHHHHHHHH
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQYVAN-----MIRFLVDSYN-KPIPAILEIPSKDHPYDPAHDSVLSRVKN 118 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~~a~-----~i~~~I~~~~-~~~P~Iv~IPs~~g~~~~~~d~i~~~V~~ 118 (130)
+++.+.++.++ ++.-+|+++-++.. .....++.++ ...| ++.+|+.+..+....+.+++.+++
T Consensus 29 ~~i~~~~~~~~--~~~D~viiaGDl~~~~~~~~~~~~l~~l~~l~~~-v~~V~GNHD~~~~~~~~~~~~l~~ 97 (232)
T cd07393 29 EKIKENWDNVV--APEDIVLIPGDISWAMKLEEAKLDLAWIDALPGT-KVLLKGNHDYWWGSASKLRKALEE 97 (232)
T ss_pred HHHHHHHHhcC--CCCCEEEEcCCCccCCChHHHHHHHHHHHhCCCC-eEEEeCCccccCCCHHHHHHHHHh
Confidence 44444444444 26778888877652 2333333333 2235 577999887543345666666654
No 146
>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=23.37 E-value=2e+02 Score=22.52 Aligned_cols=45 Identities=18% Similarity=0.247 Sum_probs=28.0
Q ss_pred HHHHHHHHHhcCCCeeEEEEehHHHHHHHH----HHHhhCCCCc--EEEEcCC
Q 037034 54 AIEDAFKEFTTKEDIAIVLISQYVANMIRF----LVDSYNKPIP--AILEIPS 100 (130)
Q Consensus 54 e~~~~~~~l~~~~digII~Ite~~a~~i~~----~I~~~~~~~P--~Iv~IPs 100 (130)
-+.++++.++ ++..+|++|++-.+.+.+ .|+..+...| -|+.|++
T Consensus 32 l~a~~l~~il--~G~s~iliTD~~R~WF~~Yil~~IN~~~~~RP~lPi~~l~~ 82 (180)
T PF12163_consen 32 LIASALSHIL--NGGSFILITDEEREWFEEYILSNINNSHKNRPLLPIFSLKS 82 (180)
T ss_dssp HHHHHHHHHH--TT-EEEEEE-GGGHHHHHHHHHHHS-SSTTS----EEESTT
T ss_pred HHHHHHHHHh--CCCeEEEEeCchhHHHHHHHHHhcCcccCCCCcceEEeccc
Confidence 4668889888 478999999987666666 4444445566 4556666
No 147
>PRK07232 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed
Probab=23.18 E-value=1.8e+02 Score=27.42 Aligned_cols=77 Identities=14% Similarity=0.182 Sum_probs=49.5
Q ss_pred CCCCcEEEEEcchhhHHHHHHhcccc-ccc-----------C-CcceE-EEecCCCcHHHHHHHHHHHhcCCCeeEEEEe
Q 037034 9 TKSSALIAMIADEDTVTGFLLAGVGN-VDL-----------R-RKTNY-LIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS 74 (130)
Q Consensus 9 ~~~~~kIaVIGD~dtv~GFrLaGi~~-~~~-----------~-~~~n~-~v~~~~t~~ee~~~~~~~l~~~~digII~It 74 (130)
+.+...++||.|-.-|+|+-=.|..+ .-- . =.. | ++.+ +.+.+|+-++++.+. +.+|.|=+.
T Consensus 59 t~~~n~v~vvtdg~~vLGlGd~G~~a~~pv~egK~~l~~~~~gid~-~~i~~~-~~d~de~v~~v~~~~--p~~g~i~~E 134 (752)
T PRK07232 59 TARGNLVAVISNGTAVLGLGNIGALASKPVMEGKGVLFKKFAGIDV-FDIEVD-EEDPDKFIEAVAALE--PTFGGINLE 134 (752)
T ss_pred ccCCcEEEEEccchhhccccccccccCccHHHHHHHHHHhhcCCCc-cccccC-CCCHHHHHHHHHHhC--CCccEEeee
Confidence 45567799999999999986655542 100 0 000 2 2333 235788888888664 889888887
Q ss_pred hHHHHHHHHHHHhhC
Q 037034 75 QYVANMIRFLVDSYN 89 (130)
Q Consensus 75 e~~a~~i~~~I~~~~ 89 (130)
+.-+...-+.+++|+
T Consensus 135 D~~~p~~f~i~~~~~ 149 (752)
T PRK07232 135 DIKAPECFYIEEKLR 149 (752)
T ss_pred ecCCchHHHHHHHHH
Confidence 666666666666665
No 148
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=23.13 E-value=3.6e+02 Score=20.82 Aligned_cols=85 Identities=15% Similarity=0.172 Sum_probs=38.9
Q ss_pred CCcEEEEEcc--hhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCe-eEEEEehHHHHHHHHHHHh
Q 037034 11 SSALIAMIAD--EDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDI-AIVLISQYVANMIRFLVDS 87 (130)
Q Consensus 11 ~~~kIaVIGD--~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~di-gII~Ite~~a~~i~~~I~~ 87 (130)
....|+++-. .+....-.+.|++..-....-+..+.+...+.++..+.++.+..+ .+ |||+.. .-.+...+.+..
T Consensus 25 ~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l~~~-~~dgiii~~-~~~~~~~~~l~~ 102 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVR-GTKILLINP-TDSDAVGNAVKM 102 (295)
T ss_pred cCCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcC-CChHHHHHHHHH
Confidence 4678887764 222223333333321111111133333322346667778877644 44 455443 323333344444
Q ss_pred hC-CCCcEEEE
Q 037034 88 YN-KPIPAILE 97 (130)
Q Consensus 88 ~~-~~~P~Iv~ 97 (130)
++ ...|+|+.
T Consensus 103 ~~~~~ipvV~~ 113 (295)
T PRK10653 103 ANQANIPVITL 113 (295)
T ss_pred HHHCCCCEEEE
Confidence 43 45677663
No 149
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=23.11 E-value=1.7e+02 Score=20.01 Aligned_cols=37 Identities=16% Similarity=0.146 Sum_probs=27.3
Q ss_pred cCCCeeEEEEehHHHHHHHHHHHhh--CCCCcEEEEcCC
Q 037034 64 TKEDIAIVLISQYVANMIRFLVDSY--NKPIPAILEIPS 100 (130)
Q Consensus 64 ~~~digII~Ite~~a~~i~~~I~~~--~~~~P~Iv~IPs 100 (130)
++.+...++|.+++.+..++.+..+ ....|.+...++
T Consensus 29 ~~gkaklViiA~D~~~~~~~~i~~~c~~~~Ip~~~~~~t 67 (99)
T PRK01018 29 KLGKAKLVIVASNCPKDIKEDIEYYAKLSGIPVYEYEGS 67 (99)
T ss_pred HcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECCC
Confidence 3677889999999888888888765 256787665544
No 150
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=23.06 E-value=1.6e+02 Score=22.90 Aligned_cols=87 Identities=13% Similarity=0.003 Sum_probs=47.1
Q ss_pred HHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCC-eeEEEEehHHHHHHHHHHHhhCCCCc-EEEEcCCCC
Q 037034 25 TGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKED-IAIVLISQYVANMIRFLVDSYNKPIP-AILEIPSKD 102 (130)
Q Consensus 25 ~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~d-igII~Ite~~a~~i~~~I~~~~~~~P-~Iv~IPs~~ 102 (130)
.-|+..|++.+ .-..+++.+++.++.++. +.+ +++=++.......+++.++.++...| .-|-+-+..
T Consensus 110 ~~l~~~G~~Vi---------~LG~~vp~e~~v~~~~~~--~~~~V~lS~~~~~~~~~~~~~i~~L~~~~~~~~i~vGG~~ 178 (213)
T cd02069 110 VILSNNGYEVI---------DLGVMVPIEKILEAAKEH--KADIIGLSGLLVPSLDEMVEVAEEMNRRGIKIPLLIGGAA 178 (213)
T ss_pred HHHHhCCCEEE---------ECCCCCCHHHHHHHHHHc--CCCEEEEccchhccHHHHHHHHHHHHhcCCCCeEEEEChh
Confidence 33566677633 224567789888877755 333 34433445556777888887753322 333333321
Q ss_pred CCCChhhhHHHH--HHHHhcCCCcccc
Q 037034 103 HPYDPAHDSVLS--RVKNLFSAESVAS 127 (130)
Q Consensus 103 g~~~~~~d~i~~--~V~~AiGvdi~~~ 127 (130)
. .++ ..+ ...+.+|+|-|+.
T Consensus 179 --~--~~~-~~~~~~~~~~~gad~y~~ 200 (213)
T cd02069 179 --T--SRK-HTAVKIAPEYDGPVVYVK 200 (213)
T ss_pred --c--CHH-HHhhhhccccCCCceEec
Confidence 1 122 222 2356789887764
No 151
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=23.03 E-value=4e+02 Score=21.38 Aligned_cols=74 Identities=19% Similarity=0.325 Sum_probs=36.5
Q ss_pred EEecCCCcHHHHHHHHHHHhcCCCeeEEEEe-----------hHHHHHHHHHHHhhCCCCcEEEEcCCCCCCCChhhhHH
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS-----------QYVANMIRFLVDSYNKPIPAILEIPSKDHPYDPAHDSV 112 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~~digII~It-----------e~~a~~i~~~I~~~~~~~P~Iv~IPs~~g~~~~~~d~i 112 (130)
++-+|.|+.+.++..+.++ | -|+++| +...++++..-..+.+..+..+++=+ . ...+.+
T Consensus 114 v~lnP~Tp~~~i~~~l~~v----D-~VllMsVnPGfgGQ~Fi~~~l~Ki~~lr~~~~~~~~~~IeVDG---G--I~~~t~ 183 (220)
T COG0036 114 LVLNPATPLEALEPVLDDV----D-LVLLMSVNPGFGGQKFIPEVLEKIRELRAMIDERLDILIEVDG---G--INLETI 183 (220)
T ss_pred EEECCCCCHHHHHHHHhhC----C-EEEEEeECCCCcccccCHHHHHHHHHHHHHhcccCCeEEEEeC---C--cCHHHH
Confidence 4557777766666544433 2 344444 23444444433222211277777732 2 233444
Q ss_pred HHHHHHhcCCCccccCC
Q 037034 113 LSRVKNLFSAESVASGR 129 (130)
Q Consensus 113 ~~~V~~AiGvdi~~~~~ 129 (130)
.+.. +-|+|++-+|+
T Consensus 184 ~~~~--~AGad~~VaGS 198 (220)
T COG0036 184 KQLA--AAGADVFVAGS 198 (220)
T ss_pred HHHH--HcCCCEEEEEE
Confidence 4433 45888776653
No 152
>PRK12749 quinate/shikimate dehydrogenase; Reviewed
Probab=22.71 E-value=2.6e+02 Score=22.74 Aligned_cols=67 Identities=15% Similarity=0.148 Sum_probs=41.5
Q ss_pred CCCcEEEEEcch--hhH------HHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHH
Q 037034 10 KSSALIAMIADE--DTV------TGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMI 81 (130)
Q Consensus 10 ~~~~kIaVIGD~--dtv------~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i 81 (130)
..++.+++||++ .+. ..|+..|++.+ |...+- +++++.++++.+- ..++.=.-||=-.-+.+
T Consensus 5 ~~t~~~gliG~Pi~hSlSP~ihn~~f~~~gl~~~-------Y~~~~v--~~~~l~~~~~~l~-~~~~~G~nVTiP~K~~~ 74 (288)
T PRK12749 5 AKYELIGLMAYPIRHSLSPEMQNKALEKAGLPFT-------YMAFEV--DNDSFPGAIEGLK-ALKMRGTGVSMPNKQLA 74 (288)
T ss_pred CCceEEEEECCCcccccCHHHHHHHHHHcCCCeE-------EEEEec--CHHHHHHHHHHHH-hcCCCEEEECcCCHHHH
Confidence 345789999996 443 57899999865 755543 4578888888664 33444445553333333
Q ss_pred HHHHH
Q 037034 82 RFLVD 86 (130)
Q Consensus 82 ~~~I~ 86 (130)
-+.+|
T Consensus 75 ~~~~D 79 (288)
T PRK12749 75 CEYVD 79 (288)
T ss_pred HHHhc
Confidence 33333
No 153
>PHA02591 hypothetical protein; Provisional
Probab=22.69 E-value=1.4e+02 Score=20.57 Aligned_cols=42 Identities=12% Similarity=0.204 Sum_probs=31.2
Q ss_pred CCCcEEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhc
Q 037034 10 KSSALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTT 64 (130)
Q Consensus 10 ~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~ 64 (130)
++...|.-||.+-+.--.+..|+. |++.+. ++..+.-++|.+
T Consensus 16 ~~~~~~~~~~~~~m~k~vqv~~~r---------yfi~~~----dd~~~vA~eL~e 57 (83)
T PHA02591 16 NTSLCICYIGEKKMQKVVQVGQTR---------YFVESE----DDLISVTHELAR 57 (83)
T ss_pred cCeeEEEEhhhHhHHHhheeCCEE---------EEEecc----chHHHHHHHHHH
Confidence 345678899999888777777765 888776 777777777763
No 154
>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=22.69 E-value=3.4e+02 Score=21.47 Aligned_cols=77 Identities=16% Similarity=0.176 Sum_probs=37.3
Q ss_pred CcEEEEEcchhhHHH------HH----HhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHH
Q 037034 12 SALIAMIADEDTVTG------FL----LAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMI 81 (130)
Q Consensus 12 ~~kIaVIGD~dtv~G------Fr----LaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i 81 (130)
-++|+|+-|+.+..+ ++ -.|++-+ . +.+.+ .+++.++++.+.++.| ++++.+......-
T Consensus 131 ~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~-----~-~~v~~----~~~~~~~~~~l~~~~d-a~~~~~~~~~~~~ 199 (294)
T PF04392_consen 131 AKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELV-----E-IPVPS----SEDLEQALEALAEKVD-ALYLLPDNLVDSN 199 (294)
T ss_dssp --EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEE-----E-EEESS----GGGHHHHHHHHCTT-S-EEEE-S-HHHHHT
T ss_pred CCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEE-----E-EecCc----HhHHHHHHHHhhccCC-EEEEECCcchHhH
Confidence 478988887554322 11 2355532 1 34433 3788899998865545 5566665554333
Q ss_pred HHHHHh-h-CCCCcEEEEcC
Q 037034 82 RFLVDS-Y-NKPIPAILEIP 99 (130)
Q Consensus 82 ~~~I~~-~-~~~~P~Iv~IP 99 (130)
...+-. . +...|++-.-+
T Consensus 200 ~~~i~~~~~~~~iPv~~~~~ 219 (294)
T PF04392_consen 200 FEAILQLANEAKIPVFGSSD 219 (294)
T ss_dssp HHHHHHHCCCTT--EEESSH
T ss_pred HHHHHHHHHhcCCCEEECCH
Confidence 333333 2 37788876544
No 155
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=22.69 E-value=1.8e+02 Score=22.37 Aligned_cols=44 Identities=11% Similarity=0.172 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEE
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAIL 96 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv 96 (130)
.++..++|+++. +.++-+++.|-+-...+++.++++....|+|-
T Consensus 22 ~~~~~~al~~~~-~~g~~v~iaTGR~~~~~~~~~~~l~~~~~~I~ 65 (264)
T COG0561 22 SPETKEALARLR-EKGVKVVLATGRPLPDVLSILEELGLDGPLIT 65 (264)
T ss_pred CHHHHHHHHHHH-HCCCEEEEECCCChHHHHHHHHHcCCCccEEE
Confidence 377888888664 78999999999988999999998875556665
No 156
>PRK14071 6-phosphofructokinase; Provisional
Probab=22.67 E-value=1.8e+02 Score=24.62 Aligned_cols=34 Identities=21% Similarity=0.357 Sum_probs=25.4
Q ss_pred EEecCCCcHHHHHHHHHHHhcC-CCeeEEEEehHH
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTK-EDIAIVLISQYV 77 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~-~digII~Ite~~ 77 (130)
++-+...+.+++.+.+++..++ ++++||+++|.+
T Consensus 205 liPE~~~~~~~l~~~i~~~~~~~~~~~iivvsEG~ 239 (360)
T PRK14071 205 LIPEIPYTLENVCKKIRERQEEGKNFCLVVVSEAV 239 (360)
T ss_pred EECCCCCCHHHHHHHHHHHHHcCCCeEEEEEcCCC
Confidence 4445555678887777777665 789999999986
No 157
>PRK14072 6-phosphofructokinase; Provisional
Probab=22.59 E-value=2.2e+02 Score=24.72 Aligned_cols=29 Identities=7% Similarity=0.139 Sum_probs=24.1
Q ss_pred CcHHHHHHHHHHHhcCCCeeEEEEehHHH
Q 037034 50 TTVKAIEDAFKEFTTKEDIAIVLISQYVA 78 (130)
Q Consensus 50 t~~ee~~~~~~~l~~~~digII~Ite~~a 78 (130)
.+.+++.+.+++.++++.++||+++|.+.
T Consensus 220 ~~~~~~~~~i~~~~~~~~~~ivvVaEG~~ 248 (416)
T PRK14072 220 FDEEKFLADVRAIVKRYGYCVVVVSEGIR 248 (416)
T ss_pred CCHHHHHHHHHHHHHhCCCeEEEEecCcc
Confidence 44678888888888888999999999974
No 158
>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=22.55 E-value=1.4e+02 Score=23.93 Aligned_cols=36 Identities=8% Similarity=0.185 Sum_probs=24.5
Q ss_pred CCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHH
Q 037034 49 KTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLV 85 (130)
Q Consensus 49 ~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I 85 (130)
+.+..++.+..+ +++..++.+||.......+.-+.|
T Consensus 193 eps~~~l~~l~~-~ik~~~v~~if~e~~~~~~~~~~l 228 (276)
T cd01016 193 EAGLRDINELVD-LIVERKIKAIFVESSVNQKSIEAL 228 (276)
T ss_pred CCCHHHHHHHHH-HHHHcCCCEEEEeCCCCHHHHHHH
Confidence 445688877665 667899999999766544444433
No 159
>PRK14177 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.35 E-value=1.5e+02 Score=24.62 Aligned_cols=41 Identities=15% Similarity=0.309 Sum_probs=28.1
Q ss_pred HHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCe-eEEEE
Q 037034 26 GFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDI-AIVLI 73 (130)
Q Consensus 26 GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~di-gII~I 73 (130)
-+.-.|++.. .....++++++++.+.+++|=+++++ |||+-
T Consensus 57 ~~~~~Gi~~~-------~~~l~~~~s~~el~~~I~~lN~D~~V~GIlvq 98 (284)
T PRK14177 57 ACHKVGMGSE-------MIRLKEQTTTEELLGVIDKLNLDPNVDGILLQ 98 (284)
T ss_pred HHHHcCCEEE-------EEECCCCCCHHHHHHHHHHHhCCCCCCeEEEc
Confidence 4455788743 23335566789999999999877887 66654
No 160
>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=22.27 E-value=2.9e+02 Score=19.48 Aligned_cols=69 Identities=9% Similarity=0.131 Sum_probs=35.4
Q ss_pred cEEEEEcchhhHHHHHHhcccccccCCcceEEEecC----CCcHHHHHHHH-HHHh-cCCCeeEEEEe----------hH
Q 037034 13 ALIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDS----KTTVKAIEDAF-KEFT-TKEDIAIVLIS----------QY 76 (130)
Q Consensus 13 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~----~t~~ee~~~~~-~~l~-~~~digII~It----------e~ 76 (130)
++|.++||+-|- |+.+.+..+. ++.+.+. +|+ +++.+.+ .++. .++++-+|.+- +.
T Consensus 1 ~~iv~~GdS~t~-~~~~~~~~~~------~~~v~n~g~~G~t~-~~~~~~~~~~~~~~~pd~v~i~~G~ND~~~~~~~~~ 72 (174)
T cd01841 1 KNIVFIGDSLFE-GWPLYEAEGK------GKTVNNLGIAGISS-RQYLEHIEPQLIQKNPSKVFLFLGTNDIGKEVSSNQ 72 (174)
T ss_pred CCEEEEcchhhh-cCchhhhccC------CCeEEecccccccH-HHHHHHHHHHHHhcCCCEEEEEeccccCCCCCCHHH
Confidence 479999998764 5555544210 1222222 333 4455555 3343 24556555543 23
Q ss_pred HHHHHHHHHHhhC
Q 037034 77 VANMIRFLVDSYN 89 (130)
Q Consensus 77 ~a~~i~~~I~~~~ 89 (130)
+.+.++..++.++
T Consensus 73 ~~~~~~~l~~~~~ 85 (174)
T cd01841 73 FIKWYRDIIEQIR 85 (174)
T ss_pred HHHHHHHHHHHHH
Confidence 4556666776664
No 161
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=22.25 E-value=3.8e+02 Score=22.90 Aligned_cols=46 Identities=20% Similarity=0.293 Sum_probs=27.8
Q ss_pred CCcEEEEEcchhhHHHH----HHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcC
Q 037034 11 SSALIAMIADEDTVTGF----LLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTK 65 (130)
Q Consensus 11 ~~~kIaVIGD~dtv~GF----rLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~ 65 (130)
..++++|.||.+...|+ .=.|++-+ .++... ...+.++.++.+++.
T Consensus 302 ~gkrv~i~g~~~~~~~la~~L~elGm~v~-------~~~~~~--~~~~~~~~~~~~l~~ 351 (435)
T cd01974 302 HGKKFALYGDPDFLIGLTSFLLELGMEPV-------HVLTGN--GGKRFEKEMQALLDA 351 (435)
T ss_pred CCCEEEEEcChHHHHHHHHHHHHCCCEEE-------EEEeCC--CCHHHHHHHHHHHhh
Confidence 35899999999998874 33455522 223222 235556667767654
No 162
>cd01971 Nitrogenase_VnfN_like Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protien for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=22.16 E-value=3e+02 Score=23.42 Aligned_cols=55 Identities=16% Similarity=0.155 Sum_probs=32.7
Q ss_pred CcEEEEEcchhhHHHH---H--HhcccccccCCcceEEEecCCCcHHHHHHHHHHHhc--CCCeeEEEEe
Q 037034 12 SALIAMIADEDTVTGF---L--LAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTT--KEDIAIVLIS 74 (130)
Q Consensus 12 ~~kIaVIGD~dtv~GF---r--LaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~--~~digII~It 74 (130)
.++++|.||.+.+.|+ . =.|++-+ .++.... ++++.++.+++.++ ..+..+++.+
T Consensus 293 ~k~vai~~~~~~~~~l~~~L~~elGm~~~-------~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~~~ 354 (427)
T cd01971 293 PRRFAVIADSTYALGLARFLVNELGWVPA-------KQVITDN-PPEKYRSAIENEFEAEGVSAEVVFSE 354 (427)
T ss_pred CceEEEECChHHHHHHHHHHHHhcCCceE-------EEEecCC-CCHHHHHHHHHHHHhcCCCCcEEEec
Confidence 5899999999999988 3 3788632 2333322 24666666655432 2234455544
No 163
>TIGR01997 sufA_proteo FeS assembly scaffold SufA. This model represents the SufA protein of the SUF system of iron-sulfur cluster biosynthesis. This system performs FeS biosynthesis even during oxidative stress and tends to be absent in obligate anaerobic and microaerophilic bacteria.
Probab=22.08 E-value=1.5e+02 Score=20.32 Aligned_cols=20 Identities=30% Similarity=0.316 Sum_probs=16.5
Q ss_pred eEEEEehHHHHHHHHHHHhh
Q 037034 69 AIVLISQYVANMIRFLVDSY 88 (130)
Q Consensus 69 gII~Ite~~a~~i~~~I~~~ 88 (130)
++|-||+.+++++++.+.+.
T Consensus 1 ~~i~iT~~A~~~i~~l~~~~ 20 (107)
T TIGR01997 1 AVITLTDAAAIHIRELVAKR 20 (107)
T ss_pred CeEEECHHHHHHHHHHHhcC
Confidence 46889999999999988764
No 164
>PF03770 IPK: Inositol polyphosphate kinase ; InterPro: IPR005522 ArgRIII has been demonstrated to be an inositol polyphosphate kinase [] which catalyses the reaction ATP + 1D-myo-inositol 1,4,5-trisphosphate = ADP + 1D-myo-inositol 1,3,4,5-tetrakisphosphate .; GO: 0008440 inositol trisphosphate 3-kinase activity; PDB: 2IF8_B 2IEW_B 1W2C_A 1W2F_A 1W2D_A 2A98_A 2AQX_A 1TZD_A.
Probab=22.03 E-value=76 Score=24.24 Aligned_cols=44 Identities=25% Similarity=0.397 Sum_probs=27.7
Q ss_pred hHHHHHHhcccccccCCcceEEEecC----CCcHHHHHHHHHHHhcCCC
Q 037034 23 TVTGFLLAGVGNVDLRRKTNYLIVDS----KTTVKAIEDAFKEFTTKED 67 (130)
Q Consensus 23 tv~GFrLaGi~~~~~~~~~n~~v~~~----~t~~ee~~~~~~~l~~~~d 67 (130)
.-+|||+.|+.-.+...+. |...+. ..+.+++.++|+.++....
T Consensus 48 ~~lGfRi~G~~~~~~~~~~-~~~~~K~~Gr~l~~~~~~~~l~~Ff~~~~ 95 (197)
T PF03770_consen 48 ASLGFRICGMQVYDPDSGE-YVKYDKYYGRSLTPEEVRDALKKFFNNGS 95 (197)
T ss_dssp HHHSEEEEEEEE-E-STTS-EEEEEHHHTTH-SHHHHHHHHHHHHT-TT
T ss_pred cccCeEEEEEEEeccCCCc-eEEEecHHhhhcCHHHHHHHHHHHhcCCC
Confidence 3589999999864433333 444332 3346899999999996543
No 165
>COG0169 AroE Shikimate 5-dehydrogenase [Amino acid transport and metabolism]
Probab=21.85 E-value=4.5e+02 Score=21.57 Aligned_cols=106 Identities=13% Similarity=0.181 Sum_probs=61.0
Q ss_pred CCCCCcEEEEEcc--hhh------HHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHH
Q 037034 8 PTKSSALIAMIAD--EDT------VTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVAN 79 (130)
Q Consensus 8 ~~~~~~kIaVIGD--~dt------v~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~ 79 (130)
++...++.+|||+ ..+ -.-|+..|++.+ |...+- ++++++.+++.+.+..-.| .=||=-.-+
T Consensus 2 ~~~~t~~~~viG~Pi~HS~SP~~Hn~~~~~lGl~~~-------Y~a~~v--~~~~l~~~v~~~~~~g~~G-~NVTiP~Ke 71 (283)
T COG0169 2 MNGKTKLFGVIGNPISHSLSPRMHNAAFRALGLDYV-------YLAFEV--PPEDLPEAVSGIRALGFRG-LNVTIPFKE 71 (283)
T ss_pred CCCCceEEEEEcCCcccCcCHHHHHHHHHHcCCCce-------EEEeec--CHHHHHHHHHHHHhcCCCe-eEECCccHH
Confidence 3445588999999 333 356899999976 765554 4689999999886444344 666655555
Q ss_pred HHHHHHHhhC------CCCcEEEEc-CCCCCCCChhhhHHHHHHHH-hcCCC
Q 037034 80 MIRFLVDSYN------KPIPAILEI-PSKDHPYDPAHDSVLSRVKN-LFSAE 123 (130)
Q Consensus 80 ~i~~~I~~~~------~~~P~Iv~I-Ps~~g~~~~~~d~i~~~V~~-AiGvd 123 (130)
.+-+.+|++. ...=+|+.- -++--.+.-.-..+.+.+++ ..+.+
T Consensus 72 ~~~~~lD~l~~~A~~iGAVNTl~~~~~g~l~G~NTD~~G~~~~L~~~~~~~~ 123 (283)
T COG0169 72 AALPLLDELSPRARLIGAVNTLVREDDGKLRGYNTDGIGFLRALKEFGLPVD 123 (283)
T ss_pred HHHHHHhcCCHHHHHhCCceEEEEccCCEEEEEcCCHHHHHHHHHhcCCCcc
Confidence 5555555542 333456655 23311122222345555555 33344
No 166
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=21.79 E-value=3.2e+02 Score=20.46 Aligned_cols=53 Identities=9% Similarity=0.146 Sum_probs=29.3
Q ss_pred EEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhC-CCCcEEEE
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYN-KPIPAILE 97 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~-~~~P~Iv~ 97 (130)
.+.+.+.+.+...+.+++++.+.==|||+..-+ ...+.+.++.++ ...|+|..
T Consensus 38 ~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~-~~~~~~~l~~~~~~~iPvv~~ 91 (272)
T cd06300 38 IVTSADGDVAQQIADIRNLIAQGVDAIIINPAS-PTALNPVIEEACEAGIPVVSF 91 (272)
T ss_pred EEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCC-hhhhHHHHHHHHHCCCeEEEE
Confidence 454544455777788998886533366665422 122233344432 56787764
No 167
>TIGR03472 HpnI hopanoid biosynthesis associated glycosyl transferase protein HpnI. This family of genes include a glycosyl transferase, group 2 domain (pfam00535) which are responsible, generally for the transfer of nucleotide-diphosphate sugars to substrates such as polysaccharides and lipids. The member of this clade from Acidithiobacillus ferrooxidans ATCC 23270 (AFE_0974) is found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. Similarly, in Ralstonia eutropha JMP134 (Reut_B4902) this gene is adjacent to HpnAB, IspH and HpnH (TIGR03470), although SHC itself is elsewhere in the genome. Notably, this gene (here named HpnI) and three others form a conserved set (HpnIJKL) which occur in a subset of all genomes containing the SHC enzyme. This relationship was discerned using the method of partial phylogenetic profiling. This group includes Zymomonas mobilis, the organism where the initial hopano
Probab=21.68 E-value=2.9e+02 Score=22.78 Aligned_cols=37 Identities=8% Similarity=0.072 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhcC--CCeeEEEEehHHHHHHHHHHHhh
Q 037034 52 VKAIEDAFKEFTTK--EDIAIVLISQYVANMIRFLVDSY 88 (130)
Q Consensus 52 ~ee~~~~~~~l~~~--~digII~Ite~~a~~i~~~I~~~ 88 (130)
++.++++++++++. +++-||++.+.--+.-.+.++++
T Consensus 53 e~~l~~~L~Sl~~q~Yp~~EIivvdd~s~D~t~~iv~~~ 91 (373)
T TIGR03472 53 EPELYENLASFCRQDYPGFQMLFGVQDPDDPALAVVRRL 91 (373)
T ss_pred ChhHHHHHHHHHhcCCCCeEEEEEeCCCCCcHHHHHHHH
Confidence 47788888888754 35788887655433333444444
No 168
>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=21.28 E-value=2.9e+02 Score=22.70 Aligned_cols=65 Identities=11% Similarity=0.220 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCC--Cc-EEEEcCCCCCCCChhhhHHHHHHHHhcCCCccccC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKP--IP-AILEIPSKDHPYDPAHDSVLSRVKNLFSAESVASG 128 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~--~P-~Iv~IPs~~g~~~~~~d~i~~~V~~AiGvdi~~~~ 128 (130)
.+|+.++++ -..-+|.++..-.+.+++.+..++.. .| ..++. +.+...+.+.++. ..|+|+..+|
T Consensus 192 leea~~a~~-----agaDiI~LDn~~~e~l~~~v~~l~~~~~~~~~~lea-----SGGI~~~ni~~yA--~tGvD~Is~g 259 (278)
T PRK08385 192 LEDALKAAK-----AGADIIMLDNMTPEEIREVIEALKREGLRERVKIEV-----SGGITPENIEEYA--KLDVDVISLG 259 (278)
T ss_pred HHHHHHHHH-----cCcCEEEECCCCHHHHHHHHHHHHhcCcCCCEEEEE-----ECCCCHHHHHHHH--HcCCCEEEeC
Confidence 466666554 22349999999899999988876432 24 44555 2334568899998 5788877655
No 169
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=21.25 E-value=2.6e+02 Score=18.59 Aligned_cols=56 Identities=16% Similarity=0.191 Sum_probs=30.7
Q ss_pred EecCCCcHHHHHHHHHHHhcCCCeeEEEEe---hHHHHHHHHHHHhhCCCCc-EEEEcCCCCCC
Q 037034 45 IVDSKTTVKAIEDAFKEFTTKEDIAIVLIS---QYVANMIRFLVDSYNKPIP-AILEIPSKDHP 104 (130)
Q Consensus 45 v~~~~t~~ee~~~~~~~l~~~~digII~It---e~~a~~i~~~I~~~~~~~P-~Iv~IPs~~g~ 104 (130)
..+.+.+.+++.+.+++. +.|+ |.+| ..-.....+.++..++..| ..+.+.+.+.+
T Consensus 33 ~~d~~~~~~~l~~~~~~~--~pd~--V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~~~t 92 (121)
T PF02310_consen 33 ILDANVPPEELVEALRAE--RPDV--VGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGPHAT 92 (121)
T ss_dssp EEESSB-HHHHHHHHHHT--TCSE--EEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEESSSG
T ss_pred EECCCCCHHHHHHHHhcC--CCcE--EEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECCchh
Confidence 345555567776666644 4444 5554 3344556666666666666 45556555543
No 170
>COG3616 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]
Probab=21.24 E-value=5.4e+02 Score=22.17 Aligned_cols=74 Identities=20% Similarity=0.225 Sum_probs=54.3
Q ss_pred chhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCC-eeEEEEehHHHHHHHHHHHhhCCCCcEEEEc
Q 037034 20 DEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKED-IAIVLISQYVANMIRFLVDSYNKPIPAILEI 98 (130)
Q Consensus 20 D~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~d-igII~Ite~~a~~i~~~I~~~~~~~P~Iv~I 98 (130)
.-...--|.-+||.++ ++. .+ .......++|.++.++.+ +.+++=+..-++.+.+...+......+.||+
T Consensus 74 tl~eae~~a~aGi~dI-------l~a-~p-~~~~~~~~~L~~l~~~~~~~~~~iDs~~~~~~l~~~~~~~~~pl~v~iE~ 144 (368)
T COG3616 74 TLGEAEVFADAGIDDI-------LLA-YP-LPGRAALAALAELLADPPRISVLIDSVEQLDALAALARDAGKPLRVLIEI 144 (368)
T ss_pred chHHHHHHHccCccce-------EEe-cC-CCchhHHHHHHHhcCCCCceEEEeCCHHHHHHHHHHHHhcCCCeeEEEEe
Confidence 3334445667788765 333 22 245777788999988888 9999999998888888888777888899999
Q ss_pred CCCC
Q 037034 99 PSKD 102 (130)
Q Consensus 99 Ps~~ 102 (130)
=+..
T Consensus 145 D~G~ 148 (368)
T COG3616 145 DSGL 148 (368)
T ss_pred CCCC
Confidence 7644
No 171
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=21.15 E-value=4.1e+02 Score=20.84 Aligned_cols=87 Identities=8% Similarity=0.199 Sum_probs=39.7
Q ss_pred CCCCcEEEEEcch--hhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHH
Q 037034 9 TKSSALIAMIADE--DTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVD 86 (130)
Q Consensus 9 ~~~~~kIaVIGD~--dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~ 86 (130)
+.++..|+++-.. +....-.+.|++..-....-+..+.....+.++-.+.++.++++.==|||+......+..-+.+.
T Consensus 56 ~~~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~ 135 (341)
T PRK10703 56 VNHTKSIGLLATSSEAPYFAEIIEAVEKNCYQKGYTLILCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYPEPLLAMLE 135 (341)
T ss_pred hCCCCeEEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHH
Confidence 3455789988642 22333334444322111111123333233346666778877765434666654332222222222
Q ss_pred hhCCCCcEEE
Q 037034 87 SYNKPIPAIL 96 (130)
Q Consensus 87 ~~~~~~P~Iv 96 (130)
++ ...|+|+
T Consensus 136 ~~-~~iPvV~ 144 (341)
T PRK10703 136 EY-RHIPMVV 144 (341)
T ss_pred hc-CCCCEEE
Confidence 21 3578776
No 172
>PRK03515 ornithine carbamoyltransferase subunit I; Provisional
Probab=21.14 E-value=2.4e+02 Score=23.73 Aligned_cols=23 Identities=17% Similarity=0.284 Sum_probs=16.7
Q ss_pred CCcEEEEEcch------hhHHHHHHhccc
Q 037034 11 SSALIAMIADE------DTVTGFLLAGVG 33 (130)
Q Consensus 11 ~~~kIaVIGD~------dtv~GFrLaGi~ 33 (130)
+..+||++||- ..+.++...|++
T Consensus 155 ~g~~ia~vGD~~~~v~~Sl~~~~~~~g~~ 183 (336)
T PRK03515 155 NEMTLAYAGDARNNMGNSLLEAAALTGLD 183 (336)
T ss_pred CCCEEEEeCCCcCcHHHHHHHHHHHcCCE
Confidence 45899999994 235666777886
No 173
>cd03466 Nitrogenase_NifN_2 Nitrogenase_nifN_2: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco). This group also contains the Clostidium fused NifN-NifB protein.
Probab=21.12 E-value=4.3e+02 Score=22.54 Aligned_cols=55 Identities=16% Similarity=0.156 Sum_probs=31.4
Q ss_pred CCcEEEEEcchhhHHHHH----HhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe
Q 037034 11 SSALIAMIADEDTVTGFL----LAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS 74 (130)
Q Consensus 11 ~~~kIaVIGD~dtv~GFr----LaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It 74 (130)
..+|++|+||.+.+.++. -.|++- ..+.. .+..++.++.+++++++....++++.
T Consensus 299 ~gkrv~v~g~~~~~~~l~~~L~elG~~~--------~~v~~-~~~~~~~~~~l~~~~~~~~~~~~v~~ 357 (429)
T cd03466 299 FGRKAAIYGEPDFVVAITRFVLENGMVP--------VLIAT-GSESKKLKEKLEEDLKEYVEKCVILD 357 (429)
T ss_pred CCCEEEEEcCHHHHHHHHHHHHHCCCEE--------EEEEe-CCCChHHHHHHHHHHHhcCCceEEEe
Confidence 458999999988875542 234442 12222 22345666667666655444555555
No 174
>PRK13780 phosphocarrier protein HPr; Provisional
Probab=21.04 E-value=2.2e+02 Score=19.10 Aligned_cols=44 Identities=18% Similarity=0.229 Sum_probs=29.3
Q ss_pred cchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCC
Q 037034 19 ADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKED 67 (130)
Q Consensus 19 GD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~d 67 (130)
.|-.+++|....|+.. +.+..+.+..+ +.+++.++|.++++++.
T Consensus 42 vdakSil~lm~Lg~~~---G~~v~i~a~G~--De~~Al~~l~~~l~~~~ 85 (88)
T PRK13780 42 VNLKSIMGVMSLGVGQ---GADITISAEGA--DAADAIAAIEETMKKEG 85 (88)
T ss_pred EechhHHHHHhcCCCC---CCEEEEEEeCc--CHHHHHHHHHHHHHhcc
Confidence 4678999999999863 23332444443 35788888888886544
No 175
>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=21.01 E-value=1.4e+02 Score=20.83 Aligned_cols=48 Identities=15% Similarity=0.198 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhh--CCCCcEEEEcCC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSY--NKPIPAILEIPS 100 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~--~~~~P~Iv~IPs 100 (130)
+++..+.+++|.+..--|+++-+......+.+.+-++ +..+|+ +++|.
T Consensus 58 ~~~~~~~i~~L~~~~~agL~i~~~~~~~~iP~~~i~~A~~~~lPl-i~ip~ 107 (123)
T PF07905_consen 58 EEELREFIRELAEKGAAGLGIKTGRYLDEIPEEIIELADELGLPL-IEIPW 107 (123)
T ss_pred HHHHHHHHHHHHHCCCeEEEEeccCccccCCHHHHHHHHHcCCCE-EEeCC
Confidence 3569999999987777788776765555555555443 266775 46777
No 176
>PF12367 PFO_beta_C: Pyruvate ferredoxin oxidoreductase beta subunit C terminal
Probab=21.01 E-value=1.6e+02 Score=19.11 Aligned_cols=38 Identities=8% Similarity=0.065 Sum_probs=25.7
Q ss_pred CCcHHHHHHHHHHHhcCCC--eeEEEEehHHHHHHHHHHHhh
Q 037034 49 KTTVKAIEDAFKEFTTKED--IAIVLISQYVANMIRFLVDSY 88 (130)
Q Consensus 49 ~t~~ee~~~~~~~l~~~~d--igII~Ite~~a~~i~~~I~~~ 88 (130)
+.++.+..+|++.+...+. +||++..+ ...+.+.+..+
T Consensus 23 ~~Dp~d~~~A~~~a~e~d~iplGIfY~~~--~ptfee~~~~~ 62 (67)
T PF12367_consen 23 DHDPSDREAAMEKAREGDKIPLGIFYRNE--RPTFEERLPEL 62 (67)
T ss_pred CCCchhHHHHHHHHHhcCCceEEEEEeCC--CCCHHHHhhhh
Confidence 4455888899988775333 89999988 44555555544
No 177
>COG5476 Uncharacterized conserved protein [Function unknown]
Probab=21.00 E-value=1.5e+02 Score=26.51 Aligned_cols=69 Identities=17% Similarity=0.310 Sum_probs=47.7
Q ss_pred HHHHHHhcCCCeeEE-----------EEehHHHHHHHHHH-HhhCCCCcEEEEcCCCCCC-----CChhhhHHHHHHHHh
Q 037034 57 DAFKEFTTKEDIAIV-----------LISQYVANMIRFLV-DSYNKPIPAILEIPSKDHP-----YDPAHDSVLSRVKNL 119 (130)
Q Consensus 57 ~~~~~l~~~~digII-----------~Ite~~a~~i~~~I-~~~~~~~P~Iv~IPs~~g~-----~~~~~d~i~~~V~~A 119 (130)
-.+++.++.+.+.+| ++++..+|.++++| ++++...|+==..=+.+|. |+-....+..+||..
T Consensus 48 ~~~~~~~~~~G~~vi~~~~a~AeP~G~vsr~aye~~r~eil~~lkaalPvDavyL~LHGAmv~egydD~EGdll~rvRai 127 (488)
T COG5476 48 YGFRRAAAAEGWTVIEGLAAWAEPGGLVSRQAYEALRDEILDQLKAALPVDAVYLGLHGAMVAEGYDDGEGDLLTRVRAI 127 (488)
T ss_pred HHHHHHhhhcCceeeeeeheeecCCCcccHHHHHHHHHHHHHHHHhcCCcceeeeecchhhhhccCcCchhHHHHHHHHH
Confidence 456667777778888 56788999999876 5578888832222234433 444455689999999
Q ss_pred cCCCcc
Q 037034 120 FSAESV 125 (130)
Q Consensus 120 iGvdi~ 125 (130)
+|-|+-
T Consensus 128 vGpdvp 133 (488)
T COG5476 128 VGPDVP 133 (488)
T ss_pred hCCCCe
Confidence 997763
No 178
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=20.98 E-value=1.9e+02 Score=20.82 Aligned_cols=57 Identities=23% Similarity=0.320 Sum_probs=34.6
Q ss_pred cEEEEEcc-hhhHHH----HHHhcccccccCCcceEEEecCCC---cHHHHHHHHHHHhcCCCeeEEEEehH
Q 037034 13 ALIAMIAD-EDTVTG----FLLAGVGNVDLRRKTNYLIVDSKT---TVKAIEDAFKEFTTKEDIAIVLISQY 76 (130)
Q Consensus 13 ~kIaVIGD-~dtv~G----FrLaGi~~~~~~~~~n~~v~~~~t---~~ee~~~~~~~l~~~~digII~Ite~ 76 (130)
-...++|+ .+..-- +...|++.+ |.+.++.. ..+...++|.++++..+..+|++...
T Consensus 35 v~av~~G~~~~~~~~l~~~l~~~G~d~v-------~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t 99 (164)
T PF01012_consen 35 VTAVVLGPAEEAAEALRKALAKYGADKV-------YHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGST 99 (164)
T ss_dssp EEEEEEETCCCHHHHHHHHHHSTTESEE-------EEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESS
T ss_pred EEEEEEecchhhHHHHhhhhhhcCCcEE-------EEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCc
Confidence 44667776 333322 223588765 66655533 25667888888888777888888754
No 179
>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=20.95 E-value=3.6e+02 Score=24.40 Aligned_cols=50 Identities=14% Similarity=0.272 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEe-------hHHHHHHHHHHHhhC-CCCcEEEEcCCC
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLIS-------QYVANMIRFLVDSYN-KPIPAILEIPSK 101 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~It-------e~~a~~i~~~I~~~~-~~~P~Iv~IPs~ 101 (130)
.+.+.+.|+++..++++.-|++. -..++.+++.|..++ ...|+|+.+-+.
T Consensus 331 ~~~~~~~l~~a~~D~~VkaIVLrinSpGGs~~ase~i~~~i~~~~~~gKPVva~~~g~ 388 (584)
T TIGR00705 331 GDTVAALLRVARSDPDIKAVVLRINSPGGSVFASEIIRRELARAQARGKPVIVSMGAM 388 (584)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEecCCCCCHHHHHHHHHHHHHHHhCCCcEEEEECCc
Confidence 46777888888777777666666 235677888887775 347888877553
No 180
>TIGR02931 anfK_nitrog Fe-only nitrogenase, beta subunit. Nitrogenase is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, AnfK, represents the beta subunit of the iron-only alternative nitrogenase. It is homologous to NifK and VnfK, of the molybdenum-containing and the vanadium (V)-containing types, respectively.
Probab=20.92 E-value=5.4e+02 Score=22.38 Aligned_cols=23 Identities=17% Similarity=0.260 Sum_probs=17.8
Q ss_pred CCcEEEEEcchhhHHHHHH----hccc
Q 037034 11 SSALIAMIADEDTVTGFLL----AGVG 33 (130)
Q Consensus 11 ~~~kIaVIGD~dtv~GFrL----aGi~ 33 (130)
..++++|.||.+.+.|+-- .|++
T Consensus 311 ~Gkrvai~~~~~~~~~l~~~l~elGm~ 337 (461)
T TIGR02931 311 ADKRVAIYGNPDLVIGLAEFCLDLEMK 337 (461)
T ss_pred CCCeEEEEeCHHHHHHHHHHHHHCCCE
Confidence 4589999999999888743 4665
No 181
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=20.90 E-value=3.3e+02 Score=19.64 Aligned_cols=50 Identities=14% Similarity=0.240 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehH--HH--HHHHHHHHhhC---CCCcEEEEcCCCC
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQY--VA--NMIRFLVDSYN---KPIPAILEIPSKD 102 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~--~a--~~i~~~I~~~~---~~~P~Iv~IPs~~ 102 (130)
+.+.+.+.+-...++-.|+++|-= ++ -+....++++. ...|+|+.-|+.-
T Consensus 47 ~~i~~~i~~~~~~~~~~vv~ltGvG~l~P~~R~h~lL~~l~~~~~~~plv~FyPG~y 103 (126)
T PF08747_consen 47 EKIAEYIQEELEDDDRDVVFLTGVGSLFPFIRSHELLNNLQPKFGNVPLVVFYPGEY 103 (126)
T ss_pred HHHHHHHHHhccCCCCcEEEEeCcchhcchhhHHHHHHHHHHHhcCCeEEEECCcee
Confidence 556666665544667788888843 22 24445556553 5689999999854
No 182
>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=20.88 E-value=2e+02 Score=19.64 Aligned_cols=37 Identities=14% Similarity=0.408 Sum_probs=25.6
Q ss_pred cHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHh
Q 037034 51 TVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDS 87 (130)
Q Consensus 51 ~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~ 87 (130)
+.+++.+.++++....+..++++..--.+.+...+++
T Consensus 3 t~e~l~~f~~~~y~p~n~~l~i~Gd~~~~~~~~~i~~ 39 (184)
T PF05193_consen 3 TLEDLRAFYKKFYRPSNMTLVIVGDIDPDELEKLIEK 39 (184)
T ss_dssp -HHHHHHHHHHHSSGGGEEEEEEESSGHHHHHHHHHH
T ss_pred CHHHHHHHHHHhcCccceEEEEEcCccHHHHHHHHHh
Confidence 3589999999999777777777774444455554444
No 183
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=20.83 E-value=3.5e+02 Score=19.82 Aligned_cols=65 Identities=11% Similarity=0.133 Sum_probs=36.0
Q ss_pred EEEEEcchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHH--HHHHHHHHHh
Q 037034 14 LIAMIADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYV--ANMIRFLVDS 87 (130)
Q Consensus 14 kIaVIGD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~--a~~i~~~I~~ 87 (130)
.+-|+=.++-..-.+-+|+.++ |.+....+...+..+.++++. ..-+||++|+.= -++|+..+.+
T Consensus 11 ~vIVVEGK~D~~~l~~~~~~~~-------i~~~g~~i~~~~~ie~i~~~~--~~k~VIILTD~D~~Ge~Irk~l~~ 77 (127)
T COG1658 11 EVIVVEGKDDTASLKRLGDAGV-------IITNGSAINSLETIELIKKAQ--KYKGVIILTDPDRKGERIRKKLKE 77 (127)
T ss_pred ceEEEeCCcHHHHHHHhcCCce-------EEEcCCccchHHHHHHHHHhh--ccCCEEEEeCCCcchHHHHHHHHH
Confidence 4455555566667788888765 666554333244334344333 456888888542 2444444444
No 184
>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=20.79 E-value=1.8e+02 Score=22.83 Aligned_cols=41 Identities=20% Similarity=0.333 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhc---CCCeeEEEEehHHHHHHHHHHHhhCCCCc
Q 037034 53 KAIEDAFKEFTT---KEDIAIVLISQYVANMIRFLVDSYNKPIP 93 (130)
Q Consensus 53 ee~~~~~~~l~~---~~digII~Ite~~a~~i~~~I~~~~~~~P 93 (130)
....+.|.++++ +.++..+++|-+-.+.+++.+.++.-..|
T Consensus 18 ~~~~~~l~~~l~~~~~~~~~~v~~TGRs~~~~~~~~~~~~l~~P 61 (247)
T PF05116_consen 18 DEALARLEELLEQQARPEILFVYVTGRSLESVLRLLREYNLPQP 61 (247)
T ss_dssp HHHHHHHHHHHHHHHCCGEEEEEE-SS-HHHHHHHHHHCT-EE-
T ss_pred HHHHHHHHHHHHHhhCCCceEEEECCCCHHHHHHHHHhCCCCCC
Confidence 344445555555 89999999999999999999988654445
No 185
>PRK14192 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.77 E-value=1.4e+02 Score=24.49 Aligned_cols=53 Identities=13% Similarity=0.275 Sum_probs=36.4
Q ss_pred EEEEcchh-h-------HHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEe
Q 037034 15 IAMIADED-T-------VTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLIS 74 (130)
Q Consensus 15 IaVIGD~d-t-------v~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~It 74 (130)
|..+||.. + ..-|+-.|++.. |...+++.+++++.+.+++|-+++++-=|+++
T Consensus 38 ~i~vg~~~~s~~Y~~~~~~~~~~~Gi~~~-------~~~l~~~~~~~~l~~~i~~Ln~d~~v~Gi~Vq 98 (283)
T PRK14192 38 TILVGDDPASATYVRMKGNACRRVGMDSL-------KVELPQETTTEQLLAKIEELNANPDVHGILLQ 98 (283)
T ss_pred EEEeCCChhHHHHHHHHHHHHHHcCCeEE-------EEECCCCCCHHHHHHHHHHHhCCCCCCEEEEe
Confidence 55677633 2 235667799864 66655567789999999999877676445555
No 186
>PRK08576 hypothetical protein; Provisional
Probab=20.72 E-value=4.5e+02 Score=23.12 Aligned_cols=65 Identities=14% Similarity=0.252 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEE-EcCCCCCCCChhhhHHHHHHHHh
Q 037034 52 VKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAIL-EIPSKDHPYDPAHDSVLSRVKNL 119 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv-~IPs~~g~~~~~~d~i~~~V~~A 119 (130)
.++++..+++.+..+.+-|+++-++=-+...+..++ ...|..+ .+|.+. ....-.+.|...++.+
T Consensus 39 ~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~~~--~~~~~~~~~~~~~~-vrn~r~~~~~~~~~~~ 104 (438)
T PRK08576 39 FEEVEDNLEEALEDDYFPILLLGREEKDLAEELIKE--LPPNSYVRVVPRKR-VRNMRVEELYWNLEEA 104 (438)
T ss_pred HHHHHHHHHhhcccCCceEEEecccchHHHHHHHhh--cCCCeEEEEccchh-hhhccHHHHHHHHHHH
Confidence 489999999999888999999998766555554443 3456555 555544 3333345566666543
No 187
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=20.52 E-value=3.8e+02 Score=20.20 Aligned_cols=45 Identities=7% Similarity=0.074 Sum_probs=24.4
Q ss_pred cHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEEE
Q 037034 51 TVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAIL 96 (130)
Q Consensus 51 ~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~Iv 96 (130)
+++...+.++.+..+.==|||++.....+.+.+.+++. ...|+|+
T Consensus 41 ~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~-~~ipvv~ 85 (260)
T cd06304 41 EDADYEPNLRQLAAQGYDLIFGVGFGFMDAVEKVAKEY-PDVKFAI 85 (260)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECCcchhHHHHHHHHHC-CCCEEEE
Confidence 34566678888775442367676544344444444431 1357555
No 188
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=20.44 E-value=2.8e+02 Score=22.91 Aligned_cols=53 Identities=13% Similarity=0.192 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHhcCCC-eeEEEEehH------HHHHHHHHHHhhCCCCcEEEEcCCCCCC
Q 037034 52 VKAIEDAFKEFTTKED-IAIVLISQY------VANMIRFLVDSYNKPIPAILEIPSKDHP 104 (130)
Q Consensus 52 ~ee~~~~~~~l~~~~d-igII~Ite~------~a~~i~~~I~~~~~~~P~Iv~IPs~~g~ 104 (130)
.++..+.|+++..+++ =||++.=+. .++.|.+.|.+++...|+++.+|+.--+
T Consensus 82 ~~~~~~~l~~~~~~~~vk~vvL~inSPGG~v~as~~i~~~l~~l~~~~PV~v~v~~~AAS 141 (317)
T COG0616 82 GDDIEEILRAARADPSVKAVVLRINSPGGSVVASELIARALKRLRAKKPVVVSVGGYAAS 141 (317)
T ss_pred HHHHHHHHHHHhcCCCCceEEEEEECcCCchhHHHHHHHHHHHHhhcCCEEEEECCeecc
Confidence 3788888888887664 344444322 5678888888886434999999986643
No 189
>TIGR02483 PFK_mixed phosphofructokinase. Members of this family that are characterized, save one, are phosphofructokinases dependent on pyrophosphate (EC 2.7.1.90) rather than ATP (EC 2.7.1.11). The exception is one of three phosphofructokinases from Streptomyces coelicolor. Family members are both bacterial and archaeal.
Probab=20.35 E-value=3.4e+02 Score=22.65 Aligned_cols=35 Identities=17% Similarity=0.295 Sum_probs=25.5
Q ss_pred EEecCCCcHHHHHHHHHHHhcC-CCeeEEEEehHHH
Q 037034 44 LIVDSKTTVKAIEDAFKEFTTK-EDIAIVLISQYVA 78 (130)
Q Consensus 44 ~v~~~~t~~ee~~~~~~~l~~~-~digII~Ite~~a 78 (130)
++-+...+.+++.+.+++.+++ +.++||+++|.+.
T Consensus 191 liPE~~~~~~~l~~~v~~~~~~g~~~~vvvvsEG~~ 226 (324)
T TIGR02483 191 LIPEIPFDIDSVCEKVRERFARGKRFAIVVVAEGAK 226 (324)
T ss_pred EecCCCCCHHHHHHHHHHHHHhCCCceEEEEecCcc
Confidence 3434445567787778777766 8899999999874
No 190
>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=20.18 E-value=3.2e+02 Score=23.18 Aligned_cols=66 Identities=8% Similarity=-0.065 Sum_probs=0.0
Q ss_pred CCcEEEEEcchhhHHHHH-----HhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHH
Q 037034 11 SSALIAMIADEDTVTGFL-----LAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIAIVLISQYVANMIRFLV 85 (130)
Q Consensus 11 ~~~kIaVIGD~dtv~GFr-----LaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I 85 (130)
..+++++.||.+.+.++. | |++-+ .+..+..+.++.++.++.+.. +..++.+.-...+.+.+
T Consensus 273 ~Gkrv~i~gd~~~~~~l~~~L~el-Gm~~v--------~~~t~~~~~~~~~~~~~~l~~----~~~v~~~~d~~~l~~~i 339 (407)
T TIGR01279 273 RGKKIFFFGDNLLELPLARFLKRC-GMEVV--------ECGTPYIHRRFHAAELALLEG----GVRIVEQPDFHRQLQRI 339 (407)
T ss_pred CCCEEEEECCchHHHHHHHHHHHC-CCEEE--------EecCCCCChHHHHHHHhhcCC----CCeEEeCCCHHHHHHHH
Q ss_pred HhhC
Q 037034 86 DSYN 89 (130)
Q Consensus 86 ~~~~ 89 (130)
.+++
T Consensus 340 ~~~~ 343 (407)
T TIGR01279 340 RATR 343 (407)
T ss_pred HhcC
No 191
>TIGR01487 SPP-like sucrose-phosphate phosphatase-like hydrolase, Archaeal. TIGR01482, in turn, is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases.
Probab=20.12 E-value=2.2e+02 Score=21.19 Aligned_cols=42 Identities=17% Similarity=0.238 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhcCCCeeEEEEehHHHHHHHHHHHhhCCCCcEE
Q 037034 53 KAIEDAFKEFTTKEDIAIVLISQYVANMIRFLVDSYNKPIPAI 95 (130)
Q Consensus 53 ee~~~~~~~l~~~~digII~Ite~~a~~i~~~I~~~~~~~P~I 95 (130)
++..++++++. +.++-+++.|-+-...++...+.+.-..|.|
T Consensus 21 ~~~~~~i~~l~-~~g~~~~~~TGR~~~~~~~~~~~l~~~~~~i 62 (215)
T TIGR01487 21 ERAIEAIRKAE-KKGIPVSLVTGNTVPFARALAVLIGTSGPVV 62 (215)
T ss_pred HHHHHHHHHHH-HCCCEEEEEcCCcchhHHHHHHHhCCCCcEE
Confidence 66788899885 6789999999998888888777765444654
No 192
>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=20.12 E-value=4.6e+02 Score=20.93 Aligned_cols=58 Identities=17% Similarity=0.266 Sum_probs=37.4
Q ss_pred cchhhHHHHHHhcccccccCCcceEEEecCCCcHHHHHHHHHHHhcCCCee-EEEEehHH-HHHHHHHHHh
Q 037034 19 ADEDTVTGFLLAGVGNVDLRRKTNYLIVDSKTTVKAIEDAFKEFTTKEDIA-IVLISQYV-ANMIRFLVDS 87 (130)
Q Consensus 19 GD~dtv~GFrLaGi~~~~~~~~~n~~v~~~~t~~ee~~~~~~~l~~~~dig-II~Ite~~-a~~i~~~I~~ 87 (130)
|-++.+--+.-+|++++ .+++. +.++..+.++.+ +..++. +++++... .++++...+.
T Consensus 103 G~e~f~~~~~~aGvdgv--------iipDl--p~ee~~~~~~~~-~~~gl~~i~lv~P~T~~eri~~i~~~ 162 (256)
T TIGR00262 103 GVEEFYAKCKEVGVDGV--------LVADL--PLEESGDLVEAA-KKHGVKPIFLVAPNADDERLKQIAEK 162 (256)
T ss_pred hHHHHHHHHHHcCCCEE--------EECCC--ChHHHHHHHHHH-HHCCCcEEEEECCCCCHHHHHHHHHh
Confidence 34567888889999975 45443 457777766654 455655 44666665 4566666664
Done!